Citrus Sinensis ID: 011861

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470------
Protein Sequence
MYCTIFSQMSAEATSSGFPLVGIDDVDDYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAERKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTREV
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccHHHHHHcccccccccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHcccccccccccccccccccccHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccccccHHHHHHHHHHHHHHccccccccccccccccccHHHHHHHHcccccccccccccHHHHHHHccccccccccccccccccccccccHHHHHHHHHHcccHHHHHHccccccccccccccccccccccccccccccccccHHHHHHHHHHHHcccEEEEEEEccccccEEEEEEEEEEEEEEEcccccEEEEEcccccEEEEEEEEccccEEEEEEEEccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccHHHHHHHHcccccHHHHHHHccccccccc
Secondary Structure Prediction (SSPRO)
ccEEEEEcccccccccccccHHHHccccccccccccccccccHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHcccccccEEEcccHHHHHHHHHHHHHcccHHcccccccccccccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHccHHccccccccccccccccHHHHHHHHccccccccccHHHHHHHHHHccccccccccccccccccccccccHHHHHHHHHHcHHHHHHHHHHHHHHHHHccccccEEEEEEcccccccccEEcccHHEHHHHEHccccccEEEEEccccccccccccEEEEEEEEEEcccccEEEEEccccEEEEEEccccccccEEEEEEEEccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHccccccccccHHHHHHHHHcccccHHHHHHHccccHccc
Coil and Loop (DISEMBL)
myctifsqmsaeatssgfplvgiddvddyiwanegegslpwdrytHVFDLVQKGNRAFRESNFEEAISNYsrannikpgdpivlgnrssaYIRISQFlkhrppsaseyrplngldpttHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSglqvdpfsnplqASLQNLERTTASLIgrrihgtpertddfdCTLCLKllyepittpcghsfcrsclfqsmdrgnkcplcravlfitprtcAVSVTLNSIIQKNFPEEYAERKSEHDslinfgvdlmplfvmdvvipcqrfplhifepRYRLMVRRIMEgnhrmgmviidpttgsvadfaceveiteceplpdgrfvlEIESRRRFRILRSwdqdgyrvaeiewvqdihpegvedradlQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVevmmppsqdperFSFWLAtlsdrrpserLELLRIRDTREV
Flexible Loop (DISEMBL)
MYCTIFSQMSAEATSSGFPLVGIDDVDDYIWANEgegslpwdryTHVFDLVQKGNRAFRESNFEEAISNysrannikpgdpiVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLigrrihgtpertddFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAERKSEHDSLINFGVDLMPLFVMDVVIPCQRfplhifeprYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEIteceplpdgrfvleIESRRRFRilrswdqdgyrVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLrrekesarqdrrRLEKllnvevmmppsqdperFSFWLatlsdrrpserlellrirdtrev
Low Complexity Region (SEG)
MYCTIFSQMSAEATSSGFPLVGIDDVDDYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHaelalkdaekllnlQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAERKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTREV
Disordered region (IsUnstruct)
***TIF*********SGFPLVGIDDVDDYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYS**NNIKPGDPIVLGNRSSAYIRISQFL*****************************************SHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAE***EHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLR*******************************FSFWLAT*********************
Disordered Region (DISOPRED)
*YCTI******************DDVDDY********************LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKH**********************ALKDAEKLLNL*SNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNF****************FGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDI****************NAAEYARLWLRREKESARQD****************SQDPERFSFWLATLSDRRPSERLELLRIRDT***
Disordered Region (DISEMBL)
MYCTIFSQMSAEATSSGFPLVGIDDVDDYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAERKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTREV
Disordered Region (DISPRO)
MYCTIFSQMS****SSGFPLVGIDDVDDYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA************RTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAERKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIR*****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MYCTIFSQMSAEATSSGFPLVGIDDVDDYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAERKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWxxxxxxxxxxxxxxxxxxxxxEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTREV
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	476	2.2.26 [Sep-21-2011]
Q8HXH0	718	LON peptidase N-terminal	N/A	no	0.777	0.515	0.310	2e-44
Q9D4H7	753	LON peptidase N-terminal	yes	no	0.466	0.294	0.400	2e-42
Q17RB8	773	LON peptidase N-terminal	no	no	0.577	0.355	0.335	3e-42
Q496Y0	759	LON peptidase N-terminal	no	no	0.466	0.292	0.400	9e-42
Q1L5Z9	754	LON peptidase N-terminal	no	no	0.495	0.312	0.367	1e-38
O60106	486	LON peptidase N-terminal	yes	no	0.344	0.337	0.279	2e-15
Q03605	160	Uncharacterized RING fing	yes	no	0.159	0.475	0.389	3e-08
Q8IYW5	571	E3 ubiquitin-protein liga	no	no	0.165	0.138	0.341	5e-08
Q8NHY2	731	E3 ubiquitin-protein liga	no	no	0.128	0.083	0.377	6e-08
Q9D9R0	233	E3 ubiquitin-protein liga	no	no	0.092	0.188	0.543	1e-07

>sp|Q8HXH0|LONF3_MACFA LON peptidase N-terminal domain and RING finger protein 3 OS=Macaca fascicularis GN=LONRF3 PE=2 SV=1

 Score =  180 bits (456), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 127/409 (31%), Positives = 195/409 (47%), Gaps = 39/409 (9%)

Query: 50  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLK--HRPPSASE 107
           L  +GNR +RE   E A+  Y+ A  + P D ++  NRS  Y  +       H    A +
Sbjct: 246 LRHEGNRLYRERQVEAALLKYNEAVKLAPNDHLLYSNRSQIYFTLESHENALHDAEIACK 305

Query: 108 YRPLNGLDP------TTHAELALK-DAEKLLN---LQSNSMKSHLLKANALILLERYDMA 157
            RP+   D       ++  E A + D   L++   ++ +  + H+         E++D  
Sbjct: 306 LRPMGFKDNLELPHCSSQEEAAARGDGSSLMDPAKVKGDGQQHHMKDQEEEE--EKWDAT 363

Query: 158 RDAILSG------------LQVDPFSN---PLQASLQNLERTTASLIGRRIHGTPERTDD 202
                S              Q++   +   P +AS Q+            +        D
Sbjct: 364 SPKAASSKTGKCQEKKRKHCQIESQEDTGMPNKASKQDPPTDQGDKPALSLPLASFDASD 423

Query: 203 FDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL--FITPRTCAVSVTLN 260
            +C LC++L YEP+TTPCGH+FC  CL + +D   KCPLC+  L   +  R  + +V + 
Sbjct: 424 LECALCMRLFYEPVTTPCGHTFCLKCLERCLDHNAKCPLCKDGLSQCLASRKYSKNVIME 483

Query: 261 SIIQKNFPEEYAERKS----EHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMV 316
            +I K  PEE  ER+     E + L N   ++ P+FV  +  P    PLHIFEP YRLM+
Sbjct: 484 ELIAKFLPEELKERRKLYEEEMEELSNLNKNV-PIFVCTMAYPTVPCPLHIFEPCYRLMI 542

Query: 317 RRIME-GNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWD 375
           RR +E G  + GM + DP  G  A++ C +EI   +   DGR V++   +RRFR+L    
Sbjct: 543 RRCIETGTRQFGMCLGDPVKG-FAEYGCILEIRNVQFFADGRSVVDSIGKRRFRVLHQSQ 601

Query: 376 QDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESAR 424
           +DGY  A+IE+++D   +G ED A+L  L N   + A LW    K S +
Sbjct: 602 RDGYNTADIEYIEDQKVQG-EDCAELMGLHNCVYQQASLWFHSLKSSLK 649

Macaca fascicularis (taxid: 9541)

>sp|Q9D4H7|LONF3_MOUSE LON peptidase N-terminal domain and RING finger protein 3 OS=Mus musculus GN=Lonrf3 PE=2 SV=1

 Score =  173 bits (439), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 93/232 (40%), Positives = 134/232 (57%), Gaps = 10/232 (4%)

Query: 200 TDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF--ITPRTCAVSV 257
             D +C+LC++L YEP+TTPCGH+FC  CL + +D   KCPLC+ VL   +  R  + +V
Sbjct: 456 ASDLECSLCMRLFYEPVTTPCGHTFCLKCLERCLDHNAKCPLCKDVLLQCLPSRKYSKNV 515

Query: 258 TLNSIIQKNFPEEYAERK----SEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYR 313
            L  +I    PEE+ ERK     E + L N   + +P+FV  +  P    PLHIFEP YR
Sbjct: 516 ILEELIATFLPEEFKERKRLYEEEMEELSNLNKN-VPIFVCTMAYPTVPCPLHIFEPCYR 574

Query: 314 LMVRRIME-GNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILR 372
           LM+RR +E G  + GM + DP  G V ++ C +EI   +   DGR V++   +RRF++L 
Sbjct: 575 LMIRRCIETGTRQFGMCLGDPVKGFV-EYGCILEIRNVQFFSDGRSVVDSIGKRRFKVLH 633

Query: 373 SWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESAR 424
              +DGY  A+IE+++D   +G +D A+L  L N   E A  W    K S +
Sbjct: 634 QGQRDGYNTADIEYIEDQKVQG-DDCAELMGLHNCVYEQASSWFHSLKASLK 684

Mus musculus (taxid: 10090)

>sp|Q17RB8|LONF1_HUMAN LON peptidase N-terminal domain and RING finger protein 1 OS=Homo sapiens GN=LONRF1 PE=2 SV=2

 Score =  173 bits (438), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 95/283 (33%), Positives = 159/283 (56%), Gaps = 8/283 (2%)

Query: 200 TDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL--FITPRTCAVSV 257
             DF+C+LC++L +EP+TTPCGHSFC++CL + +D    CPLC+  L  ++  R   V+ 
Sbjct: 474 VSDFECSLCMRLFFEPVTTPCGHSFCKNCLERCLDHAPYCPLCKESLKEYLADRRYCVTQ 533

Query: 258 TLNSIIQKNFPEEYAERKSEHD---SLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRL 314
            L  +I K  P+E +ERK  +D   + ++     +P+FV  +  P    PLH+FEPRYRL
Sbjct: 534 LLEELIVKYLPDELSERKKIYDEETAELSHLTKNVPIFVCTMAYPTVPCPLHVFEPRYRL 593

Query: 315 MVRR-IMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRS 373
           M+RR I  G  + GM + D T  S AD+ C ++I     LPDGR V++    +RFR+L+ 
Sbjct: 594 MIRRSIQTGTKQFGMCVSD-TQNSFADYGCMLQIRNVHFLPDGRSVVDTVGGKRFRVLKR 652

Query: 374 WDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESAR-QDRRRLEK 432
             +DGY  A+IE+++D+  E  ++  +L++L +     A  W +  ++  R Q  +    
Sbjct: 653 GMKDGYCTADIEYLEDVKVENEDEIKNLRELHDLVYSQACSWFQNLRDRFRSQILQHFGS 712

Query: 433 LLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRE 475
           +   E  +  + +   + +WL  +    P  +L +L ++  +E
Sbjct: 713 MPEREENLQAAPNGPAWCWWLLAVLPVDPRYQLSVLSMKSLKE 755

Homo sapiens (taxid: 9606)

>sp|Q496Y0|LONF3_HUMAN LON peptidase N-terminal domain and RING finger protein 3 OS=Homo sapiens GN=LONRF3 PE=1 SV=1

 Score =  171 bits (434), Expect = 9e-42,   Method: Compositional matrix adjust.
 Identities = 93/232 (40%), Positives = 133/232 (57%), Gaps = 10/232 (4%)

Query: 200 TDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL--FITPRTCAVSV 257
             D +C LC++L YEP+TTPCGH+FC  CL + +D   KCPLC+  L   +  R  + +V
Sbjct: 462 ASDLECALCMRLFYEPVTTPCGHTFCLKCLERCLDHNAKCPLCKDGLSQCLASRKYSKNV 521

Query: 258 TLNSIIQKNFPEEYAERKS----EHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYR 313
            +  +I K  PEE  ER+     E + L N   ++ P+FV  +  P    PLHIFEP YR
Sbjct: 522 IMEELIAKFLPEELKERRKLYEEEMEELSNLNKNV-PIFVCTMAYPTVPCPLHIFEPCYR 580

Query: 314 LMVRRIME-GNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILR 372
           LM+RR +E G  + GM + DP  G  A++ C +EI   +   DGR V++   +RRFR+L 
Sbjct: 581 LMIRRCIETGTRQFGMCLGDPVKG-FAEYGCILEIRNVQFFADGRSVVDSIGKRRFRVLH 639

Query: 373 SWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESAR 424
              +DGY  A+IE+++D   +G ED A+L  L N   + A LW    K S +
Sbjct: 640 QSQRDGYNTADIEYIEDQKVQG-EDCAELMGLHNCVYQQASLWFHSLKLSLK 690

Homo sapiens (taxid: 9606)

>sp|Q1L5Z9|LONF2_HUMAN LON peptidase N-terminal domain and RING finger protein 2 OS=Homo sapiens GN=LONRF2 PE=2 SV=3

 Score =  161 bits (407), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 93/253 (36%), Positives = 143/253 (56%), Gaps = 17/253 (6%)

Query: 202 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL--FITPRTCAVSVTL 259
           DF+C LC++LL+EP+TTPCGH+FC  CL + +D    CPLC+  L   +  R   ++V  
Sbjct: 446 DFECALCMRLLFEPVTTPCGHTFCLKCLERCLDHAPHCPLCKDKLSELLASRNFNITVLA 505

Query: 260 NSIIQKNFPEEYAERKSEHDS----LINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLM 315
             +I +  P+E ++RK  +D     L N   D+ P+FV  +  P    PLH+FEPRYRLM
Sbjct: 506 EELIFRYLPDELSDRKRIYDEEMSELSNLTRDV-PIFVCAMAFPTVPCPLHVFEPRYRLM 564

Query: 316 VRRIME-GNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSW 374
           +RR ME G  R GM +     G ++++ C +EI +    PDG  V++     RFR+L   
Sbjct: 565 IRRCMETGTKRFGMCLSAEHAG-LSEYGCMLEIKDVRTFPDGSSVVDAIGISRFRVLSHR 623

Query: 375 DQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLL 434
            +DGY  A+IE+++D   EG E   +L  L ++  + +  W      ++ QDR + + L 
Sbjct: 624 HRDGYNTADIEYLEDEKVEGPE-YEELAALHDSVHQQSVSWF-----ASLQDRMKEQILS 677

Query: 435 NVEVMMPPSQDPE 447
           +  VM  P ++PE
Sbjct: 678 HFGVM--PDREPE 688

Homo sapiens (taxid: 9606)

>sp|O60106|YOXA_SCHPO LON peptidase N-terminal domain and RING finger protein C14F5.10c OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPBC14F5.10c PE=4 SV=1

 Score = 84.3 bits (207), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 54/193 (27%), Positives = 96/193 (49%), Gaps = 29/193 (15%)

Query: 202 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTC----AVSV 257
           + +C +C  +LY+P+ +PCGH+FC  CL Q++ +  +CP CR   F  P       A S 
Sbjct: 166 ELECQICFGMLYDPVVSPCGHTFCGPCLMQALTQSPQCPTCR---FGLPSPVVLEHAKSH 222

Query: 258 TLNSIIQKNFPEEYAERKSEHDSLINFGVDLMPLFVMDVVIPCQRFP--LHIFEPRYRLM 315
           ++ + ++  +P+ + ER+   +         +PLF+  +  P  R P  LHIFE RY +M
Sbjct: 223 SITTFLRDFYPDNWLERQKSWEEEKE-QESWLPLFISMLAYP--RMPTFLHIFELRYHIM 279

Query: 316 VRRIMEGNHR--MGMVIIDPTTGS---------------VADFACEVEITECEPLPDGRF 358
           +++ +E + R  + M +   + G                 +++   +EI + EPL DGR 
Sbjct: 280 IKKCLETSKRFCIAMPLRARSDGHNEHRELRNARGQRLFCSEYGTILEIIQVEPLIDGRS 339

Query: 359 VLEIESRRRFRIL 371
           ++E       RI+
Sbjct: 340 LVEARGSYCVRII 352

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|Q03605|YNN1_CAEEL Uncharacterized RING finger protein T02C1.1 OS=Caenorhabditis elegans GN=T02C1.1 PE=4 SV=1

 Score = 60.5 bits (145), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 30/77 (38%), Positives = 42/77 (54%), Gaps = 1/77 (1%)

Query: 199 RTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAV-SV 257
           R +DF C +CL    EP    CGHS+CR C+   ++   KCPLCRA      R   + S+
Sbjct: 2   RDEDFCCAVCLDFFVEPCIIECGHSYCRFCIESHLNINEKCPLCRAHTGNPIRNRQLESL 61

Query: 258 TLNSIIQKNFPEEYAER 274
           T++ +  +N   EY ER
Sbjct: 62  TMSYVSSRNISTEYYER 78

Caenorhabditis elegans (taxid: 6239)

>sp|Q8IYW5|RN168_HUMAN E3 ubiquitin-protein ligase RNF168 OS=Homo sapiens GN=RNF168 PE=1 SV=1

 Score = 59.7 bits (143), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 29/85 (34%), Positives = 49/85 (57%), Gaps = 6/85 (7%)

Query: 202 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGN-KCPLCRAVL-----FITPRTCAV 255
           +  C +C+++L EP+T PC H+ C+ C   ++++ +  CP CR  +     + T R   V
Sbjct: 13  ECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRRNSLV 72

Query: 256 SVTLNSIIQKNFPEEYAERKSEHDS 280
           +V L +IIQK++P E   R S  +S
Sbjct: 73  NVELWTIIQKHYPRECKLRASGQES 97

E3 ubiquitin-protein ligase required for accumulation of repair proteins to sites of DNA damage. Acts with UBE2N/UBC13 to amplify the RNF8-dependent histone ubiquitination. Recruited to sites of DNA damage at double-strand breaks (DSBs) by binding to ubiquitinated histone H2A and ubiquitinates histone H2A and H2AX, leading to amplify the RNF8-dependent H2A ubiquitination and promoting the formation of 'Lys-63'-linked ubiquitin conjugates. This leads to concentrate ubiquitinated histones H2A and H2AX at DNA lesions to the threshold required for recruitment of TP53BP1 and BRCA1.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q8NHY2|RFWD2_HUMAN E3 ubiquitin-protein ligase RFWD2 OS=Homo sapiens GN=RFWD2 PE=1 SV=1

 Score = 59.3 bits (142), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 23/61 (37%), Positives = 36/61 (59%)

Query: 186 ASLIGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAV 245
           A L    I+   ++++DF C +C  ++ E   T CGHSFC  C+ QS++  N+CP C  V
Sbjct: 117 APLCNGLINSYEDKSNDFVCPICFDMIEEAYMTKCGHSFCYKCIHQSLEDNNRCPKCNYV 176

Query: 246 L 246
           +
Sbjct: 177 V 177

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. Involved in JUN ubiquitination and degradation. Directly involved in p53 (TP53) ubiquitination and degradation, thereby abolishing p53-dependent transcription and apoptosis. Ubiquitinates p53 independently of MDM2 or RCHY1. Probably mediates E3 ubiquitin ligase activity by functioning as the essential RING domain subunit of larger E3 complexes. In contrast, it does not constitute the catalytic RING subunit in the DCX DET1-COP1 complex that negatively regulates JUN, the ubiquitin ligase activity being mediated by RBX1.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9D9R0|RN125_MOUSE E3 ubiquitin-protein ligase RNF125 OS=Mus musculus GN=Rnf125 PE=2 SV=3

 Score = 58.5 bits (140), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 25/46 (54%), Positives = 34/46 (73%), Gaps = 2/46 (4%)

Query: 203 FDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNK--CPLCRAVL 246
           FDC++CL++L++P+ T CGH FCRSC+  S+   NK  CP CRA L
Sbjct: 35  FDCSVCLEVLHQPVRTRCGHVFCRSCIATSIKNNNKWTCPYCRAYL 80

E3 ubiquitin-protein ligase that acts as a positive regulator of T-cell activation. E3 ligase proteins mediate ubiquitination and subsequent proteasomal degradation of target proteins.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

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	476
449440816	487	PREDICTED: LON peptidase N-terminal doma	0.981	0.958	0.754	0.0
359491313	1383	PREDICTED: probable receptor-like protei	0.972	0.334	0.704	0.0
356508525	486	PREDICTED: LON peptidase N-terminal doma	0.943	0.923	0.747	0.0
224119058	444	predicted protein [Populus trichocarpa]	0.863	0.925	0.786	0.0
297733938	486	unnamed protein product [Vitis vinifera]	0.978	0.958	0.702	0.0
297844822	476	zinc finger family protein [Arabidopsis	0.978	0.978	0.700	0.0
42571537	491	zinc finger (C3HC4-type RING finger) fam	0.981	0.951	0.692	0.0
255547323	1646	kinase, putative [Ricinus communis] gi|2	0.903	0.261	0.720	0.0
18394639	486	zinc finger (C3HC4-type RING finger) fam	0.978	0.958	0.692	0.0
21554128	486	unknown [Arabidopsis thaliana]	0.978	0.958	0.690	0.0

>gi|449440816|ref|XP_004138180.1| PREDICTED: LON peptidase N-terminal domain and RING finger protein 2-like [Cucumis sativus] gi|449477199|ref|XP_004154958.1| PREDICTED: LON peptidase N-terminal domain and RING finger protein 2-like [Cucumis sativus]

 Score =  736 bits (1900), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 353/468 (75%), Positives = 411/468 (87%), Gaps = 1/468 (0%)

Query: 9   MSAEATSSGFPLVGIDDVDDYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAIS 68
           M+    S    +  + D+DDYIWANEGEGSLPWD +  VF+ VQ GN+AF+ ++FEEAI 
Sbjct: 1   MAMSEPSPSLSMDSLGDIDDYIWANEGEGSLPWDMFRDVFEFVQNGNQAFKNNHFEEAIK 60

Query: 69  NYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE 128
            YSRANNIKPGDP++L NRS+AYIRISQFLK RPP+ASEYRPLNGLDPT HAELALKDAE
Sbjct: 61  YYSRANNIKPGDPVILNNRSAAYIRISQFLKDRPPAASEYRPLNGLDPTVHAELALKDAE 120

Query: 129 KLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL 188
           KL++L+  S+K ++LKANAL+LLE+Y +A+D ILSGLQ+DP SNPLQASLQ LER  A++
Sbjct: 121 KLMDLRGKSVKPYILKANALMLLEKYAIAKDIILSGLQIDPLSNPLQASLQRLERIAATM 180

Query: 189 IGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFI 248
           +G   HG P+R+DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCR VLFI
Sbjct: 181 MGNGRHGLPDRSDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRTVLFI 240

Query: 249 TPRTCAVSVTLNSIIQKNFPEEYAERKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIF 308
           + RTC++SVTL++IIQKNFPEEYAERKSE++ L NFGVDLMPLFVMDVVIPCQ+FPLHIF
Sbjct: 241 SSRTCSISVTLSNIIQKNFPEEYAERKSENEGLTNFGVDLMPLFVMDVVIPCQKFPLHIF 300

Query: 309 EPRYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRF 368
           EPRYRLMVRR+MEGNHRMGMVI+D TTGS+ADFACEVEITECEPL DGRF LEIESRRRF
Sbjct: 301 EPRYRLMVRRVMEGNHRMGMVIVDSTTGSIADFACEVEITECEPLADGRFYLEIESRRRF 360

Query: 369 RILRSWDQDGYRVAEIEWVQDIH-PEGVEDRADLQDLTNNAAEYARLWLRREKESARQDR 427
           RI+RSWDQDGYRVAEIEWV DI  PEG  +R +LQ++T NAAEYA+ W+RR KE++R+D+
Sbjct: 361 RIIRSWDQDGYRVAEIEWVNDITPPEGTIERTELQEMTTNAAEYAQSWIRRAKEASRRDQ 420

Query: 428 RRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRE 475
            + ++LLNVE MMP S+DPERFSFWLATLS+RRP ERLELLR+ DTRE
Sbjct: 421 IKRDRLLNVEAMMPSSRDPERFSFWLATLSNRRPLERLELLRMTDTRE 468

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359491313|ref|XP_002284678.2| PREDICTED: probable receptor-like protein kinase At5g61350 [Vitis vinifera]

 Score =  694 bits (1790), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 329/467 (70%), Positives = 388/467 (83%), Gaps = 4/467 (0%)

Query: 9   MSAEATSSGFPLVGIDDVDDYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAIS 68
           MSA A+SSG P    +DV+D+ W NEGEG    DRY  + DLV+KGNRAFRE+  EEAI+
Sbjct: 1   MSAGASSSGLPSDDFNDVEDFNWVNEGEGLSKRDRYPELLDLVKKGNRAFRENRMEEAIN 60

Query: 69  NYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE 128
            Y++A+NI+P D ++L NR +AYIRIS FLK R P+ SEYRPLNGLDPT HAELALKDA 
Sbjct: 61  CYTKASNIQPNDAVILSNRCAAYIRISDFLKQRTPTDSEYRPLNGLDPTIHAELALKDAT 120

Query: 129 KLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL 188
           +L++L+SNS+K ++ KANALILLE+YD+AR+AILSGLQVDP SN LQ SLQ LE+ TASL
Sbjct: 121 RLVDLRSNSVKPYIFKANALILLEKYDLAREAILSGLQVDPLSNALQVSLQKLEKATASL 180

Query: 189 IGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFI 248
              R  G PER+DDFDCTLCLKLL+EP+TT CGHSFCRSCLFQ+MD  NKCPLCR VLFI
Sbjct: 181 -NHRGRGKPERSDDFDCTLCLKLLFEPVTTACGHSFCRSCLFQAMDCSNKCPLCRMVLFI 239

Query: 249 TPRTCAVSVTLNSIIQKNFPEEYAERKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIF 308
            P+TC++SVTLN+IIQ+NFPEEYAERKSEH+SL NFG DL+PLFVMDVV+PCQ+  L+IF
Sbjct: 240 NPKTCSISVTLNNIIQRNFPEEYAERKSEHESLTNFGFDLLPLFVMDVVLPCQKVLLNIF 299

Query: 309 EPRYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRF 368
           EPRYRLMVRRIMEGNHRMGMVIID TTG  A+F CEVEITEC+PLPDGRF LE+E RRRF
Sbjct: 300 EPRYRLMVRRIMEGNHRMGMVIIDSTTGVPAEFGCEVEITECDPLPDGRFYLEVEGRRRF 359

Query: 369 RILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRR 428
           RI+  WDQDGYRVA +EWVQDI P    DR   Q++++NAA+YARLW++R KE+A QDRR
Sbjct: 360 RIINCWDQDGYRVAAVEWVQDILP---PDRTKEQEMSSNAAKYARLWIKRAKEAAWQDRR 416

Query: 429 RLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRE 475
           RL +L + E MMP  QDPE FSFWLA LS+RRP ERL+LL IRDT+E
Sbjct: 417 RLAELCHAEAMMPTPQDPELFSFWLAGLSNRRPPERLDLLYIRDTKE 463

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356508525|ref|XP_003523006.1| PREDICTED: LON peptidase N-terminal domain and RING finger protein 1-like [Glycine max]

 Score =  693 bits (1789), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 338/452 (74%), Positives = 385/452 (85%), Gaps = 3/452 (0%)

Query: 25  DVDDYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVL 84
           DVDDY+  N  EG L  D   +V++LV+ GN AFRE+  EEAI+ YSRANNIK GDPI+L
Sbjct: 18  DVDDYVLENGSEG-LSRDTLHYVYELVKNGNVAFRENRMEEAINFYSRANNIKSGDPIIL 76

Query: 85  GNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLK 144
            NRS+AYIRISQ+  HR PS+SE RPL+GL+PTT AEL LKDAEKL+ LQSNS KS+LLK
Sbjct: 77  SNRSAAYIRISQYFMHRTPSSSERRPLSGLEPTTLAELGLKDAEKLVELQSNSAKSYLLK 136

Query: 145 ANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFD 204
           ANA +LLE+Y+ ARD ILSGLQVDPFSN L+ASLQNLE  ++S  G   HG PER DDFD
Sbjct: 137 ANAFLLLEKYEKARDVILSGLQVDPFSNSLRASLQNLESVSSSSRGMSTHGHPERNDDFD 196

Query: 205 CTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQ 264
           CTLCLKLLYEP+TTPCGHSFC SCLFQSMDRGNKCPLCR VLFI+PRTC++SVTL +IIQ
Sbjct: 197 CTLCLKLLYEPVTTPCGHSFCCSCLFQSMDRGNKCPLCRTVLFISPRTCSISVTLKNIIQ 256

Query: 265 KNFPEEYAERKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNH 324
           KNFPEEYAERK EHDSLI  GVDL+PLFVMDVVIPCQRFPL+IFEPRYRLMVRRIMEGNH
Sbjct: 257 KNFPEEYAERKQEHDSLIKAGVDLLPLFVMDVVIPCQRFPLNIFEPRYRLMVRRIMEGNH 316

Query: 325 RMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEI 384
           RMGM I+D +TGS+A+FACEVEITECEPLPDGRF +EIESRRRFRI+ SWDQDGYRVAE+
Sbjct: 317 RMGMAILD-STGSLAEFACEVEITECEPLPDGRFYIEIESRRRFRIIHSWDQDGYRVAEV 375

Query: 385 EWVQDIH-PEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVMMPPS 443
           EW+QDI  PEG  +R  LQ  T NA E AR W+ R KE+AR D+R+LE+L +VEVMMP  
Sbjct: 376 EWIQDIMPPEGTSERDTLQQQTYNAVEDARSWIARAKEAARHDQRKLERLASVEVMMPSP 435

Query: 444 QDPERFSFWLATLSDRRPSERLELLRIRDTRE 475
           +DPERFSFWLATLS+RRP+ERL+LLRIRDT E
Sbjct: 436 KDPERFSFWLATLSNRRPAERLDLLRIRDTAE 467

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224119058|ref|XP_002317975.1| predicted protein [Populus trichocarpa] gi|222858648|gb|EEE96195.1| predicted protein [Populus trichocarpa]

 Score =  692 bits (1786), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 324/412 (78%), Positives = 369/412 (89%), Gaps = 1/412 (0%)

Query: 62  NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE 121
           +  +AI+ YSRANNIKPGDPI+LGNRS+AY R+S  LK RP S SE  PLNGLDPT HAE
Sbjct: 13  SLAQAINYYSRANNIKPGDPIILGNRSAAYSRVSHLLKQRPASTSEDTPLNGLDPTIHAE 72

Query: 122 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL 181
           LALKDAEK++NL++NS+  ++LKANALILLE+Y++A+D +LSGLQVDPFSNPL+ SL+NL
Sbjct: 73  LALKDAEKVINLRNNSVNPYILKANALILLEKYELAQDVVLSGLQVDPFSNPLRVSLRNL 132

Query: 182 ERTTASLIGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPL 241
           ER   S++ + + G PER+D+FDCTLCLKLL+EPITTPCGHSFCRSCLFQSMDRGNKCPL
Sbjct: 133 ERMLGSMMSKSL-GKPERSDEFDCTLCLKLLFEPITTPCGHSFCRSCLFQSMDRGNKCPL 191

Query: 242 CRAVLFITPRTCAVSVTLNSIIQKNFPEEYAERKSEHDSLINFGVDLMPLFVMDVVIPCQ 301
           CR VLFI+PRTC++SVTLN+IIQKNFPEEYAERKSEHD L NFGVDL+PLFVMD VIPCQ
Sbjct: 192 CRTVLFISPRTCSISVTLNNIIQKNFPEEYAERKSEHDCLTNFGVDLIPLFVMDAVIPCQ 251

Query: 302 RFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLE 361
           +FPLHIFEPRYRLMVRRIMEGNHRMGMVIID  +GS+AD ACEVEITECEPLPDGRF LE
Sbjct: 252 KFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDSASGSIADLACEVEITECEPLPDGRFYLE 311

Query: 362 IESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKE 421
           +ESRRRFRIL+SWDQDGYRVAEIEWVQD  PEG+E R ++Q+LTN+AAEYA+ WLRR KE
Sbjct: 312 VESRRRFRILQSWDQDGYRVAEIEWVQDNSPEGLEQRTEMQELTNSAAEYAQSWLRRAKE 371

Query: 422 SARQDRRRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDT 473
           +ARQDRRRLEK LNVE MMP   DPERFSFWLATL+DRRPSERLELLR RDT
Sbjct: 372 AARQDRRRLEKFLNVEAMMPMPLDPERFSFWLATLTDRRPSERLELLRTRDT 423

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297733938|emb|CBI15185.3| unnamed protein product [Vitis vinifera]

 Score =  691 bits (1783), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 329/468 (70%), Positives = 392/468 (83%), Gaps = 2/468 (0%)

Query: 9   MSAEATSSGFPLVGIDDVDDYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAIS 68
           MSA A+SSG P    +DV+D+ W NEGEG    DRY  + DLV+KGNRAFRE+  EEAI+
Sbjct: 1   MSAGASSSGLPSDDFNDVEDFNWVNEGEGLSKRDRYPELLDLVKKGNRAFRENRMEEAIN 60

Query: 69  NYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE 128
            Y++A+NI+P D ++L NR +AYIRIS FLK R P+ SEYRPLNGLDPT HAELALKDA 
Sbjct: 61  CYTKASNIQPNDAVILSNRCAAYIRISDFLKQRTPTDSEYRPLNGLDPTIHAELALKDAT 120

Query: 129 KLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL 188
           +L++L+SNS+K ++ KANALILLE+YD+AR+AILSGLQVDP SN LQ SLQ LE+ TASL
Sbjct: 121 RLVDLRSNSVKPYIFKANALILLEKYDLAREAILSGLQVDPLSNALQVSLQKLEKATASL 180

Query: 189 IGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFI 248
              R  G PER+DDFDCTLCLKLL+EP+TT CGHSFCRSCLFQ+MD  NKCPLCR VLFI
Sbjct: 181 -NHRGRGKPERSDDFDCTLCLKLLFEPVTTACGHSFCRSCLFQAMDCSNKCPLCRMVLFI 239

Query: 249 TPRTCAVSVTLNSIIQKNFPEEYAERKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIF 308
            P+TC++SVTLN+IIQ+NFPEEYAERKSEH+SL NFG DL+PLFVMDVV+PCQ+  L+IF
Sbjct: 240 NPKTCSISVTLNNIIQRNFPEEYAERKSEHESLTNFGFDLLPLFVMDVVLPCQKVLLNIF 299

Query: 309 EPRYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRF 368
           EPRYRLMVRRIMEGNHRMGMVIID TTG  A+F CEVEITEC+PLPDGRF LE+E RRRF
Sbjct: 300 EPRYRLMVRRIMEGNHRMGMVIIDSTTGVPAEFGCEVEITECDPLPDGRFYLEVEGRRRF 359

Query: 369 RILRSWDQDGYRVAEIEWVQDI-HPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDR 427
           RI+  WDQDGYRVA +EWVQDI  P+  +++ DLQ++++NAA+YARLW++R KE+A QDR
Sbjct: 360 RIINCWDQDGYRVAAVEWVQDILPPDRTKEQVDLQEMSSNAAKYARLWIKRAKEAAWQDR 419

Query: 428 RRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRE 475
           RRL +L + E MMP  QDPE FSFWLA LS+RRP ERL+LL IRDT+E
Sbjct: 420 RRLAELCHAEAMMPTPQDPELFSFWLAGLSNRRPPERLDLLYIRDTKE 467

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297844822|ref|XP_002890292.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata] gi|297336134|gb|EFH66551.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  687 bits (1774), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 328/468 (70%), Positives = 392/468 (83%), Gaps = 2/468 (0%)

Query: 9   MSAEATSSGFPLVGIDDVDDYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAIS 68
           MS E +   F L G+DDV++Y    E + SLP D +  VF LV+KGN++F+ES FEEAIS
Sbjct: 1   MSNEDSLPAFTLFGLDDVENYGLVTEADNSLPLDIHNQVFQLVEKGNQSFKESRFEEAIS 60

Query: 69  NYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE 128
           +YS+AN+IKP DPIVLGNRS+AYIR  Q+LK R  S SEY+PLNG D +   ELALKDA+
Sbjct: 61  SYSKANSIKPLDPIVLGNRSAAYIRFGQYLKQRSASISEYKPLNGFDMSMLGELALKDAD 120

Query: 129 KLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL 188
           KL+NLQS+S+KS+  KA AL+LLERY++ARD ILSGLQ+DPFS+PL+++LQ LE+   + 
Sbjct: 121 KLMNLQSSSVKSYNTKACALMLLERYEVARDTILSGLQIDPFSDPLRSNLQELEKVMPNS 180

Query: 189 IGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFI 248
           + R+ HG  ER+DDFDCT+CLKLLYEP TTPCGH+FCRSCLFQSMDRGNKCPLCR V+F+
Sbjct: 181 M-RKTHGKAERSDDFDCTVCLKLLYEPATTPCGHTFCRSCLFQSMDRGNKCPLCRTVIFM 239

Query: 249 TPRTCAVSVTLNSIIQKNFPEEYAERKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIF 308
           TPRTCAVSVTLN+IIQKNFPEEYAERKSE D+L++ G + MPLFVMDV+IPCQ+  LHIF
Sbjct: 240 TPRTCAVSVTLNNIIQKNFPEEYAERKSEQDTLVHLGNESMPLFVMDVIIPCQKLSLHIF 299

Query: 309 EPRYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRF 368
           EPRYRLMVRRIMEGNHRMGMV +D  TGS  D ACEVEITEC+PLPDGRFVLE+ES RR 
Sbjct: 300 EPRYRLMVRRIMEGNHRMGMVALDSATGSPVDVACEVEITECDPLPDGRFVLELESHRRC 359

Query: 369 RILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQ-DR 427
           RI+++WDQDGYRVAE+EWV DI P+  + +ADL+DLT +AA +AR WL R KE+ARQ DR
Sbjct: 360 RIVKAWDQDGYRVAEVEWVTDIPPQSEQGKADLRDLTTSAASFARSWLDRAKEAARQGDR 419

Query: 428 RRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRE 475
           RRLE LLNVE M+P  QDPERFSFWLATL+DRRPSERLELLR++DT E
Sbjct: 420 RRLEILLNVESMIPTPQDPERFSFWLATLTDRRPSERLELLRLQDTGE 467

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|42571537|ref|NP_973859.1| zinc finger (C3HC4-type RING finger) family protein [Arabidopsis thaliana] gi|332191619|gb|AEE29740.1| zinc finger (C3HC4-type RING finger) family protein [Arabidopsis thaliana]

 Score =  684 bits (1764), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 325/469 (69%), Positives = 393/469 (83%), Gaps = 2/469 (0%)

Query: 9   MSAEATSSGFPLVGIDDVDDYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAIS 68
           MS E +   F L G+DDV++Y    E + SLP D +  VF LV+KGN++F+ES FEEAIS
Sbjct: 1   MSNEDSLPPFTLFGLDDVENYGLVTEADNSLPLDIHNQVFQLVEKGNQSFKESRFEEAIS 60

Query: 69  NYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE 128
           +YS+AN+IKP DPIVLGNRS+AYIR  Q+LK R  S SEY+PLNG D +   ELALKDA+
Sbjct: 61  SYSKANSIKPLDPIVLGNRSAAYIRFGQYLKQRSASISEYKPLNGFDMSMLGELALKDAD 120

Query: 129 KLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL 188
           KL++LQS+ +KS++ KA AL+LLERY++ARD ILSGLQ+DPFS PL+++LQ LE+   + 
Sbjct: 121 KLMSLQSSLVKSYITKACALMLLERYEVARDTILSGLQIDPFSGPLRSNLQELEKVMPNS 180

Query: 189 IGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFI 248
           + R+ HG  ER+DDFDCT+CLKLLYEP TTPCGH+FCRSCLFQSMDRGNKCPLCR V+F+
Sbjct: 181 M-RKTHGMAERSDDFDCTVCLKLLYEPATTPCGHTFCRSCLFQSMDRGNKCPLCRTVIFM 239

Query: 249 TPRTCAVSVTLNSIIQKNFPEEYAERKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIF 308
           TPRTCAVSVTLN+II+KNFPEEYAERKSE D+L++ G + MPLFVMDV+IPCQ+  LHIF
Sbjct: 240 TPRTCAVSVTLNNIIEKNFPEEYAERKSEQDTLVHLGNESMPLFVMDVIIPCQKLSLHIF 299

Query: 309 EPRYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRF 368
           EPRYRLMVRRIMEGNHRMGMV +D  TGS  D ACEVEITEC+PLPDGRFVLE+ES RR 
Sbjct: 300 EPRYRLMVRRIMEGNHRMGMVALDSATGSPVDVACEVEITECDPLPDGRFVLELESHRRC 359

Query: 369 RILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQ-DR 427
           RI+++WDQDGYRVAE+EWV+DI P+  + +ADL++LT +AA +AR WL R KE+ARQ DR
Sbjct: 360 RIVKAWDQDGYRVAEVEWVKDIPPQSEQGKADLRELTTSAASFARSWLDRAKEAARQGDR 419

Query: 428 RRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTREV 476
           RRLE LLNVE M+P  QDPERFSFWLATL+DRRPSERLELLR++DT EV
Sbjct: 420 RRLEILLNVESMIPTPQDPERFSFWLATLTDRRPSERLELLRLQDTGEV 468

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255547323|ref|XP_002514719.1| kinase, putative [Ricinus communis] gi|223546323|gb|EEF47825.1| kinase, putative [Ricinus communis]

 Score =  682 bits (1760), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 323/448 (72%), Positives = 376/448 (83%), Gaps = 18/448 (4%)

Query: 19  PLVGIDDVDDYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKP 78
           PL G+ DV+DYIWAN+GE SL WDR+ HV DLVQ GN AFRE+ F EAI+ YSRANN+KP
Sbjct: 14  PLEGLHDVEDYIWANDGEQSLSWDRFGHVIDLVQNGNLAFRENRFGEAINCYSRANNVKP 73

Query: 79  GDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSM 138
           GDP++LGNRS+AY RISQFLK RP SASEY+PL+GLDPT HAELALKDAEK++ L+SN +
Sbjct: 74  GDPVILGNRSAAYSRISQFLKQRPASASEYKPLSGLDPTIHAELALKDAEKVMTLRSNFV 133

Query: 139 KSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPE 198
             ++LKA+ALILLE+Y++ARD ILSGLQVDPFSNPL+ASLQNLE   A+ + R + G PE
Sbjct: 134 NPYILKASALILLEKYELARDVILSGLQVDPFSNPLRASLQNLETMAANTLKRTL-GKPE 192

Query: 199 RTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVT 258
           R+D+FDCTLCLKLLYEP+TTPCGHSFCRSCLFQSMDRGNKCPLCR VLFI+PRTC+VSVT
Sbjct: 193 RSDEFDCTLCLKLLYEPVTTPCGHSFCRSCLFQSMDRGNKCPLCRTVLFISPRTCSVSVT 252

Query: 259 LNSIIQKNFPEEYAERKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRR 318
           LN+IIQKNFPEEYAERKSEH SL NFGVDL+PLFVMDVVIPCQ+FPLHIFEPRYRLMVRR
Sbjct: 253 LNNIIQKNFPEEYAERKSEHSSLTNFGVDLIPLFVMDVVIPCQKFPLHIFEPRYRLMVRR 312

Query: 319 IMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDG 378
           IMEGNHRMGMVI+D  TG + DFACEVEITECEPLPDGRF LE+ESRRRFRILRSWDQDG
Sbjct: 313 IMEGNHRMGMVILDSHTGLIVDFACEVEITECEPLPDGRFYLEVESRRRFRILRSWDQDG 372

Query: 379 YRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQ-----------DR 427
           YRVAE+EWV D  P   + R +LQ++TNNAAEYA+ WLRR K++A Q            +
Sbjct: 373 YRVAEVEWVHDDSP---KKRTELQEITNNAAEYAQSWLRRAKDAASQGCIPRNFLGLYGK 429

Query: 428 RRLEKLLNVEVMMPPSQDPERFSFWLAT 455
           R  +KL ++ + +     PE   FW++T
Sbjct: 430 RPSQKLRDLPIEL---SIPEHLPFWVST 454

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18394639|ref|NP_564060.1| zinc finger (C3HC4-type RING finger) family protein [Arabidopsis thaliana] gi|30685966|ref|NP_849687.1| zinc finger (C3HC4-type RING finger) family protein [Arabidopsis thaliana] gi|30685971|ref|NP_849688.1| zinc finger (C3HC4-type RING finger) family protein [Arabidopsis thaliana] gi|25082694|gb|AAN71992.1| expressed protein [Arabidopsis thaliana] gi|30387591|gb|AAP31961.1| At1g18660 [Arabidopsis thaliana] gi|332191620|gb|AEE29741.1| zinc finger (C3HC4-type RING finger) family protein [Arabidopsis thaliana] gi|332191621|gb|AEE29742.1| zinc finger (C3HC4-type RING finger) family protein [Arabidopsis thaliana] gi|332191622|gb|AEE29743.1| zinc finger (C3HC4-type RING finger) family protein [Arabidopsis thaliana]

 Score =  681 bits (1757), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 324/468 (69%), Positives = 392/468 (83%), Gaps = 2/468 (0%)

Query: 9   MSAEATSSGFPLVGIDDVDDYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAIS 68
           MS E +   F L G+DDV++Y    E + SLP D +  VF LV+KGN++F+ES FEEAIS
Sbjct: 1   MSNEDSLPPFTLFGLDDVENYGLVTEADNSLPLDIHNQVFQLVEKGNQSFKESRFEEAIS 60

Query: 69  NYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE 128
           +YS+AN+IKP DPIVLGNRS+AYIR  Q+LK R  S SEY+PLNG D +   ELALKDA+
Sbjct: 61  SYSKANSIKPLDPIVLGNRSAAYIRFGQYLKQRSASISEYKPLNGFDMSMLGELALKDAD 120

Query: 129 KLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL 188
           KL++LQS+ +KS++ KA AL+LLERY++ARD ILSGLQ+DPFS PL+++LQ LE+   + 
Sbjct: 121 KLMSLQSSLVKSYITKACALMLLERYEVARDTILSGLQIDPFSGPLRSNLQELEKVMPNS 180

Query: 189 IGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFI 248
           + R+ HG  ER+DDFDCT+CLKLLYEP TTPCGH+FCRSCLFQSMDRGNKCPLCR V+F+
Sbjct: 181 M-RKTHGMAERSDDFDCTVCLKLLYEPATTPCGHTFCRSCLFQSMDRGNKCPLCRTVIFM 239

Query: 249 TPRTCAVSVTLNSIIQKNFPEEYAERKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIF 308
           TPRTCAVSVTLN+II+KNFPEEYAERKSE D+L++ G + MPLFVMDV+IPCQ+  LHIF
Sbjct: 240 TPRTCAVSVTLNNIIEKNFPEEYAERKSEQDTLVHLGNESMPLFVMDVIIPCQKLSLHIF 299

Query: 309 EPRYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRF 368
           EPRYRLMVRRIMEGNHRMGMV +D  TGS  D ACEVEITEC+PLPDGRFVLE+ES RR 
Sbjct: 300 EPRYRLMVRRIMEGNHRMGMVALDSATGSPVDVACEVEITECDPLPDGRFVLELESHRRC 359

Query: 369 RILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQ-DR 427
           RI+++WDQDGYRVAE+EWV+DI P+  + +ADL++LT +AA +AR WL R KE+ARQ DR
Sbjct: 360 RIVKAWDQDGYRVAEVEWVKDIPPQSEQGKADLRELTTSAASFARSWLDRAKEAARQGDR 419

Query: 428 RRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRE 475
           RRLE LLNVE M+P  QDPERFSFWLATL+DRRPSERLELLR++DT E
Sbjct: 420 RRLEILLNVESMIPTPQDPERFSFWLATLTDRRPSERLELLRLQDTGE 467

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|21554128|gb|AAM63208.1| unknown [Arabidopsis thaliana]

 Score =  680 bits (1754), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 323/468 (69%), Positives = 392/468 (83%), Gaps = 2/468 (0%)

Query: 9   MSAEATSSGFPLVGIDDVDDYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAIS 68
           MS E +   F L G+DDV++Y    E + SLP D +  VF LV+KGN++F+ES FEEAIS
Sbjct: 1   MSNEDSLPPFTLFGLDDVENYGLVTEADNSLPLDIHNQVFQLVEKGNQSFKESRFEEAIS 60

Query: 69  NYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE 128
           +YS+AN+IKP DPIVLGNRS+AYIR  Q+LK R  S SEY+PLNG D +   ELALKDA+
Sbjct: 61  SYSKANSIKPLDPIVLGNRSAAYIRFGQYLKQRSASISEYKPLNGFDMSMLGELALKDAD 120

Query: 129 KLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL 188
           KL++LQS+ +KS++ KA AL+LLERY++ARD ILSGLQ+DPFS PL+++LQ LE+   + 
Sbjct: 121 KLMSLQSSLVKSYITKACALMLLERYEVARDTILSGLQIDPFSGPLRSNLQELEKVMPNS 180

Query: 189 IGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFI 248
           + R+ HG  ER+DDFDCT+CLKLLYEP TTPCGH+FCRSCLFQSMDRGNKCPLCR V+F+
Sbjct: 181 M-RKTHGMAERSDDFDCTVCLKLLYEPATTPCGHTFCRSCLFQSMDRGNKCPLCRTVIFM 239

Query: 249 TPRTCAVSVTLNSIIQKNFPEEYAERKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIF 308
           TPRTCAV+VTLN+II+KNFPEEYAERKSE D+L++ G + MPLFVMDV+IPCQ+  LHIF
Sbjct: 240 TPRTCAVNVTLNNIIEKNFPEEYAERKSEQDTLVHLGNESMPLFVMDVIIPCQKLSLHIF 299

Query: 309 EPRYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRF 368
           EPRYRLMVRRIMEGNHRMGMV +D  TGS  D ACEVEITEC+PLPDGRFVLE+ES RR 
Sbjct: 300 EPRYRLMVRRIMEGNHRMGMVALDSATGSPVDVACEVEITECDPLPDGRFVLELESHRRC 359

Query: 369 RILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQ-DR 427
           RI+++WDQDGYRVAE+EWV+DI P+  + +ADL++LT +AA +AR WL R KE+ARQ DR
Sbjct: 360 RIVKAWDQDGYRVAEVEWVKDIPPQSEQGKADLRELTTSAASFARSWLDRAKEAARQGDR 419

Query: 428 RRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRE 475
           RRLE LLNVE M+P  QDPERFSFWLATL+DRRPSERLELLR++DT E
Sbjct: 420 RRLEILLNVESMIPTPQDPERFSFWLATLTDRRPSERLELLRLQDTGE 467

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	476
TAIR|locus:2035025	491	AT1G18660 [Arabidopsis thalian	0.981	0.951	0.671	2.7e-171
MGI|MGI:1921615	753	Lonrf3 "LON peptidase N-termin	0.497	0.314	0.389	1.3e-50
UNIPROTKB|Q496Y0	759	LONRF3 "LON peptidase N-termin	0.556	0.349	0.357	8.6e-50
UNIPROTKB|K7GLC4	752	LONRF3 "Uncharacterized protei	0.497	0.315	0.385	2.2e-49
UNIPROTKB|F1RU80	788	LONRF3 "Uncharacterized protei	0.497	0.300	0.385	4e-49
UNIPROTKB|H0Y7Q8	525	LONRF3 "LON peptidase N-termin	0.556	0.504	0.357	4.2e-49
UNIPROTKB|G3X6C1	759	LONRF3 "Uncharacterized protei	0.462	0.289	0.395	1.2e-48
UNIPROTKB|K7GKX2	711	LONRF3 "Uncharacterized protei	0.497	0.333	0.385	1.7e-47
UNIPROTKB|F1PSB6	765	LONRF3 "Uncharacterized protei	0.462	0.287	0.404	2.8e-47
UNIPROTKB|F1NNQ7	632	Gga.54568 "Uncharacterized pro	0.577	0.435	0.350	1.1e-46

TAIR|locus:2035025 AT1G18660 [Arabidopsis thaliana (taxid:3702)]

 Score = 1665 (591.2 bits), Expect = 2.7e-171, P = 2.7e-171
 Identities = 315/469 (67%), Positives = 380/469 (81%)

Query:     9 MSAEATSSGFPLVGIDDVDDYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAIS 68
             MS E +   F L G+DDV++Y    E + SLP D +  VF LV+KGN++F+ES FEEAIS
Sbjct:     1 MSNEDSLPPFTLFGLDDVENYGLVTEADNSLPLDIHNQVFQLVEKGNQSFKESRFEEAIS 60

Query:    69 NYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHXXXXXXXXX 128
             +YS+AN+IKP DPIVLGNRS+AYIR  Q+LK R  S SEY+PLNG D +           
Sbjct:    61 SYSKANSIKPLDPIVLGNRSAAYIRFGQYLKQRSASISEYKPLNGFDMSMLGELALKDAD 120

Query:   129 XXXXXQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL 188
                  QS+ +KS++ KA AL+LLERY++ARD ILSGLQ+DPFS PL+++LQ LE+   + 
Sbjct:   121 KLMSLQSSLVKSYITKACALMLLERYEVARDTILSGLQIDPFSGPLRSNLQELEKVMPNS 180

Query:   189 IGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFI 248
             + R+ HG  ER+DDFDCT+CLKLLYEP TTPCGH+FCRSCLFQSMDRGNKCPLCR V+F+
Sbjct:   181 M-RKTHGMAERSDDFDCTVCLKLLYEPATTPCGHTFCRSCLFQSMDRGNKCPLCRTVIFM 239

Query:   249 TPRTCAVSVTLNSIIQKNFPEEYAERKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIF 308
             TPRTCAVSVTLN+II+KNFPEEYAERKSE D+L++ G + MPLFVMDV+IPCQ+  LHIF
Sbjct:   240 TPRTCAVSVTLNNIIEKNFPEEYAERKSEQDTLVHLGNESMPLFVMDVIIPCQKLSLHIF 299

Query:   309 EPRYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRF 368
             EPRYRLMVRRIMEGNHRMGMV +D  TGS  D ACEVEITEC+PLPDGRFVLE+ES RR 
Sbjct:   300 EPRYRLMVRRIMEGNHRMGMVALDSATGSPVDVACEVEITECDPLPDGRFVLELESHRRC 359

Query:   369 RILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQ-DR 427
             RI+++WDQDGYRVAE+EWV+DI P+  + +ADL++LT +AA +AR WL R KE+ARQ DR
Sbjct:   360 RIVKAWDQDGYRVAEVEWVKDIPPQSEQGKADLRELTTSAASFARSWLDRAKEAARQGDR 419

Query:   428 RRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTREV 476
             RRLE LLNVE M+P  QDPERFSFWLATL+DRRPSERLELLR++DT EV
Sbjct:   420 RRLEILLNVESMIPTPQDPERFSFWLATLTDRRPSERLELLRLQDTGEV 468

GO:0004176 "ATP-dependent peptidase activity" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0006508 "proteolysis" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA;ISS

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

MGI|MGI:1921615 Lonrf3 "LON peptidase N-terminal domain and ring finger 3" [Mus musculus (taxid:10090)]

 Score = 446 (162.1 bits), Expect = 1.3e-50, Sum P(3) = 1.3e-50
 Identities = 99/254 (38%), Positives = 144/254 (56%)

Query:   202 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF--ITPRTCAVSVTL 259
             D +C+LC++L YEP+TTPCGH+FC  CL + +D   KCPLC+ VL   +  R  + +V L
Sbjct:   458 DLECSLCMRLFYEPVTTPCGHTFCLKCLERCLDHNAKCPLCKDVLLQCLPSRKYSKNVIL 517

Query:   260 NSIIQKNFPEEYAERK----SEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLM 315
               +I    PEE+ ERK     E + L N   ++ P+FV  +  P    PLHIFEP YRLM
Sbjct:   518 EELIATFLPEEFKERKRLYEEEMEELSNLNKNV-PIFVCTMAYPTVPCPLHIFEPCYRLM 576

Query:   316 VRRIME-GNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSW 374
             +RR +E G  + GM + DP  G V ++ C +EI   +   DGR V++   +RRF++L   
Sbjct:   577 IRRCIETGTRQFGMCLGDPVKGFV-EYGCILEIRNVQFFSDGRSVVDSIGKRRFKVLHQG 635

Query:   375 DQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLL 434
              +DGY  A+IE+++D   +G +D A+L  L N   E A  W    K S +       ++L
Sbjct:   636 QRDGYNTADIEYIEDQKVQG-DDCAELMGLHNCVYEQASSWFHSLKASLKN------RIL 688

Query:   435 NVEVMMPPS-QDPE 447
             N    MP   +DP+
Sbjct:   689 NHFGPMPEKDEDPQ 702

GO:0003674 "molecular_function" evidence=ND

GO:0004176 "ATP-dependent peptidase activity" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0006508 "proteolysis" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

UNIPROTKB|Q496Y0 LONRF3 "LON peptidase N-terminal domain and RING finger protein 3" [Homo sapiens (taxid:9606)]

 Score = 442 (160.7 bits), Expect = 8.6e-50, Sum P(3) = 8.6e-50
 Identities = 103/288 (35%), Positives = 154/288 (53%)

Query:   202 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF--ITPRTCAVSVTL 259
             D +C LC++L YEP+TTPCGH+FC  CL + +D   KCPLC+  L   +  R  + +V +
Sbjct:   464 DLECALCMRLFYEPVTTPCGHTFCLKCLERCLDHNAKCPLCKDGLSQCLASRKYSKNVIM 523

Query:   260 NSIIQKNFPEEYAERKS----EHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLM 315
               +I K  PEE  ER+     E + L N   ++ P+FV  +  P    PLHIFEP YRLM
Sbjct:   524 EELIAKFLPEELKERRKLYEEEMEELSNLNKNV-PIFVCTMAYPTVPCPLHIFEPCYRLM 582

Query:   316 VRRIME-GNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSW 374
             +RR +E G  + GM + DP  G  A++ C +EI   +   DGR V++   +RRFR+L   
Sbjct:   583 IRRCIETGTRQFGMCLGDPVKG-FAEYGCILEIRNVQFFADGRSVVDSIGKRRFRVLHQS 641

Query:   375 DQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLL 434
              +DGY  A+IE+++D   +G ED A+L  L N   + A LW    K S +       ++L
Sbjct:   642 QRDGYNTADIEYIEDQKVQG-EDCAELMGLHNCVYQQASLWFHSLKLSLKN------RIL 694

Query:   435 NVEVMMP-----PSQDPE--RFSFWLATLSDRRPSERLELLRIRDTRE 475
             N    MP     P  +P    + +W+  +       +L  L +R  ++
Sbjct:   695 NHFGPMPEKDADPQMNPNGPAWCWWMLAVLPLESRAQLPFLAMRSLKD 742

GO:0004176 "ATP-dependent peptidase activity" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|K7GLC4 LONRF3 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 438 (159.2 bits), Expect = 2.2e-49, Sum P(3) = 2.2e-49
 Identities = 98/254 (38%), Positives = 142/254 (55%)

Query:   202 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF--ITPRTCAVSVTL 259
             D +C+LC++L YEP+TTPCGH+FC  CL + +D   KCPLC+  L   +  R  + +V +
Sbjct:   457 DLECSLCMRLFYEPVTTPCGHTFCLKCLERCLDHNAKCPLCKDGLSQCLASRKYSKNVIM 516

Query:   260 NSIIQKNFPEEYAERK----SEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLM 315
               +I K  PEE  ER+     E + L N   ++ P+FV  +  P    PLHIFEP YRLM
Sbjct:   517 EELIAKFLPEELKERRRLYEEEMEELSNLNKNV-PIFVCTMAYPTVPCPLHIFEPCYRLM 575

Query:   316 VRRIME-GNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSW 374
             +RR +E G  + GM + DP  G  A++ C +EI   +   DGR V++   +RRF++L   
Sbjct:   576 IRRCIETGTRQFGMCLGDPVKG-FAEYGCILEIRNVQFFADGRSVVDSIGKRRFKVLHQG 634

Query:   375 DQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLL 434
              +DGY  A+IE+++D   +G ED A+L  L N   E A  W    K S +       ++L
Sbjct:   635 QRDGYNTADIEYIEDQKVQG-EDCAELMGLHNCVYEQASSWFHSLKSSLKN------RIL 687

Query:   435 NVEVMMPPSQ-DPE 447
             N    MP    DP+
Sbjct:   688 NHFGPMPEKDADPQ 701

GO:0008270 "zinc ion binding" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0004176 "ATP-dependent peptidase activity" evidence=IEA

UNIPROTKB|F1RU80 LONRF3 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 438 (159.2 bits), Expect = 4.0e-49, Sum P(3) = 4.0e-49
 Identities = 98/254 (38%), Positives = 142/254 (55%)

Query:   202 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF--ITPRTCAVSVTL 259
             D +C+LC++L YEP+TTPCGH+FC  CL + +D   KCPLC+  L   +  R  + +V +
Sbjct:   457 DLECSLCMRLFYEPVTTPCGHTFCLKCLERCLDHNAKCPLCKDGLSQCLASRKYSKNVIM 516

Query:   260 NSIIQKNFPEEYAERK----SEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLM 315
               +I K  PEE  ER+     E + L N   ++ P+FV  +  P    PLHIFEP YRLM
Sbjct:   517 EELIAKFLPEELKERRRLYEEEMEELSNLNKNV-PIFVCTMAYPTVPCPLHIFEPCYRLM 575

Query:   316 VRRIME-GNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSW 374
             +RR +E G  + GM + DP  G  A++ C +EI   +   DGR V++   +RRF++L   
Sbjct:   576 IRRCIETGTRQFGMCLGDPVKG-FAEYGCILEIRNVQFFADGRSVVDSIGKRRFKVLHQG 634

Query:   375 DQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLL 434
              +DGY  A+IE+++D   +G ED A+L  L N   E A  W    K S +       ++L
Sbjct:   635 QRDGYNTADIEYIEDQKVQG-EDCAELMGLHNCVYEQASSWFHSLKSSLKN------RIL 687

Query:   435 NVEVMMPPSQ-DPE 447
             N    MP    DP+
Sbjct:   688 NHFGPMPEKDADPQ 701

GO:0008270 "zinc ion binding" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0004176 "ATP-dependent peptidase activity" evidence=IEA

UNIPROTKB|H0Y7Q8 LONRF3 "LON peptidase N-terminal domain and RING finger protein 3" [Homo sapiens (taxid:9606)]

 Score = 442 (160.7 bits), Expect = 4.2e-49, Sum P(2) = 4.2e-49
 Identities = 103/288 (35%), Positives = 154/288 (53%)

Query:   202 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF--ITPRTCAVSVTL 259
             D +C LC++L YEP+TTPCGH+FC  CL + +D   KCPLC+  L   +  R  + +V +
Sbjct:   230 DLECALCMRLFYEPVTTPCGHTFCLKCLERCLDHNAKCPLCKDGLSQCLASRKYSKNVIM 289

Query:   260 NSIIQKNFPEEYAERKS----EHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLM 315
               +I K  PEE  ER+     E + L N   ++ P+FV  +  P    PLHIFEP YRLM
Sbjct:   290 EELIAKFLPEELKERRKLYEEEMEELSNLNKNV-PIFVCTMAYPTVPCPLHIFEPCYRLM 348

Query:   316 VRRIME-GNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSW 374
             +RR +E G  + GM + DP  G  A++ C +EI   +   DGR V++   +RRFR+L   
Sbjct:   349 IRRCIETGTRQFGMCLGDPVKG-FAEYGCILEIRNVQFFADGRSVVDSIGKRRFRVLHQS 407

Query:   375 DQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLL 434
              +DGY  A+IE+++D   +G ED A+L  L N   + A LW    K S +       ++L
Sbjct:   408 QRDGYNTADIEYIEDQKVQG-EDCAELMGLHNCVYQQASLWFHSLKLSLKN------RIL 460

Query:   435 NVEVMMP-----PSQDPE--RFSFWLATLSDRRPSERLELLRIRDTRE 475
             N    MP     P  +P    + +W+  +       +L  L +R  ++
Sbjct:   461 NHFGPMPEKDADPQMNPNGPAWCWWMLAVLPLESRAQLPFLAMRSLKD 508

GO:0004176 "ATP-dependent peptidase activity" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|G3X6C1 LONRF3 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 432 (157.1 bits), Expect = 1.2e-48, Sum P(3) = 1.2e-48
 Identities = 91/230 (39%), Positives = 133/230 (57%)

Query:   202 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF--ITPRTCAVSVTL 259
             D +C+LC++L YEP+TTPCGH+FC  CL + +D   KCPLC+  L   +  R  + +V +
Sbjct:   464 DLECSLCMRLFYEPVTTPCGHTFCLKCLERCLDHNAKCPLCKDGLSQCLASRKYSKNVIM 523

Query:   260 NSIIQKNFPEEYAERK----SEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLM 315
               +I K  PEE  ER+     E + L N   ++ P+FV  +  P    PLHIFEP YRLM
Sbjct:   524 EELIAKFLPEELKERRRLYEEEMEELSNLNKNV-PIFVCTMAYPTVPCPLHIFEPCYRLM 582

Query:   316 VRRIME-GNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSW 374
             +RR +E G  + GM + DP  G  A++ C +EI   +   DGR V++   +RRF++L   
Sbjct:   583 IRRCIETGTRQFGMCLGDPVKG-FAEYGCILEIRNVQFFADGRSVVDSIGKRRFKVLHQG 641

Query:   375 DQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESAR 424
              +DGY  A+IE+++D   +G ED A+L  L +   E A  W    K S +
Sbjct:   642 QRDGYNTADIEYIEDQKVQG-EDCAELMGLHSCVYEQASSWFHSLKSSLK 690

GO:0008270 "zinc ion binding" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0004176 "ATP-dependent peptidase activity" evidence=IEA

UNIPROTKB|K7GKX2 LONRF3 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 438 (159.2 bits), Expect = 1.7e-47, Sum P(2) = 1.7e-47
 Identities = 98/254 (38%), Positives = 142/254 (55%)

Query:   202 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF--ITPRTCAVSVTL 259
             D +C+LC++L YEP+TTPCGH+FC  CL + +D   KCPLC+  L   +  R  + +V +
Sbjct:   416 DLECSLCMRLFYEPVTTPCGHTFCLKCLERCLDHNAKCPLCKDGLSQCLASRKYSKNVIM 475

Query:   260 NSIIQKNFPEEYAERK----SEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLM 315
               +I K  PEE  ER+     E + L N   ++ P+FV  +  P    PLHIFEP YRLM
Sbjct:   476 EELIAKFLPEELKERRRLYEEEMEELSNLNKNV-PIFVCTMAYPTVPCPLHIFEPCYRLM 534

Query:   316 VRRIME-GNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSW 374
             +RR +E G  + GM + DP  G  A++ C +EI   +   DGR V++   +RRF++L   
Sbjct:   535 IRRCIETGTRQFGMCLGDPVKG-FAEYGCILEIRNVQFFADGRSVVDSIGKRRFKVLHQG 593

Query:   375 DQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLL 434
              +DGY  A+IE+++D   +G ED A+L  L N   E A  W    K S +       ++L
Sbjct:   594 QRDGYNTADIEYIEDQKVQG-EDCAELMGLHNCVYEQASSWFHSLKSSLKN------RIL 646

Query:   435 NVEVMMPPSQ-DPE 447
             N    MP    DP+
Sbjct:   647 NHFGPMPEKDADPQ 660

GO:0008270 "zinc ion binding" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0004176 "ATP-dependent peptidase activity" evidence=IEA

UNIPROTKB|F1PSB6 LONRF3 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 439 (159.6 bits), Expect = 2.8e-47, Sum P(2) = 2.8e-47
 Identities = 93/230 (40%), Positives = 132/230 (57%)

Query:   202 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF--ITPRTCAVSVTL 259
             D +C LC++L YEP+TTPCGH+FC  CL + +D   KCPLC+  L   +  R  + +V +
Sbjct:   470 DLECALCMRLFYEPVTTPCGHTFCLKCLERCLDHNAKCPLCKDGLSQCLASRKYSKNVIM 529

Query:   260 NSIIQKNFPEEYAERK----SEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLM 315
               +I K  PEE  ER+     E + L N   ++ P+FV  +  P    PLHIFEP YRLM
Sbjct:   530 EELIAKFLPEELKERRRLYEEEMEELSNLNKNV-PIFVCTMAYPTVPCPLHIFEPCYRLM 588

Query:   316 VRRIME-GNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSW 374
             +RR +E G  + GM + DP  G  A++ C +EI   +   DGR V++   +RRFR+L   
Sbjct:   589 IRRCIETGTRQFGMCLGDPVKG-FAEYGCILEIRNVQFFADGRSVVDSIGKRRFRVLHQG 647

Query:   375 DQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESAR 424
              +DGY  A+IE+++D   +G ED A+L  L N   E A  W    K S +
Sbjct:   648 QRDGYNTADIEYIEDQKVQG-EDCAELMGLHNCVYEQASSWFHSLKSSLK 696

GO:0008270 "zinc ion binding" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0004176 "ATP-dependent peptidase activity" evidence=IEA

UNIPROTKB|F1NNQ7 Gga.54568 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 438 (159.2 bits), Expect = 1.1e-46, Sum P(2) = 1.1e-46
 Identities = 103/294 (35%), Positives = 158/294 (53%)

Query:   196 TP-ERTD--DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF---IT 249
             TP E  D  D DC+LC++L YEP+TTPCGH+FC  CL + +D   KCPLC+  L    + 
Sbjct:   326 TPFESVDPSDLDCSLCMRLFYEPVTTPCGHTFCLKCLERCLDHNPKCPLCKEGLSEQCLA 385

Query:   250 PRTCAVSVTLNSIIQKNFPEEYAERKSEHDS----LINFGVDLMPLFVMDVVIPCQRFPL 305
              R    +V +  +I K  PEE  ER+  ++     L N   ++ P+FV  +  P    PL
Sbjct:   386 MRKYCKTVLMEELIAKYLPEELTERRKIYEEEIAELSNLNKNV-PIFVCTMAYPTVPCPL 444

Query:   306 HIFEPRYRLMVRRIME-GNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIES 364
             HIFEP YRLM+RR ME G  + GM I DP  G  AD+ C +EI   E   DGR V++   
Sbjct:   445 HIFEPCYRLMIRRCMETGTKQFGMCISDPVKG-FADYGCILEIRNVEFFADGRSVVDSIG 503

Query:   365 RRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESAR 424
             +RRF++++   +DGY  A+IE+++D   +G +D A L  L ++  + A +W    K++ +
Sbjct:   504 KRRFKVIQHSQRDGYNTADIEYIEDQKVQG-QDYAALLVLHDSVYDQAYMWFNSLKQALK 562

Query:   425 QDRRRLEKLLNVEVMMP-PSQDPE--RFSFWLATLSDRRPSERLELLRIRDTRE 475
                R L     +    P P  +P    + +W+  +       +L  L ++  ++
Sbjct:   563 S--RILSHFGPMPAKDPDPQANPNGPAWCWWVLAVLPLENRAQLPFLAMKSLKD 614

GO:0004176 "ATP-dependent peptidase activity" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

---

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

Prediction Level	EC number	Confidence of Prediction
3rd Layer	6.3.2	LOW CONFIDENCE prediction!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	476
pfam02190	191	pfam02190, LON, ATP-dependent protease La (LON) do	2e-27
COG2802	221	COG2802, COG2802, Uncharacterized protein, similar	3e-24
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	2e-12
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	2e-11
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	7e-11
cd00189	100	cd00189, TPR, Tetratricopeptide repeat domain; typ	3e-10
smart00184	40	smart00184, RING, Ring finger	5e-10
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	6e-09
COG5574	271	COG5574, PEX10, RING-finger-containing E3 ubiquiti	1e-07
COG5152	259	COG5152, COG5152, Uncharacterized conserved protei	7e-07
pfam13920	49	pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RI	1e-06
PLN03088	356	PLN03088, PLN03088, SGT1, suppressor of G2 allele	2e-06
COG0466	782	COG0466, Lon, ATP-dependent Lon protease, bacteria	3e-05
TIGR00599	397	TIGR00599, rad18, DNA repair protein rad18	4e-05
TIGR00990	615	TIGR00990, 3a0801s09, mitochondrial precursor prot	8e-05
pfam13414	69	pfam13414, TPR_11, TPR repeat	1e-04
PLN03208	193	PLN03208, PLN03208, E3 ubiquitin-protein ligase RM	2e-04
pfam13445	55	pfam13445, zf-RING_LisH, RING-type zinc-finger, Li	6e-04
COG5432	391	COG5432, RAD18, RING-finger-containing E3 ubiquiti	7e-04
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	0.002
COG5222	427	COG5222, COG5222, Uncharacterized conserved protei	0.002
TIGR02917	899	TIGR02917, PEP_TPR_lipo, putative PEP-CTERM system	0.003

>gnl|CDD|216923 pfam02190, LON, ATP-dependent protease La (LON) domain

 Score =  108 bits (271), Expect = 2e-27
 Identities = 54/193 (27%), Positives = 85/193 (44%), Gaps = 20/193 (10%)

Query: 289 MPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVII----DPTTGSVADFA 342
           +PL  +   V+ P    PLH+FEPRY   +   +E +   G+V++     P+   + +  
Sbjct: 2   LPLLPLRNVVLFPGMVLPLHVFEPRYIAAIEEALESDRPFGLVLVSQKDPPSIDDLYEVG 61

Query: 343 CEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQ 402
               I +   LPDGR  + +E   RFRIL    ++ Y VAE+E + +   E  E    L+
Sbjct: 62  TLARIIQIVKLPDGRLKILVEGLERFRILELEQEEPYLVAEVEDLPEEELE--ELLEALE 119

Query: 403 DLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPS 462
            L     E       +E          L K+ ++E       DP R +  +A+L    P 
Sbjct: 120 ALVKELIE-----KIKELLPLLLPLELLLKIDDIE-------DPGRLADLIASLLPLSPE 167

Query: 463 ERLELLRIRDTRE 475
           E+ ELL   D +E
Sbjct: 168 EKQELLETLDVKE 180

This domain has been shown to be part of the PUA superfamily. Length = 191

>gnl|CDD|225362 COG2802, COG2802, Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]

 Score =  100 bits (250), Expect = 3e-24
 Identities = 57/205 (27%), Positives = 81/205 (39%), Gaps = 25/205 (12%)

Query: 280 SLINFGVDLMPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPTTGS 337
           S  +     +PLF +   V++P    PL+IFEPRY  MVR  +    R G+V+ID     
Sbjct: 3   SSPDDLPLELPLFPLPGAVLLPGGLLPLNIFEPRYLAMVRTCLAEGRRFGVVLIDRGREV 62

Query: 338 V-------ADFACEVEITECEPLPDGRFVLEIESRRRFRILRSW--DQDGYRVAEIEWVQ 388
                   +D  C   ITE E L DGR+++ +   +RFR+      D D YR A + +  
Sbjct: 63  GGGLPPELSDVGCLARITEFEELGDGRYLILVRGGQRFRV-LEELADDDPYRRARVPF-- 119

Query: 389 DIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVMMPPSQDPER 448
                   D     D            L R   +AR   +RLE  L  +           
Sbjct: 120 ------WPDLPSDPDGAEEVDRRLDALLMR---AARAYLQRLE--LLADWESYERASNAD 168

Query: 449 FSFWLATLSDRRPSERLELLRIRDT 473
            +  L  L    P+E+  LL   D 
Sbjct: 169 LANRLYMLLPFDPAEKQALLEAPDL 193

Length = 221

>gnl|CDD|206094 pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RING finger)

 Score = 61.4 bits (149), Expect = 2e-12
 Identities = 20/45 (44%), Positives = 32/45 (71%), Gaps = 1/45 (2%)

Query: 201 DDFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRGNKCPLCRA 244
           ++ +C +CL LL +P+  TPCGH FCR C+ + + + +KCP+CR 
Sbjct: 1   EELECPICLDLLRDPVVLTPCGHVFCRECILRYLKKKSKCPICRT 45

Length = 45

>gnl|CDD|238093 cd00162, RING, RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)

 Score = 58.2 bits (141), Expect = 2e-11
 Identities = 21/45 (46%), Positives = 29/45 (64%), Gaps = 2/45 (4%)

Query: 204 DCTLCLKLLYEPI-TTPCGHSFCRSCLFQSMDRG-NKCPLCRAVL 246
           +C +CL+   EP+   PCGH FCRSC+ + +  G N CPLCR  +
Sbjct: 1   ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

>gnl|CDD|222279 pfam13639, zf-RING_2, Ring finger domain

 Score = 57.0 bits (138), Expect = 7e-11
 Identities = 18/45 (40%), Positives = 24/45 (53%), Gaps = 3/45 (6%)

Query: 203 FDCTLCLKLLY---EPITTPCGHSFCRSCLFQSMDRGNKCPLCRA 244
            +C +CL       E +  PCGH F + CL + +   N CPLCRA
Sbjct: 1   DECPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSNTCPLCRA 45

Length = 46

>gnl|CDD|238112 cd00189, TPR, Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and Cdc27p components of the cyclosome/APC, the Pex5p/Pas10p receptor for peroxisomal targeting signals, the Tom70p co-receptor for mitochondrial targeting signals, Ser/Thr phosphatase 5C and the p110 subunit of O-GlcNAc transferase; three copies of the repeat are present here

 Score = 56.6 bits (137), Expect = 3e-10
 Identities = 28/121 (23%), Positives = 54/121 (44%), Gaps = 23/121 (19%)

Query: 49  DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEY 108
            L+  GN  ++  +++EA+  Y +A  + P +     N ++AY ++ ++           
Sbjct: 2   ALLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKY----------- 50

Query: 109 RPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVD 168
                       E AL+D EK L L  ++ K++     A   L +Y+ A +A    L++D
Sbjct: 51  ------------EEALEDYEKALELDPDNAKAYYNLGLAYYKLGKYEEALEAYEKALELD 98

Query: 169 P 169
           P
Sbjct: 99  P 99

Length = 100

>gnl|CDD|214546 smart00184, RING, Ring finger

 Score = 54.4 bits (131), Expect = 5e-10
 Identities = 19/40 (47%), Positives = 29/40 (72%), Gaps = 2/40 (5%)

Query: 205 CTLCL-KLLYEPITTPCGHSFCRSCLFQSMDRGN-KCPLC 242
           C +CL + L +P+  PCGH+FCRSC+ + ++ GN  CP+C
Sbjct: 1   CPICLEEYLKDPVILPCGHTFCRSCIRKWLESGNNTCPIC 40

E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s). Length = 40

>gnl|CDD|215715 pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING finger)

 Score = 51.3 bits (123), Expect = 6e-09
 Identities = 17/40 (42%), Positives = 23/40 (57%), Gaps = 2/40 (5%)

Query: 205 CTLCLKLLYEP-ITTPCGHSFCRSCLFQSMDRGN-KCPLC 242
           C +CL+   +P    PCGH FC  C+   ++ GN  CPLC
Sbjct: 1   CPICLEEPKDPVTILPCGHLFCSKCILSWLESGNVTCPLC 40

The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid. Many proteins containing a RING finger play a key role in the ubiquitination pathway. Length = 40

>gnl|CDD|227861 COG5574, PEX10, RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

 Score = 52.6 bits (126), Expect = 1e-07
 Identities = 46/184 (25%), Positives = 61/184 (33%), Gaps = 33/184 (17%)

Query: 69  NYSRANNIKPGDPIVLGNRS----SAYIRISQFLKHRPPSASEYRPLNGL--DPTTHAEL 122
            YSR  NI     ++               S  LK    +  E  P   L   PT     
Sbjct: 101 EYSRETNIDKEGEVLYPCGIFFCIGCDYIWSIDLKQ-TANTHEASPSQLLKFLPTIR--- 156

Query: 123 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE 182
                     L  N  +     ++   +    D +R        +   SN L    Q + 
Sbjct: 157 ----------LAMNIPEVI---SDLTAVALSLDESR-----LQPILQPSNNLHTLFQVIT 198

Query: 183 RTTASLIGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSM--DRGNKCP 240
           +   S     +   P    D+ C LCL+    P  TPCGH FC SCL  S    +   CP
Sbjct: 199 KENLSKK-NGLPFIPLA--DYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCP 255

Query: 241 LCRA 244
           LCRA
Sbjct: 256 LCRA 259

Length = 271

>gnl|CDD|227481 COG5152, COG5152, Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]

 Score = 50.5 bits (120), Expect = 7e-07
 Identities = 16/42 (38%), Positives = 23/42 (54%)

Query: 203 FDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRA 244
           F C +C K    P+ T CGHSFC  C  +   +G++C +C  
Sbjct: 197 FLCGICKKDYESPVVTECGHSFCSLCAIRKYQKGDECGVCGK 238

Length = 259

>gnl|CDD|222454 pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RING finger)

 Score = 44.7 bits (106), Expect = 1e-06
 Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 2/45 (4%)

Query: 201 DDFDCTLCLKLLYEPITTPCGH-SFCRSCLFQSMDRGNKCPLCRA 244
           +D  C +CL+     +  PCGH   C  C  + +    KCP+CR 
Sbjct: 1   EDDLCVICLERPRNVVFLPCGHLCLCEEC-AKRLRSKKKCPICRQ 44

Length = 49

>gnl|CDD|215568 PLN03088, PLN03088, SGT1, suppressor of G2 allele of SKP1; Provisional

 Score = 49.4 bits (118), Expect = 2e-06
 Identities = 30/121 (24%), Positives = 53/121 (43%), Gaps = 23/121 (19%)

Query: 49  DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEY 108
           DL  K   AF + +F  A+  Y++A ++ P +  +  +R+ A I++  F +         
Sbjct: 4   DLEDKAKEAFVDDDFALAVDLYTQAIDLDPNNAELYADRAQANIKLGNFTE--------- 54

Query: 109 RPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVD 168
                         A+ DA K + L  +  K++L K  A + LE Y  A+ A+  G  + 
Sbjct: 55  --------------AVADANKAIELDPSLAKAYLRKGTACMKLEEYQTAKAALEKGASLA 100

Query: 169 P 169
           P
Sbjct: 101 P 101

Length = 356

>gnl|CDD|223542 COG0466, Lon, ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

 Score = 46.4 bits (111), Expect = 3e-05
 Identities = 44/197 (22%), Positives = 87/197 (44%), Gaps = 25/197 (12%)

Query: 288 LMPLFVMDVVI-PCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVII-------DPTTGSVA 339
           ++PL   DVV+ P    PL +   +    +   M+ + +  +++        +PT   + 
Sbjct: 12  VLPLR--DVVVFPGMVIPLFVGREKSIKALEEAMKNDQKYILLVTQKDASTDEPTEDDLY 69

Query: 340 DFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDI-HPEGVEDR 398
           +     +I +   LPDG   + +E  +R RI +  D++ +  AEIE + D    E  E  
Sbjct: 70  EVGTLAKILQILKLPDGTVKVLVEGLQRVRISKLSDEEEFFEAEIELLPDEPIDEEREIE 129

Query: 399 ADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVMMPPSQDPERFSFWLATLSD 458
           A ++ + +   EYA+L    +K    +    L+ L +++       DP + +  +A    
Sbjct: 130 ALVRSILSEFEEYAKL---NKKIPPEE----LQSLNSID-------DPGKLADTIAAHLP 175

Query: 459 RRPSERLELLRIRDTRE 475
            +  E+ E+L   D +E
Sbjct: 176 LKLEEKQEILETLDVKE 192

Length = 782

>gnl|CDD|233043 TIGR00599, rad18, DNA repair protein rad18

 Score = 45.4 bits (107), Expect = 4e-05
 Identities = 16/42 (38%), Positives = 22/42 (52%)

Query: 203 FDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRA 244
             C +C      P+ T C H+FC  C+ + +    KCPLCRA
Sbjct: 27  LRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRA 68

All proteins in this family for which functions are known are involved in nucleotide excision repair.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University) [DNA metabolism, DNA replication, recombination, and repair]. Length = 397

>gnl|CDD|233223 TIGR00990, 3a0801s09, mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70)

 Score = 45.0 bits (106), Expect = 8e-05
 Identities = 37/142 (26%), Positives = 62/142 (43%), Gaps = 26/142 (18%)

Query: 42  DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHR 101
           +R  +   L +KGN+A+R  +F +AI  YS+A   KP DP+   NR++ +  +  +    
Sbjct: 122 ERKKYAAKLKEKGNKAYRNKDFNKAIKLYSKAIECKP-DPVYYSNRAACHNALGDW---- 176

Query: 102 PPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAI 161
                              E  ++D    L L  +  K+   +ANA   L +Y  A   +
Sbjct: 177 -------------------EKVVEDTTAALELDPDYSKALNRRANAYDGLGKYADALLDL 217

Query: 162 LSGLQVDPFSNPLQASLQNLER 183
            +   +D F N  + S Q +ER
Sbjct: 218 TASCIIDGFRN--EQSAQAVER 237

[Transport and binding proteins, Amino acids, peptides and amines]. Length = 615

>gnl|CDD|222112 pfam13414, TPR_11, TPR repeat

 Score = 40.0 bits (94), Expect = 1e-04
 Identities = 16/59 (27%), Positives = 26/59 (44%), Gaps = 4/59 (6%)

Query: 50  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEY 108
           L   GN  F+  +++EAI  Y +A  + P +     N + AY++    L      A E 
Sbjct: 6   LKNLGNALFKLGDYDEAIEAYEKALELDPDNAEAYYNLALAYLK----LGKDYEEALED 60

Length = 69

>gnl|CDD|178747 PLN03208, PLN03208, E3 ubiquitin-protein ligase RMA2; Provisional

 Score = 42.4 bits (99), Expect = 2e-04
 Identities = 20/59 (33%), Positives = 31/59 (52%), Gaps = 16/59 (27%)

Query: 202 DFDCTLCLKLLYEPITTPCGHSFCRSCLF----------QSMDRGN------KCPLCRA 244
           DFDC +CL  + +P+ T CGH FC  C+           Q +D+ +      KCP+C++
Sbjct: 18  DFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKS 76

Length = 193

>gnl|CDD|222135 pfam13445, zf-RING_LisH, RING-type zinc-finger, LisH dimerisation motif

 Score = 37.3 bits (87), Expect = 6e-04
 Identities = 13/44 (29%), Positives = 21/44 (47%), Gaps = 6/44 (13%)

Query: 203 FDCTLCLKLLYE----PITTPCGHSFCRSCLFQSMDRGN--KCP 240
           F C +  +++ +    P+  PCGH + R  L +    G   KCP
Sbjct: 11  FVCPISKEVMTDEENPPVMLPCGHVYSRKALEKLAKNGGKFKCP 54

This zinc-finger is the dimerisation motif for LisH proteins, and is also a typical RING-type of plant ubiquitin ligases. Length = 55

>gnl|CDD|227719 COG5432, RAD18, RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]

 Score = 41.6 bits (97), Expect = 7e-04
 Identities = 14/40 (35%), Positives = 21/40 (52%)

Query: 205 CTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRA 244
           C +C   +  P  T CGH+FC  C+ + +     CP+CR 
Sbjct: 28  CRICDCRISIPCETTCGHTFCSLCIRRHLGTQPFCPVCRE 67

Length = 391

>gnl|CDD|222944 PHA02929, PHA02929, N1R/p28-like protein; Provisional

 Score = 39.8 bits (93), Expect = 0.002
 Identities = 16/58 (27%), Positives = 26/58 (44%), Gaps = 8/58 (13%)

Query: 198 ERTDDFDCTLCLKLLYEP--------ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF 247
            R+ D +C +C++ +Y+         I + C H FC  C+       N CP+CR    
Sbjct: 170 NRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI 227

Length = 238

>gnl|CDD|227547 COG5222, COG5222, Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

 Score = 40.1 bits (93), Expect = 0.002
 Identities = 23/74 (31%), Positives = 36/74 (48%), Gaps = 4/74 (5%)

Query: 173 PLQASLQNLERTTASL--IGRRIHGTPERTDDFDCTLCLKLLYEPITTP-CGHSFCRSCL 229
           P   S +  ++ T ++  I  +++          C LC  LL  P+ TP CGH+FC  C+
Sbjct: 243 PDVQSWEKYQQRTKAVAEIPDQVYKMQPPNISLKCPLCHCLLRNPMKTPCCGHTFCDECI 302

Query: 230 FQSM-DRGNKCPLC 242
             ++ D   KCP C
Sbjct: 303 GTALLDSDFKCPNC 316

Length = 427

>gnl|CDD|234059 TIGR02917, PEP_TPR_lipo, putative PEP-CTERM system TPR-repeat lipoprotein

 Score = 39.7 bits (93), Expect = 0.003
 Identities = 31/146 (21%), Positives = 51/146 (34%), Gaps = 18/146 (12%)

Query: 50  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRP------- 102
           L  +G         E A  +Y +A  I P           A + +++             
Sbjct: 128 LALRGLAYLGLGQLELAQKSYEQALAIDPRSLYAK--LGLAQLALAENRFDEARALIDEV 185

Query: 103 ----PSASEYRPLNG--LDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDM 156
               P   +   L G  L    + ELAL    K + L+ N++   L  A  LI    ++ 
Sbjct: 186 LTADPGNVDALLLKGDLLLSLGNIELALAAYRKAIALRPNNIAVLLALATILIEAGEFEE 245

Query: 157 AR---DAILSGLQVDPFSNPLQASLQ 179
           A    DA+L      P ++ L+A + 
Sbjct: 246 AEKHADALLKKAPNSPLAHYLKALVD 271

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. Length = 899

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	476
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	99.93
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	99.92
PF02190	205	LON: ATP-dependent protease La (LON) domain; Inter	99.91
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	99.91
COG2802	221	Uncharacterized protein, similar to the N-terminal	99.9
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	99.88
KOG0553	304	consensus TPR repeat-containing protein [General f	99.84
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.66
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	99.63
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.62
KOG4234	271	consensus TPR repeat-containing protein [General f	99.59
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	99.57
KOG4648	536	consensus Uncharacterized conserved protein, conta	99.57
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.56
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	99.53
PRK15359	144	type III secretion system chaperone protein SscB;	99.5
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	99.4
KOG0376	476	consensus Serine-threonine phosphatase 2A, catalyt	99.39
TIGR02552	135	LcrH_SycD type III secretion low calcium response	99.39
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	99.34
PRK10370	198	formate-dependent nitrite reductase complex subuni	99.28
PRK11189	296	lipoprotein NlpI; Provisional	99.25
KOG0551	390	consensus Hsp90 co-chaperone CNS1 (contains TPR re	99.2
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.2
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.17
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.16
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.11
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	99.1
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.09
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	99.09
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	99.09
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	99.06
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	99.04
KOG1126	638	consensus DNA-binding cell division cycle control	99.04
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.01
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	99.0
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	98.99
KOG1308	377	consensus Hsp70-interacting protein Hip/Transient	98.98
KOG0547	606	consensus Translocase of outer mitochondrial membr	98.97
KOG0545	329	consensus Aryl-hydrocarbon receptor-interacting pr	98.97
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.95
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	98.9
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.89
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.88
PRK12370	553	invasion protein regulator; Provisional	98.87
KOG1126	638	consensus DNA-binding cell division cycle control	98.87
KOG1125	579	consensus TPR repeat-containing protein [General f	98.86
PRK15331	165	chaperone protein SicA; Provisional	98.86
PRK12370	553	invasion protein regulator; Provisional	98.86
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.85
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	98.85
KOG4555	175	consensus TPR repeat-containing protein [Function	98.83
PRK15359	144	type III secretion system chaperone protein SscB;	98.83
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	98.81
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.81
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.79
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	98.79
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	98.77
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.77
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.77
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.76
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	98.76
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.76
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.75
PRK10803	263	tol-pal system protein YbgF; Provisional	98.74
smart00464	92	LON Found in ATP-dependent protease La (LON). N-te	98.74
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.74
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.73
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.72
PLN02789	320	farnesyltranstransferase	98.72
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	98.71
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	98.71
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	98.7
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	98.7
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	98.67
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.63
PF13371	73	TPR_9: Tetratricopeptide repeat	98.63
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	98.62
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.62
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	98.61
PRK11189	296	lipoprotein NlpI; Provisional	98.6
COG5152	259	Uncharacterized conserved protein, contains RING a	98.6
PF13512	142	TPR_18: Tetratricopeptide repeat	98.6
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	98.6
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.59
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.58
PHA02929	238	N1R/p28-like protein; Provisional	98.58
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	98.57
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.56
PLN02789	320	farnesyltranstransferase	98.55
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	98.55
PRK11788	389	tetratricopeptide repeat protein; Provisional	98.54
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.53
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	98.52
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	98.52
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.51
KOG2076	895	consensus RNA polymerase III transcription factor	98.5
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.5
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.5
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.49
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	98.49
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	98.48
PF13371	73	TPR_9: Tetratricopeptide repeat	98.48
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.48
KOG1310	758	consensus WD40 repeat protein [General function pr	98.47
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	98.46
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	98.44
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.41
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	98.4
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	98.36
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	98.36
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.35
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.35
PHA02926	242	zinc finger-like protein; Provisional	98.35
PRK11788	389	tetratricopeptide repeat protein; Provisional	98.34
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	98.34
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.33
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.32
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.3
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	98.3
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.3
KOG0553	304	consensus TPR repeat-containing protein [General f	98.29
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	98.29
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.27
PF14634	44	zf-RING_5: zinc-RING finger domain	98.27
KOG2003	840	consensus TPR repeat-containing protein [General f	98.27
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	98.26
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	98.25
PRK11906	458	transcriptional regulator; Provisional	98.24
PF12688	120	TPR_5: Tetratrico peptide repeat	98.23
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.23
PRK14574	822	hmsH outer membrane protein; Provisional	98.22
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.2
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	98.19
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.15
PRK11906	458	transcriptional regulator; Provisional	98.15
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	98.14
KOG1125	579	consensus TPR repeat-containing protein [General f	98.14
KOG2660	331	consensus Locus-specific chromosome binding protei	98.11
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.09
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	98.09
PRK14574	822	hmsH outer membrane protein; Provisional	98.08
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.07
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.07
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.06
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.06
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	98.03
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.01
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.0
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	97.99
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.98
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.98
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	97.97
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.93
KOG2076	895	consensus RNA polymerase III transcription factor	97.92
KOG0546	372	consensus HSP90 co-chaperone CPR7/Cyclophilin [Pos	97.91
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	97.89
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	97.88
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.88
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	97.85
PF13431	34	TPR_17: Tetratricopeptide repeat	97.85
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	97.84
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.84
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	97.82
PRK14720	906	transcript cleavage factor/unknown domain fusion p	97.8
KOG1941	518	consensus Acetylcholine receptor-associated protei	97.8
KOG4234	271	consensus TPR repeat-containing protein [General f	97.76
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	97.75
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	97.74
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.74
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.72
KOG1129	478	consensus TPR repeat-containing protein [General f	97.72
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	97.71
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.71
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.7
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.66
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.65
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	97.65
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.65
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.65
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	97.64
COG3118	304	Thioredoxin domain-containing protein [Posttransla	97.63
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	97.61
COG4105	254	ComL DNA uptake lipoprotein [General function pred	97.6
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	97.53
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	97.51
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	97.49
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	97.49
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	97.47
KOG2003	840	consensus TPR repeat-containing protein [General f	97.46
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	97.45
KOG0495	913	consensus HAT repeat protein [RNA processing and m	97.42
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.41
PF04781	111	DUF627: Protein of unknown function (DUF627); Inte	97.41
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	97.39
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	97.39
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	97.39
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.38
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	97.36
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.36
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.36
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.35
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	97.35
PF13431	34	TPR_17: Tetratricopeptide repeat	97.34
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.34
PF13428	44	TPR_14: Tetratricopeptide repeat	97.33
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	97.31
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.31
PF12968	144	DUF3856: Domain of Unknown Function (DUF3856); Int	97.3
KOG1128	777	consensus Uncharacterized conserved protein, conta	97.29
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	97.28
KOG1129	478	consensus TPR repeat-containing protein [General f	97.25
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	97.23
KOG1400	371	consensus Predicted ATP-dependent protease PIL, co	97.22
PRK14720	906	transcript cleavage factor/unknown domain fusion p	97.22
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	97.22
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	97.21
PF13428	44	TPR_14: Tetratricopeptide repeat	97.16
KOG3785	557	consensus Uncharacterized conserved protein [Funct	97.14
PRK10803	263	tol-pal system protein YbgF; Provisional	97.11
PF12688	120	TPR_5: Tetratrico peptide repeat	97.1
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.07
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	97.02
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	97.0
PF15015	569	NYD-SP12_N: Spermatogenesis-associated, N-terminal	96.99
KOG4507	886	consensus Uncharacterized conserved protein, conta	96.93
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	96.87
KOG0376	476	consensus Serine-threonine phosphatase 2A, catalyt	96.84
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	96.79
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	96.79
KOG0297	391	consensus TNF receptor-associated factor [Signal t	96.77
KOG4555	175	consensus TPR repeat-containing protein [Function	96.75
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	96.71
KOG4151	748	consensus Myosin assembly protein/sexual cycle pro	96.71
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	96.7
KOG0495	913	consensus HAT repeat protein [RNA processing and m	96.67
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	96.65
KOG2376	652	consensus Signal recognition particle, subunit Srp	96.64
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.64
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.64
KOG2376	652	consensus Signal recognition particle, subunit Srp	96.6
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	96.58
KOG4340	459	consensus Uncharacterized conserved protein [Funct	96.55
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	96.53
PF13512	142	TPR_18: Tetratricopeptide repeat	96.51
PRK15331	165	chaperone protein SicA; Provisional	96.45
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	96.38
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.31
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	96.3
COG5222	427	Uncharacterized conserved protein, contains RING Z	96.27
KOG4648	536	consensus Uncharacterized conserved protein, conta	96.26
KOG3364	149	consensus Membrane protein involved in organellar	96.23
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	96.22
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	96.19
KOG0545	329	consensus Aryl-hydrocarbon receptor-interacting pr	96.17
KOG3824	472	consensus Huntingtin interacting protein HYPE [Gen	96.12
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	96.04
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	96.02
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	96.02
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.0
PRK10941	269	hypothetical protein; Provisional	95.98
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	95.98
COG5219	1525	Uncharacterized conserved protein, contains RING Z	95.97
KOG4814	872	consensus Uncharacterized conserved protein [Funct	95.97
KOG1002	791	consensus Nucleotide excision repair protein RAD16	95.94
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.93
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	95.91
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	95.77
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	95.75
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	95.73
PRK10941	269	hypothetical protein; Provisional	95.71
KOG2796	366	consensus Uncharacterized conserved protein [Funct	95.61
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.59
KOG4340	459	consensus Uncharacterized conserved protein [Funct	95.59
KOG0551	390	consensus Hsp90 co-chaperone CNS1 (contains TPR re	95.56
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	95.56
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	95.53
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	95.49
KOG2471	696	consensus TPR repeat-containing protein [General f	95.47
KOG3785	557	consensus Uncharacterized conserved protein [Funct	95.41
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	95.06
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	95.05
KOG0825	1134	consensus PHD Zn-finger protein [General function	94.93
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	94.89
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.87
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	94.85
PF06957	422	COPI_C: Coatomer (COPI) alpha subunit C-terminus;	94.82
PF14561	90	TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S	94.78
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	94.68
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	94.67
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	94.66
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.65
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	94.62
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	94.6
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	94.59
COG4976	287	Predicted methyltransferase (contains TPR repeat)	94.53
KOG1586	288	consensus Protein required for fusion of vesicles	94.52
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	94.48
PF03704	146	BTAD: Bacterial transcriptional activator domain;	94.48
KOG4367	699	consensus Predicted Zn-finger protein [Function un	94.48
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	94.45
COG4976	287	Predicted methyltransferase (contains TPR repeat)	94.44
KOG2610	491	consensus Uncharacterized conserved protein [Funct	94.35
KOG4739	233	consensus Uncharacterized protein involved in syna	94.19
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	94.14
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	93.98
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	93.96
KOG1308	377	consensus Hsp70-interacting protein Hip/Transient	93.87
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	93.78
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	93.68
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	93.62
PF09986	214	DUF2225: Uncharacterized protein conserved in bact	93.62
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	93.61
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	93.6
KOG3824	472	consensus Huntingtin interacting protein HYPE [Gen	93.5
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	93.37
KOG2796	366	consensus Uncharacterized conserved protein [Funct	93.27
COG2912	269	Uncharacterized conserved protein [Function unknow	93.16
COG4700	251	Uncharacterized protein conserved in bacteria cont	93.03
KOG3364	149	consensus Membrane protein involved in organellar	93.02
KOG2610	491	consensus Uncharacterized conserved protein [Funct	92.89
KOG1915	677	consensus Cell cycle control protein (crooked neck	92.66
KOG1585	308	consensus Protein required for fusion of vesicles	92.66
PLN03077	857	Protein ECB2; Provisional	92.65
KOG3039	303	consensus Uncharacterized conserved protein [Funct	92.64
PF14561	90	TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S	92.39
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	92.35
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	92.3
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	92.27
KOG1941	518	consensus Acetylcholine receptor-associated protei	92.25
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	91.91
PRK04841	903	transcriptional regulator MalT; Provisional	91.9
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	91.81
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	91.77
COG2912	269	Uncharacterized conserved protein [Function unknow	91.69
KOG1001	674	consensus Helicase-like transcription factor HLTF/	91.57
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	91.52
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	91.35
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	91.31
PF04641	260	Rtf2: Rtf2 RING-finger	91.3
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	91.28
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	91.27
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	91.07
PLN03218	1060	maturation of RBCL 1; Provisional	90.63
PRK04841	903	transcriptional regulator MalT; Provisional	90.52
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	90.42
KOG1915	677	consensus Cell cycle control protein (crooked neck	90.37
COG5236	493	Uncharacterized conserved protein, contains RING Z	90.26
KOG4445	368	consensus Uncharacterized conserved protein, conta	90.19
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	90.07
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	90.05
COG5191	435	Uncharacterized conserved protein, contains HAT (H	90.03
KOG2471	696	consensus TPR repeat-containing protein [General f	89.99
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	89.97
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	89.81
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	89.71
PLN03218	1060	maturation of RBCL 1; Provisional	89.6
KOG1586	288	consensus Protein required for fusion of vesicles	89.4
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	88.91
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	88.85
KOG1585	308	consensus Protein required for fusion of vesicles	88.63
PF10516	38	SHNi-TPR: SHNi-TPR; InterPro: IPR019544 The tetrat	88.44
PF14863	141	Alkyl_sulf_dimr: Alkyl sulfatase dimerisation; PDB	88.16
COG5175	480	MOT2 Transcriptional repressor [Transcription]	88.13
KOG0292	1202	consensus Vesicle coat complex COPI, alpha subunit	88.0
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	87.71
PLN03077	857	Protein ECB2; Provisional	87.35
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	86.84
KOG3002	299	consensus Zn finger protein [General function pred	86.65
PRK13184	932	pknD serine/threonine-protein kinase; Reviewed	86.32
KOG0298	1394	consensus DEAD box-containing helicase-like transc	86.12
KOG0530	318	consensus Protein farnesyltransferase, alpha subun	85.86
COG3947	361	Response regulator containing CheY-like receiver a	85.65
KOG4507	886	consensus Uncharacterized conserved protein, conta	85.65
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	85.49
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	85.46
PF07720	36	TPR_3: Tetratricopeptide repeat; InterPro: IPR0117	85.24
COG3914	620	Spy Predicted O-linked N-acetylglucosamine transfe	84.94
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	84.89
cd02682	75	MIT_AAA_Arch MIT: domain contained within Microtub	84.47
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	84.32
KOG0530	318	consensus Protein farnesyltransferase, alpha subun	83.6
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	83.48
PHA02537	230	M terminase endonuclease subunit; Provisional	82.88
COG5191	435	Uncharacterized conserved protein, contains HAT (H	82.69
COG3629	280	DnrI DNA-binding transcriptional activator of the	82.38
KOG2042	943	consensus Ubiquitin fusion degradation protein-2 [	82.26
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	82.16
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	82.15
PHA03096	284	p28-like protein; Provisional	82.0
PF10516	38	SHNi-TPR: SHNi-TPR; InterPro: IPR019544 The tetrat	81.77
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	81.73
PF12862	94	Apc5: Anaphase-promoting complex subunit 5	81.67
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	81.15
PF12862	94	Apc5: Anaphase-promoting complex subunit 5	80.9
COG3898	531	Uncharacterized membrane-bound protein [Function u	80.26

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=99.93  E-value=1.3e-25  Score=244.04  Aligned_cols=174  Identities=19%  Similarity=0.258  Sum_probs=149.3

Q ss_pred             CCCcceee--cccCCCccCCCCCChhHHHHHHHHHhcCceeEEEEec------CCCCCcccceeEEEEEEeeecCCceEE
Q 011861          288 LMPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIID------PTTGSVADFACEVEITECEPLPDGRFV  359 (476)
Q Consensus       288 ~lPl~~l~--vlfP~~~~pl~v~~~~~~~~v~~a~~~~~~~~v~~~~------~~~~~l~~iGt~~~I~~~~~~~dG~~~  359 (476)
                      .+|+||++  |+|||+.+||+||+++|++|+++++.+++.||++++.      |..+++|+|||+|+|.++.++|||++.
T Consensus        10 ~LPLfPLr~~VLFPg~~lPL~Ife~R~i~~Ve~al~~~~~~gvv~~k~~~~~~p~~~dLy~VGtla~I~~~~~l~DG~~~   89 (784)
T PRK10787         10 EIPVLPLRDVVVYPHMVIPLFVGREKSIRCLEAAMDHDKKIMLVAQKEASTDEPGVNDLFTVGTVASILQMLKLPDGTVK   89 (784)
T ss_pred             eEEEEECCCceeCCCceeeeecCCHHHHHHHHHHHhcCCEEEEEEecCCCCCCCCcccccCccEEEEEEEeeECCCCeEE
Confidence            59999998  9999999999999999999999999999999999982      233579999999999999999999999


Q ss_pred             EEEEecceeEEeeeecCCCeeEEEEEEecCCCCCCcchhhhHHHHHHHHHHHHHHHHHHhHHhhHHHHHHHHHHhhcccC
Q 011861          360 LEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVM  439 (476)
Q Consensus       360 V~v~G~~R~~I~~~~~~~~~~~a~v~~l~d~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~~l~~il~~~~~  439 (476)
                      |+++|++||+|.++.+.+||++|+|++++++..    ...+.+++.+.+.+.+.++.......+.+          ....
T Consensus        90 Ilv~Gl~RfrI~~~~~~~py~~A~Ve~l~~~~~----~~~e~~al~~~ll~~~~~~~~l~~~~~~e----------~~~~  155 (784)
T PRK10787         90 VLVEGLQRARISALSDNGEHFSAKAEYLESPTI----DEREQEVLVRTAISQFEGYIKLNKKIPPE----------VLTS  155 (784)
T ss_pred             EEEEEEEEEEEEEEEcCCCCEEEEEEEecCCCC----CchHHHHHHHHHHHHHHHHHHhcccCCHH----------HHhh
Confidence            999999999999998999999999999987432    22345677788888888888877655441          1122


Q ss_pred             CCCCCChhhhHHHHHhcCCCChHHhHhhcccCCCCC
Q 011861          440 MPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRE  475 (476)
Q Consensus       440 ~~~~~~p~~l~~~va~~l~l~~~~kq~LLe~~d~~e  475 (476)
                      +...+||+.|+|++|+++|++.++||+|||+.|+.+
T Consensus       156 ~~~~ddp~~Lad~iA~~Lpl~~~eKQ~LLE~~d~~e  191 (784)
T PRK10787        156 LNSIDDPARLADTIAAHMPLKLADKQSVLEMSDVNE  191 (784)
T ss_pred             hhccccHHHHHHHHHHHCCCCHHHHHHHhcCCCHHH
Confidence            345689999999999999999999999999999753

>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

Probab=99.92  E-value=1.6e-24  Score=222.75  Aligned_cols=175  Identities=20%  Similarity=0.291  Sum_probs=154.7

Q ss_pred             CCCcceee--cccCCCccCCCCCChhHHHHHHHHHhcC-ceeEEEEe------cCCCCCcccceeEEEEEEeeecCCceE
Q 011861          288 LMPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGN-HRMGMVII------DPTTGSVADFACEVEITECEPLPDGRF  358 (476)
Q Consensus       288 ~lPl~~l~--vlfP~~~~pl~v~~~~~~~~v~~a~~~~-~~~~v~~~------~~~~~~l~~iGt~~~I~~~~~~~dG~~  358 (476)
                      .+|++|++  |+||+|++|+.|++++++.+++.++.++ +.+++++|      +|..+++|.+||+|+|.++.++|||++
T Consensus         9 ~lpvlplr~~vvfP~m~~pl~vgr~~si~ale~a~~~~~k~i~l~~qk~~~~d~p~~~dly~vGt~a~I~q~~~lpdg~~   88 (782)
T COG0466           9 ELPVLPLRDVVVFPGMVIPLFVGREKSIKALEEAMKNDQKYILLVTQKDASTDEPTEDDLYEVGTLAKILQILKLPDGTV   88 (782)
T ss_pred             cceeEEecCceeCCCceeeEEcCChhHHHHHHHHHhCCCCEEEEEEecccccCCCChhhhhhcchheeeeeeeeCCCCcE
Confidence            68999999  9999999999999999999999999996 88999998      344568999999999999999999999


Q ss_pred             EEEEEecceeEEeeeecCCCeeEEEEEEecCCCCCCcchhhhHHHHHHHHHHHHHHHHHHhHHhhHHHHHHHHHHhhccc
Q 011861          359 VLEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEV  438 (476)
Q Consensus       359 ~V~v~G~~R~~I~~~~~~~~~~~a~v~~l~d~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~~l~~il~~~~  438 (476)
                      +|+|+|++|++|.++...++++.|+++.+++.+.+   ...+++++.+.+...|.+|+..++.++.+          .+.
T Consensus        89 kvlveg~~R~~I~~~~~~~~~~~a~~~~i~~~~~~---~~~~~~al~~~i~~~~~~~~~l~~~~~~e----------~l~  155 (782)
T COG0466          89 KVLVEGLQRVRISKLSDEEEFFEAEIELLPDEPID---EEREIEALVRSILSEFEEYAKLNKKIPPE----------ELQ  155 (782)
T ss_pred             EEEEEeeeeEEEEeeccCCCceEEEEEecCCCccc---chhHHHHHHHHHHHHHHHHHHhccCCCHH----------HHH
Confidence            99999999999999999999999999999875432   14578999999999999999998866652          222


Q ss_pred             CCCCCCChhhhHHHHHhcCCCChHHhHhhcccCCCCC
Q 011861          439 MMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRE  475 (476)
Q Consensus       439 ~~~~~~~p~~l~~~va~~l~l~~~~kq~LLe~~d~~e  475 (476)
                      .+...++|+.|+|++|++++++.+++|++||+.|+.+
T Consensus       156 ~~~~i~~~~klad~iaa~l~~~~~~kQ~iLe~~~v~~  192 (782)
T COG0466         156 SLNSIDDPGKLADTIAAHLPLKLEEKQEILETLDVKE  192 (782)
T ss_pred             HHhcccchHHHHHHHHHhCCCCHHHHHHHHHhCCHHH
Confidence            2335699999999999999999999999999998753

>PF02190 LON: ATP-dependent protease La (LON) domain; InterPro: IPR003111 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families

Probab=99.91  E-value=9.5e-25  Score=202.95  Aligned_cols=178  Identities=28%  Similarity=0.527  Sum_probs=122.0

Q ss_pred             CCCcceee--cccCCCccCCCCCChhHHHHHHHHHhcCce-eEEEEe-c-------CCCCCcccceeEEEEEEeeecCCc
Q 011861          288 LMPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGNHR-MGMVII-D-------PTTGSVADFACEVEITECEPLPDG  356 (476)
Q Consensus       288 ~lPl~~l~--vlfP~~~~pl~v~~~~~~~~v~~a~~~~~~-~~v~~~-~-------~~~~~l~~iGt~~~I~~~~~~~dG  356 (476)
                      ++|+||++  |+|||+++|+++++++++.|+++++.+++. ||+++. .       +..+++|++||+|+|.++.+++||
T Consensus         1 ~lPv~pl~~~vlfPg~~~~i~i~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~G~~~~I~~~~~~~dg   80 (205)
T PF02190_consen    1 ELPVFPLRNQVLFPGQTLPIHIFEPRYIALLKRALDNNNPYFGIFLVKSNKDDSDEPSIDDLYSVGTLARIIRVEELPDG   80 (205)
T ss_dssp             EEEEEEESSS---TTBEEEEEE-SHHHHHHHHHHHTTTSE-EEEEEE-EBSSTSSSS-GGGB-SEEEEEEEEEEEESTTS
T ss_pred             CEEEEEeCCcccCCCeeEEEEECCHHHHHHHHHHHhcCCCceeEEeecccCCcccCCcccccccceEEEEEEEEEecCCC
Confidence            37999997  999999999999999999999999998775 888877 1       335679999999999999999999


Q ss_pred             eEEEEEEecceeEEeee---ecCCCeeEEEEEEecCC-CCCCcchhhhHHHHHHHHHHHHHHHHHHhHHh-hHHHHHHHH
Q 011861          357 RFVLEIESRRRFRILRS---WDQDGYRVAEIEWVQDI-HPEGVEDRADLQDLTNNAAEYARLWLRREKES-ARQDRRRLE  431 (476)
Q Consensus       357 ~~~V~v~G~~R~~I~~~---~~~~~~~~a~v~~l~d~-~~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~-~~~~~~~l~  431 (476)
                      ++.|.++|.+||+|.++   ..++||++|+|++++|. +....+...++.++...+.+.+.++....... +.       
T Consensus        81 ~~~v~~~g~~R~ki~~~~~~~~~~~~~~a~v~~l~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------  153 (205)
T PF02190_consen   81 TYKVLVQGLQRFKILKINNETQEDPYLVAEVEPLEDVEPPESDELDEEIKALLRELIKKIKEAYENLKELLPW-------  153 (205)
T ss_dssp             -EEEEEEEEEEEEEEEEEE--ECSSCEEEEEEEE-----GCGHHHHHHHHHHHHHHHHHHH---HHHCCC-CH-------
T ss_pred             CEEEEEEEEEEEEEEEEecccccCCceEEEEEEecccCccchhhhHHHHHHHHHHHHHHHHHHHHhhhcccch-------
Confidence            99999999999999999   56899999999999872 22222223344555554444444211222111 11       


Q ss_pred             HHhhcccCCCCCCChhhhHHHHHhcCCCChHHhHhhcccCCCCC
Q 011861          432 KLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRE  475 (476)
Q Consensus       432 ~il~~~~~~~~~~~p~~l~~~va~~l~l~~~~kq~LLe~~d~~e  475 (476)
                         +....+...++|..|+||+|+++|++.++||+||++.|+++
T Consensus       154 ---~~~~~~~~~~~~~~l~~~~~~~l~~~~~ek~~lL~~~~~~~  194 (205)
T PF02190_consen  154 ---DLLLKINNPDNPPELADFVASLLPLSPEEKQELLETDDLKE  194 (205)
T ss_dssp             ---HHHHHTTTHHHHHHHHHHHHHHS---HHHHHHHHC--SHHH
T ss_pred             ---hhhhhhhccCCHHHHHHHHHHhCCCCHHHHHHHHcCCCHHH
Confidence               11111345578888999999999999999999999998753

Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This signature defines the N-terminal domain of the archael, bacterial and eukaryotic lon proteases, which are ATP-dependent serine peptidases belonging to the MEROPS peptidase family S16 (lon protease family, clan SF). In the eukaryotes the majority of the proteins are located in the mitochondrial matrix [, ]. In yeast, Pim1, is located in the mitochondrial matrix, is required for mitochondrial function, is constitutively expressed but is increased after thermal stress, suggesting that Pim1 may play a role in the heat shock response [].; GO: 0004176 ATP-dependent peptidase activity, 0006508 proteolysis; PDB: 3LJC_A 2ANE_G 1ZBO_A 3M65_A.

>TIGR00763 lon ATP-dependent protease La

Probab=99.91  E-value=5.1e-24  Score=233.84  Aligned_cols=174  Identities=18%  Similarity=0.297  Sum_probs=145.6

Q ss_pred             Ccceee--cccCCCccCCCCCChhHHHHHHHHHhcCceeE-EEEec------CCCCCcccceeEEEEEEeeecCC---ce
Q 011861          290 PLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMG-MVIID------PTTGSVADFACEVEITECEPLPD---GR  357 (476)
Q Consensus       290 Pl~~l~--vlfP~~~~pl~v~~~~~~~~v~~a~~~~~~~~-v~~~~------~~~~~l~~iGt~~~I~~~~~~~d---G~  357 (476)
                      |+||++  |+|||+.+||+||+++|++|+++++.+++.|+ ++++.      |...++|+|||+|+|+++.++||   |+
T Consensus         1 Pl~PLr~~VLfPg~~lpL~Ife~r~i~mV~~al~~~~~~~~vv~~k~~~~~~p~~~~ly~VGt~a~I~~~~~~~d~~dG~   80 (775)
T TIGR00763         1 PLLPLRRRPLFPGMIKPIDVGREKSIKLIKEALRLKQPYLGLFLQKDDDNEEPEEDDIYSVGVVAQILEMLPLPSSGTAT   80 (775)
T ss_pred             CeEcCCCCccCCCcceeEecCCHHHHHHHHHHHhcCCcEEEEEEecCcccCCCCcccccCCceEEEEEEeccCCCCCCCe
Confidence            899997  99999999999999999999999999888887 66662      23457999999999999999555   99


Q ss_pred             EEEEEEecceeEEeeeecCCCeeEEEEEEecCCCCCCcchhhhHHHHHHHHHHHHHHHHHHhH--HhhHHHHHHHHHHhh
Q 011861          358 FVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREK--ESARQDRRRLEKLLN  435 (476)
Q Consensus       358 ~~V~v~G~~R~~I~~~~~~~~~~~a~v~~l~d~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~~--~~~~~~~~~l~~il~  435 (476)
                      +.|+|+|.+||+|.++.+++||++|+|+++++++..  ....++.++.+.+.+.+.++....+  ..+.+          
T Consensus        81 ~~Ilv~G~~R~rI~~~~~~~p~~~A~V~~l~~~~~~--~~~~e~~al~~~l~~~~~el~~l~~l~~~~~e----------  148 (775)
T TIGR00763        81 YKVVVEGLRRIRIKELSDKGGYLVVRVDNLKEEPFD--KDDEEIKALTREIKETFRELISLSKLFREQPA----------  148 (775)
T ss_pred             EEEEEEEEEEEEEEEEecCCCcEEEEEEEecCcCCC--CCcHHHHHHHHHHHHHHHHHHHhCccccCCHH----------
Confidence            999999999999999999999999999999875321  1234678899999999999987765  33331          


Q ss_pred             cccCCCCCCChhhhHHHHHhcCCCC-hHHhHhhcccCCCCC
Q 011861          436 VEVMMPPSQDPERFSFWLATLSDRR-PSERLELLRIRDTRE  475 (476)
Q Consensus       436 ~~~~~~~~~~p~~l~~~va~~l~l~-~~~kq~LLe~~d~~e  475 (476)
                      .+..+...+||++|+|++|++||++ .++||+|||+.|+.+
T Consensus       149 ~~~~~~~~~dp~~Lad~ia~~L~l~~~~eKQ~LLE~~d~~~  189 (775)
T TIGR00763       149 LLSALEDIDEPGRLADFVAASLQLKEKDELQEVLETVNIEK  189 (775)
T ss_pred             HHHHHhccCCHHHHHHHHHHhcCCCcHHHHHHHHhcCCHHH
Confidence            1112334589999999999999999 999999999999753

This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.

>COG2802 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]

Probab=99.90  E-value=9.3e-23  Score=183.02  Aligned_cols=174  Identities=30%  Similarity=0.475  Sum_probs=135.9

Q ss_pred             CCCCcceee--cccCCCccCCCCCChhHHHHHHHHHhcCceeEEEEecCC---C----CCcccceeEEEEEEeeecCCce
Q 011861          287 DLMPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPT---T----GSVADFACEVEITECEPLPDGR  357 (476)
Q Consensus       287 ~~lPl~~l~--vlfP~~~~pl~v~~~~~~~~v~~a~~~~~~~~v~~~~~~---~----~~l~~iGt~~~I~~~~~~~dG~  357 (476)
                      ..+|+|||+  |+|||..+|++||+++|..|++.++++++.||++..++.   .    ..+..|||+++|+++...+||+
T Consensus        10 ~~LplFPL~~~vLlPg~~LpL~IFEpRY~~Mv~~~~~~~r~fGvv~i~~~~~~~~~~~~~ls~VGcla~I~~~~~~~DGr   89 (221)
T COG2802          10 LELPLFPLPGAVLLPGGLLPLNIFEPRYLAMVRTCLAEGRRFGVVLIDRGREVGGGLPPELSDVGCLARITEFEELGDGR   89 (221)
T ss_pred             ceeeccccccccccCCCCCchhhccHHHHHHHHHHHhcCCceeEEEecccccccCCCcchhhccceeEEEeEeeEcCCCc
Confidence            469999996  999999999999999999999999999999999998652   1    2678999999999999999999


Q ss_pred             EEEEEEecceeEEeeeec-CCCeeEEEEEEecCCCCCCcchhhhHHH-HHHHHHHHHHHHHHHhHHhhHHHHHHHHHHhh
Q 011861          358 FVLEIESRRRFRILRSWD-QDGYRVAEIEWVQDIHPEGVEDRADLQD-LTNNAAEYARLWLRREKESARQDRRRLEKLLN  435 (476)
Q Consensus       358 ~~V~v~G~~R~~I~~~~~-~~~~~~a~v~~l~d~~~~~~~~~~~l~~-l~~~l~~~~~~~~~~~~~~~~~~~~~l~~il~  435 (476)
                      +.|.++|.+||||.++.. .+||.+|++++++|.+..... ..+++. +...+...++.|.+...-..        ++  
T Consensus        90 ~~I~~~G~~RFRv~~~~~~~~pyr~~~~~~~~D~~~~~~~-a~evdr~~~~~l~~~~r~~~~~~~l~~--------d~--  158 (221)
T COG2802          90 YLILVRGGQRFRVLEELADDDPYRRARVPFWPDLPSDPDG-AEEVDRRLDALLMRAARAYLQRLELLA--------DW--  158 (221)
T ss_pred             EEEEEEeEEEEEEEEEecccCcceeeccccCCCCccCcch-HHHHHHHHHHHHHHHHHHHhhhcchhh--------hh--
Confidence            999999999999999985 899999999999986543221 122222 11123333344443321111        11  


Q ss_pred             cccCCCCCCChhhhHHHHHhcCCCChHHhHhhcccCCCC
Q 011861          436 VEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTR  474 (476)
Q Consensus       436 ~~~~~~~~~~p~~l~~~va~~l~l~~~~kq~LLe~~d~~  474 (476)
                        . .-...++..+++.++..+|++..+||.+|+..|+.
T Consensus       159 --~-~~~~~~~~~l~n~L~~llp~~~~~k~~ll~a~d~~  194 (221)
T COG2802         159 --E-SYERASNADLANRLYMLLPFDPAEKQALLEAPDLP  194 (221)
T ss_pred             --c-ccccccHHHHHHHHHHhCCCChhHHHHHHhccchH
Confidence              1 12346789999999999999999999999998864

>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=99.88  E-value=2.3e-22  Score=199.03  Aligned_cols=276  Identities=32%  Similarity=0.616  Sum_probs=204.0

Q ss_pred             CCCCCCCCcccccccccccccCcEEccCCCcccHhhHHHhhhcCCCCcccccccccCC---CCcccchhHHHHHHHhCch
Q 011861          193 IHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITP---RTCAVSVTLNSIIQKNFPE  269 (476)
Q Consensus       193 ~~~~~~~~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~~~~---~~~~~n~~l~~~~~~~~~~  269 (476)
                      ..+......+|.|.+|...+..|+++||||+||..||.+.+.....||.||..+...+   ....+|+.+..++..|+++
T Consensus        75 ~s~~~~~~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e~~~~~~~~~~~r~~~~li~~F~~~  154 (398)
T KOG4159|consen   75 LSGPEEIRSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLDQETECPLCRDELVELPALEQALSLNRLLCKLITKFLEG  154 (398)
T ss_pred             hccCccccchhhhhhhHhhcCCCccccccccccHHHHHHHhccCCCCcccccccccchHHHHHHHHHHHHHHHHHHhhhh
Confidence            3344455789999999999999999999999999999998888888999999874221   1112366677888889988


Q ss_pred             HHhhhhhcchh-h--hcccCCCCCcceee-cccCCCccCCCCCChhHHHHHHHHHhc-CceeEEEEecCCCCC--cccce
Q 011861          270 EYAERKSEHDS-L--INFGVDLMPLFVMD-VVIPCQRFPLHIFEPRYRLMVRRIMEG-NHRMGMVIIDPTTGS--VADFA  342 (476)
Q Consensus       270 ~~~~~~~~~~~-~--~~~~~~~lPl~~l~-vlfP~~~~pl~v~~~~~~~~v~~a~~~-~~~~~v~~~~~~~~~--l~~iG  342 (476)
                      ....+...++. .  ........|+|++. +.||++..|+++++++|..|+++++.. +.+|+++..+...+.  .+.+|
T Consensus       155 ~~~~s~~~~~~~~~e~~~~e~~~p~f~v~~~~~p~v~cpl~vfe~~y~lm~~r~~~~~~~rf~i~~sd~~~~~~~~~e~g  234 (398)
T KOG4159|consen  155 SSSFSPKASEKSKEEESSRECESPLFPVCTLAFPEVPCPLQVFEPRYRLMIRRLLETGDKRFGICLSDSSKGSGQAAEIG  234 (398)
T ss_pred             hhccchhhhhhhccccccccccCCcccccccccccccCcHHHccchHHHHHHHHHhhcceeeeeecccccCCcchhhhcc
Confidence            77744333321 1  11233459999877 899999999999999999999999997 679999998765554  78999


Q ss_pred             eEEEEEEeeecCCceEEEEEEecceeEEeeeecCCCeeEEEEEEecCCC-C--CCcchhhhHHHHHHHHHHHHHHHHHHh
Q 011861          343 CEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIH-P--EGVEDRADLQDLTNNAAEYARLWLRRE  419 (476)
Q Consensus       343 t~~~I~~~~~~~dG~~~V~v~G~~R~~I~~~~~~~~~~~a~v~~l~d~~-~--~~~~~~~~l~~l~~~l~~~~~~~~~~~  419 (476)
                      ++.+|.++..+.||+..+...|..|+|+.....+++|.+|++++++|.+ .  ......+.+..++..+......|....
T Consensus       235 ~i~ei~~v~~l~dgrsv~~~~gk~r~r~~~~~~~d~y~~~~ve~l~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v  314 (398)
T KOG4159|consen  235 CILEIRKVESLGDGRSVVDSIGKSRFRVLLFSQTDGYPVADVEYLEDRPAVKVEGHDEPETLVELMKEVVKKECLWFESV  314 (398)
T ss_pred             chhhhcccccccccchhhhhhcCcceeeeeecCCCcceeeeeeeeeCcHHhhhccchhchhHHHHHHHHHHhhhhhhhcc
Confidence            9999999999999999999999999999999999999999999999843 1  111112223333334444344444333


Q ss_pred             HHhhHHHHHHHHHHhhcccCCC-------CCCChhhhHHHHHhcCCCChHHhHhhcccCCCC
Q 011861          420 KESARQDRRRLEKLLNVEVMMP-------PSQDPERFSFWLATLSDRRPSERLELLRIRDTR  474 (476)
Q Consensus       420 ~~~~~~~~~~l~~il~~~~~~~-------~~~~p~~l~~~va~~l~l~~~~kq~LLe~~d~~  474 (476)
                      .....      ..+...+..++       ...+...+++|....++++...+-.++.+.+..
T Consensus       315 ~~~~~------~~~~~~~~~~p~le~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~sl~  370 (398)
T KOG4159|consen  315 ADPMK------GRLLVHFGCMPFLEINFECLESGPAWCWWKTALLPSEARLKSEFLAMRSLK  370 (398)
T ss_pred             chhhh------hhhhhcccccccchhchhhhccchHHHHHHHhcCCcHHHHHHHHHhccchh
Confidence            22222      12222222222       224667889999999999999999998887754

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.84  E-value=8e-21  Score=177.72  Aligned_cols=125  Identities=23%  Similarity=0.392  Sum_probs=120.9

Q ss_pred             hhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHH
Q 011861           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (476)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (476)
                      +....|+.++.+|+.+++.++|++|+..|++||+++|+|+.+|.|||.+|.++|.|                       .
T Consensus        76 e~~~~AE~LK~eGN~~m~~~~Y~eAv~kY~~AI~l~P~nAVyycNRAAAy~~Lg~~-----------------------~  132 (304)
T KOG0553|consen   76 EDKALAESLKNEGNKLMKNKDYQEAVDKYTEAIELDPTNAVYYCNRAAAYSKLGEY-----------------------E  132 (304)
T ss_pred             hHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHhcch-----------------------H
Confidence            56778999999999999999999999999999999999999999999999999999                       9


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhhhh
Q 011861          122 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLI  189 (476)
Q Consensus       122 ~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~~~  189 (476)
                      .|++||+.|+.+||.+.++|.++|.+|+.+|+|++|+..|+++|+++|+|+..++.++.+++.+.+..
T Consensus       133 ~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~A~~aykKaLeldP~Ne~~K~nL~~Ae~~l~e~~  200 (304)
T KOG0553|consen  133 DAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEEAIEAYKKALELDPDNESYKSNLKIAEQKLNEPK  200 (304)
T ss_pred             HHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHHHHHHHHhhhccCCCcHHHHHHHHHHHHHhcCCC
Confidence            99999999999999999999999999999999999999999999999999999999999988887765

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.66  E-value=3.9e-16  Score=155.87  Aligned_cols=117  Identities=29%  Similarity=0.477  Sum_probs=112.4

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      .+...+.+|+.+|+.|||..|+.+|++||..+|+|+.+|+|||.||.++|.+                       ..|++
T Consensus       357 ~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~P~Da~lYsNRAac~~kL~~~-----------------------~~aL~  413 (539)
T KOG0548|consen  357 KAEEEREKGNEAFKKGDYPEAVKHYTEAIKRDPEDARLYSNRAACYLKLGEY-----------------------PEALK  413 (539)
T ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhhH-----------------------HHHHH
Confidence            3677888999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhh
Q 011861          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (476)
Q Consensus       126 ~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~  185 (476)
                      |+.++++++|++.++|+++|.++..+++|+.|++.|++++++||++..+...+.++..+.
T Consensus       414 Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eale~dp~~~e~~~~~~rc~~a~  473 (539)
T KOG0548|consen  414 DAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEALELDPSNAEAIDGYRRCVEAQ  473 (539)
T ss_pred             HHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999999999999999888887765

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=99.63  E-value=1.7e-15  Score=137.14  Aligned_cols=204  Identities=22%  Similarity=0.331  Sum_probs=162.4

Q ss_pred             chhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchH
Q 011861           41 WDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA  120 (476)
Q Consensus        41 ~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (476)
                      +.....+..+.++|+.+|....|..||++|.+||.++|+.+.+|.|||.||+++.+|                       
T Consensus         4 ~~~s~~a~qlkE~gnk~f~~k~y~~ai~~y~raI~~nP~~~~Y~tnralchlk~~~~-----------------------   60 (284)
T KOG4642|consen    4 PEMSESAEQLKEQGNKCFIPKRYDDAIDCYSRAICINPTVASYYTNRALCHLKLKHW-----------------------   60 (284)
T ss_pred             cccchHHHHHHhccccccchhhhchHHHHHHHHHhcCCCcchhhhhHHHHHHHhhhh-----------------------
Confidence            344556788999999999999999999999999999999999999999999999999                       


Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCC-----CCchhhHHHHHHHHh-----------
Q 011861          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP-----FSNPLQASLQNLERT-----------  184 (476)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p-----~~~~~~~~~~~~~~~-----------  184 (476)
                      +.+..++.+|++++||..+++|.+|.+++....|++|+..+++++.+-.     .-.++...+..+++.           
T Consensus        61 ~~v~~dcrralql~~N~vk~h~flg~~~l~s~~~~eaI~~Lqra~sl~r~~~~~~~~di~~~L~~ak~~~w~v~e~~Ri~  140 (284)
T KOG4642|consen   61 EPVEEDCRRALQLDPNLVKAHYFLGQWLLQSKGYDEAIKVLQRAYSLLREQPFTFGDDIPKALRDAKKKRWEVSEEKRIR  140 (284)
T ss_pred             hhhhhhHHHHHhcChHHHHHHHHHHHHHHhhccccHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHhCccchhHHHHHH
Confidence            9999999999999999999999999999999999999999999966421     122233333222210           


Q ss_pred             --------------------hhhhhcc---------------------------------cCCCCCCCCccccccccccc
Q 011861          185 --------------------TASLIGR---------------------------------RIHGTPERTDDFDCTLCLKL  211 (476)
Q Consensus       185 --------------------~~~~~~~---------------------------------~~~~~~~~~~~~~C~iC~~~  211 (476)
                                          ++....+                                 ........++.+.|.|.+++
T Consensus       141 Q~~El~~yl~slie~~~~~~~s~~~~N~~sde~~k~~q~~~~~~~d~~~kel~elf~~v~e~rk~rEvpd~lcgkIt~el  220 (284)
T KOG4642|consen  141 QELELHSYLESLIEGDRERELSEWQENGESDEHLKTMQVPIEQDHDHTTKELSELFSKVDEKRKKREVPDYLCGKITLEL  220 (284)
T ss_pred             HHhhHHHHHHHHhccchhhHHHHHHHcCCChHHHhhhcchhHHHHHHHHHHHHHHHHHHHHHhccccccchhhhhhhHHh
Confidence                                0100000                                 01123334556667899999


Q ss_pred             ccCcEEccCCCcccHhhHHHhhhc-CCCCcccccccccCCCCcccchhHHHHHHHhCch
Q 011861          212 LYEPITTPCGHSFCRSCLFQSMDR-GNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPE  269 (476)
Q Consensus       212 ~~~P~~~~cgh~fC~~Cl~~~~~~-~~~Cp~cr~~~~~~~~~~~~n~~l~~~~~~~~~~  269 (476)
                      +.+|+..|.|-+|-+.-|..++.+ +...|..|.++.  +..+.+|..|+..|..|+..
T Consensus       221 ~~~pvi~psgIty~ra~I~Ehl~rvghfdpvtr~~Lt--e~q~ipN~alkevIa~fl~~  277 (284)
T KOG4642|consen  221 MREPVITPSGITYDRADIEEHLQRVGHFDPVTRWPLT--EYQLIPNLALKEVIAAFLKE  277 (284)
T ss_pred             hcCCccCccccchhHHHHHHHHHHhccCCchhcccCC--HHhhccchHHHHHHHHHHHh
Confidence            999999999999999999999884 556899999874  46778899999988777543

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.62  E-value=1.6e-15  Score=151.61  Aligned_cols=113  Identities=35%  Similarity=0.461  Sum_probs=110.5

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      +..++++||..|..|||+.||.+|++||.++|.++.+|+||+.+|..+|+|                       .+|++|
T Consensus         2 a~e~k~kgnaa~s~~d~~~ai~~~t~ai~l~p~nhvlySnrsaa~a~~~~~-----------------------~~al~d   58 (539)
T KOG0548|consen    2 AVELKEKGNAAFSSGDFETAIRLFTEAIMLSPTNHVLYSNRSAAYASLGSY-----------------------EKALKD   58 (539)
T ss_pred             hhHHHHHHHhhcccccHHHHHHHHHHHHccCCCccchhcchHHHHHHHhhH-----------------------HHHHHH
Confidence            567889999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHH
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~  182 (476)
                      ..+.++++|+|+++|+++|.++..+|+|++|+..|.++|+.+|+|+.+..++.++.
T Consensus        59 a~k~~~l~p~w~kgy~r~Gaa~~~lg~~~eA~~ay~~GL~~d~~n~~L~~gl~~a~  114 (539)
T KOG0548|consen   59 ATKTRRLNPDWAKGYSRKGAALFGLGDYEEAILAYSEGLEKDPSNKQLKTGLAQAY  114 (539)
T ss_pred             HHHHHhcCCchhhHHHHhHHHHHhcccHHHHHHHHHHHhhcCCchHHHHHhHHHhh
Confidence            99999999999999999999999999999999999999999999999999999887

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.59  E-value=6.4e-15  Score=129.99  Aligned_cols=123  Identities=25%  Similarity=0.366  Sum_probs=113.9

Q ss_pred             hhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC-----cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcc
Q 011861           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD-----PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT  118 (476)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~-----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (476)
                      ..++..++..||.+|..|+|++|.+-|+.||.+.|.-     +.+|.|||.|+++++.|                     
T Consensus        92 ~~kad~lK~EGN~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~---------------------  150 (271)
T KOG4234|consen   92 IEKADSLKKEGNELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKW---------------------  150 (271)
T ss_pred             HHHHHHHHHHHHHhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhH---------------------
Confidence            3457789999999999999999999999999999975     48999999999999999                     


Q ss_pred             hHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhhhh
Q 011861          119 HAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLI  189 (476)
Q Consensus       119 ~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~~~  189 (476)
                        ..|+.+|.+||+++|.+.+|+.++|.+|-.+.+|++|+.+|++.++++|....++....++...+...+
T Consensus       151 --e~aI~dcsKaiel~pty~kAl~RRAeayek~ek~eealeDyKki~E~dPs~~ear~~i~rl~~~i~ern  219 (271)
T KOG4234|consen  151 --ESAIEDCSKAIELNPTYEKALERRAEAYEKMEKYEEALEDYKKILESDPSRREAREAIARLPPKINERN  219 (271)
T ss_pred             --HHHHHHHHhhHhcCchhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCcchHHHHHHHHhcCHHHHHHH
Confidence              999999999999999999999999999999999999999999999999999999888888776665544

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=99.57  E-value=1.3e-14  Score=141.56  Aligned_cols=126  Identities=25%  Similarity=0.402  Sum_probs=115.7

Q ss_pred             hhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC---------------cccccchhHHHHHHHhhhccCCCCCc
Q 011861           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---------------PIVLGNRSSAYIRISQFLKHRPPSAS  106 (476)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~---------------~~~~~~~a~~~~~~~~~~~~~~~~~~  106 (476)
                      +....|....+.||.+|+.|+|..|+..|.+|+..-..+               ..+|.|+|.||++++.|         
T Consensus       203 e~l~~A~~~ke~Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~---------  273 (397)
T KOG0543|consen  203 ERLEAADRKKERGNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEY---------  273 (397)
T ss_pred             HHHHHHHHHHHhhhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhH---------
Confidence            467788899999999999999999999999998874422               28899999999999999         


Q ss_pred             ccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhh
Q 011861          107 EYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  186 (476)
Q Consensus       107 ~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~  186 (476)
                                    .+|+..|+++|+++|+|.+|+|++|.|+..+|+|+.|+.+|+++++++|+|+++...+..+.+...
T Consensus       274 --------------~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~k~~  339 (397)
T KOG0543|consen  274 --------------KEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLKQKIR  339 (397)
T ss_pred             --------------HHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHH
Confidence                          999999999999999999999999999999999999999999999999999999999988888776


Q ss_pred             hhhc
Q 011861          187 SLIG  190 (476)
Q Consensus       187 ~~~~  190 (476)
                      ....
T Consensus       340 ~~~~  343 (397)
T KOG0543|consen  340 EYEE  343 (397)
T ss_pred             HHHH
Confidence            6543

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=99.57  E-value=8.3e-15  Score=138.78  Aligned_cols=121  Identities=25%  Similarity=0.332  Sum_probs=111.4

Q ss_pred             hhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHH
Q 011861           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (476)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (476)
                      ......-.++++||.||++|+|++||.||++++..+|.++..|.|||.+|+++.+|                       .
T Consensus        92 ~LL~~~SEiKE~GN~yFKQgKy~EAIDCYs~~ia~~P~NpV~~~NRA~AYlk~K~F-----------------------A  148 (536)
T KOG4648|consen   92 QLLKKASEIKERGNTYFKQGKYEEAIDCYSTAIAVYPHNPVYHINRALAYLKQKSF-----------------------A  148 (536)
T ss_pred             HHHHhhHHHHHhhhhhhhccchhHHHHHhhhhhccCCCCccchhhHHHHHHHHHHH-----------------------H
Confidence            34455667899999999999999999999999999999999999999999999999                       9


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhh
Q 011861          122 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (476)
Q Consensus       122 ~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~  185 (476)
                      .|..||..|+.+|-.+.++|.++|.+-..+|...+|..+++.+|++.|.+.++......+...+
T Consensus       149 ~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg~~~EAKkD~E~vL~LEP~~~ELkK~~a~i~Sl~  212 (536)
T KOG4648|consen  149 QAEEDCEAAIALDKLYVKAYSRRMQARESLGNNMEAKKDCETVLALEPKNIELKKSLARINSLR  212 (536)
T ss_pred             HHHHhHHHHHHhhHHHHHHHHHHHHHHHHHhhHHHHHHhHHHHHhhCcccHHHHHHHHHhcchH
Confidence            9999999999999999999999999999999999999999999999999888877666654433

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

Probab=99.56  E-value=1.9e-14  Score=142.04  Aligned_cols=127  Identities=25%  Similarity=0.389  Sum_probs=108.4

Q ss_pred             CCCCchhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCC
Q 011861           37 GSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDP  116 (476)
Q Consensus        37 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  116 (476)
                      .....+..+.+.+++.+||.+|+.|+|++||++|++||+++|+.+.+|+|||.||..+|+|                   
T Consensus       105 a~~~e~~~k~A~~lK~~GN~~f~~kkY~eAIkyY~~AI~l~p~epiFYsNraAcY~~lgd~-------------------  165 (606)
T KOG0547|consen  105 AMLKEERLKYAAALKTKGNKFFRNKKYDEAIKYYTQAIELCPDEPIFYSNRAACYESLGDW-------------------  165 (606)
T ss_pred             ccChHHHHHHHHHHHhhhhhhhhcccHHHHHHHHHHHHhcCCCCchhhhhHHHHHHHHhhH-------------------
Confidence            3344456677889999999999999999999999999999999999999999999999999                   


Q ss_pred             cchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCC-CCchhhHHHHHHHHhhh
Q 011861          117 TTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP-FSNPLQASLQNLERTTA  186 (476)
Q Consensus       117 ~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p-~~~~~~~~~~~~~~~~~  186 (476)
                          .+.++++.+|++++|++.++++|++.++-.+|++.+|+.+.....-+.. .|..+...+.++-+.++
T Consensus       166 ----~~Vied~TkALEl~P~Y~KAl~RRA~A~E~lg~~~eal~D~tv~ci~~~F~n~s~~~~~eR~Lkk~a  232 (606)
T KOG0547|consen  166 ----EKVIEDCTKALELNPDYVKALLRRASAHEQLGKFDEALFDVTVLCILEGFQNASIEPMAERVLKKQA  232 (606)
T ss_pred             ----HHHHHHHHHHhhcCcHHHHHHHHHHHHHHhhccHHHHHHhhhHHHHhhhcccchhHHHHHHHHHHHH
Confidence                9999999999999999999999999999999999999999886554443 34444444444444443

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=99.53  E-value=3.2e-14  Score=143.16  Aligned_cols=119  Identities=26%  Similarity=0.417  Sum_probs=113.9

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      +..+..+|+.+|..|+|++|+.+|++|++++|+++.+|.+||.+|..+|++                       ++|+.+
T Consensus         2 ~~~l~~~a~~a~~~~~~~~Ai~~~~~Al~~~P~~~~a~~~~a~~~~~~g~~-----------------------~eAl~~   58 (356)
T PLN03088          2 AKDLEDKAKEAFVDDDFALAVDLYTQAIDLDPNNAELYADRAQANIKLGNF-----------------------TEAVAD   58 (356)
T ss_pred             cHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH-----------------------HHHHHH
Confidence            346888999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhhh
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  188 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~~  188 (476)
                      +++|++++|+++.+|+++|.+|+.+|+|++|+..|+++++++|++..+...+..++..+...
T Consensus        59 ~~~Al~l~P~~~~a~~~lg~~~~~lg~~~eA~~~~~~al~l~P~~~~~~~~l~~~~~kl~~~  120 (356)
T PLN03088         59 ANKAIELDPSLAKAYLRKGTACMKLEEYQTAKAALEKGASLAPGDSRFTKLIKECDEKIAEE  120 (356)
T ss_pred             HHHHHHhCcCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhh
Confidence            99999999999999999999999999999999999999999999999999999998888654

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=99.50  E-value=1.5e-13  Score=120.21  Aligned_cols=116  Identities=12%  Similarity=0.165  Sum_probs=109.3

Q ss_pred             HHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHH
Q 011861           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (476)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (476)
                      .+...|..++..|+|++|+..|.+++.++|.++.+|.++|.++..+|++                       ++|+..|+
T Consensus        26 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~-----------------------~~A~~~y~   82 (144)
T PRK15359         26 TVYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEY-----------------------TTAINFYG   82 (144)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhH-----------------------HHHHHHHH
Confidence            3566899999999999999999999999999999999999999999999                       99999999


Q ss_pred             HHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhh
Q 011861          129 KLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  187 (476)
Q Consensus       129 ~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~  187 (476)
                      ++++++|+++.+++++|.++..+|++++|+..|.++++++|++.........++..+..
T Consensus        83 ~Al~l~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~~~~~~~~~~~~l~~  141 (144)
T PRK15359         83 HALMLDASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYADASWSEIRQNAQIMVDT  141 (144)
T ss_pred             HHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999988887777666544

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=99.40  E-value=8.5e-13  Score=128.21  Aligned_cols=125  Identities=23%  Similarity=0.359  Sum_probs=114.8

Q ss_pred             hhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC----cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCc
Q 011861           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD----PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPT  117 (476)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (476)
                      -..+..+.+.+.||..|+.|+|..|-++|++||.++|++    +.+|.|||.++.++|+.                    
T Consensus       244 ~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl--------------------  303 (486)
T KOG0550|consen  244 MMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRL--------------------  303 (486)
T ss_pred             hhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCc--------------------
Confidence            344567788999999999999999999999999999986    47899999999999999                    


Q ss_pred             chHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhhhhc
Q 011861          118 THAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIG  190 (476)
Q Consensus       118 ~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~~~~  190 (476)
                         .+|+.+|+.|+.+||...++|.++|.|++.+++|++|.++|++++++..+ ...+..+.+++..|.+...
T Consensus       304 ---~eaisdc~~Al~iD~syikall~ra~c~l~le~~e~AV~d~~~a~q~~~s-~e~r~~l~~A~~aLkkSkR  372 (486)
T KOG0550|consen  304 ---REAISDCNEALKIDSSYIKALLRRANCHLALEKWEEAVEDYEKAMQLEKD-CEIRRTLREAQLALKKSKR  372 (486)
T ss_pred             ---hhhhhhhhhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc-cchHHHHHHHHHHHHHhhh
Confidence               99999999999999999999999999999999999999999999998866 7788888888888877654

>KOG0376 consensus Serine-threonine phosphatase 2A, catalytic subunit [General function prediction only]

Probab=99.39  E-value=7.2e-13  Score=131.78  Aligned_cols=121  Identities=21%  Similarity=0.309  Sum_probs=116.7

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      .+..+..+|+.+|..++|+.|+..|++||+++|+.+.++.+||++|++.++|                       ..|+.
T Consensus         3 ~a~e~k~ean~~l~~~~fd~avdlysKaI~ldpnca~~~anRa~a~lK~e~~-----------------------~~Al~   59 (476)
T KOG0376|consen    3 SAEELKNEANEALKDKVFDVAVDLYSKAIELDPNCAIYFANRALAHLKVESF-----------------------GGALH   59 (476)
T ss_pred             hhhhhhhHHhhhcccchHHHHHHHHHHHHhcCCcceeeechhhhhheeechh-----------------------hhHHH
Confidence            4677889999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhhhh
Q 011861          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLI  189 (476)
Q Consensus       126 ~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~~~  189 (476)
                      |+.+|++++|...++|+++|.+++.+++|.+|+.+|+....+.|+++.+...+.++++.+.+..
T Consensus        60 Da~kaie~dP~~~K~Y~rrg~a~m~l~~~~~A~~~l~~~~~l~Pnd~~~~r~~~Ec~~~vs~~~  123 (476)
T KOG0376|consen   60 DALKAIELDPTYIKAYVRRGTAVMALGEFKKALLDLEKVKKLAPNDPDATRKIDECNKIVSEEK  123 (476)
T ss_pred             HHHhhhhcCchhhheeeeccHHHHhHHHHHHHHHHHHHhhhcCcCcHHHHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999999999999999999999999999888754

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=99.39  E-value=3.5e-12  Score=110.07  Aligned_cols=118  Identities=10%  Similarity=0.111  Sum_probs=110.7

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      .+......|..++..|++++|+..|++++..+|.++.++.++|.+|..+|++                       ++|+.
T Consensus        16 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~-----------------------~~A~~   72 (135)
T TIGR02552        16 QLEQIYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEY-----------------------EEAID   72 (135)
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHH-----------------------HHHHH
Confidence            4566889999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhh
Q 011861          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  186 (476)
Q Consensus       126 ~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~  186 (476)
                      .++++++++|+++..++.+|.++...|++++|+..|+++++++|++.........+.+.+.
T Consensus        73 ~~~~~~~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~  133 (135)
T TIGR02552        73 AYALAAALDPDDPRPYFHAAECLLALGEPESALKALDLAIEICGENPEYSELKERAEAMLE  133 (135)
T ss_pred             HHHHHHhcCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999999999999999998877777766553

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=99.34  E-value=9.7e-12  Score=107.84  Aligned_cols=121  Identities=9%  Similarity=-0.021  Sum_probs=108.5

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      ...+.++..|..++..|++++|...|.-...++|.++..|+++|.++..+|+|                       .+|+
T Consensus        33 ~~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~-----------------------~~AI   89 (157)
T PRK15363         33 QPLNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHW-----------------------GEAI   89 (157)
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhH-----------------------HHHH
Confidence            45667888999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhhh
Q 011861          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  188 (476)
Q Consensus       125 ~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~~  188 (476)
                      ..|.+|+.++|+++.++++.|.|++.+|+.+.|++.|+.++.....++.-....++.+..++..
T Consensus        90 ~aY~~A~~L~~ddp~~~~~ag~c~L~lG~~~~A~~aF~~Ai~~~~~~~~~~~l~~~A~~~L~~l  153 (157)
T PRK15363         90 YAYGRAAQIKIDAPQAPWAAAECYLACDNVCYAIKALKAVVRICGEVSEHQILRQRAEKMLQQL  153 (157)
T ss_pred             HHHHHHHhcCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHHhccChhHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999999999988755555555555565555543

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=99.28  E-value=1.9e-11  Score=112.84  Aligned_cols=115  Identities=12%  Similarity=0.152  Sum_probs=103.9

Q ss_pred             hhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHH-HHHHh--hhccCCCCCcccCCCCCCCCcchH
Q 011861           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAY-IRISQ--FLKHRPPSASEYRPLNGLDPTTHA  120 (476)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~-~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~  120 (476)
                      ..++..+...|..+...|++++|+..|.+|++++|+++.++.++|.++ ...|+  +                       
T Consensus        70 P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~-----------------------  126 (198)
T PRK10370         70 PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMT-----------------------  126 (198)
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCc-----------------------
Confidence            345678899999999999999999999999999999999999999985 67777  5                       


Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      ++|.+.++++++++|++..+++.+|.+++..|+|++|+..++++++++|.+.+-...++.+
T Consensus       127 ~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~~~~~~r~~~i~~i  187 (198)
T PRK10370        127 PQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKVLDLNSPRVNRTQLVESI  187 (198)
T ss_pred             HHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCccHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999877655544443

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.25  E-value=1.8e-11  Score=120.41  Aligned_cols=106  Identities=19%  Similarity=0.145  Sum_probs=102.1

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      ..+..+...|..+...|++++|+..|++|++++|+++.+|.++|.+|..+|++                       ++|+
T Consensus        62 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~-----------------------~~A~  118 (296)
T PRK11189         62 ERAQLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNF-----------------------DAAY  118 (296)
T ss_pred             hhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCH-----------------------HHHH
Confidence            44677999999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCch
Q 011861          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (476)
Q Consensus       125 ~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~  173 (476)
                      ..++++++++|++..+++++|.++...|++++|+..|+++++++|+++.
T Consensus       119 ~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~P~~~~  167 (296)
T PRK11189        119 EAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDDPNDPY  167 (296)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHH
Confidence            9999999999999999999999999999999999999999999999873

>KOG0551 consensus Hsp90 co-chaperone CNS1 (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=99.20  E-value=6.5e-11  Score=112.38  Aligned_cols=107  Identities=26%  Similarity=0.443  Sum_probs=97.9

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc----ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA  120 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (476)
                      ..|..+++.||.||+..+|..|+..|+++|+-.-.|+    .+|.|||.|.+.+|+|                       
T Consensus        79 E~Aen~KeeGN~~fK~Kryk~A~~~Yt~Glk~kc~D~dlnavLY~NRAAa~~~l~Ny-----------------------  135 (390)
T KOG0551|consen   79 EQAENYKEEGNEYFKEKRYKDAVESYTEGLKKKCADPDLNAVLYTNRAAAQLYLGNY-----------------------  135 (390)
T ss_pred             HHHHHHHHHhHHHHHhhhHHHHHHHHHHHHhhcCCCccHHHHHHhhHHHHHHHHHHH-----------------------
Confidence            4688999999999999999999999999999866654    8899999999999999                       


Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchh
Q 011861          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  174 (476)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~  174 (476)
                      ..|+.||.+|+.++|.+.++|++-|.|++.+.++.+|..+...+++++-..+.+
T Consensus       136 Rs~l~Dcs~al~~~P~h~Ka~~R~Akc~~eLe~~~~a~nw~ee~~~~d~e~K~~  189 (390)
T KOG0551|consen  136 RSALNDCSAALKLKPTHLKAYIRGAKCLLELERFAEAVNWCEEGLQIDDEAKKA  189 (390)
T ss_pred             HHHHHHHHHHHhcCcchhhhhhhhhHHHHHHHHHHHHHHHHhhhhhhhHHHHHH
Confidence            999999999999999999999999999999999999999999998876444443

>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=99.20  E-value=7.8e-11  Score=127.72  Aligned_cols=106  Identities=29%  Similarity=0.405  Sum_probs=99.0

Q ss_pred             hhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHH
Q 011861           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (476)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (476)
                      ...+..++++|+.+|+.|+|++||..|++++++.|+ +.+|.++|.||..+|+|                       ++|
T Consensus       124 ~~~a~~~k~~G~~~~~~~~~~~Ai~~y~~al~~~p~-~~~~~n~a~~~~~l~~~-----------------------~~A  179 (615)
T TIGR00990       124 KKYAAKLKEKGNKAYRNKDFNKAIKLYSKAIECKPD-PVYYSNRAACHNALGDW-----------------------EKV  179 (615)
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-hHHHHHHHHHHHHhCCH-----------------------HHH
Confidence            445778999999999999999999999999999995 78999999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCch
Q 011861          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (476)
Q Consensus       124 ~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~  173 (476)
                      +.++.+|++++|++.++++++|.+|..+|+|++|+.+|..++.+++.+..
T Consensus       180 i~~~~~al~l~p~~~~a~~~~a~a~~~lg~~~eA~~~~~~~~~~~~~~~~  229 (615)
T TIGR00990       180 VEDTTAALELDPDYSKALNRRANAYDGLGKYADALLDLTASCIIDGFRNE  229 (615)
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccH
Confidence            99999999999999999999999999999999999999988887766554

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

Probab=99.17  E-value=8e-11  Score=119.49  Aligned_cols=108  Identities=17%  Similarity=0.136  Sum_probs=92.0

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHH
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (476)
                      .++...|-.|-++|++++||.+|++||+++|+.+++|+|+|..|-.+|+-                       ..|+.+|
T Consensus       389 aa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~~NmGnt~ke~g~v-----------------------~~A~q~y  445 (966)
T KOG4626|consen  389 AAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADALSNMGNTYKEMGDV-----------------------SAAIQCY  445 (966)
T ss_pred             hhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHHHHhcchHHHHhhhH-----------------------HHHHHHH
Confidence            34455667777888888888888888888888888888888888888888                       8999999


Q ss_pred             HHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHH
Q 011861          128 EKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASL  178 (476)
Q Consensus       128 ~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~  178 (476)
                      .+|+.++|.+.++|.++|.+|...|..++|++.|+.+|+++|+.+++.-++
T Consensus       446 ~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~cNl  496 (966)
T KOG4626|consen  446 TRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAYCNL  496 (966)
T ss_pred             HHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhhhHH
Confidence            999999999999999999999999999999999999999999888875444

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

Probab=99.16  E-value=4.1e-11  Score=121.56  Aligned_cols=115  Identities=26%  Similarity=0.274  Sum_probs=90.7

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      +.++...|+.|-..+.|++|+.+|.+|+.+.|+.+.+|.|+|.+|+..|+.                       +-||..
T Consensus       252 ~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lrpn~A~a~gNla~iYyeqG~l-----------------------dlAI~~  308 (966)
T KOG4626|consen  252 LDAYINLGNVYKEARIFDRAVSCYLRALNLRPNHAVAHGNLACIYYEQGLL-----------------------DLAIDT  308 (966)
T ss_pred             hHHHhhHHHHHHHHhcchHHHHHHHHHHhcCCcchhhccceEEEEeccccH-----------------------HHHHHH
Confidence            355666777777777777777777777777777777777777777777777                       888888


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHh
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERT  184 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~  184 (476)
                      |++|++++|+++.+|.++|.++-..|+..+|.+.|+++|.+.|+.++++.++..+...
T Consensus       309 Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~hadam~NLgni~~E  366 (966)
T KOG4626|consen  309 YKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPNHADAMNNLGNIYRE  366 (966)
T ss_pred             HHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCccHHHHHHHHHHHHH
Confidence            8888888888888888888888888888888888888888888888887777665443

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.11  E-value=2e-10  Score=109.46  Aligned_cols=116  Identities=17%  Similarity=0.279  Sum_probs=107.7

Q ss_pred             hhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHH
Q 011861           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (476)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (476)
                      ....+....+.|+.++..|+|..|+.+|-.|++.+|++..+++.||.+|+.+|+-                       ..
T Consensus        34 ~~advekhlElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGks-----------------------k~   90 (504)
T KOG0624|consen   34 SPADVEKHLELGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKS-----------------------KA   90 (504)
T ss_pred             CHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCC-----------------------cc
Confidence            3456888999999999999999999999999999999999999999999999999                       99


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          123 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       123 a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      |+.|+.+++++.|++..+...+|.+++..|+++.|.++|...++.+|++....+...++
T Consensus        91 al~Dl~rVlelKpDF~~ARiQRg~vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl  149 (504)
T KOG0624|consen   91 ALQDLSRVLELKPDFMAARIQRGVVLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKL  149 (504)
T ss_pred             chhhHHHHHhcCccHHHHHHHhchhhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHH
Confidence            99999999999999999999999999999999999999999999999777665544443

>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=99.10  E-value=1.1e-10  Score=88.37  Aligned_cols=67  Identities=27%  Similarity=0.461  Sum_probs=64.9

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHH-hhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRIS-QFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      ++..+...|..++..|+|++|+..|++|++++|+++.+|+++|.+|..+| ++                       .+|+
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~-----------------------~~A~   58 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDY-----------------------EEAI   58 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHH-----------------------HHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccH-----------------------HHHH
Confidence            47789999999999999999999999999999999999999999999999 89                       9999


Q ss_pred             HHHHHHhhccc
Q 011861          125 KDAEKLLNLQS  135 (476)
Q Consensus       125 ~~~~~al~l~p  135 (476)
                      ++++++++++|
T Consensus        59 ~~~~~al~l~P   69 (69)
T PF13414_consen   59 EDFEKALKLDP   69 (69)
T ss_dssp             HHHHHHHHHST
T ss_pred             HHHHHHHHcCc
Confidence            99999999998

...

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.09  E-value=5.1e-10  Score=101.70  Aligned_cols=108  Identities=19%  Similarity=0.137  Sum_probs=100.4

Q ss_pred             chhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchH
Q 011861           41 WDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA  120 (476)
Q Consensus        41 ~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (476)
                      .+....+....+.|-.|+.+||+..|...+.+||+.||++..+|..||.+|.+.|+.                       
T Consensus        29 ~~~~~aa~arlqLal~YL~~gd~~~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~-----------------------   85 (250)
T COG3063          29 TDRNEAAKARLQLALGYLQQGDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGEN-----------------------   85 (250)
T ss_pred             ccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCh-----------------------
Confidence            445556778889999999999999999999999999999999999999999999999                       


Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCc
Q 011861          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (476)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~  172 (476)
                      +.|-+.|++|+.++|++...+.+.|.-++..|+|++|...|.+++. +|...
T Consensus        86 ~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~qg~~~eA~q~F~~Al~-~P~Y~  136 (250)
T COG3063          86 DLADESYRKALSLAPNNGDVLNNYGAFLCAQGRPEEAMQQFERALA-DPAYG  136 (250)
T ss_pred             hhHHHHHHHHHhcCCCccchhhhhhHHHHhCCChHHHHHHHHHHHh-CCCCC
Confidence            9999999999999999999999999999999999999999999987 45443

>smart00504 Ubox Modified RING finger domain

Probab=99.09  E-value=1.2e-10  Score=86.62  Aligned_cols=63  Identities=21%  Similarity=0.381  Sum_probs=55.1

Q ss_pred             ccccccccccccCcEEccCCCcccHhhHHHhhhcCCCCcccccccccCCCCcccchhHHHHHHHh
Q 011861          202 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKN  266 (476)
Q Consensus       202 ~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~~~~~~~~~n~~l~~~~~~~  266 (476)
                      ++.|++|.+.+.+|+.++|||+||+.||.+|+.....||.|+..+.  ..++..|..+++.+++|
T Consensus         1 ~~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~--~~~l~~~~~l~~~i~~~   63 (63)
T smart00504        1 EFLCPISLEVMKDPVILPSGQTYERRAIEKWLLSHGTDPVTGQPLT--HEDLIPNLALKSAIQEW   63 (63)
T ss_pred             CcCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCC--hhhceeCHHHHHHHHhC
Confidence            3689999999999999999999999999999988778999999873  36778888888887654

Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=99.09  E-value=4.9e-10  Score=93.82  Aligned_cols=109  Identities=14%  Similarity=0.078  Sum_probs=99.2

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC---cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (476)
                      ...++..|..++..|+|++|+..|.+++..+|++   +.+++.+|.+++..|++                       +.|
T Consensus         2 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----------------------~~A   58 (119)
T TIGR02795         2 EEAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKY-----------------------ADA   58 (119)
T ss_pred             cHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccH-----------------------HHH
Confidence            3567889999999999999999999999999876   46899999999999999                       999


Q ss_pred             HHHHHHHhhccccc---hHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHH
Q 011861          124 LKDAEKLLNLQSNS---MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASL  178 (476)
Q Consensus       124 ~~~~~~al~l~p~~---~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~  178 (476)
                      +..+.+++..+|++   +.+++.+|.++..+|++++|...+.++++..|++..+....
T Consensus        59 ~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~  116 (119)
T TIGR02795        59 AKAFLAVVKKYPKSPKAPDALLKLGMSLQELGDKEKAKATLQQVIKRYPGSSAAKLAQ  116 (119)
T ss_pred             HHHHHHHHHHCCCCCcccHHHHHHHHHHHHhCChHHHHHHHHHHHHHCcCChhHHHHH
Confidence            99999999999885   67899999999999999999999999999999987765543

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.

>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis

Probab=99.06  E-value=1.1e-10  Score=89.24  Aligned_cols=68  Identities=26%  Similarity=0.478  Sum_probs=55.2

Q ss_pred             CcccccccccccccCcEEccCCCcccHhhHHHhhhc-CCCCcccccccccCCCCcccchhHHHHHHHhCch
Q 011861          200 TDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR-GNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPE  269 (476)
Q Consensus       200 ~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~-~~~Cp~cr~~~~~~~~~~~~n~~l~~~~~~~~~~  269 (476)
                      ++.|.|+|+.++|.+||.++|||+|++.||.+|+.. +..||.|+..+.  ..++..|..|++.+++|..+
T Consensus         2 P~~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~--~~~l~pn~~Lk~~I~~~~~~   70 (73)
T PF04564_consen    2 PDEFLCPITGELMRDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLS--ESDLIPNRALKSAIEEWCAE   70 (73)
T ss_dssp             SGGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-S--GGGSEE-HHHHHHHHHHHHH
T ss_pred             CcccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCC--cccceECHHHHHHHHHHHHH
Confidence            578999999999999999999999999999999997 778999999874  36788999999999888643

Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....

>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=99.04  E-value=1.9e-09  Score=84.58  Aligned_cols=99  Identities=28%  Similarity=0.447  Sum_probs=93.8

Q ss_pred             HHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHH
Q 011861           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (476)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (476)
                      .+...|..++..|++++|+..+.++++..|++..++..+|.++...+++                       ++|++.+.
T Consensus         2 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------------~~a~~~~~   58 (100)
T cd00189           2 ALLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKY-----------------------EEALEDYE   58 (100)
T ss_pred             HHHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHH-----------------------HHHHHHHH
Confidence            3567899999999999999999999999999999999999999999999                       99999999


Q ss_pred             HHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCC
Q 011861          129 KLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF  170 (476)
Q Consensus       129 ~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~  170 (476)
                      +++.+.|.+..+++.+|.++...|+++.|...+.++++.+|.
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~  100 (100)
T cd00189          59 KALELDPDNAKAYYNLGLAYYKLGKYEEALEAYEKALELDPN  100 (100)
T ss_pred             HHHhCCCcchhHHHHHHHHHHHHHhHHHHHHHHHHHHccCCC
Confidence            999999999999999999999999999999999999988763

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

Probab=99.04  E-value=4.2e-10  Score=115.70  Aligned_cols=118  Identities=14%  Similarity=0.180  Sum_probs=109.4

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      .+.|-..||-+-.+++++.||++|.+|+++||+++-+|..+|-=+.....|                       +.|...
T Consensus       421 PesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~-----------------------d~a~~~  477 (638)
T KOG1126|consen  421 PESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEF-----------------------DKAMKS  477 (638)
T ss_pred             cHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHH-----------------------HhHHHH
Confidence            467788899999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhh
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  187 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~  187 (476)
                      |++|+.++|.++.|||.+|.+|+..++++.|.-+|++|+++||.|..+.--+......++.
T Consensus       478 fr~Al~~~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~  538 (638)
T KOG1126|consen  478 FRKALGVDPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKR  538 (638)
T ss_pred             HHhhhcCCchhhHHHHhhhhheeccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhh
Confidence            9999999999999999999999999999999999999999999999987766665555444

>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A

Probab=99.01  E-value=2e-10  Score=77.36  Aligned_cols=38  Identities=50%  Similarity=1.238  Sum_probs=30.1

Q ss_pred             cccccccccCcEEccCCCcccHhhHHHhhhcC----CCCccc
Q 011861          205 CTLCLKLLYEPITTPCGHSFCRSCLFQSMDRG----NKCPLC  242 (476)
Q Consensus       205 C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~~----~~Cp~c  242 (476)
                      |+||++++.+|++++|||+||..||.+++...    ..||.|
T Consensus         1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            89999999999999999999999999988732    358887

>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=99.00  E-value=4.1e-10  Score=85.17  Aligned_cols=67  Identities=22%  Similarity=0.298  Sum_probs=64.9

Q ss_pred             CcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhh-hHHHHH
Q 011861           80 DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLE-RYDMAR  158 (476)
Q Consensus        80 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~-~~~~A~  158 (476)
                      ++.+|.++|.+++..|+|                       ++|+..|.++++++|+++.+|+++|.++..+| ++++|+
T Consensus         2 ~a~~~~~~g~~~~~~~~~-----------------------~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~   58 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDY-----------------------EEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAI   58 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHH-----------------------HHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHH
Confidence            567899999999999999                       99999999999999999999999999999999 899999


Q ss_pred             HHHhcccccCC
Q 011861          159 DAILSGLQVDP  169 (476)
Q Consensus       159 ~~~~~~l~l~p  169 (476)
                      .+++++++++|
T Consensus        59 ~~~~~al~l~P   69 (69)
T PF13414_consen   59 EDFEKALKLDP   69 (69)
T ss_dssp             HHHHHHHHHST
T ss_pred             HHHHHHHHcCc
Confidence            99999999998

...

>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=98.99  E-value=1.5e-09  Score=117.80  Aligned_cols=114  Identities=17%  Similarity=0.159  Sum_probs=104.2

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      ..+..+...|..++..|++++|+..|.++++++|++...|.++|.++..+|++                       ++|+
T Consensus       329 ~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P~~~~~~~~la~~~~~~g~~-----------------------~eA~  385 (615)
T TIGR00990       329 KEAIALNLRGTFKCLKGKHLEALADLSKSIELDPRVTQSYIKRASMNLELGDP-----------------------DKAE  385 (615)
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHCCCH-----------------------HHHH
Confidence            34456777889999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       125 ~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      ..++++++++|+++.+|+.+|.++..+|+|++|+..|+++++++|++......+..+
T Consensus       386 ~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~~~~~~~~la~~  442 (615)
T TIGR00990       386 EDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDFIFSHIQLGVT  442 (615)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCccCHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999987766544443

>KOG1308 consensus Hsp70-interacting protein Hip/Transient component of progesterone receptor complexes and an Hsp70-binding protein [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=98.98  E-value=2.3e-10  Score=109.26  Aligned_cols=119  Identities=18%  Similarity=0.340  Sum_probs=107.3

Q ss_pred             CCchhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcc
Q 011861           39 LPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT  118 (476)
Q Consensus        39 ~~~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (476)
                      ++.+...++.....++...+..|+++.||.+|+.||.++|..+.+|..||.++++++++                     
T Consensus       106 ~Tee~~eqa~e~k~~A~eAln~G~~~~ai~~~t~ai~lnp~~a~l~~kr~sv~lkl~kp---------------------  164 (377)
T KOG1308|consen  106 ITEEMMDQANDKKVQASEALNDGEFDTAIELFTSAIELNPPLAILYAKRASVFLKLKKP---------------------  164 (377)
T ss_pred             hhHHHHHHHHHHHHHHHHHhcCcchhhhhcccccccccCCchhhhcccccceeeeccCC---------------------
Confidence            33466677888888999999999999999999999999999999999999999999999                     


Q ss_pred             hHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          119 HAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       119 ~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                        ..|++||..|+++||+..+.|-++|.+...+|.|++|..++..+++++ .+..+...+..+
T Consensus       165 --~~airD~d~A~ein~Dsa~~ykfrg~A~rllg~~e~aa~dl~~a~kld-~dE~~~a~lKeV  224 (377)
T KOG1308|consen  165 --NAAIRDCDFAIEINPDSAKGYKFRGYAERLLGNWEEAAHDLALACKLD-YDEANSATLKEV  224 (377)
T ss_pred             --chhhhhhhhhhccCcccccccchhhHHHHHhhchHHHHHHHHHHHhcc-ccHHHHHHHHHh
Confidence              999999999999999999999999999999999999999999999987 445555555444

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

Probab=98.97  E-value=1.6e-09  Score=107.65  Aligned_cols=109  Identities=19%  Similarity=0.208  Sum_probs=103.1

Q ss_pred             hhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHH
Q 011861           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (476)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (476)
                      .....+.++...|.-+|..|++..|-..++++|+++|.+...|..||.+|....+.                       .
T Consensus       321 ~le~~A~al~~~gtF~fL~g~~~~a~~d~~~~I~l~~~~~~lyI~~a~~y~d~~~~-----------------------~  377 (606)
T KOG0547|consen  321 ELEYMAEALLLRGTFHFLKGDSLGAQEDFDAAIKLDPAFNSLYIKRAAAYADENQS-----------------------E  377 (606)
T ss_pred             hHHHHHHHHHHhhhhhhhcCCchhhhhhHHHHHhcCcccchHHHHHHHHHhhhhcc-----------------------H
Confidence            34455888999999999999999999999999999999999999999999999999                       9


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCch
Q 011861          122 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (476)
Q Consensus       122 ~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~  173 (476)
                      +..+++.+|.++||.++..|+.+|+.++-+++|++|+.+|+++..++|++.-
T Consensus       378 ~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~pe~~~  429 (606)
T KOG0547|consen  378 KMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIADFQKAISLDPENAY  429 (606)
T ss_pred             HHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhcChhhhH
Confidence            9999999999999999999999999999999999999999999999998764

>KOG0545 consensus Aryl-hydrocarbon receptor-interacting protein [Posttranslational modification, protein turnover, chaperones]

Probab=98.97  E-value=4.6e-09  Score=96.00  Aligned_cols=122  Identities=25%  Similarity=0.350  Sum_probs=104.4

Q ss_pred             hhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhcc--------CCCCc----------ccccchhHHHHHHHhhhccCCC
Q 011861           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNI--------KPGDP----------IVLGNRSSAYIRISQFLKHRPP  103 (476)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~--------~p~~~----------~~~~~~a~~~~~~~~~~~~~~~  103 (476)
                      +..+.+..+.++||.+|+.|+|.+|+..|.+|+-.        .|.++          .++.|.++|++..|+|      
T Consensus       173 eKmkav~~l~q~GN~lfk~~~ykEA~~~YreAi~~l~~L~lkEkP~e~eW~eLdk~~tpLllNy~QC~L~~~e~------  246 (329)
T KOG0545|consen  173 EKMKAVPVLHQEGNRLFKLGRYKEASSKYREAIICLRNLQLKEKPGEPEWLELDKMITPLLLNYCQCLLKKEEY------  246 (329)
T ss_pred             HhhhhhHHHHHhhhhhhhhccHHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHhhhHHHHhHHHHHhhHHHH------
Confidence            44455668889999999999999999999999643        56654          7899999999999999      


Q ss_pred             CCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCch-hhHHHHHHH
Q 011861          104 SASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP-LQASLQNLE  182 (476)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~-~~~~~~~~~  182 (476)
                                       -++++.+...+...|.|.+|||++|.+....=+..+|..+|..+|+++|.-.. +...++.++
T Consensus       247 -----------------yevleh~seiL~~~~~nvKA~frRakAhaa~Wn~~eA~~D~~~vL~ldpslasvVsrElr~le  309 (329)
T KOG0545|consen  247 -----------------YEVLEHCSEILRHHPGNVKAYFRRAKAHAAVWNEAEAKADLQKVLELDPSLASVVSRELRLLE  309 (329)
T ss_pred             -----------------HHHHHHHHHHHhcCCchHHHHHHHHHHHHhhcCHHHHHHHHHHHHhcChhhHHHHHHHHHHHH
Confidence                             99999999999999999999999999999999999999999999999997554 344455554


Q ss_pred             Hhhh
Q 011861          183 RTTA  186 (476)
Q Consensus       183 ~~~~  186 (476)
                      ...+
T Consensus       310 ~r~~  313 (329)
T KOG0545|consen  310 NRMA  313 (329)
T ss_pred             HHHH
Confidence            4443

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.95  E-value=7.4e-10  Score=87.39  Aligned_cols=82  Identities=27%  Similarity=0.431  Sum_probs=74.2

Q ss_pred             HhccHHHHHHHHHHHhccCCC--CcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhcccc
Q 011861           59 RESNFEEAISNYSRANNIKPG--DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSN  136 (476)
Q Consensus        59 ~~~~~~~Ai~~y~~al~~~p~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~  136 (476)
                      .+|+|++|+..|.++++.+|+  +..++..+|.||+++|+|                       ++|+..+++ .+.+|.
T Consensus         1 ~~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y-----------------------~~A~~~~~~-~~~~~~   56 (84)
T PF12895_consen    1 DQGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKY-----------------------EEAIELLQK-LKLDPS   56 (84)
T ss_dssp             HTT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHH-----------------------HHHHHHHHC-HTHHHC
T ss_pred             CCccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCH-----------------------HHHHHHHHH-hCCCCC
Confidence            368999999999999999995  567888899999999999                       999999999 999999


Q ss_pred             chHHHHHHHHHHHhhhhHHHHHHHHhcc
Q 011861          137 SMKSHLLKANALILLERYDMARDAILSG  164 (476)
Q Consensus       137 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~  164 (476)
                      +...++.+|.++..+|+|++|+..|+++
T Consensus        57 ~~~~~~l~a~~~~~l~~y~eAi~~l~~~   84 (84)
T PF12895_consen   57 NPDIHYLLARCLLKLGKYEEAIKALEKA   84 (84)
T ss_dssp             HHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHhcC
Confidence            9999999999999999999999998864

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=98.90  E-value=5.2e-09  Score=117.30  Aligned_cols=113  Identities=9%  Similarity=-0.054  Sum_probs=102.3

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      ...+...|..+.+.|++++|+..|.+++.++|+++.++.++|.++...|++                       ++|+..
T Consensus       609 ~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~-----------------------eeAi~~  665 (987)
T PRK09782        609 ANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDI-----------------------AQSREM  665 (987)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCH-----------------------HHHHHH
Confidence            455677888899999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHH
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~  182 (476)
                      +++|++++|+++.+++.+|.++..+|++++|+..|+++++++|++..+......+.
T Consensus       666 l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~P~~a~i~~~~g~~~  721 (987)
T PRK09782        666 LERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDIDNQALITPLTPEQN  721 (987)
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCchhhhhhhHHH
Confidence            99999999999999999999999999999999999999999999988775444433

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.89  E-value=8.9e-09  Score=97.62  Aligned_cols=117  Identities=15%  Similarity=0.158  Sum_probs=105.2

Q ss_pred             hhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc---ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcc
Q 011861           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT  118 (476)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (476)
                      .....+..++..|..++..|+|++|+..|.+++..+|+++   .+++.+|.+|...|++                     
T Consensus        28 ~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~---------------------   86 (235)
T TIGR03302        28 VEEWPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDY---------------------   86 (235)
T ss_pred             cccCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCH---------------------
Confidence            3456678899999999999999999999999999999886   6889999999999999                     


Q ss_pred             hHHHHHHHHHHHhhccccchH---HHHHHHHHHHhh--------hhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          119 HAELALKDAEKLLNLQSNSMK---SHLLKANALILL--------ERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       119 ~~~~a~~~~~~al~l~p~~~~---~~~~~~~~~~~~--------~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                        ++|+..++++++.+|+++.   +++.+|.++...        |++++|+..|++++..+|++......+..+
T Consensus        87 --~~A~~~~~~~l~~~p~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~~  158 (235)
T TIGR03302        87 --AEAIAAADRFIRLHPNHPDADYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPNSEYAPDAKKRM  158 (235)
T ss_pred             --HHHHHHHHHHHHHCcCCCchHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCCChhHHHHHHHH
Confidence              9999999999999998876   799999999876        999999999999999999998766555444

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).

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.88  E-value=6.8e-09  Score=93.69  Aligned_cols=107  Identities=18%  Similarity=0.211  Sum_probs=96.6

Q ss_pred             hhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC---cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcc
Q 011861           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT  118 (476)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (476)
                      .....+..+...|..++..|+|++|+.+|.++++..|+.   ..++.++|.+|.++|++                     
T Consensus        30 ~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~---------------------   88 (172)
T PRK02603         30 KKAKEAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEH---------------------   88 (172)
T ss_pred             cHhhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCH---------------------
Confidence            345667889999999999999999999999999987754   46899999999999999                     


Q ss_pred             hHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhh--------------HHHHHHHHhcccccCCCC
Q 011861          119 HAELALKDAEKLLNLQSNSMKSHLLKANALILLER--------------YDMARDAILSGLQVDPFS  171 (476)
Q Consensus       119 ~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~--------------~~~A~~~~~~~l~l~p~~  171 (476)
                        ++|+..+.++++++|++..++..+|.++...|+              |++|++.+++++.++|++
T Consensus        89 --~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~~~p~~  153 (172)
T PRK02603         89 --DKALEYYHQALELNPKQPSALNNIAVIYHKRGEKAEEAGDQDEAEALFDKAAEYWKQAIRLAPNN  153 (172)
T ss_pred             --HHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChHhHhhCHHHHHHHHHHHHHHHHHHHhhCchh
Confidence              999999999999999999999999999988877              688888888888888877

>PRK12370 invasion protein regulator; Provisional

Probab=98.87  E-value=6.7e-09  Score=111.06  Aligned_cols=93  Identities=15%  Similarity=0.103  Sum_probs=88.7

Q ss_pred             hccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchH
Q 011861           60 ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMK  139 (476)
Q Consensus        60 ~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~  139 (476)
                      .+++++|+..+.+|++++|+++.+|..+|.++...|++                       ++|+..+++|++++|+++.
T Consensus       317 ~~~~~~A~~~~~~Al~ldP~~~~a~~~lg~~~~~~g~~-----------------------~~A~~~~~~Al~l~P~~~~  373 (553)
T PRK12370        317 QNAMIKAKEHAIKATELDHNNPQALGLLGLINTIHSEY-----------------------IVGSLLFKQANLLSPISAD  373 (553)
T ss_pred             chHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHccCH-----------------------HHHHHHHHHHHHhCCCCHH
Confidence            35689999999999999999999999999999999999                       9999999999999999999


Q ss_pred             HHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhh
Q 011861          140 SHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  175 (476)
Q Consensus       140 ~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~  175 (476)
                      +|+.+|.++...|++++|+..++++++++|.+....
T Consensus       374 a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~~~~~~  409 (553)
T PRK12370        374 IKYYYGWNLFMAGQLEEALQTINECLKLDPTRAAAG  409 (553)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCChhhH
Confidence            999999999999999999999999999999987643

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

Probab=98.87  E-value=3.9e-09  Score=108.69  Aligned_cols=121  Identities=18%  Similarity=0.203  Sum_probs=101.2

Q ss_pred             hhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHH
Q 011861           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (476)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (476)
                      .++..+|+-.|..|+++++|+.|.-+|.+|++++|.+..+....|.++.++|+.                       ++|
T Consensus       486 ~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~-----------------------d~A  542 (638)
T KOG1126|consen  486 PRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRK-----------------------DKA  542 (638)
T ss_pred             chhhHHHHhhhhheeccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhh-----------------------hHH
Confidence            455677888888888888888888888888888888888888888888888888                       888


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhh
Q 011861          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  187 (476)
Q Consensus       124 ~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~  187 (476)
                      +..+++|+-+||.++-..|.+|.++..+++|++|+..+++.-++-|++..+...+.++-+.++.
T Consensus       543 L~~~~~A~~ld~kn~l~~~~~~~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~  606 (638)
T KOG1126|consen  543 LQLYEKAIHLDPKNPLCKYHRASILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGN  606 (638)
T ss_pred             HHHHHHHHhcCCCCchhHHHHHHHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHcc
Confidence            8888888888888888888888888888888888888888888888888877777766666554

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.86  E-value=1.5e-09  Score=110.03  Aligned_cols=95  Identities=18%  Similarity=0.209  Sum_probs=90.5

Q ss_pred             hhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhh
Q 011861           53 KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLN  132 (476)
Q Consensus        53 ~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~  132 (476)
                      .|-.|+..|+|++|+++|+.||..+|+|..+|..+|..+.+-.+.                       .+|+..|++|++
T Consensus       436 LGVLy~ls~efdraiDcf~~AL~v~Pnd~~lWNRLGAtLAN~~~s-----------------------~EAIsAY~rALq  492 (579)
T KOG1125|consen  436 LGVLYNLSGEFDRAVDCFEAALQVKPNDYLLWNRLGATLANGNRS-----------------------EEAISAYNRALQ  492 (579)
T ss_pred             hHHHHhcchHHHHHHHHHHHHHhcCCchHHHHHHhhHHhcCCccc-----------------------HHHHHHHHHHHh
Confidence            466678889999999999999999999999999999999998899                       999999999999


Q ss_pred             ccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCC
Q 011861          133 LQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF  170 (476)
Q Consensus       133 l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~  170 (476)
                      +.|.+..+.|++|.+++.+|.|.+|..+|..+|.+.+.
T Consensus       493 LqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq~k  530 (579)
T KOG1125|consen  493 LQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSMQRK  530 (579)
T ss_pred             cCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHhhhc
Confidence            99999999999999999999999999999999998765

>PRK15331 chaperone protein SicA; Provisional

Probab=98.86  E-value=1.8e-08  Score=87.95  Aligned_cols=112  Identities=13%  Similarity=0.056  Sum_probs=101.3

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      ..+.....|-.+|.+|+|++|...|.-...++|.++..+..+|.|+..+++|                       ++|+.
T Consensus        36 ~le~iY~~Ay~~y~~Gk~~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k~y-----------------------~~Ai~   92 (165)
T PRK15331         36 MMDGLYAHAYEFYNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQF-----------------------QKACD   92 (165)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHH-----------------------HHHHH
Confidence            3567788899999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       126 ~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      .|..|.-++++++..+|+.|+|++.+|+.+.|+..|..+++ .|.+..++...+.+
T Consensus        93 ~Y~~A~~l~~~dp~p~f~agqC~l~l~~~~~A~~~f~~a~~-~~~~~~l~~~A~~~  147 (165)
T PRK15331         93 LYAVAFTLLKNDYRPVFFTGQCQLLMRKAAKARQCFELVNE-RTEDESLRAKALVY  147 (165)
T ss_pred             HHHHHHHcccCCCCccchHHHHHHHhCCHHHHHHHHHHHHh-CcchHHHHHHHHHH
Confidence            99999999999999999999999999999999999999988 46666555433333

>PRK12370 invasion protein regulator; Provisional

Probab=98.86  E-value=7.3e-09  Score=110.78  Aligned_cols=113  Identities=14%  Similarity=-0.052  Sum_probs=100.6

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      .+..+...|..+...|++++|+..|.+|++++|+++.+|+++|.++...|++                       ++|+.
T Consensus       337 ~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~-----------------------~eAi~  393 (553)
T PRK12370        337 NPQALGLLGLINTIHSEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQL-----------------------EEALQ  393 (553)
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCH-----------------------HHHHH
Confidence            3456677888999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccC-CCCchhhHHHHHH
Q 011861          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVD-PFSNPLQASLQNL  181 (476)
Q Consensus       126 ~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~-p~~~~~~~~~~~~  181 (476)
                      .++++++++|.++.+++.++.+++..|+|++|+..++++++.+ |+++.....+..+
T Consensus       394 ~~~~Al~l~P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~  450 (553)
T PRK12370        394 TINECLKLDPTRAAAGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMF  450 (553)
T ss_pred             HHHHHHhcCCCChhhHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHH
Confidence            9999999999999888888888888999999999999998775 6777655555444

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.85  E-value=1.7e-08  Score=93.67  Aligned_cols=114  Identities=19%  Similarity=0.202  Sum_probs=104.3

Q ss_pred             HHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHH
Q 011861           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (476)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (476)
                      -+...|...++.|+|.+|+..+.+|..++|+|+.+|..+|.+|.+.|++                       +.|-..|.
T Consensus       102 ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~lgaaldq~Gr~-----------------------~~Ar~ay~  158 (257)
T COG5010         102 LLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLLGAALDQLGRF-----------------------DEARRAYR  158 (257)
T ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhHHHHHHHHccCh-----------------------hHHHHHHH
Confidence            3444899999999999999999999999999999999999999999999                       99999999


Q ss_pred             HHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhh
Q 011861          129 KLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (476)
Q Consensus       129 ~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~  185 (476)
                      +|+++.|+.+..+.++|..|+-.|+++.|...+..+....+.+..+..++..+-...
T Consensus       159 qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~  215 (257)
T COG5010         159 QALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQ  215 (257)
T ss_pred             HHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhc
Confidence            999999999999999999999999999999999999887777888777776654433

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

Probab=98.85  E-value=1.7e-08  Score=99.94  Aligned_cols=119  Identities=20%  Similarity=0.156  Sum_probs=86.8

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHH
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (476)
                      .+|...|..|....+...||..|..|++++|.|..+|+.+|++|--++-.                       --|+-.+
T Consensus       365 ~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~p~DyRAWYGLGQaYeim~Mh-----------------------~YaLyYf  421 (559)
T KOG1155|consen  365 SAWTLMGHEYVEMKNTHAAIESYRRAVDINPRDYRAWYGLGQAYEIMKMH-----------------------FYALYYF  421 (559)
T ss_pred             HHHHHhhHHHHHhcccHHHHHHHHHHHhcCchhHHHHhhhhHHHHHhcch-----------------------HHHHHHH
Confidence            34556677777777777777777777777777777777777777777777                       7777777


Q ss_pred             HHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhhhh
Q 011861          128 EKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLI  189 (476)
Q Consensus       128 ~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~~~  189 (476)
                      ++|+++-|++...|-.+|.||..+++.++|+..|.+++...-.+..+...+.++-+.+....
T Consensus       422 qkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d~~  483 (559)
T KOG1155|consen  422 QKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKDLN  483 (559)
T ss_pred             HHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhHH
Confidence            77777777777777777777777777777777777777776666666666666666555443

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=98.83  E-value=2.2e-08  Score=83.02  Aligned_cols=108  Identities=19%  Similarity=0.170  Sum_probs=97.0

Q ss_pred             CchhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcch
Q 011861           40 PWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH  119 (476)
Q Consensus        40 ~~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (476)
                      .....+....+-.+|-.+-..|+.+.|++.|.++|.+.|.++.+|.|||+++...|+-                      
T Consensus        36 ~~~~~e~S~~LEl~~valaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~----------------------   93 (175)
T KOG4555|consen   36 DTQAIKASRELELKAIALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDD----------------------   93 (175)
T ss_pred             chHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCCh----------------------
Confidence            3344566677888999999999999999999999999999999999999999999999                      


Q ss_pred             HHHHHHHHHHHhhccccc----hHHHHHHHHHHHhhhhHHHHHHHHhcccccCCC
Q 011861          120 AELALKDAEKLLNLQSNS----MKSHLLKANALILLERYDMARDAILSGLQVDPF  170 (476)
Q Consensus       120 ~~~a~~~~~~al~l~p~~----~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~  170 (476)
                       .+|+.|.++|+++..+.    ..+|-.+|..|..+|+-+.|+.+|.++-++...
T Consensus        94 -e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~dd~AR~DFe~AA~LGS~  147 (175)
T KOG4555|consen   94 -EEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGNDDAARADFEAAAQLGSK  147 (175)
T ss_pred             -HHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCchHHHHHhHHHHHHhCCH
Confidence             99999999999997654    448899999999999999999999999887643

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.83  E-value=1.3e-08  Score=88.98  Aligned_cols=85  Identities=12%  Similarity=0.096  Sum_probs=80.2

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      .....+...|..+...|+|++|+..|.++++++|+++.+++++|.++..+|++                       ++|+
T Consensus        56 ~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~~~g~~-----------------------~eAi  112 (144)
T PRK15359         56 WSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTGVCLKMMGEP-----------------------GLAR  112 (144)
T ss_pred             CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCH-----------------------HHHH
Confidence            35677888999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHhhh
Q 011861          125 KDAEKLLNLQSNSMKSHLLKANALILLE  152 (476)
Q Consensus       125 ~~~~~al~l~p~~~~~~~~~~~~~~~~~  152 (476)
                      ..|++|++++|+++..+..+|.+...++
T Consensus       113 ~~~~~Al~~~p~~~~~~~~~~~~~~~l~  140 (144)
T PRK15359        113 EAFQTAIKMSYADASWSEIRQNAQIMVD  140 (144)
T ss_pred             HHHHHHHHhCCCChHHHHHHHHHHHHHH
Confidence            9999999999999999999999987654

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=98.81  E-value=3.7e-08  Score=93.67  Aligned_cols=117  Identities=16%  Similarity=0.089  Sum_probs=103.7

Q ss_pred             hhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhh-hccCCCCCcccCCCCCCCCcchHHH
Q 011861           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF-LKHRPPSASEYRPLNGLDPTTHAEL  122 (476)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~  122 (476)
                      +.+++.|...|..|+..|++..|...|.+|+++.|++++++...|.+++....- ++                     .+
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~t---------------------a~  211 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMT---------------------AK  211 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCccc---------------------HH
Confidence            345788899999999999999999999999999999999999999998876542 22                     78


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          123 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       123 a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      +...+++|+.+||++..+.+.+|..++..|+|.+|...++..+++.|.+.+-...++..
T Consensus       212 a~~ll~~al~~D~~~iral~lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~~rr~~ie~~  270 (287)
T COG4235         212 ARALLRQALALDPANIRALSLLAFAAFEQGDYAEAAAAWQMLLDLLPADDPRRSLIERS  270 (287)
T ss_pred             HHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCCCCCchHHHHHHH
Confidence            88999999999999999999999999999999999999999999999877765544443

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.81  E-value=3.8e-09  Score=105.41  Aligned_cols=68  Identities=25%  Similarity=0.579  Sum_probs=59.0

Q ss_pred             CCCCcccccccccccccCcEEccCCCcccHhhHHHhhhcCCCCcccccccccCCCCcccchhHHHHHHHh
Q 011861          197 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKN  266 (476)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~~~~~~~~~n~~l~~~~~~~  266 (476)
                      ......+.|++|.+.+.+|+.++|||+||..|+..++.....||.|+..+..  ..+..|..+.++++.|
T Consensus        21 ~~Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~--~~Lr~N~~L~~iVe~~   88 (397)
T TIGR00599        21 YPLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQE--SKLRSNWLVSEIVESF   88 (397)
T ss_pred             cccccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCCCCCCCCCCcccc--ccCccchHHHHHHHHH
Confidence            3455688999999999999999999999999999999887789999998742  4677888899999876

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=98.79  E-value=7.7e-09  Score=77.17  Aligned_cols=64  Identities=17%  Similarity=0.309  Sum_probs=60.2

Q ss_pred             HhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHh
Q 011861           52 QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLL  131 (476)
Q Consensus        52 ~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al  131 (476)
                      ..|..++..|+|++|+..|.++++.+|+++.+++.+|.++...|++                       ++|+..+++++
T Consensus         2 ~~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~-----------------------~~A~~~~~~a~   58 (65)
T PF13432_consen    2 ALARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRY-----------------------DEALAYYERAL   58 (65)
T ss_dssp             HHHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-H-----------------------HHHHHHHHHHH
T ss_pred             hHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHH
Confidence            5789999999999999999999999999999999999999999999                       99999999999


Q ss_pred             hccccch
Q 011861          132 NLQSNSM  138 (476)
Q Consensus       132 ~l~p~~~  138 (476)
                      +++|+++
T Consensus        59 ~~~P~~p   65 (65)
T PF13432_consen   59 ELDPDNP   65 (65)
T ss_dssp             HHSTT-H
T ss_pred             HHCcCCC
Confidence            9999875

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

Probab=98.79  E-value=1.9e-08  Score=99.62  Aligned_cols=111  Identities=14%  Similarity=0.136  Sum_probs=104.8

Q ss_pred             hHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhc
Q 011861           54 GNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNL  133 (476)
Q Consensus        54 g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l  133 (476)
                      ||-|--++++++|+..|++|++++|+...+|..+|-=|+.+++-                       ..|+..|++|+++
T Consensus       337 aNYYSlr~eHEKAv~YFkRALkLNp~~~~aWTLmGHEyvEmKNt-----------------------~AAi~sYRrAvdi  393 (559)
T KOG1155|consen  337 ANYYSLRSEHEKAVMYFKRALKLNPKYLSAWTLMGHEYVEMKNT-----------------------HAAIESYRRAVDI  393 (559)
T ss_pred             hhHHHHHHhHHHHHHHHHHHHhcCcchhHHHHHhhHHHHHhccc-----------------------HHHHHHHHHHHhc
Confidence            67778889999999999999999999999999999999999999                       9999999999999


Q ss_pred             cccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhh
Q 011861          134 QSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  187 (476)
Q Consensus       134 ~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~  187 (476)
                      +|.+.+|||.+|++|--++-..=|+=+|++|+++.|+|+-++..+.++-..+..
T Consensus       394 ~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~  447 (559)
T KOG1155|consen  394 NPRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNR  447 (559)
T ss_pred             CchhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhcc
Confidence            999999999999999999999999999999999999999999888887665544

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=98.77  E-value=4.4e-08  Score=91.06  Aligned_cols=103  Identities=17%  Similarity=0.124  Sum_probs=97.1

Q ss_pred             hhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHH
Q 011861           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (476)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (476)
                      ....+..+...|..++..|+|++|+..|.++++.+|++..++..+|.+|...|++                       ++
T Consensus        27 ~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~-----------------------~~   83 (234)
T TIGR02521        27 RNKAAKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGEL-----------------------EK   83 (234)
T ss_pred             CCcHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCH-----------------------HH
Confidence            3345778889999999999999999999999999999999999999999999999                       99


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccC
Q 011861          123 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVD  168 (476)
Q Consensus       123 a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~  168 (476)
                      |++.++++++++|++..+++.+|.++...|++++|...+.+++...
T Consensus        84 A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  129 (234)
T TIGR02521        84 AEDSFRRALTLNPNNGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDP  129 (234)
T ss_pred             HHHHHHHHHhhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHhcc
Confidence            9999999999999999999999999999999999999999998754

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.

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.77  E-value=2.7e-08  Score=107.59  Aligned_cols=114  Identities=11%  Similarity=-0.027  Sum_probs=103.5

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      +..+...|......|.|++|...+..+++++|++..++.++|.++.+.+++                       ++|+..
T Consensus        86 ~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~-----------------------eeA~~~  142 (694)
T PRK15179         86 ELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGI-----------------------EAGRAE  142 (694)
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccH-----------------------HHHHHH
Confidence            566677888889999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHH
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  183 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~  183 (476)
                      ++++++.+|+++.+++.+|.++..+|+|++|...|++++.-+|+++.++.++..+-+
T Consensus       143 ~~~~l~~~p~~~~~~~~~a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~  199 (694)
T PRK15179        143 IELYFSGGSSSAREILLEAKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLT  199 (694)
T ss_pred             HHHHhhcCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999988888887766554433

>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.77  E-value=3.3e-09  Score=96.09  Aligned_cols=49  Identities=41%  Similarity=1.025  Sum_probs=43.6

Q ss_pred             CCcccccccccccccCcEEccCCCcccHhhHHHhhhc---CCCCcccccccc
Q 011861          199 RTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR---GNKCPLCRAVLF  247 (476)
Q Consensus       199 ~~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~---~~~Cp~cr~~~~  247 (476)
                      ....|+|.||++.-++||.+.|||-||..||.+|+..   ...||+|+..+.
T Consensus        44 ~~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs   95 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVS   95 (230)
T ss_pred             CCCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccc
Confidence            4568999999999999999999999999999999983   345999998774

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.76  E-value=3.5e-08  Score=88.62  Aligned_cols=108  Identities=16%  Similarity=0.060  Sum_probs=92.6

Q ss_pred             hhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC---cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcc
Q 011861           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT  118 (476)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (476)
                      ...+.+..+...|..++..|+|++|+..|.+|+.+.|+.   +.+|.++|.+|...|++                     
T Consensus        30 ~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~---------------------   88 (168)
T CHL00033         30 SGEKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEH---------------------   88 (168)
T ss_pred             chhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCH---------------------
Confidence            344567888999999999999999999999999987653   45899999999999999                     


Q ss_pred             hHHHHHHHHHHHhhccccchHHHHHHHHHHH-------hhhhHH-------HHHHHHhcccccCCCCc
Q 011861          119 HAELALKDAEKLLNLQSNSMKSHLLKANALI-------LLERYD-------MARDAILSGLQVDPFSN  172 (476)
Q Consensus       119 ~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~-------~~~~~~-------~A~~~~~~~l~l~p~~~  172 (476)
                        ++|+..+++|+.++|.+..++..+|.++.       .+|+++       +|...|++++..+|.+.
T Consensus        89 --~eA~~~~~~Al~~~~~~~~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~a~~~~p~~~  154 (168)
T CHL00033         89 --TKALEYYFQALERNPFLPQALNNMAVICHYRGEQAIEQGDSEIAEAWFDQAAEYWKQAIALAPGNY  154 (168)
T ss_pred             --HHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhhHHHHHcccHHHHHHHHHHHHHHHHHHHHhCcccH
Confidence              99999999999999999999999999998       666666       66666667777787654

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=98.76  E-value=5.4e-09  Score=93.15  Aligned_cols=49  Identities=37%  Similarity=0.943  Sum_probs=42.1

Q ss_pred             CCcccccccccccccCcEEccCCCcccHhhHHHhhhc----------------CCCCcccccccc
Q 011861          199 RTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR----------------GNKCPLCRAVLF  247 (476)
Q Consensus       199 ~~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~----------------~~~Cp~cr~~~~  247 (476)
                      ...+++|+||++.+.+|+.++|||.||..||..|+..                ...||.||..+.
T Consensus        15 ~~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is   79 (193)
T PLN03208         15 SGGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVS   79 (193)
T ss_pred             CCCccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCC
Confidence            3457899999999999999999999999999999742                246999999873

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.76  E-value=2.2e-08  Score=92.40  Aligned_cols=99  Identities=14%  Similarity=0.099  Sum_probs=92.0

Q ss_pred             hccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchH
Q 011861           60 ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMK  139 (476)
Q Consensus        60 ~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~  139 (476)
                      .++.++++..|.++++.+|+++..|..+|.+|..+|++                       +.|+..|++|++++|+++.
T Consensus        52 ~~~~~~~i~~l~~~L~~~P~~~~~w~~Lg~~~~~~g~~-----------------------~~A~~a~~~Al~l~P~~~~  108 (198)
T PRK10370         52 QQTPEAQLQALQDKIRANPQNSEQWALLGEYYLWRNDY-----------------------DNALLAYRQALQLRGENAE  108 (198)
T ss_pred             chhHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCH-----------------------HHHHHHHHHHHHhCCCCHH
Confidence            67889999999999999999999999999999999999                       9999999999999999999


Q ss_pred             HHHHHHHHH-Hhhhh--HHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          140 SHLLKANAL-ILLER--YDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       140 ~~~~~~~~~-~~~~~--~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      .+..+|.++ ...|+  +++|...++++++++|++..+...+...
T Consensus       109 ~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~  153 (198)
T PRK10370        109 LYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASD  153 (198)
T ss_pred             HHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHH
Confidence            999999986 67777  5999999999999999999887766544

>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]

Probab=98.75  E-value=3.5e-09  Score=99.93  Aligned_cols=66  Identities=24%  Similarity=0.616  Sum_probs=57.4

Q ss_pred             CCcccccccccccccCcEEccCCCcccHhhHHHhhhcCCCCcccccccccCCCCcccchhHHHHHHHh
Q 011861          199 RTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKN  266 (476)
Q Consensus       199 ~~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~~~~~~~~~n~~l~~~~~~~  266 (476)
                      ..+.+.|.||.+.|.-|+.+||||+||..||..++.....||.|+.++.-  ..++.|..+..+++.|
T Consensus        20 lD~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~E--s~Lr~n~il~Eiv~S~   85 (442)
T KOG0287|consen   20 LDDLLRCGICFEYFNIPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTE--SDLRNNRILDEIVKSL   85 (442)
T ss_pred             hHHHHHHhHHHHHhcCceeccccchHHHHHHHHHhccCCCCCceecccch--hhhhhhhHHHHHHHHH
Confidence            34567899999999999999999999999999999999999999998743  4677888888888664

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=98.74  E-value=3.6e-08  Score=94.61  Aligned_cols=112  Identities=8%  Similarity=-0.081  Sum_probs=99.6

Q ss_pred             HHHHHHhhHHH-HHhccHHHHHHHHHHHhccCCCCc---ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHH
Q 011861           47 VFDLVQKGNRA-FRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (476)
Q Consensus        47 ~~~~~~~g~~~-~~~~~~~~Ai~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (476)
                      ....+..|..+ ++.|+|++|+..|.+.++..|++.   .+++.+|.+|+..|++                       ++
T Consensus       142 e~~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~-----------------------~~  198 (263)
T PRK10803        142 ANTDYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKK-----------------------DD  198 (263)
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCH-----------------------HH
Confidence            45667777776 667999999999999999999984   7999999999999999                       99


Q ss_pred             HHHHHHHHhhccccc---hHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          123 ALKDAEKLLNLQSNS---MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       123 a~~~~~~al~l~p~~---~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      |+..|.++++..|++   +.+++.+|.++..+|++++|+..|++.++..|++..+.....++
T Consensus       199 A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~~~A~~~~~~vi~~yP~s~~a~~A~~rL  260 (263)
T PRK10803        199 AAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDTAKAKAVYQQVIKKYPGTDGAKQAQKRL  260 (263)
T ss_pred             HHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHHHHH
Confidence            999999999988874   66999999999999999999999999999999988776655554

>smart00464 LON Found in ATP-dependent protease La (LON)

Probab=98.74  E-value=1.5e-08  Score=81.42  Aligned_cols=44  Identities=14%  Similarity=0.385  Sum_probs=38.0

Q ss_pred             CCcceee--cccCCCccCCCCCChhHHHHHHHHHhcCc--eeEEEEec
Q 011861          289 MPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGNH--RMGMVIID  332 (476)
Q Consensus       289 lPl~~l~--vlfP~~~~pl~v~~~~~~~~v~~a~~~~~--~~~v~~~~  332 (476)
                      +|++|++  ++|||++.|+.++++++++++++++..++  .++++.+.
T Consensus         2 lpviPl~~~vlfP~~~~pl~v~~~~~i~~i~~~~~~~~~~~i~~~~~~   49 (92)
T smart00464        2 LPLLPIRRRPLFPGFVLPIPVKRPKSVAAIKEALRRSQPYVIVFLLQD   49 (92)
T ss_pred             ceEEEcCCCccCCCceEEEEeCCHHHHHHHHHHHhcCCCeEEEEEEcc
Confidence            7899998  99999999999999999999999998876  45555553

N-terminal domain of the ATP-dependent protease La (LON), present also in other bacterial ORFs.

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.74  E-value=5.8e-08  Score=92.90  Aligned_cols=125  Identities=15%  Similarity=0.219  Sum_probs=111.8

Q ss_pred             hhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCccccc----chhHHHHHHHhhhccCCCCCcccCCCCCCCCcc
Q 011861           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLG----NRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT  118 (476)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~----~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (476)
                      ..+++.+..+.+......++|.++++.+.+.++.+|..+.+.+    .+-.||...+++                     
T Consensus       265 klkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~---------------------  323 (504)
T KOG0624|consen  265 KLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQF---------------------  323 (504)
T ss_pred             HHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCH---------------------
Confidence            3456667788899999999999999999999999999664444    466788888899                     


Q ss_pred             hHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhhhhc
Q 011861          119 HAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIG  190 (476)
Q Consensus       119 ~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~~~~  190 (476)
                        .+|++.|..+++++|++..++-.+|.+|+.-..|++|+.+|+++++++++|..++.+++.+++...+.-+
T Consensus       324 --~eAiqqC~evL~~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n~sn~~~reGle~Akrlkkqs~k  393 (504)
T KOG0624|consen  324 --GEAIQQCKEVLDIDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELNESNTRAREGLERAKRLKKQSGK  393 (504)
T ss_pred             --HHHHHHHHHHHhcCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHhcc
Confidence              9999999999999999999999999999999999999999999999999999999999999887766544

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=98.73  E-value=1.4e-08  Score=75.83  Aligned_cols=64  Identities=20%  Similarity=0.236  Sum_probs=59.9

Q ss_pred             chhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhccc
Q 011861           86 NRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGL  165 (476)
Q Consensus        86 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l  165 (476)
                      .+|..++..|+|                       ++|++.++++++.+|+++.+++.+|.++...|++++|+..|++++
T Consensus         2 ~~a~~~~~~g~~-----------------------~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~   58 (65)
T PF13432_consen    2 ALARALYQQGDY-----------------------DEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERAL   58 (65)
T ss_dssp             HHHHHHHHCTHH-----------------------HHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             hHHHHHHHcCCH-----------------------HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            578999999999                       999999999999999999999999999999999999999999999


Q ss_pred             ccCCCCc
Q 011861          166 QVDPFSN  172 (476)
Q Consensus       166 ~l~p~~~  172 (476)
                      +++|+++
T Consensus        59 ~~~P~~p   65 (65)
T PF13432_consen   59 ELDPDNP   65 (65)
T ss_dssp             HHSTT-H
T ss_pred             HHCcCCC
Confidence            9999874

>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A

Probab=98.72  E-value=8.2e-09  Score=68.60  Aligned_cols=38  Identities=47%  Similarity=1.351  Sum_probs=33.2

Q ss_pred             cccccccccCc-EEccCCCcccHhhHHHhhhcCCCCccc
Q 011861          205 CTLCLKLLYEP-ITTPCGHSFCRSCLFQSMDRGNKCPLC  242 (476)
Q Consensus       205 C~iC~~~~~~P-~~~~cgh~fC~~Cl~~~~~~~~~Cp~c  242 (476)
                      |+||++.+.+| +.++|||+||..|+.+++.....||.|
T Consensus         1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccCcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence            78999999999 578999999999999999987889987

>PLN02789 farnesyltranstransferase

Probab=98.72  E-value=6.4e-08  Score=95.71  Aligned_cols=61  Identities=15%  Similarity=0.066  Sum_probs=44.9

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      .+++..+.+++++||+|..+|..+|.++..+|+|++|++.+.++++.||.|..++.....+
T Consensus       125 ~~el~~~~kal~~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N~sAW~~R~~v  185 (320)
T PLN02789        125 NKELEFTRKILSLDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRNNSAWNQRYFV  185 (320)
T ss_pred             HHHHHHHHHHHHhCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCchhHHHHHHHH
Confidence            4566777777777777777777777777777777777777777777777777766555444

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=98.71  E-value=2.4e-08  Score=87.97  Aligned_cols=113  Identities=22%  Similarity=0.243  Sum_probs=90.6

Q ss_pred             cHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHH
Q 011861           62 NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSH  141 (476)
Q Consensus        62 ~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~  141 (476)
                      -|+.|.+.|...+..+|.|++.+.+=|.+++.+.++     ++        |.+...+.++|+.-++.|+.++|+...++
T Consensus         6 ~FE~ark~aea~y~~nP~DadnL~~WG~ALLELAqf-----k~--------g~es~~miedAisK~eeAL~I~P~~hdAl   72 (186)
T PF06552_consen    6 FFEHARKKAEAAYAKNPLDADNLTNWGGALLELAQF-----KQ--------GPESKKMIEDAISKFEEALKINPNKHDAL   72 (186)
T ss_dssp             HHHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHHHH-----S---------HHHHHHHHHHHHHHHHHHHHH-TT-HHHH
T ss_pred             HHHHHHHHHHHHHHhCcHhHHHHHHHHHHHHHHHhc-----cC--------cchHHHHHHHHHHHHHHHHhcCCchHHHH
Confidence            378899999999999999999999999999999998     00        11222445999999999999999999999


Q ss_pred             HHHHHHHHhhhh-----------HHHHHHHHhcccccCCCCchhhHHHHHHHHhhhh
Q 011861          142 LLKANALILLER-----------YDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  187 (476)
Q Consensus       142 ~~~~~~~~~~~~-----------~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~  187 (476)
                      +.+|.+|...+.           |+.|...|+++...+|+|...+..++...|+-.-
T Consensus        73 w~lGnA~ts~A~l~~d~~~A~~~F~kA~~~FqkAv~~~P~ne~Y~ksLe~~~kap~l  129 (186)
T PF06552_consen   73 WCLGNAYTSLAFLTPDTAEAEEYFEKATEYFQKAVDEDPNNELYRKSLEMAAKAPEL  129 (186)
T ss_dssp             HHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHTHHHH
T ss_pred             HHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHhhHHH
Confidence            999999987654           8899999999999999999999988887665443

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=98.71  E-value=4.3e-08  Score=110.08  Aligned_cols=106  Identities=18%  Similarity=0.173  Sum_probs=94.1

Q ss_pred             HHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccc
Q 011861           56 RAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQS  135 (476)
Q Consensus        56 ~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p  135 (476)
                      .....|++++|+..|.++++++|+ +.+|.++|.++.++|++                       ++|+..++++++++|
T Consensus       585 ~l~~~Gr~~eAl~~~~~AL~l~P~-~~a~~~LA~~l~~lG~~-----------------------deA~~~l~~AL~l~P  640 (987)
T PRK09782        585 QRYIPGQPELALNDLTRSLNIAPS-ANAYVARATIYRQRHNV-----------------------PAAVSDLRAALELEP  640 (987)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCCC-HHHHHHHHHHHHHCCCH-----------------------HHHHHHHHHHHHhCC
Confidence            334559999999999999999996 89999999999999999                       999999999999999


Q ss_pred             cchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhh
Q 011861          136 NSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (476)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~  185 (476)
                      +++.+++.+|.++...|++++|+..|+++++++|++..+...+..+...+
T Consensus       641 d~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~l  690 (987)
T PRK09782        641 NNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRL  690 (987)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHC
Confidence            99999999999999999999999999999999999998877666554433

>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]

Probab=98.70  E-value=8.5e-09  Score=96.16  Aligned_cols=50  Identities=38%  Similarity=0.868  Sum_probs=45.3

Q ss_pred             CCcccccccccccccCcEEccCCCcccHhhHHHhhhcCCCCccccccccc
Q 011861          199 RTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFI  248 (476)
Q Consensus       199 ~~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~~  248 (476)
                      ......|.+|++...+|.-+||||.||..||..|......||+||..+.+
T Consensus       236 ~~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~p  285 (293)
T KOG0317|consen  236 PEATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSEKAECPLCREKFQP  285 (293)
T ss_pred             CCCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHccccCCCcccccCCC
Confidence            44568999999999999999999999999999999988889999998743

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=98.70  E-value=8.7e-08  Score=89.06  Aligned_cols=112  Identities=18%  Similarity=0.205  Sum_probs=98.5

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      ...+...|..++..|++++|+..|.++++..|.+..++.++|.++...|++                       ++|+..
T Consensus        65 ~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~-----------------------~~A~~~  121 (234)
T TIGR02521        65 YLAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVLNNYGTFLCQQGKY-----------------------EQAMQQ  121 (234)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcccH-----------------------HHHHHH
Confidence            456677899999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhcc--ccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          127 AEKLLNLQ--SNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       127 ~~~al~l~--p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      +.++++..  +.....++.+|.++...|++++|...+.++++.+|.+......+..+
T Consensus       122 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~  178 (234)
T TIGR02521       122 FEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAEL  178 (234)
T ss_pred             HHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHH
Confidence            99999864  45677888999999999999999999999999999877655544333

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.

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=98.67  E-value=6.1e-08  Score=105.63  Aligned_cols=99  Identities=17%  Similarity=0.112  Sum_probs=58.3

Q ss_pred             hHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHH----HHHHHHH
Q 011861           54 GNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL----ALKDAEK  129 (476)
Q Consensus        54 g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----a~~~~~~  129 (476)
                      |..++..|++++|+..|.++++.+|+++.++.++|.+|...|++                       ++    |+..+++
T Consensus       219 ~~~l~~~g~~~eA~~~~~~al~~~p~~~~~~~~Lg~~l~~~G~~-----------------------~eA~~~A~~~~~~  275 (656)
T PRK15174        219 VDTLCAVGKYQEAIQTGESALARGLDGAALRRSLGLAYYQSGRS-----------------------REAKLQAAEHWRH  275 (656)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCc-----------------------hhhHHHHHHHHHH
Confidence            44555566666666666666666666666666666666666665                       42    4555555


Q ss_pred             HhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhh
Q 011861          130 LLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  175 (476)
Q Consensus       130 al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~  175 (476)
                      +++++|++..++..+|.++...|++++|+..++++++++|++..+.
T Consensus       276 Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~  321 (656)
T PRK15174        276 ALQFNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVR  321 (656)
T ss_pred             HHhhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHH
Confidence            5555555555555555555555555555555555555555555443

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.63  E-value=1e-07  Score=81.92  Aligned_cols=93  Identities=14%  Similarity=0.043  Sum_probs=86.0

Q ss_pred             HHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHH
Q 011861           68 SNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANA  147 (476)
Q Consensus        68 ~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~  147 (476)
                      ..|.+++..+|++..+...+|.+++..|++                       ++|+..+++++.++|++..+++.+|.+
T Consensus         4 ~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~-----------------------~~A~~~~~~~~~~~p~~~~~~~~la~~   60 (135)
T TIGR02552         4 ATLKDLLGLDSEQLEQIYALAYNLYQQGRY-----------------------DEALKLFQLLAAYDPYNSRYWLGLAAC   60 (135)
T ss_pred             hhHHHHHcCChhhHHHHHHHHHHHHHcccH-----------------------HHHHHHHHHHHHhCCCcHHHHHHHHHH
Confidence            468899999999999999999999999999                       999999999999999999999999999


Q ss_pred             HHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHH
Q 011861          148 LILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  183 (476)
Q Consensus       148 ~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~  183 (476)
                      +...|++++|...+.++++++|.+......+..+..
T Consensus        61 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~   96 (135)
T TIGR02552        61 CQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLL   96 (135)
T ss_pred             HHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHH
Confidence            999999999999999999999999887766555433

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=98.63  E-value=1.1e-07  Score=72.49  Aligned_cols=70  Identities=26%  Similarity=0.451  Sum_probs=65.1

Q ss_pred             hHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhc
Q 011861           54 GNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNL  133 (476)
Q Consensus        54 g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l  133 (476)
                      .+.+++.++|++|+..+++++.++|+++.++..+|.+|..+|++                       .+|+.+++++++.
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~-----------------------~~A~~~l~~~l~~   58 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRY-----------------------EEALEDLERALEL   58 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccH-----------------------HHHHHHHHHHHHH
Confidence            46789999999999999999999999999999999999999999                       9999999999999


Q ss_pred             cccchHHHHHHHH
Q 011861          134 QSNSMKSHLLKAN  146 (476)
Q Consensus       134 ~p~~~~~~~~~~~  146 (476)
                      +|++..+...++.
T Consensus        59 ~p~~~~~~~~~a~   71 (73)
T PF13371_consen   59 SPDDPDARALRAM   71 (73)
T ss_pred             CCCcHHHHHHHHh
Confidence            9999887766553

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=98.62  E-value=1.1e-07  Score=103.70  Aligned_cols=105  Identities=16%  Similarity=0.115  Sum_probs=89.4

Q ss_pred             HHHHHHhhHHHHHhccHHH----HHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHH
Q 011861           47 VFDLVQKGNRAFRESNFEE----AISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~----Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (476)
                      ...+...|..++..|++++    |+..|.++++++|+++.++.++|.++...|++                       ++
T Consensus       246 ~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~-----------------------~e  302 (656)
T PRK15174        246 AALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFNSDNVRIVTLYADALIRTGQN-----------------------EK  302 (656)
T ss_pred             HHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHCCCH-----------------------HH
Confidence            3445557888888888885    78899999999999888999999999999999                       99


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchh
Q 011861          123 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  174 (476)
Q Consensus       123 a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~  174 (476)
                      |+..++++++++|+++.+++.+|.++...|++++|+..|.++++.+|++...
T Consensus       303 A~~~l~~al~l~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~~~~~  354 (656)
T PRK15174        303 AIPLLQQSLATHPDLPYVRAMYARALRQVGQYTAASDEFVQLAREKGVTSKW  354 (656)
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccchHH
Confidence            9999999999999988888889999989999999999999888888877543

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.62  E-value=1.9e-07  Score=85.22  Aligned_cols=112  Identities=17%  Similarity=0.164  Sum_probs=101.3

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      ...+...|..|...|+.+.|-+.|.+|+.++|++.+++.|.|.-+...|+|                       ++|...
T Consensus        69 ~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~qg~~-----------------------~eA~q~  125 (250)
T COG3063          69 YLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGDVLNNYGAFLCAQGRP-----------------------EEAMQQ  125 (250)
T ss_pred             HHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccchhhhhhHHHHhCCCh-----------------------HHHHHH
Confidence            456777888899999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhcc--ccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          127 AEKLLNLQ--SNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       127 ~~~al~l~--p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      |++|+..-  |..+..+-++|.|-+..|+++.|..+|+++++++|+++.....+.+.
T Consensus       126 F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~  182 (250)
T COG3063         126 FERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARL  182 (250)
T ss_pred             HHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHH
Confidence            99998752  55677999999999999999999999999999999999876655554

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

Probab=98.61  E-value=5e-08  Score=95.13  Aligned_cols=116  Identities=16%  Similarity=0.174  Sum_probs=83.4

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      ..-+...|..+.+.|++++|+..|.+|++++|+++.+...++.++...|++                       .++.+.
T Consensus       146 ~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~P~~~~~~~~l~~~li~~~~~-----------------------~~~~~~  202 (280)
T PF13429_consen  146 ARFWLALAEIYEQLGDPDKALRDYRKALELDPDDPDARNALAWLLIDMGDY-----------------------DEAREA  202 (280)
T ss_dssp             HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHCTTCHH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCh-----------------------HHHHHH
Confidence            345566777778888888888888888888888888888888888877887                       776666


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhh
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~  185 (476)
                      +....+..|+++..+..+|.++..+|++++|+..|+++++.+|+|+.....+..+-...
T Consensus       203 l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~~~~~~~a~~l~~~  261 (280)
T PF13429_consen  203 LKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDDPLWLLAYADALEQA  261 (280)
T ss_dssp             HHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHT--
T ss_pred             HHHHHHHCcCHHHHHHHHHHHhccccccccccccccccccccccccccccccccccccc
Confidence            66666666777777778888888888888888888888888888887776666554333

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.60  E-value=8.4e-08  Score=94.37  Aligned_cols=98  Identities=17%  Similarity=0.072  Sum_probs=87.8

Q ss_pred             ccHHHHHHHHHHHhcc---CCC-CcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhcccc
Q 011861           61 SNFEEAISNYSRANNI---KPG-DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSN  136 (476)
Q Consensus        61 ~~~~~Ai~~y~~al~~---~p~-~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~  136 (476)
                      +..+.+|..++++|..   +|. .+.+|+++|.+|..+|++                       .+|+.+|+++++++|+
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~-----------------------~~A~~~~~~Al~l~P~   96 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLR-----------------------ALARNDFSQALALRPD   96 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCH-----------------------HHHHHHHHHHHHcCCC
Confidence            3668899999999964   333 368899999999999999                       9999999999999999


Q ss_pred             chHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          137 SMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       137 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      ++.+|+.+|.++...|+|++|+..|.++++++|++..+...+..+
T Consensus        97 ~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~  141 (296)
T PRK11189         97 MADAYNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAYLNRGIA  141 (296)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            999999999999999999999999999999999998877655544

>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]

Probab=98.60  E-value=1.6e-08  Score=88.41  Aligned_cols=120  Identities=21%  Similarity=0.413  Sum_probs=90.3

Q ss_pred             HHhhccccchHHHHHHHHH-HHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhhhhcccCCCCCCCCccccccc
Q 011861          129 KLLNLQSNSMKSHLLKANA-LILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTL  207 (476)
Q Consensus       129 ~al~l~p~~~~~~~~~~~~-~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~i  207 (476)
                      ..+...|+-.+-|-..|.+ |....+|...+++|..++++|..+..-      .+..       .....+...-.|.|.|
T Consensus       135 ~viD~qpdVCKdyk~TGYCGYGDsCKflH~R~D~KtGWkLn~EWnA~------~Ee~-------~v~~~~~e~IPF~C~i  201 (259)
T COG5152         135 EVIDTQPDVCKDYKETGYCGYGDSCKFLHDRSDFKTGWKLNQEWNAE------YEEA-------PVISGPGEKIPFLCGI  201 (259)
T ss_pred             ceeecCcccccchhhcccccCCchhhhhhhhhhhhcccccchhhcch------hhhc-------ccccCCCCCCceeehh
Confidence            3456678888888888888 457889999999999999999887731      1111       0111112223679999


Q ss_pred             ccccccCcEEccCCCcccHhhHHHhhhcCCCCcccccccccCCCCcccchhHHHHHH
Q 011861          208 CLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQ  264 (476)
Q Consensus       208 C~~~~~~P~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~~~~~~~~~n~~l~~~~~  264 (476)
                      |...+.+||.+.|||+||..|....+..+..|-.|.....   ..+.+...+..++.
T Consensus       202 CKkdy~spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~---G~f~V~~d~~kmL~  255 (259)
T COG5152         202 CKKDYESPVVTECGHSFCSLCAIRKYQKGDECGVCGKATY---GRFWVVSDLQKMLN  255 (259)
T ss_pred             chhhccchhhhhcchhHHHHHHHHHhccCCcceecchhhc---cceeHHhhHHHHHh
Confidence            9999999999999999999999999999999999998754   34555555555553

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=98.60  E-value=3.1e-07  Score=78.58  Aligned_cols=107  Identities=16%  Similarity=0.169  Sum_probs=92.6

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc---ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (476)
                      ...+..+|...++.|+|.+|++.+.......|...   .+...++.+|++.++|                       .+|
T Consensus        10 ~~~ly~~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y-----------------------~~A   66 (142)
T PF13512_consen   10 PQELYQEAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDY-----------------------EEA   66 (142)
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCH-----------------------HHH
Confidence            57799999999999999999999999999988654   7888999999999999                       999


Q ss_pred             HHHHHHHhhccccchH---HHHHHHHHHHhhhh---------------HHHHHHHHhcccccCCCCchhhH
Q 011861          124 LKDAEKLLNLQSNSMK---SHLLKANALILLER---------------YDMARDAILSGLQVDPFSNPLQA  176 (476)
Q Consensus       124 ~~~~~~al~l~p~~~~---~~~~~~~~~~~~~~---------------~~~A~~~~~~~l~l~p~~~~~~~  176 (476)
                      +..+++-++++|+++.   ++|.+|.+++....               ...|..+|+..+..-|++.-+..
T Consensus        67 ~a~~~rFirLhP~hp~vdYa~Y~~gL~~~~~~~~~~~~~~~~drD~~~~~~A~~~f~~lv~~yP~S~ya~d  137 (142)
T PF13512_consen   67 IAAYDRFIRLHPTHPNVDYAYYMRGLSYYEQDEGSLQSFFRSDRDPTPARQAFRDFEQLVRRYPNSEYAAD  137 (142)
T ss_pred             HHHHHHHHHhCCCCCCccHHHHHHHHHHHHHhhhHHhhhcccccCcHHHHHHHHHHHHHHHHCcCChhHHH
Confidence            9999999999999876   88999999998876               66777777777777776655443

>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A

Probab=98.60  E-value=2e-08  Score=68.74  Aligned_cols=40  Identities=43%  Similarity=1.113  Sum_probs=34.6

Q ss_pred             cccccccccc---CcEEccCCCcccHhhHHHhhhcCCCCcccc
Q 011861          204 DCTLCLKLLY---EPITTPCGHSFCRSCLFQSMDRGNKCPLCR  243 (476)
Q Consensus       204 ~C~iC~~~~~---~P~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr  243 (476)
                      +|+||++.+.   .++.++|||.||..|+.+|+.....||.||
T Consensus         2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence            6999999884   446689999999999999999888999997

...

>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A

Probab=98.59  E-value=3.3e-08  Score=69.64  Aligned_cols=45  Identities=36%  Similarity=0.971  Sum_probs=40.5

Q ss_pred             ccccccccccccCcEEccCCCc-ccHhhHHHhhhcCCCCccccccc
Q 011861          202 DFDCTLCLKLLYEPITTPCGHS-FCRSCLFQSMDRGNKCPLCRAVL  246 (476)
Q Consensus       202 ~~~C~iC~~~~~~P~~~~cgh~-fC~~Cl~~~~~~~~~Cp~cr~~~  246 (476)
                      +..|.+|++...+++.+||||. ||..|+.+++.....||.||+++
T Consensus         2 ~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i   47 (50)
T PF13920_consen    2 DEECPICFENPRDVVLLPCGHLCFCEECAERLLKRKKKCPICRQPI   47 (50)
T ss_dssp             HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-
T ss_pred             cCCCccCCccCCceEEeCCCChHHHHHHhHHhcccCCCCCcCChhh
Confidence            5689999999999999999999 99999999999888999999976

...

>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B

Probab=98.58  E-value=2.4e-08  Score=71.73  Aligned_cols=59  Identities=31%  Similarity=0.867  Sum_probs=32.0

Q ss_pred             cccccccccccccCcEE-ccCCCcccHhhHHHhhhcCCCCcccccccccCCCCcccchhHHHHH
Q 011861          201 DDFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSII  263 (476)
Q Consensus       201 ~~~~C~iC~~~~~~P~~-~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~~~~~~~~~n~~l~~~~  263 (476)
                      ..+.|++|...+.+|+. ..|.|+||+.|+...+.  ..||+|..+...  +++..|..|.+++
T Consensus         6 ~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~--qD~~~NrqLd~~i   65 (65)
T PF14835_consen    6 ELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWI--QDIQINRQLDSMI   65 (65)
T ss_dssp             HTTS-SSS-S--SS-B---SSS--B-TTTGGGGTT--TB-SSS--B-S---SS----HHHHHHH
T ss_pred             HhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcC--CCCCCcCChHHH--HHHHhhhhhhccC
Confidence            35689999999999986 59999999999977554  459999987632  6888998888764

>PHA02929 N1R/p28-like protein; Provisional

Probab=98.58  E-value=3.4e-08  Score=91.99  Aligned_cols=48  Identities=31%  Similarity=0.891  Sum_probs=41.0

Q ss_pred             CcccccccccccccCc--------EEccCCCcccHhhHHHhhhcCCCCcccccccc
Q 011861          200 TDDFDCTLCLKLLYEP--------ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       200 ~~~~~C~iC~~~~~~P--------~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      ..+.+|+||++.+.++        +..+|||.||..||.+|+.....||+||..+.
T Consensus       172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~  227 (238)
T PHA02929        172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI  227 (238)
T ss_pred             CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence            4567999999987653        45689999999999999998889999999873

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.57  E-value=1.2e-07  Score=92.91  Aligned_cols=107  Identities=21%  Similarity=0.319  Sum_probs=99.3

Q ss_pred             ccCCCCCCchhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCC
Q 011861           33 NEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLN  112 (476)
Q Consensus        33 ~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  112 (476)
                      ..+.-+.+.+....+...+..|+.++++.+|..|+..|+.||.++|+++..|.+||..++.+++|               
T Consensus        35 ~~~~~s~~~~~~~~Ae~~k~~gn~~yk~k~Y~nal~~yt~Ai~~~pd~a~yy~nRAa~~m~~~~~---------------   99 (486)
T KOG0550|consen   35 TSPEYSFSQEAAQQAEEAKEEGNAFYKQKTYGNALKNYTFAIDMCPDNASYYSNRAATLMMLGRF---------------   99 (486)
T ss_pred             cCccccccchHHHHHHHHHhhcchHHHHhhHHHHHHHHHHHHHhCccchhhhchhHHHHHHHHhH---------------
Confidence            34444455677788999999999999999999999999999999999999999999999999999               


Q ss_pred             CCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHh
Q 011861          113 GLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAIL  162 (476)
Q Consensus       113 ~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~  162 (476)
                              .+|+-++++.++++|...+++.+.++++..+++..+|-..++
T Consensus       100 --------~~a~~dar~~~r~kd~~~k~~~r~~~c~~a~~~~i~A~~~~~  141 (486)
T KOG0550|consen  100 --------EEALGDARQSVRLKDGFSKGQLREGQCHLALSDLIEAEEKLK  141 (486)
T ss_pred             --------hhcccchhhheecCCCccccccchhhhhhhhHHHHHHHHHhh
Confidence                    999999999999999999999999999999999999988777

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.56  E-value=6.1e-07  Score=84.98  Aligned_cols=103  Identities=16%  Similarity=0.127  Sum_probs=91.2

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcc---cccchhHHHHHH--------HhhhccCCCCCcccCCCCCCCC
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPI---VLGNRSSAYIRI--------SQFLKHRPPSASEYRPLNGLDP  116 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~---~~~~~a~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~  116 (476)
                      ..+...|..++..|++++|+..|.++++.+|+++.   +++.+|.++++.        |++                   
T Consensus        71 ~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~-------------------  131 (235)
T TIGR03302        71 QAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYLRGLSNYNQIDRVDRDQTAA-------------------  131 (235)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHHHHHHHHHhcccccCCHHHH-------------------
Confidence            46788899999999999999999999999999887   689999999887        778                   


Q ss_pred             cchHHHHHHHHHHHhhccccchHHH-----------------HHHHHHHHhhhhHHHHHHHHhcccccCCCCch
Q 011861          117 TTHAELALKDAEKLLNLQSNSMKSH-----------------LLKANALILLERYDMARDAILSGLQVDPFSNP  173 (476)
Q Consensus       117 ~~~~~~a~~~~~~al~l~p~~~~~~-----------------~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~  173 (476)
                          .+|++.++++++.+|++..++                 +.+|..++..|++.+|+..|.++++..|+++.
T Consensus       132 ----~~A~~~~~~~~~~~p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~  201 (235)
T TIGR03302       132 ----REAFEAFQELIRRYPNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRFETVVENYPDTPA  201 (235)
T ss_pred             ----HHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcc
Confidence                999999999999999986542                 46788889999999999999999999887653

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).

>PLN02789 farnesyltranstransferase

Probab=98.55  E-value=3.5e-07  Score=90.49  Aligned_cols=119  Identities=13%  Similarity=0.046  Sum_probs=100.9

Q ss_pred             hhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHH-hhhccCCCCCcccCCCCCCCCcchHH
Q 011861           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRIS-QFLKHRPPSASEYRPLNGLDPTTHAE  121 (476)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (476)
                      ....+..++...  +...+++++|+..++++|+++|++..+|..|+.++..+| ++                       +
T Consensus        35 ~~~~a~~~~ra~--l~~~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l-----------------------~   89 (320)
T PLN02789         35 EFREAMDYFRAV--YASDERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADL-----------------------E   89 (320)
T ss_pred             HHHHHHHHHHHH--HHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhH-----------------------H
Confidence            334444443332  455689999999999999999999999999999999998 67                       9


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHhhhhH--HHHHHHHhcccccCCCCchhhHHHHHHHHhhh
Q 011861          122 LALKDAEKLLNLQSNSMKSHLLKANALILLERY--DMARDAILSGLQVDPFSNPLQASLQNLERTTA  186 (476)
Q Consensus       122 ~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~--~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~  186 (476)
                      +++..++++++.+|++..+|+.++.++..+|++  ++++..+.++++++|.|-.++....-+-..++
T Consensus        90 eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~~el~~~~kal~~dpkNy~AW~~R~w~l~~l~  156 (320)
T PLN02789         90 EELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAANKELEFTRKILSLDAKNYHAWSHRQWVLRTLG  156 (320)
T ss_pred             HHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhh
Confidence            999999999999999999999999999988874  78899999999999999998887666655443

>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=98.55  E-value=9.5e-08  Score=71.81  Aligned_cols=68  Identities=21%  Similarity=0.309  Sum_probs=62.3

Q ss_pred             HHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhcccc
Q 011861           57 AFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSN  136 (476)
Q Consensus        57 ~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~  136 (476)
                      ++..|+|++|+..|.+++..+|++..++..+|.+|++.|++                       ++|...+.+++..+|+
T Consensus         1 ll~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~-----------------------~~A~~~l~~~~~~~~~   57 (68)
T PF14559_consen    1 LLKQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQY-----------------------DEAEELLERLLKQDPD   57 (68)
T ss_dssp             HHHTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-H-----------------------HHHHHHHHCCHGGGTT
T ss_pred             ChhccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHHHHCcC
Confidence            46789999999999999999999999999999999999999                       9999999999999999


Q ss_pred             chHHHHHHHHH
Q 011861          137 SMKSHLLKANA  147 (476)
Q Consensus       137 ~~~~~~~~~~~  147 (476)
                      ++..+..++.+
T Consensus        58 ~~~~~~l~a~i   68 (68)
T PF14559_consen   58 NPEYQQLLAQI   68 (68)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHhcC
Confidence            98877777653

...

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=98.54  E-value=4.3e-07  Score=92.58  Aligned_cols=105  Identities=10%  Similarity=0.026  Sum_probs=86.8

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      +..+...|..++..|++++|+..|.++++.+|++..++..+|.+|.+.|++                       ++|++.
T Consensus       180 ~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~-----------------------~~A~~~  236 (389)
T PRK11788        180 AHFYCELAQQALARGDLDAARALLKKALAADPQCVRASILLGDLALAQGDY-----------------------AAAIEA  236 (389)
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcCCHHHHHHHHHHHHHCCCH-----------------------HHHHHH
Confidence            334567788888899999999999999998888888888899999999998                       888888


Q ss_pred             HHHHhhccccch-HHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchh
Q 011861          127 AEKLLNLQSNSM-KSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  174 (476)
Q Consensus       127 ~~~al~l~p~~~-~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~  174 (476)
                      ++++++.+|.+. .++..++.+|...|++++|+..++++++.+|++...
T Consensus       237 ~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~~~~  285 (389)
T PRK11788        237 LERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEYPGADLL  285 (389)
T ss_pred             HHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHH
Confidence            888888888763 466778888888888888888888888888876543

>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]

Probab=98.53  E-value=4.9e-08  Score=90.42  Aligned_cols=47  Identities=30%  Similarity=0.756  Sum_probs=43.6

Q ss_pred             CcccccccccccccCcEEccCCCcccHhhHHHhhhcCCCCccccccc
Q 011861          200 TDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (476)
Q Consensus       200 ~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~  246 (476)
                      ..-+.|.||.+.+..|+.++|||+||..||..++.....||.||...
T Consensus        23 Ds~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~   69 (391)
T COG5432          23 DSMLRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDP   69 (391)
T ss_pred             hhHHHhhhhhheeecceecccccchhHHHHHHHhcCCCCCccccccH
Confidence            34568999999999999999999999999999999999999999875

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

Probab=98.52  E-value=5.1e-07  Score=91.68  Aligned_cols=76  Identities=24%  Similarity=0.251  Sum_probs=69.8

Q ss_pred             cccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHh
Q 011861           83 VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAIL  162 (476)
Q Consensus        83 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~  162 (476)
                      .+.|+|-+|.+++++                       .+|+..+++||.+.|.++..|-..|.+|..+|.++.|+++|.
T Consensus       457 ~~~NLGH~~Rkl~~~-----------------------~eAI~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fh  513 (611)
T KOG1173|consen  457 TLNNLGHAYRKLNKY-----------------------EEAIDYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFH  513 (611)
T ss_pred             HHHhHHHHHHHHhhH-----------------------HHHHHHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHH
Confidence            378889999999999                       999999999999999999999999999999999999999999


Q ss_pred             cccccCCCCchhhHHHHHH
Q 011861          163 SGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       163 ~~l~l~p~~~~~~~~~~~~  181 (476)
                      ++|.++|+|..+...+..+
T Consensus       514 KaL~l~p~n~~~~~lL~~a  532 (611)
T KOG1173|consen  514 KALALKPDNIFISELLKLA  532 (611)
T ss_pred             HHHhcCCccHHHHHHHHHH
Confidence            9999999998776666544

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=98.52  E-value=3.4e-07  Score=101.71  Aligned_cols=112  Identities=11%  Similarity=-0.018  Sum_probs=104.0

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      .......|..+...|++++|+..+++++...|.++.++.++|.++...|++                       ++|++.
T Consensus       359 ~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~n~~l~~~lA~l~~~~g~~-----------------------~~A~~~  415 (765)
T PRK10049        359 LQGQSLLSQVAKYSNDLPQAEMRARELAYNAPGNQGLRIDYASVLQARGWP-----------------------RAAENE  415 (765)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCH-----------------------HHHHHH
Confidence            345567888999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      ++++++++|++...++.+|.++..+|+|++|...++++++.+|+++.+....+..
T Consensus       416 l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~Pd~~~~~~~~~~~  470 (765)
T PRK10049        416 LKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAREPQDPGVQRLARAR  470 (765)
T ss_pred             HHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999876544443

>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.51  E-value=5.2e-08  Score=84.47  Aligned_cols=49  Identities=35%  Similarity=0.969  Sum_probs=42.3

Q ss_pred             CCcccccccccccccCc--EEccCCCcccHhhHHHhhhcCCCCcccccccc
Q 011861          199 RTDDFDCTLCLKLLYEP--ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       199 ~~~~~~C~iC~~~~~~P--~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      ....+.|++|++.+.+-  +.+.|||.||+.||+..+.....||+|++.+.
T Consensus       128 ~~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt  178 (187)
T KOG0320|consen  128 KEGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKIT  178 (187)
T ss_pred             cccccCCCceecchhhccccccccchhHHHHHHHHHHHhCCCCCCcccccc
Confidence            34568999999988654  56799999999999999999999999998663

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

Probab=98.50  E-value=9.4e-07  Score=94.11  Aligned_cols=125  Identities=16%  Similarity=0.170  Sum_probs=97.7

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhh-------hccCCCCCcccCCCCCCC--
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF-------LKHRPPSASEYRPLNGLD--  115 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~~~~~~~--  115 (476)
                      ..+..++..||.+|..|++++|...+.++|+.+|.++.+|+.+|.+|.+.|+.       +.++|...+++..|.-..  
T Consensus       137 ~~l~~ll~eAN~lfarg~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladl  216 (895)
T KOG2076|consen  137 PELRQLLGEANNLFARGDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADL  216 (895)
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHH
Confidence            34788999999999999999999999999999999999999999999999875       233344444443322111  


Q ss_pred             --CcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCC
Q 011861          116 --PTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP  169 (476)
Q Consensus       116 --~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p  169 (476)
                        ++....+|.-.|.+|++++|.+.+.++.++..|..+|++..|+.-|.+.+.++|
T Consensus       217 s~~~~~i~qA~~cy~rAI~~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p  272 (895)
T KOG2076|consen  217 SEQLGNINQARYCYSRAIQANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDP  272 (895)
T ss_pred             HHhcccHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCC
Confidence              333347777788888888888888888888888888888888888888888877

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.50  E-value=5.5e-07  Score=90.31  Aligned_cols=118  Identities=17%  Similarity=0.112  Sum_probs=109.1

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      ....+-.+..++..|++++|.+.++..+...|+|+.++..++.+++..++.                       ++|++.
T Consensus       306 ~aa~YG~A~~~~~~~~~d~A~~~l~~L~~~~P~N~~~~~~~~~i~~~~nk~-----------------------~~A~e~  362 (484)
T COG4783         306 LAAQYGRALQTYLAGQYDEALKLLQPLIAAQPDNPYYLELAGDILLEANKA-----------------------KEAIER  362 (484)
T ss_pred             hHHHHHHHHHHHHhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCh-----------------------HHHHHH
Confidence            445667788899999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhh
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  187 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~  187 (476)
                      +++++.++|+.+...+.+|++|+..|++.+|+..++.++.-+|+++..+..+.+.-..++.
T Consensus       363 ~~kal~l~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~  423 (484)
T COG4783         363 LKKALALDPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGN  423 (484)
T ss_pred             HHHHHhcCCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCc
Confidence            9999999999999999999999999999999999999999999999999988777655544

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.50  E-value=5.6e-07  Score=97.52  Aligned_cols=103  Identities=15%  Similarity=-0.028  Sum_probs=97.7

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      ..+.+....|..+.+.+++++|+..+.+++..+|+++.+++.+|.++..+|++                       ++|+
T Consensus       118 d~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~~~~~~~~~a~~l~~~g~~-----------------------~~A~  174 (694)
T PRK15179        118 DSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSSSAREILLEAKSWDEIGQS-----------------------EQAD  174 (694)
T ss_pred             CcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHhcch-----------------------HHHH
Confidence            45677788999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCC
Q 011861          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF  170 (476)
Q Consensus       125 ~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~  170 (476)
                      ..|++++..+|++..++..+|.++..+|+.++|...|+++++...+
T Consensus       175 ~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~  220 (694)
T PRK15179        175 ACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGD  220 (694)
T ss_pred             HHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCc
Confidence            9999999999999999999999999999999999999999987543

>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=98.49  E-value=8.8e-08  Score=64.41  Aligned_cols=38  Identities=50%  Similarity=1.292  Sum_probs=34.3

Q ss_pred             cccccccccCcE-EccCCCcccHhhHHHhhh--cCCCCccc
Q 011861          205 CTLCLKLLYEPI-TTPCGHSFCRSCLFQSMD--RGNKCPLC  242 (476)
Q Consensus       205 C~iC~~~~~~P~-~~~cgh~fC~~Cl~~~~~--~~~~Cp~c  242 (476)
                      |++|.+.+.+|+ .++|||+||..|+.+|+.  ....||.|
T Consensus         1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            789999999999 789999999999999998  45569987

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=98.49  E-value=4.2e-07  Score=105.52  Aligned_cols=125  Identities=18%  Similarity=0.215  Sum_probs=91.0

Q ss_pred             HhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCC---------------
Q 011861           52 QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDP---------------  116 (476)
Q Consensus        52 ~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------  116 (476)
                      ..|..++..|++++|+..|.++++.+|+++.++..+|.+|.+.|++-+    +...++..+..++               
T Consensus       274 ~~G~~~~~~g~~~~A~~~l~~aL~~~P~~~~a~~~Lg~~~~~~g~~~e----A~~~l~~Al~~~p~~~~~~~~~~ll~~~  349 (1157)
T PRK11447        274 AQGLAAVDSGQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRAR----AVAQFEKALALDPHSSNRDKWESLLKVN  349 (1157)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHH----HHHHHHHHHHhCCCccchhHHHHHHHhh
Confidence            446677777777777777777777777777777777777777665521    1111111111111               


Q ss_pred             --------------cchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHH
Q 011861          117 --------------TTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (476)
Q Consensus       117 --------------~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~  180 (476)
                                    ....++|+..++++++++|++..+++.+|.++...|++++|+..|+++++++|++..+...+..
T Consensus       350 ~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~~~L~~  427 (1157)
T PRK11447        350 RYWLLIQQGDAALKANNLAQAERLYQQARQVDNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAVRGLAN  427 (1157)
T ss_pred             hHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence                          1112789999999999999999999999999999999999999999999999999876654433

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=98.48  E-value=4.2e-07  Score=100.99  Aligned_cols=112  Identities=12%  Similarity=0.057  Sum_probs=104.0

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      .+..+...|..+...|++++|+..|.++++++|.++.++..+|.++...|++                       ++|+.
T Consensus        48 ~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~l~~~g~~-----------------------~eA~~  104 (765)
T PRK10049         48 PARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILTLADAGQY-----------------------DEALV  104 (765)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCH-----------------------HHHHH
Confidence            3455788899999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       126 ~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      .++++++.+|++.. ++.+|.++...|++++|+..++++++++|++..+...+..+
T Consensus       105 ~l~~~l~~~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~  159 (765)
T PRK10049        105 KAKQLVSGAPDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQA  159 (765)
T ss_pred             HHHHHHHhCCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            99999999999999 99999999999999999999999999999998876655443

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=98.48  E-value=2.3e-07  Score=70.76  Aligned_cols=70  Identities=24%  Similarity=0.340  Sum_probs=64.6

Q ss_pred             hHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhccccc
Q 011861           88 SSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQV  167 (476)
Q Consensus        88 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l  167 (476)
                      +.+|.+.++|                       ++|++.+++++.++|+++..++.+|.++..+|+|++|+..|+++++.
T Consensus         2 ~~~~~~~~~~-----------------------~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~   58 (73)
T PF13371_consen    2 KQIYLQQEDY-----------------------EEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALEL   58 (73)
T ss_pred             HHHHHhCCCH-----------------------HHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            5688899999                       99999999999999999999999999999999999999999999999


Q ss_pred             CCCCchhhHHHHH
Q 011861          168 DPFSNPLQASLQN  180 (476)
Q Consensus       168 ~p~~~~~~~~~~~  180 (476)
                      +|++.........
T Consensus        59 ~p~~~~~~~~~a~   71 (73)
T PF13371_consen   59 SPDDPDARALRAM   71 (73)
T ss_pred             CCCcHHHHHHHHh
Confidence            9988887665544

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.48  E-value=4.4e-07  Score=95.09  Aligned_cols=105  Identities=15%  Similarity=0.103  Sum_probs=95.1

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH-
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK-  125 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~-  125 (476)
                      +.-++..|..+..+|++.+|...|..|+.++|+.+.+...+|.++.+.|+.                       ..|.. 
T Consensus       684 ~~~~~~~G~~~~~~~~~~EA~~af~~Al~ldP~hv~s~~Ala~~lle~G~~-----------------------~la~~~  740 (799)
T KOG4162|consen  684 ASVYYLRGLLLEVKGQLEEAKEAFLVALALDPDHVPSMTALAELLLELGSP-----------------------RLAEKR  740 (799)
T ss_pred             HHHHHHhhHHHHHHHhhHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCc-----------------------chHHHH
Confidence            345678899999999999999999999999999999999999999999987                       55555 


Q ss_pred             -HHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchh
Q 011861          126 -DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  174 (476)
Q Consensus       126 -~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~  174 (476)
                       ....|+++||.++++||.+|.++...|+.+.|.+.|..++++++.+|..
T Consensus       741 ~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe~S~PV~  790 (799)
T KOG4162|consen  741 SLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLEESNPVL  790 (799)
T ss_pred             HHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhccCCCcc
Confidence             8889999999999999999999999999999999999999999888763

>KOG1310 consensus WD40 repeat protein [General function prediction only]

Probab=98.47  E-value=3.3e-07  Score=92.09  Aligned_cols=126  Identities=28%  Similarity=0.258  Sum_probs=109.5

Q ss_pred             chhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchH
Q 011861           41 WDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA  120 (476)
Q Consensus        41 ~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (476)
                      .+....++.++++|+..|..+....||.+|.+++...|....+|.|||.++++-+-.                    ...
T Consensus       368 ~eL~e~ie~~~~egnd~ly~~~~~~~i~~~s~a~q~~~~~~~~l~nraa~lmkRkW~--------------------~d~  427 (758)
T KOG1310|consen  368 YELPENIEKFKTEGNDGLYESIVSGAISHYSRAIQYVPDAIYLLENRAAALMKRKWR--------------------GDS  427 (758)
T ss_pred             hhchHHHHHHHhhccchhhhHHHHHHHHHHHHHhhhccchhHHHHhHHHHHHhhhcc--------------------ccH
Confidence            466678899999999999999999999999999999999999999999998775433                    133


Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhh
Q 011861          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  186 (476)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~  186 (476)
                      -.|+.|+..|+++||...+|||+++.++..+++|.+|++...++....|.+.+.......+.+-+.
T Consensus       428 ~~AlrDch~Alrln~s~~kah~~la~aL~el~r~~eal~~~~alq~~~Ptd~a~~~~v~~l~rDi~  493 (758)
T KOG1310|consen  428 YLALRDCHVALRLNPSIQKAHFRLARALNELTRYLEALSCHWALQMSFPTDVARQNFVLCLPRDIS  493 (758)
T ss_pred             HHHHHhHHhhccCChHHHHHHHHHHHHHHHHhhHHHhhhhHHHHhhcCchhhhhhhhhhccccchH
Confidence            789999999999999999999999999999999999999999888889988777666555544443

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

Probab=98.46  E-value=6.5e-07  Score=100.25  Aligned_cols=112  Identities=18%  Similarity=0.179  Sum_probs=102.4

Q ss_pred             hhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHH
Q 011861           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (476)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (476)
                      ...+..+...|..++..|++++|+..|.++++.+|++..++..+|.++...|++                       ++|
T Consensus       122 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~-----------------------~~A  178 (899)
T TIGR02917       122 EGAAELLALRGLAYLGLGQLELAQKSYEQALAIDPRSLYAKLGLAQLALAENRF-----------------------DEA  178 (899)
T ss_pred             hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHCCCH-----------------------HHH
Confidence            345667888999999999999999999999999999999999999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHH
Q 011861          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASL  178 (476)
Q Consensus       124 ~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~  178 (476)
                      +..++++++.+|++..+++.+|.++...|++++|...|+++++.+|.+......+
T Consensus       179 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~~  233 (899)
T TIGR02917       179 RALIDEVLTADPGNVDALLLKGDLLLSLGNIELALAAYRKAIALRPNNPAVLLAL  233 (899)
T ss_pred             HHHHHHHHHhCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCCHHHHHHH
Confidence            9999999999999999999999999999999999999999999999887765443

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.

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=98.44  E-value=1.8e-06  Score=90.21  Aligned_cols=176  Identities=15%  Similarity=0.159  Sum_probs=123.6

Q ss_pred             CCCcceee--cccCCCccCCCCCChhHHHHHHHHHhc-CceeEEEEecCC--CC-------------------------C
Q 011861          288 LMPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEG-NHRMGMVIIDPT--TG-------------------------S  337 (476)
Q Consensus       288 ~lPl~~l~--vlfP~~~~pl~v~~~~~~~~v~~a~~~-~~~~~v~~~~~~--~~-------------------------~  337 (476)
                      .+|++|++  ++|||-.+++.|..++.++++++.+.. ..++|+++....  .+                         -
T Consensus        68 ~l~~Lpi~~~pL~PGf~~~i~v~~~~~~~~i~~~l~~~qpyiG~fl~kdd~~~~~~~t~~~~vyi~~~~~~~~~~~~~l~  147 (906)
T KOG2004|consen   68 RLPALPITRGPLFPGFYKRIEVKSPKVLALIREKLRRQQPYIGAFLLKDDSSGDSVITSINEVYILEVFPGKDKLRMVLY  147 (906)
T ss_pred             ccceeeccCCCcCCCceeEEEecCHHHHHHHHHHHHhcCcccceeeeccCCCCCcceeeccccceeeeecCCcchhhhhh
Confidence            58999987  999999999999999999999998875 456777765211  00                         0


Q ss_pred             cccceeE---EEEEEeeecCCceEEEEEEecceeEEeeeecCC--CeeEEEEEEecCCCCCCcchhhhHHHHHHHHHHHH
Q 011861          338 VADFACE---VEITECEPLPDGRFVLEIESRRRFRILRSWDQD--GYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYA  412 (476)
Q Consensus       338 l~~iGt~---~~I~~~~~~~dG~~~V~v~G~~R~~I~~~~~~~--~~~~a~v~~l~d~~~~~~~~~~~l~~l~~~l~~~~  412 (476)
                      .++.+.+   +.|.+......+.+.+.+.|..|++|.+...+.  +.+..+++-+.+.+.+   .++++.++..++...+
T Consensus       148 ~hRr~~~~~~~~~~~g~~~~~~~~~~~~~~~~r~~i~e~~~e~~~~vl~v~v~~v~~e~~~---~~~~~ka~~~ei~~t~  224 (906)
T KOG2004|consen  148 PHRRIRITELAPISEGKEDAEVEYSLLVTGLSRLNITEMKEEKEAEVLSVEVENVKDEPFK---KDEEIKALTSEILKTL  224 (906)
T ss_pred             hhhheeeeeeccccccccccccceeecccccccccchhhhccccCCceeeeeecccCCccC---cchHHHHHHHHHHHHH
Confidence            1222223   233322222356788888999999998877653  3556677766654432   2234888899999999


Q ss_pred             HHHHHHhHHhhHHHHHHHHHHhhcccCCCCCCChhhhHHHHHhcCCCChHHhHhhcccCCCC
Q 011861          413 RLWLRREKESARQDRRRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTR  474 (476)
Q Consensus       413 ~~~~~~~~~~~~~~~~~l~~il~~~~~~~~~~~p~~l~~~va~~l~l~~~~kq~LLe~~d~~  474 (476)
                      ++++..+...... ...+.+       ....++|..|+|+.|+....+..+.|++|+..|+.
T Consensus       225 rdii~~n~l~r~~-v~~~~~-------~~~~~~~~~LaD~~aai~~~~~~elq~vL~~~di~  278 (906)
T KOG2004|consen  225 RDIIAVNSLFREQ-VATLSQ-------LIVEDNPIKLADFGAAISGAEFHELQEVLEETDIE  278 (906)
T ss_pred             HHHHHhhHHHHHH-HHHHHH-------HhcccChhHHHHHHHHHhccCHHHHHHHHHhcCHH
Confidence            9888877644432 111111       23448899999999999999999999999999875

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.41  E-value=1.2e-06  Score=92.31  Aligned_cols=127  Identities=14%  Similarity=0.115  Sum_probs=90.6

Q ss_pred             hHHHHHHhhHHHHHhcc---HHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccC----CCCCcccCC-----CCC
Q 011861           46 HVFDLVQKGNRAFRESN---FEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHR----PPSASEYRP-----LNG  113 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~---~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~~-----~~~  113 (476)
                      .+..++.+|..++..++   +.+|+.+|.+|++++|+++.+|..+|.+|.....+.-..    .....+.+.     ...
T Consensus       338 ~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ldP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~al~~~~  417 (517)
T PRK10153        338 AALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSEPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVALPELN  417 (517)
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhhcccCc
Confidence            46778889998887655   889999999999999999999999999987765541000    000000111     011


Q ss_pred             CCCcch------------HHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCch
Q 011861          114 LDPTTH------------AELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (476)
Q Consensus       114 ~~~~~~------------~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~  173 (476)
                      .++..+            -++|...+++|++++| +..+|..+|.++...|++++|.+.|.+|+.++|.++.
T Consensus       418 ~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~p-s~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~pt  488 (517)
T PRK10153        418 VLPRIYEILAVQALVKGKTDEAYQAINKAIDLEM-SWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGENT  488 (517)
T ss_pred             CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCch
Confidence            111111            1778888888888888 4678888888888888888888888888888888775

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=98.40  E-value=2.1e-06  Score=79.65  Aligned_cols=114  Identities=20%  Similarity=0.200  Sum_probs=92.9

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc---ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (476)
                      .+..++..|..+|..|+|.+|+..|++.+...|+.+   .+...+|.+|++.|+|                       ..
T Consensus         4 ~~~~lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y-----------------------~~   60 (203)
T PF13525_consen    4 TAEALYQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDY-----------------------EE   60 (203)
T ss_dssp             -HHHHHHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-H-----------------------HH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCH-----------------------HH
Confidence            467899999999999999999999999999988764   8889999999999999                       99


Q ss_pred             HHHHHHHHhhccccchH---HHHHHHHHHHhhh-----------hHHHHHHHHhcccccCCCCchhhHHHHHHH
Q 011861          123 ALKDAEKLLNLQSNSMK---SHLLKANALILLE-----------RYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (476)
Q Consensus       123 a~~~~~~al~l~p~~~~---~~~~~~~~~~~~~-----------~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~  182 (476)
                      |+..+++.++..|+++.   ++|.+|.+++...           ...+|+..|+..++..|+++-+......+.
T Consensus        61 A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~~~~~~~~~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~  134 (203)
T PF13525_consen   61 AIAAYERFIKLYPNSPKADYALYMLGLSYYKQIPGILRSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLA  134 (203)
T ss_dssp             HHHHHHHHHHH-TT-TTHHHHHHHHHHHHHHHHHHHH-TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCCcchhhHHHHHHHHHHHhCccchhcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHH
Confidence            99999999999998754   8999999987654           345899999999999999887765544443

>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=98.36  E-value=9.4e-07  Score=66.30  Aligned_cols=60  Identities=25%  Similarity=0.277  Sum_probs=54.5

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHH
Q 011861          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (476)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~  180 (476)
                      ++|++.++++++.+|++..+++.+|.+|+..|++++|...+.+++..+|+++.....+.+
T Consensus         8 ~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~l~a~   67 (68)
T PF14559_consen    8 DEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPDNPEYQQLLAQ   67 (68)
T ss_dssp             HHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCHHHHHHHHhc
Confidence            999999999999999999999999999999999999999999999999998776655443

...

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=98.36  E-value=1.3e-06  Score=101.50  Aligned_cols=102  Identities=16%  Similarity=0.085  Sum_probs=87.9

Q ss_pred             HHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHH
Q 011861           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (476)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (476)
                      .+...|..+.+.|++++|+..|.++++.+|+++.++.++|.+|...|++                       ++|++.++
T Consensus       605 ~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~-----------------------~eA~~~l~  661 (1157)
T PRK11447        605 IDLTLADWAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDL-----------------------AAARAQLA  661 (1157)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCH-----------------------HHHHHHHH
Confidence            4556788888889999999999999999999999999999999999998                       89999999


Q ss_pred             HHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCch
Q 011861          129 KLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (476)
Q Consensus       129 ~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~  173 (476)
                      ++++.+|++..++..+|.++...|++++|++.|++++...|.++.
T Consensus       662 ~ll~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~  706 (1157)
T PRK11447        662 KLPATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPP  706 (1157)
T ss_pred             HHhccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCc
Confidence            888888888888888899888899999999999988887766553

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.35  E-value=1.9e-06  Score=86.46  Aligned_cols=118  Identities=17%  Similarity=0.121  Sum_probs=108.0

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      .+...+...+..++..+++.+|++.+.+++.++|+.+.+..++|.+|++.|++                       ++|+
T Consensus       338 ~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~-----------------------~eai  394 (484)
T COG4783         338 DNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKP-----------------------QEAI  394 (484)
T ss_pred             CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCCh-----------------------HHHH
Confidence            44555667899999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhh
Q 011861          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (476)
Q Consensus       125 ~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~  185 (476)
                      ......+.-+|+++..|..+|++|-.+|+-.+|...+-.++.+......+...+...++..
T Consensus       395 ~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~~~G~~~~A~~~l~~A~~~~  455 (484)
T COG4783         395 RILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARAEGYALAGRLEQAIIFLMRASQQV  455 (484)
T ss_pred             HHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhc
Confidence            9999999999999999999999999999999999999999999888888777777666655

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.35  E-value=2.8e-06  Score=80.93  Aligned_cols=114  Identities=14%  Similarity=0.171  Sum_probs=95.6

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccc---cchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVL---GNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (476)
                      ..+..+..+|..++..|+|++|+..|.+.+...|..+.+.   ..+|.+|++++++                       +
T Consensus        30 ~~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y-----------------------~   86 (243)
T PRK10866         30 NPPSEIYATAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADL-----------------------P   86 (243)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCH-----------------------H
Confidence            3567788999999999999999999999999999887544   8899999999999                       9


Q ss_pred             HHHHHHHHHhhccccchH---HHHHHHHHHHhhh------------------hHHHHHHHHhcccccCCCCchhhHHHHH
Q 011861          122 LALKDAEKLLNLQSNSMK---SHLLKANALILLE------------------RYDMARDAILSGLQVDPFSNPLQASLQN  180 (476)
Q Consensus       122 ~a~~~~~~al~l~p~~~~---~~~~~~~~~~~~~------------------~~~~A~~~~~~~l~l~p~~~~~~~~~~~  180 (476)
                      +|+..+++.++..|+++.   ++|.+|.++..++                  .-.+|+..|+..++..|+.+-.......
T Consensus        87 ~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~yP~S~ya~~A~~r  166 (243)
T PRK10866         87 LAQAAIDRFIRLNPTHPNIDYVLYMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRGYPNSQYTTDATKR  166 (243)
T ss_pred             HHHHHHHHHHHhCcCCCchHHHHHHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHHCcCChhHHHHHHH
Confidence            999999999999988755   8899998865443                  1357888999999999988766555444


Q ss_pred             H
Q 011861          181 L  181 (476)
Q Consensus       181 ~  181 (476)
                      +
T Consensus       167 l  167 (243)
T PRK10866        167 L  167 (243)
T ss_pred             H
Confidence            3

>PHA02926 zinc finger-like protein; Provisional

Probab=98.35  E-value=2.2e-07  Score=83.65  Aligned_cols=47  Identities=26%  Similarity=0.861  Sum_probs=37.7

Q ss_pred             CcccccccccccccCc---------EEccCCCcccHhhHHHhhhcC------CCCccccccc
Q 011861          200 TDDFDCTLCLKLLYEP---------ITTPCGHSFCRSCLFQSMDRG------NKCPLCRAVL  246 (476)
Q Consensus       200 ~~~~~C~iC~~~~~~P---------~~~~cgh~fC~~Cl~~~~~~~------~~Cp~cr~~~  246 (476)
                      ..+.+|+||++...++         +..+|+|+||..||.+|....      ..||.||..+
T Consensus       168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f  229 (242)
T PHA02926        168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRF  229 (242)
T ss_pred             cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCccee
Confidence            3567999999986442         455999999999999998742      3499999876

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=98.34  E-value=2.2e-06  Score=87.34  Aligned_cols=108  Identities=18%  Similarity=0.143  Sum_probs=79.8

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHH
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (476)
                      ..+...|..++..|++++|+..|.++++.+|.+..++..++.++...|++                       ++|++.+
T Consensus       108 ~~~~~La~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~-----------------------~~A~~~~  164 (389)
T PRK11788        108 LALQELGQDYLKAGLLDRAEELFLQLVDEGDFAEGALQQLLEIYQQEKDW-----------------------QKAIDVA  164 (389)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHhchH-----------------------HHHHHHH
Confidence            45566678888888888888888888888888778888888888888888                       7777777


Q ss_pred             HHHhhccccchH-----HHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHH
Q 011861          128 EKLLNLQSNSMK-----SHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASL  178 (476)
Q Consensus       128 ~~al~l~p~~~~-----~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~  178 (476)
                      .++++.+|.+..     .+..+|.++...|++++|...|.++++.+|++......+
T Consensus       165 ~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l  220 (389)
T PRK11788        165 ERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAADPQCVRASILL  220 (389)
T ss_pred             HHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcCCHHHHHHH
Confidence            777777665422     445677777777788888887877777777665544433

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=98.34  E-value=1.3e-06  Score=88.06  Aligned_cols=72  Identities=14%  Similarity=0.089  Sum_probs=66.2

Q ss_pred             CchhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCccc---ccchhHHHHHHHhhhccCCCCCcccCCCCCCCC
Q 011861           40 PWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIV---LGNRSSAYIRISQFLKHRPPSASEYRPLNGLDP  116 (476)
Q Consensus        40 ~~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  116 (476)
                      .......+..+...|..++..|+|++|+..|++||+++|++..+   |+|+|.+|..+|++                   
T Consensus        68 ~~~dP~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~-------------------  128 (453)
T PLN03098         68 SEADVKTAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEG-------------------  128 (453)
T ss_pred             ccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCH-------------------
Confidence            34667788999999999999999999999999999999999855   99999999999999                   


Q ss_pred             cchHHHHHHHHHHHhhcc
Q 011861          117 TTHAELALKDAEKLLNLQ  134 (476)
Q Consensus       117 ~~~~~~a~~~~~~al~l~  134 (476)
                          ++|+.++++|+++.
T Consensus       129 ----dEAla~LrrALels  142 (453)
T PLN03098        129 ----KKAADCLRTALRDY  142 (453)
T ss_pred             ----HHHHHHHHHHHHhc
Confidence                99999999999983

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.33  E-value=1.6e-06  Score=87.50  Aligned_cols=84  Identities=14%  Similarity=0.183  Sum_probs=78.4

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      .+..+...|..++..|+|++|+..+.+|++++|+++.+|+++|.+|+.+|+|                       ++|+.
T Consensus        35 ~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~-----------------------~eA~~   91 (356)
T PLN03088         35 NAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEY-----------------------QTAKA   91 (356)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCH-----------------------HHHHH
Confidence            4567889999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHhhh
Q 011861          126 DAEKLLNLQSNSMKSHLLKANALILLE  152 (476)
Q Consensus       126 ~~~~al~l~p~~~~~~~~~~~~~~~~~  152 (476)
                      .++++++++|++..++..++.+...+.
T Consensus        92 ~~~~al~l~P~~~~~~~~l~~~~~kl~  118 (356)
T PLN03088         92 ALEKGASLAPGDSRFTKLIKECDEKIA  118 (356)
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHHH
Confidence            999999999999999999888866553

>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A

Probab=98.32  E-value=3.1e-07  Score=61.79  Aligned_cols=30  Identities=37%  Similarity=1.113  Sum_probs=21.1

Q ss_pred             cccccccccC----cEEccCCCcccHhhHHHhhhc
Q 011861          205 CTLCLKLLYE----PITTPCGHSFCRSCLFQSMDR  235 (476)
Q Consensus       205 C~iC~~~~~~----P~~~~cgh~fC~~Cl~~~~~~  235 (476)
                      |+||.+ +.+    |+.++|||+||+.|+.++..+
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~   34 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKK   34 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhc
Confidence            899999 888    899999999999999998874

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.30  E-value=2.4e-06  Score=74.70  Aligned_cols=95  Identities=18%  Similarity=0.254  Sum_probs=76.3

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC---cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (476)
                      ....+..|..++..|+|++|+..|.+++...|+.   +.+...+|.+++..|+|                       ++|
T Consensus        48 ~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~-----------------------d~A  104 (145)
T PF09976_consen   48 ALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQY-----------------------DEA  104 (145)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCH-----------------------HHH
Confidence            4566778888999999999999999999877654   36778889999999999                       899


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhccc
Q 011861          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGL  165 (476)
Q Consensus       124 ~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l  165 (476)
                      +..++. +.-.+-.+.++..+|.++...|++++|+..|++++
T Consensus       105 l~~L~~-~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~Al  145 (145)
T PF09976_consen  105 LATLQQ-IPDEAFKALAAELLGDIYLAQGDYDEARAAYQKAL  145 (145)
T ss_pred             HHHHHh-ccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHhC
Confidence            888855 33334456677789999999999999999988875

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=98.30  E-value=5.9e-07  Score=90.38  Aligned_cols=69  Identities=19%  Similarity=0.060  Sum_probs=66.4

Q ss_pred             cCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHH---HHHHHHHHHhhh
Q 011861           76 IKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKS---HLLKANALILLE  152 (476)
Q Consensus        76 ~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~---~~~~~~~~~~~~  152 (476)
                      -+|+++.+|.|+|.+|+.+|+|                       ++|+..|++|++++|++..+   |+++|.+|..+|
T Consensus        70 ~dP~~a~a~~NLG~AL~~lGry-----------------------eEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LG  126 (453)
T PLN03098         70 ADVKTAEDAVNLGLSLFSKGRV-----------------------KDALAQFETALELNPNPDEAQAAYYNKACCHAYRE  126 (453)
T ss_pred             CCCCCHHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcC
Confidence            5789999999999999999999                       99999999999999999865   999999999999


Q ss_pred             hHHHHHHHHhccccc
Q 011861          153 RYDMARDAILSGLQV  167 (476)
Q Consensus       153 ~~~~A~~~~~~~l~l  167 (476)
                      ++++|+.+|++++++
T Consensus       127 r~dEAla~LrrALel  141 (453)
T PLN03098        127 EGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHh
Confidence            999999999999997

>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)

Probab=98.30  E-value=4.8e-07  Score=61.67  Aligned_cols=42  Identities=45%  Similarity=1.129  Sum_probs=36.3

Q ss_pred             ccccccccccCcEEcc-CCCcccHhhHHHhhhc-CCCCcccccc
Q 011861          204 DCTLCLKLLYEPITTP-CGHSFCRSCLFQSMDR-GNKCPLCRAV  245 (476)
Q Consensus       204 ~C~iC~~~~~~P~~~~-cgh~fC~~Cl~~~~~~-~~~Cp~cr~~  245 (476)
                      .|++|.+.+.+++.++ |||.||..|+..|+.. ...||.|+..
T Consensus         1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~   44 (45)
T cd00162           1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTP   44 (45)
T ss_pred             CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCc
Confidence            4899999998887765 9999999999999986 6679999864

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.29  E-value=1.1e-06  Score=83.22  Aligned_cols=86  Identities=17%  Similarity=0.207  Sum_probs=74.6

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      +--+-.+|..|.+-|.|+.||+....||.+||..+.+|..+|.+|+.+|+|                       .+|++.
T Consensus       115 AVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~-----------------------~~A~~a  171 (304)
T KOG0553|consen  115 AVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKY-----------------------EEAIEA  171 (304)
T ss_pred             chHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcH-----------------------HHHHHH
Confidence            344556888999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhhHH
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLERYD  155 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~~~  155 (476)
                      |.+||+++|+|....-.+..+-..+++..
T Consensus       172 ykKaLeldP~Ne~~K~nL~~Ae~~l~e~~  200 (304)
T KOG0553|consen  172 YKKALELDPDNESYKSNLKIAEQKLNEPK  200 (304)
T ss_pred             HHhhhccCCCcHHHHHHHHHHHHHhcCCC
Confidence            99999999999866666666655544444

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

Probab=98.29  E-value=2.5e-06  Score=95.52  Aligned_cols=107  Identities=21%  Similarity=0.266  Sum_probs=74.1

Q ss_pred             HHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHH
Q 011861           50 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  129 (476)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  129 (476)
                      +...|..+...|++++|+..|.+++...|.++.+|..+|.+|...|++                       ++|+..+++
T Consensus       570 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----------------------~~A~~~~~~  626 (899)
T TIGR02917       570 ALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDL-----------------------NKAVSSFKK  626 (899)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCH-----------------------HHHHHHHHH
Confidence            334555666667777777777777777777777777777777777777                       777777777


Q ss_pred             HhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHH
Q 011861          130 LLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQ  179 (476)
Q Consensus       130 al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~  179 (476)
                      +++.+|+++.+++.+|.++...|++++|+..|+++++.+|++......+.
T Consensus       627 ~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~  676 (899)
T TIGR02917       627 LLALQPDSALALLLLADAYAVMKNYAKAITSLKRALELKPDNTEAQIGLA  676 (899)
T ss_pred             HHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHH
Confidence            77777777777777777777777777777777777777776665554443

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.

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.27  E-value=2.3e-06  Score=79.68  Aligned_cols=107  Identities=20%  Similarity=0.237  Sum_probs=98.6

Q ss_pred             HHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHH
Q 011861           51 VQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKL  130 (476)
Q Consensus        51 ~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a  130 (476)
                      ...++.++..|+-+.+....+++...+|.+..++...|..+++.|+|                       ..|+..+++|
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~~~d~~ll~~~gk~~~~~g~~-----------------------~~A~~~~rkA  126 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIAYPKDRELLAAQGKNQIRNGNF-----------------------GEAVSVLRKA  126 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhccCcccHHHHHHHHHHHHHhcch-----------------------HHHHHHHHHH
Confidence            45677788888889999999999999999998888899999999999                       9999999999


Q ss_pred             hhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHH
Q 011861          131 LNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (476)
Q Consensus       131 l~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~  180 (476)
                      ..++|++.++|..+|.+|.+.|++++|...|.+++++.|+++.+..++..
T Consensus       127 ~~l~p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgm  176 (257)
T COG5010         127 ARLAPTDWEAWNLLGAALDQLGRFDEARRAYRQALELAPNEPSIANNLGM  176 (257)
T ss_pred             hccCCCChhhhhHHHHHHHHccChhHHHHHHHHHHHhccCCchhhhhHHH
Confidence            99999999999999999999999999999999999999999998776644

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.27  E-value=6.1e-07  Score=61.24  Aligned_cols=41  Identities=39%  Similarity=1.028  Sum_probs=34.1

Q ss_pred             ccccccccc---cCcEEccCCCcccHhhHHHhhhcCCCCccccc
Q 011861          204 DCTLCLKLL---YEPITTPCGHSFCRSCLFQSMDRGNKCPLCRA  244 (476)
Q Consensus       204 ~C~iC~~~~---~~P~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~  244 (476)
                      .|++|.+.+   ..|+.++|||+||..|+.+.......||.||+
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            488999888   35667899999999999988856667999974

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

Probab=98.27  E-value=1.4e-06  Score=86.07  Aligned_cols=114  Identities=23%  Similarity=0.194  Sum_probs=106.3

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      -++.++..+|+..|..|||++|...|.+|++.+..-..+++|.|..+-.+|+.                       ++|+
T Consensus       488 yn~~a~~nkgn~~f~ngd~dka~~~ykeal~ndasc~ealfniglt~e~~~~l-----------------------deal  544 (840)
T KOG2003|consen  488 YNAAALTNKGNIAFANGDLDKAAEFYKEALNNDASCTEALFNIGLTAEALGNL-----------------------DEAL  544 (840)
T ss_pred             cCHHHhhcCCceeeecCcHHHHHHHHHHHHcCchHHHHHHHHhcccHHHhcCH-----------------------HHHH
Confidence            34678889999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       125 ~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      ..|-+.-.+--++.+.++.++.+|-.+.+...|++.+.++-.+-|+++.+..-+..+
T Consensus       545 d~f~klh~il~nn~evl~qianiye~led~aqaie~~~q~~slip~dp~ilskl~dl  601 (840)
T KOG2003|consen  545 DCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQANSLIPNDPAILSKLADL  601 (840)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcccCCCCHHHHHHHHHH
Confidence            999998888889999999999999999999999999999999999999987766555

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=98.26  E-value=1.5e-06  Score=78.53  Aligned_cols=110  Identities=23%  Similarity=0.204  Sum_probs=102.4

Q ss_pred             hhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHH
Q 011861           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (476)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (476)
                      ..+|.-++++|.-|=.-|-+.-|.-.|++++.+.|.-+.++..+|.-+...|+|                       +.|
T Consensus        62 eeRA~l~fERGvlYDSlGL~~LAR~DftQaLai~P~m~~vfNyLG~Yl~~a~~f-----------------------daa  118 (297)
T COG4785          62 EERAQLLFERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNF-----------------------DAA  118 (297)
T ss_pred             HHHHHHHHHhcchhhhhhHHHHHhhhhhhhhhcCCCcHHHHHHHHHHHHhcccc-----------------------hHH
Confidence            345777888998888889999999999999999999999999999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhH
Q 011861          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQA  176 (476)
Q Consensus       124 ~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~  176 (476)
                      .+.++..+++||.+--++.++|.+++-.|+|.-|.+++.+..+-||+++--..
T Consensus       119 ~eaFds~~ELDp~y~Ya~lNRgi~~YY~gR~~LAq~d~~~fYQ~D~~DPfR~L  171 (297)
T COG4785         119 YEAFDSVLELDPTYNYAHLNRGIALYYGGRYKLAQDDLLAFYQDDPNDPFRSL  171 (297)
T ss_pred             HHHhhhHhccCCcchHHHhccceeeeecCchHhhHHHHHHHHhcCCCChHHHH
Confidence            99999999999999999999999999999999999999999999999886433

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

Probab=98.25  E-value=1.8e-06  Score=84.24  Aligned_cols=117  Identities=21%  Similarity=0.196  Sum_probs=86.9

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccC--CCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIK--PGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~--p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (476)
                      ....+......+...++++++...+.++....  +.++.+|..+|.++.+.|++                       ++|
T Consensus       109 ~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~-----------------------~~A  165 (280)
T PF13429_consen  109 DPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDP-----------------------DKA  165 (280)
T ss_dssp             ---------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHH-----------------------HHH
T ss_pred             ccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCH-----------------------HHH
Confidence            33445556677888999999999999977655  67889999999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhh
Q 011861          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (476)
Q Consensus       124 ~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~  185 (476)
                      ++.+++|++++|++..+...+++.+...|+++++...+....+..|.++.++..+..+...+
T Consensus       166 ~~~~~~al~~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~l  227 (280)
T PF13429_consen  166 LRDYRKALELDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQL  227 (280)
T ss_dssp             HHHHHHHHHH-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhccc
Confidence            99999999999999999999999999999999988888887777788888776555544443

>PRK11906 transcriptional regulator; Provisional

Probab=98.24  E-value=7e-06  Score=82.88  Aligned_cols=118  Identities=9%  Similarity=-0.011  Sum_probs=99.5

Q ss_pred             HHHHhhHHHHHh---ccHHHHHHHHHHHh---ccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHH
Q 011861           49 DLVQKGNRAFRE---SNFEEAISNYSRAN---NIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (476)
Q Consensus        49 ~~~~~g~~~~~~---~~~~~Ai~~y~~al---~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (476)
                      +++.+|...+.+   ....+|+.++.+|+   .++|..+.+|..+|.||...--.            .  ..++...+.+
T Consensus       257 d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~------------g--~~~~~~~~~~  322 (458)
T PRK11906        257 DEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALH------------G--KSELELAAQK  322 (458)
T ss_pred             HHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHh------------c--CCCchHHHHH
Confidence            556677776544   35678999999999   99999999999999999876443            1  1125666699


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHH
Q 011861          123 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (476)
Q Consensus       123 a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~  180 (476)
                      |.+.+++|+++||+++.+++.+|.++...++++.|...|++++.++|+...+.-...-
T Consensus       323 a~~~A~rAveld~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~  380 (458)
T PRK11906        323 ALELLDYVSDITTVDGKILAIMGLITGLSGQAKVSHILFEQAKIHSTDIASLYYYRAL  380 (458)
T ss_pred             HHHHHHHHHhcCCCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcCCccHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999987655444

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=98.23  E-value=5.4e-06  Score=69.64  Aligned_cols=96  Identities=23%  Similarity=0.111  Sum_probs=86.4

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC---cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      ..+++.|..+-..|+.++|+.+|.+|+......   ..++.++|.++..+|++                       ++|+
T Consensus         2 ~~~~~~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~-----------------------deA~   58 (120)
T PF12688_consen    2 RALYELAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRY-----------------------DEAL   58 (120)
T ss_pred             chHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCH-----------------------HHHH
Confidence            357788999999999999999999999985544   47899999999999999                       9999


Q ss_pred             HHHHHHhhcccc---chHHHHHHHHHHHhhhhHHHHHHHHhcccc
Q 011861          125 KDAEKLLNLQSN---SMKSHLLKANALILLERYDMARDAILSGLQ  166 (476)
Q Consensus       125 ~~~~~al~l~p~---~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~  166 (476)
                      ..+++++.-.|+   +......++.++...|++++|+..+..++.
T Consensus        59 ~~L~~~~~~~p~~~~~~~l~~f~Al~L~~~gr~~eAl~~~l~~la  103 (120)
T PF12688_consen   59 ALLEEALEEFPDDELNAALRVFLALALYNLGRPKEALEWLLEALA  103 (120)
T ss_pred             HHHHHHHHHCCCccccHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            999999998888   888888999999999999999999988774

>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.23  E-value=1.3e-06  Score=87.97  Aligned_cols=47  Identities=36%  Similarity=0.992  Sum_probs=41.1

Q ss_pred             ccccccccccccCcEEccCCCcccHhhHHHhhhcC-----CCCccccccccc
Q 011861          202 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRG-----NKCPLCRAVLFI  248 (476)
Q Consensus       202 ~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~~-----~~Cp~cr~~~~~  248 (476)
                      +..||||++...-|+.+.|||.||..||.+.|..+     ..||+|+..+..
T Consensus       186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~  237 (513)
T KOG2164|consen  186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL  237 (513)
T ss_pred             CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence            77999999999999999999999999999977633     359999998854

>PRK14574 hmsH outer membrane protein; Provisional

Probab=98.22  E-value=4.6e-06  Score=92.14  Aligned_cols=109  Identities=13%  Similarity=-0.012  Sum_probs=78.2

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      .+....++|...+++|+|..|+..|.++++.+|+++......+.++...|++                       ++|+.
T Consensus        33 ~~~~~y~~aii~~r~Gd~~~Al~~L~qaL~~~P~~~~av~dll~l~~~~G~~-----------------------~~A~~   89 (822)
T PRK14574         33 MADTQYDSLIIRARAGDTAPVLDYLQEESKAGPLQSGQVDDWLQIAGWAGRD-----------------------QEVID   89 (822)
T ss_pred             chhHHHHHHHHHHhCCCHHHHHHHHHHHHhhCccchhhHHHHHHHHHHcCCc-----------------------HHHHH
Confidence            4557788899999999999999999999999999853333777777777777                       77777


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHH
Q 011861          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQAS  177 (476)
Q Consensus       126 ~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~  177 (476)
                      .+++++.-+|.+..++..+|.++...|+|++|++.|+++++.+|+++.+...
T Consensus        90 ~~eka~~p~n~~~~~llalA~ly~~~gdyd~Aiely~kaL~~dP~n~~~l~g  141 (822)
T PRK14574         90 VYERYQSSMNISSRGLASAARAYRNEKRWDQALALWQSSLKKDPTNPDLISG  141 (822)
T ss_pred             HHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHH
Confidence            7777773233333333344566777777777777777777777777665544

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=98.20  E-value=2.5e-06  Score=83.79  Aligned_cols=145  Identities=19%  Similarity=0.148  Sum_probs=104.8

Q ss_pred             hhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhcc---------CCCCCcccCCCC
Q 011861           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKH---------RPPSASEYRPLN  112 (476)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~---------~~~~~~~~~~~~  112 (476)
                      ..++...++..+|+.+...++.++|+-+|..|+.+.|.+-..|..+-.+|+..|++.++         .+++-+.-=.++
T Consensus       329 ~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~~~~sA~~LtL~  408 (564)
T KOG1174|consen  329 SEPRNHEALILKGRLLIALERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRLFQNSARSLTLF  408 (564)
T ss_pred             cCcccchHHHhccHHHHhccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHHhhcchhhhhhh
Confidence            34556788899999999999999999999999999999999999998888887765322         222223333344


Q ss_pred             CCC---CcchH-HHHHHHHHHHhhccccchHHHHH---------------------------------HHHHHHhhhhHH
Q 011861          113 GLD---PTTHA-ELALKDAEKLLNLQSNSMKSHLL---------------------------------KANALILLERYD  155 (476)
Q Consensus       113 ~~~---~~~~~-~~a~~~~~~al~l~p~~~~~~~~---------------------------------~~~~~~~~~~~~  155 (476)
                      |.+   +.... ++|.+.+++++.++|.+.++...                                 +|.++.....|.
T Consensus       409 g~~V~~~dp~~rEKAKkf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D~~LH~~Lgd~~~A~Ne~Q  488 (564)
T KOG1174|consen  409 GTLVLFPDPRMREKAKKFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFPDVNLHNHLGDIMRAQNEPQ  488 (564)
T ss_pred             cceeeccCchhHHHHHHHHHhhhccCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhccccHHHHHHHHHHHHhhhHH
Confidence            411   11111 78888999999999986654444                                 455555566677


Q ss_pred             HHHHHHhcccccCCCCchhhHHHHHHHHhhh
Q 011861          156 MARDAILSGLQVDPFSNPLQASLQNLERTTA  186 (476)
Q Consensus       156 ~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~  186 (476)
                      +|+++|.++|.+||.+....+++..++|.-.
T Consensus       489 ~am~~y~~ALr~dP~~~~sl~Gl~~lEK~~~  519 (564)
T KOG1174|consen  489 KAMEYYYKALRQDPKSKRTLRGLRLLEKSDD  519 (564)
T ss_pred             HHHHHHHHHHhcCccchHHHHHHHHHHhccC
Confidence            7777777777788888877777777776554

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=98.19  E-value=9.3e-06  Score=76.56  Aligned_cols=113  Identities=12%  Similarity=0.040  Sum_probs=101.8

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc---ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (476)
                      .+..+++.|-.+++.|||..|...|..-++..|+.+   .+++-+|.+++.+|+|                       ..
T Consensus       140 ~~~~~Y~~A~~~~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y-----------------------~~  196 (262)
T COG1729         140 PATKLYNAALDLYKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDY-----------------------ED  196 (262)
T ss_pred             chhHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccc-----------------------hH
Confidence            345589999999999999999999999999999874   8899999999999999                       99


Q ss_pred             HHHHHHHHhhccccch---HHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          123 ALKDAEKLLNLQSNSM---KSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       123 a~~~~~~al~l~p~~~---~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      |...|..+++-.|+++   .+++-+|.++..+|+-++|...|.+..+.-|..+.+......+
T Consensus       197 Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d~A~atl~qv~k~YP~t~aA~~Ak~~~  258 (262)
T COG1729         197 AAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTDEACATLQQVIKRYPGTDAAKLAKVAL  258 (262)
T ss_pred             HHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            9999999999887764   5899999999999999999999999999999988877655544

>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.15  E-value=8.6e-07  Score=81.90  Aligned_cols=49  Identities=45%  Similarity=0.971  Sum_probs=42.3

Q ss_pred             CcccccccccccccCcEEccCCCcccHhhHHH-hhhcCCC-Cccccccccc
Q 011861          200 TDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQ-SMDRGNK-CPLCRAVLFI  248 (476)
Q Consensus       200 ~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~-~~~~~~~-Cp~cr~~~~~  248 (476)
                      ..++.|.+|++....|..++|||.||..||.. |-.+... ||+||+...+
T Consensus       213 ~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~p  263 (271)
T COG5574         213 LADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYP  263 (271)
T ss_pred             ccccceeeeecccCCcccccccchhhHHHHHHHHHhhccccCchhhhhccc
Confidence            45889999999999999999999999999998 5555555 9999987643

>PRK11906 transcriptional regulator; Provisional

Probab=98.15  E-value=4.6e-06  Score=84.15  Aligned_cols=92  Identities=16%  Similarity=0.031  Sum_probs=86.9

Q ss_pred             hccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchH
Q 011861           60 ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMK  139 (476)
Q Consensus        60 ~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~  139 (476)
                      ..+-.+|..+..+|++++|+|+.++..+|.++...+++                       +.|+..+++|+.++|+++.
T Consensus       317 ~~~~~~a~~~A~rAveld~~Da~a~~~~g~~~~~~~~~-----------------------~~a~~~f~rA~~L~Pn~A~  373 (458)
T PRK11906        317 ELAAQKALELLDYVSDITTVDGKILAIMGLITGLSGQA-----------------------KVSHILFEQAKIHSTDIAS  373 (458)
T ss_pred             hHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHhhcch-----------------------hhHHHHHHHHhhcCCccHH
Confidence            45678899999999999999999999999999999999                       9999999999999999999


Q ss_pred             HHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchh
Q 011861          140 SHLLKANALILLERYDMARDAILSGLQVDPFSNPL  174 (476)
Q Consensus       140 ~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~  174 (476)
                      +|+..|......|+.++|...++++++++|.-..+
T Consensus       374 ~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~  408 (458)
T PRK11906        374 LYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKA  408 (458)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHH
Confidence            99999999999999999999999999999975543

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=98.14  E-value=1.5e-05  Score=78.79  Aligned_cols=97  Identities=14%  Similarity=0.223  Sum_probs=85.0

Q ss_pred             HHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHH
Q 011861           50 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  129 (476)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  129 (476)
                      +...+-.+.+.++|.+||...+++|+++|+|..+++.||.||..+++|                       +.|..++++
T Consensus       260 ~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~-----------------------~~A~~df~k  316 (397)
T KOG0543|consen  260 HLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEY-----------------------DLARDDFQK  316 (397)
T ss_pred             hhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccH-----------------------HHHHHHHHH
Confidence            344667788999999999999999999999999999999999999999                       999999999


Q ss_pred             HhhccccchHHHHHHHHHHHhhhhHHHH-HHHHhcccccCC
Q 011861          130 LLNLQSNSMKSHLLKANALILLERYDMA-RDAILSGLQVDP  169 (476)
Q Consensus       130 al~l~p~~~~~~~~~~~~~~~~~~~~~A-~~~~~~~l~l~p  169 (476)
                      |++++|+|-.+...+..+.....++.+. ...|...+..-+
T Consensus       317 a~k~~P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~k~~  357 (397)
T KOG0543|consen  317 ALKLEPSNKAARAELIKLKQKIREYEEKEKKMYANMFAKLA  357 (397)
T ss_pred             HHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence            9999999988888888888777766655 677887776544

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.14  E-value=6.6e-06  Score=84.05  Aligned_cols=135  Identities=16%  Similarity=0.090  Sum_probs=90.8

Q ss_pred             hhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHH----------hhhccCCC----CCcc
Q 011861           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRIS----------QFLKHRPP----SASE  107 (476)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~----------~~~~~~~~----~~~~  107 (476)
                      +.+.++++|.-.|......++=..||..+.++++++|++.+++..+|..|.+.|          +|++..+.    .-+.
T Consensus       314 qdP~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~Al~~L~~Wi~~~p~y~~l~~a~  393 (579)
T KOG1125|consen  314 QDPQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQALKMLDKWIRNKPKYVHLVSAG  393 (579)
T ss_pred             hChHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCccchhccccC
Confidence            445678999999999999999999999999999999999999999999998754          44332211    1111


Q ss_pred             cCCCC----CCCCcchHHHHHHHHHHHhhccc--cchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhH
Q 011861          108 YRPLN----GLDPTTHAELALKDAEKLLNLQS--NSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQA  176 (476)
Q Consensus       108 ~~~~~----~~~~~~~~~~a~~~~~~al~l~p--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~  176 (476)
                      -...+    +....+....-.+.|-.|...+|  .+++.+..+|..|+..|+|+.|++.|+.||..+|+|..+++
T Consensus       394 ~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~v~Pnd~~lWN  468 (579)
T KOG1125|consen  394 ENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQVKPNDYLLWN  468 (579)
T ss_pred             ccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHHHHHHhcCCchHHHHH
Confidence            11111    11222333444455555555555  56666666677676777777777777777777776666654

>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]

Probab=98.11  E-value=1.4e-06  Score=82.99  Aligned_cols=73  Identities=29%  Similarity=0.584  Sum_probs=62.7

Q ss_pred             CCcccccccccccccCcEEc-cCCCcccHhhHHHhhhcCCCCcccccccccCC--CCcccchhHHHHHHHhCchHH
Q 011861          199 RTDDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDRGNKCPLCRAVLFITP--RTCAVSVTLNSIIQKNFPEEY  271 (476)
Q Consensus       199 ~~~~~~C~iC~~~~~~P~~~-~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~~~~--~~~~~n~~l~~~~~~~~~~~~  271 (476)
                      .....+|.+|..++.++.++ .|-|+||+.||..++.....||.|...+..+.  ..+..+..|+.++.+++|+-+
T Consensus        12 ~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~pl~ni~~DrtlqdiVyKLVPgl~   87 (331)
T KOG2660|consen   12 LNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKTHPLLNIRSDRTLQDIVYKLVPGLQ   87 (331)
T ss_pred             cccceehhhccceeecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccCccccccCCcchHHHHHHHHHcchHH
Confidence            45678999999999999875 89999999999999999889999998874332  456778999999999999865

>smart00184 RING Ring finger

Probab=98.09  E-value=2.6e-06  Score=55.88  Aligned_cols=38  Identities=47%  Similarity=1.315  Sum_probs=33.6

Q ss_pred             cccccccccCcEEccCCCcccHhhHHHhhh-cCCCCccc
Q 011861          205 CTLCLKLLYEPITTPCGHSFCRSCLFQSMD-RGNKCPLC  242 (476)
Q Consensus       205 C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~-~~~~Cp~c  242 (476)
                      |++|.+...+++.++|||.||..|+..|+. ....||.|
T Consensus         1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCCCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            788999988999999999999999999988 45569987

E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)

>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=98.09  E-value=2.8e-06  Score=64.75  Aligned_cols=41  Identities=44%  Similarity=1.001  Sum_probs=33.7

Q ss_pred             cccccccccccCc------------E-EccCCCcccHhhHHHhhhcCCCCcccc
Q 011861          203 FDCTLCLKLLYEP------------I-TTPCGHSFCRSCLFQSMDRGNKCPLCR  243 (476)
Q Consensus       203 ~~C~iC~~~~~~P------------~-~~~cgh~fC~~Cl~~~~~~~~~Cp~cr  243 (476)
                      ..|.||++.+.+|            + ..+|||.|+..||.+|+.....||+||
T Consensus        20 d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   20 DNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             SBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             CcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            3599999998433            3 348999999999999999888999997

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....

>PRK14574 hmsH outer membrane protein; Provisional

Probab=98.08  E-value=1.2e-05  Score=88.80  Aligned_cols=107  Identities=13%  Similarity=0.112  Sum_probs=81.9

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      ...+...|..+..+|+|++|+..|.++++.+|+++.++..++..|...++.                       ++|+..
T Consensus       102 ~~~llalA~ly~~~gdyd~Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~-----------------------~eAl~~  158 (822)
T PRK14574        102 SRGLASAARAYRNEKRWDQALALWQSSLKKDPTNPDLISGMIMTQADAGRG-----------------------GVVLKQ  158 (822)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCH-----------------------HHHHHH
Confidence            344444577778888888888888888888888888888888888888888                       888888


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHH
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQAS  177 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~  177 (476)
                      +.+++..+|++... ..++.++...+++.+|+..++++++.+|++..+...
T Consensus       159 l~~l~~~dp~~~~~-l~layL~~~~~~~~~AL~~~ekll~~~P~n~e~~~~  208 (822)
T PRK14574        159 ATELAERDPTVQNY-MTLSYLNRATDRNYDALQASSEAVRLAPTSEEVLKN  208 (822)
T ss_pred             HHHhcccCcchHHH-HHHHHHHHhcchHHHHHHHHHHHHHhCCCCHHHHHH
Confidence            88888888874443 445555555677766888888888888888876543

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.07  E-value=1.3e-05  Score=80.68  Aligned_cols=104  Identities=12%  Similarity=-0.008  Sum_probs=90.3

Q ss_pred             hhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHH
Q 011861           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (476)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (476)
                      ......+...|..+...|++++|+..|.++++++|+++.++..+|.+|...|++                       ++|
T Consensus       111 ~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~-----------------------~eA  167 (355)
T cd05804         111 PDYWYLLGMLAFGLEEAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRF-----------------------KEG  167 (355)
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCH-----------------------HHH
Confidence            334455667788999999999999999999999999999999999999999999                       999


Q ss_pred             HHHHHHHhhccccch----HHHHHHHHHHHhhhhHHHHHHHHhcccccCCC
Q 011861          124 LKDAEKLLNLQSNSM----KSHLLKANALILLERYDMARDAILSGLQVDPF  170 (476)
Q Consensus       124 ~~~~~~al~l~p~~~----~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~  170 (476)
                      +..+.++++..|..+    ..|+.+|.++...|++++|+..|.+++...|.
T Consensus       168 ~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~  218 (355)
T cd05804         168 IAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAE  218 (355)
T ss_pred             HHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccC
Confidence            999999999987433    35668999999999999999999998776663

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.

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.07  E-value=1.2e-05  Score=84.25  Aligned_cols=108  Identities=14%  Similarity=0.088  Sum_probs=96.1

Q ss_pred             HHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHH
Q 011861           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (476)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (476)
                      +....|+-.+..++|++|.+++..+++++|-....|+++|-|+.+++++                       +.|.++|.
T Consensus       487 A~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~-----------------------q~av~aF~  543 (777)
T KOG1128|consen  487 AQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKE-----------------------QAAVKAFH  543 (777)
T ss_pred             HHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhh-----------------------HHHHHHHH
Confidence            3344455556779999999999999999999999999999999999999                       99999999


Q ss_pred             HHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHH
Q 011861          129 KLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQ  179 (476)
Q Consensus       129 ~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~  179 (476)
                      ..+.++|++..+|.+++-+|+.+|+-.+|...++++++-+-.+-.++++..
T Consensus       544 rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~iWENym  594 (777)
T KOG1128|consen  544 RCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQIWENYM  594 (777)
T ss_pred             HHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCeeeechh
Confidence            999999999999999999999999999999999999998866666655443

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.06  E-value=1.6e-05  Score=80.07  Aligned_cols=124  Identities=15%  Similarity=0.051  Sum_probs=84.8

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcc--------
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT--------  118 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------  118 (476)
                      .+....+|..++..|++++|+..+.++++.+|++..++.. +..+..+|.+...........+......+..        
T Consensus        43 ~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~a  121 (355)
T cd05804          43 RERAHVEALSAWIAGDLPKALALLEQLLDDYPRDLLALKL-HLGAFGLGDFSGMRDHVARVLPLWAPENPDYWYLLGMLA  121 (355)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHH-hHHHHHhcccccCchhHHHHHhccCcCCCCcHHHHHHHH
Confidence            4456678889999999999999999999999999877766 6667666665221111111111111222211        


Q ss_pred             -------hHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCC
Q 011861          119 -------HAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (476)
Q Consensus       119 -------~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~  171 (476)
                             ..++|+..++++++++|++..++..+|.+++..|++++|+..+.+++...|.+
T Consensus       122 ~~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~  181 (355)
T cd05804         122 FGLEEAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCS  181 (355)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCC
Confidence                   12667777777777777777777777777777788888887777777776643

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.

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.06  E-value=1.1e-05  Score=70.35  Aligned_cols=88  Identities=9%  Similarity=-0.093  Sum_probs=78.6

Q ss_pred             hccC-CCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhh
Q 011861           74 NNIK-PGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLE  152 (476)
Q Consensus        74 l~~~-p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~  152 (476)
                      ..+. ++.-+..+.+|.-++..|++                       ++|.+.|+-++.+||.+...|+.+|.++..+|
T Consensus        27 ~~~~~~~~l~~lY~~A~~ly~~G~l-----------------------~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g   83 (157)
T PRK15363         27 LDDDVTQPLNTLYRYAMQLMEVKEF-----------------------AGAARLFQLLTIYDAWSFDYWFRLGECCQAQK   83 (157)
T ss_pred             HCCChHHHHHHHHHHHHHHHHCCCH-----------------------HHHHHHHHHHHHhCcccHHHHHHHHHHHHHHh
Confidence            4456 66778888999999999999                       99999999999999999999999999999999


Q ss_pred             hHHHHHHHHhcccccCCCCchhhHHHHHHHHh
Q 011861          153 RYDMARDAILSGLQVDPFSNPLQASLQNLERT  184 (476)
Q Consensus       153 ~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~  184 (476)
                      +|++|+..|.+++.++|+++...-....+.-.
T Consensus        84 ~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~L~  115 (157)
T PRK15363         84 HWGEAIYAYGRAAQIKIDAPQAPWAAAECYLA  115 (157)
T ss_pred             hHHHHHHHHHHHHhcCCCCchHHHHHHHHHHH
Confidence            99999999999999999999877666555433

>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.03  E-value=2.1e-06  Score=80.42  Aligned_cols=104  Identities=22%  Similarity=0.442  Sum_probs=79.8

Q ss_pred             hhccccchHHHHHHHHH-HHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhhhhcccCCCCCCCCccccccccc
Q 011861          131 LNLQSNSMKSHLLKANA-LILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCL  209 (476)
Q Consensus       131 l~l~p~~~~~~~~~~~~-~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~iC~  209 (476)
                      +.+.|+-.+-|-.-|.+ |.....|-.-..+|..+++++-.+......            +. ........-.|.|-||.
T Consensus       182 ~d~qpDicKdykeTgycg~gdSckFlh~r~DyK~GWqi~~e~d~~ke~------------~~-~~~~D~~~~Pf~c~icr  248 (313)
T KOG1813|consen  182 IDYQPDICKDYKETGYCGYGDSCKFLHDRSDYKAGWQIEFEWDSAKEK------------KR-VKIEDIELLPFKCFICR  248 (313)
T ss_pred             eecCchhhhhhHhhCcccccchhhhhhhhhhccccceeehhhhccccc------------cc-eecCCcccCCccccccc
Confidence            44568888888888877 446788889999999999998776665410            00 01111112256899999


Q ss_pred             ccccCcEEccCCCcccHhhHHHhhhcCCCCcccccccc
Q 011861          210 KLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       210 ~~~~~P~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      ..+.+||.+.|||+||..|....++.+..|++|.+.+.
T Consensus       249 ~~f~~pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~  286 (313)
T KOG1813|consen  249 KYFYRPVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTH  286 (313)
T ss_pred             cccccchhhcCCceeehhhhccccccCCcceecccccc
Confidence            99999999999999999999999999999999998764

>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=98.01  E-value=2.2e-05  Score=79.50  Aligned_cols=93  Identities=22%  Similarity=0.181  Sum_probs=83.3

Q ss_pred             HhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHh
Q 011861           52 QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLL  131 (476)
Q Consensus        52 ~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al  131 (476)
                      ..++.++..++-.+|+....++++..|.++.++...|..+++.+++                       +.|++.+++|+
T Consensus       205 ~LA~v~l~~~~E~~AI~ll~~aL~~~p~d~~LL~~Qa~fLl~k~~~-----------------------~lAL~iAk~av  261 (395)
T PF09295_consen  205 LLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFLLSKKKY-----------------------ELALEIAKKAV  261 (395)
T ss_pred             HHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCH-----------------------HHHHHHHHHHH
Confidence            3577777888899999999999999999999999999999999999                       99999999999


Q ss_pred             hccccchHHHHHHHHHHHhhhhHHHHHHHHhccccc
Q 011861          132 NLQSNSMKSHLLKANALILLERYDMARDAILSGLQV  167 (476)
Q Consensus       132 ~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l  167 (476)
                      ++.|+..+.|+.+|.+|..+|+|+.|+..++.+--.
T Consensus       262 ~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm~  297 (395)
T PF09295_consen  262 ELSPSEFETWYQLAECYIQLGDFENALLALNSCPML  297 (395)
T ss_pred             HhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcCC
Confidence            999999999999999999999999999888866443

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.00  E-value=9.9e-06  Score=72.63  Aligned_cols=108  Identities=11%  Similarity=0.067  Sum_probs=91.3

Q ss_pred             hhHHHHHhccHHHHHHHHHHHhccCCCC--cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHH
Q 011861           53 KGNRAFRESNFEEAISNYSRANNIKPGD--PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKL  130 (476)
Q Consensus        53 ~g~~~~~~~~~~~Ai~~y~~al~~~p~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a  130 (476)
                      +.+.+|-..+|..+...+...++..+.+  ..+|.+.|.++...|++                       ++|+..++++
T Consensus         5 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~g~~~~~~g~~-----------------------~~A~~~~~~a   61 (168)
T CHL00033          5 QRNDNFIDKTFTIVADILLRILPTTSGEKEAFTYYRDGMSAQSEGEY-----------------------AEALQNYYEA   61 (168)
T ss_pred             cccccccccccccchhhhhHhccCCchhHHHHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHH
Confidence            4566777888888888887777777666  57789999999999999                       9999999999


Q ss_pred             hhccccc---hHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHH
Q 011861          131 LNLQSNS---MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  183 (476)
Q Consensus       131 l~l~p~~---~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~  183 (476)
                      +.+.|+.   ..+|+.+|.++...|++++|+..+.++++++|.+......+..+-.
T Consensus        62 l~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la~i~~  117 (168)
T CHL00033         62 MRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMAVICH  117 (168)
T ss_pred             HhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHH
Confidence            9997764   4589999999999999999999999999999988876655555444

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

Probab=97.99  E-value=4.6e-05  Score=82.13  Aligned_cols=114  Identities=17%  Similarity=0.159  Sum_probs=101.8

Q ss_pred             hhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC-cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHH
Q 011861           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD-PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (476)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (476)
                      ...+..++..|..+..+|||++|-..|.++++.+|++ .-.++.+|+.|++.|++                       ..
T Consensus       304 ~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dl-----------------------e~  360 (1018)
T KOG2002|consen  304 SIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDL-----------------------EE  360 (1018)
T ss_pred             HHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccchhHHHHHhchH-----------------------HH
Confidence            3456778999999999999999999999999999998 78889999999999999                       99


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHhhh----hHHHHHHHHhcccccCCCCchhhHHHHH
Q 011861          123 ALKDAEKLLNLQSNSMKSHLLKANALILLE----RYDMARDAILSGLQVDPFSNPLQASLQN  180 (476)
Q Consensus       123 a~~~~~~al~l~p~~~~~~~~~~~~~~~~~----~~~~A~~~~~~~l~l~p~~~~~~~~~~~  180 (476)
                      |+..+++++..+|++.+...-+|..|...+    .-+.|.....++++..|.+..++-.+..
T Consensus       361 s~~~fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~~~d~~a~l~laq  422 (1018)
T KOG2002|consen  361 SKFCFEKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQTPVDSEAWLELAQ  422 (1018)
T ss_pred             HHHHHHHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            999999999999999999999999998775    7788999999999998888877655544

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.98  E-value=3.7e-05  Score=59.65  Aligned_cols=76  Identities=24%  Similarity=0.270  Sum_probs=68.2

Q ss_pred             cccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHh
Q 011861           83 VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAIL  162 (476)
Q Consensus        83 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~  162 (476)
                      +++++|.++...|++                       .+|+..+.++++..|++..+++.+|.++...|++++|+..++
T Consensus         2 ~~~~~a~~~~~~~~~-----------------------~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~   58 (100)
T cd00189           2 ALLNLGNLYYKLGDY-----------------------DEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYE   58 (100)
T ss_pred             HHHHHHHHHHHHhcH-----------------------HHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            577899999999999                       999999999999999999999999999999999999999999


Q ss_pred             cccccCCCCchhhHHHHHH
Q 011861          163 SGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       163 ~~l~l~p~~~~~~~~~~~~  181 (476)
                      +++...|.+......+..+
T Consensus        59 ~~~~~~~~~~~~~~~~~~~   77 (100)
T cd00189          59 KALELDPDNAKAYYNLGLA   77 (100)
T ss_pred             HHHhCCCcchhHHHHHHHH
Confidence            9999999887655444433

>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.98  E-value=1.6e-06  Score=83.06  Aligned_cols=69  Identities=32%  Similarity=0.785  Sum_probs=57.7

Q ss_pred             CcccccccccccccCcEEc-cCCCcccHhhHHHhhh-cCCCCcccccccccCCCCcccchhHHHHHHHhCch
Q 011861          200 TDDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMD-RGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPE  269 (476)
Q Consensus       200 ~~~~~C~iC~~~~~~P~~~-~cgh~fC~~Cl~~~~~-~~~~Cp~cr~~~~~~~~~~~~n~~l~~~~~~~~~~  269 (476)
                      ..++.|++|+.+++..++. .|+|-||..||...+. .+..||.||+.+. +.+.+..+.....++.+.+|.
T Consensus        41 ~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~-SkrsLr~Dp~fdaLis~i~~s  111 (381)
T KOG0311|consen   41 DIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLV-SKRSLRIDPNFDALISKIYPS  111 (381)
T ss_pred             hhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcc-ccccCCCCccHHHHHHHHhcc
Confidence            3478999999999998876 8999999999988877 4567999999985 347788887778888887776

>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.97  E-value=4.3e-06  Score=82.70  Aligned_cols=64  Identities=34%  Similarity=0.868  Sum_probs=52.3

Q ss_pred             CCcccccccccccccCcEEccCCCcccHhhHHHhhhcCCCCcccccccccCCCCcccchhHHHHHHHh
Q 011861          199 RTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKN  266 (476)
Q Consensus       199 ~~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~~~~~~~~~n~~l~~~~~~~  266 (476)
                      ..+.+.|+||++.+..|..++|||+||..|+..++.....||.||. ..   ..+..|..+.++++.+
T Consensus        10 ~~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~-~~---~~~~~n~~l~~~~~~~   73 (386)
T KOG2177|consen   10 LQEELTCPICLEYFREPVLLPCGHNFCRACLTRSWEGPLSCPVCRP-PS---RNLRPNVLLANLVERL   73 (386)
T ss_pred             ccccccChhhHHHhhcCccccccchHhHHHHHHhcCCCcCCcccCC-ch---hccCccHHHHHHHHHH
Confidence            4468899999999999988899999999999998885556999995 32   2555777888887665

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.93  E-value=5.9e-05  Score=70.01  Aligned_cols=109  Identities=17%  Similarity=0.130  Sum_probs=96.0

Q ss_pred             HHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHH
Q 011861           50 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  129 (476)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  129 (476)
                      ...+|-.+-..|+|++|++.|+..++-||+|..+|...-.+..-+|+.                       .+||+....
T Consensus        89 ~~lkam~lEa~~~~~~A~e~y~~lL~ddpt~~v~~KRKlAilka~GK~-----------------------l~aIk~ln~  145 (289)
T KOG3060|consen   89 GKLKAMLLEATGNYKEAIEYYESLLEDDPTDTVIRKRKLAILKAQGKN-----------------------LEAIKELNE  145 (289)
T ss_pred             HHHHHHHHHHhhchhhHHHHHHHHhccCcchhHHHHHHHHHHHHcCCc-----------------------HHHHHHHHH
Confidence            344666677789999999999999999999999999888888888998                       899999999


Q ss_pred             HhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          130 LLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       130 al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      -++.-+++.++|..++.+|...|+|+.|.=.+++.+-+.|.++-....+..+
T Consensus       146 YL~~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~~P~n~l~f~rlae~  197 (289)
T KOG3060|consen  146 YLDKFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLIQPFNPLYFQRLAEV  197 (289)
T ss_pred             HHHHhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999998765544443

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

Probab=97.92  E-value=6.9e-05  Score=80.29  Aligned_cols=110  Identities=20%  Similarity=0.156  Sum_probs=88.1

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHH
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (476)
                      ..|+.-|...-+.|++.+|+-+|++||+.+|.+......|++.|.++|+.                       ..|+.-+
T Consensus       208 e~W~~ladls~~~~~i~qA~~cy~rAI~~~p~n~~~~~ers~L~~~~G~~-----------------------~~Am~~f  264 (895)
T KOG2076|consen  208 ELWKRLADLSEQLGNINQARYCYSRAIQANPSNWELIYERSSLYQKTGDL-----------------------KRAMETF  264 (895)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhChH-----------------------HHHHHHH
Confidence            34555566667889999999999999999999999999999999999999                       9999999


Q ss_pred             HHHhhcccc----ch-HHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          128 EKLLNLQSN----SM-KSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       128 ~~al~l~p~----~~-~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      .+++.++|.    .. ..-+..+..+...++-+.|.+.+..++. ...+......+..+
T Consensus       265 ~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s-~~~~~~~~ed~ni~  322 (895)
T KOG2076|consen  265 LQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALS-KEKDEASLEDLNIL  322 (895)
T ss_pred             HHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh-hccccccccHHHHH
Confidence            999999992    22 2444558888888888999999999987 33444444444433

>KOG0546 consensus HSP90 co-chaperone CPR7/Cyclophilin [Posttranslational modification, protein turnover, chaperones]

Probab=97.91  E-value=2e-05  Score=76.34  Aligned_cols=123  Identities=18%  Similarity=0.238  Sum_probs=104.1

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCC-----------C--------CcccccchhHHHHHHHhhhccCCCCC
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKP-----------G--------DPIVLGNRSSAYIRISQFLKHRPPSA  105 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p-----------~--------~~~~~~~~a~~~~~~~~~~~~~~~~~  105 (476)
                      ..+....+.|+..|++++|..|...|.++++.-.           +        ...++.+.+.+-++++.+        
T Consensus       220 ~~~~~~k~~~~~~~kk~~~~~a~~k~~k~~r~~~~~s~~~~~e~~~~~~~~~~~r~~~~~n~~~~~lk~~~~--------  291 (372)
T KOG0546|consen  220 EREEKKKNIGNKEFKKQRYREALAKYRKALRYLSEQSRDREKEQENRIPPLRELRFSIRRNLAAVGLKVKGR--------  291 (372)
T ss_pred             hhhhhhhccchhhhhhccHhHHHHHHHHHhhhhcccccccccccccccccccccccccccchHHhcccccCC--------
Confidence            4456677889999999999999999999987521           1        125666777788888888        


Q ss_pred             cccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhh
Q 011861          106 SEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (476)
Q Consensus       106 ~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~  185 (476)
                                     ..|+.....+++.++...++||++|++++.+.++++|++++..+....|++..+...+....+.+
T Consensus       292 ---------------~~a~~~~~~~~~~~~s~tka~~Rr~~~~~~~~~~~~a~~~~~~a~~~~p~d~~i~~~~~~~~~~~  356 (372)
T KOG0546|consen  292 ---------------GGARFRTNEALRDERSKTKAHYRRGQAYKLLKNYDEALEDLKKAKQKAPNDKAIEEELENVRQKK  356 (372)
T ss_pred             ---------------CcceeccccccccChhhCcHHHHHHhHHHhhhchhhhHHHHHHhhccCcchHHHHHHHHHhhhHH
Confidence                           88888888888899999999999999999999999999999999999999999998888887777


Q ss_pred             hhhhc
Q 011861          186 ASLIG  190 (476)
Q Consensus       186 ~~~~~  190 (476)
                      .+...
T Consensus       357 ~~~~~  361 (372)
T KOG0546|consen  357 KQYNR  361 (372)
T ss_pred             HHHHH
Confidence            66544

>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]

Probab=97.89  E-value=6.3e-06  Score=79.24  Aligned_cols=48  Identities=33%  Similarity=0.893  Sum_probs=41.9

Q ss_pred             CCcccccccccccccCc-------------EEccCCCcccHhhHHHhhhcCCCCccccccc
Q 011861          199 RTDDFDCTLCLKLLYEP-------------ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (476)
Q Consensus       199 ~~~~~~C~iC~~~~~~P-------------~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~  246 (476)
                      ..++..|.||++-+..|             ..+||||.++..|++.|.++...||.||.++
T Consensus       284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~  344 (491)
T COG5243         284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV  344 (491)
T ss_pred             cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcc
Confidence            56788999999875433             5689999999999999999999999999985

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

Probab=97.88  E-value=7.3e-05  Score=80.67  Aligned_cols=113  Identities=19%  Similarity=0.169  Sum_probs=95.7

Q ss_pred             HHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhcc
Q 011861           55 NRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQ  134 (476)
Q Consensus        55 ~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~  134 (476)
                      -.+...|++..|+..|+++.+--..+..+|.|+|-||+.+|+|                       ..|++.|+.++..-
T Consensus       654 iVLA~kg~~~~A~dIFsqVrEa~~~~~dv~lNlah~~~e~~qy-----------------------~~AIqmYe~~lkkf  710 (1018)
T KOG2002|consen  654 IVLAEKGRFSEARDIFSQVREATSDFEDVWLNLAHCYVEQGQY-----------------------RLAIQMYENCLKKF  710 (1018)
T ss_pred             hhhhhccCchHHHHHHHHHHHHHhhCCceeeeHHHHHHHHHHH-----------------------HHHHHHHHHHHHHh
Confidence            3345567777777777776666556679999999999999999                       99999999999864


Q ss_pred             --ccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhhhhc
Q 011861          135 --SNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIG  190 (476)
Q Consensus       135 --p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~~~~  190 (476)
                        .+++..+..+|.+++..|.|.+|...+..++.+.|.|+.+.-++..+.+.++....
T Consensus       711 ~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~v~kkla~s~l  768 (1018)
T KOG2002|consen  711 YKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLALVLKKLAESIL  768 (1018)
T ss_pred             cccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHHHHHHHHHHHH
Confidence              46788999999999999999999999999999999999998888888777776544

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=97.88  E-value=5.3e-06  Score=64.06  Aligned_cols=65  Identities=17%  Similarity=0.245  Sum_probs=56.1

Q ss_pred             CcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhcc-------ccchHHHHHHHHHHHhhh
Q 011861           80 DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQ-------SNSMKSHLLKANALILLE  152 (476)
Q Consensus        80 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~-------p~~~~~~~~~~~~~~~~~  152 (476)
                      -..++.++|.+|..+|+|                       ++|+..+++++++.       |.-..+++.+|.++..+|
T Consensus         4 ~a~~~~~la~~~~~~~~~-----------------------~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g   60 (78)
T PF13424_consen    4 TANAYNNLARVYRELGRY-----------------------DEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLG   60 (78)
T ss_dssp             HHHHHHHHHHHHHHTT-H-----------------------HHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcC
Confidence            346789999999999999                       99999999999873       233668999999999999


Q ss_pred             hHHHHHHHHhccccc
Q 011861          153 RYDMARDAILSGLQV  167 (476)
Q Consensus       153 ~~~~A~~~~~~~l~l  167 (476)
                      ++++|+..+++++++
T Consensus        61 ~~~~A~~~~~~al~i   75 (78)
T PF13424_consen   61 DYEEALEYYQKALDI   75 (78)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhh
Confidence            999999999998864

...

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=97.85  E-value=5.8e-05  Score=78.19  Aligned_cols=117  Identities=11%  Similarity=0.045  Sum_probs=96.0

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHH
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (476)
                      ..++.++...|..++|.++++..+..++..|...+.+...|..+..+|+-                       ++|....
T Consensus         8 ~~lF~~~lk~yE~kQYkkgLK~~~~iL~k~~eHgeslAmkGL~L~~lg~~-----------------------~ea~~~v   64 (700)
T KOG1156|consen    8 NALFRRALKCYETKQYKKGLKLIKQILKKFPEHGESLAMKGLTLNCLGKK-----------------------EEAYELV   64 (700)
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHhCCccchhHHhccchhhcccch-----------------------HHHHHHH
Confidence            45677777888888888888888888888888888888888888888888                       8888888


Q ss_pred             HHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhh
Q 011861          128 EKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  187 (476)
Q Consensus       128 ~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~  187 (476)
                      +.++..|+.+.-.|.-+|.++...++|++|+..|+.|+.++|+|..+...+.-++-.+..
T Consensus        65 r~glr~d~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~~dN~qilrDlslLQ~QmRd  124 (700)
T KOG1156|consen   65 RLGLRNDLKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIEKDNLQILRDLSLLQIQMRD  124 (700)
T ss_pred             HHHhccCcccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHh
Confidence            888888888888888888888888888888888888888888888887777666655543

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=97.85  E-value=1.2e-05  Score=51.46  Aligned_cols=32  Identities=22%  Similarity=0.173  Sum_probs=30.8

Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhhHHHHH
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLERYDMAR  158 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~  158 (476)
                      |++||+++|+++.+|+++|.+|...|++++|+
T Consensus         2 y~kAie~~P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    2 YKKAIELNPNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             hHHHHHHCCCCHHHHHHHHHHHHHCcCHHhhc
Confidence            78999999999999999999999999999996

>TIGR00540 hemY_coli hemY protein

Probab=97.84  E-value=0.0001  Score=75.91  Aligned_cols=121  Identities=11%  Similarity=0.071  Sum_probs=105.1

Q ss_pred             hhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHH
Q 011861           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (476)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (476)
                      ..+++.....+|...+..|||+.|.+...++.+..|+....+...|.++.+.|++                       +.
T Consensus        80 ~~~k~~~~~~~glla~~~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~-----------------------~~  136 (409)
T TIGR00540        80 KRRKAQKQTEEALLKLAEGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDE-----------------------AR  136 (409)
T ss_pred             HHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCH-----------------------HH
Confidence            4456778889999999999999999999999999998888888899999999999                       99


Q ss_pred             HHHHHHHHhhccccch-HHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhh
Q 011861          123 ALKDAEKLLNLQSNSM-KSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  186 (476)
Q Consensus       123 a~~~~~~al~l~p~~~-~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~  186 (476)
                      |...+.++.+..|++. ......+.+++..|+++.|...+++.++.+|+++.+...+..+....+
T Consensus       137 A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~~P~~~~~l~ll~~~~~~~~  201 (409)
T TIGR00540       137 ANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARHGVDKLLEMAPRHKEVLKLAEEAYIRSG  201 (409)
T ss_pred             HHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHh
Confidence            9999999999999886 455557999999999999999999999999999988766655544333

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.

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.84  E-value=0.00013  Score=67.76  Aligned_cols=110  Identities=18%  Similarity=0.077  Sum_probs=94.0

Q ss_pred             HHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccc
Q 011861           56 RAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQS  135 (476)
Q Consensus        56 ~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p  135 (476)
                      ..-.+|+--+||+...+-++..++|+++|..+|..|+..|+|                       .+|.=.++..+=++|
T Consensus       129 ilka~GK~l~aIk~ln~YL~~F~~D~EAW~eLaeiY~~~~~f-----------------------~kA~fClEE~ll~~P  185 (289)
T KOG3060|consen  129 ILKAQGKNLEAIKELNEYLDKFMNDQEAWHELAEIYLSEGDF-----------------------EKAAFCLEELLLIQP  185 (289)
T ss_pred             HHHHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhHH-----------------------HHHHHHHHHHHHcCC
Confidence            334557777999999999999999999999999999999999                       999999999999999


Q ss_pred             cchHHHHHHHHHHHh---hhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhhh
Q 011861          136 NSMKSHLLKANALIL---LERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  188 (476)
Q Consensus       136 ~~~~~~~~~~~~~~~---~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~~  188 (476)
                      .++..+.++|.+++-   ..++.-|+.+|.++++++|.+--...++-.+-.++.+.
T Consensus       186 ~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~~~~ral~GI~lc~~~la~~  241 (289)
T KOG3060|consen  186 FNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNPKNLRALFGIYLCGSALAQI  241 (289)
T ss_pred             CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhChHhHHHHHHHHHHHHHHHHH
Confidence            999999999999874   45788999999999999997666666555555555543

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=97.82  E-value=1.6e-05  Score=76.46  Aligned_cols=47  Identities=36%  Similarity=0.798  Sum_probs=36.1

Q ss_pred             ccccccccccc-ccCcE----EccCCCcccHhhHHHhhhcC-CCCcccccccc
Q 011861          201 DDFDCTLCLKL-LYEPI----TTPCGHSFCRSCLFQSMDRG-NKCPLCRAVLF  247 (476)
Q Consensus       201 ~~~~C~iC~~~-~~~P~----~~~cgh~fC~~Cl~~~~~~~-~~Cp~cr~~~~  247 (476)
                      ++..||+|... +.+|-    ..+|||.||..|+...+..+ ..||.|+..+.
T Consensus         2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lr   54 (309)
T TIGR00570         2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLR   54 (309)
T ss_pred             CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccc
Confidence            35689999984 45663    22799999999999977644 46999998873

All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=97.80  E-value=7.2e-05  Score=82.35  Aligned_cols=128  Identities=9%  Similarity=-0.093  Sum_probs=103.3

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      .+..++....+.+...+++++|+.....+++..|+...+|+..|..|++.+++     +.-+-+ .+.+.-....-..++
T Consensus        29 ~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~l~~q~~~~-----~~~~lv-~~l~~~~~~~~~~~v  102 (906)
T PRK14720         29 SKFKELDDLIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGILSLSRRPL-----NDSNLL-NLIDSFSQNLKWAIV  102 (906)
T ss_pred             chHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHHHHHhhcch-----hhhhhh-hhhhhcccccchhHH
Confidence            44667777888888999999999999999999999999999999999988886     222233 333333333334666


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHH
Q 011861          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASL  178 (476)
Q Consensus       125 ~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~  178 (476)
                      +++...+..-+++-.|++.+|.||-.+|++++|...|+++++++|+|..+.+.+
T Consensus       103 e~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~n~~aLNn~  156 (906)
T PRK14720        103 EHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKADRDNPEIVKKL  156 (906)
T ss_pred             HHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcccHHHHHHH
Confidence            777766666777778999999999999999999999999999999999887654

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=97.80  E-value=3.9e-05  Score=74.37  Aligned_cols=198  Identities=17%  Similarity=0.214  Sum_probs=104.8

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc------ccccchhHHHHHHHhhhccCCCCCcccCCCCCC--CCcch
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP------IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGL--DPTTH  119 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~  119 (476)
                      +.+...|+.+...+.|+++++.|..|+++..++.      .++..+|..|-+++++-|..+=+-+++....+.  +.=++
T Consensus       123 q~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~  202 (518)
T KOG1941|consen  123 QVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSL  202 (518)
T ss_pred             hhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhH
Confidence            3344466666666777777777777766644332      334444444545444422221111111111000  00000


Q ss_pred             H-------------------HHHHHHHHHHhhcc------ccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCC--Cc
Q 011861          120 A-------------------ELALKDAEKLLNLQ------SNSMKSHLLKANALILLERYDMARDAILSGLQVDPF--SN  172 (476)
Q Consensus       120 ~-------------------~~a~~~~~~al~l~------p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~--~~  172 (476)
                      -                   ..|.+.++.|.++.      +.+.....-+|.+|...|+.+.|..-|+.++.....  |.
T Consensus       203 kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~Am~~m~~~gdr  282 (518)
T KOG1941|consen  203 KYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQAMGTMASLGDR  282 (518)
T ss_pred             HHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHHHHHHhhhhhh
Confidence            0                   56666666665552      445667778899999999999888888887754221  11


Q ss_pred             h----hhHHHHHH-------------------HHhhhh--hhcc---------------cCCCCC-------------CC
Q 011861          173 P----LQASLQNL-------------------ERTTAS--LIGR---------------RIHGTP-------------ER  199 (476)
Q Consensus       173 ~----~~~~~~~~-------------------~~~~~~--~~~~---------------~~~~~~-------------~~  199 (476)
                      -    +..+..++                   ++.++.  .++.               +..+.+             ..
T Consensus       283 mgqv~al~g~Akc~~~~r~~~k~~~Crale~n~r~levA~~IG~K~~vlK~hcrla~iYrs~gl~d~~~~h~~ra~~~~~  362 (518)
T KOG1941|consen  283 MGQVEALDGAAKCLETLRLQNKICNCRALEFNTRLLEVASSIGAKLSVLKLHCRLASIYRSKGLQDELRAHVVRAHECVE  362 (518)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHH
Confidence            0    01111110                   011100  0000               011111             12


Q ss_pred             Cccccccccccccc-CcE---EccCCCcccHhhHHHhhhc--CCCCcccccc
Q 011861          200 TDDFDCTLCLKLLY-EPI---TTPCGHSFCRSCLFQSMDR--GNKCPLCRAV  245 (476)
Q Consensus       200 ~~~~~C~iC~~~~~-~P~---~~~cgh~fC~~Cl~~~~~~--~~~Cp~cr~~  245 (476)
                      ...+.|.+|.+.+- .|-   -+||.|+|+..|+...+.+  ..+||.||+.
T Consensus       363 e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crkl  414 (518)
T KOG1941|consen  363 ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKL  414 (518)
T ss_pred             HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHH
Confidence            34678999998764 332   3699999999999987763  3469999953

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.76  E-value=0.00012  Score=65.68  Aligned_cols=70  Identities=23%  Similarity=0.361  Sum_probs=65.0

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      ..-+..+|-..++.+.++.||...++||++.|++-.++..||.+|.++.+|                       ++|+.|
T Consensus       134 sIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~ek~-----------------------eealeD  190 (271)
T KOG4234|consen  134 SILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEKMEKY-----------------------EEALED  190 (271)
T ss_pred             HHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhhhhH-----------------------HHHHHH
Confidence            445677889999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchH
Q 011861          127 AEKLLNLQSNSMK  139 (476)
Q Consensus       127 ~~~al~l~p~~~~  139 (476)
                      |.+.++++|....
T Consensus       191 yKki~E~dPs~~e  203 (271)
T KOG4234|consen  191 YKKILESDPSRRE  203 (271)
T ss_pred             HHHHHHhCcchHH
Confidence            9999999998743

>TIGR00540 hemY_coli hemY protein

Probab=97.75  E-value=0.00012  Score=75.48  Aligned_cols=114  Identities=11%  Similarity=-0.074  Sum_probs=89.4

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccc--cchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVL--GNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (476)
                      .........|..+...|++++|+..+.++++..|++....  ..+....+..++.                       ..
T Consensus       261 ~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~-----------------------~~  317 (409)
T TIGR00540       261 HNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDN-----------------------EK  317 (409)
T ss_pred             CCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCCh-----------------------HH
Confidence            4566777889999999999999999999999999986532  1111122222333                       78


Q ss_pred             HHHHHHHHhhccccch--HHHHHHHHHHHhhhhHHHHHHHHh--cccccCCCCchhhHHHHHHH
Q 011861          123 ALKDAEKLLNLQSNSM--KSHLLKANALILLERYDMARDAIL--SGLQVDPFSNPLQASLQNLE  182 (476)
Q Consensus       123 a~~~~~~al~l~p~~~--~~~~~~~~~~~~~~~~~~A~~~~~--~~l~l~p~~~~~~~~~~~~~  182 (476)
                      +++.++++++..|+++  ..+..+|.+++..|+|++|.++|+  .+++.+|++.... .+..+-
T Consensus       318 ~~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~-~La~ll  380 (409)
T TIGR00540       318 LEKLIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLA-MAADAF  380 (409)
T ss_pred             HHHHHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHH-HHHHHH
Confidence            8999999999999999  788899999999999999999999  6888888877644 444443

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.

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=97.74  E-value=0.00011  Score=77.63  Aligned_cols=119  Identities=19%  Similarity=0.092  Sum_probs=107.9

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHH
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (476)
                      .-+...|..+.+.++-++|..+..+|-.++|..+..|+.+|.++...|++                       .+|...|
T Consensus       651 ~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~~l~~~~~~~~G~~~~~~~~~-----------------------~EA~~af  707 (799)
T KOG4162|consen  651 KLWLLAADLFLLSGNDDEARSCLLEASKIDPLSASVYYLRGLLLEVKGQL-----------------------EEAKEAF  707 (799)
T ss_pred             HHHHHHHHHHHhcCCchHHHHHHHHHHhcchhhHHHHHHhhHHHHHHHhh-----------------------HHHHHHH
Confidence            44556677777778889999999999999999999999999999999999                       9999999


Q ss_pred             HHHhhccccchHHHHHHHHHHHhhhhHHHHHH--HHhcccccCCCCchhhHHHHHHHHhhhhhh
Q 011861          128 EKLLNLQSNSMKSHLLKANALILLERYDMARD--AILSGLQVDPFSNPLQASLQNLERTTASLI  189 (476)
Q Consensus       128 ~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~--~~~~~l~l~p~~~~~~~~~~~~~~~~~~~~  189 (476)
                      ..|+.+||+++.+.-.+|.++...|+..-|..  .+..++++||.|++++-.+..+-++.+...
T Consensus       708 ~~Al~ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~  771 (799)
T KOG4162|consen  708 LVALALDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSK  771 (799)
T ss_pred             HHHHhcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchH
Confidence            99999999999999999999999998887777  999999999999999999999877766543

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.74  E-value=5.1e-05  Score=81.90  Aligned_cols=133  Identities=14%  Similarity=0.079  Sum_probs=90.1

Q ss_pred             HHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhc-------cCCCCCcc-------cCCCCCC
Q 011861           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLK-------HRPPSASE-------YRPLNGL  114 (476)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~-------~~~~~~~~-------~~~~~~~  114 (476)
                      .+-..|..|-.--|..+|-.+|.+|.++|+++..+....+..|.....+=+       ....+.+.       .+.+..+
T Consensus       494 af~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yyL  573 (1238)
T KOG1127|consen  494 AFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPYYL  573 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhcccccc
Confidence            344556666666688888888888888888887555555555444333200       00000000       0111111


Q ss_pred             CCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHH
Q 011861          115 DPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (476)
Q Consensus       115 ~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~  182 (476)
                      .++++ ..|+..++.|++.+|++..+|..+|.+|...|+|..|+..|.++..++|.+.-.+-...-++
T Consensus       574 ea~n~-h~aV~~fQsALR~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y~~fk~A~~e  640 (1238)
T KOG1127|consen  574 EAHNL-HGAVCEFQSALRTDPKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSKYGRFKEAVME  640 (1238)
T ss_pred             Cccch-hhHHHHHHHHhcCCchhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhHHHHHHHHHHH
Confidence            11111 78899999999999999999999999999999999999999999999998876554443333

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.72  E-value=3.2e-05  Score=83.38  Aligned_cols=110  Identities=21%  Similarity=0.132  Sum_probs=98.7

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHH
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (476)
                      ..+..+|--|++.+++-+||..++-|++.+|+|..+|..+|.+|...|+|                       ..|++.+
T Consensus       563 ~nW~~rG~yyLea~n~h~aV~~fQsALR~dPkD~n~W~gLGeAY~~sGry-----------------------~~AlKvF  619 (1238)
T KOG1127|consen  563 ENWVQRGPYYLEAHNLHGAVCEFQSALRTDPKDYNLWLGLGEAYPESGRY-----------------------SHALKVF  619 (1238)
T ss_pred             hhhhhccccccCccchhhHHHHHHHHhcCCchhHHHHHHHHHHHHhcCce-----------------------ehHHHhh
Confidence            34566888899999999999999999999999999999999999999999                       9999999


Q ss_pred             HHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHH
Q 011861          128 EKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (476)
Q Consensus       128 ~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~  180 (476)
                      .+|..++|.+.-+.|..|...+.+|+|.+|++.+...+.........+.++.+
T Consensus       620 ~kAs~LrP~s~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE  672 (1238)
T KOG1127|consen  620 TKASLLRPLSKYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAE  672 (1238)
T ss_pred             hhhHhcCcHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHH
Confidence            99999999999999999999999999999999999888765555555554443

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

Probab=97.72  E-value=7.5e-05  Score=71.59  Aligned_cols=101  Identities=14%  Similarity=0.123  Sum_probs=77.7

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      .++.-+...|+.+-..++++.|++.|..+++.+|.+.++..-.|.-|+.-++.                       +-|+
T Consensus       288 ~~VT~l~g~ARi~eam~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~P-----------------------E~Al  344 (478)
T KOG1129|consen  288 FDVTYLLGQARIHEAMEQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNP-----------------------EMAL  344 (478)
T ss_pred             chhhhhhhhHHHHHHHHhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCCh-----------------------HHHH
Confidence            34555666777777777888888888888888888887777777777777777                       7788


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccC
Q 011861          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVD  168 (476)
Q Consensus       125 ~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~  168 (476)
                      ..|++.+++.-.+++.+.++|.|++..++|+-++..|++++...
T Consensus       345 ryYRRiLqmG~~speLf~NigLCC~yaqQ~D~~L~sf~RAlsta  388 (478)
T KOG1129|consen  345 RYYRRILQMGAQSPELFCNIGLCCLYAQQIDLVLPSFQRALSTA  388 (478)
T ss_pred             HHHHHHHHhcCCChHHHhhHHHHHHhhcchhhhHHHHHHHHhhc
Confidence            88888888877777888888888888888888887777777654

>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.71  E-value=2.7e-05  Score=76.10  Aligned_cols=45  Identities=24%  Similarity=0.621  Sum_probs=38.4

Q ss_pred             cccccccccccCc---EEccCCCcccHhhHHHhhhcC-CCCcccccccc
Q 011861          203 FDCTLCLKLLYEP---ITTPCGHSFCRSCLFQSMDRG-NKCPLCRAVLF  247 (476)
Q Consensus       203 ~~C~iC~~~~~~P---~~~~cgh~fC~~Cl~~~~~~~-~~Cp~cr~~~~  247 (476)
                      .+|.||++.+..-   ..+||+|.|+..|+..|+... ..||+|++.+.
T Consensus       230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~  278 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIR  278 (348)
T ss_pred             ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCC
Confidence            6999999988644   458999999999999999865 55999998763

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.71  E-value=0.0001  Score=61.22  Aligned_cols=70  Identities=16%  Similarity=0.149  Sum_probs=64.0

Q ss_pred             cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccc---hHHHHHHHHHHHhhhhHHHH
Q 011861           81 PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNS---MKSHLLKANALILLERYDMA  157 (476)
Q Consensus        81 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~---~~~~~~~~~~~~~~~~~~~A  157 (476)
                      +.+++..|..+.+.|++                       ++|++.+.++++.+|++   ..+++.+|.++...|+|++|
T Consensus         2 ~~~~~~~~~~~~~~~~~-----------------------~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A   58 (119)
T TIGR02795         2 EEAYYDAALLVLKAGDY-----------------------ADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADA   58 (119)
T ss_pred             cHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHH
Confidence            45788999999999999                       99999999999999886   57999999999999999999


Q ss_pred             HHHHhcccccCCCCch
Q 011861          158 RDAILSGLQVDPFSNP  173 (476)
Q Consensus       158 ~~~~~~~l~l~p~~~~  173 (476)
                      +..|..++..+|+++.
T Consensus        59 ~~~~~~~~~~~p~~~~   74 (119)
T TIGR02795        59 AKAFLAVVKKYPKSPK   74 (119)
T ss_pred             HHHHHHHHHHCCCCCc
Confidence            9999999999988653

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=97.70  E-value=4.7e-05  Score=68.57  Aligned_cols=82  Identities=13%  Similarity=0.083  Sum_probs=70.8

Q ss_pred             CCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccc---hHHHHHHHHHHHhhhh
Q 011861           77 KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNS---MKSHLLKANALILLER  153 (476)
Q Consensus        77 ~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~---~~~~~~~~~~~~~~~~  153 (476)
                      ++....+++++|..+...|++                       ++|+..+++++++.|+.   ..+++.+|.++..+|+
T Consensus        31 ~~~~a~~~~~lg~~~~~~g~~-----------------------~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~   87 (172)
T PRK02603         31 KAKEAFVYYRDGMSAQADGEY-----------------------AEALENYEEALKLEEDPNDRSYILYNMGIIYASNGE   87 (172)
T ss_pred             HhhhHHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCC
Confidence            345567899999999999999                       99999999999987764   4689999999999999


Q ss_pred             HHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          154 YDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       154 ~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      |++|+..+.++++++|.+......+..+
T Consensus        88 ~~~A~~~~~~al~~~p~~~~~~~~lg~~  115 (172)
T PRK02603         88 HDKALEYYHQALELNPKQPSALNNIAVI  115 (172)
T ss_pred             HHHHHHHHHHHHHhCcccHHHHHHHHHH
Confidence            9999999999999999887765544444

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.66  E-value=0.00045  Score=60.23  Aligned_cols=97  Identities=15%  Similarity=0.117  Sum_probs=85.7

Q ss_pred             hhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC---cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchH
Q 011861           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA  120 (476)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (476)
                      ...+...+......+..+++.++...+.+.+.-.|+.   ..+...+|.+++..|++                       
T Consensus         8 ~~~a~~~y~~~~~~~~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~-----------------------   64 (145)
T PF09976_consen    8 AEQASALYEQALQALQAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDY-----------------------   64 (145)
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCH-----------------------
Confidence            3456677888888889999999999999999999988   47778899999999999                       


Q ss_pred             HHHHHHHHHHhhccccc---hHHHHHHHHHHHhhhhHHHHHHHHhc
Q 011861          121 ELALKDAEKLLNLQSNS---MKSHLLKANALILLERYDMARDAILS  163 (476)
Q Consensus       121 ~~a~~~~~~al~l~p~~---~~~~~~~~~~~~~~~~~~~A~~~~~~  163 (476)
                      ++|+..++.+++..|+.   ..+.+++|.+++..|+|++|+..+..
T Consensus        65 ~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~  110 (145)
T PF09976_consen   65 DEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDEALATLQQ  110 (145)
T ss_pred             HHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHh
Confidence            99999999999987664   45889999999999999999999976

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=97.65  E-value=4.2e-05  Score=58.97  Aligned_cols=66  Identities=21%  Similarity=0.264  Sum_probs=56.6

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhcc---CCC----CcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcc
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNI---KPG----DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT  118 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~---~p~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (476)
                      .+..+...|..++..|+|++|+..|.+++++   .++    -..++.++|.+|..+|++                     
T Consensus         4 ~a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~---------------------   62 (78)
T PF13424_consen    4 TANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDY---------------------   62 (78)
T ss_dssp             HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHH---------------------
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCH---------------------
Confidence            4567888999999999999999999999976   221    257899999999999999                     


Q ss_pred             hHHHHHHHHHHHhhcc
Q 011861          119 HAELALKDAEKLLNLQ  134 (476)
Q Consensus       119 ~~~~a~~~~~~al~l~  134 (476)
                        ++|++.+++|+++.
T Consensus        63 --~~A~~~~~~al~i~   76 (78)
T PF13424_consen   63 --EEALEYYQKALDIF   76 (78)
T ss_dssp             --HHHHHHHHHHHHHH
T ss_pred             --HHHHHHHHHHHhhh
Confidence              99999999999874

...

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=97.65  E-value=0.00034  Score=71.86  Aligned_cols=119  Identities=13%  Similarity=0.070  Sum_probs=92.7

Q ss_pred             hhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccch-hHHHHHHHhhhccCCCCCcccCCCCCCCCcchHH
Q 011861           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNR-SSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (476)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~-a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (476)
                      ..+++.....+|-..+..|||++|.+...++-+..++ +.+++.. |.+..+.|++                       +
T Consensus        80 r~~~~~~~~~~gl~a~~eGd~~~A~k~l~~~~~~~~~-p~l~~llaA~aA~~~g~~-----------------------~  135 (398)
T PRK10747         80 KRRRARKQTEQALLKLAEGDYQQVEKLMTRNADHAEQ-PVVNYLLAAEAAQQRGDE-----------------------A  135 (398)
T ss_pred             HHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcccc-hHHHHHHHHHHHHHCCCH-----------------------H
Confidence            4456777888999999999999999887776665433 4444444 5565889999                       9


Q ss_pred             HHHHHHHHHhhccccchHHH-HHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhh
Q 011861          122 LALKDAEKLLNLQSNSMKSH-LLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (476)
Q Consensus       122 ~a~~~~~~al~l~p~~~~~~-~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~  185 (476)
                      .|...+.+|.+.+|++..+. ...+..+...|+++.|...+++..+.+|+++.+...+..+....
T Consensus       136 ~A~~~l~~A~~~~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~P~~~~al~ll~~~~~~~  200 (398)
T PRK10747        136 RANQHLERAAELADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVAPRHPEVLRLAEQAYIRT  200 (398)
T ss_pred             HHHHHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHH
Confidence            99999999999999886544 34588999999999999999999999999998776665554333

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.65  E-value=0.00017  Score=68.94  Aligned_cols=98  Identities=22%  Similarity=0.182  Sum_probs=86.6

Q ss_pred             hccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchH
Q 011861           60 ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMK  139 (476)
Q Consensus        60 ~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~  139 (476)
                      ....++-+.-....+..+|+|.+-|..+|.+|+.+|++                       ..|...|.+|+++.|+|+.
T Consensus       135 ~~~~~~l~a~Le~~L~~nP~d~egW~~Lg~~ym~~~~~-----------------------~~A~~AY~~A~rL~g~n~~  191 (287)
T COG4235         135 EQEMEALIARLETHLQQNPGDAEGWDLLGRAYMALGRA-----------------------SDALLAYRNALRLAGDNPE  191 (287)
T ss_pred             cccHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcch-----------------------hHHHHHHHHHHHhCCCCHH
Confidence            34567788888899999999999999999999999999                       9999999999999999999


Q ss_pred             HHHHHHHHHHhhh---hHHHHHHHHhcccccCCCCchhhHHHHH
Q 011861          140 SHLLKANALILLE---RYDMARDAILSGLQVDPFSNPLQASLQN  180 (476)
Q Consensus       140 ~~~~~~~~~~~~~---~~~~A~~~~~~~l~l~p~~~~~~~~~~~  180 (476)
                      .+...|.+++...   .-.++...|++++.+||+|..+...+..
T Consensus       192 ~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~lLA~  235 (287)
T COG4235         192 ILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALSLLAF  235 (287)
T ss_pred             HHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHHHHHH
Confidence            9999999986433   4468889999999999999988766543

>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]

Probab=97.65  E-value=2.7e-05  Score=82.45  Aligned_cols=48  Identities=31%  Similarity=0.816  Sum_probs=42.3

Q ss_pred             CcccccccccccccCcEEccCCCcccHhhHHHhhh-cCCCCcccccccc
Q 011861          200 TDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD-RGNKCPLCRAVLF  247 (476)
Q Consensus       200 ~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~-~~~~Cp~cr~~~~  247 (476)
                      ..-+.|+.|..-.++.+.+.|||-||..|+...+. +...||.|+..|.
T Consensus       641 K~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFg  689 (698)
T KOG0978|consen  641 KELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFG  689 (698)
T ss_pred             HhceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCC
Confidence            34679999998899999999999999999998887 6678999999874

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=97.64  E-value=0.00015  Score=71.54  Aligned_cols=129  Identities=17%  Similarity=0.125  Sum_probs=95.0

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcc-------
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT-------  118 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------  118 (476)
                      +..-+.+-|..+|..||+.+|+..|.++.-++|......-..|..+-+-|++.    +..+=...+|..+..+       
T Consensus       231 NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~MD~Ya~LL~~eg~~e----~~~~L~~~Lf~~~~~ta~~wfV~  306 (564)
T KOG1174|consen  231 NEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAMDLYAVLLGQEGGCE----QDSALMDYLFAKVKYTASHWFVH  306 (564)
T ss_pred             cHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhHHHHHHHHHhccCHh----hHHHHHHHHHhhhhcchhhhhhh
Confidence            44556778999999999999999999999999988644433343333333330    0000011122222111       


Q ss_pred             --------hHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHH
Q 011861          119 --------HAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASL  178 (476)
Q Consensus       119 --------~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~  178 (476)
                              -...|+....|+|+.+|++..+|..+|..+..+|+.++|.-+|+.+..+.|..-....++
T Consensus       307 ~~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL  374 (564)
T KOG1174|consen  307 AQLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIALERHTQAVIAFRTAQMLAPYRLEIYRGL  374 (564)
T ss_pred             hhhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhccchHHHHHHHHHHHhcchhhHHHHHHH
Confidence                    117899999999999999999999999999999999999999999999999887776654

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=97.63  E-value=0.00018  Score=68.52  Aligned_cols=168  Identities=15%  Similarity=0.153  Sum_probs=117.1

Q ss_pred             cccccccccccCCCceeeeecccCccccccCCCC---CCchhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc
Q 011861            5 IFSQMSAEATSSGFPLVGIDDVDDYIWANEGEGS---LPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP   81 (476)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~   81 (476)
                      +-.++..++.+....+.-+.+|+.|....+...-   +..-..........+|...+..|++..|...|..++..+|++.
T Consensus        89 vAaqfgiqsIPtV~af~dGqpVdgF~G~qPesqlr~~ld~~~~~~~e~~~~~~~~~~~~e~~~~a~~~~~~al~~~~~~~  168 (304)
T COG3118          89 VAAQFGVQSIPTVYAFKDGQPVDGFQGAQPESQLRQFLDKVLPAEEEEALAEAKELIEAEDFGEAAPLLKQALQAAPENS  168 (304)
T ss_pred             HHHHhCcCcCCeEEEeeCCcCccccCCCCcHHHHHHHHHHhcChHHHHHHHHhhhhhhccchhhHHHHHHHHHHhCcccc
Confidence            3456777788888888999999999988664210   1111112334566788899999999999999999999999999


Q ss_pred             ccccchhHHHHHHHhhhcc-----CCCCCcccCCCCCCCC-cchHHHH-----HHHHHHHhhccccchHHHHHHHHHHHh
Q 011861           82 IVLGNRSSAYIRISQFLKH-----RPPSASEYRPLNGLDP-TTHAELA-----LKDAEKLLNLQSNSMKSHLLKANALIL  150 (476)
Q Consensus        82 ~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~-~~~~~~a-----~~~~~~al~l~p~~~~~~~~~~~~~~~  150 (476)
                      .+...+|.+|...|+.-..     +.+++.+-.-.-+..+ -.+...|     +.++.+.+..||++..+-+.+|..+..
T Consensus       169 ~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~~~~l~~~~aadPdd~~aa~~lA~~~~~  248 (304)
T COG3118         169 EAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPEIQDLQRRLAADPDDVEAALALADQLHL  248 (304)
T ss_pred             hHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            9999999999999987110     0011110000000000 0111111     245556667789999999999999999


Q ss_pred             hhhHHHHHHHHhcccccCCCCc
Q 011861          151 LERYDMARDAILSGLQVDPFSN  172 (476)
Q Consensus       151 ~~~~~~A~~~~~~~l~l~p~~~  172 (476)
                      .|++++|.+.+...+..|-.+.
T Consensus       249 ~g~~e~Ale~Ll~~l~~d~~~~  270 (304)
T COG3118         249 VGRNEAALEHLLALLRRDRGFE  270 (304)
T ss_pred             cCCHHHHHHHHHHHHHhccccc
Confidence            9999999999999988766443

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=97.61  E-value=0.00031  Score=72.12  Aligned_cols=101  Identities=15%  Similarity=0.102  Sum_probs=87.3

Q ss_pred             HHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccc-cchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHH
Q 011861           50 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVL-GNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (476)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (476)
                      +...+....+.|++++|...|.+|.+.+|++..+. ...+..+...|++                       +.|+..++
T Consensus       121 ~llaA~aA~~~g~~~~A~~~l~~A~~~~~~~~~~~~l~~a~l~l~~g~~-----------------------~~Al~~l~  177 (398)
T PRK10747        121 YLLAAEAAQQRGDEARANQHLERAAELADNDQLPVEITRVRIQLARNEN-----------------------HAARHGVD  177 (398)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHCCCH-----------------------HHHHHHHH
Confidence            45556777999999999999999999999885443 3448999999999                       99999999


Q ss_pred             HHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCch
Q 011861          129 KLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (476)
Q Consensus       129 ~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~  173 (476)
                      ++.+.+|+++.++..++.+|...|++++|+..+.+..+..+.++.
T Consensus       178 ~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~  222 (398)
T PRK10747        178 KLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEE  222 (398)
T ss_pred             HHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHH
Confidence            999999999999999999999999999999887777766655443

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=97.60  E-value=0.00059  Score=63.98  Aligned_cols=116  Identities=19%  Similarity=0.230  Sum_probs=95.4

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc---ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (476)
                      .-+..+.++|...++.|+|.+|+..|.......|..+   .+...++.++++.+++                       +
T Consensus        32 ~p~~~LY~~g~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y-----------------------~   88 (254)
T COG4105          32 LPASELYNEGLTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEY-----------------------D   88 (254)
T ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccH-----------------------H
Confidence            3477899999999999999999999999999988776   7788899999999999                       9


Q ss_pred             HHHHHHHHHhhccccchH---HHHHHHHHHHh--------hhhHHHHHHHHhcccccCCCCchhhHHHHHHHH
Q 011861          122 LALKDAEKLLNLQSNSMK---SHLLKANALIL--------LERYDMARDAILSGLQVDPFSNPLQASLQNLER  183 (476)
Q Consensus       122 ~a~~~~~~al~l~p~~~~---~~~~~~~~~~~--------~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~  183 (476)
                      .|+...++=+.+.|+++.   ++|.+|.++..        ..--..|...|+..++.-|+++=+.....++..
T Consensus        89 ~A~~~~drFi~lyP~~~n~dY~~YlkgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~  161 (254)
T COG4105          89 LALAYIDRFIRLYPTHPNADYAYYLKGLSYFFQIDDVTRDQSAARAAFAAFKELVQRYPNSRYAPDAKARIVK  161 (254)
T ss_pred             HHHHHHHHHHHhCCCCCChhHHHHHHHHHHhccCCccccCHHHHHHHHHHHHHHHHHCCCCcchhhHHHHHHH
Confidence            999999999999988766   78888888754        233357777888888888887765554444433

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

Probab=97.53  E-value=0.00028  Score=72.29  Aligned_cols=109  Identities=11%  Similarity=0.089  Sum_probs=101.7

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      ++-.|+.-|--|+--|++.+|..+|++|..+||....+|...|..|...+..                       ++|+.
T Consensus       311 ~a~sW~aVg~YYl~i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~Eh-----------------------dQAma  367 (611)
T KOG1173|consen  311 KALSWFAVGCYYLMIGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEH-----------------------DQAMA  367 (611)
T ss_pred             CCcchhhHHHHHHHhcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchH-----------------------HHHHH
Confidence            3455777788888889999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHH
Q 011861          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQAS  177 (476)
Q Consensus       126 ~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~  177 (476)
                      .|..|-++-|.....++.+|.=|+.++.++-|-..|..|+.+.|.++-+...
T Consensus       368 aY~tAarl~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~ai~P~Dplv~~E  419 (611)
T KOG1173|consen  368 AYFTAARLMPGCHLPSLYLGMEYMRTNNLKLAEKFFKQALAIAPSDPLVLHE  419 (611)
T ss_pred             HHHHHHHhccCCcchHHHHHHHHHHhccHHHHHHHHHHHHhcCCCcchhhhh
Confidence            9999999999999999999999999999999999999999999999987654

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=97.51  E-value=6e-05  Score=48.05  Aligned_cols=34  Identities=24%  Similarity=0.263  Sum_probs=30.8

Q ss_pred             hHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCC
Q 011861          138 MKSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (476)
Q Consensus       138 ~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~  171 (476)
                      +++|+++|.++..+|+|++|+..|+++++++|++
T Consensus         1 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~   34 (34)
T PF00515_consen    1 AEAYYNLGNAYFQLGDYEEALEYYQRALELDPDN   34 (34)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTH
T ss_pred             CHHHHHHHHHHHHhCCchHHHHHHHHHHHHCcCC
Confidence            4689999999999999999999999999999974

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 ....

>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger

Probab=97.49  E-value=8.1e-05  Score=57.36  Aligned_cols=30  Identities=27%  Similarity=0.794  Sum_probs=25.4

Q ss_pred             ccCCCcccHhhHHHhhhcC---CCCcccccccc
Q 011861          218 TPCGHSFCRSCLFQSMDRG---NKCPLCRAVLF  247 (476)
Q Consensus       218 ~~cgh~fC~~Cl~~~~~~~---~~Cp~cr~~~~  247 (476)
                      -.|+|.|+..||.+|+...   ..||+||++..
T Consensus        50 g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   50 GKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK   82 (85)
T ss_pred             ccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence            3899999999999999843   45999999763

>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.49  E-value=3.8e-05  Score=81.73  Aligned_cols=49  Identities=43%  Similarity=0.895  Sum_probs=43.9

Q ss_pred             CCcccccccccccccC-----cEEccCCCcccHhhHHHhhhcCCCCcccccccc
Q 011861          199 RTDDFDCTLCLKLLYE-----PITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       199 ~~~~~~C~iC~~~~~~-----P~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      ...+..|.||.+.+..     |..++|||.||..|+..|+++...||.||..+.
T Consensus       288 ~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~  341 (543)
T KOG0802|consen  288 ALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLY  341 (543)
T ss_pred             hhcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhh
Confidence            3447899999999998     788999999999999999999999999999553

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=97.47  E-value=0.00055  Score=71.19  Aligned_cols=110  Identities=14%  Similarity=0.000  Sum_probs=74.4

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      +.+.+.-+|-.+...|+-++|...-..+++.|+..+..|--.|..+....+|                       ++|++
T Consensus        40 HgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~S~vCwHv~gl~~R~dK~Y-----------------------~eaiK   96 (700)
T KOG1156|consen   40 HGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLKSHVCWHVLGLLQRSDKKY-----------------------DEAIK   96 (700)
T ss_pred             cchhHHhccchhhcccchHHHHHHHHHHhccCcccchhHHHHHHHHhhhhhH-----------------------HHHHH
Confidence            3444555666666667777777777777777777777777777777777777                       77777


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHH
Q 011861          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASL  178 (476)
Q Consensus       126 ~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~  178 (476)
                      .|+.|+.++|+|...+..++....++|+|+.....-.+.+++.|.+...+-..
T Consensus        97 cy~nAl~~~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~~~ra~w~~~  149 (700)
T KOG1156|consen   97 CYRNALKIEKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLRPSQRASWIGF  149 (700)
T ss_pred             HHHHHHhcCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhHHHHHHH
Confidence            77777777777777777777777777777776666666667666666555433

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

Probab=97.46  E-value=0.0007  Score=67.52  Aligned_cols=133  Identities=23%  Similarity=0.106  Sum_probs=95.3

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCC-CCcccCCCCCCC--------
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPP-SASEYRPLNGLD--------  115 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~~~~~~--------  115 (476)
                      ..++-+++-++.|-...+..+||+.|.++..+-|+++.+++.+|..|-+-|+-+. .+| ---.|+++=.-=        
T Consensus       556 nn~evl~qianiye~led~aqaie~~~q~~slip~dp~ilskl~dlydqegdksq-afq~~ydsyryfp~nie~iewl~a  634 (840)
T KOG2003|consen  556 NNAEVLVQIANIYELLEDPAQAIELLMQANSLIPNDPAILSKLADLYDQEGDKSQ-AFQCHYDSYRYFPCNIETIEWLAA  634 (840)
T ss_pred             hhHHHHHHHHHHHHHhhCHHHHHHHHHHhcccCCCCHHHHHHHHHHhhcccchhh-hhhhhhhcccccCcchHHHHHHHH
Confidence            3456678889999999999999999999999999999999999999988887611 111 011333321100        


Q ss_pred             ---CcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHH
Q 011861          116 ---PTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASL  178 (476)
Q Consensus       116 ---~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~  178 (476)
                         .+..-++|+.++++|-=+.|+..+.-.-.+.|+...|.|..|.+.|+......|.+-+....+
T Consensus       635 yyidtqf~ekai~y~ekaaliqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrkfpedldclkfl  700 (840)
T KOG2003|consen  635 YYIDTQFSEKAINYFEKAALIQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRKFPEDLDCLKFL  700 (840)
T ss_pred             HHHhhHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCccchHHHHHH
Confidence               111226777777777777787777777777777888888888887777777777776655443

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=97.45  E-value=0.00019  Score=74.69  Aligned_cols=102  Identities=13%  Similarity=0.041  Sum_probs=86.8

Q ss_pred             hhhHHHHHHhhHHHHHhccHHHHHHHHHHHhcc--------CCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCC
Q 011861           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNI--------KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLD  115 (476)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~--------~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (476)
                      +.........|..|+.+|+|++|+..+.+|++.        .|.-.....+.|.+|..+++|                  
T Consensus       196 P~~~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~------------------  257 (508)
T KOG1840|consen  196 PERLRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKY------------------  257 (508)
T ss_pred             chHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccH------------------
Confidence            334455556899999999999999999999998        555556666799999999999                  


Q ss_pred             CcchHHHHHHHHHHHhhc--------cccchHHHHHHHHHHHhhhhHHHHHHHHhcccccC
Q 011861          116 PTTHAELALKDAEKLLNL--------QSNSMKSHLLKANALILLERYDMARDAILSGLQVD  168 (476)
Q Consensus       116 ~~~~~~~a~~~~~~al~l--------~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~  168 (476)
                           .+|+..|++|+.+        +|.-...+.++|.+|+..|+|++|...+++++++-
T Consensus       258 -----~eAv~ly~~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~  313 (508)
T KOG1840|consen  258 -----DEAVNLYEEALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIY  313 (508)
T ss_pred             -----HHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHH
Confidence                 9999999999986        34456689999999999999999999999998863

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

Probab=97.42  E-value=0.0016  Score=67.95  Aligned_cols=139  Identities=20%  Similarity=0.156  Sum_probs=97.0

Q ss_pred             HhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHH------HhhhccCCCCCcccCCC----CCCCCcchHH
Q 011861           52 QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRI------SQFLKHRPPSASEYRPL----NGLDPTTHAE  121 (476)
Q Consensus        52 ~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~------~~~~~~~~~~~~~~~~~----~~~~~~~~~~  121 (476)
                      --+..++..||...|...+.+|++.+|++-++|..--...+..      .++.-++.....-.|-|    .=+.-.+.++
T Consensus       589 M~ake~w~agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~~sgTeRv~mKs~~~er~ld~~e  668 (913)
T KOG0495|consen  589 MYAKEKWKAGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARSISGTERVWMKSANLERYLDNVE  668 (913)
T ss_pred             HHHHHHHhcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhccCCcchhhHHHhHHHHHhhhHH
Confidence            3455667778888888888888888888765554422222111      11100000000000000    0011234449


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhhhhc
Q 011861          122 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIG  190 (476)
Q Consensus       122 ~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~~~~  190 (476)
                      +|++.++.+++.-|++++.|..+|+++-.+++.+.|...|..+++.-|+...++..+.++++...+..+
T Consensus       669 eA~rllEe~lk~fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~r  737 (913)
T KOG0495|consen  669 EALRLLEEALKSFPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVR  737 (913)
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhh
Confidence            999999999999999999999999999999999999999999999999999999999999887765443

>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.41  E-value=6.5e-05  Score=70.83  Aligned_cols=48  Identities=29%  Similarity=0.647  Sum_probs=42.9

Q ss_pred             CcccccccccccccCcEEccCCCcccHhhHHHhhhcCCC-Ccccccccc
Q 011861          200 TDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNK-CPLCRAVLF  247 (476)
Q Consensus       200 ~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~~~~-Cp~cr~~~~  247 (476)
                      ....+|.||......|+.++|+|-||.-||+....+++. |++||.++.
T Consensus         5 ~~~~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pid   53 (324)
T KOG0824|consen    5 TKKKECLICYNTGNCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPID   53 (324)
T ss_pred             ccCCcceeeeccCCcCccccccchhhhhhhcchhhcCCCCCceecCCCC
Confidence            346689999999999999999999999999998887766 999999874

>PF04781 DUF627: Protein of unknown function (DUF627); InterPro: IPR006866 This domain represents the N-terminal region of several plant proteins of unknown function

Probab=97.41  E-value=0.00082  Score=54.80  Aligned_cols=104  Identities=16%  Similarity=0.166  Sum_probs=89.4

Q ss_pred             hhHHHHHhccHHHHHHHHHHHhccCCCCc---ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHH
Q 011861           53 KGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  129 (476)
Q Consensus        53 ~g~~~~~~~~~~~Ai~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  129 (476)
                      +|..+|.+||+-+|++...+.+...+++.   .++..-|.++.++..-.   -++|...+++         -.+++.+.+
T Consensus         2 ~A~~~~~rGnhiKAL~iied~i~~h~~~~~~~~lh~~QG~if~~lA~~t---en~d~k~~yL---------l~sve~~s~   69 (111)
T PF04781_consen    2 KAKDYFARGNHIKALEIIEDLISRHGEDESSWLLHRLQGTIFYKLAKKT---ENPDVKFRYL---------LGSVECFSR   69 (111)
T ss_pred             hHHHHHHccCHHHHHHHHHHHHHHccCCCchHHHHHHHhHHHHHHHHhc---cCchHHHHHH---------HHhHHHHHH
Confidence            57889999999999999999999998887   67777888888887762   2555555555         889999999


Q ss_pred             HhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccC
Q 011861          130 LLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVD  168 (476)
Q Consensus       130 al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~  168 (476)
                      +..+.|+.+..+|.+|.=+.....|+++..-.+++|.+.
T Consensus        70 a~~Lsp~~A~~L~~la~~l~s~~~Ykk~v~kak~~Lsv~  108 (111)
T PF04781_consen   70 AVELSPDSAHSLFELASQLGSVKYYKKAVKKAKRGLSVT  108 (111)
T ss_pred             HhccChhHHHHHHHHHHHhhhHHHHHHHHHHHHHHhccc
Confidence            999999999999999999989999999999999988753

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=97.39  E-value=0.00014  Score=46.10  Aligned_cols=34  Identities=21%  Similarity=0.285  Sum_probs=30.9

Q ss_pred             hHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCC
Q 011861          138 MKSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (476)
Q Consensus       138 ~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~  171 (476)
                      +++++.+|.++..+|+|++|+..|+++++++|+|
T Consensus         1 a~~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~~   34 (34)
T PF07719_consen    1 AEAWYYLGQAYYQLGNYEEAIEYFEKALELDPNN   34 (34)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTS
T ss_pred             CHHHHHHHHHHHHhCCHHHHHHHHHHHHHHCcCC
Confidence            4689999999999999999999999999999975

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 ....

>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.39  E-value=0.00021  Score=66.48  Aligned_cols=52  Identities=29%  Similarity=0.640  Sum_probs=42.8

Q ss_pred             CCCCCCcccccccccccccCcEEc-cCCCcccHhhHHHhhh--cCCCCccccccc
Q 011861          195 GTPERTDDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMD--RGNKCPLCRAVL  246 (476)
Q Consensus       195 ~~~~~~~~~~C~iC~~~~~~P~~~-~cgh~fC~~Cl~~~~~--~~~~Cp~cr~~~  246 (476)
                      .......+.+|++|.+....|.+. +|||.||..|+.....  ....||.|+.+.
T Consensus       232 sss~~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~  286 (298)
T KOG2879|consen  232 SSSTGTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENV  286 (298)
T ss_pred             ccccccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCC
Confidence            344466788999999999999887 5999999999977554  457899999875

>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.39  E-value=9.8e-05  Score=69.46  Aligned_cols=45  Identities=29%  Similarity=0.762  Sum_probs=37.4

Q ss_pred             cccccccccccC---cEEccCCCcccHhhHHHhhh-cCCCCcccccccc
Q 011861          203 FDCTLCLKLLYE---PITTPCGHSFCRSCLFQSMD-RGNKCPLCRAVLF  247 (476)
Q Consensus       203 ~~C~iC~~~~~~---P~~~~cgh~fC~~Cl~~~~~-~~~~Cp~cr~~~~  247 (476)
                      -+|.||+..+..   -+.+||.|-|+..|+.+|+. -...||+||.++.
T Consensus       324 veCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP  372 (374)
T COG5540         324 VECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP  372 (374)
T ss_pred             ceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence            689999987642   24679999999999999998 5567999999874

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.38  E-value=0.00012  Score=57.49  Aligned_cols=61  Identities=21%  Similarity=0.333  Sum_probs=53.9

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      +...+...|..+|+.|+|.+|+..+++ .+.+|.+...++..|.|++++|+|                       ++|++
T Consensus        24 ~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~~~~~~~l~a~~~~~l~~y-----------------------~eAi~   79 (84)
T PF12895_consen   24 NSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPSNPDIHYLLARCLLKLGKY-----------------------EEAIK   79 (84)
T ss_dssp             HHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHCHHHHHHHHHHHHHHTT-H-----------------------HHHHH
T ss_pred             hHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHHhCCH-----------------------HHHHH
Confidence            344566689999999999999999999 889998889999999999999999                       99999


Q ss_pred             HHHHH
Q 011861          126 DAEKL  130 (476)
Q Consensus       126 ~~~~a  130 (476)
                      .+.+|
T Consensus        80 ~l~~~   84 (84)
T PF12895_consen   80 ALEKA   84 (84)
T ss_dssp             HHHHH
T ss_pred             HHhcC
Confidence            98875

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=97.36  E-value=0.00023  Score=45.27  Aligned_cols=34  Identities=29%  Similarity=0.509  Sum_probs=30.4

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD   80 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~   80 (476)
                      ++.+...|..++..|+|++|+.+|++|++++|++
T Consensus         1 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~   34 (34)
T PF00515_consen    1 AEAYYNLGNAYFQLGDYEEALEYYQRALELDPDN   34 (34)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTH
T ss_pred             CHHHHHHHHHHHHhCCchHHHHHHHHHHHHCcCC
Confidence            4678899999999999999999999999999974

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 ....

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.36  E-value=0.0011  Score=58.87  Aligned_cols=104  Identities=23%  Similarity=0.248  Sum_probs=92.8

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhc-cCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANN-IKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~-~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      ...+..|+.+.+.|+|.+|..+|.+++. +.-.|+..+..+|.+.+.++++                       ..|..-
T Consensus        90 qnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~-----------------------A~a~~t  146 (251)
T COG4700          90 QNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEF-----------------------AAAQQT  146 (251)
T ss_pred             HHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccH-----------------------HHHHHH
Confidence            3445678889999999999999999987 5778899999999999999999                       999999


Q ss_pred             HHHHhhcccc--chHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchh
Q 011861          127 AEKLLNLQSN--SMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  174 (476)
Q Consensus       127 ~~~al~l~p~--~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~  174 (476)
                      +++..+.+|.  .+..++..|.+|...|+|.+|...|+.++..-|.....
T Consensus       147 Le~l~e~~pa~r~pd~~Ll~aR~laa~g~~a~Aesafe~a~~~ypg~~ar  196 (251)
T COG4700         147 LEDLMEYNPAFRSPDGHLLFARTLAAQGKYADAESAFEVAISYYPGPQAR  196 (251)
T ss_pred             HHHHhhcCCccCCCCchHHHHHHHHhcCCchhHHHHHHHHHHhCCCHHHH
Confidence            9999999986  57789999999999999999999999999888765543

>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=97.36  E-value=0.0016  Score=56.64  Aligned_cols=96  Identities=24%  Similarity=0.154  Sum_probs=77.8

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc----------------------ccccchhHHHHHHHhhhccCCCC
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----------------------IVLGNRSSAYIRISQFLKHRPPS  104 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~----------------------~~~~~~a~~~~~~~~~~~~~~~~  104 (476)
                      ...+...|......++...++..+.+++.+...+.                      .++..++..+...|++       
T Consensus         6 F~~~~~~a~~~~~~~~~~~~~~~~~~al~ly~G~~l~~~~~~~W~~~~r~~l~~~~~~~~~~l~~~~~~~~~~-------   78 (146)
T PF03704_consen    6 FEALVREARAAARAGDPEEAIELLEEALALYRGDFLPDLDDEEWVEPERERLRELYLDALERLAEALLEAGDY-------   78 (146)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHTT--SSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTT-H-------
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCH-------
Confidence            34566678888888999999999999999854432                      5555677778888899       


Q ss_pred             CcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhccc
Q 011861          105 ASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGL  165 (476)
Q Consensus       105 ~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l  165 (476)
                                      ++|+..+.+++..+|.+-.+|..+-.+|...|++.+|+..|.++-
T Consensus        79 ----------------~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~  123 (146)
T PF03704_consen   79 ----------------EEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYR  123 (146)
T ss_dssp             ----------------HHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             ----------------HHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHH
Confidence                            999999999999999999999999999999999999999998764

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.35  E-value=0.0015  Score=60.49  Aligned_cols=125  Identities=18%  Similarity=0.178  Sum_probs=93.1

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc---ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (476)
                      ..+.+..|..+|+.|+|.+|+..|++.++..|+.+   .+++.+|.+++.+..-..            .....+....+|
T Consensus        42 ~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~~~~~~~~------------~~~~D~~~~~~A  109 (203)
T PF13525_consen   42 PQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSYYKQIPGIL------------RSDRDQTSTRKA  109 (203)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHHHHHHHHHH-------------TT---HHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHhCccch------------hcccChHHHHHH
Confidence            35677889999999999999999999999999876   688899999888765410            112344555899


Q ss_pred             HHHHHHHhhccccchH-----------------HHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHH
Q 011861          124 LKDAEKLLNLQSNSMK-----------------SHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  183 (476)
Q Consensus       124 ~~~~~~al~l~p~~~~-----------------~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~  183 (476)
                      +..++..+..-|++.-                 --+..|.-|...|.|..|+.-++..++.-|+.+.....+..+.+
T Consensus       110 ~~~~~~li~~yP~S~y~~~A~~~l~~l~~~la~~e~~ia~~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~  186 (203)
T PF13525_consen  110 IEEFEELIKRYPNSEYAEEAKKRLAELRNRLAEHELYIARFYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAE  186 (203)
T ss_dssp             HHHHHHHHHH-TTSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHH
Confidence            9999999999998532                 23456777888999999999999999999998887665555443

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

Probab=97.35  E-value=0.0016  Score=62.66  Aligned_cols=104  Identities=8%  Similarity=0.018  Sum_probs=83.2

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      |.-+=+.|+.+....++++|+..+.+|++-+|+..-+-..+|.++...|+|                       +.|++.
T Consensus       180 AqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~cvRAsi~lG~v~~~~g~y-----------------------~~AV~~  236 (389)
T COG2956         180 AQFYCELAQQALASSDVDRARELLKKALQADKKCVRASIILGRVELAKGDY-----------------------QKAVEA  236 (389)
T ss_pred             HHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCccceehhhhhhHHHHhccch-----------------------HHHHHH
Confidence            444556677778888888888888888888888888888888888888888                       888888


Q ss_pred             HHHHhhccccchH-HHHHHHHHHHhhhhHHHHHHHHhcccccCCCCch
Q 011861          127 AEKLLNLQSNSMK-SHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (476)
Q Consensus       127 ~~~al~l~p~~~~-~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~  173 (476)
                      ++.+++.||++.. ..-.+..||..+|+.++....+.++.+..+....
T Consensus       237 ~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~~  284 (389)
T COG2956         237 LERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGADA  284 (389)
T ss_pred             HHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCccH
Confidence            8888888888644 5567788888888888888888888887765443

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=97.34  E-value=5e-05  Score=48.55  Aligned_cols=29  Identities=17%  Similarity=0.449  Sum_probs=27.9

Q ss_pred             HHHHHhccCCCCcccccchhHHHHHHHhh
Q 011861           69 NYSRANNIKPGDPIVLGNRSSAYIRISQF   97 (476)
Q Consensus        69 ~y~~al~~~p~~~~~~~~~a~~~~~~~~~   97 (476)
                      +|++||+++|+++.+|.++|.+|...|++
T Consensus         1 ~y~kAie~~P~n~~a~~nla~~~~~~g~~   29 (34)
T PF13431_consen    1 CYKKAIELNPNNAEAYNNLANLYLNQGDY   29 (34)
T ss_pred             ChHHHHHHCCCCHHHHHHHHHHHHHCcCH
Confidence            48899999999999999999999999999

>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C

Probab=97.34  E-value=0.00012  Score=52.56  Aligned_cols=42  Identities=29%  Similarity=0.825  Sum_probs=29.5

Q ss_pred             CcccccccccccccCcEEc-cCCCcccHhhHHHhhhc--CCCCcc
Q 011861          200 TDDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDR--GNKCPL  241 (476)
Q Consensus       200 ~~~~~C~iC~~~~~~P~~~-~cgh~fC~~Cl~~~~~~--~~~Cp~  241 (476)
                      ...+.|++.+..+.+||.. .|||+|.+..|.+++.+  ...||.
T Consensus         9 ~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen    9 TISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             B--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             EeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            3467999999999999875 99999999999999943  345998

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=97.33  E-value=0.00018  Score=48.96  Aligned_cols=43  Identities=21%  Similarity=0.173  Sum_probs=40.0

Q ss_pred             cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHH
Q 011861           81 PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKAN  146 (476)
Q Consensus        81 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~  146 (476)
                      +.++..+|.+|..+|++                       ++|++.++++++.+|+++.++..+|.
T Consensus         1 p~~~~~la~~~~~~G~~-----------------------~~A~~~~~~~l~~~P~~~~a~~~La~   43 (44)
T PF13428_consen    1 PAAWLALARAYRRLGQP-----------------------DEAERLLRRALALDPDDPEAWRALAQ   43 (44)
T ss_pred             CHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHHHHCcCCHHHHHHhhh
Confidence            35788999999999999                       99999999999999999999998875

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=97.31  E-value=0.00039  Score=44.04  Aligned_cols=34  Identities=24%  Similarity=0.414  Sum_probs=30.3

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD   80 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~   80 (476)
                      ++.+...|..++..|+|++|+.+|.++++++|++
T Consensus         1 a~~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~~   34 (34)
T PF07719_consen    1 AEAWYYLGQAYYQLGNYEEAIEYFEKALELDPNN   34 (34)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTS
T ss_pred             CHHHHHHHHHHHHhCCHHHHHHHHHHHHHHCcCC
Confidence            4567889999999999999999999999999986

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 ....

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.31  E-value=0.0024  Score=60.90  Aligned_cols=129  Identities=18%  Similarity=0.136  Sum_probs=94.5

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc---ccccchhHHHHHHHhhhccCCCCCcccCCCCC----CCCcchH
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNG----LDPTTHA  120 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~  120 (476)
                      .+....|..+++.++|++|+..|++.++.+|+++   .+++.+|.++..+++-         ..+..++    ...++.+
T Consensus        70 ~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~~~~~~~---------~~~~~~~~~~~~rD~~~~  140 (243)
T PRK10866         70 QVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTNMALDDS---------ALQGFFGVDRSDRDPQHA  140 (243)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhhhhcchh---------hhhhccCCCccccCHHHH
Confidence            3456788999999999999999999999999886   5667777776555421         0111112    2244556


Q ss_pred             HHHHHHHHHHhhccccchH-----------------HHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHH
Q 011861          121 ELALKDAEKLLNLQSNSMK-----------------SHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  183 (476)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~-----------------~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~  183 (476)
                      .+|+..++..++.-|++.-                 --+..|.-|...|.|..|+.-++..++.-|+.+...+.+-.+.+
T Consensus       141 ~~A~~~~~~li~~yP~S~ya~~A~~rl~~l~~~la~~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~  220 (243)
T PRK10866        141 RAAFRDFSKLVRGYPNSQYTTDATKRLVFLKDRLAKYELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMEN  220 (243)
T ss_pred             HHHHHHHHHHHHHCcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHH
Confidence            8899999999999997532                 22345566788999999999999999999988887766655544


Q ss_pred             hh
Q 011861          184 TT  185 (476)
Q Consensus       184 ~~  185 (476)
                      ..
T Consensus       221 ay  222 (243)
T PRK10866        221 AY  222 (243)
T ss_pred             HH
Confidence            33

>PF12968 DUF3856: Domain of Unknown Function (DUF3856); InterPro: IPR024552 This domain of unknown function is found in a small group of tetratricopeptide-like proteins, which includes the uncharacterised protein Q8KAL8 from SWISSPROT

Probab=97.30  E-value=0.0014  Score=53.88  Aligned_cols=100  Identities=16%  Similarity=0.217  Sum_probs=80.2

Q ss_pred             hhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC------------cccccchhHHHHHHHhhhccCCCCCcccCCC
Q 011861           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD------------PIVLGNRSSAYIRISQFLKHRPPSASEYRPL  111 (476)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~------------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  111 (476)
                      ...+......|...+..|-|++|..-|.+|....-+-            ..+|..++.++..+|+|              
T Consensus         6 Va~aY~aLs~ae~ql~~g~~~eAa~s~r~AM~~srtiP~eEaFDh~GFDA~chA~Ls~A~~~Lgry--------------   71 (144)
T PF12968_consen    6 VAMAYMALSDAERQLQDGAYEEAAASCRKAMEVSRTIPAEEAFDHDGFDAFCHAGLSGALAGLGRY--------------   71 (144)
T ss_dssp             HHHHHHHHHHHHHHHHHT-HHHHHHHHHHHHHHHTTS-TTS---HHHHHHHHHHHHHHHHHHTT-H--------------
T ss_pred             HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhccCChHhhcccccHHHHHHHHHHHHHHhhccH--------------
Confidence            3456677889999999999999999999998874332            36788899999999999              


Q ss_pred             CCCCCcchHHHHHHHHHHHhhc-------ccc----chHHHHHHHHHHHhhhhHHHHHHHHhcccc
Q 011861          112 NGLDPTTHAELALKDAEKLLNL-------QSN----SMKSHLLKANALILLERYDMARDAILSGLQ  166 (476)
Q Consensus       112 ~~~~~~~~~~~a~~~~~~al~l-------~p~----~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~  166 (476)
                               ++++....+|+.+       +.+    |..+.+.+|.++-.+|+.++|+..|+.+-+
T Consensus        72 ---------~e~L~sA~~aL~YFNRRGEL~qdeGklWIaaVfsra~Al~~~Gr~~eA~~~fr~agE  128 (144)
T PF12968_consen   72 ---------DECLQSADRALRYFNRRGELHQDEGKLWIAAVFSRAVALEGLGRKEEALKEFRMAGE  128 (144)
T ss_dssp             ---------HHHHHHHHHHHHHHHHH--TTSTHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             ---------HHHHHHHHHHHHHHhhccccccccchhHHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Confidence                     8888888888764       333    677899999999999999999999987643

The structure of Q8KAL8 is known and belongs to the SCOP all alpha class, TPR-like superfamily, CT2138-like family.; PDB: 2HR2_D.

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=97.29  E-value=0.00065  Score=71.56  Aligned_cols=101  Identities=16%  Similarity=0.143  Sum_probs=93.3

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHH
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (476)
                      .-|+..|-.+++-++++.|..+|...+.++|++..+|.|++.+|.++++-                       ++|-..+
T Consensus       520 ~~wf~~G~~ALqlek~q~av~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k-----------------------~ra~~~l  576 (777)
T KOG1128|consen  520 GTWFGLGCAALQLEKEQAAVKAFHRCVTLEPDNAEAWNNLSTAYIRLKKK-----------------------KRAFRKL  576 (777)
T ss_pred             hHHHhccHHHHHHhhhHHHHHHHHHHhhcCCCchhhhhhhhHHHHHHhhh-----------------------HHHHHHH
Confidence            45677888999999999999999999999999999999999999999999                       9999999


Q ss_pred             HHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCC
Q 011861          128 EKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (476)
Q Consensus       128 ~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~  171 (476)
                      ..|++.+-.+.+.|-+-..+....|.+++|+++|.+.+.+.-..
T Consensus       577 ~EAlKcn~~~w~iWENymlvsvdvge~eda~~A~~rll~~~~~~  620 (777)
T KOG1128|consen  577 KEALKCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLRKKY  620 (777)
T ss_pred             HHHhhcCCCCCeeeechhhhhhhcccHHHHHHHHHHHHHhhhhc
Confidence            99999998899999999999999999999999999988765433

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

Probab=97.28  E-value=0.00072  Score=64.98  Aligned_cols=52  Identities=15%  Similarity=0.162  Sum_probs=46.7

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCc
Q 011861          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (476)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~  172 (476)
                      +.|.....+|++-||+...+-..+|.+.+..|+|+.|+..++.+++-||+.-
T Consensus       197 d~A~~~l~kAlqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl  248 (389)
T COG2956         197 DRARELLKKALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYL  248 (389)
T ss_pred             HHHHHHHHHHHhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHH
Confidence            8889999999999999999999999999999999999999999998887543

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

Probab=97.25  E-value=0.0005  Score=66.06  Aligned_cols=101  Identities=21%  Similarity=0.061  Sum_probs=89.5

Q ss_pred             HHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHH
Q 011861           51 VQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKL  130 (476)
Q Consensus        51 ~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a  130 (476)
                      .+.|.-|++-|-+.+|-+.++.+++-.| -++.+..++.+|.+..+.                       ..|+..+...
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q~~-~~dTfllLskvY~ridQP-----------------------~~AL~~~~~g  282 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQFP-HPDTFLLLSKVYQRIDQP-----------------------ERALLVIGEG  282 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhcCC-chhHHHHHHHHHHHhccH-----------------------HHHHHHHhhh
Confidence            4678899999999999999999998876 467888899999999999                       9999999999


Q ss_pred             hhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhh
Q 011861          131 LNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  175 (476)
Q Consensus       131 l~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~  175 (476)
                      ++.-|.+.......|.++-.++++++|.+.|+.+++++|.|-++.
T Consensus       283 ld~fP~~VT~l~g~ARi~eam~~~~~a~~lYk~vlk~~~~nvEai  327 (478)
T KOG1129|consen  283 LDSFPFDVTYLLGQARIHEAMEQQEDALQLYKLVLKLHPINVEAI  327 (478)
T ss_pred             hhcCCchhhhhhhhHHHHHHHHhHHHHHHHHHHHHhcCCccceee
Confidence            999999998888899999999999999999999999998877653

>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=97.23  E-value=0.0016  Score=63.70  Aligned_cols=111  Identities=16%  Similarity=0.100  Sum_probs=83.1

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHH--HH--hhhccCCCCCcccCCCCCCCCcchHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIR--IS--QFLKHRPPSASEYRPLNGLDPTTHAEL  122 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~--~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (476)
                      .+.....-+.+++.++++.|.+.+..+-+.+.+  .+..++|.+++.  .|  ++                       ++
T Consensus       131 lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~eD--~~l~qLa~awv~l~~g~e~~-----------------------~~  185 (290)
T PF04733_consen  131 LELLALAVQILLKMNRPDLAEKELKNMQQIDED--SILTQLAEAWVNLATGGEKY-----------------------QD  185 (290)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHCCSCC--HHHHHHHHHHHHHHHTTTCC-----------------------CH
T ss_pred             ccHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc--HHHHHHHHHHHHHHhCchhH-----------------------HH
Confidence            445555677888899999999999998888754  445555555554  44  35                       88


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHH
Q 011861          123 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (476)
Q Consensus       123 a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~  182 (476)
                      |...|+...+..+.++..+..+|.+++.+|+|++|...+..+++.+|.+++...++.-+.
T Consensus       186 A~y~f~El~~~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~  245 (290)
T PF04733_consen  186 AFYIFEELSDKFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCS  245 (290)
T ss_dssp             HHHHHHHHHCCS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHH
Confidence            999999988887888999999999999999999999999999999999988766554443

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.

>KOG1400 consensus Predicted ATP-dependent protease PIL, contains LON domain [General function prediction only]

Probab=97.22  E-value=0.00089  Score=64.47  Aligned_cols=106  Identities=20%  Similarity=0.303  Sum_probs=71.2

Q ss_pred             ccCCCCCcceee--cccCCCccCCCCCChhHHHHHHHHHhc--CceeEEEEecCCCCCcccceeEEEEEEeeecCC--c-
Q 011861          284 FGVDLMPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEG--NHRMGMVIIDPTTGSVADFACEVEITECEPLPD--G-  356 (476)
Q Consensus       284 ~~~~~lPl~~l~--vlfP~~~~pl~v~~~~~~~~v~~a~~~--~~~~~v~~~~~~~~~l~~iGt~~~I~~~~~~~d--G-  356 (476)
                      .+...+|+++..  |+|||.++|+.+..|+-..+++.....  ++.|.+............-+|.++|.....--|  | 
T Consensus        61 ~t~~~~p~~~~~~~v~~PgqtLPl~~i~~~~~s~~r~lvs~ar~~~F~vl~r~~v~~re~~r~tt~evd~~R~p~d~Fgn  140 (371)
T KOG1400|consen   61 DTTNWIPICGQVMAVLFPGQTLPLKFIDPQERSIVRRLVSSARDNGFVVLFRSDVPERESLRYTTTEVDAYRVPQDNFGN  140 (371)
T ss_pred             CceeeecccCceeeEecCcccCcchhcCHHHHHHHHHHHHhhcCCceEEEecccchHHhhccccceeccccccchhhhhh
Confidence            344458999966  899999999999999777777776665  566766655322333344566666553211112  3 


Q ss_pred             -eEEEEEEecceeEEeeee-cCCCeeEEEEEEecC
Q 011861          357 -RFVLEIESRRRFRILRSW-DQDGYRVAEIEWVQD  389 (476)
Q Consensus       357 -~~~V~v~G~~R~~I~~~~-~~~~~~~a~v~~l~d  389 (476)
                       -.++...|..|+++.++. +..|.-.|+|+.+|+
T Consensus       141 ~l~~~~~~G~y~~~vl~lR~qs~g~~e~~~qL~P~  175 (371)
T KOG1400|consen  141 ALSMVKAMGRYRCKVLKLRTQSLGRGEAEVQLLPD  175 (371)
T ss_pred             hhhhhhhhcccccceeeecccCCCcccceEEeccc
Confidence             345567899999999986 445666788888874

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=97.22  E-value=0.00068  Score=74.88  Aligned_cols=94  Identities=10%  Similarity=-0.003  Sum_probs=77.5

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc-------------------ccccchhHHHHHHHhhhccCCCCCccc
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP-------------------IVLGNRSSAYIRISQFLKHRPPSASEY  108 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~-------------------~~~~~~a~~~~~~~~~~~~~~~~~~~~  108 (476)
                      ..++-.|-.++.+++++.|...  .++...+.+.                   .+++.+|.||-++|++           
T Consensus        66 ~~yy~~G~l~~q~~~~~~~~lv--~~l~~~~~~~~~~~ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~-----------  132 (906)
T PRK14720         66 SALYISGILSLSRRPLNDSNLL--NLIDSFSQNLKWAIVEHICDKILLYGENKLALRTLAEAYAKLNEN-----------  132 (906)
T ss_pred             ehHHHHHHHHHhhcchhhhhhh--hhhhhcccccchhHHHHHHHHHHhhhhhhHHHHHHHHHHHHcCCh-----------
Confidence            3445556666666666665555  5555555554                   9999999999999999           


Q ss_pred             CCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhccccc
Q 011861          109 RPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQV  167 (476)
Q Consensus       109 ~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l  167 (476)
                                  ++|.+.+++++++||+++.+..++|..|... +.++|+..+.++++.
T Consensus       133 ------------~ka~~~yer~L~~D~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~  178 (906)
T PRK14720        133 ------------KKLKGVWERLVKADRDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR  178 (906)
T ss_pred             ------------HHHHHHHHHHHhcCcccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH
Confidence                        9999999999999999999999999999988 999999999998875

>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=97.22  E-value=0.0017  Score=68.43  Aligned_cols=56  Identities=18%  Similarity=0.132  Sum_probs=51.6

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhH
Q 011861          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQA  176 (476)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~  176 (476)
                      ++|+...++||++.|..++.|+.+|.+|-..|++.+|...+..|-.+|+.|.-+..
T Consensus       211 ~~Al~~Id~aI~htPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~DRyiNs  266 (517)
T PF12569_consen  211 EKALEYIDKAIEHTPTLVELYMTKARILKHAGDLKEAAEAMDEARELDLADRYINS  266 (517)
T ss_pred             HHHHHHHHHHHhcCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChhhHHHHH
Confidence            89999999999999999999999999999999999999999999999998877654

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 [], [].

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=97.21  E-value=0.00049  Score=71.73  Aligned_cols=96  Identities=20%  Similarity=0.221  Sum_probs=82.3

Q ss_pred             HHHHhhHHHHHhccHHHHHHHHHHHhcc--------CCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchH
Q 011861           49 DLVQKGNRAFRESNFEEAISNYSRANNI--------KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA  120 (476)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~--------~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (476)
                      .+..-|..|...++|.+|+..|.+|+.+        +|.-..++.|+|.+|.+.|+|                       
T Consensus       243 ~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf-----------------------  299 (508)
T KOG1840|consen  243 MLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAATLNNLAVLYYKQGKF-----------------------  299 (508)
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCCh-----------------------
Confidence            3445788999999999999999999987        455569999999999999999                       


Q ss_pred             HHHHHHHHHHhhcc--------ccchHHHHHHHHHHHhhhhHHHHHHHHhccccc
Q 011861          121 ELALKDAEKLLNLQ--------SNSMKSHLLKANALILLERYDMARDAILSGLQV  167 (476)
Q Consensus       121 ~~a~~~~~~al~l~--------p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l  167 (476)
                      .+|...|++|+++-        |.-...+...|.++..+++|++|...+++++++
T Consensus       300 ~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i  354 (508)
T KOG1840|consen  300 AEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKI  354 (508)
T ss_pred             HHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHH
Confidence            99989998888864        333457778999999999999999999998875

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=97.16  E-value=0.00032  Score=47.64  Aligned_cols=43  Identities=23%  Similarity=0.148  Sum_probs=38.7

Q ss_pred             hHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHH
Q 011861          138 MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (476)
Q Consensus       138 ~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~  180 (476)
                      +.+++.+|.+|..+|++++|++.|+++++.+|+|..++..+..
T Consensus         1 p~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La~   43 (44)
T PF13428_consen    1 PAAWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRALAQ   43 (44)
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHhhh
Confidence            3578999999999999999999999999999999998876543

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.14  E-value=0.0017  Score=63.03  Aligned_cols=122  Identities=17%  Similarity=0.178  Sum_probs=79.9

Q ss_pred             hHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcc------cCCCCC--------------
Q 011861           54 GNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASE------YRPLNG--------------  113 (476)
Q Consensus        54 g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~------~~~~~~--------------  113 (476)
                      |.-+|+-|||++|+..|+-+.+.+.-+++++.++|-|++.+|.|.+++.-..+.      -|.||-              
T Consensus        64 a~C~fhLgdY~~Al~~Y~~~~~~~~~~~el~vnLAcc~FyLg~Y~eA~~~~~ka~k~pL~~RLlfhlahklndEk~~~~f  143 (557)
T KOG3785|consen   64 AHCYFHLGDYEEALNVYTFLMNKDDAPAELGVNLACCKFYLGQYIEAKSIAEKAPKTPLCIRLLFHLAHKLNDEKRILTF  143 (557)
T ss_pred             HHHHHhhccHHHHHHHHHHHhccCCCCcccchhHHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCcHHHHHHH
Confidence            677899999999999999999988888999999999999999994332111110      000000              


Q ss_pred             --------CCCcchH---------HHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhh
Q 011861          114 --------LDPTTHA---------ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  175 (476)
Q Consensus       114 --------~~~~~~~---------~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~  175 (476)
                              +|+-+|+         ++|+..|.+++.-+|+....--++|.||+.+.-|+.+-..+.-.+.-.|+++-+.
T Consensus       144 h~~LqD~~EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q~pdStiA~  222 (557)
T KOG3785|consen  144 HSSLQDTLEDQLSLASVHYMRMHYQEAIDVYKRVLQDNPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQFPDSTIAK  222 (557)
T ss_pred             HHHHhhhHHHHHhHHHHHHHHHHHHHHHHHHHHHHhcChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHhCCCcHHHH
Confidence                    1111111         6666666666666665555555666666666666666666666666666655443

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.11  E-value=0.00091  Score=64.38  Aligned_cols=75  Identities=13%  Similarity=-0.052  Sum_probs=64.5

Q ss_pred             ccccchhHHH-HHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccc---hHHHHHHHHHHHhhhhHHHH
Q 011861           82 IVLGNRSSAY-IRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNS---MKSHLLKANALILLERYDMA  157 (476)
Q Consensus        82 ~~~~~~a~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~---~~~~~~~~~~~~~~~~~~~A  157 (476)
                      ..++..|..+ ++.|+|                       ++|+..|++.++..|++   +.++|++|.+|+..|+|++|
T Consensus       143 ~~~Y~~A~~l~~~~~~y-----------------------~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A  199 (263)
T PRK10803        143 NTDYNAAIALVQDKSRQ-----------------------DDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDA  199 (263)
T ss_pred             HHHHHHHHHHHHhcCCH-----------------------HHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHH
Confidence            5566777776 456899                       99999999999999998   57999999999999999999


Q ss_pred             HHHHhcccccCCCCchhhHHHH
Q 011861          158 RDAILSGLQVDPFSNPLQASLQ  179 (476)
Q Consensus       158 ~~~~~~~l~l~p~~~~~~~~~~  179 (476)
                      +..|.++++..|+++.....+-
T Consensus       200 ~~~f~~vv~~yP~s~~~~dAl~  221 (263)
T PRK10803        200 AYYFASVVKNYPKSPKAADAMF  221 (263)
T ss_pred             HHHHHHHHHHCCCCcchhHHHH
Confidence            9999999999998776555443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.10  E-value=0.0013  Score=55.33  Aligned_cols=73  Identities=22%  Similarity=0.132  Sum_probs=63.1

Q ss_pred             cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhcccc---chHHHHHHHHHHHhhhhHHHH
Q 011861           81 PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSN---SMKSHLLKANALILLERYDMA  157 (476)
Q Consensus        81 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~---~~~~~~~~~~~~~~~~~~~~A  157 (476)
                      +.+++++|.++-.+|+.                       .+|+..|++|++....   -..++..+|.++..+|++++|
T Consensus         1 ~~~~~~~A~a~d~~G~~-----------------------~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA   57 (120)
T PF12688_consen    1 PRALYELAWAHDSLGRE-----------------------EEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEA   57 (120)
T ss_pred             CchHHHHHHHHHhcCCH-----------------------HHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHH
Confidence            35788999999999999                       9999999999997543   356999999999999999999


Q ss_pred             HHHHhcccccCCC---CchhhH
Q 011861          158 RDAILSGLQVDPF---SNPLQA  176 (476)
Q Consensus       158 ~~~~~~~l~l~p~---~~~~~~  176 (476)
                      ...+++++.-.|+   +..+..
T Consensus        58 ~~~L~~~~~~~p~~~~~~~l~~   79 (120)
T PF12688_consen   58 LALLEEALEEFPDDELNAALRV   79 (120)
T ss_pred             HHHHHHHHHHCCCccccHHHHH
Confidence            9999999988787   444443

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.07  E-value=0.0016  Score=63.53  Aligned_cols=108  Identities=19%  Similarity=0.186  Sum_probs=82.9

Q ss_pred             hHHHHHHhhHHHHHh-ccHHHHHHHHHHHhccCCC--C----cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcc
Q 011861           46 HVFDLVQKGNRAFRE-SNFEEAISNYSRANNIKPG--D----PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT  118 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~-~~~~~Ai~~y~~al~~~p~--~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (476)
                      -+..+...|..|... |++++|+.+|.+|+++.-.  .    ..++.+.|.++.++|+|                     
T Consensus       113 aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y---------------------  171 (282)
T PF14938_consen  113 AAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRY---------------------  171 (282)
T ss_dssp             HHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-H---------------------
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCH---------------------
Confidence            356677778888888 9999999999999998322  2    37788899999999999                     


Q ss_pred             hHHHHHHHHHHHhhcccc------chHH-HHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhH
Q 011861          119 HAELALKDAEKLLNLQSN------SMKS-HLLKANALILLERYDMARDAILSGLQVDPFSNPLQA  176 (476)
Q Consensus       119 ~~~~a~~~~~~al~l~p~------~~~~-~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~  176 (476)
                        ++|+..|+++....-+      +.+. ++..+.+++..|++..|...+.+....+|......+
T Consensus       172 --~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E  234 (282)
T PF14938_consen  172 --EEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSRE  234 (282)
T ss_dssp             --HHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHH
T ss_pred             --HHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHH
Confidence              9999999998874311      2333 456777889999999999999999999997776544

>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A

Probab=97.02  E-value=0.00099  Score=47.09  Aligned_cols=49  Identities=18%  Similarity=0.132  Sum_probs=41.9

Q ss_pred             HHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhh
Q 011861          139 KSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  187 (476)
Q Consensus       139 ~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~  187 (476)
                      ..+|.+|.+++.+|+|++|+.....+|+++|+|..+......+++.+..
T Consensus         2 d~lY~lAig~ykl~~Y~~A~~~~~~lL~~eP~N~Qa~~L~~~i~~~i~k   50 (53)
T PF14853_consen    2 DCLYYLAIGHYKLGEYEKARRYCDALLEIEPDNRQAQSLKELIEDKIQK   50 (53)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTS-HHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhc
Confidence            3578999999999999999999999999999999999888888776654

>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=97.00  E-value=0.0021  Score=62.84  Aligned_cols=100  Identities=12%  Similarity=0.109  Sum_probs=81.4

Q ss_pred             hHHHHHhc--cHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHh
Q 011861           54 GNRAFRES--NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLL  131 (476)
Q Consensus        54 g~~~~~~~--~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al  131 (476)
                      |...+..|  ++++|...|++.-...+..+.++..+|.+++.+|+|                       ++|.+.+..|+
T Consensus       172 awv~l~~g~e~~~~A~y~f~El~~~~~~t~~~lng~A~~~l~~~~~-----------------------~eAe~~L~~al  228 (290)
T PF04733_consen  172 AWVNLATGGEKYQDAFYIFEELSDKFGSTPKLLNGLAVCHLQLGHY-----------------------EEAEELLEEAL  228 (290)
T ss_dssp             HHHHHHHTTTCCCHHHHHHHHHHCCS--SHHHHHHHHHHHHHCT-H-----------------------HHHHHHHHHHC
T ss_pred             HHHHHHhCchhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCH-----------------------HHHHHHHHHHH
Confidence            33445544  699999999999888888999999999999999999                       99999999999


Q ss_pred             hccccchHHHHHHHHHHHhhhhH-HHHHHHHhcccccCCCCchhhH
Q 011861          132 NLQSNSMKSHLLKANALILLERY-DMARDAILSGLQVDPFSNPLQA  176 (476)
Q Consensus       132 ~l~p~~~~~~~~~~~~~~~~~~~-~~A~~~~~~~l~l~p~~~~~~~  176 (476)
                      +.+|+++.++.+++-+...+|+. +.+...+.+.-..+|+++-+..
T Consensus       229 ~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~~p~h~~~~~  274 (290)
T PF04733_consen  229 EKDPNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQSNPNHPLVKD  274 (290)
T ss_dssp             CC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHHTTTSHHHHH
T ss_pred             HhccCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHhCCCChHHHH
Confidence            99999999999999999999998 5566677777778888776544

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.

>PF15015 NYD-SP12_N: Spermatogenesis-associated, N-terminal

Probab=96.99  E-value=0.0048  Score=61.28  Aligned_cols=96  Identities=19%  Similarity=0.352  Sum_probs=81.9

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCC--------Cc----------ccccchhHHHHHHHhhhccCCCCCcc
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPG--------DP----------IVLGNRSSAYIRISQFLKHRPPSASE  107 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~--------~~----------~~~~~~a~~~~~~~~~~~~~~~~~~~  107 (476)
                      ........|...|++++|..|+..|..|+++...        .+          .+--.++.||+++++.          
T Consensus       175 wl~vAL~das~~yrqk~ya~Aa~rF~taLelcskg~a~~k~~~~~~~di~~vaSfIetklv~CYL~~rkp----------  244 (569)
T PF15015_consen  175 WLQVALKDASSCYRQKKYAVAAGRFRTALELCSKGAALSKPFKASAEDISSVASFIETKLVTCYLRMRKP----------  244 (569)
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhhhhhccCCCCCChhhHHHHHHHHHHHHHHhhhhcCCC----------
Confidence            3455566788999999999999999999998432        21          3445688999999999          


Q ss_pred             cCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcc
Q 011861          108 YRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSG  164 (476)
Q Consensus       108 ~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  164 (476)
                                   +.|+....+.+-+||.+..-|++.|-++..+.+|.+|...+.-+
T Consensus       245 -------------dlALnh~hrsI~lnP~~frnHLrqAavfR~LeRy~eAarSamia  288 (569)
T PF15015_consen  245 -------------DLALNHSHRSINLNPSYFRNHLRQAAVFRRLERYSEAARSAMIA  288 (569)
T ss_pred             -------------chHHHHHhhhhhcCcchhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                         99999999999999999999999999999999999998765544

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=96.93  E-value=0.0024  Score=65.70  Aligned_cols=100  Identities=23%  Similarity=0.149  Sum_probs=91.2

Q ss_pred             HhccHHHHHHHHHHHhccCCCCc-ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccc
Q 011861           59 RESNFEEAISNYSRANNIKPGDP-IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNS  137 (476)
Q Consensus        59 ~~~~~~~Ai~~y~~al~~~p~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~  137 (476)
                      ..|+.-.|++++..|+...|... ....++|.+.++.|-.                       -.|-..+.+++.++...
T Consensus       619 ~~gn~~~a~~cl~~a~~~~p~~~~v~~v~la~~~~~~~~~-----------------------~da~~~l~q~l~~~~se  675 (886)
T KOG4507|consen  619 AVGNSTFAIACLQRALNLAPLQQDVPLVNLANLLIHYGLH-----------------------LDATKLLLQALAINSSE  675 (886)
T ss_pred             ecCCcHHHHHHHHHHhccChhhhcccHHHHHHHHHHhhhh-----------------------ccHHHHHHHHHhhcccC
Confidence            45999999999999999999765 6678999999998877                       88889999999999888


Q ss_pred             hHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          138 MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       138 ~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      +..++.+|.+++.+.+.+.|+++|+.|++++|++....+.+..+
T Consensus       676 pl~~~~~g~~~l~l~~i~~a~~~~~~a~~~~~~~~~~~~~l~~i  719 (886)
T KOG4507|consen  676 PLTFLSLGNAYLALKNISGALEAFRQALKLTTKCPECENSLKLI  719 (886)
T ss_pred             chHHHhcchhHHHHhhhHHHHHHHHHHHhcCCCChhhHHHHHHH
Confidence            88999999999999999999999999999999999998877766

>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=96.87  E-value=0.0034  Score=63.76  Aligned_cols=101  Identities=15%  Similarity=0.152  Sum_probs=89.1

Q ss_pred             HhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccch
Q 011861           59 RESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSM  138 (476)
Q Consensus        59 ~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~  138 (476)
                      ..++|+.|+..+.+..+.+|+   +...+|.++..+++.                       .+|++...+++..+|.+.
T Consensus       181 ~t~~~~~ai~lle~L~~~~pe---v~~~LA~v~l~~~~E-----------------------~~AI~ll~~aL~~~p~d~  234 (395)
T PF09295_consen  181 LTQRYDEAIELLEKLRERDPE---VAVLLARVYLLMNEE-----------------------VEAIRLLNEALKENPQDS  234 (395)
T ss_pred             hcccHHHHHHHHHHHHhcCCc---HHHHHHHHHHhcCcH-----------------------HHHHHHHHHHHHhCCCCH
Confidence            347899999999999988875   556688999888888                       999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhh
Q 011861          139 KSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (476)
Q Consensus       139 ~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~  185 (476)
                      ..+...|..++..++|+.|+...+++.++.|++-..+..+.++--.+
T Consensus       235 ~LL~~Qa~fLl~k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~  281 (395)
T PF09295_consen  235 ELLNLQAEFLLSKKKYELALEIAKKAVELSPSEFETWYQLAECYIQL  281 (395)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc
Confidence            99999999999999999999999999999999998888776654333

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG0376 consensus Serine-threonine phosphatase 2A, catalytic subunit [General function prediction only]

Probab=96.84  E-value=0.0022  Score=64.90  Aligned_cols=86  Identities=19%  Similarity=0.223  Sum_probs=75.0

Q ss_pred             HHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHH
Q 011861           50 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  129 (476)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  129 (476)
                      +..++..+++.++|..|+....+||+++|....+|+.+|.+...++++                       .+|+.++++
T Consensus        41 ~anRa~a~lK~e~~~~Al~Da~kaie~dP~~~K~Y~rrg~a~m~l~~~-----------------------~~A~~~l~~   97 (476)
T KOG0376|consen   41 FANRALAHLKVESFGGALHDALKAIELDPTYIKAYVRRGTAVMALGEF-----------------------KKALLDLEK   97 (476)
T ss_pred             echhhhhheeechhhhHHHHHHhhhhcCchhhheeeeccHHHHhHHHH-----------------------HHHHHHHHH
Confidence            345678889999999999999999999999999999999999999999                       999999999


Q ss_pred             HhhccccchHHHHHHHHHHH--hhhhHHHHH
Q 011861          130 LLNLQSNSMKSHLLKANALI--LLERYDMAR  158 (476)
Q Consensus       130 al~l~p~~~~~~~~~~~~~~--~~~~~~~A~  158 (476)
                      ...+.|+.+.+......+-.  ...+|+.|+
T Consensus        98 ~~~l~Pnd~~~~r~~~Ec~~~vs~~~fe~ai  128 (476)
T KOG0376|consen   98 VKKLAPNDPDATRKIDECNKIVSEEKFEKAI  128 (476)
T ss_pred             hhhcCcCcHHHHHHHHHHHHHHHHHhhhhcc
Confidence            99999999988777776643  444555554

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=96.79  E-value=0.0056  Score=54.45  Aligned_cols=67  Identities=22%  Similarity=0.257  Sum_probs=49.0

Q ss_pred             ccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchH
Q 011861           61 SNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMK  139 (476)
Q Consensus        61 ~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~  139 (476)
                      .-+++||.-|.+||.++|+...++.++|.+|..++.+.    +...        ++..+-++|...|++|++.+|++..
T Consensus        49 ~miedAisK~eeAL~I~P~~hdAlw~lGnA~ts~A~l~----~d~~--------~A~~~F~kA~~~FqkAv~~~P~ne~  115 (186)
T PF06552_consen   49 KMIEDAISKFEEALKINPNKHDALWCLGNAYTSLAFLT----PDTA--------EAEEYFEKATEYFQKAVDEDPNNEL  115 (186)
T ss_dssp             HHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHHHH-------HH--------HHHHHHHHHHHHHHHHHHH-TT-HH
T ss_pred             HHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHhhc----CChH--------HHHHHHHHHHHHHHHHHhcCCCcHH
Confidence            56788999999999999999999999999999999860    0000        0112228899999999999999844

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=96.79  E-value=0.0017  Score=59.17  Aligned_cols=73  Identities=22%  Similarity=0.171  Sum_probs=67.2

Q ss_pred             CcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHH
Q 011861           80 DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARD  159 (476)
Q Consensus        80 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~  159 (476)
                      .+..++.||..|-.+|-+                       .-|--|+.+++.++|+-+.++..+|.-+...|+|+.|.+
T Consensus        64 RA~l~fERGvlYDSlGL~-----------------------~LAR~DftQaLai~P~m~~vfNyLG~Yl~~a~~fdaa~e  120 (297)
T COG4785          64 RAQLLFERGVLYDSLGLR-----------------------ALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYE  120 (297)
T ss_pred             HHHHHHHhcchhhhhhHH-----------------------HHHhhhhhhhhhcCCCcHHHHHHHHHHHHhcccchHHHH
Confidence            457788888899999999                       999999999999999999999999999999999999999


Q ss_pred             HHhcccccCCCCchhh
Q 011861          160 AILSGLQVDPFSNPLQ  175 (476)
Q Consensus       160 ~~~~~l~l~p~~~~~~  175 (476)
                      .|...+++||.+.-+.
T Consensus       121 aFds~~ELDp~y~Ya~  136 (297)
T COG4785         121 AFDSVLELDPTYNYAH  136 (297)
T ss_pred             HhhhHhccCCcchHHH
Confidence            9999999999877554

>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]

Probab=96.77  E-value=0.00085  Score=68.28  Aligned_cols=49  Identities=39%  Similarity=1.060  Sum_probs=44.4

Q ss_pred             CCcccccccccccccCcEEc-cCCCcccHhhHHHhhhcCCCCcccccccc
Q 011861          199 RTDDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       199 ~~~~~~C~iC~~~~~~P~~~-~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      ...++.|++|..++.+|+.. .|||.||..|+..|...+..||.|+..+.
T Consensus        18 ~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~   67 (391)
T KOG0297|consen   18 LDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELT   67 (391)
T ss_pred             CcccccCccccccccCCCCCCCCCCcccccccchhhccCcCCcccccccc
Confidence            55678999999999999994 99999999999999999888999988764

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.75  E-value=0.0019  Score=54.06  Aligned_cols=63  Identities=19%  Similarity=0.094  Sum_probs=57.5

Q ss_pred             chhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhccc
Q 011861           86 NRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGL  165 (476)
Q Consensus        86 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l  165 (476)
                      ..|.+....|+.                       +.|++.|.+++.+.|..+.+|.++++++...|+.++|++++++++
T Consensus        48 l~~valaE~g~L-----------------------d~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~Al  104 (175)
T KOG4555|consen   48 LKAIALAEAGDL-----------------------DGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKAL  104 (175)
T ss_pred             HHHHHHHhccch-----------------------HHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHH
Confidence            346677788999                       999999999999999999999999999999999999999999999


Q ss_pred             ccCCCC
Q 011861          166 QVDPFS  171 (476)
Q Consensus       166 ~l~p~~  171 (476)
                      ++....
T Consensus       105 eLag~~  110 (175)
T KOG4555|consen  105 ELAGDQ  110 (175)
T ss_pred             HhcCcc
Confidence            987543

>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=96.71  E-value=0.0076  Score=63.50  Aligned_cols=97  Identities=12%  Similarity=0.018  Sum_probs=85.6

Q ss_pred             HHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHH
Q 011861           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (476)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (476)
                      .+.-.|+-|-..|+|++|+...++||+..|+.+++|..+|.+|-..|++                       .+|.+..+
T Consensus       196 ~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt~~ely~~KarilKh~G~~-----------------------~~Aa~~~~  252 (517)
T PF12569_consen  196 TLYFLAQHYDYLGDYEKALEYIDKAIEHTPTLVELYMTKARILKHAGDL-----------------------KEAAEAMD  252 (517)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHCCCH-----------------------HHHHHHHH
Confidence            4566788888999999999999999999999999999999999999999                       99999999


Q ss_pred             HHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccC
Q 011861          129 KLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVD  168 (476)
Q Consensus       129 ~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~  168 (476)
                      .|-.+|+.+--.-...+..++..|+.++|...+.....-+
T Consensus       253 ~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~  292 (517)
T PF12569_consen  253 EARELDLADRYINSKCAKYLLRAGRIEEAEKTASLFTRED  292 (517)
T ss_pred             HHHhCChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCC
Confidence            9999998765555566677789999999999888776544

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 [], [].

>KOG4151 consensus Myosin assembly protein/sexual cycle protein and related proteins [Posttranslational modification, protein turnover, chaperones; Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=96.71  E-value=0.004  Score=66.56  Aligned_cols=120  Identities=22%  Similarity=0.358  Sum_probs=107.6

Q ss_pred             hhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC----cccccchhHHHHHHH--hhhccCCCCCcccCCCCCCCC
Q 011861           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD----PIVLGNRSSAYIRIS--QFLKHRPPSASEYRPLNGLDP  116 (476)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~----~~~~~~~a~~~~~~~--~~~~~~~~~~~~~~~~~~~~~  116 (476)
                      ...++..+.++|+..|.+++|..|-.-|..++.+-|.+    +..+.+++.+|..+|  +|                   
T Consensus        49 ~l~ra~~~~~E~n~~~~K~d~~~~~~~~~~~~~llp~~~~~~a~~~~~~~s~~m~~~l~~~-------------------  109 (748)
T KOG4151|consen   49 FLSRALELKEEGNKLFQKRDYEGAMFRYDCAIKLLPKDHHVVATLRSNQASCYMQLGLGEY-------------------  109 (748)
T ss_pred             HHHHHHHHHhhhhHHhhhhhhhccchhhhhhheeccccchhhhhHHHHHHHHHhhcCccch-------------------
Confidence            44567889999999999999999999999999998854    478888999988754  78                   


Q ss_pred             cchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhh
Q 011861          117 TTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (476)
Q Consensus       117 ~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~  185 (476)
                          ..++.++.-|+...|...++++.++.+|..+++++-|..++.-....+|.+........+++..+
T Consensus       110 ----~~~~~E~~la~~~~p~i~~~Ll~r~~~y~al~k~d~a~rdl~i~~~~~p~~~~~~eif~elk~ll  174 (748)
T KOG4151|consen  110 ----PKAIPECELALESQPRISKALLKRARKYEALNKLDLAVRDLRIVEKMDPSNVSASEIFEELKGLL  174 (748)
T ss_pred             ----hhhcCchhhhhhccchHHHHHhhhhhHHHHHHHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHHH
Confidence                99999999999999999999999999999999999999998888999999988888788887777

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=96.70  E-value=0.0032  Score=66.60  Aligned_cols=75  Identities=12%  Similarity=0.015  Sum_probs=64.2

Q ss_pred             HHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHH
Q 011861           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (476)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (476)
                      .+...|-.+..+|++++|...|++|+.++|+ ..+|..+|.++...|++                       ++|++.|+
T Consensus       422 ~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps-~~a~~~lG~~~~~~G~~-----------------------~eA~~~~~  477 (517)
T PRK10153        422 IYEILAVQALVKGKTDEAYQAINKAIDLEMS-WLNYVLLGKVYELKGDN-----------------------RLAADAYS  477 (517)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-HHHHHHHHHHHHHcCCH-----------------------HHHHHHHH
Confidence            3444566677889999999999999999994 78999999999999999                       99999999


Q ss_pred             HHhhccccchHHHHHHHHH
Q 011861          129 KLLNLQSNSMKSHLLKANA  147 (476)
Q Consensus       129 ~al~l~p~~~~~~~~~~~~  147 (476)
                      +|+.++|.++..|..--.+
T Consensus       478 ~A~~L~P~~pt~~~~~~~~  496 (517)
T PRK10153        478 TAFNLRPGENTLYWIENLV  496 (517)
T ss_pred             HHHhcCCCCchHHHHHhcc
Confidence            9999999988755443333

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

Probab=96.67  E-value=0.0097  Score=62.29  Aligned_cols=104  Identities=17%  Similarity=-0.021  Sum_probs=94.8

Q ss_pred             HHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccc
Q 011861           56 RAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQS  135 (476)
Q Consensus        56 ~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p  135 (476)
                      ..--.++.++|+..+.++++..|..+.+|..+|+++.++++.                       +.|-..|..-++..|
T Consensus       660 ~er~ld~~eeA~rllEe~lk~fp~f~Kl~lmlGQi~e~~~~i-----------------------e~aR~aY~~G~k~cP  716 (913)
T KOG0495|consen  660 LERYLDNVEEALRLLEEALKSFPDFHKLWLMLGQIEEQMENI-----------------------EMAREAYLQGTKKCP  716 (913)
T ss_pred             HHHHhhhHHHHHHHHHHHHHhCCchHHHHHHHhHHHHHHHHH-----------------------HHHHHHHHhccccCC
Confidence            334568999999999999999999999999999999999999                       999999999999999


Q ss_pred             cchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHH
Q 011861          136 NSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (476)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~  182 (476)
                      +.+..|..++..--..|..-.|+..+.++.-.||.+..++...-+++
T Consensus       717 ~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk~~~lwle~Ir~E  763 (913)
T KOG0495|consen  717 NSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPKNALLWLESIRME  763 (913)
T ss_pred             CCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCCcchhHHHHHHHH
Confidence            99999999999988889999999999999999999998876554444

>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=96.65  E-value=0.0011  Score=42.00  Aligned_cols=33  Identities=15%  Similarity=0.162  Sum_probs=30.3

Q ss_pred             HHHHHHHHHHHhhhhHHHHHHHHhcccccCCCC
Q 011861          139 KSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (476)
Q Consensus       139 ~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~  171 (476)
                      ++|+.+|.++..+|++++|+..|+++++++|+|
T Consensus         2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~~~~~n   34 (34)
T PF13181_consen    2 EAYYNLGKIYEQLGDYEEALEYFEKALELNPDN   34 (34)
T ss_dssp             HHHHHHHHHHHHTTSHHHHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCC
Confidence            679999999999999999999999999999853

...

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

Probab=96.64  E-value=0.012  Score=61.07  Aligned_cols=121  Identities=22%  Similarity=0.182  Sum_probs=70.2

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhh------ccCCCCCcccCCCCCCC----Cc
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFL------KHRPPSASEYRPLNGLD----PT  117 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~~~~~~~----~~  117 (476)
                      .+++..-+.+-..++|++|..-..+.+...|++..++...-.|..++++|=      +-+.-.+....+.|...    ..
T Consensus        13 ~~l~t~ln~~~~~~e~e~a~k~~~Kil~~~pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~~~~~~~~fEKAYc~Yrl   92 (652)
T KOG2376|consen   13 EALLTDLNRHGKNGEYEEAVKTANKILSIVPDDEDAIRCKVVALIQLDKYEDALKLIKKNGALLVINSFFFEKAYCEYRL   92 (652)
T ss_pred             HHHHHHHHHhccchHHHHHHHHHHHHHhcCCCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchhhhcchhhHHHHHHHHHc
Confidence            567777788888888888888888888888877655555555555555550      00000000000000000    00


Q ss_pred             chHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCC
Q 011861          118 THAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (476)
Q Consensus       118 ~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~  171 (476)
                      +-.++|+..+.   .+++......-..|++++.+|+|++|.+.|+...+.+.++
T Consensus        93 nk~Dealk~~~---~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd  143 (652)
T KOG2376|consen   93 NKLDEALKTLK---GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDD  143 (652)
T ss_pred             ccHHHHHHHHh---cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCch
Confidence            00055555554   4555566677778888888888888888888776655443

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.64  E-value=0.0013  Score=65.14  Aligned_cols=98  Identities=21%  Similarity=0.157  Sum_probs=80.1

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC------cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHH
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGD------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (476)
                      +++-..||.||--|||+.||.+-..-+++.-..      -.+++|+|.||..+|+|                       +
T Consensus       196 Ra~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~f-----------------------e  252 (639)
T KOG1130|consen  196 RAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNF-----------------------E  252 (639)
T ss_pred             chhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhccc-----------------------H
Confidence            344456888999999999999988888775432      27899999999999999                       9


Q ss_pred             HHHHHHHHHhhcc----c--cchHHHHHHHHHHHhhhhHHHHHHHHhcccccC
Q 011861          122 LALKDAEKLLNLQ----S--NSMKSHLLKANALILLERYDMARDAILSGLQVD  168 (476)
Q Consensus       122 ~a~~~~~~al~l~----p--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~  168 (476)
                      .|++.|.+++.+-    .  -.++.-|.+|+.|.-+.+|..|+.++++-|.+.
T Consensus       253 ~A~ehYK~tl~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIA  305 (639)
T KOG1130|consen  253 LAIEHYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIA  305 (639)
T ss_pred             hHHHHHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999998866543    2  246688899999999999999999998876653

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.64  E-value=0.0041  Score=58.91  Aligned_cols=79  Identities=15%  Similarity=0.081  Sum_probs=69.4

Q ss_pred             ccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccc---hHHHHHHHHHHHhhhhHHHHHHH
Q 011861           84 LGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNS---MKSHLLKANALILLERYDMARDA  160 (476)
Q Consensus        84 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~---~~~~~~~~~~~~~~~~~~~A~~~  160 (476)
                      .++-|.-+++.|+|                       ..|...|..-++.-|++   +.++||+|++++.+|+|++|...
T Consensus       144 ~Y~~A~~~~ksgdy-----------------------~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~  200 (262)
T COG1729         144 LYNAALDLYKSGDY-----------------------AEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYI  200 (262)
T ss_pred             HHHHHHHHHHcCCH-----------------------HHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHH
Confidence            68999999999999                       99999999999998886   56999999999999999999999


Q ss_pred             HhcccccCCCCchhhHHHHHHHHhh
Q 011861          161 ILSGLQVDPFSNPLQASLQNLERTT  185 (476)
Q Consensus       161 ~~~~l~l~p~~~~~~~~~~~~~~~~  185 (476)
                      |..+.+-.|.++.+-..+-++-..+
T Consensus       201 f~~~~k~~P~s~KApdallKlg~~~  225 (262)
T COG1729         201 FARVVKDYPKSPKAPDALLKLGVSL  225 (262)
T ss_pred             HHHHHHhCCCCCCChHHHHHHHHHH
Confidence            9999999999888766665554333

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

Probab=96.60  E-value=0.0087  Score=61.93  Aligned_cols=105  Identities=20%  Similarity=0.209  Sum_probs=85.2

Q ss_pred             HHHHhhHHHHHhccHHHHHHHHHHHhccCCCC-------------------------------cccccchhHHHHHHHhh
Q 011861           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGD-------------------------------PIVLGNRSSAYIRISQF   97 (476)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~-------------------------------~~~~~~~a~~~~~~~~~   97 (476)
                      .+-.+|+.+|+.|+|++|++.|...++.+..+                               .+.++|.|-++...|+|
T Consensus       112 ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~v~~v~e~syel~yN~Ac~~i~~gky  191 (652)
T KOG2376|consen  112 LLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQSVPEVPEDSYELLYNTACILIENGKY  191 (652)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHhccCCCcchHHHHHHHHHHHHhcccH
Confidence            45568999999999999999999986654333                               37889999999999999


Q ss_pred             hccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhcc--------cc-------chHHHHHHHHHHHhhhhHHHHHHHHh
Q 011861           98 LKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQ--------SN-------SMKSHLLKANALILLERYDMARDAIL  162 (476)
Q Consensus        98 ~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~--------p~-------~~~~~~~~~~~~~~~~~~~~A~~~~~  162 (476)
                                             .+|++.+++|+++.        -+       -......++.++..+|+-++|.+.|.
T Consensus       192 -----------------------~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~  248 (652)
T KOG2376|consen  192 -----------------------NQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYV  248 (652)
T ss_pred             -----------------------HHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHH
Confidence                                   99999999995432        11       12266789999999999999999999


Q ss_pred             cccccCCCCchhhH
Q 011861          163 SGLQVDPFSNPLQA  176 (476)
Q Consensus       163 ~~l~l~p~~~~~~~  176 (476)
                      ..++.+|.|.....
T Consensus       249 ~~i~~~~~D~~~~A  262 (652)
T KOG2376|consen  249 DIIKRNPADEPSLA  262 (652)
T ss_pred             HHHHhcCCCchHHH
Confidence            99999998886543

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=96.58  E-value=0.0036  Score=61.10  Aligned_cols=96  Identities=20%  Similarity=0.227  Sum_probs=71.3

Q ss_pred             HhhHHHHHhccHHHHHHHHHHHhccC--CCC----cccccchhHHHHHH-HhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           52 QKGNRAFRESNFEEAISNYSRANNIK--PGD----PIVLGNRSSAYIRI-SQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        52 ~~g~~~~~~~~~~~Ai~~y~~al~~~--p~~----~~~~~~~a~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      ..+-..+++.++++|+.+|.+|+.+.  -++    +.++.++|.+|... |++                       ++|+
T Consensus        79 ~~Aa~~~k~~~~~~Ai~~~~~A~~~y~~~G~~~~aA~~~~~lA~~ye~~~~d~-----------------------e~Ai  135 (282)
T PF14938_consen   79 EEAANCYKKGDPDEAIECYEKAIEIYREAGRFSQAAKCLKELAEIYEEQLGDY-----------------------EKAI  135 (282)
T ss_dssp             HHHHHHHHHTTHHHHHHHHHHHHHHHHHCT-HHHHHHHHHHHHHHHCCTT--H-----------------------HHHH
T ss_pred             HHHHHHHHhhCHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHcCCH-----------------------HHHH
Confidence            34444566679999999999999873  222    36777888888877 888                       9999


Q ss_pred             HHHHHHhhcccc------chHHHHHHHHHHHhhhhHHHHHHHHhcccccCCC
Q 011861          125 KDAEKLLNLQSN------SMKSHLLKANALILLERYDMARDAILSGLQVDPF  170 (476)
Q Consensus       125 ~~~~~al~l~p~------~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~  170 (476)
                      +.|.+|+++-..      ....+...|.++..+|+|++|+..|++.....-+
T Consensus       136 ~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~  187 (282)
T PF14938_consen  136 EYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLE  187 (282)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhc
Confidence            999999997421      2346778999999999999999999998765433

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.55  E-value=0.018  Score=55.05  Aligned_cols=105  Identities=21%  Similarity=0.213  Sum_probs=90.8

Q ss_pred             HHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccc
Q 011861           56 RAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQS  135 (476)
Q Consensus        56 ~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p  135 (476)
                      .+.+..+|+.||.+.+--.+.+|.+-..++.+|-||+...+|                       ..|...|++.-.+-|
T Consensus        19 ~lI~d~ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~Q~f-----------------------~~AA~CYeQL~ql~P   75 (459)
T KOG4340|consen   19 RLIRDARYADAIQLLGSELERSPRSRAGLSLLGYCYYRLQEF-----------------------ALAAECYEQLGQLHP   75 (459)
T ss_pred             HHHHHhhHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHhhCh
Confidence            357888999999999999999999999999999999999999                       999999999999999


Q ss_pred             cchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhh
Q 011861          136 NSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  187 (476)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~  187 (476)
                      ...+..+.-|+.++..+.|.+|+.......    +++.+.+..-+++.++..
T Consensus        76 ~~~qYrlY~AQSLY~A~i~ADALrV~~~~~----D~~~L~~~~lqLqaAIkY  123 (459)
T KOG4340|consen   76 ELEQYRLYQAQSLYKACIYADALRVAFLLL----DNPALHSRVLQLQAAIKY  123 (459)
T ss_pred             HHHHHHHHHHHHHHHhcccHHHHHHHHHhc----CCHHHHHHHHHHHHHHhc
Confidence            999999999999999999999998766553    446666655566555543

>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.53  E-value=0.00055  Score=47.30  Aligned_cols=44  Identities=30%  Similarity=0.785  Sum_probs=36.7

Q ss_pred             cccccccccccCcEEccCCCc-ccHhhHHHhhh-cCCCCccccccc
Q 011861          203 FDCTLCLKLLYEPITTPCGHS-FCRSCLFQSMD-RGNKCPLCRAVL  246 (476)
Q Consensus       203 ~~C~iC~~~~~~P~~~~cgh~-fC~~Cl~~~~~-~~~~Cp~cr~~~  246 (476)
                      .+|.||.+-..+.|...|||- .|..|-.+.+. .+-.||+||.++
T Consensus         8 dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi   53 (62)
T KOG4172|consen    8 DECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPI   53 (62)
T ss_pred             cceeeeccCcchHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHH
Confidence            689999998888888999994 68999877666 455699999876

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.51  E-value=0.01  Score=50.98  Aligned_cols=83  Identities=22%  Similarity=0.276  Sum_probs=65.5

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc---ccccchhHHHHHHHhhhccCCCCCcccCCCC-CCCCcchHHHH
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLN-GLDPTTHAELA  123 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~a  123 (476)
                      .+....|..+|+.++|.+|+..|.+-|+++|+.+   -+++.+|.++++...-         ..+.++ ....+..+..|
T Consensus        48 qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~~~~~~---------~~~~~~~~drD~~~~~~A  118 (142)
T PF13512_consen   48 QAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYYEQDEG---------SLQSFFRSDRDPTPARQA  118 (142)
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHHHHhhh---------HHhhhcccccCcHHHHHH
Confidence            4566778999999999999999999999999886   6788899999887652         111122 23356667999


Q ss_pred             HHHHHHHhhccccchH
Q 011861          124 LKDAEKLLNLQSNSMK  139 (476)
Q Consensus       124 ~~~~~~al~l~p~~~~  139 (476)
                      ..++++.++.-|++.-
T Consensus       119 ~~~f~~lv~~yP~S~y  134 (142)
T PF13512_consen  119 FRDFEQLVRRYPNSEY  134 (142)
T ss_pred             HHHHHHHHHHCcCChh
Confidence            9999999999998743

>PRK15331 chaperone protein SicA; Provisional

Probab=96.45  E-value=0.0067  Score=53.35  Aligned_cols=85  Identities=9%  Similarity=-0.116  Sum_probs=73.4

Q ss_pred             hccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhh
Q 011861           74 NNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLER  153 (476)
Q Consensus        74 l~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~  153 (476)
                      ..+.++.-+..+..|--++..|++                       ++|...|+-..-+||.+++.++.+|-++..+|+
T Consensus        30 ~gis~~~le~iY~~Ay~~y~~Gk~-----------------------~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k~   86 (165)
T PRK15331         30 HGIPQDMMDGLYAHAYEFYNQGRL-----------------------DEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQ   86 (165)
T ss_pred             hCCCHHHHHHHHHHHHHHHHCCCH-----------------------HHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHH
Confidence            444555567788889999999999                       999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          154 YDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       154 ~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      |++|+..|..+..++++|+...-....+
T Consensus        87 y~~Ai~~Y~~A~~l~~~dp~p~f~agqC  114 (165)
T PRK15331         87 FQKACDLYAVAFTLLKNDYRPVFFTGQC  114 (165)
T ss_pred             HHHHHHHHHHHHHcccCCCCccchHHHH
Confidence            9999999999999998888754444444

>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.38  E-value=0.0016  Score=64.20  Aligned_cols=47  Identities=28%  Similarity=0.810  Sum_probs=39.2

Q ss_pred             CcccccccccccccCcE-----E---ccCCCcccHhhHHHhhh--c-----CCCCccccccc
Q 011861          200 TDDFDCTLCLKLLYEPI-----T---TPCGHSFCRSCLFQSMD--R-----GNKCPLCRAVL  246 (476)
Q Consensus       200 ~~~~~C~iC~~~~~~P~-----~---~~cgh~fC~~Cl~~~~~--~-----~~~Cp~cr~~~  246 (476)
                      ..+..|.||++...++.     .   .+|.|+||..|+..|..  +     .+.||.||...
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s  220 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS  220 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence            56889999999888776     3   47999999999999983  4     46799999864

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.31  E-value=0.011  Score=63.53  Aligned_cols=48  Identities=33%  Similarity=0.685  Sum_probs=38.6

Q ss_pred             CCCCCcccccccccccccCcE-EccCCCcccHhhHHHhhhcCCCCccccccc
Q 011861          196 TPERTDDFDCTLCLKLLYEPI-TTPCGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (476)
Q Consensus       196 ~~~~~~~~~C~iC~~~~~~P~-~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~  246 (476)
                      ....-+.-.|..|.-.+.-|+ .+.|||+|+.+|+.   ++...||.|+...
T Consensus       834 sa~i~q~skCs~C~~~LdlP~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~  882 (933)
T KOG2114|consen  834 SAQIFQVSKCSACEGTLDLPFVHFLCGHSYHQHCLE---DKEDKCPKCLPEL  882 (933)
T ss_pred             ccceeeeeeecccCCccccceeeeecccHHHHHhhc---cCcccCCccchhh
Confidence            334445578999999999996 47999999999998   5667899997643

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=96.30  E-value=0.0022  Score=63.85  Aligned_cols=50  Identities=34%  Similarity=0.664  Sum_probs=40.4

Q ss_pred             CCCCCCcccccccccccccCcE----EccCCCcccHhhHHHhhhcCCCCccccccc
Q 011861          195 GTPERTDDFDCTLCLKLLYEPI----TTPCGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (476)
Q Consensus       195 ~~~~~~~~~~C~iC~~~~~~P~----~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~  246 (476)
                      ......+.-+|++|++-|.+-+    ++.|.|+|.-.|+..|+.  .+||+||.-.
T Consensus       168 ~~~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~--~scpvcR~~q  221 (493)
T KOG0804|consen  168 PPTGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD--SSCPVCRYCQ  221 (493)
T ss_pred             CCCCcccCCCcchhHhhcCccccceeeeecccccchHHHhhccc--CcChhhhhhc
Confidence            3444556779999999998765    569999999999999976  4699999754

>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=96.27  E-value=0.0071  Score=56.97  Aligned_cols=42  Identities=40%  Similarity=0.963  Sum_probs=37.1

Q ss_pred             cccccccccccCcEEc-cCCCcccHhhHHHhhh-cCCCCccccc
Q 011861          203 FDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMD-RGNKCPLCRA  244 (476)
Q Consensus       203 ~~C~iC~~~~~~P~~~-~cgh~fC~~Cl~~~~~-~~~~Cp~cr~  244 (476)
                      +.|+.|..++.+|+.+ -|||+||..||...+- ..+.||.|..
T Consensus       275 LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCCccc
Confidence            8999999999999988 6889999999987665 6678999965

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=96.26  E-value=0.0038  Score=60.47  Aligned_cols=70  Identities=16%  Similarity=0.147  Sum_probs=64.6

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      +--+..+|-.||+...|..|....+.|+.++-.+..+|+.|+.+-..+|..                       .+|.+|
T Consensus       131 pV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg~~-----------------------~EAKkD  187 (536)
T KOG4648|consen  131 PVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESLGNN-----------------------MEAKKD  187 (536)
T ss_pred             ccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHhhH-----------------------HHHHHh
Confidence            334567888999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchH
Q 011861          127 AEKLLNLQSNSMK  139 (476)
Q Consensus       127 ~~~al~l~p~~~~  139 (476)
                      |+.+|++.|++.+
T Consensus       188 ~E~vL~LEP~~~E  200 (536)
T KOG4648|consen  188 CETVLALEPKNIE  200 (536)
T ss_pred             HHHHHhhCcccHH
Confidence            9999999999754

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=96.23  E-value=0.012  Score=49.66  Aligned_cols=72  Identities=14%  Similarity=0.110  Sum_probs=60.4

Q ss_pred             CcchHHHHHHHHHHHhh-cccc-chHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhh
Q 011861          116 PTTHAELALKDAEKLLN-LQSN-SMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  187 (476)
Q Consensus       116 ~~~~~~~a~~~~~~al~-l~p~-~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~  187 (476)
                      .+..+++.+..++..++ -.|. .-...|++|..++.+|+|+.|+.+....++.+|+|+.+....+.+++++..
T Consensus        47 ~~~dv~~GI~iLe~l~~~~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~~e~~n~Qa~~Lk~~ied~itk  120 (149)
T KOG3364|consen   47 DTEDVQEGIVILEDLLKSAHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLETEPNNRQALELKETIEDKITK  120 (149)
T ss_pred             chHHHHHhHHHHHHHhhhcCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhh
Confidence            34566999999999986 3343 345788999999999999999999999999999999998888888777654

>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=96.22  E-value=0.0059  Score=38.52  Aligned_cols=33  Identities=18%  Similarity=0.300  Sum_probs=29.8

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCC
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPG   79 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~   79 (476)
                      +..+...|..+...|++++|+..|.++++++|+
T Consensus         1 a~~~~~lg~~y~~~~~~~~A~~~~~~a~~~~~~   33 (34)
T PF13181_consen    1 AEAYYNLGKIYEQLGDYEEALEYFEKALELNPD   33 (34)
T ss_dssp             -HHHHHHHHHHHHTTSHHHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            356788999999999999999999999999984

...

>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.19  E-value=0.0027  Score=61.79  Aligned_cols=46  Identities=28%  Similarity=0.751  Sum_probs=40.2

Q ss_pred             ccccccccccccCcEEccCCCc-ccHhhHHHhhhcCCCCcccccccc
Q 011861          202 DFDCTLCLKLLYEPITTPCGHS-FCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       202 ~~~C~iC~~~~~~P~~~~cgh~-fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      -.+|.||+.-..+-+.+||-|. .|..|.+...-+...||+||+++.
T Consensus       290 gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~  336 (349)
T KOG4265|consen  290 GKECVICLSESRDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIE  336 (349)
T ss_pred             CCeeEEEecCCcceEEecchhhehhHhHHHHHHHhhcCCCccccchH
Confidence            4689999999999999999996 799999876656778999999873

>KOG0545 consensus Aryl-hydrocarbon receptor-interacting protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.17  E-value=0.025  Score=52.61  Aligned_cols=71  Identities=17%  Similarity=0.149  Sum_probs=63.8

Q ss_pred             HHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHH
Q 011861           50 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  129 (476)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  129 (476)
                      +...++-++..|+|-+++++.++.++.+|++..+|+.||.++...=+.                       .+|.+|+.+
T Consensus       233 llNy~QC~L~~~e~yevleh~seiL~~~~~nvKA~frRakAhaa~Wn~-----------------------~eA~~D~~~  289 (329)
T KOG0545|consen  233 LLNYCQCLLKKEEYYEVLEHCSEILRHHPGNVKAYFRRAKAHAAVWNE-----------------------AEAKADLQK  289 (329)
T ss_pred             HHhHHHHHhhHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhhcCH-----------------------HHHHHHHHH
Confidence            456778889999999999999999999999999999999999888788                       999999999


Q ss_pred             HhhccccchHHHHH
Q 011861          130 LLNLQSNSMKSHLL  143 (476)
Q Consensus       130 al~l~p~~~~~~~~  143 (476)
                      +++++|.-..+..+
T Consensus       290 vL~ldpslasvVsr  303 (329)
T KOG0545|consen  290 VLELDPSLASVVSR  303 (329)
T ss_pred             HHhcChhhHHHHHH
Confidence            99999977665544

>KOG3824 consensus Huntingtin interacting protein HYPE [General function prediction only]

Probab=96.12  E-value=0.013  Score=56.13  Aligned_cols=84  Identities=13%  Similarity=0.159  Sum_probs=71.5

Q ss_pred             hhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHH
Q 011861           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (476)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (476)
                      ...+.|......|....+.|+.++|...|..|+.++|+++.++...|......++.                       -
T Consensus       111 a~~kEA~~Al~~A~~~~~~Gk~ekA~~lfeHAlalaP~~p~~L~e~G~f~E~~~~i-----------------------v  167 (472)
T KOG3824|consen  111 AKVKEAILALKAAGRSRKDGKLEKAMTLFEHALALAPTNPQILIEMGQFREMHNEI-----------------------V  167 (472)
T ss_pred             hhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHhcCCCCHHHHHHHhHHHHhhhhh-----------------------H
Confidence            44456677777888899999999999999999999999999988888777666666                       8


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHH
Q 011861          122 LALKDAEKLLNLQSNSMKSHLLKANAL  148 (476)
Q Consensus       122 ~a~~~~~~al~l~p~~~~~~~~~~~~~  148 (476)
                      +|-..|-+|+.++|.|.+++-+++...
T Consensus       168 ~ADq~Y~~ALtisP~nseALvnR~RT~  194 (472)
T KOG3824|consen  168 EADQCYVKALTISPGNSEALVNRARTT  194 (472)
T ss_pred             hhhhhhheeeeeCCCchHHHhhhhccc
Confidence            888899999999999999988877543

>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]

Probab=96.04  E-value=0.0028  Score=61.93  Aligned_cols=46  Identities=35%  Similarity=0.755  Sum_probs=39.0

Q ss_pred             cccccccccccCcEEccCCCcccHhhHHHhhh--cCCCCccccccccc
Q 011861          203 FDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD--RGNKCPLCRAVLFI  248 (476)
Q Consensus       203 ~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~--~~~~Cp~cr~~~~~  248 (476)
                      .-|.||-+.-++-..-||||..|..|+..|-.  .+..||.||..+..
T Consensus       370 eLCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG  417 (563)
T KOG1785|consen  370 ELCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG  417 (563)
T ss_pred             HHHHHhhccCCCcccccccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence            36899998888877789999999999999875  35679999998843

>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]

Probab=96.02  E-value=0.0053  Score=46.12  Aligned_cols=29  Identities=31%  Similarity=0.789  Sum_probs=26.8

Q ss_pred             cCCCcccHhhHHHhhhcCCCCcccccccc
Q 011861          219 PCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       219 ~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      -|.|.|+..||.+|+.....||++|+.+.
T Consensus        53 ~CnHaFH~HCI~rWL~Tk~~CPld~q~w~   81 (88)
T COG5194          53 VCNHAFHDHCIYRWLDTKGVCPLDRQTWV   81 (88)
T ss_pred             ecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence            69999999999999999889999999763

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.02  E-value=0.042  Score=49.50  Aligned_cols=100  Identities=14%  Similarity=0.152  Sum_probs=77.3

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC---cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (476)
                      +....+.|..++..+++++|+..++.++..--+.   +.+-.++|.+.+..|++                       ++|
T Consensus        89 ~laaL~lAk~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lRLArvq~q~~k~-----------------------D~A  145 (207)
T COG2976          89 VLAALELAKAEVEANNLDKAEAQLKQALAQTKDENLKALAALRLARVQLQQKKA-----------------------DAA  145 (207)
T ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHhhhH-----------------------HHH
Confidence            3456788999999999999999999998764332   35667788999999999                       888


Q ss_pred             HHHHHHHhhccccchH-HHHHHHHHHHhhhhHHHHHHHHhcccccCCCC
Q 011861          124 LKDAEKLLNLQSNSMK-SHLLKANALILLERYDMARDAILSGLQVDPFS  171 (476)
Q Consensus       124 ~~~~~~al~l~p~~~~-~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~  171 (476)
                      +...+..-  ++++.. ..-.+|.++...|+-++|+..|.++++.++++
T Consensus       146 L~~L~t~~--~~~w~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~~s~  192 (207)
T COG2976         146 LKTLDTIK--EESWAAIVAELRGDILLAKGDKQEARAAYEKALESDASP  192 (207)
T ss_pred             HHHHhccc--cccHHHHHHHHhhhHHHHcCchHHHHHHHHHHHHccCCh
Confidence            77654332  233333 34479999999999999999999999987443

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.00  E-value=0.066  Score=47.91  Aligned_cols=99  Identities=23%  Similarity=0.264  Sum_probs=56.5

Q ss_pred             HHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhH-HHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHH
Q 011861           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSS-AYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (476)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (476)
                      .+...|..+...+++..|+..+.+++...+.+.......+. ++...|++                       +.|+..+
T Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------------~~a~~~~  153 (291)
T COG0457          97 ALLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLALGALYELGDY-----------------------EEALELY  153 (291)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcchHHHHHHHHHHHHcCCH-----------------------HHHHHHH
Confidence            34445555555566666666666666665555444444444 56666666                       6666666


Q ss_pred             HHHhhccc---cchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCC
Q 011861          128 EKLLNLQS---NSMKSHLLKANALILLERYDMARDAILSGLQVDPF  170 (476)
Q Consensus       128 ~~al~l~p---~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~  170 (476)
                      .+++..+|   .....++..+..+...++++.|+..+.+++...+.
T Consensus       154 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~  199 (291)
T COG0457         154 EKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPD  199 (291)
T ss_pred             HHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcc
Confidence            66655555   24444445555555566666666666666665555

>PRK10941 hypothetical protein; Provisional

Probab=95.98  E-value=0.014  Score=56.14  Aligned_cols=77  Identities=17%  Similarity=0.107  Sum_probs=68.7

Q ss_pred             ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHH
Q 011861           82 IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAI  161 (476)
Q Consensus        82 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~  161 (476)
                      ..+.|+=.+|.+.+++                       ..|++..+..+.++|+++.-+..+|.+|.++|.+..|+.++
T Consensus       182 Rml~nLK~~~~~~~~~-----------------------~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~~~A~~DL  238 (269)
T PRK10941        182 KLLDTLKAALMEEKQM-----------------------ELALRASEALLQFDPEDPYEIRDRGLIYAQLDCEHVALSDL  238 (269)
T ss_pred             HHHHHHHHHHHHcCcH-----------------------HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHH
Confidence            4456677788899999                       99999999999999999999999999999999999999999


Q ss_pred             hcccccCCCCchhhHHHHHH
Q 011861          162 LSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       162 ~~~l~l~p~~~~~~~~~~~~  181 (476)
                      +..++..|+++.+......+
T Consensus       239 ~~fl~~~P~dp~a~~ik~ql  258 (269)
T PRK10941        239 SYFVEQCPEDPISEMIRAQI  258 (269)
T ss_pred             HHHHHhCCCchhHHHHHHHH
Confidence            99999999999876555544

>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=95.98  E-value=0.0065  Score=58.57  Aligned_cols=49  Identities=22%  Similarity=0.659  Sum_probs=43.4

Q ss_pred             CCCcccccccccccccCcEEccCCCcccHhhHHHhhhcCCCCccccccc
Q 011861          198 ERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (476)
Q Consensus       198 ~~~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~  246 (476)
                      ...++-.|+||..--.+.+..||+|.-|..||.+++.+.+.|-.|+..+
T Consensus       418 p~sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv  466 (489)
T KOG4692|consen  418 PDSEDNLCPICYAGPINAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTV  466 (489)
T ss_pred             CCcccccCcceecccchhhccCCCCchHHHHHHHHHhcCCeeeEeccee
Confidence            3456778999998888888899999999999999999999999998765

>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=95.97  E-value=0.0042  Score=66.97  Aligned_cols=48  Identities=27%  Similarity=0.760  Sum_probs=37.1

Q ss_pred             CCccccccccccccc-C----c--EEccCCCcccHhhHHHhhhc--CCCCccccccc
Q 011861          199 RTDDFDCTLCLKLLY-E----P--ITTPCGHSFCRSCLFQSMDR--GNKCPLCRAVL  246 (476)
Q Consensus       199 ~~~~~~C~iC~~~~~-~----P--~~~~cgh~fC~~Cl~~~~~~--~~~Cp~cr~~~  246 (476)
                      .....+|+||..++. -    |  ..-.|.|.|+..|+.+|+..  .+.||.||..+
T Consensus      1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRsei 1522 (1525)
T COG5219        1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEI 1522 (1525)
T ss_pred             cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccc
Confidence            345678999998776 1    1  22368899999999999984  45699999876

>KOG4814 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.97  E-value=0.027  Score=58.82  Aligned_cols=96  Identities=13%  Similarity=0.140  Sum_probs=86.7

Q ss_pred             HHHHhhHHHHHhccHHHHHHHHHHHhccCCCC------cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHH
Q 011861           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGD------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (476)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (476)
                      -++..|...|+..+|.-|+..|...++.-|.|      +.+..+++.||+++.+.                       ++
T Consensus       356 iLWn~A~~~F~~~~Y~~s~~~y~~Sl~~i~~D~~~~~FaK~qR~l~~CYL~L~QL-----------------------D~  412 (872)
T KOG4814|consen  356 LLWNTAKKLFKMEKYVVSIRFYKLSLKDIISDNYSDRFAKIQRALQVCYLKLEQL-----------------------DN  412 (872)
T ss_pred             HHHHhhHHHHHHHHHHHHHHHHHHHHHhccchhhhhHHHHHHHHHHHHHhhHHHH-----------------------HH
Confidence            35778999999999999999999999998766      47888999999999999                       99


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhccccc
Q 011861          123 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQV  167 (476)
Q Consensus       123 a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l  167 (476)
                      |++.+..|-+.+|.++-.-+..-.+....|.-++|+..+.+....
T Consensus       413 A~E~~~EAE~~d~~~~l~q~~~~~~~~~E~~Se~AL~~~~~~~s~  457 (872)
T KOG4814|consen  413 AVEVYQEAEEVDRQSPLCQLLMLQSFLAEDKSEEALTCLQKIKSS  457 (872)
T ss_pred             HHHHHHHHHhhccccHHHHHHHHHHHHHhcchHHHHHHHHHHHhh
Confidence            999999999999999999899999999999999999988876543

>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]

Probab=95.94  E-value=0.0026  Score=64.39  Aligned_cols=47  Identities=30%  Similarity=0.803  Sum_probs=39.4

Q ss_pred             CcccccccccccccCcEEccCCCcccHhhHHHhhh-----cCCCCccccccc
Q 011861          200 TDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD-----RGNKCPLCRAVL  246 (476)
Q Consensus       200 ~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~-----~~~~Cp~cr~~~  246 (476)
                      .....|.+|.+.-.+++..+|.|.||+.|+.....     .+-.||.|-..+
T Consensus       534 k~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~L  585 (791)
T KOG1002|consen  534 KGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGL  585 (791)
T ss_pred             cCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccc
Confidence            45678999999999999999999999999976554     234699998765

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.93  E-value=0.041  Score=49.34  Aligned_cols=92  Identities=23%  Similarity=0.296  Sum_probs=71.8

Q ss_pred             HHHHhccHHHHHHHHHHHhccCC---CCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhh
Q 011861           56 RAFRESNFEEAISNYSRANNIKP---GDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLN  132 (476)
Q Consensus        56 ~~~~~~~~~~Ai~~y~~al~~~p---~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~  132 (476)
                      .++..|++++|+..|.+++..+|   .....+..++..+...+++                       +.++..+.+++.
T Consensus       139 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------------~~a~~~~~~~~~  195 (291)
T COG0457         139 ALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRY-----------------------EEALELLEKALK  195 (291)
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCH-----------------------HHHHHHHHHHHh
Confidence            67788888888888888877766   3456666666667777778                       888888888888


Q ss_pred             cccc-chHHHHHHHHHHHhhhhHHHHHHHHhcccccCCC
Q 011861          133 LQSN-SMKSHLLKANALILLERYDMARDAILSGLQVDPF  170 (476)
Q Consensus       133 l~p~-~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~  170 (476)
                      ..+. ....+..++..+...++++.|...+..++...|.
T Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~  234 (291)
T COG0457         196 LNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPD  234 (291)
T ss_pred             hCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcc
Confidence            8887 6778888888888888888888888888887776

>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=95.91  E-value=0.0032  Score=63.26  Aligned_cols=49  Identities=39%  Similarity=0.774  Sum_probs=36.9

Q ss_pred             CCccccccccccccc-----Cc------------EEccCCCcccHhhHHHhhhcC-CCCcccccccc
Q 011861          199 RTDDFDCTLCLKLLY-----EP------------ITTPCGHSFCRSCLFQSMDRG-NKCPLCRAVLF  247 (476)
Q Consensus       199 ~~~~~~C~iC~~~~~-----~P------------~~~~cgh~fC~~Cl~~~~~~~-~~Cp~cr~~~~  247 (476)
                      ......|+||+....     .|            ..+||.|.|+..|+.+|.+.- ..||.||.++.
T Consensus       568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP  634 (636)
T KOG0828|consen  568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP  634 (636)
T ss_pred             hhccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence            344568999986532     11            235999999999999999954 47999999873

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=95.77  E-value=0.0095  Score=37.09  Aligned_cols=33  Identities=21%  Similarity=0.096  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHHhhhhHHHHHHHHhcccccCCCC
Q 011861          139 KSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (476)
Q Consensus       139 ~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~  171 (476)
                      .+++++|.++...|++++|+..|++.++..|++
T Consensus         1 ~a~~~~a~~~~~~g~~~~A~~~~~~~~~~~P~s   33 (33)
T PF13174_consen    1 DALYRLARCYYKLGDYDEAIEYFQRLIKRYPDS   33 (33)
T ss_dssp             HHHHHHHHHHHHHCHHHHHHHHHHHHHHHSTTS
T ss_pred             CHHHHHHHHHHHccCHHHHHHHHHHHHHHCcCC
Confidence            478999999999999999999999999988864

>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=95.75  E-value=0.0095  Score=55.47  Aligned_cols=52  Identities=19%  Similarity=0.461  Sum_probs=40.6

Q ss_pred             CCCCCCcccccccccccccCc----------EEccCCCcccHhhHHHhhh--cCCCCccccccc
Q 011861          195 GTPERTDDFDCTLCLKLLYEP----------ITTPCGHSFCRSCLFQSMD--RGNKCPLCRAVL  246 (476)
Q Consensus       195 ~~~~~~~~~~C~iC~~~~~~P----------~~~~cgh~fC~~Cl~~~~~--~~~~Cp~cr~~~  246 (476)
                      -+....++--|.+|...+...          ..++|+|.|+..||..|-.  +...||-|++.+
T Consensus       217 lPtkhl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekV  280 (328)
T KOG1734|consen  217 LPTKHLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKV  280 (328)
T ss_pred             CCCCCCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHh
Confidence            344556677899999776533          4689999999999999976  445699998876

>smart00028 TPR Tetratricopeptide repeats

Probab=95.73  E-value=0.014  Score=35.03  Aligned_cols=33  Identities=27%  Similarity=0.320  Sum_probs=30.0

Q ss_pred             HHHHHHHHHHHhhhhHHHHHHHHhcccccCCCC
Q 011861          139 KSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (476)
Q Consensus       139 ~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~  171 (476)
                      .+++.+|.++..+|++++|...|.++++++|.+
T Consensus         2 ~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~~   34 (34)
T smart00028        2 EALYNLGNAYLKLGDYDEALEYYEKALELDPNN   34 (34)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCC
Confidence            578999999999999999999999999988753

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.

>PRK10941 hypothetical protein; Provisional

Probab=95.71  E-value=0.036  Score=53.39  Aligned_cols=74  Identities=18%  Similarity=0.235  Sum_probs=66.6

Q ss_pred             HhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHh
Q 011861           52 QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLL  131 (476)
Q Consensus        52 ~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al  131 (476)
                      ..-..+.+.++|++|+.+....+.++|+++.-+..||.+|.++|.+                       ..|..|++.-+
T Consensus       186 nLK~~~~~~~~~~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~-----------------------~~A~~DL~~fl  242 (269)
T PRK10941        186 TLKAALMEEKQMELALRASEALLQFDPEDPYEIRDRGLIYAQLDCE-----------------------HVALSDLSYFV  242 (269)
T ss_pred             HHHHHHHHcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCc-----------------------HHHHHHHHHHH
Confidence            3445578999999999999999999999999999999999999999                       99999999999


Q ss_pred             hccccchHHHHHHHHHH
Q 011861          132 NLQSNSMKSHLLKANAL  148 (476)
Q Consensus       132 ~l~p~~~~~~~~~~~~~  148 (476)
                      +..|+.+.+..-+.++.
T Consensus       243 ~~~P~dp~a~~ik~ql~  259 (269)
T PRK10941        243 EQCPEDPISEMIRAQIH  259 (269)
T ss_pred             HhCCCchhHHHHHHHHH
Confidence            99999988877666554

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.61  E-value=0.025  Score=53.13  Aligned_cols=119  Identities=15%  Similarity=0.154  Sum_probs=66.1

Q ss_pred             HhhHHHHHhccHHHHHHHHHHHhccC-CCCcccccchhHHHHHHHhhhc--cCCC-CCcccCCCCCCCCcchH-------
Q 011861           52 QKGNRAFRESNFEEAISNYSRANNIK-PGDPIVLGNRSSAYIRISQFLK--HRPP-SASEYRPLNGLDPTTHA-------  120 (476)
Q Consensus        52 ~~g~~~~~~~~~~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~--~~~~-~~~~~~~~~~~~~~~~~-------  120 (476)
                      ...+.+.-.|.|.-.+..|.+.++.+ |.++.+.+.++.+.++.|+.-.  ..++ -.++-+.+.+.--.+.|       
T Consensus       182 ~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i  261 (366)
T KOG2796|consen  182 SMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFL  261 (366)
T ss_pred             HHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhh
Confidence            35666677777777888888887776 7777777777777777776500  0000 00011111111111111       


Q ss_pred             -------HHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCC
Q 011861          121 -------ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF  170 (476)
Q Consensus       121 -------~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~  170 (476)
                             .+|...+.+.+..||.++.+...+|.|++.+|+..+|++.++.+++..|.
T Consensus       262 ~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~  318 (366)
T KOG2796|consen  262 HLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDPR  318 (366)
T ss_pred             eecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCCc
Confidence                   44445555555556666666666666666666666666666666655554

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.59  E-value=0.13  Score=48.56  Aligned_cols=125  Identities=14%  Similarity=0.107  Sum_probs=95.6

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc---ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      +.....+..+++.++|+.|+...++-+++.|+.+   -+++.+|.+++..-+.               ....+..+.+|+
T Consensus        72 qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs~~~~i~~---------------~~rDq~~~~~A~  136 (254)
T COG4105          72 QAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLSYFFQIDD---------------VTRDQSAARAAF  136 (254)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhccCCc---------------cccCHHHHHHHH
Confidence            4566778899999999999999999999999876   4555566664433332               344666779999


Q ss_pred             HHHHHHhhccccch---------------HHHH--HHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhh
Q 011861          125 KDAEKLLNLQSNSM---------------KSHL--LKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  187 (476)
Q Consensus       125 ~~~~~al~l~p~~~---------------~~~~--~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~  187 (476)
                      ..+...++--|++.               .+.+  ..|.-|...|.|..|+.-++..++.-|+.+.....+..+.++...
T Consensus       137 ~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em~IaryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~  216 (254)
T COG4105         137 AAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEMAIARYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYA  216 (254)
T ss_pred             HHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHH
Confidence            99999999999742               1333  345567789999999999999999988888888888777665543

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.59  E-value=0.023  Score=54.31  Aligned_cols=94  Identities=20%  Similarity=0.291  Sum_probs=79.9

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      +.-....|-..|+.|+|+.|+..|+.|++....++.+-++.|.|+++.+++                       ..|++.
T Consensus       144 Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyqpllAYniALaHy~~~qy-----------------------asALk~  200 (459)
T KOG4340|consen  144 ADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQPLLAYNLALAHYSSRQY-----------------------ASALKH  200 (459)
T ss_pred             cchhccchheeeccccHHHHHHHHHHHHhhcCCCchhHHHHHHHHHhhhhH-----------------------HHHHHH
Confidence            455677888899999999999999999999999999999999999999999                       999888


Q ss_pred             HHHHhhcc----cc-------------------------chHHHHHHHHHHHhhhhHHHHHHHHhc
Q 011861          127 AEKLLNLQ----SN-------------------------SMKSHLLKANALILLERYDMARDAILS  163 (476)
Q Consensus       127 ~~~al~l~----p~-------------------------~~~~~~~~~~~~~~~~~~~~A~~~~~~  163 (476)
                      ....++..    |.                         -.+++..++-++++.|+|+.|.+.+..
T Consensus       201 iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtD  266 (459)
T KOG4340|consen  201 ISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTD  266 (459)
T ss_pred             HHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhc
Confidence            77766531    21                         134788889999999999999987654

>KOG0551 consensus Hsp90 co-chaperone CNS1 (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=95.56  E-value=0.062  Score=52.20  Aligned_cols=65  Identities=15%  Similarity=0.219  Sum_probs=57.3

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHH
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (476)
                      --+..+|-..+.-|+|..||...++|+.++|....+++.-|.|++.+.++                       ..|+.-|
T Consensus       120 vLY~NRAAa~~~l~NyRs~l~Dcs~al~~~P~h~Ka~~R~Akc~~eLe~~-----------------------~~a~nw~  176 (390)
T KOG0551|consen  120 VLYTNRAAAQLYLGNYRSALNDCSAALKLKPTHLKAYIRGAKCLLELERF-----------------------AEAVNWC  176 (390)
T ss_pred             HHHhhHHHHHHHHHHHHHHHHHHHHHHhcCcchhhhhhhhhHHHHHHHHH-----------------------HHHHHHH
Confidence            34455666778889999999999999999999999999999999999999                       9999988


Q ss_pred             HHHhhccc
Q 011861          128 EKLLNLQS  135 (476)
Q Consensus       128 ~~al~l~p  135 (476)
                      +..+.++-
T Consensus       177 ee~~~~d~  184 (390)
T KOG0551|consen  177 EEGLQIDD  184 (390)
T ss_pred             hhhhhhhH
Confidence            88877663

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

Probab=95.56  E-value=0.11  Score=51.76  Aligned_cols=119  Identities=13%  Similarity=0.083  Sum_probs=102.2

Q ss_pred             hhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHH
Q 011861           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (476)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (476)
                      ...+++.....+|-.-+..|||.+|.+...++-+..+.-...|..-|.+--++|++                       +
T Consensus        79 rKrrra~~~~~egl~~l~eG~~~qAEkl~~rnae~~e~p~l~~l~aA~AA~qrgd~-----------------------~  135 (400)
T COG3071          79 RKRRRARKALNEGLLKLFEGDFQQAEKLLRRNAEHGEQPVLAYLLAAEAAQQRGDE-----------------------D  135 (400)
T ss_pred             HHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHhhhcCcchHHHHHHHHHHHHhcccH-----------------------H
Confidence            45567888888999999999999999999998888887778888888899999999                       9


Q ss_pred             HHHHHHHHHhhcccc-chHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHH
Q 011861          122 LALKDAEKLLNLQSN-SMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  183 (476)
Q Consensus       122 ~a~~~~~~al~l~p~-~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~  183 (476)
                      .+-....+|-+.-++ .-..+..++..+...|+|+.|.....+.++..|.++.+.....++--
T Consensus       136 ~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v~~ll~~~pr~~~vlrLa~r~y~  198 (400)
T COG3071         136 RANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENVDQLLEMTPRHPEVLRLALRAYI  198 (400)
T ss_pred             HHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHHHHHHHhCcCChHHHHHHHHHHH
Confidence            999999999999443 45577789999999999999999999999999999988766555433

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=95.53  E-value=0.025  Score=56.22  Aligned_cols=98  Identities=17%  Similarity=0.101  Sum_probs=79.9

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCC------CCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKP------GDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA  120 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (476)
                      .+++...||.+.-.|+|+-|+++|..++.+.-      -.+..-+.+|..|..+.++                       
T Consensus       235 RRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQscYSLgNtytll~e~-----------------------  291 (639)
T KOG1130|consen  235 RRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEV-----------------------  291 (639)
T ss_pred             HHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHH-----------------------
Confidence            45667789999999999999999999876632      1234456788999999999                       


Q ss_pred             HHHHHHHHHHhhccc------cchHHHHHHHHHHHhhhhHHHHHHHHhccccc
Q 011861          121 ELALKDAEKLLNLQS------NSMKSHLLKANALILLERYDMARDAILSGLQV  167 (476)
Q Consensus       121 ~~a~~~~~~al~l~p------~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l  167 (476)
                      ++||.+..+.+.+-.      ....++|.+|.++..+|..+.|+.+.+..+++
T Consensus       292 ~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~~  344 (639)
T KOG1130|consen  292 QKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLRS  344 (639)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            999999999877642      35679999999999999999999888777654

>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A

Probab=95.49  E-value=0.029  Score=39.62  Aligned_cols=43  Identities=16%  Similarity=0.218  Sum_probs=35.6

Q ss_pred             cccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHH
Q 011861           83 VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANAL  148 (476)
Q Consensus        83 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~  148 (476)
                      .++.+|.+++++|+|                       .+|.+.++.+++++|+|.++...+..+-
T Consensus         3 ~lY~lAig~ykl~~Y-----------------------~~A~~~~~~lL~~eP~N~Qa~~L~~~i~   45 (53)
T PF14853_consen    3 CLYYLAIGHYKLGEY-----------------------EKARRYCDALLEIEPDNRQAQSLKELIE   45 (53)
T ss_dssp             HHHHHHHHHHHTT-H-----------------------HHHHHHHHHHHHHTTS-HHHHHHHHHHH
T ss_pred             hHHHHHHHHHHhhhH-----------------------HHHHHHHHHHHhhCCCcHHHHHHHHHHH
Confidence            567899999999999                       9999999999999999988876665543

>KOG2471 consensus TPR repeat-containing protein [General function prediction only]

Probab=95.47  E-value=0.031  Score=56.80  Aligned_cols=112  Identities=14%  Similarity=0.043  Sum_probs=91.1

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHH-hccCCC--------CcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCc
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRA-NNIKPG--------DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPT  117 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~a-l~~~p~--------~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (476)
                      +..+..+.+.+|..|+|.+|.+.+... |...|.        .-.+|.|+|-+++++|.|                    
T Consensus       240 ~~~l~LKsq~eY~~gn~~kA~KlL~~sni~~~~g~~~T~q~~~cif~NNlGcIh~~~~~y--------------------  299 (696)
T KOG2471|consen  240 SMALLLKSQLEYAHGNHPKAMKLLLVSNIHKEAGGTITPQLSSCIFNNNLGCIHYQLGCY--------------------  299 (696)
T ss_pred             cHHHHHHHHHHHHhcchHHHHHHHHhcccccccCccccchhhhheeecCcceEeeehhhH--------------------
Confidence            456778899999999999999987654 333343        236789999999999999                    


Q ss_pred             chHHHHHHHHHHHhh-c--------c---------ccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHH
Q 011861          118 THAELALKDAEKLLN-L--------Q---------SNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQ  179 (476)
Q Consensus       118 ~~~~~a~~~~~~al~-l--------~---------p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~  179 (476)
                         ..+...|.+|++ .        .         .......|+.|..|...|+...|.+.|.++.+..-.|+-+|..+.
T Consensus       300 ---~~~~~~F~kAL~N~c~qL~~g~~~~~~~tls~nks~eilYNcG~~~Lh~grPl~AfqCf~~av~vfh~nPrlWLRlA  376 (696)
T KOG2471|consen  300 ---QASSVLFLKALRNSCSQLRNGLKPAKTFTLSQNKSMEILYNCGLLYLHSGRPLLAFQCFQKAVHVFHRNPRLWLRLA  376 (696)
T ss_pred             ---HHHHHHHHHHHHHHHHHHhccCCCCcceehhcccchhhHHhhhHHHHhcCCcHHHHHHHHHHHHHHhcCcHHHHHHH
Confidence               999999999986 1        1         135678999999999999999999999999998888888877665


Q ss_pred             HH
Q 011861          180 NL  181 (476)
Q Consensus       180 ~~  181 (476)
                      ++
T Consensus       377 Ec  378 (696)
T KOG2471|consen  377 EC  378 (696)
T ss_pred             HH
Confidence            53

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.41  E-value=0.084  Score=51.70  Aligned_cols=89  Identities=16%  Similarity=0.103  Sum_probs=75.6

Q ss_pred             hHHHHHhccHHHHHHHHHHHhccCCCCc-ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhh
Q 011861           54 GNRAFRESNFEEAISNYSRANNIKPGDP-IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLN  132 (476)
Q Consensus        54 g~~~~~~~~~~~Ai~~y~~al~~~p~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~  132 (476)
                      -..++...||..||....-.+..+...- ....-.|.||+.+|+|                       ++|+..|.-+.+
T Consensus        29 Ledfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY-----------------------~~Al~~Y~~~~~   85 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDY-----------------------EEALNVYTFLMN   85 (557)
T ss_pred             HHHHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccH-----------------------HHHHHHHHHHhc
Confidence            3457788999999999998887765433 5556689999999999                       999999999988


Q ss_pred             ccccchHHHHHHHHHHHhhhhHHHHHHHHhccc
Q 011861          133 LQSNSMKSHLLKANALILLERYDMARDAILSGL  165 (476)
Q Consensus       133 l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l  165 (476)
                      -+.-+.+...++|-+++.+|.|.+|.+...++-
T Consensus        86 ~~~~~~el~vnLAcc~FyLg~Y~eA~~~~~ka~  118 (557)
T KOG3785|consen   86 KDDAPAELGVNLACCKFYLGQYIEAKSIAEKAP  118 (557)
T ss_pred             cCCCCcccchhHHHHHHHHHHHHHHHHHHhhCC
Confidence            776678888999999999999999999877763

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=95.06  E-value=0.087  Score=57.26  Aligned_cols=92  Identities=18%  Similarity=0.134  Sum_probs=79.8

Q ss_pred             HHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccc
Q 011861           56 RAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQS  135 (476)
Q Consensus        56 ~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p  135 (476)
                      .....++|.+|++...+.++..|+-..+....|..+.++|+.                       ++|....+..-..-+
T Consensus        18 d~ld~~qfkkal~~~~kllkk~Pn~~~a~vLkaLsl~r~gk~-----------------------~ea~~~Le~~~~~~~   74 (932)
T KOG2053|consen   18 DLLDSSQFKKALAKLGKLLKKHPNALYAKVLKALSLFRLGKG-----------------------DEALKLLEALYGLKG   74 (932)
T ss_pred             HHhhhHHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHhcCc-----------------------hhHHHHHhhhccCCC
Confidence            356678899999999999999999999999999999999999                       999966665555667


Q ss_pred             cchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCC
Q 011861          136 NSMKSHLLKANALILLERYDMARDAILSGLQVDPF  170 (476)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~  170 (476)
                      ++...+-.+-.+|..++++++|...|+++...+|.
T Consensus        75 ~D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~~P~  109 (932)
T KOG2053|consen   75 TDDLTLQFLQNVYRDLGKLDEAVHLYERANQKYPS  109 (932)
T ss_pred             CchHHHHHHHHHHHHHhhhhHHHHHHHHHHhhCCc
Confidence            77778888899999999999999999999999998

>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=95.05  E-value=0.0079  Score=44.79  Aligned_cols=29  Identities=28%  Similarity=0.807  Sum_probs=24.2

Q ss_pred             cCCCcccHhhHHHhhhcC---CCCcccccccc
Q 011861          219 PCGHSFCRSCLFQSMDRG---NKCPLCRAVLF  247 (476)
Q Consensus       219 ~cgh~fC~~Cl~~~~~~~---~~Cp~cr~~~~  247 (476)
                      -|.|.|...||.+|+...   ..||+||+.+.
T Consensus        50 ~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   50 YCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             HHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            699999999999999732   34999999763

>KOG0825 consensus PHD Zn-finger protein [General function prediction only]

Probab=94.93  E-value=0.006  Score=64.54  Aligned_cols=46  Identities=24%  Similarity=0.527  Sum_probs=37.6

Q ss_pred             cccccccccccccCcEE---ccCCCcccHhhHHHhhhcCCCCccccccc
Q 011861          201 DDFDCTLCLKLLYEPIT---TPCGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (476)
Q Consensus       201 ~~~~C~iC~~~~~~P~~---~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~  246 (476)
                      ..-.|++|+..+.+-..   ..|+|.||..|+..|-.....||+||..+
T Consensus       122 ~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF  170 (1134)
T KOG0825|consen  122 VENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEF  170 (1134)
T ss_pred             hhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhh
Confidence            45578888876655432   48999999999999999989999999886

>smart00028 TPR Tetratricopeptide repeats

Probab=94.89  E-value=0.049  Score=32.52  Aligned_cols=33  Identities=24%  Similarity=0.499  Sum_probs=29.2

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGD   80 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~   80 (476)
                      ..+...|..++..+++++|+..|.++++++|++
T Consensus         2 ~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~~   34 (34)
T smart00028        2 EALYNLGNAYLKLGDYDEALEYYEKALELDPNN   34 (34)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCC
Confidence            346788999999999999999999999998863

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.

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.87  E-value=0.0092  Score=38.48  Aligned_cols=29  Identities=10%  Similarity=-0.038  Sum_probs=24.7

Q ss_pred             HHHHHHHHHHhhhhHHHHHHHHhcccccC
Q 011861          140 SHLLKANALILLERYDMARDAILSGLQVD  168 (476)
Q Consensus       140 ~~~~~~~~~~~~~~~~~A~~~~~~~l~l~  168 (476)
                      +|..+|.+|...|+|++|+..|+++|.+.
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~l~   29 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALALA   29 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence            57899999999999999999999976543

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

Probab=94.85  E-value=0.09  Score=52.23  Aligned_cols=101  Identities=17%  Similarity=0.071  Sum_probs=62.5

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      ..-....+..+.+-|++++|.+...++++..-+.. +....  -..+.+++                       ..=++.
T Consensus       263 p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~-L~~~~--~~l~~~d~-----------------------~~l~k~  316 (400)
T COG3071         263 PELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR-LCRLI--PRLRPGDP-----------------------EPLIKA  316 (400)
T ss_pred             hhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh-HHHHH--hhcCCCCc-----------------------hHHHHH
Confidence            34445566677777888888888777777632221 11111  11233444                       445556


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCch
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~  173 (476)
                      .++.+...|+++..++.+|..++..+.|.+|..+|+++++..|+..+
T Consensus       317 ~e~~l~~h~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~  363 (400)
T COG3071         317 AEKWLKQHPEDPLLLSTLGRLALKNKLWGKASEALEAALKLRPSASD  363 (400)
T ss_pred             HHHHHHhCCCChhHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhh
Confidence            66777777777777777777777777777777777777776665444

>PF06957 COPI_C: Coatomer (COPI) alpha subunit C-terminus; InterPro: IPR010714 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=94.82  E-value=0.11  Score=52.80  Aligned_cols=115  Identities=17%  Similarity=0.145  Sum_probs=64.3

Q ss_pred             hhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc--------ccccchhHH--H-----HHHHhhhccCCCCCccc
Q 011861           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP--------IVLGNRSSA--Y-----IRISQFLKHRPPSASEY  108 (476)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~--------~~~~~~a~~--~-----~~~~~~~~~~~~~~~~~  108 (476)
                      ..........|..+|..|+|.+|+..|...|..-|--.        ++...+..|  |     +.+.+-  .        
T Consensus       201 l~~L~~~Lk~gyk~~t~gKF~eA~~~Fr~iL~~i~l~vv~~~~E~~e~~eli~icrEYilgl~iEl~Rr--~--------  270 (422)
T PF06957_consen  201 LSSLEERLKEGYKLFTAGKFEEAIEIFRSILHSIPLLVVESREEEDEAKELIEICREYILGLSIELERR--E--------  270 (422)
T ss_dssp             HHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHC--BSSCHHHHHHHHHHHHHHHHHHHHHHHHHHC--T--------
T ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhheeeecCHHHHHHHHHHHHHHHHHHHHHHHHHHHH--h--------
Confidence            34455667789999999999999999999987633211        111111111  1     111111  0        


Q ss_pred             CCCCCCCCcc--hHHHH--HHHHHHHhhccccchHHHHHHHHHH-HhhhhHHHHHHHHhcccccCCCCch
Q 011861          109 RPLNGLDPTT--HAELA--LKDAEKLLNLQSNSMKSHLLKANAL-ILLERYDMARDAILSGLQVDPFSNP  173 (476)
Q Consensus       109 ~~~~~~~~~~--~~~~a--~~~~~~al~l~p~~~~~~~~~~~~~-~~~~~~~~A~~~~~~~l~l~p~~~~  173 (476)
                           +...+  ..++.  +..|=-...|.|.+...-++.|+.. +..++|.-|....++.|+++|..+.
T Consensus       271 -----l~~~~~~~~kR~lELAAYFThc~LQp~H~~LaLr~AM~~~~K~KNf~tAa~FArRLLel~p~~~~  335 (422)
T PF06957_consen  271 -----LPKDPVEDQKRNLELAAYFTHCKLQPSHLILALRSAMSQAFKLKNFITAASFARRLLELNPSPEV  335 (422)
T ss_dssp             -----S-TTTHHHHHHHHHHHHHHCCS---HHHHHHHHHHHHHHCCCTTBHHHHHHHHHHHHCT--SCHH
T ss_pred             -----ccccchhhHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHcCCCHHH
Confidence                 00000  00111  2222234456777777777777765 6899999999999999999987554

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 C terminus (approximately 500 residues) of the eukaryotic coatomer alpha subunit [, ]. This domain is found along with the IPR006692 from INTERPRO domain. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0005515 protein binding, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030126 COPI vesicle coat; PDB: 3MKR_B 3MV2_E 3MKQ_B 3MV3_A.

>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B

Probab=94.78  E-value=0.11  Score=41.16  Aligned_cols=51  Identities=20%  Similarity=0.224  Sum_probs=43.7

Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCc
Q 011861          122 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (476)
Q Consensus       122 ~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~  172 (476)
                      ..+..++++++.+|++..+.+.+|..+...|+|++|++.+...++.++++.
T Consensus         6 ~~~~al~~~~a~~P~D~~ar~~lA~~~~~~g~~e~Al~~Ll~~v~~dr~~~   56 (90)
T PF14561_consen    6 PDIAALEAALAANPDDLDARYALADALLAAGDYEEALDQLLELVRRDRDYE   56 (90)
T ss_dssp             HHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHCC-TTCC
T ss_pred             ccHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccc
Confidence            346778899999999999999999999999999999999999999998763

>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A

Probab=94.68  E-value=0.013  Score=44.06  Aligned_cols=46  Identities=24%  Similarity=0.696  Sum_probs=22.4

Q ss_pred             cccccccccccc-C---cEE----ccCCCcccHhhHHHhhhc---C-----C---CCcccccccc
Q 011861          202 DFDCTLCLKLLY-E---PIT----TPCGHSFCRSCLFQSMDR---G-----N---KCPLCRAVLF  247 (476)
Q Consensus       202 ~~~C~iC~~~~~-~---P~~----~~cgh~fC~~Cl~~~~~~---~-----~---~Cp~cr~~~~  247 (476)
                      +..|.||..... +   |..    ..|+..|+..||.+|+..   .     .   .||.|+.++.
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~   66 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS   66 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence            468999998754 2   222    269999999999999862   1     1   3999998874

>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=94.67  E-value=0.14  Score=39.04  Aligned_cols=66  Identities=17%  Similarity=0.239  Sum_probs=54.9

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc---ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (476)
                      ..++...++|-.+|.+.+.++|+....++++..++.+   .++..++.+|...|+|                       .
T Consensus         4 ~~ak~~ie~GlkLY~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gky-----------------------r   60 (80)
T PF10579_consen    4 DQAKQQIEKGLKLYHQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKY-----------------------R   60 (80)
T ss_pred             HHHHHHHHHHHHHhccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHH-----------------------H
Confidence            3467789999999999999999999999999987765   5566678899999999                       8


Q ss_pred             HHHHHHHHHhhc
Q 011861          122 LALKDAEKLLNL  133 (476)
Q Consensus       122 ~a~~~~~~al~l  133 (476)
                      +.++.+..-+++
T Consensus        61 ~~L~fA~~Q~~~   72 (80)
T PF10579_consen   61 EMLAFALQQLEI   72 (80)
T ss_pred             HHHHHHHHHHHH
Confidence            877776665554

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

>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins

Probab=94.66  E-value=0.03  Score=38.91  Aligned_cols=40  Identities=23%  Similarity=0.714  Sum_probs=30.8

Q ss_pred             ccccccc--cccCcEEccCC-----CcccHhhHHHhhhcC--CCCcccc
Q 011861          204 DCTLCLK--LLYEPITTPCG-----HSFCRSCLFQSMDRG--NKCPLCR  243 (476)
Q Consensus       204 ~C~iC~~--~~~~P~~~~cg-----h~fC~~Cl~~~~~~~--~~Cp~cr  243 (476)
                      .|.||++  .-.+|...||.     +.++..|+.+|+..+  ..||+|+
T Consensus         1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            3788886  44567778986     668999999999743  4699984

Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.65  E-value=0.038  Score=35.53  Aligned_cols=27  Identities=26%  Similarity=0.394  Sum_probs=23.0

Q ss_pred             HHHhhHHHHHhccHHHHHHHHHHHhcc
Q 011861           50 LVQKGNRAFRESNFEEAISNYSRANNI   76 (476)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~   76 (476)
                      +...|+.+.+.|+|++|+.+|.+++.+
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~aL~l   28 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQALAL   28 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            567899999999999999999996654

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=94.62  E-value=0.015  Score=40.81  Aligned_cols=45  Identities=29%  Similarity=0.705  Sum_probs=35.7

Q ss_pred             cccccccccccccCcEEccCCCcccHhhHHHhhhcCCCCcccccccc
Q 011861          201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       201 ~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      ....|-+|...-...+.++|||..|..|...  .+-+.||.|..++.
T Consensus         6 ~~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~--~rYngCPfC~~~~~   50 (55)
T PF14447_consen    6 PEQPCVFCGFVGTKGTVLPCGHLICDNCFPG--ERYNGCPFCGTPFE   50 (55)
T ss_pred             cceeEEEccccccccccccccceeeccccCh--hhccCCCCCCCccc
Confidence            4557888888888889999999999999743  23456999998874

>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=94.60  E-value=0.018  Score=56.48  Aligned_cols=42  Identities=29%  Similarity=0.743  Sum_probs=31.9

Q ss_pred             ccccccccccccCcE---Ec-cCCCcccHhhHHHhhhcC---CCCcccc
Q 011861          202 DFDCTLCLKLLYEPI---TT-PCGHSFCRSCLFQSMDRG---NKCPLCR  243 (476)
Q Consensus       202 ~~~C~iC~~~~~~P~---~~-~cgh~fC~~Cl~~~~~~~---~~Cp~cr  243 (476)
                      -..|.||.+...+--   .+ .|||+|+..|+.+|+...   ..||.|+
T Consensus         4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~   52 (465)
T KOG0827|consen    4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQ   52 (465)
T ss_pred             cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence            357999976554432   23 599999999999999843   3699998

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=94.59  E-value=0.12  Score=54.15  Aligned_cols=95  Identities=21%  Similarity=0.146  Sum_probs=66.7

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC----cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD----PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (476)
                      +.-++.+|+.+..+|+.++||..|++++......    ...++.+|.+|..+.+|                       ++
T Consensus       267 ~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w-----------------------~~  323 (468)
T PF10300_consen  267 ALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDW-----------------------EE  323 (468)
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchH-----------------------HH
Confidence            4456677888888888888888888887543322    36677788888888888                       88


Q ss_pred             HHHHHHHHhhccccchHHHH--HHHHHHHhhhhH-------HHHHHHHhccc
Q 011861          123 ALKDAEKLLNLQSNSMKSHL--LKANALILLERY-------DMARDAILSGL  165 (476)
Q Consensus       123 a~~~~~~al~l~p~~~~~~~--~~~~~~~~~~~~-------~~A~~~~~~~l  165 (476)
                      |...+.+.++.+ ++.++.|  ..|-++..+|+.       ++|...|.++-
T Consensus       324 A~~~f~~L~~~s-~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  324 AAEYFLRLLKES-KWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHHHHHHHhcc-ccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHH
Confidence            888888887754 3445433  466667777777       66666665553

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.

>COG4976 Predicted methyltransferase (contains TPR repeat) [General function prediction only]

Probab=94.53  E-value=0.042  Score=50.71  Aligned_cols=62  Identities=16%  Similarity=0.110  Sum_probs=57.6

Q ss_pred             HHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhcc
Q 011861           55 NRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQ  134 (476)
Q Consensus        55 ~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~  134 (476)
                      ...++.+|++.|.+.|.+|+.+.|.+..-|+..|....+.|++                       +.|.+.|++.+++|
T Consensus         3 ~~~~~~~D~~aaaely~qal~lap~w~~gwfR~g~~~ekag~~-----------------------daAa~a~~~~L~ld   59 (287)
T COG4976           3 YMLAESGDAEAAAELYNQALELAPEWAAGWFRLGEYTEKAGEF-----------------------DAAAAAYEEVLELD   59 (287)
T ss_pred             chhcccCChHHHHHHHHHHhhcCchhhhhhhhcchhhhhcccH-----------------------HHHHHHHHHHHcCC
Confidence            4567789999999999999999999999999999999999999                       99999999999999


Q ss_pred             ccchH
Q 011861          135 SNSMK  139 (476)
Q Consensus       135 p~~~~  139 (476)
                      |....
T Consensus        60 p~D~~   64 (287)
T COG4976          60 PEDHG   64 (287)
T ss_pred             ccccc
Confidence            97643

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.52  E-value=0.25  Score=45.85  Aligned_cols=103  Identities=17%  Similarity=0.168  Sum_probs=76.2

Q ss_pred             HHhhHHHHHh-ccHHHHHHHHHHHhccCCCC------cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHH
Q 011861           51 VQKGNRAFRE-SNFEEAISNYSRANNIKPGD------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (476)
Q Consensus        51 ~~~g~~~~~~-~~~~~Ai~~y~~al~~~p~~------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (476)
                      .+-|..|-.. .++++||.+|.+|-+..-.+      ...+...|+.-..+++|                       .+|
T Consensus       117 ~~iaEiyEsdl~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY-----------------------~~A  173 (288)
T KOG1586|consen  117 IEIAEIYESDLQDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQY-----------------------SKA  173 (288)
T ss_pred             hhHHHHHhhhHHHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHH-----------------------HHH
Confidence            3444444444 78999999999998764332      25556667777778888                       899


Q ss_pred             HHHHHHHhhcccc------chHHHHH-HHHHHHhhhhHHHHHHHHhcccccCCCCchhhH
Q 011861          124 LKDAEKLLNLQSN------SMKSHLL-KANALILLERYDMARDAILSGLQVDPFSNPLQA  176 (476)
Q Consensus       124 ~~~~~~al~l~p~------~~~~~~~-~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~  176 (476)
                      ++.|++.....-+      ..+.|+. .|.|++-..+.-.+...+++..+++|...+.++
T Consensus       174 i~iyeqva~~s~~n~LLKys~KdyflkAgLChl~~~D~v~a~~ALeky~~~dP~F~dsRE  233 (288)
T KOG1586|consen  174 IDIYEQVARSSLDNNLLKYSAKDYFLKAGLCHLCKADEVNAQRALEKYQELDPAFTDSRE  233 (288)
T ss_pred             HHHHHHHHHHhccchHHHhHHHHHHHHHHHHhHhcccHHHHHHHHHHHHhcCCcccccHH
Confidence            9998887765433      3557775 456677778998999999999999999888765

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=94.48  E-value=0.063  Score=33.20  Aligned_cols=32  Identities=19%  Similarity=0.346  Sum_probs=29.3

Q ss_pred             HHHHhhHHHHHhccHHHHHHHHHHHhccCCCC
Q 011861           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGD   80 (476)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~   80 (476)
                      +++..|..+++.|++++|+..|++.++..|+.
T Consensus         2 a~~~~a~~~~~~g~~~~A~~~~~~~~~~~P~s   33 (33)
T PF13174_consen    2 ALYRLARCYYKLGDYDEAIEYFQRLIKRYPDS   33 (33)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHCcCC
Confidence            57788999999999999999999999999863

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=94.48  E-value=0.094  Score=45.43  Aligned_cols=62  Identities=19%  Similarity=0.129  Sum_probs=52.2

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHH
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (476)
                      ..+...+..+...|++++|+..+.+++..+|.+-.+|..+-.+|..+|+.                       ..|++.|
T Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~-----------------------~~A~~~Y  119 (146)
T PF03704_consen   63 DALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRR-----------------------AEALRVY  119 (146)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-H-----------------------HHHHHHH
T ss_pred             HHHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCH-----------------------HHHHHHH
Confidence            34555677788899999999999999999999999999999999999999                       9999988


Q ss_pred             HHHhh
Q 011861          128 EKLLN  132 (476)
Q Consensus       128 ~~al~  132 (476)
                      ++..+
T Consensus       120 ~~~~~  124 (146)
T PF03704_consen  120 ERYRR  124 (146)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            87644

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG4367 consensus Predicted Zn-finger protein [Function unknown]

Probab=94.48  E-value=0.022  Score=56.43  Aligned_cols=36  Identities=28%  Similarity=0.850  Sum_probs=31.6

Q ss_pred             CcccccccccccccCcEEccCCCcccHhhHHHhhhc
Q 011861          200 TDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR  235 (476)
Q Consensus       200 ~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~  235 (476)
                      ++++.|++|...+.+|+.++|||+.|+.|....+.+
T Consensus         2 eeelkc~vc~~f~~epiil~c~h~lc~~ca~~~~~~   37 (699)
T KOG4367|consen    2 EEELKCPVCGSFYREPIILPCSHNLCQACARNILVQ   37 (699)
T ss_pred             cccccCceehhhccCceEeecccHHHHHHHHhhccc
Confidence            467899999999999999999999999998765543

>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=94.45  E-value=0.033  Score=52.62  Aligned_cols=41  Identities=32%  Similarity=0.808  Sum_probs=33.8

Q ss_pred             ccccccccccccCcEEccCCCcc-cHhhHHHhhhcCCCCccccccc
Q 011861          202 DFDCTLCLKLLYEPITTPCGHSF-CRSCLFQSMDRGNKCPLCRAVL  246 (476)
Q Consensus       202 ~~~C~iC~~~~~~P~~~~cgh~f-C~~Cl~~~~~~~~~Cp~cr~~~  246 (476)
                      ..-|.||++...+.+.++|||.. |..|=.    .-..||+||+.+
T Consensus       300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGk----rm~eCPICRqyi  341 (350)
T KOG4275|consen  300 RRLCAICMDAPRDCVFLECGHMVTCTKCGK----RMNECPICRQYI  341 (350)
T ss_pred             HHHHHHHhcCCcceEEeecCcEEeehhhcc----ccccCchHHHHH
Confidence            67899999999999999999964 888843    223799999865

>COG4976 Predicted methyltransferase (contains TPR repeat) [General function prediction only]

Probab=94.44  E-value=0.034  Score=51.26  Aligned_cols=54  Identities=19%  Similarity=0.078  Sum_probs=51.4

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchh
Q 011861          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  174 (476)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~  174 (476)
                      +.+.+.|.+|+++-|.|..+|+++|......|+++.|.+.|.+.++++|.+...
T Consensus        12 ~aaaely~qal~lap~w~~gwfR~g~~~ekag~~daAa~a~~~~L~ldp~D~~g   65 (287)
T COG4976          12 EAAAELYNQALELAPEWAAGWFRLGEYTEKAGEFDAAAAAYEEVLELDPEDHGG   65 (287)
T ss_pred             HHHHHHHHHHhhcCchhhhhhhhcchhhhhcccHHHHHHHHHHHHcCCcccccc
Confidence            888999999999999999999999999999999999999999999999987754

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.35  E-value=0.22  Score=48.62  Aligned_cols=107  Identities=15%  Similarity=0.056  Sum_probs=88.1

Q ss_pred             hhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhh
Q 011861           53 KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLN  132 (476)
Q Consensus        53 ~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~  132 (476)
                      ++-..+.+|++-+|-...++.++-.|+|-.++...-.+|+.+|+.                       ......+++.+.
T Consensus       109 ~aai~~~~g~~h~a~~~wdklL~d~PtDlla~kfsh~a~fy~G~~-----------------------~~~k~ai~kIip  165 (491)
T KOG2610|consen  109 KAAILWGRGKHHEAAIEWDKLLDDYPTDLLAVKFSHDAHFYNGNQ-----------------------IGKKNAIEKIIP  165 (491)
T ss_pred             hHHHhhccccccHHHHHHHHHHHhCchhhhhhhhhhhHHHhccch-----------------------hhhhhHHHHhcc
Confidence            445568889999999999999999999999999989999999998                       777777788887


Q ss_pred             c-cccchHHHHH---HHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHH
Q 011861          133 L-QSNSMKSHLL---KANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (476)
Q Consensus       133 l-~p~~~~~~~~---~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~  182 (476)
                      . ||+.+-.-|.   .+.++...|-|++|.....+++++||++..+.-...-+-
T Consensus       166 ~wn~dlp~~sYv~GmyaFgL~E~g~y~dAEk~A~ralqiN~~D~Wa~Ha~aHVl  219 (491)
T KOG2610|consen  166 KWNADLPCYSYVHGMYAFGLEECGIYDDAEKQADRALQINRFDCWASHAKAHVL  219 (491)
T ss_pred             ccCCCCcHHHHHHHHHHhhHHHhccchhHHHHHHhhccCCCcchHHHHHHHHHH
Confidence            6 7777554443   456778999999999999999999999988766555443

>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=94.19  E-value=0.017  Score=53.50  Aligned_cols=60  Identities=30%  Similarity=0.754  Sum_probs=38.6

Q ss_pred             ccccccccc-cCcE-EccCCCcccHhhHHHhhhcCCCCcccccccccCCCCcccchhHHHHHHHhCch
Q 011861          204 DCTLCLKLL-YEPI-TTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPE  269 (476)
Q Consensus       204 ~C~iC~~~~-~~P~-~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~~~~~~~~~n~~l~~~~~~~~~~  269 (476)
                      .|.-|..-- ..|. .+.|+|.||..|....  ....||.|++.+.    ...++..|...+..+|.+
T Consensus         5 hCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~--~~~~C~lCkk~ir----~i~l~~slp~~ik~~F~d   66 (233)
T KOG4739|consen    5 HCNKCFRFPSQDPFFLTACRHVFCEPCLKAS--SPDVCPLCKKSIR----IIQLNRSLPTDIKSYFAD   66 (233)
T ss_pred             EeccccccCCCCceeeeechhhhhhhhcccC--Cccccccccceee----eeecccccchhHHHHccC
Confidence            466666433 4554 4599999999997532  2237999999863    345555555666665544

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=94.14  E-value=0.13  Score=54.00  Aligned_cols=88  Identities=16%  Similarity=0.072  Sum_probs=78.4

Q ss_pred             HhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccch
Q 011861           59 RESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSM  138 (476)
Q Consensus        59 ~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~  138 (476)
                      ...+.+.|.....+..+..|+....++..|..+...|+.                       ++|++.+++++.....+.
T Consensus       245 ~~~~~~~a~~lL~~~~~~yP~s~lfl~~~gR~~~~~g~~-----------------------~~Ai~~~~~a~~~q~~~~  301 (468)
T PF10300_consen  245 EDVPLEEAEELLEEMLKRYPNSALFLFFEGRLERLKGNL-----------------------EEAIESFERAIESQSEWK  301 (468)
T ss_pred             cCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCH-----------------------HHHHHHHHHhccchhhHH
Confidence            456778899999999999999999999999999999999                       999999999997655543


Q ss_pred             ----HHHHHHHHHHHhhhhHHHHHHHHhcccccCC
Q 011861          139 ----KSHLLKANALILLERYDMARDAILSGLQVDP  169 (476)
Q Consensus       139 ----~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p  169 (476)
                          -.+|.+|++++.+.+|++|...|.+..+.+.
T Consensus       302 Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~  336 (468)
T PF10300_consen  302 QLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESK  336 (468)
T ss_pred             hHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccc
Confidence                3888999999999999999999999988553

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.

>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=93.98  E-value=0.03  Score=55.32  Aligned_cols=45  Identities=27%  Similarity=0.733  Sum_probs=36.6

Q ss_pred             ccccccccccccCc-----EEccCCCcccHhhHHHhhhcC--CCCccccccc
Q 011861          202 DFDCTLCLKLLYEP-----ITTPCGHSFCRSCLFQSMDRG--NKCPLCRAVL  246 (476)
Q Consensus       202 ~~~C~iC~~~~~~P-----~~~~cgh~fC~~Cl~~~~~~~--~~Cp~cr~~~  246 (476)
                      -.+|++|++.+.-|     +.+.|||-|-..|+++|+.+.  +.||.|...-
T Consensus         4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka   55 (463)
T KOG1645|consen    4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA   55 (463)
T ss_pred             cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence            35899999988776     457999999999999999743  3499998653

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.96  E-value=0.37  Score=45.61  Aligned_cols=61  Identities=21%  Similarity=0.076  Sum_probs=46.7

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      +.|.-.|+..-+.-|-.+.....++.+.+.+|+|++|...++.+|..++.+++...++--+
T Consensus       190 qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~Nliv~  250 (299)
T KOG3081|consen  190 QDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLANLIVL  250 (299)
T ss_pred             hhHHHHHHHHhcccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHHHHH
Confidence            5555666665554455667778888889999999999999999999999998876554333

>KOG1308 consensus Hsp70-interacting protein Hip/Transient component of progesterone receptor complexes and an Hsp70-binding protein [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=93.87  E-value=0.048  Score=53.22  Aligned_cols=68  Identities=16%  Similarity=0.095  Sum_probs=62.8

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      .+.-+..+|..+++.++...||..|+.|++++|+...-|-.|+.++..+|+|                       .+|..
T Consensus       147 ~a~l~~kr~sv~lkl~kp~~airD~d~A~ein~Dsa~~ykfrg~A~rllg~~-----------------------e~aa~  203 (377)
T KOG1308|consen  147 LAILYAKRASVFLKLKKPNAAIRDCDFAIEINPDSAKGYKFRGYAERLLGNW-----------------------EEAAH  203 (377)
T ss_pred             hhhhcccccceeeeccCCchhhhhhhhhhccCcccccccchhhHHHHHhhch-----------------------HHHHH
Confidence            3566778899999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhcccc
Q 011861          126 DAEKLLNLQSN  136 (476)
Q Consensus       126 ~~~~al~l~p~  136 (476)
                      ++..|++++-+
T Consensus       204 dl~~a~kld~d  214 (377)
T KOG1308|consen  204 DLALACKLDYD  214 (377)
T ss_pred             HHHHHHhcccc
Confidence            99999998743

>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]

Probab=93.78  E-value=0.049  Score=52.39  Aligned_cols=50  Identities=26%  Similarity=0.487  Sum_probs=42.1

Q ss_pred             CCCCcccccccccccccCcEEc-cCCCcccHhhHHHhhhcCCCCccccccc
Q 011861          197 PERTDDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (476)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~P~~~-~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~  246 (476)
                      ....+.-.|++|+....+|..+ -.|.-||..|+.....+...||++..+.
T Consensus       295 ~l~~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~  345 (357)
T KOG0826|consen  295 LLPPDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA  345 (357)
T ss_pred             cCCCccccChhHHhccCCCceEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence            3345667899999999999765 6799999999999999888999987654

>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]

Probab=93.68  E-value=0.035  Score=43.99  Aligned_cols=28  Identities=29%  Similarity=0.603  Sum_probs=25.7

Q ss_pred             cCCCcccHhhHHHhhhcCCCCccccccc
Q 011861          219 PCGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (476)
Q Consensus       219 ~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~  246 (476)
                      .|.|.|+..||.+|+.....||+|.+.-
T Consensus        80 ~CNHaFH~hCisrWlktr~vCPLdn~eW  107 (114)
T KOG2930|consen   80 VCNHAFHFHCISRWLKTRNVCPLDNKEW  107 (114)
T ss_pred             ecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence            6999999999999999999999998753

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=93.62  E-value=0.062  Score=49.94  Aligned_cols=61  Identities=13%  Similarity=0.103  Sum_probs=55.0

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      ..|+..|.+||.++|..+..|-+++.+++.+.+++.+..+-.++++++|+.....-++...
T Consensus        27 ~~ai~~y~raI~~nP~~~~Y~tnralchlk~~~~~~v~~dcrralql~~N~vk~h~flg~~   87 (284)
T KOG4642|consen   27 DDAIDCYSRAICINPTVASYYTNRALCHLKLKHWEPVEEDCRRALQLDPNLVKAHYFLGQW   87 (284)
T ss_pred             chHHHHHHHHHhcCCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHhcChHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999877665554443

>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function

Probab=93.62  E-value=0.26  Score=45.96  Aligned_cols=101  Identities=20%  Similarity=0.048  Sum_probs=68.3

Q ss_pred             HHHHhccHHHHHHHHHHHhccCC----CC---cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHH
Q 011861           56 RAFRESNFEEAISNYSRANNIKP----GD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (476)
Q Consensus        56 ~~~~~~~~~~Ai~~y~~al~~~p----~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (476)
                      .+-....+++|+..|.-|+-..-    ..   +.++..+|-.|..+++.       +.+-.++         ..|+..|.
T Consensus        86 ~~~~~Rt~~~ai~~YkLAll~~~~~~~~~s~~A~l~LrlAWlyR~~~~~-------~~E~~fl---------~~Al~~y~  149 (214)
T PF09986_consen   86 DFSGERTLEEAIESYKLALLCAQIKKEKPSKKAGLCLRLAWLYRDLGDE-------ENEKRFL---------RKALEFYE  149 (214)
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhccCCH-------HHHHHHH---------HHHHHHHH
Confidence            44556789999999999976522    11   23334444444444432       1122222         88888899


Q ss_pred             HHhhcccc------chHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCc
Q 011861          129 KLLNLQSN------SMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (476)
Q Consensus       129 ~al~l~p~------~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~  172 (476)
                      +|++....      .....|.+|.....+|++++|+..|.+.+.....+.
T Consensus       150 ~a~~~e~~~~~~~~~~~l~YLigeL~rrlg~~~eA~~~fs~vi~~~~~s~  199 (214)
T PF09986_consen  150 EAYENEDFPIEGMDEATLLYLIGELNRRLGNYDEAKRWFSRVIGSKKASK  199 (214)
T ss_pred             HHHHhCcCCCCCchHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCCCCCC
Confidence            98876532      356888999999999999999999999987644443

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

Probab=93.61  E-value=0.16  Score=56.21  Aligned_cols=105  Identities=8%  Similarity=-0.059  Sum_probs=82.0

Q ss_pred             HHHHhhHHHHHhccHHHHHHHHHHHhccCCC--CcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPG--DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      .+..--..+.+.|++++|...|++..+..+-  +...|..+..+|.+.|++                       ++|.+.
T Consensus       428 T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~-----------------------~eA~~~  484 (697)
T PLN03081        428 TFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLL-----------------------DEAYAM  484 (697)
T ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCH-----------------------HHHHHH
Confidence            3666667788899999999999999764322  346788899999999999                       999888


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHH
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASL  178 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~  178 (476)
                      +++. ...|+ ...|..+..++...|+++.|...+++.++++|++......+
T Consensus       485 ~~~~-~~~p~-~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~~y~~L  534 (697)
T PLN03081        485 IRRA-PFKPT-VNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVL  534 (697)
T ss_pred             HHHC-CCCCC-HHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCcchHHH
Confidence            7654 33443 45677888888999999999999999999999876654433

>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=93.60  E-value=0.52  Score=42.53  Aligned_cols=97  Identities=19%  Similarity=0.159  Sum_probs=72.9

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC---cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (476)
                      ...+...|+-|.+.||+++|++.|.++.....+.   ...+.+.-.+.+..++|                       ...
T Consensus        36 r~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~-----------------------~~v   92 (177)
T PF10602_consen   36 RMALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDW-----------------------SHV   92 (177)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCH-----------------------HHH
Confidence            3567789999999999999999999998886543   26677777788888888                       777


Q ss_pred             HHHHHHHhhcccc----chH--HHHHHHHHHHhhhhHHHHHHHHhcccc
Q 011861          124 LKDAEKLLNLQSN----SMK--SHLLKANALILLERYDMARDAILSGLQ  166 (476)
Q Consensus       124 ~~~~~~al~l~p~----~~~--~~~~~~~~~~~~~~~~~A~~~~~~~l~  166 (476)
                      .....+|-.+-..    ..+  ..-..|..++..|+|.+|...|..+..
T Consensus        93 ~~~i~ka~~~~~~~~d~~~~nrlk~~~gL~~l~~r~f~~AA~~fl~~~~  141 (177)
T PF10602_consen   93 EKYIEKAESLIEKGGDWERRNRLKVYEGLANLAQRDFKEAAELFLDSLS  141 (177)
T ss_pred             HHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHhchHHHHHHHHHccCc
Confidence            6666666655322    122  233566777889999999999988764

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.

>KOG3824 consensus Huntingtin interacting protein HYPE [General function prediction only]

Probab=93.50  E-value=0.19  Score=48.42  Aligned_cols=62  Identities=13%  Similarity=0.049  Sum_probs=56.3

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHH
Q 011861          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (476)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~  182 (476)
                      ++|...++.|+.++|++++++...|+..-.-++.-+|-..|.++|.++|.|..+..+..+.-
T Consensus       133 ekA~~lfeHAlalaP~~p~~L~e~G~f~E~~~~iv~ADq~Y~~ALtisP~nseALvnR~RT~  194 (472)
T KOG3824|consen  133 EKAMTLFEHALALAPTNPQILIEMGQFREMHNEIVEADQCYVKALTISPGNSEALVNRARTT  194 (472)
T ss_pred             HHHHHHHHHHHhcCCCCHHHHHHHhHHHHhhhhhHhhhhhhheeeeeCCCchHHHhhhhccc
Confidence            99999999999999999999999999998889999999999999999999998776554433

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=93.37  E-value=0.5  Score=46.02  Aligned_cols=97  Identities=19%  Similarity=-0.009  Sum_probs=75.9

Q ss_pred             hhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHH-HhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHh
Q 011861           53 KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRI-SQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLL  131 (476)
Q Consensus        53 ~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al  131 (476)
                      ..+..-+.+..+.|...|.+|.+..+....+|...|..-+.. ++.                       ..|.+.|+.++
T Consensus         7 ~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~~~~d~-----------------------~~A~~Ife~gl   63 (280)
T PF05843_consen    7 YMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEYYCNKDP-----------------------KRARKIFERGL   63 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHHTCS-H-----------------------HHHHHHHHHHH
T ss_pred             HHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCCH-----------------------HHHHHHHHHHH
Confidence            344444556689999999999977777788888888886664 445                       56999999999


Q ss_pred             hccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCc
Q 011861          132 NLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (476)
Q Consensus       132 ~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~  172 (476)
                      +.-|.+...+..-..-+...++.+.|+..|++++..-|.+.
T Consensus        64 k~f~~~~~~~~~Y~~~l~~~~d~~~aR~lfer~i~~l~~~~  104 (280)
T PF05843_consen   64 KKFPSDPDFWLEYLDFLIKLNDINNARALFERAISSLPKEK  104 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHCCTSSCHH
T ss_pred             HHCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHhcCchh
Confidence            99999999888888888899999999999999998766555

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.

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.27  E-value=0.56  Score=44.40  Aligned_cols=92  Identities=10%  Similarity=0.091  Sum_probs=57.1

Q ss_pred             hhhhhHHHHHHhhHHHHHhccH-HHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchH
Q 011861           42 DRYTHVFDLVQKGNRAFRESNF-EEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA  120 (476)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~-~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (476)
                      ++.......+++--.-++.+.- +..+....+=+.      ..-+.++.++.-+|.|                       
T Consensus       143 dRl~~L~~~V~~ii~~~e~~~~~ESsv~lW~KRl~------~Vmy~~~~~llG~kEy-----------------------  193 (366)
T KOG2796|consen  143 DRLHKLKTVVSKILANLEQGLAEESSIRLWRKRLG------RVMYSMANCLLGMKEY-----------------------  193 (366)
T ss_pred             HHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHH------HHHHHHHHHHhcchhh-----------------------
Confidence            3344455556666666777776 567777776544      2344556677777777                       


Q ss_pred             HHHHHHHHHHhhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHh
Q 011861          121 ELALKDAEKLLNLQ-SNSMKSHLLKANALILLERYDMARDAIL  162 (476)
Q Consensus       121 ~~a~~~~~~al~l~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~  162 (476)
                      .-++..+.++++.+ |..+.....+|.+-++.|+.+.|..+|+
T Consensus       194 ~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~  236 (366)
T KOG2796|consen  194 VLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQ  236 (366)
T ss_pred             hhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHH
Confidence            66666666666665 6666666666666666666666655555

>COG2912 Uncharacterized conserved protein [Function unknown]

Probab=93.16  E-value=0.3  Score=46.54  Aligned_cols=72  Identities=21%  Similarity=0.373  Sum_probs=64.1

Q ss_pred             hHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhc
Q 011861           54 GNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNL  133 (476)
Q Consensus        54 g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l  133 (476)
                      =..+.+.++++.|...-++.+.++|+++.-+..||.+|.++|-+                       .-|+.++...++.
T Consensus       188 k~~~~~e~~~~~al~~~~r~l~l~P~dp~eirDrGliY~ql~c~-----------------------~vAl~dl~~~~~~  244 (269)
T COG2912         188 KAALLRELQWELALRVAERLLDLNPEDPYEIRDRGLIYAQLGCY-----------------------HVALEDLSYFVEH  244 (269)
T ss_pred             HHHHHHhhchHHHHHHHHHHHhhCCCChhhccCcHHHHHhcCCc-----------------------hhhHHHHHHHHHh
Confidence            34567889999999999999999999999999999999999999                       9999999999999


Q ss_pred             cccchHHHHHHHHHH
Q 011861          134 QSNSMKSHLLKANAL  148 (476)
Q Consensus       134 ~p~~~~~~~~~~~~~  148 (476)
                      .|+.+.+-.-++...
T Consensus       245 ~P~~~~a~~ir~~l~  259 (269)
T COG2912         245 CPDDPIAEMIRAQLL  259 (269)
T ss_pred             CCCchHHHHHHHHHH
Confidence            999887766555443

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=93.03  E-value=0.57  Score=42.12  Aligned_cols=95  Identities=12%  Similarity=0.106  Sum_probs=81.1

Q ss_pred             HHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhh-c
Q 011861           55 NRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLN-L  133 (476)
Q Consensus        55 ~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~-l  133 (476)
                      ...-++=|.++++...++.+...|+. .-.+.+|.+...+|++                       .+|...|.+++. +
T Consensus        64 ~a~~q~ldP~R~~Rea~~~~~~ApTv-qnr~rLa~al~elGr~-----------------------~EA~~hy~qalsG~  119 (251)
T COG4700          64 MALQQKLDPERHLREATEELAIAPTV-QNRYRLANALAELGRY-----------------------HEAVPHYQQALSGI  119 (251)
T ss_pred             HHHHHhcChhHHHHHHHHHHhhchhH-HHHHHHHHHHHHhhhh-----------------------hhhHHHHHHHhccc
Confidence            33445568888899999999999976 5567889999999999                       999999999886 5


Q ss_pred             cccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCch
Q 011861          134 QSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (476)
Q Consensus       134 ~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~  173 (476)
                      --+++..++.++++.+..+++.+|...++...+.+|....
T Consensus       120 fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~  159 (251)
T COG4700         120 FAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRS  159 (251)
T ss_pred             cCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCC
Confidence            5778888999999999999999999999999998885443

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=93.02  E-value=0.46  Score=40.32  Aligned_cols=66  Identities=17%  Similarity=0.185  Sum_probs=55.0

Q ss_pred             hccHHHHHHHHHHHhc-cCCCC-cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccc
Q 011861           60 ESNFEEAISNYSRANN-IKPGD-PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNS  137 (476)
Q Consensus        60 ~~~~~~Ai~~y~~al~-~~p~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~  137 (476)
                      ..|-++.|.++...++ -+|.. -+..+.+|..|+++++|                       ++++.+.+..++.+|+|
T Consensus        48 ~~dv~~GI~iLe~l~~~~~~~~rRe~lyYLAvg~yRlkeY-----------------------~~s~~yvd~ll~~e~~n  104 (149)
T KOG3364|consen   48 TEDVQEGIVILEDLLKSAHPERRRECLYYLAVGHYRLKEY-----------------------SKSLRYVDALLETEPNN  104 (149)
T ss_pred             hHHHHHhHHHHHHHhhhcCcccchhhhhhhHHHHHHHhhH-----------------------HHHHHHHHHHHhhCCCc
Confidence            3577889999999997 45543 48889999999999999                       99999999999999999


Q ss_pred             hHHHHHHHHHH
Q 011861          138 MKSHLLKANAL  148 (476)
Q Consensus       138 ~~~~~~~~~~~  148 (476)
                      .++.-.+-.+.
T Consensus       105 ~Qa~~Lk~~ie  115 (149)
T KOG3364|consen  105 RQALELKETIE  115 (149)
T ss_pred             HHHHHHHHHHH
Confidence            88765554443

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.89  E-value=0.41  Score=46.80  Aligned_cols=98  Identities=13%  Similarity=0.068  Sum_probs=82.6

Q ss_pred             hhhHHHHHHhhHHHHHhccHHHHHHHHHHHhcc-CCCC---cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcch
Q 011861           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNI-KPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH  119 (476)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~-~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (476)
                      ++...+++-.-..+|..|+.......+.+.+-. +|+-   +-++-..|.++...|-|                      
T Consensus       134 PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y----------------------  191 (491)
T KOG2610|consen  134 PTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIY----------------------  191 (491)
T ss_pred             chhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccc----------------------
Confidence            344555566677789999999999999998877 6655   45556678888899999                      


Q ss_pred             HHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcc
Q 011861          120 AELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSG  164 (476)
Q Consensus       120 ~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  164 (476)
                       ++|.+.+++|+++|+.+..+...++-++-..|++.++.+...+-
T Consensus       192 -~dAEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~t  235 (491)
T KOG2610|consen  192 -DDAEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYKT  235 (491)
T ss_pred             -hhHHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHhc
Confidence             99999999999999999999999999999999999999876654

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

Probab=92.66  E-value=0.89  Score=46.49  Aligned_cols=105  Identities=15%  Similarity=0.114  Sum_probs=61.5

Q ss_pred             HHhccHHHHHHHHHHHhccCCCC----cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhc
Q 011861           58 FRESNFEEAISNYSRANNIKPGD----PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNL  133 (476)
Q Consensus        58 ~~~~~~~~Ai~~y~~al~~~p~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l  133 (476)
                      +...|.+.+...|+.+|++-|..    +.+|...|+--.+..+.                       ..|-+.+-.|+..
T Consensus       377 le~ed~ertr~vyq~~l~lIPHkkFtFaKiWlmyA~feIRq~~l-----------------------~~ARkiLG~AIG~  433 (677)
T KOG1915|consen  377 LEAEDVERTRQVYQACLDLIPHKKFTFAKIWLMYAQFEIRQLNL-----------------------TGARKILGNAIGK  433 (677)
T ss_pred             HHhhhHHHHHHHHHHHHhhcCcccchHHHHHHHHHHHHHHHccc-----------------------HHHHHHHHHHhcc
Confidence            44456666666666666666643    35555555555555555                       6666666666666


Q ss_pred             cccchHHHHHHHHHH--HhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhhh
Q 011861          134 QSNSMKSHLLKANAL--ILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  188 (476)
Q Consensus       134 ~p~~~~~~~~~~~~~--~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~~  188 (476)
                      .|..   -..+|.+-  ..+++++.+...|++.++-.|.|-.++.....++..|+..
T Consensus       434 cPK~---KlFk~YIelElqL~efDRcRkLYEkfle~~Pe~c~~W~kyaElE~~Lgdt  487 (677)
T KOG1915|consen  434 CPKD---KLFKGYIELELQLREFDRCRKLYEKFLEFSPENCYAWSKYAELETSLGDT  487 (677)
T ss_pred             CCch---hHHHHHHHHHHHHhhHHHHHHHHHHHHhcChHhhHHHHHHHHHHHHhhhH
Confidence            6643   22333332  3566666666666666666666666666666666666554

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.66  E-value=0.87  Score=42.70  Aligned_cols=112  Identities=15%  Similarity=-0.013  Sum_probs=77.1

Q ss_pred             hhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc------ccccchhHHHHHHHhhhccCCCCCcccCCCCCCC
Q 011861           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP------IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLD  115 (476)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (476)
                      +....+..+...+..+-...+|++|-.++.+|.+..-++.      ..|..-|+..-.+..+                  
T Consensus        26 d~dgaas~yekAAvafRnAk~feKakdcLlkA~~~yEnnrslfhAAKayEqaamLake~~kl------------------   87 (308)
T KOG1585|consen   26 DWDGAASLYEKAAVAFRNAKKFEKAKDCLLKASKGYENNRSLFHAAKAYEQAAMLAKELSKL------------------   87 (308)
T ss_pred             CchhhHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHHHh------------------
Confidence            3333344444555555566999999999999996654442      4455555666667777                  


Q ss_pred             CcchHHHHHHHHHHHhhcc-----ccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhH
Q 011861          116 PTTHAELALKDAEKLLNLQ-----SNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQA  176 (476)
Q Consensus       116 ~~~~~~~a~~~~~~al~l~-----p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~  176 (476)
                           .++...+++|..+-     |+-...-..+|--.....+.++|++.|++++.+-..+...+.
T Consensus        88 -----sEvvdl~eKAs~lY~E~GspdtAAmaleKAak~lenv~Pd~AlqlYqralavve~~dr~~m  148 (308)
T KOG1585|consen   88 -----SEVVDLYEKASELYVECGSPDTAAMALEKAAKALENVKPDDALQLYQRALAVVEEDDRDQM  148 (308)
T ss_pred             -----HHHHHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHhccchHHH
Confidence                 99999999998873     444444555666667788999999999999887554444433

>PLN03077 Protein ECB2; Provisional

Probab=92.65  E-value=0.36  Score=54.76  Aligned_cols=102  Identities=12%  Similarity=-0.007  Sum_probs=74.9

Q ss_pred             hHHHHHhccHHHHHHHHHHHhccCCC--CcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHh
Q 011861           54 GNRAFRESNFEEAISNYSRANNIKPG--DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLL  131 (476)
Q Consensus        54 g~~~~~~~~~~~Ai~~y~~al~~~p~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al  131 (476)
                      -..+.+.|++++|...|.+..+..+-  +...|..+..+|.+.|++                       ++|.+.+++. 
T Consensus       596 l~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~-----------------------~eA~~~~~~m-  651 (857)
T PLN03077        596 LCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKL-----------------------TEAYNFINKM-  651 (857)
T ss_pred             HHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCH-----------------------HHHHHHHHHC-
Confidence            34577889999999999988743222  346788899999999999                       8888877664 


Q ss_pred             hccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHH
Q 011861          132 NLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (476)
Q Consensus       132 ~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~  180 (476)
                      .+.|+ ...|..+-.++..-|+.+.|....++.++++|++......+.+
T Consensus       652 ~~~pd-~~~~~aLl~ac~~~~~~e~~e~~a~~l~~l~p~~~~~y~ll~n  699 (857)
T PLN03077        652 PITPD-PAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCN  699 (857)
T ss_pred             CCCCC-HHHHHHHHHHHHHcCChHHHHHHHHHHHhhCCCCcchHHHHHH
Confidence            45564 4455555556777788888888888888889988776655443

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.64  E-value=0.094  Score=48.39  Aligned_cols=48  Identities=17%  Similarity=0.345  Sum_probs=41.8

Q ss_pred             CcccccccccccccCcE----EccCCCcccHhhHHHhhhcCCCCcccccccc
Q 011861          200 TDDFDCTLCLKLLYEPI----TTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       200 ~~~~~C~iC~~~~~~P~----~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      ..-+.|++|...+.+.+    ..+|||.+|..|.++.......||+|..++.
T Consensus       219 s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plk  270 (303)
T KOG3039|consen  219 SKRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLK  270 (303)
T ss_pred             ccceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCc
Confidence            35789999999998874    3599999999999999998899999998873

>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B

Probab=92.39  E-value=0.35  Score=38.36  Aligned_cols=50  Identities=18%  Similarity=0.145  Sum_probs=43.6

Q ss_pred             HHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccch
Q 011861           66 AISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSM  138 (476)
Q Consensus        66 Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~  138 (476)
                      .+..+.+++..+|+|..+.+.+|..+...|++                       ..|++.+-.+++.++++.
T Consensus         7 ~~~al~~~~a~~P~D~~ar~~lA~~~~~~g~~-----------------------e~Al~~Ll~~v~~dr~~~   56 (90)
T PF14561_consen    7 DIAALEAALAANPDDLDARYALADALLAAGDY-----------------------EEALDQLLELVRRDRDYE   56 (90)
T ss_dssp             HHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-H-----------------------HHHHHHHHHHHCC-TTCC
T ss_pred             cHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCH-----------------------HHHHHHHHHHHHhCcccc
Confidence            46778899999999999999999999999999                       999999999999998873

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=92.35  E-value=0.6  Score=47.97  Aligned_cols=92  Identities=20%  Similarity=0.146  Sum_probs=76.4

Q ss_pred             HHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHH
Q 011861           64 EEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLL  143 (476)
Q Consensus        64 ~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~  143 (476)
                      .+-...|..|+...+.|..+|.+...-.-+.+.+                       .+--..|.+++...|+++..|..
T Consensus        88 ~rIv~lyr~at~rf~~D~~lW~~yi~f~kk~~~~-----------------------~~v~ki~~~~l~~Hp~~~dLWI~  144 (568)
T KOG2396|consen   88 NRIVFLYRRATNRFNGDVKLWLSYIAFCKKKKTY-----------------------GEVKKIFAAMLAKHPNNPDLWIY  144 (568)
T ss_pred             HHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhcch-----------------------hHHHHHHHHHHHhCCCCchhHHh
Confidence            4456779999999999999998876555455557                       77888899999999999999988


Q ss_pred             HHHHHHhhhh-HHHHHHHHhcccccCCCCchhhHHH
Q 011861          144 KANALILLER-YDMARDAILSGLQVDPFSNPLQASL  178 (476)
Q Consensus       144 ~~~~~~~~~~-~~~A~~~~~~~l~l~p~~~~~~~~~  178 (476)
                      -|.=.+..+. .+.|++.|.++|..+|+++.++...
T Consensus       145 aA~wefe~n~ni~saRalflrgLR~npdsp~Lw~ey  180 (568)
T KOG2396|consen  145 AAKWEFEINLNIESARALFLRGLRFNPDSPKLWKEY  180 (568)
T ss_pred             hhhhHHhhccchHHHHHHHHHHhhcCCCChHHHHHH
Confidence            8877776665 8999999999999999999987643

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=92.30  E-value=0.75  Score=50.33  Aligned_cols=102  Identities=17%  Similarity=0.110  Sum_probs=82.5

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      ..+...+|-.+++.|++++|..+....-...++|-..+..+..||..++++                       ++|...
T Consensus        43 ~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~-----------------------d~~~~~   99 (932)
T KOG2053|consen   43 LYAKVLKALSLFRLGKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKL-----------------------DEAVHL   99 (932)
T ss_pred             HHHHHHHHHHHHHhcCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhh-----------------------hHHHHH
Confidence            345567888899999999999888888788888989999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCc
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~  172 (476)
                      |++++..+|+ .+-.+.+=.+|.+-+.|.+-.+.--+..+.-|.++
T Consensus       100 Ye~~~~~~P~-eell~~lFmayvR~~~yk~qQkaa~~LyK~~pk~~  144 (932)
T KOG2053|consen  100 YERANQKYPS-EELLYHLFMAYVREKSYKKQQKAALQLYKNFPKRA  144 (932)
T ss_pred             HHHHHhhCCc-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccc
Confidence            9999999999 77777777788888887654444444444445444

>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=92.27  E-value=0.1  Score=51.17  Aligned_cols=46  Identities=33%  Similarity=0.748  Sum_probs=34.9

Q ss_pred             CCCcccccccccccccCcEEccCCCcccHhhHHHhhhcCCCCccccccc
Q 011861          198 ERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (476)
Q Consensus       198 ~~~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~  246 (476)
                      .......|.+|+...++.+.+||||.-|  |..-.. .-..||+||+.+
T Consensus       301 ~~~~p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs~-~l~~CPvCR~rI  346 (355)
T KOG1571|consen  301 ELPQPDLCVVCLDEPKSAVFVPCGHVCC--CTLCSK-HLPQCPVCRQRI  346 (355)
T ss_pred             ccCCCCceEEecCCccceeeecCCcEEE--chHHHh-hCCCCchhHHHH
Confidence            3455678999999999999999999865  664332 233499999876

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=92.25  E-value=0.33  Score=47.87  Aligned_cols=54  Identities=15%  Similarity=0.122  Sum_probs=36.0

Q ss_pred             HHHHHHHHHHhhccccc-----hHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchh
Q 011861          121 ELALKDAEKLLNLQSNS-----MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  174 (476)
Q Consensus       121 ~~a~~~~~~al~l~p~~-----~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~  174 (476)
                      .+++.+..-.+++-...     ..++.-+|.++..++.|+.+++.|+.++.+..++.+.
T Consensus       100 ~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~  158 (518)
T KOG1941|consen  100 HKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDA  158 (518)
T ss_pred             hhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCc
Confidence            45555444444443222     2466678888999999999999999998876555443

>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]

Probab=91.91  E-value=0.11  Score=49.36  Aligned_cols=43  Identities=33%  Similarity=0.848  Sum_probs=32.8

Q ss_pred             ccccccc-cccCcE----EccCCCcccHhhHHHhhhcCC-CCccccccc
Q 011861          204 DCTLCLK-LLYEPI----TTPCGHSFCRSCLFQSMDRGN-KCPLCRAVL  246 (476)
Q Consensus       204 ~C~iC~~-~~~~P~----~~~cgh~fC~~Cl~~~~~~~~-~Cp~cr~~~  246 (476)
                      .|+.|.- .+.+|-    ..+|||+.|.+|....+..+. .||.|...+
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iL   50 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVIL   50 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchh
Confidence            4777774 455662    239999999999999887554 599998876

>PRK04841 transcriptional regulator MalT; Provisional

Probab=91.90  E-value=0.41  Score=54.53  Aligned_cols=96  Identities=14%  Similarity=-0.006  Sum_probs=77.8

Q ss_pred             HHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc-----ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHH
Q 011861           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDP-----IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (476)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (476)
                      .....|..++..|++++|...+.+++...+...     .++..+|.++...|++                       ++|
T Consensus       454 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~-----------------------~~A  510 (903)
T PRK04841        454 FNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGEL-----------------------ARA  510 (903)
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCH-----------------------HHH
Confidence            344567888999999999999999998655432     3567788899999999                       999


Q ss_pred             HHHHHHHhhcccc------chHHHHHHHHHHHhhhhHHHHHHHHhccccc
Q 011861          124 LKDAEKLLNLQSN------SMKSHLLKANALILLERYDMARDAILSGLQV  167 (476)
Q Consensus       124 ~~~~~~al~l~p~------~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l  167 (476)
                      ...+.+++.....      ...++..+|.++...|++++|...+.+++.+
T Consensus       511 ~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~  560 (903)
T PRK04841        511 LAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQL  560 (903)
T ss_pred             HHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            9999999876432      1346678899999999999999999998875

>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=91.81  E-value=0.13  Score=50.53  Aligned_cols=65  Identities=23%  Similarity=0.537  Sum_probs=45.5

Q ss_pred             cccccccccccc------CcEEccCCCcccHhhHHHhhhcCC-CCcccccccccCC---CCcccchhHHHHHHHh
Q 011861          202 DFDCTLCLKLLY------EPITTPCGHSFCRSCLFQSMDRGN-KCPLCRAVLFITP---RTCAVSVTLNSIIQKN  266 (476)
Q Consensus       202 ~~~C~iC~~~~~------~P~~~~cgh~fC~~Cl~~~~~~~~-~Cp~cr~~~~~~~---~~~~~n~~l~~~~~~~  266 (476)
                      ...|.+|-+.+.      .|..+.|||++|..|+.....+.. .||.||.......   +.+..|..+...++..
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~~~~~~~~~~l~kNf~ll~~~~~~   77 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETTEIPDGDVKSLQKNFALLQAIEHM   77 (296)
T ss_pred             CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcccCCchhHhhhhhhHHHHHHHHHH
Confidence            346777776654      566778999999999998887654 4999999842111   4455666666666553

>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0

Probab=91.77  E-value=0.19  Score=42.01  Aligned_cols=47  Identities=23%  Similarity=0.583  Sum_probs=39.1

Q ss_pred             cccccccccccccCcEEc----cCCCcccHhhHHHhhh---cCCCCcccccccc
Q 011861          201 DDFDCTLCLKLLYEPITT----PCGHSFCRSCLFQSMD---RGNKCPLCRAVLF  247 (476)
Q Consensus       201 ~~~~C~iC~~~~~~P~~~----~cgh~fC~~Cl~~~~~---~~~~Cp~cr~~~~  247 (476)
                      ...+|.||.+...+..-+    =||.+.|..|-.+.|.   ..+.||.|+..+.
T Consensus        79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFK  132 (140)
T PF05290_consen   79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFK  132 (140)
T ss_pred             CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccc
Confidence            578999999999888655    3999999999998776   3467999998874

>COG2912 Uncharacterized conserved protein [Function unknown]

Probab=91.69  E-value=0.31  Score=46.45  Aligned_cols=78  Identities=24%  Similarity=0.186  Sum_probs=65.8

Q ss_pred             ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHH
Q 011861           82 IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAI  161 (476)
Q Consensus        82 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~  161 (476)
                      ....+.=.+|.+-+++                       +.|+....+.+.++|+++.-+..+|.+|.++|.+..|+.++
T Consensus       182 rll~~lk~~~~~e~~~-----------------------~~al~~~~r~l~l~P~dp~eirDrGliY~ql~c~~vAl~dl  238 (269)
T COG2912         182 RLLRNLKAALLRELQW-----------------------ELALRVAERLLDLNPEDPYEIRDRGLIYAQLGCYHVALEDL  238 (269)
T ss_pred             HHHHHHHHHHHHhhch-----------------------HHHHHHHHHHHhhCCCChhhccCcHHHHHhcCCchhhHHHH
Confidence            3444455667777788                       99999999999999999999999999999999999999999


Q ss_pred             hcccccCCCCchhhHHHHHHH
Q 011861          162 LSGLQVDPFSNPLQASLQNLE  182 (476)
Q Consensus       162 ~~~l~l~p~~~~~~~~~~~~~  182 (476)
                      ...++.-|+++.+......+.
T Consensus       239 ~~~~~~~P~~~~a~~ir~~l~  259 (269)
T COG2912         239 SYFVEHCPDDPIAEMIRAQLL  259 (269)
T ss_pred             HHHHHhCCCchHHHHHHHHHH
Confidence            999999999887655544443

>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]

Probab=91.57  E-value=0.086  Score=57.25  Aligned_cols=43  Identities=44%  Similarity=0.982  Sum_probs=37.2

Q ss_pred             cccccccccccCcEEccCCCcccHhhHHHhhhcC--CCCccccccc
Q 011861          203 FDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRG--NKCPLCRAVL  246 (476)
Q Consensus       203 ~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~~--~~Cp~cr~~~  246 (476)
                      +.|.+|.+ ...++...|||.||..|+...+...  ..||.||..+
T Consensus       455 ~~c~ic~~-~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l  499 (674)
T KOG1001|consen  455 HWCHICCD-LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVL  499 (674)
T ss_pred             cccccccc-cccceeecccchHHHHHHHhccccccCCCCcHHHHHH
Confidence            79999999 8888899999999999999887733  3599999765

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=91.52  E-value=2.4  Score=42.74  Aligned_cols=113  Identities=16%  Similarity=0.108  Sum_probs=76.9

Q ss_pred             HHHhhHHHHH---hccHHHHHHHHHH-HhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           50 LVQKGNRAFR---ESNFEEAISNYSR-ANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        50 ~~~~g~~~~~---~~~~~~Ai~~y~~-al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      -...|..+-+   .|+.++|+..+.. .....+.+++.+...|.+|-.+-.-  ..            ...+...++|+.
T Consensus       182 ~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GRIyKD~~~~--s~------------~~d~~~ldkAi~  247 (374)
T PF13281_consen  182 KFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGRIYKDLFLE--SN------------FTDRESLDKAIE  247 (374)
T ss_pred             HHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHHHH--cC------------ccchHHHHHHHH
Confidence            3455666666   8999999999999 4556778899999999998665322  11            112222488999


Q ss_pred             HHHHHhhccccchH---------------------------------------------HHHHHHHHHHhhhhHHHHHHH
Q 011861          126 DAEKLLNLQSNSMK---------------------------------------------SHLLKANALILLERYDMARDA  160 (476)
Q Consensus       126 ~~~~al~l~p~~~~---------------------------------------------~~~~~~~~~~~~~~~~~A~~~  160 (476)
                      -|.++.+++|+...                                             .+-.++.+....|+++.|.++
T Consensus       248 ~Y~kgFe~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a  327 (374)
T PF13281_consen  248 WYRKGFEIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKMQDYWDVATLLEASVLAGDYEKAIQA  327 (374)
T ss_pred             HHHHHHcCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHcCCHHHHHHH
Confidence            99999988875321                                             222334455568899999999


Q ss_pred             HhcccccCCCCchhhH
Q 011861          161 ILSGLQVDPFSNPLQA  176 (476)
Q Consensus       161 ~~~~l~l~p~~~~~~~  176 (476)
                      +++++.++|..=....
T Consensus       328 ~e~~~~l~~~~W~l~S  343 (374)
T PF13281_consen  328 AEKAFKLKPPAWELES  343 (374)
T ss_pred             HHHHhhcCCcchhHHH
Confidence            9998888754333333

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=91.35  E-value=1.1  Score=46.35  Aligned_cols=93  Identities=19%  Similarity=0.050  Sum_probs=65.3

Q ss_pred             HHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHH-----HHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHH
Q 011861           55 NRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAY-----IRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  129 (476)
Q Consensus        55 ~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  129 (476)
                      +...+..+.++-|+.-.+|++++|+-+.+|..+|.=.     ....-+                       .+|++..+.
T Consensus       176 q~AWRERnp~aRIkaA~eALei~pdCAdAYILLAEEeA~Ti~Eae~l~-----------------------rqAvkAgE~  232 (539)
T PF04184_consen  176 QKAWRERNPQARIKAAKEALEINPDCADAYILLAEEEASTIVEAEELL-----------------------RQAVKAGEA  232 (539)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHhhhhhhHHHhhcccccccCHHHHHHHH-----------------------HHHHHHHHH
Confidence            3456789999999999999999999888877766521     111112                       444444444


Q ss_pred             Hhhccc---c---------------chHHHHHHHHHHHhhhhHHHHHHHHhcccccCCC
Q 011861          130 LLNLQS---N---------------SMKSHLLKANALILLERYDMARDAILSGLQVDPF  170 (476)
Q Consensus       130 al~l~p---~---------------~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~  170 (476)
                      ++..+.   .               ..-+..++|++...+|+.++|++.++..++.+|.
T Consensus       233 ~lg~s~~~~~~g~~~e~~~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~  291 (539)
T PF04184_consen  233 SLGKSQFLQHHGHFWEAWHRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPN  291 (539)
T ss_pred             hhchhhhhhcccchhhhhhccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCc
Confidence            443321   0               1225567899999999999999999999988875

The molecular function of this protein is uncertain.

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=91.31  E-value=2.3  Score=43.41  Aligned_cols=110  Identities=18%  Similarity=0.145  Sum_probs=69.5

Q ss_pred             hhhhHHHHHHhhHHHHHhcc-HHHHHHHHHHHhccCCCCccc---------------ccchhHHH-HHHHhhhccCCCCC
Q 011861           43 RYTHVFDLVQKGNRAFRESN-FEEAISNYSRANNIKPGDPIV---------------LGNRSSAY-IRISQFLKHRPPSA  105 (476)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~-~~~Ai~~y~~al~~~p~~~~~---------------~~~~a~~~-~~~~~~~~~~~~~~  105 (476)
                      ..+-+.-++.-|..+.+.|. -++|+.....+++..|.|.+.               +...+... ++++++++..    
T Consensus       375 rqQLvh~L~~~Ak~lW~~g~~dekalnLLk~il~ft~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~----  450 (549)
T PF07079_consen  375 RQQLVHYLVFGAKHLWEIGQCDEKALNLLKLILQFTNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEV----  450 (549)
T ss_pred             HHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhc----
Confidence            33444556667778888877 888999999999999888521               11111111 1233332111    


Q ss_pred             cccCCCCCCCCcchH--------------------HHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcc
Q 011861          106 SEYRPLNGLDPTTHA--------------------ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSG  164 (476)
Q Consensus       106 ~~~~~~~~~~~~~~~--------------------~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  164 (476)
                             |+.+.+.-                    .++.-...=..+++| ++.+|..+|.+++..++|++|-..+...
T Consensus       451 -------gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~~iaP-S~~~~RLlGl~l~e~k~Y~eA~~~l~~L  521 (549)
T PF07079_consen  451 -------GLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLTKIAP-SPQAYRLLGLCLMENKRYQEAWEYLQKL  521 (549)
T ss_pred             -------CCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCC-cHHHHHHHHHHHHHHhhHHHHHHHHHhC
Confidence                   11111110                    334344444556789 9999999999999999999999988754

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF04641 Rtf2: Rtf2 RING-finger

Probab=91.30  E-value=0.17  Score=48.68  Aligned_cols=48  Identities=25%  Similarity=0.534  Sum_probs=38.1

Q ss_pred             CCcccccccccccccCc--E--EccCCCcccHhhHHHhhhcCCCCcccccccc
Q 011861          199 RTDDFDCTLCLKLLYEP--I--TTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       199 ~~~~~~C~iC~~~~~~P--~--~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      ....|.||++...|..-  .  ..+|||.|+..|+.+.. ....||.|..++.
T Consensus       110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~  161 (260)
T PF04641_consen  110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFT  161 (260)
T ss_pred             CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccc
Confidence            45688999999888432  2  24999999999998874 4557999999885

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

Probab=91.28  E-value=0.69  Score=51.20  Aligned_cols=94  Identities=13%  Similarity=0.039  Sum_probs=60.2

Q ss_pred             HHHHhhHHHHHhccHHHHHHHHHHHhcc--CCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           49 DLVQKGNRAFRESNFEEAISNYSRANNI--KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      .|......|.+.|++++|+..|.+..+.  .| |...|..+..++.+.|++                       ++|.+.
T Consensus       292 t~n~li~~y~~~g~~~eA~~lf~~M~~~g~~p-d~~t~~~ll~a~~~~g~~-----------------------~~a~~i  347 (697)
T PLN03081        292 AWNSMLAGYALHGYSEEALCLYYEMRDSGVSI-DQFTFSIMIRIFSRLALL-----------------------EHAKQA  347 (697)
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhccch-----------------------HHHHHH
Confidence            3444555666677777777777776543  33 345666666677777777                       677666


Q ss_pred             HHHHhhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHhcccc
Q 011861          127 AEKLLNLQ-SNSMKSHLLKANALILLERYDMARDAILSGLQ  166 (476)
Q Consensus       127 ~~~al~l~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~  166 (476)
                      +...++.. +.+...+..+...|...|++++|...|.+..+
T Consensus       348 ~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~  388 (697)
T PLN03081        348 HAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR  388 (697)
T ss_pred             HHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC
Confidence            66666654 34455666677777777777777777776654

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.27  E-value=1.5  Score=41.75  Aligned_cols=93  Identities=11%  Similarity=0.113  Sum_probs=77.6

Q ss_pred             hccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchH
Q 011861           60 ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMK  139 (476)
Q Consensus        60 ~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~  139 (476)
                      .+.++.|.-.|.+.-+..|..+.++...|.|++.+|+|                       .+|....+.|+.-+++.+.
T Consensus       186 gek~qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~~-----------------------eeAe~lL~eaL~kd~~dpe  242 (299)
T KOG3081|consen  186 GEKIQDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGRY-----------------------EEAESLLEEALDKDAKDPE  242 (299)
T ss_pred             chhhhhHHHHHHHHhcccCCChHHHccHHHHHHHhcCH-----------------------HHHHHHHHHHHhccCCCHH
Confidence            35688888889988887777889999999999999999                       9999999999999999999


Q ss_pred             HHHHHHHHHHhhhhHHHHHHHH-hcccccCCCCchhh
Q 011861          140 SHLLKANALILLERYDMARDAI-LSGLQVDPFSNPLQ  175 (476)
Q Consensus       140 ~~~~~~~~~~~~~~~~~A~~~~-~~~l~l~p~~~~~~  175 (476)
                      .+.++--+-...|+-.++...+ .+....+|+.+-+.
T Consensus       243 tL~Nliv~a~~~Gkd~~~~~r~l~QLk~~~p~h~~vk  279 (299)
T KOG3081|consen  243 TLANLIVLALHLGKDAEVTERNLSQLKLSHPEHPFVK  279 (299)
T ss_pred             HHHHHHHHHHHhCCChHHHHHHHHHHHhcCCcchHHH
Confidence            9999988888888887776654 44445566665543

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=91.07  E-value=1.3  Score=44.01  Aligned_cols=114  Identities=15%  Similarity=0.063  Sum_probs=79.9

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCC---------------------------CcccccchhHHHHHHHhhhc
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPG---------------------------DPIVLGNRSSAYIRISQFLK   99 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~---------------------------~~~~~~~~a~~~~~~~~~~~   99 (476)
                      ..-..+.++....+|+..+|+......++....                           +..-...+|.++..+|+|..
T Consensus       184 ~~v~~e~akllw~~g~~~~Ai~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~~a~w~~  263 (352)
T PF02259_consen  184 PRVFLEYAKLLWAQGEQEEAIQKLRELLKCRLSKNIDSISNAELKSGLLESLEVISSTNLDKESKELKAKAFLLLAKWLD  263 (352)
T ss_pred             cchHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhccccccHHHHhhccccccccccccchhhhhHHHHHHHHHHHHHHHH
Confidence            344667788888899999999999888882111                           12233567899999999954


Q ss_pred             cCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhH-----------------HHHHHHHh
Q 011861          100 HRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERY-----------------DMARDAIL  162 (476)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~-----------------~~A~~~~~  162 (476)
                      ... .         .......+.++..|..|++++|++.++|+..|..+...-+.                 ..|+..|-
T Consensus       264 ~~~-~---------~~~~~~~~~~~~~~~~a~~~~~~~~k~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~ai~~y~  333 (352)
T PF02259_consen  264 ELY-S---------KLSSESSDEILKYYKEATKLDPSWEKAWHSWALFNDKLLESDPREKEESSQEDRSEYLEQAIEGYL  333 (352)
T ss_pred             hhc-c---------ccccccHHHHHHHHHHHHHhChhHHHHHHHHHHHHHHHHHhhhhcccccchhHHHHHHHHHHHHHH
Confidence            331 0         01223338899999999999999999999999887643222                 23666777


Q ss_pred             cccccCCC
Q 011861          163 SGLQVDPF  170 (476)
Q Consensus       163 ~~l~l~p~  170 (476)
                      +++.+.+.
T Consensus       334 ~al~~~~~  341 (352)
T PF02259_consen  334 KALSLGSK  341 (352)
T ss_pred             HHHhhCCC
Confidence            77766655

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PLN03218 maturation of RBCL 1; Provisional

Probab=90.63  E-value=1  Score=51.91  Aligned_cols=41  Identities=12%  Similarity=0.178  Sum_probs=18.8

Q ss_pred             HHHhccHHHHHHHHHHHhccC-CCCcccccchhHHHHHHHhh
Q 011861           57 AFRESNFEEAISNYSRANNIK-PGDPIVLGNRSSAYIRISQF   97 (476)
Q Consensus        57 ~~~~~~~~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~   97 (476)
                      |.+.|++++|+..|.++.+.. +.+...|..+..+|.+.|++
T Consensus       589 y~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~  630 (1060)
T PLN03218        589 CANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDW  630 (1060)
T ss_pred             HHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCH
Confidence            444455555555555544443 22334444444444444444

>PRK04841 transcriptional regulator MalT; Provisional

Probab=90.52  E-value=0.63  Score=53.05  Aligned_cols=99  Identities=16%  Similarity=0.126  Sum_probs=77.9

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC------cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHH
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGD------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (476)
                      ..+...|..+...|++++|...|.+++......      ..++.++|.+++..|++                       +
T Consensus       492 ~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~-----------------------~  548 (903)
T PRK04841        492 VATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFL-----------------------Q  548 (903)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCH-----------------------H
Confidence            344556777889999999999999999764422      24567789999999999                       9


Q ss_pred             HHHHHHHHHhhcccc--------chHHHHHHHHHHHhhhhHHHHHHHHhcccccCC
Q 011861          122 LALKDAEKLLNLQSN--------SMKSHLLKANALILLERYDMARDAILSGLQVDP  169 (476)
Q Consensus       122 ~a~~~~~~al~l~p~--------~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p  169 (476)
                      .|...+++++++...        ....+..+|.++...|++++|...+.+++.+..
T Consensus       549 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~  604 (903)
T PRK04841        549 AAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLS  604 (903)
T ss_pred             HHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhh
Confidence            999999998886322        123456788999999999999999999987643

>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1

Probab=90.42  E-value=0.35  Score=39.43  Aligned_cols=32  Identities=34%  Similarity=0.703  Sum_probs=25.7

Q ss_pred             CCcccccccccccccCcE--EccCCCcccHhhHH
Q 011861          199 RTDDFDCTLCLKLLYEPI--TTPCGHSFCRSCLF  230 (476)
Q Consensus       199 ~~~~~~C~iC~~~~~~P~--~~~cgh~fC~~Cl~  230 (476)
                      ..+...|++|...+.+.+  .+||||.|+..|+.
T Consensus        75 i~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   75 ITESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             ECCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence            445667999999888664  46999999999974

Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].

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

Probab=90.37  E-value=2  Score=44.11  Aligned_cols=101  Identities=10%  Similarity=0.023  Sum_probs=87.6

Q ss_pred             HHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHH
Q 011861           50 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  129 (476)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  129 (476)
                      +..-|+--..+++++.|.+.|.+||..+..+..+|...|.+-++....                       ..|-...++
T Consensus        76 WikYaqwEesq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~v-----------------------NhARNv~dR  132 (677)
T KOG1915|consen   76 WIKYAQWEESQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQV-----------------------NHARNVWDR  132 (677)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhH-----------------------hHHHHHHHH
Confidence            334455566789999999999999999999999999999999999888                       889899999


Q ss_pred             HhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCch
Q 011861          130 LLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (476)
Q Consensus       130 al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~  173 (476)
                      |+.+-|.-.+.||-.-..--.+|+...|.+.|++=++..|+...
T Consensus       133 Avt~lPRVdqlWyKY~ymEE~LgNi~gaRqiferW~~w~P~eqa  176 (677)
T KOG1915|consen  133 AVTILPRVDQLWYKYIYMEEMLGNIAGARQIFERWMEWEPDEQA  176 (677)
T ss_pred             HHHhcchHHHHHHHHHHHHHHhcccHHHHHHHHHHHcCCCcHHH
Confidence            99999998888777666566899999999999999999887554

>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=90.26  E-value=0.2  Score=48.52  Aligned_cols=47  Identities=28%  Similarity=0.764  Sum_probs=38.2

Q ss_pred             CCcccccccccccccCcEEccCCCcccHhhHHHhh--hcCCCCcccccc
Q 011861          199 RTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSM--DRGNKCPLCRAV  245 (476)
Q Consensus       199 ~~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~--~~~~~Cp~cr~~  245 (476)
                      .++...|.||-+.+.--..+||+|..|.-|-.+.-  -+.+.||.||..
T Consensus        58 DEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE  106 (493)
T COG5236          58 DEENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYMQKGCPLCRTE  106 (493)
T ss_pred             ccccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHhccCCCccccc
Confidence            34566899999988777789999999999986543  377889999975

>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]

Probab=90.19  E-value=0.2  Score=47.60  Aligned_cols=33  Identities=27%  Similarity=0.604  Sum_probs=25.2

Q ss_pred             ccccccccccccc-Cc--EEccCCCcccHhhHHHhh
Q 011861          201 DDFDCTLCLKLLY-EP--ITTPCGHSFCRSCLFQSM  233 (476)
Q Consensus       201 ~~~~C~iC~~~~~-~P--~~~~cgh~fC~~Cl~~~~  233 (476)
                      ...+|.||+.-|. .|  ..++|-|.|+..|+-+.+
T Consensus       114 p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl  149 (368)
T KOG4445|consen  114 PNGQCVICLYGFASSPAFTVTACDHYMHFACLARYL  149 (368)
T ss_pred             CCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHH
Confidence            5678999998664 44  346999999999997543

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=90.07  E-value=0.94  Score=44.10  Aligned_cols=108  Identities=12%  Similarity=0.016  Sum_probs=79.9

Q ss_pred             HHHhhHHHHH-hccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHH
Q 011861           50 LVQKGNRAFR-ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (476)
Q Consensus        50 ~~~~g~~~~~-~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (476)
                      +...|...+. .+|.+.|...|..+++..|.+..+|......+..+++.                       ..|-..++
T Consensus        38 y~~~A~~E~~~~~d~~~A~~Ife~glk~f~~~~~~~~~Y~~~l~~~~d~-----------------------~~aR~lfe   94 (280)
T PF05843_consen   38 YVAYALMEYYCNKDPKRARKIFERGLKKFPSDPDFWLEYLDFLIKLNDI-----------------------NNARALFE   94 (280)
T ss_dssp             HHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H-----------------------HHHHHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhCcH-----------------------HHHHHHHH
Confidence            4455666566 57777799999999999999999999999999999999                       99999999


Q ss_pred             HHhhccccch-H--HHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHH
Q 011861          129 KLLNLQSNSM-K--SHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (476)
Q Consensus       129 ~al~l~p~~~-~--~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~  180 (476)
                      +++..-|... .  .|-....-=...|+.+.......++.+.-|.+..+.....+
T Consensus        95 r~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~~~~~~~f~~r  149 (280)
T PF05843_consen   95 RAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPEDNSLELFSDR  149 (280)
T ss_dssp             HHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTTS-HHHHHHCC
T ss_pred             HHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhhhHHHHHHHH
Confidence            9999877665 2  22233333357889999999999999988886655544433

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.

>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=90.05  E-value=0.14  Score=53.55  Aligned_cols=39  Identities=28%  Similarity=0.735  Sum_probs=29.8

Q ss_pred             cccccccccccc----CcEEccCCCcccHhhHHHhhhcCCCCc
Q 011861          202 DFDCTLCLKLLY----EPITTPCGHSFCRSCLFQSMDRGNKCP  240 (476)
Q Consensus       202 ~~~C~iC~~~~~----~P~~~~cgh~fC~~Cl~~~~~~~~~Cp  240 (476)
                      .+.|+||...+.    .|+.+.|||+.|+.|+.........||
T Consensus        11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn~scp~~   53 (861)
T KOG3161|consen   11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYNASCPTK   53 (861)
T ss_pred             HhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhhccCCCC
Confidence            457899976653    789999999999999987766543333

>COG5191 Uncharacterized conserved protein, contains HAT (Half-A-TPR) repeat [General function prediction only]

Probab=90.03  E-value=0.44  Score=46.06  Aligned_cols=92  Identities=15%  Similarity=0.131  Sum_probs=77.5

Q ss_pred             HHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHH-H
Q 011861           66 AISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLL-K  144 (476)
Q Consensus        66 Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~-~  144 (476)
                      -+-.|.++...-|+|+.+|...+....+.+-|                       .+--..|..++...|.+...|.. -
T Consensus        92 ~~f~~~R~tnkff~D~k~w~~y~~Y~~k~k~y-----------------------~~~~nI~~~~l~khP~nvdlWI~~c  148 (435)
T COG5191          92 KIFELYRSTNKFFNDPKIWSQYAAYVIKKKMY-----------------------GEMKNIFAECLTKHPLNVDLWIYCC  148 (435)
T ss_pred             eeEeeehhhhcCCCCcHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHhcCCCCceeeeeec
Confidence            34456777778899999999988777788888                       88888999999999999998776 5


Q ss_pred             HHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHH
Q 011861          145 ANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (476)
Q Consensus       145 ~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~  180 (476)
                      +.-+...++++.|+..|.+++.+||.++.++-..-+
T Consensus       149 ~~e~~~~ani~s~Ra~f~~glR~N~~~p~iw~eyfr  184 (435)
T COG5191         149 AFELFEIANIESSRAMFLKGLRMNSRSPRIWIEYFR  184 (435)
T ss_pred             cchhhhhccHHHHHHHHHhhhccCCCCchHHHHHHH
Confidence            566788999999999999999999999998754433

>KOG2471 consensus TPR repeat-containing protein [General function prediction only]

Probab=89.99  E-value=0.43  Score=48.84  Aligned_cols=79  Identities=16%  Similarity=0.119  Sum_probs=68.5

Q ss_pred             HHHHhhHHHHHhccHHHHHHHHHHHhc-c--------CC---------CCcccccchhHHHHHHHhhhccCCCCCcccCC
Q 011861           49 DLVQKGNRAFRESNFEEAISNYSRANN-I--------KP---------GDPIVLGNRSSAYIRISQFLKHRPPSASEYRP  110 (476)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~-~--------~p---------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  110 (476)
                      .+-..|-.+|+.|.|+-++.+|.+|++ .        .|         ...++++|.|..|+..|+.             
T Consensus       285 f~NNlGcIh~~~~~y~~~~~~F~kAL~N~c~qL~~g~~~~~~~tls~nks~eilYNcG~~~Lh~grP-------------  351 (696)
T KOG2471|consen  285 FNNNLGCIHYQLGCYQASSVLFLKALRNSCSQLRNGLKPAKTFTLSQNKSMEILYNCGLLYLHSGRP-------------  351 (696)
T ss_pred             eecCcceEeeehhhHHHHHHHHHHHHHHHHHHHhccCCCCcceehhcccchhhHHhhhHHHHhcCCc-------------
Confidence            345678888999999999999999996 1        22         1248999999999999999             


Q ss_pred             CCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHh
Q 011861          111 LNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALIL  150 (476)
Q Consensus       111 ~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~  150 (476)
                                -.|.+.+.+|+..--.++..|+++|.|++.
T Consensus       352 ----------l~AfqCf~~av~vfh~nPrlWLRlAEcCim  381 (696)
T KOG2471|consen  352 ----------LLAFQCFQKAVHVFHRNPRLWLRLAECCIM  381 (696)
T ss_pred             ----------HHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence                      999999999999999999999999999863

>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=89.97  E-value=0.21  Score=33.78  Aligned_cols=43  Identities=28%  Similarity=0.751  Sum_probs=25.5

Q ss_pred             cccccccccccCcEEccCC-CcccHhhHHHhhhcCCCCcccccccc
Q 011861          203 FDCTLCLKLLYEPITTPCG-HSFCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       203 ~~C~iC~~~~~~P~~~~cg-h~fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      +.|.-|+-..+.  .+.|. |..|..|+...+..+..||.|..+++
T Consensus         3 ~nCKsCWf~~k~--Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LP   46 (50)
T PF03854_consen    3 YNCKSCWFANKG--LIKCSDHYLCLNCLTLMLSRSDRCPICGKPLP   46 (50)
T ss_dssp             ----SS-S--SS--EEE-SS-EEEHHHHHHT-SSSSEETTTTEE--
T ss_pred             ccChhhhhcCCC--eeeecchhHHHHHHHHHhccccCCCcccCcCc
Confidence            356777744443  56777 56699999998888999999998873

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.

>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B

Probab=89.81  E-value=0.21  Score=34.28  Aligned_cols=41  Identities=37%  Similarity=0.860  Sum_probs=20.0

Q ss_pred             cccccccccCc--EEc--cCCCcccHhhHHHhhh-cCCCCcccccc
Q 011861          205 CTLCLKLLYEP--ITT--PCGHSFCRSCLFQSMD-RGNKCPLCRAV  245 (476)
Q Consensus       205 C~iC~~~~~~P--~~~--~cgh~fC~~Cl~~~~~-~~~~Cp~cr~~  245 (476)
                      |++|.+.+..-  -..  +||+..|+.|...... .+..||-||++
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~   46 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREP   46 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCC
Confidence            67777776322  112  7899999999988876 45679999975

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=89.71  E-value=2.4  Score=43.81  Aligned_cols=62  Identities=15%  Similarity=0.082  Sum_probs=53.4

Q ss_pred             ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhcccc--chHHHHHHHHHHHhhhhHHHHHH
Q 011861           82 IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSN--SMKSHLLKANALILLERYDMARD  159 (476)
Q Consensus        82 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~--~~~~~~~~~~~~~~~~~~~~A~~  159 (476)
                      -+...+|+|..++|+.                       ++|++.++..++.+|.  +...++++-.+++.++.|.++..
T Consensus       260 y~KrRLAmCarklGr~-----------------------~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~  316 (539)
T PF04184_consen  260 YAKRRLAMCARKLGRL-----------------------REAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQA  316 (539)
T ss_pred             hhHHHHHHHHHHhCCh-----------------------HHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHH
Confidence            3445688999999999                       9999999999988775  45689999999999999999999


Q ss_pred             HHhcccc
Q 011861          160 AILSGLQ  166 (476)
Q Consensus       160 ~~~~~l~  166 (476)
                      .+.+.-+
T Consensus       317 lL~kYdD  323 (539)
T PF04184_consen  317 LLAKYDD  323 (539)
T ss_pred             HHHHhcc
Confidence            9988643

The molecular function of this protein is uncertain.

>PLN03218 maturation of RBCL 1; Provisional

Probab=89.60  E-value=1.3  Score=51.21  Aligned_cols=90  Identities=12%  Similarity=0.070  Sum_probs=59.2

Q ss_pred             hHHHHHhccHHHHHHHHHHHhc----cCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHH
Q 011861           54 GNRAFRESNFEEAISNYSRANN----IKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  129 (476)
Q Consensus        54 g~~~~~~~~~~~Ai~~y~~al~----~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  129 (476)
                      ...+.+.|++++|...|.+...    +.|+ ...|..+..+|.+.|++                       ++|.+.++.
T Consensus       549 I~a~~k~G~~deA~~lf~eM~~~~~gi~PD-~vTynaLI~ay~k~G~l-----------------------deA~elf~~  604 (1060)
T PLN03218        549 ISACGQSGAVDRAFDVLAEMKAETHPIDPD-HITVGALMKACANAGQV-----------------------DRAKEVYQM  604 (1060)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhcCCCCCc-HHHHHHHHHHHHHCCCH-----------------------HHHHHHHHH
Confidence            4445566777777777776654    2343 35666666677777777                       777777777


Q ss_pred             Hhhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHhccccc
Q 011861          130 LLNLQ-SNSMKSHLLKANALILLERYDMARDAILSGLQV  167 (476)
Q Consensus       130 al~l~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l  167 (476)
                      ..+.+ +.+...|..+..+|...|++++|+..|....+.
T Consensus       605 M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~  643 (1060)
T PLN03218        605 IHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKK  643 (1060)
T ss_pred             HHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Confidence            77665 335566667777777777777777777766543

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.40  E-value=2.7  Score=39.29  Aligned_cols=94  Identities=20%  Similarity=0.118  Sum_probs=62.7

Q ss_pred             HHHhccHHHHHHHHHHHhccCCCC------cccccchhHHHHHH-HhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHH
Q 011861           57 AFRESNFEEAISNYSRANNIKPGD------PIVLGNRSSAYIRI-SQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  129 (476)
Q Consensus        57 ~~~~~~~~~Ai~~y~~al~~~p~~------~~~~~~~a~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  129 (476)
                      .|++++.++|+.++.+||++...-      +..+..+|..|..- .++                       .+|+..|++
T Consensus        83 cykk~~~~eAv~cL~~aieIyt~~Grf~~aAk~~~~iaEiyEsdl~d~-----------------------ekaI~~YE~  139 (288)
T KOG1586|consen   83 CYKKVDPEEAVNCLEKAIEIYTDMGRFTMAAKHHIEIAEIYESDLQDF-----------------------EKAIAHYEQ  139 (288)
T ss_pred             HhhccChHHHHHHHHHHHHHHHhhhHHHHHHhhhhhHHHHHhhhHHHH-----------------------HHHHHHHHH
Confidence            466677788888888887775432      24444566666543 566                       888999988


Q ss_pred             Hhhcccc------chHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCch
Q 011861          130 LLNLQSN------SMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (476)
Q Consensus       130 al~l~p~------~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~  173 (476)
                      |-+.-..      --+.+.-.|.--..+++|..|++.|++.....-+|+-
T Consensus       140 Aae~yk~ees~ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~~s~~n~L  189 (288)
T KOG1586|consen  140 AAEYYKGEESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQVARSSLDNNL  189 (288)
T ss_pred             HHHHHcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchH
Confidence            8775422      2345555566667899999999999987654434443

>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=88.91  E-value=2.7  Score=36.97  Aligned_cols=106  Identities=17%  Similarity=0.021  Sum_probs=85.3

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      +..+.+-.......++.+.+...+.-.--+.|+.+.+-..-|..++..|+|                       .+|+..
T Consensus        10 v~gLie~~~~al~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w-----------------------~dA~rl   66 (160)
T PF09613_consen   10 VGGLIEVLSVALRLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDW-----------------------DDALRL   66 (160)
T ss_pred             HHHHHHHHHHHHccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCH-----------------------HHHHHH
Confidence            456777778888889999999999998889999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHH
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQAS  177 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~  177 (476)
                      ++.+.+-.|.++-+--.++.|+..+|+.+= ..+...+++..+ ++.....
T Consensus        67 Lr~l~~~~~~~p~~kALlA~CL~~~~D~~W-r~~A~evle~~~-d~~a~~L  115 (160)
T PF09613_consen   67 LRELEERAPGFPYAKALLALCLYALGDPSW-RRYADEVLESGA-DPDARAL  115 (160)
T ss_pred             HHHHhccCCCChHHHHHHHHHHHHcCChHH-HHHHHHHHhcCC-ChHHHHH
Confidence            999999999999888899999998888752 222333444433 4444433

>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function

Probab=88.85  E-value=0.4  Score=41.55  Aligned_cols=33  Identities=24%  Similarity=0.585  Sum_probs=25.1

Q ss_pred             cccccccccccccCcEEcc------------CCCcc-cHhhHHHhh
Q 011861          201 DDFDCTLCLKLLYEPITTP------------CGHSF-CRSCLFQSM  233 (476)
Q Consensus       201 ~~~~C~iC~~~~~~P~~~~------------cgh~f-C~~Cl~~~~  233 (476)
                      ++..|+||++...+.|.+-            |+.+| ...||.++.
T Consensus         1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfk   46 (162)
T PF07800_consen    1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFK   46 (162)
T ss_pred             CCccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHH
Confidence            3678999999999998763            56555 677887653

The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.63  E-value=5.7  Score=37.45  Aligned_cols=103  Identities=17%  Similarity=0.172  Sum_probs=74.5

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC------cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA  120 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (476)
                      +...+++|-.....-+.+.|+..|++++.+--++      .+.+...+.++.++.+|                       
T Consensus       110 AAmaleKAak~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf-----------------------  166 (308)
T KOG1585|consen  110 AAMALEKAAKALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKF-----------------------  166 (308)
T ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHh-----------------------
Confidence            4556777888888999999999999998874332      37788889999999999                       


Q ss_pred             HHHHHHHH----HHhhccc--cchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCc
Q 011861          121 ELALKDAE----KLLNLQS--NSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (476)
Q Consensus       121 ~~a~~~~~----~al~l~p--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~  172 (476)
                      .+|...+.    -+++.+.  ...+++...-.+++...+|..|...++...++.....
T Consensus       167 ~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~  224 (308)
T KOG1585|consen  167 TEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLK  224 (308)
T ss_pred             hHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccC
Confidence            66644443    3444443  3344555555556677799999999999888765444

>PF10516 SHNi-TPR: SHNi-TPR; InterPro: IPR019544 The tetratrico peptide repeat region (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=88.44  E-value=0.34  Score=31.58  Aligned_cols=29  Identities=14%  Similarity=0.114  Sum_probs=26.6

Q ss_pred             HHHHHHHHHHHhhhhHHHHHHHHhccccc
Q 011861          139 KSHLLKANALILLERYDMARDAILSGLQV  167 (476)
Q Consensus       139 ~~~~~~~~~~~~~~~~~~A~~~~~~~l~l  167 (476)
                      ..|..+|.+-+..++|+.|+.+|++++++
T Consensus         2 dv~~~Lgeisle~e~f~qA~~D~~~aL~i   30 (38)
T PF10516_consen    2 DVYDLLGEISLENENFEQAIEDYEKALEI   30 (38)
T ss_pred             cHHHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            46889999999999999999999999875

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. This entry represents SHNi-TPR (Sim3-Hif1-NASP interrupted TPR), a sequence that is an interrupted form of TPR repeat [].

>PF14863 Alkyl_sulf_dimr: Alkyl sulfatase dimerisation; PDB: 2YHE_C 2CG2_A 2CG3_A 2CFU_A 2CFZ_A

Probab=88.16  E-value=0.77  Score=39.67  Aligned_cols=51  Identities=8%  Similarity=0.079  Sum_probs=44.5

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhh
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF   97 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~   97 (476)
                      +.+...+++..+..|+|+-|....+.++..+|++..+...+|.+|.++|.-
T Consensus        70 ~d~vl~~A~~~~~~gd~~wA~~L~d~l~~adp~n~~ar~l~A~al~~lg~~  120 (141)
T PF14863_consen   70 ADKVLERAQAALAAGDYQWAAELLDHLVFADPDNEEARQLKADALEQLGYQ  120 (141)
T ss_dssp             HHHHHHHHHHHHHCT-HHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHh
Confidence            467788999999999999999999999999999999999999999998875

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=88.13  E-value=0.44  Score=46.06  Aligned_cols=45  Identities=29%  Similarity=0.797  Sum_probs=30.6

Q ss_pred             cccccccccccccCc--E--EccCCCcccHhhHHHhhhcC-CCCccccccc
Q 011861          201 DDFDCTLCLKLLYEP--I--TTPCGHSFCRSCLFQSMDRG-NKCPLCRAVL  246 (476)
Q Consensus       201 ~~~~C~iC~~~~~~P--~--~~~cgh~fC~~Cl~~~~~~~-~~Cp~cr~~~  246 (476)
                      ++. |++|++.+.-.  -  .-+||...|+.|...-..+- -.||.||...
T Consensus        14 ed~-cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y   63 (480)
T COG5175          14 EDY-CPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKY   63 (480)
T ss_pred             ccc-CcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhc
Confidence            344 99999987532  2  23788888999975443332 3599999754

>KOG0292 consensus Vesicle coat complex COPI, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.00  E-value=4.7  Score=44.35  Aligned_cols=181  Identities=19%  Similarity=0.247  Sum_probs=101.5

Q ss_pred             hhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC---cccccchhHHHHHHH-hhhccCCCCCcccCCCCCCC----
Q 011861           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRIS-QFLKHRPPSASEYRPLNGLD----  115 (476)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~---~~~~~~~a~~~~~~~-~~~~~~~~~~~~~~~~~~~~----  115 (476)
                      .....+-.++|-.+...|+|.+|+.+|..+|-.-|--   ...=...+.-....+ .|             +.|+.    
T Consensus       988 l~~l~~kl~~gy~ltt~gKf~eAie~Frsii~~i~l~vvd~~~e~aea~~li~i~~eY-------------i~gL~~E~~ 1054 (1202)
T KOG0292|consen  988 LSQLNKKLQKGYKLTTEGKFGEAIEKFRSIIYSIPLLVVDSKEEEAEADELIKICREY-------------IVGLSVELE 1054 (1202)
T ss_pred             HHHHHHHHHHHHhhhccCcHHHHHHHHHHHHhheeEEEecchhhHHHHHHHHHHHHHH-------------Hhhheeeee
Confidence            3445667788999999999999999999998765521   111111222223333 22             11111    


Q ss_pred             ----CcchHHHH--HHHHHHHhhccccchHHHHHHH-HHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhhh
Q 011861          116 ----PTTHAELA--LKDAEKLLNLQSNSMKSHLLKA-NALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  188 (476)
Q Consensus       116 ----~~~~~~~a--~~~~~~al~l~p~~~~~~~~~~-~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~~  188 (476)
                          +......+  ++.|-.-..+.|-+...-++.| ..++.+++|..|.....+.+++.|..+.+....+.. .+-+..
T Consensus      1055 Rr~l~~~~~~~~~ElAaYFt~~~Lqp~H~ilalrtA~n~ffK~kN~ktAs~fa~rLlel~~~~~~A~q~rki~-~a~ekn 1133 (1202)
T KOG0292|consen 1055 RRKLKKPNLEQQLELAAYFTHCKLQPMHRILALRTAMNVFFKLKNLKTAAEFARRLLELAPSPPVAEQARKIK-QAAEKN 1133 (1202)
T ss_pred             ecccCCchHHHHHHHHHHhhcCCCCcHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhCCCChHHHHHHHHH-HHhhcC
Confidence                11222333  4455556778887776666665 557899999999999999999998877654332222 111111


Q ss_pred             hcccCCCCCCCCc--ccccccccccccCcEE---ccCCCcccHhhHHHhhhcCCCCccccc
Q 011861          189 IGRRIHGTPERTD--DFDCTLCLKLLYEPIT---TPCGHSFCRSCLFQSMDRGNKCPLCRA  244 (476)
Q Consensus       189 ~~~~~~~~~~~~~--~~~C~iC~~~~~~P~~---~~cgh~fC~~Cl~~~~~~~~~Cp~cr~  244 (476)
                          ....-+...  ..--.+|...+. |+.   -.|.+.||..|..... .+..|-.|..
T Consensus      1134 ----p~Da~~l~yd~~n~f~iC~~t~~-Piy~g~p~~~cp~cga~y~~~~-~g~iCtvc~V 1188 (1202)
T KOG0292|consen 1134 ----PTDAYELNYDPHNPFVICGATYV-PIYRGRPDVSCPYCGACFVPSS-KGNICTVCDV 1188 (1202)
T ss_pred             ----cccccccCcccCCCeeEecccce-eeecCCCCcCCCcccceecccc-CCceeeeeee
Confidence                111111111  112335554332 322   1466677888865432 3456877754

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=87.71  E-value=0.44  Score=30.98  Aligned_cols=29  Identities=24%  Similarity=0.211  Sum_probs=25.1

Q ss_pred             HHHHHHHHHHHhhhhHHHHHHHHhccccc
Q 011861          139 KSHLLKANALILLERYDMARDAILSGLQV  167 (476)
Q Consensus       139 ~~~~~~~~~~~~~~~~~~A~~~~~~~l~l  167 (476)
                      .++..+|.+|...|+|++|...+++++++
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~~   31 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALEI   31 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHHH
Confidence            56789999999999999999999998764

>PLN03077 Protein ECB2; Provisional

Probab=87.35  E-value=2.7  Score=47.73  Aligned_cols=97  Identities=11%  Similarity=0.007  Sum_probs=71.0

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhcc--CCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNI--KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      ..|......|.+.|+.++|+..|++..+.  .|+. ..|..+-.++.+.|++                       ++|.+
T Consensus       555 ~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~-~T~~~ll~a~~~~g~v-----------------------~ea~~  610 (857)
T PLN03077        555 VSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDE-VTFISLLCACSRSGMV-----------------------TQGLE  610 (857)
T ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCc-ccHHHHHHHHhhcChH-----------------------HHHHH
Confidence            33455566677889999999999988764  5544 5555666778888888                       88988


Q ss_pred             HHHHHhhc---cccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCC
Q 011861          126 DAEKLLNL---QSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF  170 (476)
Q Consensus       126 ~~~~al~l---~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~  170 (476)
                      .++...+.   .| +...|.-+..+|...|++++|.+.+++. .+.|+
T Consensus       611 ~f~~M~~~~gi~P-~~~~y~~lv~~l~r~G~~~eA~~~~~~m-~~~pd  656 (857)
T PLN03077        611 YFHSMEEKYSITP-NLKHYACVVDLLGRAGKLTEAYNFINKM-PITPD  656 (857)
T ss_pred             HHHHHHHHhCCCC-chHHHHHHHHHHHhCCCHHHHHHHHHHC-CCCCC
Confidence            88887743   34 3467778888889999999999888875 34444

>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=86.84  E-value=0.66  Score=46.32  Aligned_cols=34  Identities=35%  Similarity=0.816  Sum_probs=27.4

Q ss_pred             cccccccccccccC--c-EEccCCCcccHhhHHHhhh
Q 011861          201 DDFDCTLCLKLLYE--P-ITTPCGHSFCRSCLFQSMD  234 (476)
Q Consensus       201 ~~~~C~iC~~~~~~--P-~~~~cgh~fC~~Cl~~~~~  234 (476)
                      ..+.|.||++...-  . +.+||+|-||+.|+...++
T Consensus       183 slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~  219 (445)
T KOG1814|consen  183 SLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFT  219 (445)
T ss_pred             hcccceeeehhhcCcceeeecccchHHHHHHHHHHHH
Confidence            57899999986543  3 4579999999999988765

>KOG3002 consensus Zn finger protein [General function prediction only]

Probab=86.65  E-value=0.51  Score=46.09  Aligned_cols=59  Identities=31%  Similarity=0.601  Sum_probs=42.5

Q ss_pred             CCcccccccccccccCcEE-ccCCCcccHhhHHHhhhcCCCCcccccccccCCCCcccchhHHHHHHH
Q 011861          199 RTDDFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQK  265 (476)
Q Consensus       199 ~~~~~~C~iC~~~~~~P~~-~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~~~~~~~~~n~~l~~~~~~  265 (476)
                      ..+.++||+|...+..|+. =+=||.-|..|-.   .....||.||.++.    + ..+..++.+++.
T Consensus        45 ~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g----~-~R~~amEkV~e~  104 (299)
T KOG3002|consen   45 DLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRT---KVSNKCPTCRLPIG----N-IRCRAMEKVAEA  104 (299)
T ss_pred             chhhccCchhhccCcccceecCCCcEehhhhhh---hhcccCCccccccc----c-HHHHHHHHHHHh
Confidence            4567899999999999854 3668999999964   23456999999874    1 134455555554

>PRK13184 pknD serine/threonine-protein kinase; Reviewed

Probab=86.32  E-value=3.8  Score=46.45  Aligned_cols=112  Identities=16%  Similarity=0.100  Sum_probs=82.5

Q ss_pred             hhHHHHHhccHHHHHHHHHHHhccCCCCcc---cccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHH
Q 011861           53 KGNRAFRESNFEEAISNYSRANNIKPGDPI---VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  129 (476)
Q Consensus        53 ~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  129 (476)
                      -.++++..+.|++|+..|.+.-.--|...+   +.+..|...+..-.-       +.+        + ....+|+..+++
T Consensus       481 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~--------~-~~~~~~~~~~~~  544 (932)
T PRK13184        481 VPDAFLAEKLYDQALIFYRRIRESFPGRKEGYEAQFRLGITLLEKASE-------QGD--------P-RDFTQALSEFSY  544 (932)
T ss_pred             CcHHHHhhHHHHHHHHHHHHHhhcCCCcccchHHHHHhhHHHHHHHHh-------cCC--------h-HHHHHHHHHHHH
Confidence            355677788999999999999999998864   444555555443332       111        1 223777777766


Q ss_pred             HhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          130 LLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       130 al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      .- -.|.-+--|+.+|.+|..+|+|++-++.|.-|++.-|..+.+......+
T Consensus       545 ~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  595 (932)
T PRK13184        545 LH-GGVGAPLEYLGKALVYQRLGEYNEEIKSLLLALKRYSQHPEISRLRDHL  595 (932)
T ss_pred             hc-CCCCCchHHHhHHHHHHHhhhHHHHHHHHHHHHHhcCCCCccHHHHHHH
Confidence            43 3467788899999999999999999999999999999999876554443

>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]

Probab=86.12  E-value=0.41  Score=54.28  Aligned_cols=48  Identities=27%  Similarity=0.715  Sum_probs=41.8

Q ss_pred             CCccccccccccccc-CcEEccCCCcccHhhHHHhhhcCCCCccccccc
Q 011861          199 RTDDFDCTLCLKLLY-EPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (476)
Q Consensus       199 ~~~~~~C~iC~~~~~-~P~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~  246 (476)
                      ....+.|.+|.+.+. .-..+.|||.+|..|...|+..+..||.|....
T Consensus      1150 ~~~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1150 LSGHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLYASSRCPICKSIK 1198 (1394)
T ss_pred             hhcccchHHHHHHHHhcCCeeeechhHhhhHHHHHHHHhccCcchhhhh
Confidence            345679999999998 556789999999999999999999999997543

>KOG0530 consensus Protein farnesyltransferase, alpha subunit/protein geranylgeranyltransferase type I, alpha subunit [Posttranslational modification, protein turnover, chaperones]

Probab=85.86  E-value=11  Score=35.87  Aligned_cols=97  Identities=11%  Similarity=0.020  Sum_probs=78.4

Q ss_pred             HHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhcccc
Q 011861           57 AFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSN  136 (476)
Q Consensus        57 ~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~  136 (476)
                      +++...-.+|+..-..+|.++|.+..+|..|=.+...++..+                      .+-++.....++-+|+
T Consensus        53 ~~~~E~S~RAl~LT~d~i~lNpAnYTVW~yRr~iL~~l~~dL----------------------~~El~~l~eI~e~npK  110 (318)
T KOG0530|consen   53 IAKNEKSPRALQLTEDAIRLNPANYTVWQYRRVILRHLMSDL----------------------NKELEYLDEIIEDNPK  110 (318)
T ss_pred             HhccccCHHHHHHHHHHHHhCcccchHHHHHHHHHHHhHHHH----------------------HHHHHHHHHHHHhCcc
Confidence            345577889999999999999999999999999988877642                      7778888888888999


Q ss_pred             chHHHHHHHHHHHhhhhHH-HHHHHHhcccccCCCCchhh
Q 011861          137 SMKSHLLKANALILLERYD-MARDAILSGLQVDPFSNPLQ  175 (476)
Q Consensus       137 ~~~~~~~~~~~~~~~~~~~-~A~~~~~~~l~l~p~~~~~~  175 (476)
                      |.+.+..+-.+.-.+|++. .-+......+..|..|=-++
T Consensus       111 NYQvWHHRr~ive~l~d~s~rELef~~~~l~~DaKNYHaW  150 (318)
T KOG0530|consen  111 NYQVWHHRRVIVELLGDPSFRELEFTKLMLDDDAKNYHAW  150 (318)
T ss_pred             chhHHHHHHHHHHHhcCcccchHHHHHHHHhccccchhhh
Confidence            9998888888888888887 66777777777665544443

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=85.65  E-value=1.4  Score=42.33  Aligned_cols=48  Identities=15%  Similarity=0.036  Sum_probs=43.1

Q ss_pred             HHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhh
Q 011861           50 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF   97 (476)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~   97 (476)
                      +...+..|...|.+.+|+..-++++.++|-+...+..+-..+..+|+-
T Consensus       282 lgkva~~yle~g~~neAi~l~qr~ltldpL~e~~nk~lm~~la~~gD~  329 (361)
T COG3947         282 LGKVARAYLEAGKPNEAIQLHQRALTLDPLSEQDNKGLMASLATLGDE  329 (361)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHhhcChhhhHHHHHHHHHHHHhccc
Confidence            345677888999999999999999999999999999999999999997

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=85.65  E-value=3.4  Score=43.50  Aligned_cols=76  Identities=17%  Similarity=0.149  Sum_probs=67.6

Q ss_pred             HHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHH
Q 011861           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (476)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (476)
                      .+++.|+..++-|-...|-..+.+++.+....+-.++..|.+|+.+.+.                       +.|++.++
T Consensus       644 ~~v~la~~~~~~~~~~da~~~l~q~l~~~~sepl~~~~~g~~~l~l~~i-----------------------~~a~~~~~  700 (886)
T KOG4507|consen  644 PLVNLANLLIHYGLHLDATKLLLQALAINSSEPLTFLSLGNAYLALKNI-----------------------SGALEAFR  700 (886)
T ss_pred             cHHHHHHHHHHhhhhccHHHHHHHHHhhcccCchHHHhcchhHHHHhhh-----------------------HHHHHHHH
Confidence            4567889999999999999999999999999999999999999999999                       99999999


Q ss_pred             HHhhccccchHHHHHHHHH
Q 011861          129 KLLNLQSNSMKSHLLKANA  147 (476)
Q Consensus       129 ~al~l~p~~~~~~~~~~~~  147 (476)
                      .|++++|+++..-..+-.+
T Consensus       701 ~a~~~~~~~~~~~~~l~~i  719 (886)
T KOG4507|consen  701 QALKLTTKCPECENSLKLI  719 (886)
T ss_pred             HHHhcCCCChhhHHHHHHH
Confidence            9999999998765544433

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=85.49  E-value=2.9  Score=41.52  Aligned_cols=103  Identities=15%  Similarity=-0.036  Sum_probs=79.0

Q ss_pred             HHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHH
Q 011861           67 ISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKAN  146 (476)
Q Consensus        67 i~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~  146 (476)
                      ...|++.++-+|.|..+|..++...-.+-..       .+..    ....+.+++..+..+++|++.+|++...+..+-.
T Consensus         5 ~~el~~~v~~~P~di~~Wl~li~~Qd~~~~~-------~~~~----~~~~~a~~E~klsilerAL~~np~~~~L~l~~l~   73 (321)
T PF08424_consen    5 TAELNRRVRENPHDIEAWLELIEFQDELFRL-------QSSS----KAERRALAERKLSILERALKHNPDSERLLLGYLE   73 (321)
T ss_pred             HHHHHHHHHhCcccHHHHHHHHHHHHHhccc-------cccc----hhhHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            4568889999999999998877665544433       0000    3345566688999999999999999998887777


Q ss_pred             HHHhhhhHHHHHHHHhcccccCCCCchhhHHHHH
Q 011861          147 ALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (476)
Q Consensus       147 ~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~  180 (476)
                      .....-+-+...+-+++++..+|++..++...-.
T Consensus        74 ~~~~~~~~~~l~~~we~~l~~~~~~~~LW~~yL~  107 (321)
T PF08424_consen   74 EGEKVWDSEKLAKKWEELLFKNPGSPELWREYLD  107 (321)
T ss_pred             HHHHhCCHHHHHHHHHHHHHHCCCChHHHHHHHH
Confidence            7777778888888899999999998888765433

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=85.46  E-value=1.3  Score=28.60  Aligned_cols=30  Identities=23%  Similarity=0.192  Sum_probs=25.6

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhcc
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNI   76 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~   76 (476)
                      +..+...|..++..|+|++|+..+.+++.+
T Consensus         2 a~~~~~la~~~~~~g~~~~A~~~~~~al~~   31 (42)
T PF13374_consen    2 ASALNNLANAYRAQGRYEEALELLEEALEI   31 (42)
T ss_dssp             HHHHHHHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhcchhhHHHHHHHHH
Confidence            345778899999999999999999999876

>PF07720 TPR_3: Tetratricopeptide repeat; InterPro: IPR011716 This entry includes tetratricopeptide-like repeats found in the LcrH/SycD-like chaperones []

Probab=85.24  E-value=1  Score=29.00  Aligned_cols=33  Identities=15%  Similarity=0.010  Sum_probs=25.1

Q ss_pred             HHHHHHHHHHHhhhhHHHHHHH--HhcccccCCCC
Q 011861          139 KSHLLKANALILLERYDMARDA--ILSGLQVDPFS  171 (476)
Q Consensus       139 ~~~~~~~~~~~~~~~~~~A~~~--~~~~l~l~p~~  171 (476)
                      +.++.+|..+...|+|++|++.  |.-+..+++.|
T Consensus         2 e~~y~~a~~~y~~~ky~~A~~~~~y~~l~~ld~~n   36 (36)
T PF07720_consen    2 EYLYGLAYNFYQKGKYDEAIHFFQYAFLCALDKYN   36 (36)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHTTT-
T ss_pred             cHHHHHHHHHHHHhhHHHHHHHHHHHHHHHhcccC
Confidence            5678889999999999999999  44666666654

; PDB: 3KS2_O 3GZ2_A 3GZ1_A 3GYZ_A 4AM9_A 2VGX_A 2VGY_A.

>COG3914 Spy Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]

Probab=84.94  E-value=4.4  Score=42.67  Aligned_cols=99  Identities=15%  Similarity=-0.060  Sum_probs=81.1

Q ss_pred             HHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHH-HHHHHHHhhc
Q 011861           55 NRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA-LKDAEKLLNL  133 (476)
Q Consensus        55 ~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a-~~~~~~al~l  133 (476)
                      -.+..-++...|+-....++..+|++..++.++|.+....|..                       -.+ ......+...
T Consensus        75 i~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~L~~ale~~~~~-----------------------~~~~~~~~~~a~~~  131 (620)
T COG3914          75 ILLAPLADSTLAFLAKRIPLSVNPENCPAVQNLAAALELDGLQ-----------------------FLALADISEIAEWL  131 (620)
T ss_pred             hhccccccchhHHHHHhhhHhcCcccchHHHHHHHHHHHhhhH-----------------------HHHHHHHHHHHHhc
Confidence            3345567888888999999999999999999999999988876                       444 4455559999


Q ss_pred             cccchHHHHHH------HHHHHhhhhHHHHHHHHhcccccCCCCchhhH
Q 011861          134 QSNSMKSHLLK------ANALILLERYDMARDAILSGLQVDPFSNPLQA  176 (476)
Q Consensus       134 ~p~~~~~~~~~------~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~  176 (476)
                      .|++......+      |..+..+|+..++..++.++..+.|.++.+..
T Consensus       132 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~l~~~~d~~p~~~~~~~  180 (620)
T COG3914         132 SPDNAEFLGHLIRFYQLGRYLKLLGRTAEAELALERAVDLLPKYPRVLG  180 (620)
T ss_pred             CcchHHHHhhHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhhhhhhHh
Confidence            99998876666      88888899999999999999999998865543

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=84.89  E-value=4.3  Score=41.48  Aligned_cols=78  Identities=15%  Similarity=0.195  Sum_probs=61.7

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      .......|.-+|.+|+|.+++-.-....+++| .+.+|..+|.|.+...+|                       .+|...
T Consensus       462 ian~LaDAEyLysqgey~kc~~ys~WL~~iaP-S~~~~RLlGl~l~e~k~Y-----------------------~eA~~~  517 (549)
T PF07079_consen  462 IANFLADAEYLYSQGEYHKCYLYSSWLTKIAP-SPQAYRLLGLCLMENKRY-----------------------QEAWEY  517 (549)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHHhCC-cHHHHHHHHHHHHHHhhH-----------------------HHHHHH
Confidence            56777889999999999999999999999999 899999999999999999                       999776


Q ss_pred             HHHHhhccccchHHHHHHHHHHH
Q 011861          127 AEKLLNLQSNSMKSHLLKANALI  149 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~  149 (476)
                      +.. +-.+.+-..+.-.+|.+++
T Consensus       518 l~~-LP~n~~~~dskvqKAl~lC  539 (549)
T PF07079_consen  518 LQK-LPPNERMRDSKVQKALALC  539 (549)
T ss_pred             HHh-CCCchhhHHHHHHHHHHHH
Confidence            543 2223333345555555554

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>cd02682 MIT_AAA_Arch MIT: domain contained within Microtubule Interacting and Trafficking molecules

Probab=84.47  E-value=10  Score=28.90  Aligned_cols=31  Identities=29%  Similarity=0.343  Sum_probs=22.1

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhc
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANN   75 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~   75 (476)
                      ..+..+..+|-.+=+.|+|++||.+|++|++
T Consensus         4 ~~A~~~a~~AVe~D~~gr~~eAi~~Y~~aIe   34 (75)
T cd02682           4 EMARKYAINAVKAEKEGNAEDAITNYKKAIE   34 (75)
T ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            3466677777777778888888888865544

This sub-family of MIT domains is found in mostly archaebacterial AAA-ATPases. The molecular function of the MIT domain is unclear.

>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=84.32  E-value=1.3  Score=25.93  Aligned_cols=25  Identities=24%  Similarity=0.194  Sum_probs=21.9

Q ss_pred             HHHHHHHHHHHhhhhHHHHHHHHhc
Q 011861          139 KSHLLKANALILLERYDMARDAILS  163 (476)
Q Consensus       139 ~~~~~~~~~~~~~~~~~~A~~~~~~  163 (476)
                      .+++.+|.++...|++++|...+++
T Consensus         2 ~a~~~la~~~~~~G~~~eA~~~l~~   26 (26)
T PF07721_consen    2 RARLALARALLAQGDPDEAERLLRR   26 (26)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHhC
Confidence            4678999999999999999988753

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

>KOG0530 consensus Protein farnesyltransferase, alpha subunit/protein geranylgeranyltransferase type I, alpha subunit [Posttranslational modification, protein turnover, chaperones]

Probab=83.60  E-value=3  Score=39.61  Aligned_cols=94  Identities=12%  Similarity=0.049  Sum_probs=83.5

Q ss_pred             hccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHH-HHHHHHHHHhhccccch
Q 011861           60 ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE-LALKDAEKLLNLQSNSM  138 (476)
Q Consensus        60 ~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~a~~~~~~al~l~p~~~  138 (476)
                      +.+..+-+...++.++-+|.|..+|..|-.+...+|+.                       . .-++....++..|.+|.
T Consensus        91 ~~dL~~El~~l~eI~e~npKNYQvWHHRr~ive~l~d~-----------------------s~rELef~~~~l~~DaKNY  147 (318)
T KOG0530|consen   91 MSDLNKELEYLDEIIEDNPKNYQVWHHRRVIVELLGDP-----------------------SFRELEFTKLMLDDDAKNY  147 (318)
T ss_pred             HHHHHHHHHHHHHHHHhCccchhHHHHHHHHHHHhcCc-----------------------ccchHHHHHHHHhccccch
Confidence            35677888999999999999999999999999899988                       5 77888999999999999


Q ss_pred             HHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhH
Q 011861          139 KSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQA  176 (476)
Q Consensus       139 ~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~  176 (476)
                      -++..+-+++...+.|+.-+++....++.|-.|..+++
T Consensus       148 HaWshRqW~~r~F~~~~~EL~y~~~Lle~Di~NNSAWN  185 (318)
T KOG0530|consen  148 HAWSHRQWVLRFFKDYEDELAYADELLEEDIRNNSAWN  185 (318)
T ss_pred             hhhHHHHHHHHHHhhHHHHHHHHHHHHHHhhhccchhh
Confidence            99999999999999999999999999988876666653

>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=83.48  E-value=1.4  Score=40.33  Aligned_cols=48  Identities=29%  Similarity=0.616  Sum_probs=37.9

Q ss_pred             ccccccccccccc--CcEEccCCCcccHhhHHHhhh--------cCCCCccccccccc
Q 011861          201 DDFDCTLCLKLLY--EPITTPCGHSFCRSCLFQSMD--------RGNKCPLCRAVLFI  248 (476)
Q Consensus       201 ~~~~C~iC~~~~~--~P~~~~cgh~fC~~Cl~~~~~--------~~~~Cp~cr~~~~~  248 (476)
                      ..-.|..|.-.+.  +.+.+.|-|.|+..|+..|-.        .+..||.|.+++.+
T Consensus        49 Y~pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP  106 (299)
T KOG3970|consen   49 YNPNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP  106 (299)
T ss_pred             CCCCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence            3457999988775  557789999999999987654        35679999998853

>PHA02537 M terminase endonuclease subunit; Provisional

Probab=82.88  E-value=5.8  Score=37.20  Aligned_cols=118  Identities=14%  Similarity=0.136  Sum_probs=64.4

Q ss_pred             HHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHH---HHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhh-
Q 011861           57 AFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIR---ISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLN-  132 (476)
Q Consensus        57 ~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~-  132 (476)
                      .|..|+|+.|++....||+.+-.-|+-|.. ....+-   .-++.+.+......+.           ..-...+..... 
T Consensus        93 ~~D~Gd~~~AL~ia~yAI~~~l~~Pd~f~R-~~~t~vaeev~~~A~~~~~ag~~~e-----------~~~~~~~~~l~~~  160 (230)
T PHA02537         93 RFDIGDFDGALEIAEYALEHGLTMPDQFRR-TLANFVAEEVANAALKAASAGESVE-----------PYFLRVFLDLTTE  160 (230)
T ss_pred             eeeccCHHHHHHHHHHHHHcCCCCCccccC-CchHHHHHHHHHHHHHHHHcCCCCC-----------hHHHHHHHHHHhc
Confidence            378999999999999999986444433321 111111   1112110100000000           001111222211 


Q ss_pred             cc-ccchHHHH--HHHHHHH---------hhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhh
Q 011861          133 LQ-SNSMKSHL--LKANALI---------LLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  187 (476)
Q Consensus       133 l~-p~~~~~~~--~~~~~~~---------~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~  187 (476)
                      .+ |+...+-+  ..|..+.         ..++...|+..+++++++||. ..+...++++++.+..
T Consensus       161 ~dmpd~vrAKl~K~~G~~llr~~~g~~~~d~~~l~~Al~~L~rA~~l~~k-~GVK~~i~~l~~~lr~  226 (230)
T PHA02537        161 WDMPDEVRAKLYKAAGYLLLRNEKGEPIGDAETLQLALALLQRAFQLNDK-CGVKKDIERLERRLKA  226 (230)
T ss_pred             CCCChHHHHHHHHHHHHHHhhcccCCCccCcccHHHHHHHHHHHHHhCCC-CChHHHHHHHHHHHhh
Confidence            11 55555444  5555552         456788999999999999954 5567777888777764

>COG5191 Uncharacterized conserved protein, contains HAT (Half-A-TPR) repeat [General function prediction only]

Probab=82.69  E-value=5.2  Score=38.97  Aligned_cols=73  Identities=12%  Similarity=0.005  Sum_probs=58.6

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccc-hhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGN-RSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~-~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      ..-|..-++-.-+.+-|.+--..|.+++..+|+|.++|.. .+.-|...+++                       ..+-.
T Consensus       107 ~k~w~~y~~Y~~k~k~y~~~~nI~~~~l~khP~nvdlWI~~c~~e~~~~ani-----------------------~s~Ra  163 (435)
T COG5191         107 PKIWSQYAAYVIKKKMYGEMKNIFAECLTKHPLNVDLWIYCCAFELFEIANI-----------------------ESSRA  163 (435)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCceeeeeeccchhhhhccH-----------------------HHHHH
Confidence            3344444444456678888889999999999999999988 66667778888                       99999


Q ss_pred             HHHHHhhccccchHHHH
Q 011861          126 DAEKLLNLQSNSMKSHL  142 (476)
Q Consensus       126 ~~~~al~l~p~~~~~~~  142 (476)
                      .+.+++++||+++..|+
T Consensus       164 ~f~~glR~N~~~p~iw~  180 (435)
T COG5191         164 MFLKGLRMNSRSPRIWI  180 (435)
T ss_pred             HHHhhhccCCCCchHHH
Confidence            99999999999988443

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=82.38  E-value=4.7  Score=39.01  Aligned_cols=63  Identities=17%  Similarity=0.134  Sum_probs=58.1

Q ss_pred             ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHH
Q 011861           82 IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAI  161 (476)
Q Consensus        82 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~  161 (476)
                      .++..++..+...|++                       +.++...++.+.++|-+-++|.++-.+|+..|+...|+..|
T Consensus       154 ~~l~~lae~~~~~~~~-----------------------~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y  210 (280)
T COG3629         154 KALTKLAEALIACGRA-----------------------DAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAY  210 (280)
T ss_pred             HHHHHHHHHHHhcccH-----------------------HHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHH
Confidence            6777888888889999                       99999999999999999999999999999999999999999


Q ss_pred             hccccc
Q 011861          162 LSGLQV  167 (476)
Q Consensus       162 ~~~l~l  167 (476)
                      .+.-++
T Consensus       211 ~~l~~~  216 (280)
T COG3629         211 RQLKKT  216 (280)
T ss_pred             HHHHHH
Confidence            887664

>KOG2042 consensus Ubiquitin fusion degradation protein-2 [Posttranslational modification, protein turnover, chaperones]

Probab=82.26  E-value=3.7  Score=45.92  Aligned_cols=69  Identities=20%  Similarity=0.200  Sum_probs=59.8

Q ss_pred             CCcccccccccccccCcEEcc-CCCcccHhhHHHhhhcCCCCcccccccccCCCCcccchhHHHHHHHhCch
Q 011861          199 RTDDFDCTLCLKLLYEPITTP-CGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPE  269 (476)
Q Consensus       199 ~~~~~~C~iC~~~~~~P~~~~-cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~~~~~~~~~n~~l~~~~~~~~~~  269 (476)
                      .++.+.=|+..-.+.+||.+| .|++.|+.=+.+++......|.||.++..  ..+..|..++.-+..|..+
T Consensus       867 vpdef~DPlm~Tlm~dPV~LP~Srv~vDRsti~rhlLs~~tdPFNR~pLt~--d~v~pn~eLK~kI~~~~~e  936 (943)
T KOG2042|consen  867 VPDEFLDPLMSTLMSDPVVLPSSRVTVDRSTIERHLLSDCTDPFNREPLTE--DMVSPNEELKAKIRCWIKE  936 (943)
T ss_pred             CchhhhCccccccCCCCccCCcccccccHHHHHHHHhcCCCCccccccCch--hhcCCCHHHHHHHHHHHHH
Confidence            667888889999999999998 99999999999999999999999999854  5678888888888777544

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=82.16  E-value=11  Score=32.71  Aligned_cols=85  Identities=14%  Similarity=0.005  Sum_probs=73.3

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHH
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (476)
                      ..+.+........++...+-......--+.|+.+++...-|..++..|+|                       .+|+..+
T Consensus        11 ~gLi~~~~~aL~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l~i~rg~w-----------------------~eA~rvl   67 (153)
T TIGR02561        11 GGLIEVLMYALRSADPYDAQAMLDALRVLRPNLKELDMFDGWLLIARGNY-----------------------DEAARIL   67 (153)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCccccchhHHHHHHHcCCH-----------------------HHHHHHH
Confidence            34555555666688899988888888888999999999999999999999                       9999999


Q ss_pred             HHHhhccccchHHHHHHHHHHHhhhhHH
Q 011861          128 EKLLNLQSNSMKSHLLKANALILLERYD  155 (476)
Q Consensus       128 ~~al~l~p~~~~~~~~~~~~~~~~~~~~  155 (476)
                      +...+-.+..+-+--.++.|+..+|+.+
T Consensus        68 r~l~~~~~~~p~~kAL~A~CL~al~Dp~   95 (153)
T TIGR02561        68 RELLSSAGAPPYGKALLALCLNAKGDAE   95 (153)
T ss_pred             HhhhccCCCchHHHHHHHHHHHhcCChH
Confidence            9999988888888888999999988875

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]

Probab=82.15  E-value=1.6  Score=47.83  Aligned_cols=35  Identities=34%  Similarity=0.783  Sum_probs=27.0

Q ss_pred             Ccccccccccccc-cCcE-EccCCCcccHhhHHHhhh
Q 011861          200 TDDFDCTLCLKLL-YEPI-TTPCGHSFCRSCLFQSMD  234 (476)
Q Consensus       200 ~~~~~C~iC~~~~-~~P~-~~~cgh~fC~~Cl~~~~~  234 (476)
                      .....|.+|...+ ..|. .++|||.|++.|+.++..
T Consensus       815 ep~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v~  851 (911)
T KOG2034|consen  815 EPQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHVL  851 (911)
T ss_pred             cCccchHHhcchhhcCcceeeeccchHHHHHHHHHHH
Confidence            3455899999865 5664 569999999999987653

>PHA03096 p28-like protein; Provisional

Probab=82.00  E-value=0.72  Score=44.71  Aligned_cols=42  Identities=24%  Similarity=0.347  Sum_probs=29.4

Q ss_pred             cccccccccccCc--------EEccCCCcccHhhHHHhhhcC---CCCccccc
Q 011861          203 FDCTLCLKLLYEP--------ITTPCGHSFCRSCLFQSMDRG---NKCPLCRA  244 (476)
Q Consensus       203 ~~C~iC~~~~~~P--------~~~~cgh~fC~~Cl~~~~~~~---~~Cp~cr~  244 (476)
                      -.|.+|++....-        ....|.|.||..|+..|....   ..||.||.
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~  231 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR  231 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence            5799999865432        233799999999999987632   23555543

>PF10516 SHNi-TPR: SHNi-TPR; InterPro: IPR019544 The tetratrico peptide repeat region (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=81.77  E-value=2  Score=28.04  Aligned_cols=29  Identities=31%  Similarity=0.479  Sum_probs=25.2

Q ss_pred             HHHHhhHHHHHhccHHHHHHHHHHHhccC
Q 011861           49 DLVQKGNRAFRESNFEEAISNYSRANNIK   77 (476)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~   77 (476)
                      -+...|...+..++|.+|+..|.+++++.
T Consensus         3 v~~~Lgeisle~e~f~qA~~D~~~aL~i~   31 (38)
T PF10516_consen    3 VYDLLGEISLENENFEQAIEDYEKALEIQ   31 (38)
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHHH
Confidence            35667899999999999999999999863

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. This entry represents SHNi-TPR (Sim3-Hif1-NASP interrupted TPR), a sequence that is an interrupted form of TPR repeat [].

>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=81.73  E-value=1.1  Score=44.76  Aligned_cols=47  Identities=26%  Similarity=0.541  Sum_probs=36.1

Q ss_pred             CCccccccccccccc--C-cEEccCCCcccHhhHHHhhhcCC---CCcccccc
Q 011861          199 RTDDFDCTLCLKLLY--E-PITTPCGHSFCRSCLFQSMDRGN---KCPLCRAV  245 (476)
Q Consensus       199 ~~~~~~C~iC~~~~~--~-P~~~~cgh~fC~~Cl~~~~~~~~---~Cp~cr~~  245 (476)
                      ....|.||+-.+.-.  + |+.+.|||..|+..+.+...++.   +||.|-..
T Consensus       331 fHSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e  383 (394)
T KOG2817|consen  331 FHSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVE  383 (394)
T ss_pred             ccceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence            345689999887543  4 46789999999999998877654   69999543

>PF12862 Apc5: Anaphase-promoting complex subunit 5

Probab=81.67  E-value=2.2  Score=33.97  Aligned_cols=53  Identities=13%  Similarity=0.100  Sum_probs=41.4

Q ss_pred             HHHHHHHHHHhhcccc---------chHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCch
Q 011861          121 ELALKDAEKLLNLQSN---------SMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (476)
Q Consensus       121 ~~a~~~~~~al~l~p~---------~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~  173 (476)
                      ..|++.+.+.++....         ..-+...+|..+..+|++++|+..+++++++.....+
T Consensus        15 ~~A~d~L~~~fD~~~~~~~~~~~~~~~~all~lA~~~~~~G~~~~A~~~l~eAi~~Are~~D   76 (94)
T PF12862_consen   15 SEALDALHRYFDYAKQSNNSSSNSGLAYALLNLAELHRRFGHYEEALQALEEAIRLARENGD   76 (94)
T ss_pred             HHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHCC
Confidence            8888888887775422         2347788999999999999999999999987654443

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=81.15  E-value=5.7  Score=45.98  Aligned_cols=102  Identities=12%  Similarity=-0.071  Sum_probs=70.3

Q ss_pred             HHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhcccc
Q 011861           57 AFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSN  136 (476)
Q Consensus        57 ~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~  136 (476)
                      |-+-+++++|.+.|+..++..-+....|...|..+++..+-                       ++|-....+|++.-|.
T Consensus      1540 y~k~ek~~~A~ell~~m~KKF~q~~~vW~~y~~fLl~~ne~-----------------------~aa~~lL~rAL~~lPk 1596 (1710)
T KOG1070|consen 1540 YEKSEKNDEADELLRLMLKKFGQTRKVWIMYADFLLRQNEA-----------------------EAARELLKRALKSLPK 1596 (1710)
T ss_pred             HHHhhcchhHHHHHHHHHHHhcchhhHHHHHHHHHhcccHH-----------------------HHHHHHHHHHHhhcch
Confidence            34456777777777777776666667777777777766665                       6666677777777776


Q ss_pred             --chHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          137 --SMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       137 --~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                        +.+...-.|+.-+..|+.+.++..|+..+.-.|.-.++|......
T Consensus      1597 ~eHv~~IskfAqLEFk~GDaeRGRtlfEgll~ayPKRtDlW~VYid~ 1643 (1710)
T KOG1070|consen 1597 QEHVEFISKFAQLEFKYGDAERGRTLFEGLLSAYPKRTDLWSVYIDM 1643 (1710)
T ss_pred             hhhHHHHHHHHHHHhhcCCchhhHHHHHHHHhhCccchhHHHHHHHH
Confidence              555666666666777777777777777777777767766655444

>PF12862 Apc5: Anaphase-promoting complex subunit 5

Probab=80.90  E-value=2.8  Score=33.31  Aligned_cols=57  Identities=23%  Similarity=0.306  Sum_probs=46.4

Q ss_pred             HHHHhccHHHHHHHHHHHhccCCCC---------cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           56 RAFRESNFEEAISNYSRANNIKPGD---------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        56 ~~~~~~~~~~Ai~~y~~al~~~p~~---------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      ...+.|||.+|++.+.+.+......         ..++.++|.++...|++                       ++|+..
T Consensus         7 ~~~~~~dy~~A~d~L~~~fD~~~~~~~~~~~~~~~~all~lA~~~~~~G~~-----------------------~~A~~~   63 (94)
T PF12862_consen    7 NALRSGDYSEALDALHRYFDYAKQSNNSSSNSGLAYALLNLAELHRRFGHY-----------------------EEALQA   63 (94)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHHHHHHhCCH-----------------------HHHHHH
Confidence            4568899999988888887763322         35678899999999999                       999999


Q ss_pred             HHHHhhccc
Q 011861          127 AEKLLNLQS  135 (476)
Q Consensus       127 ~~~al~l~p  135 (476)
                      ++.|+++-.
T Consensus        64 l~eAi~~Ar   72 (94)
T PF12862_consen   64 LEEAIRLAR   72 (94)
T ss_pred             HHHHHHHHH
Confidence            999998853

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=80.26  E-value=6.4  Score=39.57  Aligned_cols=92  Identities=16%  Similarity=0.077  Sum_probs=72.0

Q ss_pred             HHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhH--HHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHH
Q 011861           50 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSS--AYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (476)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (476)
                      ....++..+-.|+|+.|.+.|.-.+..--.  -.+-.|+.  .-.++|.+                       +.|..+.
T Consensus       123 hlLeAQaal~eG~~~~Ar~kfeAMl~dPEt--RllGLRgLyleAqr~Gar-----------------------eaAr~yA  177 (531)
T COG3898         123 HLLEAQAALLEGDYEDARKKFEAMLDDPET--RLLGLRGLYLEAQRLGAR-----------------------EAARHYA  177 (531)
T ss_pred             HHHHHHHHHhcCchHHHHHHHHHHhcChHH--HHHhHHHHHHHHHhcccH-----------------------HHHHHHH
Confidence            456788899999999999999877653222  22333333  23467888                       9999999


Q ss_pred             HHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccc
Q 011861          128 EKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQ  166 (476)
Q Consensus       128 ~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~  166 (476)
                      ..|-+.-|.-+.+....-...+..|+|+.|++......+
T Consensus       178 e~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~  216 (531)
T COG3898         178 ERAAEKAPQLPWAARATLEARCAAGDWDGALKLVDAQRA  216 (531)
T ss_pred             HHHHhhccCCchHHHHHHHHHHhcCChHHHHHHHHHHHH
Confidence            999999999999988888889999999999998876654

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	476
3l11_A	115	Crystal Structure Of The Ring Domain Of Rnf168 Leng		2e-08
2jmd_A	63	Solution Structure Of The Ring Domain Of Human Traf		2e-07
3hct_A	118	Crystal Structure Of Traf6 In Complex With Ubc13 In		2e-07
2eci_A	86	Solution Structure Of The Ring Domain Of The Human		6e-07
3hcs_A	170	Crystal Structure Of The N-Terminal Domain Of Traf6		2e-06
1jm7_A	112	Solution Structure Of The Brca1/bard1 Ring-domain H		3e-06
2ecv_A	85	Solution Structure Of The Zinc Finger, C3hc4 Type (		4e-06
2ecw_A	85	Solution Structure Of The Zinc Finger, C3hc4 Type (		5e-06
2egp_A	79	Solution Structure Of The Ring-Finger Domain From H		7e-06
4epo_C	149	Crystal Structure Of Rnf8 Bound To The Ubc13MMS2 HE		8e-06
4ayc_A	138	Rnf8 Ring Domain Structure Length = 138		8e-06
4ayc_B	138	Rnf8 Ring Domain Structure Length = 138		9e-06
2ckl_B	165	Ring1b-Bmi1 E3 Catalytic Domain Structure Length =		1e-05
2ecj_A	58	Solution Structure Of The Ring Domain Of The Human		1e-05
2ysl_A	73	Solution Structure Of The Ring Domain (1-66) From T		3e-05
2ysj_A	63	Solution Structure Of The Ring Domain (1-56) From T		5e-05
3rpg_C	121	Bmi1RING1B-Ubch5c Complex Structure Length = 121		6e-05
1rmd_A	116	Rag1 Dimerization Domain Length = 116		9e-05
1z6u_A	150	Np95-Like Ring Finger Protein Isoform B [homo Sapie		1e-04
2d8t_A	71	Solution Structure Of The Ring Domain Of The Human		3e-04
3fl2_A	124	Crystal Structure Of The Ring Domain Of The E3 Ubiq		4e-04
1elw_A	118	Crystal Structure Of The Tpr1 Domain Of Hop In Comp		4e-04
4ap4_A	133	Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex Le		8e-04

>pdb|3L11|A Chain A, Crystal Structure Of The Ring Domain Of Rnf168 Length = 115

Iteration: 1
 Score = 57.0 bits (136), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 29/86 (33%), Positives = 49/86 (56%), Gaps = 6/86 (6%)
Query: 201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGN-KCPLCRAVL-----FITPRTCA 254
            +  C +C+++L EP+T PC H+ C+ C   ++++ +  CP CR  +     + T R   
Sbjct: 14  SECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRRNSL 73
Query: 255 VSVTLNSIIQKNFPEEYAERKSEHDS 280
           V+V L +IIQK++P E   R S  +S
Sbjct: 74  VNVELWTIIQKHYPRECKLRASGQES 99

>pdb|2JMD|A Chain A, Solution Structure Of The Ring Domain Of Human Traf6 Length = 63

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/46 (43%), Positives = 32/46 (69%), Gaps = 1/46 (2%)
Query: 203 FDCTLCLKLLYEPITTPCGHSFCRSCLFQSM-DRGNKCPLCRAVLF 247
           ++C +CL  L E + TPCGH FC++C+ +S+ D G+KCP+   +L 
Sbjct: 7   YECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILL 52

>pdb|3HCT|A Chain A, Crystal Structure Of Traf6 In Complex With Ubc13 In The P1 Space Group Length = 118

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 22/59 (37%), Positives = 35/59 (59%), Gaps = 1/59 (1%)
Query: 190 GRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSM-DRGNKCPLCRAVLF 247
           G  +   P     ++C +CL  L E + TPCGH FC++C+ +S+ D G+KCP+   +L 
Sbjct: 6   GYDVEFDPPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILL 64

>pdb|2ECI|A Chain A, Solution Structure Of The Ring Domain Of The Human Tnf Receptor-Associated Factor 6 Protein Length = 86

Iteration: 1
 Score = 52.0 bits (123), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 22/59 (37%), Positives = 35/59 (59%), Gaps = 1/59 (1%)
Query: 190 GRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSM-DRGNKCPLCRAVLF 247
           G  +   P     ++C +CL  L E + TPCGH FC++C+ +S+ D G+KCP+   +L 
Sbjct: 13  GYDVEFDPPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILL 71

>pdb|3HCS|A Chain A, Crystal Structure Of The N-Terminal Domain Of Traf6 Length = 170

Iteration: 1
 Score = 50.8 bits (120), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 21/53 (39%), Positives = 33/53 (62%), Gaps = 1/53 (1%)
Query: 190 GRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSM-DRGNKCPL 241
           G  +   P     ++C +CL  L E + TPCGH FC++C+ +S+ D G+KCP+
Sbjct: 6   GYDVEFDPPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPV 58

>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain Heterodimer Length = 112

Iteration: 1
 Score = 49.7 bits (117), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/66 (30%), Positives = 41/66 (62%), Gaps = 5/66 (7%)
Query: 203 FDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRG---NKCPLCRAVLFITPRTCAVSVTL 259
            +C +CL+L+ EP++T C H FC+ C+ + +++    ++CPLC+    IT R+   S   
Sbjct: 22  LECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKND--ITKRSLQESTRF 79
Query: 260 NSIIQK 265
           + ++++
Sbjct: 80  SQLVEE 85

>pdb|2ECV|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring Finger) Domain Of Tripartite Motif-Containing Protein 5 Length = 85

Iteration: 1
 Score = 49.7 bits (117), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 20/49 (40%), Positives = 34/49 (69%), Gaps = 6/49 (12%)
Query: 201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQS-----MDRG-NKCPLCR 243
           ++  C +CL+LL +P++  CGHSFC++CL  +     +D+G + CP+CR
Sbjct: 18  EEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCR 66

>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring Finger) Domain Tripartite Motif Protein 30 Length = 85

Iteration: 1
 Score = 48.9 bits (115), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 19/49 (38%), Positives = 30/49 (61%), Gaps = 6/49 (12%)
Query: 201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLF------QSMDRGNKCPLCR 243
           ++  C +CL+LL EP++  C HSFCR+C+       ++ D    CP+CR
Sbjct: 18  EEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCR 66

>pdb|2EGP|A Chain A, Solution Structure Of The Ring-Finger Domain From Human Tripartite Motif Protein 34 Length = 79

Iteration: 1
 Score = 48.9 bits (115), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 19/49 (38%), Positives = 29/49 (59%), Gaps = 7/49 (14%)
Query: 201 DDFDCTLCLKLLYEPITTPCGHSFCRSCL-------FQSMDRGNKCPLC 242
           ++  C +CL+LL EP++  CGHS CR+C+         SM   + CP+C
Sbjct: 11  EEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVC 59

>pdb|4EPO|C Chain C, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2 HETERODIMER Length = 149

Iteration: 1
 Score = 48.5 bits (114), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 24/78 (30%), Positives = 40/78 (51%), Gaps = 7/78 (8%)
Query: 201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLN 260
           ++  C +C +   E +T  C HSFC  C+ + M R  +CP+CR  +    ++   S+ L+
Sbjct: 63  NELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICRKDI----KSKTYSLVLD 118
Query: 261 SIIQK---NFPEEYAERK 275
           + I K   N   E  ER+
Sbjct: 119 NCINKMVNNLSSEVKERR 136

>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure Length = 138

Iteration: 1
 Score = 48.5 bits (114), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 24/78 (30%), Positives = 40/78 (51%), Gaps = 7/78 (8%)
Query: 201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLN 260
           ++  C +C +   E +T  C HSFC  C+ + M R  +CP+CR  +    ++   S+ L+
Sbjct: 52  NELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICRKDI----KSKTYSLVLD 107
Query: 261 SIIQK---NFPEEYAERK 275
           + I K   N   E  ER+
Sbjct: 108 NCINKMVNNLSSEVKERR 125

>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure Length = 138

Iteration: 1
 Score = 48.5 bits (114), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 24/78 (30%), Positives = 40/78 (51%), Gaps = 7/78 (8%)
Query: 201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLN 260
           ++  C +C +   E +T  C HSFC  C+ + M R  +CP+CR  +    ++   S+ L+
Sbjct: 52  NELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICRKDI----KSKTYSLVLD 107
Query: 261 SIIQK---NFPEEYAERK 275
           + I K   N   E  ER+
Sbjct: 108 NXINKMVNNLSSEVKERR 125

>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure Length = 165

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 39/123 (31%), Positives = 60/123 (48%), Gaps = 10/123 (8%)
Query: 156 MARDAILSGLQVDPFSNPLQASLQNLERTTASLI--GRRIHGTPERT-DDFDCTLCLKLL 212
           M++    +G Q  P S   + SL  L+RT    I  G  I  +P     +  C +CL +L
Sbjct: 7   MSQAVQTNGTQ--PLSKTWELSLYELQRTPQEAITDGLEIVVSPRSLHSELMCPICLDML 64
Query: 213 YEPITTP-CGHSFCRSCLFQSMDRGNK-CPLCRAVLFITPRTCAVSVTLNSIIQKNFP-- 268
              +TT  C H FC  C+  ++  GNK CP CR  L ++ R+       +++I K +P  
Sbjct: 65  KNTMTTKECLHRFCADCIITALRSGNKECPTCRKKL-VSKRSLRPDPNFDALISKIYPSR 123
Query: 269 EEY 271
           +EY
Sbjct: 124 DEY 126

>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human Tripartite Motif-Containing Protein 39 Length = 58

Iteration: 1
 Score = 47.8 bits (112), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/41 (39%), Positives = 29/41 (70%), Gaps = 3/41 (7%)
Query: 205 CTLCLKLLYEPITTPCGHSFCRSCL---FQSMDRGNKCPLC 242
           C++CL+ L EP+   CGH+FC++C+   ++ ++R   CP+C
Sbjct: 18  CSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCPVC 58

>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From Tripartite Motif-containing Protein 31 Length = 73

Iteration: 1
 Score = 46.6 bits (109), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/42 (42%), Positives = 26/42 (61%), Gaps = 3/42 (7%)
Query: 205 CTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGN---KCPLCR 243
           C +CL +L +P+T  CGH+FC  C+ Q  +      KCPLC+
Sbjct: 23  CPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCK 64

>pdb|2YSJ|A Chain A, Solution Structure Of The Ring Domain (1-56) From Tripartite Motif-containing Protein 31 Length = 63

Iteration: 1
 Score = 45.8 bits (107), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/41 (43%), Positives = 25/41 (60%), Gaps = 3/41 (7%)
Query: 205 CTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGN---KCPLC 242
           C +CL +L +P+T  CGH+FC  C+ Q  +      KCPLC
Sbjct: 23  CPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC 63

>pdb|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure Length = 121

Iteration: 1
 Score = 45.8 bits (107), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 37/119 (31%), Positives = 57/119 (47%), Gaps = 8/119 (6%)
Query: 155 DMARDAILSGLQVDPFSNPLQASLQNLERTTASLI--GRRIHGTPERT-DDFDCTLCLKL 211
            M++    +G Q  P S   + SL  L+RT    I  G  I  +P     +  C +CL +
Sbjct: 5   SMSQAVQTNGTQ--PLSKTWELSLYELQRTPQEAITDGLEIVVSPRSLHSELMCPICLDM 62
Query: 212 LYEPITTP-CGHSFCRSCLFQSMDRGNK-CPLCRAVLFITPRTCAVSVTLNSIIQKNFP 268
           L   +TT  C H FC  C+  ++  GNK CP CR  L ++ R+       +++I K +P
Sbjct: 63  LKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKL-VSKRSLRPDPNFDALISKIYP 120

>pdb|1RMD|A Chain A, Rag1 Dimerization Domain Length = 116

Iteration: 1
 Score = 45.1 bits (105), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 21/57 (36%), Positives = 29/57 (50%), Gaps = 1/57 (1%)
Query: 205 CTLCLKLLYEPITTPCGHSFCRSCLFQSMD-RGNKCPLCRAVLFITPRTCAVSVTLN 260
           C +C  +L +P+ T C H FCR C+ + +   G+ CP CR   F T     V   LN
Sbjct: 26  CQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESPVKSFLN 82

>pdb|1Z6U|A Chain A, Np95-Like Ring Finger Protein Isoform B [homo Sapiens] Length = 150

Iteration: 1
 Score = 44.3 bits (103), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/42 (42%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 203 FDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD-RGNKCPLCR 243
           F C  C +L+Y+P+TT C H+ C+ CL +S   +   CP CR
Sbjct: 79  FMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFSCPACR 120

>pdb|2D8T|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring Finger Protein 146 Length = 71

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 15/40 (37%), Positives = 23/40 (57%)
Query: 204 DCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCR 243
           +C +CL+    P++ PC H FC  C+  +   G +C LCR
Sbjct: 17  ECAICLQTCVHPVSLPCKHVFCYLCVKGASWLGKRCALCR 56

>pdb|3FL2|A Chain A, Crystal Structure Of The Ring Domain Of The E3 Ubiquitin- Protein Ligase Uhrf1 Length = 124

Iteration: 1
 Score = 43.1 bits (100), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 31/92 (33%), Positives = 47/92 (51%), Gaps = 12/92 (13%)
Query: 186 ASLIGRRIHGTP------ERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSM-DRGNK 238
           ASL  R   G+P      +  + F C  C +L++ PITT C H+ C+ CL +S   +   
Sbjct: 30  ASLKDRPASGSPFQLFLSKVEETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVFS 89
Query: 239 CPLCRAVLFITPRTCAVSVT--LNSIIQKNFP 268
           CP CR  L    R+ A+ V   L +++ + FP
Sbjct: 90  CPACRYDL---GRSYAMQVNQPLQTVLNQLFP 118

>pdb|1ELW|A Chain A, Crystal Structure Of The Tpr1 Domain Of Hop In Complex With A Hsc70 Peptide Length = 118

Iteration: 1
 Score = 43.1 bits (100), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 35/139 (25%), Positives = 59/139 (42%), Gaps = 27/139 (19%)
Query: 46  HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSA 105
            V +L +KGN+A    N ++A+  YS A  + P + ++  NRS+AY +   + K      
Sbjct: 3   QVNELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGC 62
Query: 106 S--EYRPLNGLDPTTHXXXXXXXXXXXXXXQSNSMKSHLLKANALILLERYDMARDAILS 163
              + +P  G                         K +  KA AL  L R++ A+     
Sbjct: 63  KTVDLKPDWG-------------------------KGYSRKAAALEFLNRFEEAKRTYEE 97
Query: 164 GLQVDPFSNPLQASLQNLE 182
           GL+ +  +  L+  LQN+E
Sbjct: 98  GLKHEANNPQLKEGLQNME 116

>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex Length = 133

Iteration: 1
 Score = 42.0 bits (97), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 14/28 (50%), Positives = 17/28 (60%)
Query: 216 ITTPCGHSFCRSCLFQSMDRGNKCPLCR 243
           ++T CGH FC  CL  S+   N CP CR
Sbjct: 28  VSTECGHVFCSQCLRDSLKNANTCPTCR 55

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	476
1zbo_A	210	Hypothetical protein BPP1347; alpha-beta protein,	2e-32
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	6e-26
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	2e-23
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	8e-23
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	1e-22
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	3e-22
1z6u_A	150	NP95-like ring finger protein isoform B; structura	4e-22
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	6e-21
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	8e-21
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	1e-20
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	5e-20
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	8e-20
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	1e-19
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	7e-19
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	1e-18
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	3e-18
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	9e-18
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	2e-17
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	3e-17
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	6e-17
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	8e-17
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	2e-16
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	5e-16
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	1e-15
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	1e-14
2l6j_A	111	TPR repeat-containing protein associated with HSP;	2e-14
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	2e-14
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	4e-14
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	4e-14
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	4e-14
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	6e-14
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	9e-14
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	2e-13
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	2e-13
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	2e-13
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	2e-13
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	5e-13
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	5e-13
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	6e-13
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	8e-13
2gw1_A	514	Mitochondrial precursor proteins import receptor;	8e-13
2gw1_A	514	Mitochondrial precursor proteins import receptor;	3e-08
2gw1_A	514	Mitochondrial precursor proteins import receptor;	1e-05
2gw1_A	514	Mitochondrial precursor proteins import receptor;	3e-05
2gw1_A	514	Mitochondrial precursor proteins import receptor;	3e-04
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	1e-12
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	1e-12
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	9e-10
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	3e-09
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	3e-08
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	2e-12
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	6e-09
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	9e-09
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	2e-08
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	2e-05
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	2e-12
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	1e-06
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	4e-06
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	4e-05
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	3e-12
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	6e-12
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	2e-11
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	3e-11
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	4e-11
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	3e-06
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	9e-11
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	9e-11
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	1e-10
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	1e-08
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	2e-10
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	3e-10
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	4e-10
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	9e-10
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	1e-08
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	2e-08
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	7e-08
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	1e-07
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	1e-07
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	1e-06
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	1e-04
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	2e-04
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	1e-07
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	1e-06
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	5e-06
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	6e-05
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	3e-04
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	4e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-07
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	3e-07
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	3e-07
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	2e-06
2kat_A	115	Uncharacterized protein; NESG, structure, structur	5e-07
4g1t_A	472	Interferon-induced protein with tetratricopeptide	2e-06
4g1t_A	472	Interferon-induced protein with tetratricopeptide	4e-04
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	2e-06
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	7e-04
3ugm_A	1047	TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xan	4e-06
3ugm_A	1047	TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xan	4e-05
3ugm_A	1047	TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xan	2e-04
3ugm_A	1047	TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xan	4e-04
3ugm_A	1047	TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xan	6e-04
3u4t_A	272	TPR repeat-containing protein; structural genomics	5e-06
3u4t_A	272	TPR repeat-containing protein; structural genomics	7e-06
3u4t_A	272	TPR repeat-containing protein; structural genomics	1e-05
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	6e-06
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	8e-06
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	1e-05
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	2e-05
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	2e-05
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	2e-05
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	3e-05
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	5e-05
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	7e-05
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	5e-04
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	3e-05
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	4e-05
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	4e-05
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	4e-05
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	4e-05
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	4e-04
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	4e-05
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	5e-05
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	7e-05
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	7e-05
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	6e-04
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	8e-05
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	8e-05
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	9e-05
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	1e-04
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	2e-04
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	2e-04
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	2e-04
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	4e-04
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	2e-04
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	3e-04
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	3e-04
3tax_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	3e-04
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	3e-04
2ea5_A	68	Cell growth regulator with ring finger domain prot	4e-04
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	5e-04
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	6e-04
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	7e-04

>1zbo_A Hypothetical protein BPP1347; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.60A {Bordetella parapertussis} SCOP: b.122.1.10 Length = 210

 Score =  122 bits (307), Expect = 2e-32
 Identities = 39/190 (20%), Positives = 64/190 (33%), Gaps = 22/190 (11%)

Query: 289 MPLFVMDVVI-PCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPT--------TGSVA 339
           +PLF +   + P     L +FE RY  MVRR +      G+V+++             +A
Sbjct: 4   IPLFPLSNALFPAGVLRLRVFEIRYLDMVRRCIADGSEFGVVVLEQGTEVRRPDGREVLA 63

Query: 340 DFACEVEITECEPLPDGRFVLEIESRRRFRILRSW-DQDGYRVAEIEWVQDIHPEGVEDR 398
                  I   E        L      RFR+      + G    + E V D  P   E  
Sbjct: 64  RAGTMARIDHWEAPMPALLELACTGTGRFRLHACTQGKYGLWTGQAEPVPDDAPL--EVP 121

Query: 399 ADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVMMPPSQDPERFSFWLATLSD 458
            +L      A+   RL  R ++E        +     ++       D    +   A +  
Sbjct: 122 PELARS---ASALGRLIARLQREGVPPHIMPMAAPFRLD-------DCGWVADRWAEMLS 171

Query: 459 RRPSERLELL 468
             P+++  LL
Sbjct: 172 LPPADKARLL 181

>3l11_A E3 ubiquitin-protein ligase RNF168; E3 ligase, ring domain, DNA damage, chromatin regulator, chromosomal protein, DNA repair, metal-binding; 2.12A {Homo sapiens} Length = 115

 Score =  101 bits (252), Expect = 6e-26
 Identities = 29/86 (33%), Positives = 49/86 (56%), Gaps = 6/86 (6%)

Query: 201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNK-CPLCRAVL-----FITPRTCA 254
            +  C +C+++L EP+T PC H+ C+ C   ++++ +  CP CR  +     + T R   
Sbjct: 14  SECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRRNSL 73

Query: 255 VSVTLNSIIQKNFPEEYAERKSEHDS 280
           V+V L +IIQK++P E   R S  +S
Sbjct: 74  VNVELWTIIQKHYPRECKLRASGQES 99

>3fl2_A E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA damage, DNA repair, ring finger domain, metal binding, DNA replication; 1.75A {Homo sapiens} Length = 124

 Score = 94.6 bits (235), Expect = 2e-23
 Identities = 23/75 (30%), Positives = 36/75 (48%), Gaps = 2/75 (2%)

Query: 201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD-RGNKCPLCRAVLFITPRTCAVSVTL 259
           + F C  C +L++ PITT C H+ C+ CL +S   +   CP CR           V+  L
Sbjct: 51  ETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYD-LGRSYAMQVNQPL 109

Query: 260 NSIIQKNFPEEYAER 274
            +++ + FP     R
Sbjct: 110 QTVLNQLFPGYGNGR 124

>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 Length = 118

 Score = 92.2 bits (230), Expect = 8e-23
 Identities = 35/135 (25%), Positives = 63/135 (46%), Gaps = 23/135 (17%)

Query: 49  DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEY 108
           +L +KGN+A    N ++A+  YS A  + P + ++  NRS+AY +   +           
Sbjct: 6   ELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDY----------- 54

Query: 109 RPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVD 168
                       + A +D  K ++L+ +  K +  KA AL  L R++ A+     GL+ +
Sbjct: 55  ------------QKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFEEAKRTYEEGLKHE 102

Query: 169 PFSNPLQASLQNLER 183
             +  L+  LQN+E 
Sbjct: 103 ANNPQLKEGLQNMEA 117

>4epo_C E3 ubiquitin-protein ligase RNF8; coiled-coil, E3 ubiquitin ligase, protein binding complex; 4.80A {Homo sapiens} Length = 149

 Score = 92.8 bits (230), Expect = 1e-22
 Identities = 24/114 (21%), Positives = 46/114 (40%), Gaps = 1/114 (0%)

Query: 167 VDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCR 226
           +   +  L+ + +  E+  A       H      ++  C +C +   E +T  C HSFC 
Sbjct: 29  IQAKNKELEQTKEEKEKMQAQKEEVLSHMNDVLENELQCIICSEYFIEAVTLNCAHSFCS 88

Query: 227 SCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAERKSEHDS 280
            C+ + M R  +CP+CR  +     +  +   +N ++      E  ER+     
Sbjct: 89  YCINEWMKRKIECPICRKDIKSKTYSLVLDNCINKMVNN-LSSEVKERRIVLIR 141

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans} Length = 126

 Score = 90.7 bits (226), Expect = 3e-22
 Identities = 30/132 (22%), Positives = 58/132 (43%), Gaps = 23/132 (17%)

Query: 52  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 111
            KGN  F++ ++  A+ +Y+ A    P + I+  NR++   ++ +F              
Sbjct: 18  NKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEF-------------- 63

Query: 112 NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS 171
                    + AL D +  + L S  +K ++ KA  L+ +  +  A+ A    LQVDP +
Sbjct: 64  ---------QRALDDCDTCIRLDSKFIKGYIRKAACLVAMREWSKAQRAYEDALQVDPSN 114

Query: 172 NPLQASLQNLER 183
              +  ++N  R
Sbjct: 115 EEAREGVRNCLR 126

>1z6u_A NP95-like ring finger protein isoform B; structural genomics consortium, ligase, ubiquitin-protein ligase, cell cycle regulation, SGC; 2.10A {Homo sapiens} Length = 150

 Score = 91.2 bits (226), Expect = 4e-22
 Identities = 23/75 (30%), Positives = 34/75 (45%), Gaps = 2/75 (2%)

Query: 201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNK-CPLCRAVLFITPRTCAVSVTL 259
             F C  C +L+Y+P+TT C H+ C+ CL +S       CP CR  L         +  L
Sbjct: 77  QSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNYIMI-PNEIL 135

Query: 260 NSIIQKNFPEEYAER 274
            +++   FP     R
Sbjct: 136 QTLLDLFFPGYSKGR 150

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens} Length = 133

 Score = 87.7 bits (218), Expect = 6e-21
 Identities = 31/132 (23%), Positives = 54/132 (40%), Gaps = 23/132 (17%)

Query: 52  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 111
            KGN  F++ ++ +A+ +Y+ A    P D  +  NR++ Y ++ +F              
Sbjct: 21  NKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEF-------------- 66

Query: 112 NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS 171
                    +LALKD E+ + L+   +K +  KA AL  ++ Y  A D     L +D   
Sbjct: 67  ---------QLALKDCEECIQLEPTFIKGYTRKAAALEAMKDYTKAMDVYQKALDLDSSC 117

Query: 172 NPLQASLQNLER 183
                  Q    
Sbjct: 118 KEAADGYQRCMM 129

>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 Length = 166

 Score = 88.2 bits (219), Expect = 8e-21
 Identities = 29/132 (21%), Positives = 52/132 (39%), Gaps = 23/132 (17%)

Query: 52  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 111
            + N  F+  ++E AI  YS+A  + P + I  GNRS AY+R   +              
Sbjct: 18  TQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECY-------------- 63

Query: 112 NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS 171
                      AL DA + + L    +K +  +A + + L ++  A     + ++V P  
Sbjct: 64  ---------GYALGDATRAIELDKKYIKGYYRRAASNMALGKFRAALRDYETVVKVKPHD 114

Query: 172 NPLQASLQNLER 183
              +   Q   +
Sbjct: 115 KDAKMKYQECNK 126

>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* Length = 137

 Score = 87.0 bits (216), Expect = 1e-20
 Identities = 27/121 (22%), Positives = 43/121 (35%), Gaps = 23/121 (19%)

Query: 52  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 111
           ++GNR F    + EA + Y RA    P   +   NR+  Y+++ Q               
Sbjct: 14  EQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQP-------------- 59

Query: 112 NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS 171
                    E AL D  + L L   S+K+H       + +E YD A   +     +    
Sbjct: 60  ---------EQALADCRRALELDGQSVKAHFFLGQCQLEMESYDEAIANLQRAYSLAKEQ 110

Query: 172 N 172
            
Sbjct: 111 R 111

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus} Length = 164

 Score = 85.9 bits (213), Expect = 5e-20
 Identities = 32/133 (24%), Positives = 52/133 (39%), Gaps = 24/133 (18%)

Query: 52  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 111
            +GN A     + +AI  Y++A +I P +PI L NR++AY    Q               
Sbjct: 16  SEGNAAMARKEYSKAIDLYTQALSIAPANPIYLSNRAAAYSASGQH-------------- 61

Query: 112 NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS 171
                    E A +DAE    +     K+      A   +  Y  A++A   G++ +  +
Sbjct: 62  ---------EKAAEDAELATVVDPKYSKAWSRLGLARFDMADYKGAKEAYEKGIEAEG-N 111

Query: 172 NPLQASLQNLERT 184
               A  + LE T
Sbjct: 112 GGSDAMKRGLETT 124

>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 71

 Score = 82.2 bits (203), Expect = 8e-20
 Identities = 16/51 (31%), Positives = 25/51 (49%)

Query: 196 TPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL 246
           T       +C +CL+    P++ PC H FC  C+  +   G +C LCR  +
Sbjct: 9   TAPSLTVPECAICLQTCVHPVSLPCKHVFCYLCVKGASWLGKRCALCRQEI 59

>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} Length = 126

 Score = 83.5 bits (207), Expect = 1e-19
 Identities = 23/128 (17%), Positives = 48/128 (37%), Gaps = 23/128 (17%)

Query: 52  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 111
            +G   F +S++  A+  Y+      P D     NR++A  ++  F              
Sbjct: 9   LEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSF-------------- 54

Query: 112 NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS 171
                      A+ D  K +    N +++++ KA A I ++ Y  A + + +    D   
Sbjct: 55  ---------PEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLDAARTKDAEV 105

Query: 172 NPLQASLQ 179
           N   ++ +
Sbjct: 106 NNGSSARE 113

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1 Length = 131

 Score = 81.5 bits (202), Expect = 7e-19
 Identities = 26/132 (19%), Positives = 54/132 (40%), Gaps = 23/132 (17%)

Query: 52  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 111
            +GN   +  NFE A+  Y +A  + P + +   NR++AY ++  +              
Sbjct: 17  TEGNEQMKVENFEAAVHFYGKAIELNPANAVYFCNRAAAYSKLGNY-------------- 62

Query: 112 NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS 171
                      A++D E+ + +     K++     AL  L ++  A       L++DP +
Sbjct: 63  ---------AGAVQDCERAICIDPAYSKAYGRMGLALSSLNKHVEAVAYYKKALELDPDN 113

Query: 172 NPLQASLQNLER 183
              +++L+  E 
Sbjct: 114 ETYKSNLKIAEL 125

>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 Length = 281

 Score = 84.6 bits (209), Expect = 1e-18
 Identities = 27/131 (20%), Positives = 43/131 (32%), Gaps = 23/131 (17%)

Query: 52  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 111
           ++GNR F    + EA + Y RA    P   +   NR+  Y+++ Q               
Sbjct: 9   EQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQP-------------- 54

Query: 112 NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS 171
                    E AL D  + L L   S+K+H       + +E YD A   +     +    
Sbjct: 55  ---------EQALADCRRALELDGQSVKAHFFLGQCQLEMESYDEAIANLQRAYSLAKEQ 105

Query: 172 NPLQASLQNLE 182
                      
Sbjct: 106 RLNFGDDIPSA 116

>2ckl_B Ubiquitin ligase protein RING2; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_C 2h0d_B Length = 165

 Score = 81.2 bits (200), Expect = 3e-18
 Identities = 34/134 (25%), Positives = 55/134 (41%), Gaps = 8/134 (5%)

Query: 155 DMARDAILSGLQVDPFSNPLQASLQNLERTTASLIG---RRIHGTPERTDDFDCTLCLKL 211
            M++    +G Q  P S   + SL  L+RT    I      +        +  C +CL +
Sbjct: 6   HMSQAVQTNGTQ--PLSKTWELSLYELQRTPQEAITDGLEIVVSPRSLHSELMCPICLDM 63

Query: 212 LYEPITTP-CGHSFCRSCLFQSMDRGNK-CPLCRAVLFITPRTCAVSVTLNSIIQKNFPE 269
           L   +TT  C H FC  C+  ++  GNK CP CR    ++ R+       +++I K +P 
Sbjct: 64  LKNTMTTKECLHRFCADCIITALRSGNKECPTCRKK-LVSKRSLRPDPNFDALISKIYPS 122

Query: 270 EYAERKSEHDSLIN 283
                  +   L  
Sbjct: 123 RDEYEAHQERVLAR 136

>2ckl_A Polycomb group ring finger protein 4; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_B 2h0d_A Length = 108

 Score = 77.9 bits (192), Expect = 9e-18
 Identities = 19/85 (22%), Positives = 31/85 (36%), Gaps = 3/85 (3%)

Query: 201 DDFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSV-- 257
               C LC     +  T   C HSFC++C+ + ++    CP+C   +  T     +    
Sbjct: 14  PHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLLNIRSDK 73

Query: 258 TLNSIIQKNFPEEYAERKSEHDSLI 282
           TL  I+ K  P  +           
Sbjct: 74  TLQDIVYKLVPGLFKNEMKRRRDFY 98

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 148

 Score = 78.2 bits (193), Expect = 2e-17
 Identities = 22/134 (16%), Positives = 56/134 (41%), Gaps = 26/134 (19%)

Query: 52  QKGNRAFRESNFEEAISNYSRANNIKP---GDPIVLGNRSSAYIRISQFLKHRPPSASEY 108
           ++GN  F+  ++  A++ Y++A  +        ++  NR++ ++++  +           
Sbjct: 33  KEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDY----------- 81

Query: 109 RPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVD 168
                       + A  +A K +      +K+   ++ AL  L R D A   +   + ++
Sbjct: 82  ------------DKAETEASKAIEKDGGDVKALYRRSQALEKLGRLDQAVLDLQRCVSLE 129

Query: 169 PFSNPLQASLQNLE 182
           P +   Q +L+N+ 
Sbjct: 130 PKNKVFQEALRNIS 143

>2ecy_A TNF receptor-associated factor 3; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 66

 Score = 74.8 bits (184), Expect = 3e-17
 Identities = 16/48 (33%), Positives = 23/48 (47%), Gaps = 1/48 (2%)

Query: 201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGN-KCPLCRAVLF 247
           D + C  C  +L  P  T CGH FC SC+   +   + KC  C+  + 
Sbjct: 14  DKYKCEKCHLVLCSPKQTECGHRFCESCMAALLSSSSPKCTACQESIV 61

>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 72

 Score = 74.4 bits (183), Expect = 6e-17
 Identities = 16/48 (33%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 201 DDFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRGNKCPLCRAVLF 247
               C++C   L +  T T C H+FC+SC+ +     N+CP C  V+ 
Sbjct: 14  PYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVH 61

>2csy_A Zinc finger protein 183-like 1; ring finger protein 161, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 81

 Score = 74.1 bits (182), Expect = 8e-17
 Identities = 14/47 (29%), Positives = 20/47 (42%)

Query: 198 ERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRA 244
           E    F C +C +    P+ T C H FC SC  +      +C +C  
Sbjct: 11  EEEIPFRCFICRQAFQNPVVTKCRHYFCESCALEHFRATPRCYICDQ 57

>1jm7_A BRCA1, breast cancer type 1 susceptibility protein; ring finger, zinc-binding protein, heterodimer, ubiquitin ligase, antitumor; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 112

 Score = 74.0 bits (182), Expect = 2e-16
 Identities = 20/68 (29%), Positives = 39/68 (57%), Gaps = 5/68 (7%)

Query: 201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNK---CPLCRAVLFITPRTCAVSV 257
              +C +CL+L+ EP++T C H FC+ C+ + +++      CPLC+    IT R+   S 
Sbjct: 20  KILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKND--ITKRSLQEST 77

Query: 258 TLNSIIQK 265
             + ++++
Sbjct: 78  RFSQLVEE 85

>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 Length = 131

 Score = 73.5 bits (181), Expect = 5e-16
 Identities = 20/139 (14%), Positives = 47/139 (33%), Gaps = 31/139 (22%)

Query: 52  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 111
           + GN A+++ +F+ A+ +Y +A  + P +   + N+++ Y     +              
Sbjct: 9   ELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDY-------------- 54

Query: 112 NGLDPTTHAELALKDAEKLLNLQSNSM-------KSHLLKANALILLERYDMARDAILSG 164
                        +  EK + +   +        K++    N+    E+Y  A       
Sbjct: 55  ---------NKCRELCEKAIEVGRENREDYRQIAKAYARIGNSYFKEEKYKDAIHFYNKS 105

Query: 165 LQVDPFSNPLQASLQNLER 183
           L     +  +    Q  E+
Sbjct: 106 LAEHR-TPDVLKKCQQAEK 123

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans} Length = 127

 Score = 72.3 bits (178), Expect = 1e-15
 Identities = 22/138 (15%), Positives = 45/138 (32%), Gaps = 31/138 (22%)

Query: 53  KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLN 112
            GN A+++ +FE+A  +Y +A  + P +     N+++ Y    +F               
Sbjct: 14  LGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKF--------------- 58

Query: 113 GLDPTTHAELALKDAEKLLNLQSNSM-------KSHLLKANALILLERYDMARDAILSGL 165
                      ++  EK + +   +        K+     NA        +A       L
Sbjct: 59  --------AECVQFCEKAVEVGRETRADYKLIAKAMSRAGNAFQKQNDLSLAVQWFHRSL 110

Query: 166 QVDPFSNPLQASLQNLER 183
                   L   ++ LE+
Sbjct: 111 SEFR-DPELVKKVKELEK 127

>2ysl_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 73

 Score = 67.8 bits (166), Expect = 1e-14
 Identities = 17/47 (36%), Positives = 27/47 (57%), Gaps = 3/47 (6%)

Query: 201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNK---CPLCRA 244
           ++  C +CL +L +P+T  CGH+FC  C+ Q  +       CPLC+ 
Sbjct: 19  EEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKT 65

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae} Length = 111

 Score = 68.5 bits (168), Expect = 2e-14
 Identities = 18/132 (13%), Positives = 46/132 (34%), Gaps = 30/132 (22%)

Query: 53  KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLN 112
           +GN  F++  + EA+  Y +    +P +P+   N++ A I++ ++               
Sbjct: 10  QGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEY--------------- 54

Query: 113 GLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN 172
                     A++  ++ L   S +    +        LE    A  ++   +       
Sbjct: 55  --------TQAIQMCQQGLRYTSTAEHVAIRSKLQY-RLELAQGAVGSVQIPVV------ 99

Query: 173 PLQASLQNLERT 184
            +    +  +R+
Sbjct: 100 EVDELPEGYDRS 111

>3hct_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 3hcu_A 2eci_A 2jmd_A Length = 118

 Score = 68.7 bits (168), Expect = 2e-14
 Identities = 21/66 (31%), Positives = 33/66 (50%), Gaps = 3/66 (4%)

Query: 201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSM-DRGNKCPLCRAVLFITPRTCAVSVTL 259
             ++C +CL  L E + TPCGH FC++C+ +S+ D G+KCP+   +L             
Sbjct: 17  SKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILL--ENQLFPDNFA 74

Query: 260 NSIIQK 265
              I  
Sbjct: 75  KREILS 80

>3ng2_A RNF4, snurf, ring finger protein 4; ring domain, E3 ligase, ubiquitylation, sumoylation, zinc-FI metal binding protein; 1.80A {Rattus norvegicus} Length = 71

 Score = 66.4 bits (162), Expect = 4e-14
 Identities = 17/56 (30%), Positives = 24/56 (42%), Gaps = 7/56 (12%)

Query: 198 ERTDDFDCTLCLKLLYEPI-------TTPCGHSFCRSCLFQSMDRGNKCPLCRAVL 246
             +    C +C+    E +       +T CGH FC  CL  S+   N CP CR  +
Sbjct: 6   RPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 61

>2ysj_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 63

 Score = 65.9 bits (161), Expect = 4e-14
 Identities = 17/45 (37%), Positives = 26/45 (57%), Gaps = 3/45 (6%)

Query: 201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNK---CPLC 242
           ++  C +CL +L +P+T  CGH+FC  C+ Q  +       CPLC
Sbjct: 19  EEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC 63

>2ea6_A Ring finger protein 4; RNF4, RES4-26, ring domain, zinc- binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 69

 Score = 66.1 bits (161), Expect = 4e-14
 Identities = 17/54 (31%), Positives = 24/54 (44%), Gaps = 7/54 (12%)

Query: 200 TDDFDCTLCLKLLYEPI-------TTPCGHSFCRSCLFQSMDRGNKCPLCRAVL 246
           +    C +C+    E +       +T CGH FC  CL  S+   N CP CR  +
Sbjct: 13  SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 66

>1rmd_A RAG1; V(D)J recombination, antibody, MAD, ring finger, zinc binuclear cluster, zinc finger, DNA-binding protein; 2.10A {Mus musculus} SCOP: g.37.1.1 g.44.1.1 Length = 116

 Score = 67.2 bits (164), Expect = 6e-14
 Identities = 21/61 (34%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR-GNKCPLCRAVLFITPRTCAVSVTL 259
               C +C  +L +P+ T C H FCR C+ + +   G+ CP CR   F T     V   L
Sbjct: 22  KSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESPVKSFL 81

Query: 260 N 260
           N
Sbjct: 82  N 82

>2egp_A Tripartite motif-containing protein 34; ZF-C3HC4 domain, tripartite motif protein 34, interferon- responsive finger protein 1; NMR {Homo sapiens} Length = 79

 Score = 65.4 bits (160), Expect = 9e-14
 Identities = 20/71 (28%), Positives = 34/71 (47%), Gaps = 9/71 (12%)

Query: 201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNK-------CPLCRAVLFITPRTC 253
           ++  C +CL+LL EP++  CGHS CR+C+  S             CP+C      +    
Sbjct: 11  EEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGIS--YSFEHL 68

Query: 254 AVSVTLNSIIQ 264
             +  L +I++
Sbjct: 69  QANQHLANIVE 79

>2xeu_A Ring finger protein 4; transcription, zinc-finger, metal-binding; HET: SUC; 1.50A {Homo sapiens} Length = 64

 Score = 64.0 bits (156), Expect = 2e-13
 Identities = 17/52 (32%), Positives = 23/52 (44%), Gaps = 7/52 (13%)

Query: 202 DFDCTLCLKLLYEPI-------TTPCGHSFCRSCLFQSMDRGNKCPLCRAVL 246
              C +C+    E +       +T CGH FC  CL  S+   N CP CR  +
Sbjct: 3   MVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 54

>2ecw_A Tripartite motif-containing protein 30; metal binding protein, structural genomics, NPPSFA; NMR {Mus musculus} Length = 85

 Score = 64.7 bits (158), Expect = 2e-13
 Identities = 18/50 (36%), Positives = 29/50 (58%), Gaps = 6/50 (12%)

Query: 201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNK------CPLCRA 244
           ++  C +CL+LL EP++  C HSFCR+C+  + +          CP+CR 
Sbjct: 18  EEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRV 67

>3hcs_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.20A {Homo sapiens} Length = 170

 Score = 67.0 bits (163), Expect = 2e-13
 Identities = 21/66 (31%), Positives = 33/66 (50%), Gaps = 3/66 (4%)

Query: 201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSM-DRGNKCPLCRAVLFITPRTCAVSVTL 259
             ++C +CL  L E + TPCGH FC++C+ +S+ D G+KCP+   +L             
Sbjct: 17  SKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILL--ENQLFPDNFA 74

Query: 260 NSIIQK 265
              I  
Sbjct: 75  KREILS 80

>2ecv_A Tripartite motif-containing protein 5; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 85

 Score = 64.6 bits (158), Expect = 2e-13
 Identities = 20/70 (28%), Positives = 37/70 (52%), Gaps = 8/70 (11%)

Query: 201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNK------CPLCRAVLFITPRTCA 254
           ++  C +CL+LL +P++  CGHSFC++CL  +  +         CP+CR      P    
Sbjct: 18  EEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRIS--YQPENIR 75

Query: 255 VSVTLNSIIQ 264
            +  + +I++
Sbjct: 76  PNRHVANIVE 85

>3knv_A TNF receptor-associated factor 2; cross-brace, alternative splicing, apoptosis, cytoplasm, metal-binding, UBL conjugation, zinc, zinc-finger; 1.90A {Homo sapiens} Length = 141

 Score = 65.5 bits (159), Expect = 5e-13
 Identities = 17/75 (22%), Positives = 25/75 (33%), Gaps = 7/75 (9%)

Query: 201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNK-CPLCRAVLFITPRTCAVSVTL 259
             + C+ C  +L  P    CGH +C  CL   +  G + C  C            +    
Sbjct: 30  AKYLCSACRNVLRRPFQAQCGHRYCSFCLASILSSGPQNCAACVHEGIYEEGISILE--- 86

Query: 260 NSIIQKNFPEEYAER 274
                  FP+  A R
Sbjct: 87  ---SSSAFPDNAARR 98

>2ecj_A Tripartite motif-containing protein 39; TRIM39, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 58

 Score = 62.7 bits (153), Expect = 5e-13
 Identities = 15/45 (33%), Positives = 28/45 (62%), Gaps = 3/45 (6%)

Query: 201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNK---CPLC 242
            +  C++CL+ L EP+   CGH+FC++C+ +  +   +   CP+C
Sbjct: 14  VEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCPVC 58

>3ztg_A E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mRNA processing, mRNA splicing; NMR {Homo sapiens} Length = 92

 Score = 63.6 bits (155), Expect = 6e-13
 Identities = 18/80 (22%), Positives = 35/80 (43%), Gaps = 5/80 (6%)

Query: 201 DDFDCTLCLKLLYEPITTP-CGHSFCRSCLFQSMDRGNK--CPLCRAVLFITPRTCAVSV 257
           D+  C +C  ++ + +  P CG+S+C  C+  ++   ++  CP C     ++P     + 
Sbjct: 12  DELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQN-DVSPDALIANK 70

Query: 258 TLNSIIQKNFPEEYAERKSE 277
            L   +  NF  E    K  
Sbjct: 71  FLRQAV-NNFKNETGYTKRL 89

>2yur_A Retinoblastoma-binding protein 6; P53-associated cellular protein of testis, proliferation potential-related protein, protein P2P-R; NMR {Homo sapiens} Length = 74

 Score = 62.8 bits (153), Expect = 8e-13
 Identities = 12/47 (25%), Positives = 25/47 (53%), Gaps = 3/47 (6%)

Query: 201 DDFDCTLCLKLLYEPITTP-CGHSFCRSCLFQSMDRGNK--CPLCRA 244
           D+  C +C  ++ + +  P CG+S+C  C+  ++   ++  CP C  
Sbjct: 14  DELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQ 60

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae} Length = 514

 Score = 69.4 bits (170), Expect = 8e-13
 Identities = 28/132 (21%), Positives = 53/132 (40%), Gaps = 25/132 (18%)

Query: 50  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYR 109
           L  KGN+ FR   +++AI  Y+ A  +K  DP+   N S+ Y+ +               
Sbjct: 9   LKDKGNQFFRNKKYDDAIKYYNWALELKE-DPVFYSNLSACYVSVGDL------------ 55

Query: 110 PLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAI-LSGLQVD 168
                      +  ++ + K L L+ +  K  L +A+A   L ++  A   + +  L  D
Sbjct: 56  -----------KKVVEMSTKALELKPDYSKVLLRRASANEGLGKFADAMFDLSVLSLNGD 104

Query: 169 PFSNPLQASLQN 180
                ++  L+ 
Sbjct: 105 FNDASIEPMLER 116

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae} Length = 514

 Score = 54.7 bits (132), Expect = 3e-08
 Identities = 19/134 (14%), Positives = 39/134 (29%), Gaps = 16/134 (11%)

Query: 53  KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLN 112
                  +++F++A+  Y  A  ++     +    +    +    L  R P+   +    
Sbjct: 378 FAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGK--ATLLTRNPTVENF---- 431

Query: 113 GLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP-FS 171
                     A    EK   L   S ++ +  A   +  E  D A         +     
Sbjct: 432 --------IEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFEESADLARTME 483

Query: 172 NPLQA-SLQNLERT 184
             LQA +     + 
Sbjct: 484 EKLQAITFAEAAKV 497

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae} Length = 514

 Score = 47.0 bits (112), Expect = 1e-05
 Identities = 12/118 (10%), Positives = 33/118 (27%), Gaps = 23/118 (19%)

Query: 52  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 111
            +G   F   N+++A  ++ +A  + P +       +    R ++F              
Sbjct: 309 HRGQMNFILQNYDQAGKDFDKAKELDPENIFPYIQLACLAYRENKF-------------- 354

Query: 112 NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 169
                    +       +       + +     A  L     +D A       ++++ 
Sbjct: 355 ---------DDCETLFSEAKRKFPEAPEVPNFFAEILTDKNDFDKALKQYDLAIELEN 403

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae} Length = 514

 Score = 45.1 bits (107), Expect = 3e-05
 Identities = 13/118 (11%), Positives = 32/118 (27%), Gaps = 26/118 (22%)

Query: 55  NRA---FRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 111
             A      ++  E  + + +A  +   +  V  +R      +  +              
Sbjct: 275 YMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMNFILQNY-------------- 320

Query: 112 NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 169
                    + A KD +K   L   ++  ++  A       ++D          +  P
Sbjct: 321 ---------DQAGKDFDKAKELDPENIFPYIQLACLAYRENKFDDCETLFSEAKRKFP 369

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae} Length = 514

 Score = 42.0 bits (99), Expect = 3e-04
 Identities = 21/161 (13%), Positives = 46/161 (28%), Gaps = 26/161 (16%)

Query: 11  AEATSSGFPLVGIDDVDDYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRE--SNFEEAIS 68
           A       P +   + D+   A++   +   + Y    +   K + +F +    FEE + 
Sbjct: 165 ASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLD 224

Query: 69  NYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE 128
             +    +K    I L +        +                           A +D +
Sbjct: 225 KNNEDEKLKEKLAISLEHTGIFKFLKNDP-----------------------LGAHEDIK 261

Query: 129 KLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 169
           K + L      S++  A  +          +     L++D 
Sbjct: 262 KAIELFPRVN-SYIYMALIMADRNDSTEYYNYFDKALKLDS 301

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1 Length = 198

 Score = 66.0 bits (161), Expect = 1e-12
 Identities = 27/185 (14%), Positives = 59/185 (31%), Gaps = 44/185 (23%)

Query: 15  SSGFPLVGIDDVDDYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRAN 74
           SSG   +        I+    E     ++    FD+ ++GN  F+++   EAI  Y  A 
Sbjct: 11  SSGRENLYFQGAKKSIYDYTDE-----EKVQSAFDIKEEGNEFFKKNEINEAIVKYKEAL 65

Query: 75  NIKPGDP----------------IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT 118
           +                          N ++ Y +   +                     
Sbjct: 66  DFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDY--------------------- 104

Query: 119 HAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASL 178
               A+  A K+L +  N++K+      A +     + A++ +     ++P +  ++ S 
Sbjct: 105 --PKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSY 162

Query: 179 QNLER 183
           +    
Sbjct: 163 ELCVN 167

>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 Length = 450

 Score = 68.6 bits (168), Expect = 1e-12
 Identities = 21/134 (15%), Positives = 50/134 (37%), Gaps = 23/134 (17%)

Query: 50  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYR 109
            ++ G +        +A+S +  A +  P + I    R++ ++ + +             
Sbjct: 29  HLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKS------------ 76

Query: 110 PLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 169
                      + AL D  K++ L+ +   + L + + L+   + D A D     L+ +P
Sbjct: 77  -----------KAALPDLTKVIQLKMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNP 125

Query: 170 FSNPLQASLQNLER 183
             N  + +   L +
Sbjct: 126 SENEEKEAQSQLIK 139

>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 Length = 450

 Score = 59.3 bits (144), Expect = 9e-10
 Identities = 16/138 (11%), Positives = 45/138 (32%), Gaps = 27/138 (19%)

Query: 50  LVQKGNRAFRESNFEEAISNYSRANNIKPGDP----IVLGNRSSAYIRISQFLKHRPPSA 105
           L++      R+  + +A S Y      +P                + +  +         
Sbjct: 260 LIESAEELIRDGRYTDATSKYESVMKTEPSIAEYTVRSKERICHCFSKDEKP-------- 311

Query: 106 SEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGL 165
                            A++   ++L ++ +++ +   +A A ++ E YD A     +  
Sbjct: 312 ---------------VEAIRVCSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYETAQ 356

Query: 166 QVDPFSNPLQASLQNLER 183
           + +     ++  L+  +R
Sbjct: 357 EHNENDQQIREGLEKAQR 374

>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 Length = 450

 Score = 58.2 bits (141), Expect = 3e-09
 Identities = 14/127 (11%), Positives = 43/127 (33%), Gaps = 23/127 (18%)

Query: 43  RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRP 102
           +   +  L  +   AF   ++  AI+   +   +   D  +   R+  +I+  +      
Sbjct: 139 KSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCVWDAELRELRAECFIKEGEP----- 193

Query: 103 PSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAIL 162
                               A+ D +    L++++ ++    +     L  ++++   + 
Sbjct: 194 ------------------RKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVR 235

Query: 163 SGLQVDP 169
             L++D 
Sbjct: 236 ECLKLDQ 242

>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 Length = 450

 Score = 54.7 bits (132), Expect = 3e-08
 Identities = 14/120 (11%), Positives = 39/120 (32%), Gaps = 8/120 (6%)

Query: 50  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYR 109
            +Q+G+   ++   +EA  ++ +     P +      +  + +  S  ++     A    
Sbjct: 97  RLQRGHLLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQ--SQLIKSDEMQRLRSQALNAF 154

Query: 110 PLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 169
                        A+   +K+L +     +   L+A   I       A   + +  ++  
Sbjct: 155 GSGDY------TAAIAFLDKILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLKN 208

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus} Length = 359

 Score = 67.3 bits (165), Expect = 2e-12
 Identities = 19/120 (15%), Positives = 45/120 (37%), Gaps = 23/120 (19%)

Query: 50  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYR 109
            ++ G +        +A+S +  A +  P + I    R++ ++ + +             
Sbjct: 6   HLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKS------------ 53

Query: 110 PLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 169
                      + AL D  K++ L+ +   + L + + L+   + D A D     L+ +P
Sbjct: 54  -----------KAALPDLTKVIALKMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNP 102

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus} Length = 359

 Score = 56.5 bits (137), Expect = 6e-09
 Identities = 13/120 (10%), Positives = 39/120 (32%), Gaps = 8/120 (6%)

Query: 50  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYR 109
            +Q+G+   ++   +EA  ++ +     P +         + +  +  ++     A +  
Sbjct: 74  RLQRGHLLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAE--SQLVKADEMQRLRSQALDAF 131

Query: 110 PLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 169
                        A+   +K+L +     +   L+A   I       A   + +  ++  
Sbjct: 132 DGADY------TAAITFLDKILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLKS 185

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus} Length = 359

 Score = 56.1 bits (136), Expect = 9e-09
 Identities = 14/115 (12%), Positives = 37/115 (32%), Gaps = 27/115 (23%)

Query: 47  VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----IVLGNRSSAYIRISQFLKHRP 102
           +  L++      R+  + +A S Y      +P                + +  +      
Sbjct: 234 LNKLIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKP----- 288

Query: 103 PSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMA 157
                               A++   ++L ++ +++ +   +A A ++ E YD A
Sbjct: 289 ------------------VEAIRICSEVLQMEPDNVNALKDRAEAYLIEEMYDEA 325

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus} Length = 359

 Score = 55.4 bits (134), Expect = 2e-08
 Identities = 18/142 (12%), Positives = 47/142 (33%), Gaps = 25/142 (17%)

Query: 28  DYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNR 87
                 E E  L   +   +  L  +   AF  +++  AI+   +   +   D  +   R
Sbjct: 103 SEQEEKEAESQL--VKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCVWDAELRELR 160

Query: 88  SSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANA 147
           +  +I+  +                          A+ D +    L+S++ ++    +  
Sbjct: 161 AECFIKEGEP-----------------------RKAISDLKAASKLKSDNTEAFYKISTL 197

Query: 148 LILLERYDMARDAILSGLQVDP 169
              L  ++++   +   L++D 
Sbjct: 198 YYQLGDHELSLSEVRECLKLDQ 219

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus} Length = 359

 Score = 45.3 bits (108), Expect = 2e-05
 Identities = 16/103 (15%), Positives = 31/103 (30%), Gaps = 26/103 (25%)

Query: 55  NRA---FRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 111
                  ++    EAI   S    ++P +   L +R+ AY+    +              
Sbjct: 277 RICHCFSKDEKPVEAIRICSEVLQMEPDNVNALKDRAEAYLIEEMY-------------- 322

Query: 112 NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERY 154
                    + A++D E       N  +       A  LL++ 
Sbjct: 323 ---------DEAIQDYEAAQEHNENDQQIREGLEKAQRLLKQS 356

>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 Length = 537

 Score = 67.8 bits (166), Expect = 2e-12
 Identities = 28/118 (23%), Positives = 43/118 (36%), Gaps = 23/118 (19%)

Query: 40  PWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLK 99
           P  R  +   L  +GN  F   NF EAI  Y  A  + P +P+   N S+ YI       
Sbjct: 18  PSQRQAYAVQLKNRGNHFFTAKNFNEAIKYYQYAIELDPNEPVFYSNISACYISTGDL-- 75

Query: 100 HRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMA 157
                                E  ++   K L ++ +  K+ L +A+A   L  +  A
Sbjct: 76  ---------------------EKVIEFTTKALEIKPDHSKALLRRASANESLGNFTDA 112

>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 Length = 537

 Score = 49.7 bits (119), Expect = 1e-06
 Identities = 17/134 (12%), Positives = 36/134 (26%), Gaps = 9/134 (6%)

Query: 53  KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLN 112
                    +F+ AI  Y  A  ++     +         + +   +             
Sbjct: 384 FAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQ-SSQDPTQLDEE 442

Query: 113 GLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP-FS 171
                     A+K   K   L   S ++ +  A   + +E+ D A +       +     
Sbjct: 443 KF------NAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILARTMD 496

Query: 172 NPLQA-SLQNLERT 184
             LQA +     + 
Sbjct: 497 EKLQATTFAEAAKI 510

>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 Length = 537

 Score = 48.2 bits (115), Expect = 4e-06
 Identities = 14/108 (12%), Positives = 29/108 (26%), Gaps = 24/108 (22%)

Query: 50  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYR 109
           L   G   F ++N  +A      + N+ P  P      +                     
Sbjct: 246 LCYTGIFHFLKNNLLDAQVLLQESINLHP-TPNSYIFLALTLADKENS------------ 292

Query: 110 PLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMA 157
                      +   K  +K ++L      ++  +     +L+ Y  A
Sbjct: 293 -----------QEFFKFFQKAVDLNPEYPPTYYHRGQMYFILQDYKNA 329

>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 Length = 537

 Score = 45.1 bits (107), Expect = 4e-05
 Identities = 13/108 (12%), Positives = 34/108 (31%), Gaps = 23/108 (21%)

Query: 50  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYR 109
            +        + N +E    + +A ++ P  P    +R   Y  +  +            
Sbjct: 279 YIFLALTLADKENSQEFFKFFQKAVDLNPEYPPTYYHRGQMYFILQDY------------ 326

Query: 110 PLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMA 157
                      + A +D +K  +L   ++  ++  A  L    ++  +
Sbjct: 327 -----------KNAKEDFQKAQSLNPENVYPYIQLACLLYKQGKFTES 363

>3lrq_A E3 ubiquitin-protein ligase TRIM37; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; HET: MSE; 2.29A {Homo sapiens} Length = 100

 Score = 61.8 bits (150), Expect = 3e-12
 Identities = 14/48 (29%), Positives = 24/48 (50%), Gaps = 2/48 (4%)

Query: 201 DDFDCTLCLKLLYEP-ITTPCGHSFCRSCLFQSMDRGN-KCPLCRAVL 246
           + F C +C++ L +  +   C    C SC+ + +     +CP CRA L
Sbjct: 21  EVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPL 68

>2y43_A E3 ubiquitin-protein ligase RAD18; DNA repair, metal-binding, translesion synthesis, UB conjugation pathway; 1.80A {Homo sapiens} Length = 99

 Score = 60.9 bits (148), Expect = 6e-12
 Identities = 13/66 (19%), Positives = 28/66 (42%), Gaps = 3/66 (4%)

Query: 201 DDFDCTLCLKLLYEPITTP-CGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTL 259
           D   C +C +     +  P C H++C  C+ + +    +CP C     +T      +  L
Sbjct: 21  DLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVT--VTEPDLKNNRIL 78

Query: 260 NSIIQK 265
           + +++ 
Sbjct: 79  DELVKS 84

>1bor_A Transcription factor PML; proto-oncogene, nuclear bodies (PODS), leukemia, transcription regulation; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 56

 Score = 58.1 bits (141), Expect = 2e-11
 Identities = 15/40 (37%), Positives = 19/40 (47%), Gaps = 3/40 (7%)

Query: 205 CTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRA 244
           C  C      P   PC H+ C  CL  S   G +CP+C+A
Sbjct: 9   CQQCQAEAKCPKLLPCLHTLCSGCLEAS---GMQCPICQA 45

>1jm7_B BARD1, BRCA1-associated ring domain protein 1; ring finger, zinc-binding protein, heterodimer, ubiquitin ligase, antitumor; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 117

 Score = 59.5 bits (144), Expect = 3e-11
 Identities = 18/62 (29%), Positives = 30/62 (48%), Gaps = 5/62 (8%)

Query: 205 CTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSII 263
           C+ C  +L EP+    C H FC +C+   +  G  CP+C        +   ++  L+S+I
Sbjct: 25  CSRCTNILREPVCLGGCEHIFCSNCVSDCI--GTGCPVCYTP--AWIQDLKINRQLDSMI 80

Query: 264 QK 265
           Q 
Sbjct: 81  QL 82

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus} Length = 133

 Score = 59.8 bits (144), Expect = 4e-11
 Identities = 17/50 (34%), Positives = 22/50 (44%), Gaps = 7/50 (14%)

Query: 201 DDFDCTLCLKLLYE-------PITTPCGHSFCRSCLFQSMDRGNKCPLCR 243
               C +C+    E        ++T CGH FC  CL  S+   N CP CR
Sbjct: 6   GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 55

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus} Length = 133

 Score = 45.9 bits (108), Expect = 3e-06
 Identities = 19/61 (31%), Positives = 26/61 (42%), Gaps = 7/61 (11%)

Query: 191 RRIHGTPERTDDFDCTLCLKLLYEPI-------TTPCGHSFCRSCLFQSMDRGNKCPLCR 243
           +R H     +    C +C+    E +       +T CGH FC  CL  S+   N CP CR
Sbjct: 61  KRYHPIYIGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 120

Query: 244 A 244
            
Sbjct: 121 K 121

>2y1n_A E3 ubiquitin-protein ligase; ligase-transferase complex, ubiquitin ring E3 ligase; HET: PTR; 2.00A {Homo sapiens} PDB: 2y1m_A* 4a4c_A* 4a4b_A* 1fbv_A* 3vgo_A 4a49_A* 2k4d_A 2ldr_A* Length = 389

 Score = 62.5 bits (151), Expect = 9e-11
 Identities = 15/48 (31%), Positives = 20/48 (41%), Gaps = 1/48 (2%)

Query: 198 ERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD-RGNKCPLCRA 244
             +    C +C +   +    PCGH  C SCL    +  G  CP CR 
Sbjct: 328 MGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRC 375

>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 Length = 477

 Score = 62.8 bits (153), Expect = 9e-11
 Identities = 29/132 (21%), Positives = 52/132 (39%), Gaps = 23/132 (17%)

Query: 52  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 111
            + N  F+  ++E AI  YS+A  + P + I  GNRS AY+R   +              
Sbjct: 11  TQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECY-------------- 56

Query: 112 NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS 171
                      AL DA + + L    +K +  +A + + L ++  A     + ++V P  
Sbjct: 57  ---------GYALGDATRAIELDKKYIKGYYRRAASNMALGKFRAALRDYETVVKVKPHD 107

Query: 172 NPLQASLQNLER 183
              +   Q   +
Sbjct: 108 KDAKMKYQECNK 119

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae} Length = 258

 Score = 61.0 bits (149), Expect = 1e-10
 Identities = 22/117 (18%), Positives = 44/117 (37%), Gaps = 23/117 (19%)

Query: 53  KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLN 112
           +G   F +S++  A+  Y+      P D     NR++A  ++  F               
Sbjct: 145 EGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSF--------------- 189

Query: 113 GLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 169
                     A+ D  K +    N +++++ KA A I ++ Y  A + + +    D 
Sbjct: 190 --------PEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLDAARTKDA 238

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae} Length = 258

 Score = 54.9 bits (133), Expect = 1e-08
 Identities = 15/106 (14%), Positives = 35/106 (33%), Gaps = 24/106 (22%)

Query: 52  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 111
            +GN+ ++   F+EAI +Y++A  +   D   L NR++A     ++              
Sbjct: 10  AEGNKFYKARQFDEAIEHYNKAWELHK-DITYLNNRAAAEYEKGEY-------------- 54

Query: 112 NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMA 157
                    E A+      +         + + + +   +      
Sbjct: 55  ---------ETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHK 91

>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid herpesvirus 1} SCOP: g.44.1.1 Length = 68

 Score = 55.9 bits (135), Expect = 2e-10
 Identities = 14/46 (30%), Positives = 23/46 (50%), Gaps = 1/46 (2%)

Query: 200 TDDFDCTLCLKLLYEP-ITTPCGHSFCRSCLFQSMDRGNKCPLCRA 244
           T    C +CL+      +  PC H+FC  C+ + + +   CPLC+ 
Sbjct: 3   TVAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKV 48

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans} Length = 162

 Score = 57.8 bits (140), Expect = 3e-10
 Identities = 25/150 (16%), Positives = 48/150 (32%), Gaps = 41/150 (27%)

Query: 52  QKGNRAFRESNFEEAISNYSRA------------------NNIKPGDPIVLGNRSSAYIR 93
           QKGN  F + +++EAI  Y  A                    +   +  +  N S  Y+ 
Sbjct: 16  QKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLN 75

Query: 94  ISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLER 153
           I                            A + + ++L  +  + K+   +A A I   +
Sbjct: 76  IGDL-----------------------HEAEETSSEVLKREETNEKALFRRAKARIAAWK 112

Query: 154 YDMARDAILSGLQVDPFSNPLQASLQNLER 183
            D A + +   L+  P +  + A    +  
Sbjct: 113 LDEAEEDLKLLLRNHPAAASVVAREMKIVT 142

>2ecn_A Ring finger protein 141; RNF141, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 70

 Score = 54.7 bits (132), Expect = 4e-10
 Identities = 17/47 (36%), Positives = 27/47 (57%), Gaps = 1/47 (2%)

Query: 200 TDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL 246
           TD+ +C +C+      +  PC HSFC+ C+ +  DR   CP+CR  +
Sbjct: 13  TDEEECCICMDG-RADLILPCAHSFCQKCIDKWSDRHRNCPICRLQM 58

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A Length = 336

 Score = 59.1 bits (143), Expect = 9e-10
 Identities = 21/147 (14%), Positives = 50/147 (34%), Gaps = 38/147 (25%)

Query: 52  QKGNRAFRESNFEEAISNYSRANNIKPGDP---------------IVLGNRSSAYIRISQ 96
           ++G   F+E  +++A+  Y +  +    +                    N +  ++++  
Sbjct: 152 ERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQA 211

Query: 97  FLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDM 156
           F                         A++   K L L SN+ K    +  A + +  +++
Sbjct: 212 F-----------------------SAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFEL 248

Query: 157 ARDAILSGLQVDPFSNPLQASLQNLER 183
           AR      LQ+ P +   +  L   ++
Sbjct: 249 ARADFQKVLQLYPNNKAAKTQLAVCQQ 275

>1g25_A CDK-activating kinase assembly factor MAT1; ring finger (C3HC4), metal binding protein; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 65

 Score = 50.7 bits (121), Expect = 1e-08
 Identities = 17/52 (32%), Positives = 21/52 (40%), Gaps = 6/52 (11%)

Query: 201 DDFDCTLCLKLLY-----EPITTPCGHSFCRSCLFQSMDRG-NKCPLCRAVL 246
           DD  C  C    Y     + +   CGH+ C SC+     RG   CP C   L
Sbjct: 2   DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPL 53

>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 Length = 457

 Score = 55.5 bits (133), Expect = 2e-08
 Identities = 22/174 (12%), Positives = 58/174 (33%), Gaps = 38/174 (21%)

Query: 25  DVDDYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNI-----KPG 79
            +  +  A E       ++      + +KG   F+   + +A+  Y +  +         
Sbjct: 246 TLKSFEKAKESWEMDTKEKLEQAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLS 305

Query: 80  DP----------IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK 129
           +               N +  Y+++ ++ K                       A++  +K
Sbjct: 306 EKESKASESFLLAAFLNLAMCYLKLREYTK-----------------------AVECCDK 342

Query: 130 LLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER 183
            L L S + K    +  A +L+  ++ A+      L+V+P +   +  +   ++
Sbjct: 343 ALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQK 396

>2ct2_A Tripartite motif protein 32; zinc-finger protein HT2A, TAT- interacting protein, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 88

 Score = 48.9 bits (117), Expect = 7e-08
 Identities = 14/52 (26%), Positives = 24/52 (46%), Gaps = 7/52 (13%)

Query: 201 DDFDCTLCLKLLYE----PITTPCGHSFCRSCLFQSMDRGN---KCPLCRAV 245
           +  +C +C++   E    P    CGH+ CR CL + +       +CP C  +
Sbjct: 14  EVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKI 65

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana} Length = 338

 Score = 52.7 bits (126), Expect = 1e-07
 Identities = 25/161 (15%), Positives = 46/161 (28%), Gaps = 40/161 (24%)

Query: 40  PWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNI--------KPGDP---------I 82
             +R          GN  F+E   EEA+  Y  A             G            
Sbjct: 172 VEERIGAADRRKMDGNSLFKEEKLEEAMQQYEMAIAYMGDDFMFQLYGKYQDMALAVKNP 231

Query: 83  VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHL 142
              N ++  I++ ++ +                       A+     +L  +  + K+  
Sbjct: 232 CHLNIAACLIKLKRYDE-----------------------AIGHCNIVLTEEEKNPKALF 268

Query: 143 LKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER 183
            +  A   L + D ARD      +  P    ++  L+ L  
Sbjct: 269 RRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAE 309

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe} Length = 597

 Score = 52.9 bits (127), Expect = 1e-07
 Identities = 14/120 (11%), Positives = 33/120 (27%), Gaps = 23/120 (19%)

Query: 50  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYR 109
           L+ K +  F  S F + ++  ++   I P +  V     ++     +             
Sbjct: 308 LLCKADTLFVRSRFIDVLAITTKILEIDPYNLDVYPLHLASLHESGEK------------ 355

Query: 110 PLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 169
                            +  L++       + L      + + +   AR        +DP
Sbjct: 356 -----------NKLYLISNDLVDRHPEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMDP 404

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe} Length = 597

 Score = 49.8 bits (119), Expect = 1e-06
 Identities = 18/131 (13%), Positives = 33/131 (25%), Gaps = 28/131 (21%)

Query: 62  NFEEAISNYSRANNIKPGDPIVLGNRSSAYIR-------ISQFLKHRPPSASEYRPLNGL 114
           N   A      +  +   DP++L                I+ F       A         
Sbjct: 456 NILLANEYLQSSYALFQYDPLLLNELGVVAFNKSDMQTAINHFQN-----ALLLVKKTQS 510

Query: 115 DPTTHA----------------ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMAR 158
           +    A                + A+    + L L +N    H   A   +  +   +A 
Sbjct: 511 NEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAI 570

Query: 159 DAILSGLQVDP 169
             +   L + P
Sbjct: 571 THLHESLAISP 581

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe} Length = 597

 Score = 43.3 bits (102), Expect = 1e-04
 Identities = 25/133 (18%), Positives = 46/133 (34%), Gaps = 14/133 (10%)

Query: 53  KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQ----------FLKHRP 102
           +G      SNF+ A   Y  A  +            S ++  +           +  +  
Sbjct: 206 RGQVYTNLSNFDRAKECYKEALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSK 265

Query: 103 PSASEYRPL--NGLDPTTHAEL--ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMAR 158
             A+  R L    L+ T+H +     +D    +N    S    L KA+ L +  R+    
Sbjct: 266 EDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLFVRSRFIDVL 325

Query: 159 DAILSGLQVDPFS 171
                 L++DP++
Sbjct: 326 AITTKILEIDPYN 338

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe} Length = 597

 Score = 43.3 bits (102), Expect = 2e-04
 Identities = 8/108 (7%), Positives = 27/108 (25%), Gaps = 23/108 (21%)

Query: 62  NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE 121
              +     +   +  P   +        Y+ +++                         
Sbjct: 354 EKNKLYLISNDLVDRHPEKAVTWLAVGIYYLCVNKI-----------------------S 390

Query: 122 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 169
            A +   K   +      + +  A++  +   +D A  A  +  ++  
Sbjct: 391 EARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQ 438

>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 Length = 388

 Score = 52.5 bits (127), Expect = 1e-07
 Identities = 27/131 (20%), Positives = 53/131 (40%), Gaps = 11/131 (8%)

Query: 50  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF----------LK 99
            ++  +R ++  +FE A  +  +    +P +  VL   SS + +  +           +K
Sbjct: 2   PMELAHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIK 61

Query: 100 HRPPSASEYRPL-NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMAR 158
             P  A  Y  L N        + A++     L L+ + +  ++  A AL+     + A 
Sbjct: 62  QNPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAV 121

Query: 159 DAILSGLQVDP 169
            A +S LQ +P
Sbjct: 122 QAYVSALQYNP 132

>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 Length = 388

 Score = 49.5 bits (119), Expect = 1e-06
 Identities = 22/135 (16%), Positives = 39/135 (28%), Gaps = 11/135 (8%)

Query: 46  HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF-------- 97
           +   L+   +  F+    + +    + A    P       N  + Y    Q         
Sbjct: 32  NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQEAIEHYR 91

Query: 98  --LKHRPPSASEYRPL-NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERY 154
             L+ +P     Y  L   L      E A++     L    +         N L  L R 
Sbjct: 92  HALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRL 151

Query: 155 DMARDAILSGLQVDP 169
           + A+   L  ++  P
Sbjct: 152 EEAKACYLKAIETQP 166

>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 Length = 388

 Score = 47.5 bits (114), Expect = 5e-06
 Identities = 22/108 (20%), Positives = 39/108 (36%), Gaps = 23/108 (21%)

Query: 62  NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE 121
            F+ A++ Y RA ++ P   +V GN +  Y                             +
Sbjct: 218 IFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLI-----------------------D 254

Query: 122 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 169
           LA+    + + LQ +   ++   ANAL        A D   + L++ P
Sbjct: 255 LAIDTYRRAIELQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCP 302

>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 Length = 388

 Score = 44.1 bits (105), Expect = 6e-05
 Identities = 16/108 (14%), Positives = 30/108 (27%), Gaps = 23/108 (21%)

Query: 62  NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE 121
           +  EA   Y+ A  + P     L N ++                               E
Sbjct: 286 SVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNI-----------------------E 322

Query: 122 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 169
            A++   K L +      +H   A+ L    +   A       +++ P
Sbjct: 323 EAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISP 370

>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 Length = 388

 Score = 41.8 bits (99), Expect = 3e-04
 Identities = 14/108 (12%), Positives = 25/108 (23%), Gaps = 23/108 (21%)

Query: 62  NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE 121
           + E A+  Y  A    P    V  +  +    + +                        E
Sbjct: 116 DMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRL-----------------------E 152

Query: 122 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 169
            A     K +  Q N   +               +A       + +DP
Sbjct: 153 EAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDP 200

>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 Length = 388

 Score = 41.4 bits (98), Expect = 4e-04
 Identities = 16/108 (14%), Positives = 29/108 (26%), Gaps = 23/108 (21%)

Query: 62  NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE 121
               AI ++ +A  + P       N  +       F                       +
Sbjct: 184 EIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIF-----------------------D 220

Query: 122 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 169
            A+    + L+L  N    H   A         D+A D     +++ P
Sbjct: 221 RAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQP 268

>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 = 52.9 bits (126), Expect = 2e-07
 Identities = 75/517 (14%), Positives = 149/517 (28%), Gaps = 122/517 (23%)

Query: 23  IDDV--DDYIW-----ANEGEG-SLPWDRYTHVFDLVQKGNRAFRESNF--EEAISNYSR 72
           +++V   +Y +       E    S+    Y    D +   N+ F + N    +      +
Sbjct: 83  VEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQ 142

Query: 73  A-NNIKPGDPIVL------GN--------RSSAYIRISQF------LKHRPPSASEYRPL 111
           A   ++P   +++      G          S        F      LK+     +    L
Sbjct: 143 ALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEML 202

Query: 112 NGL----DPTTHAELALKDAEKLLNLQSNSMK---SHLLK----ANALILLERYDMARDA 160
             L    DP   +     D    + L+ +S++     LLK     N L++L      ++A
Sbjct: 203 QKLLYQIDPNWTSRS---DHSSNIKLRIHSIQAELRRLLKSKPYENCLLVL---LNVQNA 256

Query: 161 ILSGLQVDPFSN-----------PLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCL 209
                  + F+             +   L     T  SL    +  TP+        L L
Sbjct: 257 KA----WNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKS----LLL 308

Query: 210 KLLYEPITT-P---CGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQK 265
           K L       P      +  R  +     R     L     +       ++  + S +  
Sbjct: 309 KYLDCRPQDLPREVLTTNPRRLSIIAESIRDG---LATWDNWKHVNCDKLTTIIESSLNV 365

Query: 266 NFPEEYAERKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNHR 325
             P EY +            V     F     IP     L  F+      V  ++   H+
Sbjct: 366 LEPAEYRKM------FDRLSV-----FPPSAHIPTILLSLIWFDVIKSD-VMVVVNKLHK 413

Query: 326 MGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQ--------D 377
             +V   P   +++  +  +E+       +  + L       + I +++D         D
Sbjct: 414 YSLVEKQPKESTISIPSIYLELKV---KLENEYALHRSIVDHYNIPKTFDSDDLIPPYLD 470

Query: 378 GYRVAEIEWVQDI--HPEGVEDRADLQDLTNNAAEYARL-WLR---REKESARQDRRRLE 431
            Y      +   I  H + +E   +   L      +    +L    R   +A      + 
Sbjct: 471 QY------FYSHIGHHLKNIE-HPERMTLFRMV--FLDFRFLEQKIRHDSTAWNASGSIL 521

Query: 432 KLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELL 468
             L         Q  + +  ++   +D +    +  +
Sbjct: 522 NTL---------QQLKFYKPYI-CDNDPKYERLVNAI 548

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A Length = 142

 Score = 49.0 bits (117), Expect = 3e-07
 Identities = 15/142 (10%), Positives = 35/142 (24%), Gaps = 25/142 (17%)

Query: 52  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 111
             G   ++   +++A   +     +   D        +    +  +              
Sbjct: 23  ALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLY-------------- 68

Query: 112 NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS 171
                    E AL+       +  N  +     A   + L   D A     S   +   +
Sbjct: 69  ---------EQALQSYSYGALMDINEPRFPFHAAECHLQLGDLDGAESGFYSARALAA-A 118

Query: 172 NPLQASL-QNLERTTASLIGRR 192
            P   +L         ++  R+
Sbjct: 119 QPAHEALAARAGAMLEAVTARK 140

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus} Length = 208

 Score = 50.1 bits (120), Expect = 3e-07
 Identities = 17/125 (13%), Positives = 41/125 (32%), Gaps = 15/125 (12%)

Query: 49  DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASE- 107
           +++QK + A       +A+S + +   +      +       +  + +  +     A+E 
Sbjct: 6   EMLQKVSAAIEAGQNGQAVSYFRQTIALNIDRTEMY-----YWTNVDKNSEISSKLATEL 60

Query: 108 ---YRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSG 164
              Y+     D       A    ++LL    N++      A   +   +   A       
Sbjct: 61  ALAYKKNRNYD------KAYLFYKELLQKAPNNVDCLEACAEMQVCRGQEKDALRMYEKI 114

Query: 165 LQVDP 169
           LQ++ 
Sbjct: 115 LQLEA 119

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus} Length = 208

 Score = 47.8 bits (114), Expect = 2e-06
 Identities = 17/134 (12%), Positives = 40/134 (29%), Gaps = 23/134 (17%)

Query: 50  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYR 109
           L             ++A+  Y +   ++  +        + Y   ++  K          
Sbjct: 91  LEACAEMQVCRGQEKDALRMYEKILQLEADNLAANIFLGNYYYLTAEQEKK--------- 141

Query: 110 PLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 169
                         L+   K L+  +    +      + +   RY+ AR+++   +   P
Sbjct: 142 -------------KLETDYKKLSSPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFP 188

Query: 170 FSNPLQASLQNLER 183
            S   Q +L  + R
Sbjct: 189 -STEAQKTLDKILR 201

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis} Length = 115

 Score = 47.3 bits (113), Expect = 5e-07
 Identities = 18/129 (13%), Positives = 26/129 (20%), Gaps = 29/129 (22%)

Query: 64  EEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA 123
           +               + ++       Y    QF                       + A
Sbjct: 2   QAITERLEAMLAQGTDNMLLRFTLGKTYAEHEQF-----------------------DAA 38

Query: 124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQA------S 177
           L      L+       +       L        AR A  SGL         Q        
Sbjct: 39  LPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLAAAQSRGDQQVVKELQVF 98

Query: 178 LQNLERTTA 186
           L+ L R  A
Sbjct: 99  LRRLAREDA 107

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens} Length = 472

 Score = 49.2 bits (117), Expect = 2e-06
 Identities = 15/128 (11%), Positives = 32/128 (25%), Gaps = 4/128 (3%)

Query: 54  GNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNG 113
                R+   ++AI    +A    P +  +       Y      + +      E      
Sbjct: 254 AKFYRRKDEPDKAIELLKKALEYIPNNAYLHCQIGCCYRAKVFQVMN----LRENGMYGK 309

Query: 114 LDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP 173
                    A+   +K      N  +   + A+   L ++Y+ A          +     
Sbjct: 310 RKLLELIGHAVAHLKKADEANDNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVA 369

Query: 174 LQASLQNL 181
            Q      
Sbjct: 370 KQLLHLRY 377

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens} Length = 472

 Score = 41.8 bits (98), Expect = 4e-04
 Identities = 24/131 (18%), Positives = 39/131 (29%), Gaps = 20/131 (15%)

Query: 58  FRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRP---LNGL 114
              +  E A   + +A   KP +P      + A  R+  +   +  +    R    LN  
Sbjct: 149 CGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNWPPSQ-NAIDPLRQAIRLNPD 207

Query: 115 DPTTHAELALK------------DAEKL----LNLQSNSMKSHLLKANALILLERYDMAR 158
           +      LALK            + EKL    L             A      +  D A 
Sbjct: 208 NQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPGVTDVLRSAAKFYRRKDEPDKAI 267

Query: 159 DAILSGLQVDP 169
           + +   L+  P
Sbjct: 268 ELLKKALEYIP 278

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1 Length = 243

 Score = 47.9 bits (115), Expect = 2e-06
 Identities = 19/112 (16%), Positives = 39/112 (34%), Gaps = 26/112 (23%)

Query: 52  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 111
           Q+  R     ++E+A   +++A      D I   N ++    +++               
Sbjct: 28  QQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNEL-------------- 73

Query: 112 NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILS 163
                    E AL   +K L L S++  ++    N  ++ E Y    +A   
Sbjct: 74  ---------ERALAFYDKALELDSSAATAYYGAGNVYVVKEMYK---EAKDM 113

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1 Length = 243

 Score = 40.2 bits (95), Expect = 7e-04
 Identities = 10/137 (7%), Positives = 24/137 (17%), Gaps = 31/137 (22%)

Query: 53  KGNRAFRE-SNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 111
            G     +    + A+    RA  +   D                               
Sbjct: 131 LGT-VLVKLEQPKLALPYLQRAVELNENDTEARFQFGMCLANEGML-------------- 175

Query: 112 NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP-- 169
                    + AL     +         +           E  + A + +   + + P  
Sbjct: 176 ---------DEALSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQPDH 226

Query: 170 ---FSNPLQASLQNLER 183
                   +    +   
Sbjct: 227 MLALHA-KKLLGHHHHH 242

>3ugm_A TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xanthomonas oryzae} Length = 1047

 Score = 48.5 bits (115), Expect = 4e-06
 Identities = 15/160 (9%), Positives = 35/160 (21%), Gaps = 19/160 (11%)

Query: 46  HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF-------- 97
            V  +             +  +    +A+ + P   + + +       +           
Sbjct: 191 QVVAIASNNGGKQALETVQRLLPVLCQAHGLTPAQVVAIASHDGGKQALETMQRLLPVLC 250

Query: 98  ----LKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLER 153
               L      A     + G       +  L    +   L  + + +          LE 
Sbjct: 251 QAHGLPPDQVVAIASN-IGGKQALETVQRLLPVLCQAHGLTPDQVVAIASHGGGKQALET 309

Query: 154 YDMARDAILSGLQVDP-----FSNPLQASLQNLERTTASL 188
                  +     + P      ++      Q LE     L
Sbjct: 310 VQRLLPVLCQAHGLTPDQVVAIAS-HDGGKQALETVQRLL 348

>3ugm_A TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xanthomonas oryzae} Length = 1047

 Score = 45.4 bits (107), Expect = 4e-05
 Identities = 15/147 (10%), Positives = 32/147 (21%), Gaps = 17/147 (11%)

Query: 53  KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF----------LKHRP 102
            G         +  +    +A+ + P   + + +       +                  
Sbjct: 537 NGGGKQALETVQRLLPVLCQAHGLTPDQVVAIASNGGGKQALETVQRLLPVLCQAHGLTQ 596

Query: 103 PSASEY-RPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMA---- 157
                    + G       +  L    +   L    + +          LE         
Sbjct: 597 VQVVAIASNIGGKQALETVQRLLPVLCQAHGLTPAQVVAIASHDGGKQALETVQRLLPVL 656

Query: 158 RDAI-LSGLQVDPFSNPLQASLQNLER 183
             A  L+  QV   ++      Q LE 
Sbjct: 657 CQAHGLTPDQVVAIAS-NGGGKQALET 682

>3ugm_A TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xanthomonas oryzae} Length = 1047

 Score = 43.1 bits (101), Expect = 2e-04
 Identities = 13/149 (8%), Positives = 30/149 (20%), Gaps = 16/149 (10%)

Query: 50  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF----------LK 99
           +   G         +  +    +A+ + P   + + +       +               
Sbjct: 297 IASHGGGKQALETVQRLLPVLCQAHGLTPDQVVAIASHDGGKQALETVQRLLPVLCQAHG 356

Query: 100 HRPPSASEYRPL-NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMAR 158
             P           G       +  L    +   L  + + +          LE      
Sbjct: 357 LTPDQVVAIASNGGGKQALETVQRLLPVLCQAHGLTPDQVVAIASNGGKQ-ALETVQRLL 415

Query: 159 DAILSGLQVDPFS----NPLQASLQNLER 183
             +     + P             Q LE 
Sbjct: 416 PVLCQAHGLTPDQVVAIASHDGGKQALET 444

>3ugm_A TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xanthomonas oryzae} Length = 1047

 Score = 41.9 bits (98), Expect = 4e-04
 Identities = 15/151 (9%), Positives = 34/151 (22%), Gaps = 19/151 (12%)

Query: 50  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF------------ 97
           +             +  +    + + + P   + + +       +               
Sbjct: 432 IASHDGGKQALETVQRLLPVLCQTHGLTPAQVVAIASHDGGKQALETVQQLLPVLCQAHG 491

Query: 98  LKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMA 157
           L      A     + G       +  L    +   L  + + +          LE     
Sbjct: 492 LTPDQVVAIASN-IGGKQALATVQRLLPVLCQAHGLTPDQVVAIASNGGGKQALETVQRL 550

Query: 158 ----RDAI-LSGLQVDPFSNPLQASLQNLER 183
                 A  L+  QV   ++      Q LE 
Sbjct: 551 LPVLCQAHGLTPDQVVAIAS-NGGGKQALET 580

>3ugm_A TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xanthomonas oryzae} Length = 1047

 Score = 41.6 bits (97), Expect = 6e-04
 Identities = 17/155 (10%), Positives = 35/155 (22%), Gaps = 17/155 (10%)

Query: 46  HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRI----------S 95
            V  +   G         +  +    +A+ +     + + +       +           
Sbjct: 564 QVVAIASNGGGKQALETVQRLLPVLCQAHGLTQVQVVAIASNIGGKQALETVQRLLPVLC 623

Query: 96  QFLKHRPPSASEYRPL-NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERY 154
           Q     P           G       +  L    +   L  + + +          LE  
Sbjct: 624 QAHGLTPAQVVAIASHDGGKQALETVQRLLPVLCQAHGLTPDQVVAIASNGGGKQALETV 683

Query: 155 DMA----RDAI-LSGLQVDPFSNPLQASLQNLERT 184
                    A  L+  QV   ++      Q LE  
Sbjct: 684 QRLLPVLCQAHGLTQEQVVAIAS-NNGGKQALETV 717

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii} Length = 272

 Score = 46.9 bits (112), Expect = 5e-06
 Identities = 27/130 (20%), Positives = 42/130 (32%), Gaps = 22/130 (16%)

Query: 62  NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF----------LKHRPPSASEY--- 108
           NF  AI    +       DP V      AY    ++          L+ +P     Y   
Sbjct: 123 NFPLAIQYMEKQIRPTTTDPKVFYELGQAYYYNKEYVKADSSFVKVLELKPNIYIGYLWR 182

Query: 109 -RPLNGLDPTTHAELALKDAEKLLNL--------QSNSMKSHLLKANALILLERYDMARD 159
            R     DP T   LA    EKL+ +        +   ++++   A    +      A  
Sbjct: 183 ARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADA 242

Query: 160 AILSGLQVDP 169
           A  + L +DP
Sbjct: 243 AWKNILALDP 252

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii} Length = 272

 Score = 46.5 bits (111), Expect = 7e-06
 Identities = 18/121 (14%), Positives = 39/121 (32%), Gaps = 26/121 (21%)

Query: 52  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 111
           +  +  F+ +N+ EAI  +++    K   P +   R+  Y  ++++              
Sbjct: 8   RYADFLFKNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKY-------------- 53

Query: 112 NGLDPTTHAELALKDAE---KLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVD 168
                    +LA KD E     +N               L+   +  +A     + +  D
Sbjct: 54  ---------DLAQKDIETYFSKVNATKAKSADFEYYGKILMKKGQDSLAIQQYQAAVDRD 104

Query: 169 P 169
            
Sbjct: 105 T 105

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii} Length = 272

 Score = 45.7 bits (109), Expect = 1e-05
 Identities = 17/108 (15%), Positives = 29/108 (26%), Gaps = 23/108 (21%)

Query: 62  NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE 121
               AI  Y  A +       + G   S +     F                        
Sbjct: 89  QDSLAIQQYQAAVDRDTTRLDMYGQIGSYFYNKGNF-----------------------P 125

Query: 122 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 169
           LA++  EK +   +   K       A    + Y  A  + +  L++ P
Sbjct: 126 LAIQYMEKQIRPTTTDPKVFYELGQAYYYNKEYVKADSSFVKVLELKP 173

>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} Length = 330

 Score = 46.9 bits (112), Expect = 6e-06
 Identities = 22/138 (15%), Positives = 42/138 (30%), Gaps = 22/138 (15%)

Query: 53  KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAY----------------IRISQ 96
            G      +N + A   +S+A +I P DP V+                       +   +
Sbjct: 165 IGLEYGLTNNSKLAERFFSQALSIAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIK 224

Query: 97  FLKHRPPSASEYRPLNGLDPTTHAEL-----ALKDAEKLLNLQSNSMKSHLLKANALILL 151
            + +          LN L      +L     AL    + L L   +  ++        L+
Sbjct: 225 AIGNEVTVDKWEPLLNNL-GHVCRKLKKYAEALDYHRQALVLIPQNASTYSAIGYIHSLM 283

Query: 152 ERYDMARDAILSGLQVDP 169
             ++ A D   + L +  
Sbjct: 284 GNFENAVDYFHTALGLRR 301

>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} Length = 330

 Score = 46.5 bits (111), Expect = 8e-06
 Identities = 19/138 (13%), Positives = 40/138 (28%), Gaps = 24/138 (17%)

Query: 50  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF-----LKHRPPS 104
           +V    R +   +F+      S      P     L       + +++      L H+   
Sbjct: 25  VVSLAERHYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHK--- 81

Query: 105 ASEYRPLNGLDPTTH-------------AELALKDAEKLLNLQSNSMKSHLLKANALILL 151
             +  P N   P +               E A +   K   L+     + +   ++  + 
Sbjct: 82  LVDLYPSN---PVSWFAVGCYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVE 138

Query: 152 ERYDMARDAILSGLQVDP 169
             +D A  A  +  Q+  
Sbjct: 139 SEHDQAMAAYFTAAQLMK 156

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli} Length = 177

 Score = 44.9 bits (106), Expect = 1e-05
 Identities = 13/130 (10%), Positives = 41/130 (31%), Gaps = 20/130 (15%)

Query: 54  GNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNG 113
           G     ++++  ++  Y +A  ++  +  +    ++                        
Sbjct: 51  GEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYY-----------------QAS 93

Query: 114 LDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP 173
              T      +   +K L L SN + + +L A+   +   Y  A +     + ++     
Sbjct: 94  QHMTAQTRAMI---DKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPRIN 150

Query: 174 LQASLQNLER 183
               ++++  
Sbjct: 151 RTQLVESINM 160

>1v87_A Deltex protein 2; ring-H2 domain, zinc-binding domain, notch signaling, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: g.44.1.1 Length = 114

 Score = 43.3 bits (101), Expect = 2e-05
 Identities = 16/71 (22%), Positives = 24/71 (33%), Gaps = 23/71 (32%)

Query: 198 ERTDDFDCTLCLKLLYEPIT------------------TPCGHSFCRSCLFQSMDRGNK- 238
           +   + DC +C++ L                       T C H+F   CL      GNK 
Sbjct: 21  KVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKD 80

Query: 239 ----CPLCRAV 245
               CP C+ +
Sbjct: 81  GSLQCPSCKTI 91

>2ecm_A Ring finger and CHY zinc finger domain- containing protein 1; RCHY1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2jrj_A Length = 55

 Score = 41.5 bits (98), Expect = 2e-05
 Identities = 14/49 (28%), Positives = 23/49 (46%), Gaps = 4/49 (8%)

Query: 200 TDDFDCTLCLKLLYEPITT----PCGHSFCRSCLFQSMDRGNKCPLCRA 244
           +    C +CL+ ++         PCGH   R+C  + +  G +CPLC  
Sbjct: 3   SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSG 51

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A Length = 151

 Score = 43.6 bits (103), Expect = 2e-05
 Identities = 14/136 (10%), Positives = 31/136 (22%), Gaps = 26/136 (19%)

Query: 50  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYR 109
           +       + +   EEA   +         +   +   ++ Y    QF            
Sbjct: 39  IYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQF------------ 86

Query: 110 PLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 169
                      + A         L  N            + L+    A++     +Q   
Sbjct: 87  -----------QQAADLYAVAFALGKNDYTPVFHTGQCQLRLKAPLKAKECFELVIQHSN 135

Query: 170 ---FSNPLQASLQNLE 182
                   Q+ L  ++
Sbjct: 136 DEKLKIKAQSYLDAIQ 151

>3v6t_A DHAX3; tandem repeats, DNA specific binding protein, DNA binding DNA complex; HET: DNA; 1.85A {Xanthomonas} PDB: 3v6p_A 2kq5_A Length = 499

 Score = 45.5 bits (108), Expect = 3e-05
 Identities = 13/138 (9%), Positives = 30/138 (21%), Gaps = 17/138 (12%)

Query: 62  NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF----------LKHRPPSASEYRPL 111
             +  +    +A+ + P   + + + S     +                 P         
Sbjct: 257 TVQRLLPVLCQAHGLTPQQVVAIASNSGGKQALETVQRLLPVLCQAHGLTPQQVVAIASN 316

Query: 112 -NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP- 169
             G       +  L    +   L    + +          LE        +     + P 
Sbjct: 317 GGGKQALETVQRLLPVLCQAHGLTPQQVVAIASHDGGKQALETVQRLLPVLCQAHGLTPE 376

Query: 170 ----FSNPLQASLQNLER 183
                ++      Q LE 
Sbjct: 377 QVVAIAS-NGGGKQALET 393

>3v6t_A DHAX3; tandem repeats, DNA specific binding protein, DNA binding DNA complex; HET: DNA; 1.85A {Xanthomonas} PDB: 3v6p_A 2kq5_A Length = 499

 Score = 44.7 bits (106), Expect = 5e-05
 Identities = 13/143 (9%), Positives = 30/143 (20%), Gaps = 17/143 (11%)

Query: 62  NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF----------LKHRPPSASEYRPL 111
             +  +    +A+ + P   + + +       +                 P         
Sbjct: 325 TVQRLLPVLCQAHGLTPQQVVAIASHDGGKQALETVQRLLPVLCQAHGLTPEQVVAIASN 384

Query: 112 -NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP- 169
             G       +  L    +   L    + +          LE        +     + P 
Sbjct: 385 GGGKQALETVQRLLPVLCQAHGLTPEQVVAIASHDGGKQALETVQRLLPVLCQAHGLTPQ 444

Query: 170 ----FSNPLQASLQNLERTTASL 188
                ++        LE   A L
Sbjct: 445 QVVAIAS-NGGGRPALESIVAQL 466

>3v6t_A DHAX3; tandem repeats, DNA specific binding protein, DNA binding DNA complex; HET: DNA; 1.85A {Xanthomonas} PDB: 3v6p_A 2kq5_A Length = 499

 Score = 44.4 bits (105), Expect = 7e-05
 Identities = 10/135 (7%), Positives = 26/135 (19%), Gaps = 11/135 (8%)

Query: 46  HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF-------- 97
            V  +             +  +    +A+ + P   + + +       +           
Sbjct: 71  QVVAIASHDGGKQALETVQRLLPVLCQAHGLTPQQVVAIASHDGGKQALETVQRLLPVLC 130

Query: 98  --LKHRPPSASEYRPL-NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERY 154
                 P           G       +  L    +   L    + +          LE  
Sbjct: 131 QAHGLTPEQVVAIASHDGGKQALETVQALLPVLCQAHGLTPEQVVAIASNGGGKQALETV 190

Query: 155 DMARDAILSGLQVDP 169
                 +     + P
Sbjct: 191 QRLLPVLCQAHGLTP 205

>3v6t_A DHAX3; tandem repeats, DNA specific binding protein, DNA binding DNA complex; HET: DNA; 1.85A {Xanthomonas} PDB: 3v6p_A 2kq5_A Length = 499

 Score = 41.7 bits (98), Expect = 5e-04
 Identities = 16/141 (11%), Positives = 32/141 (22%), Gaps = 23/141 (16%)

Query: 62  NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDP----- 116
             +  +    +A+ + P   + + +         Q L+            +GL P     
Sbjct: 189 TVQRLLPVLCQAHGLTPQQVVAIASNGGGK----QALETVQRLLPVLCQAHGLTPQQVVA 244

Query: 117 -----TTHAEL-----ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQ 166
                     L      L    +   L    + +    +     LE        +     
Sbjct: 245 IASNGGGKQALETVQRLLPVLCQAHGLTPQQVVAIASNSGGKQALETVQRLLPVLCQAHG 304

Query: 167 VDPFS----NPLQASLQNLER 183
           + P             Q LE 
Sbjct: 305 LTPQQVVAIASNGGGKQALET 325

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus} Length = 365

 Score = 45.1 bits (107), Expect = 3e-05
 Identities = 20/149 (13%), Positives = 43/149 (28%), Gaps = 27/149 (18%)

Query: 44  YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPP 103
           +       ++G +  +E +    I     A    PGD                       
Sbjct: 62  FKDWPGAFEEGLKRLKEGDLPVTILFMEAAILQDPGDAEAWQFLGITQAENENE------ 115

Query: 104 SASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILS 163
                            + A+   ++ L LQ N++K+ +  A +         A +A+ +
Sbjct: 116 -----------------QAAIVALQRCLELQPNNLKALMALAVSYTNTSHQQDACEALKN 158

Query: 164 GLQVDP----FSNPLQASLQNLERTTASL 188
            ++ +P         + S     R + S 
Sbjct: 159 WIKQNPKYKYLVKNKKGSPGLTRRMSKSP 187

>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* Length = 568

 Score = 45.2 bits (107), Expect = 4e-05
 Identities = 19/131 (14%), Positives = 35/131 (26%), Gaps = 11/131 (8%)

Query: 62  NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF----------LKHRPPSASEYRPL 111
           +    +     A   +P D +     + A + +             L   P        L
Sbjct: 4   DGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARL 63

Query: 112 NGLDPTT-HAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF 170
             +  T      A    ++  +         L   +AL    + + A  A     Q+ P 
Sbjct: 64  GRVRWTQQRHAEAAVLLQQASDAAPEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPE 123

Query: 171 SNPLQASLQNL 181
              + A L N 
Sbjct: 124 EPYITAQLLNW 134

>2vje_B MDM4 protein; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_B* Length = 63

 Score = 40.6 bits (95), Expect = 4e-05
 Identities = 13/47 (27%), Positives = 17/47 (36%), Gaps = 9/47 (19%)

Query: 204 DCTLCLKLLYEPITT-----PCGHSF-CRSCLFQSMDRGNKCPLCRA 244
            C+LC K    P          GH   C  C  +    G  CP+C+ 
Sbjct: 9   PCSLCEK---RPRDGNIIHGRTGHLVTCFHCARRLKKAGASCPICKK 52

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis} Length = 383

 Score = 44.8 bits (106), Expect = 4e-05
 Identities = 18/120 (15%), Positives = 39/120 (32%), Gaps = 26/120 (21%)

Query: 44  YTHVFDLVQKGNRAFRESNFEEAISNYSRANNI------KPGDPIVLGNRSSAYIRISQF 97
           Y + F    +G     +  +  AI  + +A +       +          S +Y  + Q 
Sbjct: 104 YFNFF----RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQT 159

Query: 98  LKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMA 157
                  + +Y           A  A +  ++        ++ H L A   + L++Y+ A
Sbjct: 160 YF-----SMDY-----------ARQAYEIYKEHEAYNIRLLQCHSLFATNFLDLKQYEDA 203

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus} Length = 474

 Score = 45.0 bits (106), Expect = 4e-05
 Identities = 24/136 (17%), Positives = 41/136 (30%), Gaps = 16/136 (11%)

Query: 52  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 111
           Q  +      +  +++     A  +   D        +AY+ +                 
Sbjct: 184 QTDSGDEHSRHVMDSVRQAKLAVQMDVLDGRSWYILGNAYLSLYFNTGQN---------P 234

Query: 112 NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP-F 170
                   A  A   AEK+    S++   HL +A      E Y  A +       +DP +
Sbjct: 235 KISQ---QALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAW 291

Query: 171 SNP---LQASLQNLER 183
             P    Q  L+ L R
Sbjct: 292 PEPQQREQQLLEFLSR 307

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus} Length = 474

 Score = 41.5 bits (97), Expect = 4e-04
 Identities = 18/166 (10%), Positives = 35/166 (21%), Gaps = 41/166 (24%)

Query: 31  WANEGEGSLPWDRYTHVFDLVQKGNRAFRESN---------------FEEAISNYSRANN 75
              E E      +   + D +     ++ E++                E+ +        
Sbjct: 37  ADEEEEAKHVLQKLQGLVDRLYCFRDSYFETHSVEDAGRKQQDVQEEMEKTLQQMEEVLG 96

Query: 76  IKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQS 135
               +   L  +  A      +                         A     K + L+ 
Sbjct: 97  SAQVEAQALMLKGKALNVTPDYS----------------------PEAEVLLSKAVKLEP 134

Query: 136 NSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL 181
             +++                A       L      N    SLQNL
Sbjct: 135 ELVEAWNQLGEVYWKKGDVTSAHTCFSGALTHCK--NK--VSLQNL 176

>3htk_C E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-ring, ring, ATP-binding, chromosomal protein, coiled coil, DNA damage; 2.31A {Saccharomyces cerevisiae} Length = 267

 Score = 44.2 bits (103), Expect = 4e-05
 Identities = 13/85 (15%), Positives = 25/85 (29%), Gaps = 3/85 (3%)

Query: 202 DFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRGNK--CPLCRAVLFITPRTCAVSVT 258
           +  C +  K    P+    C H F R  +   +       CP       ++ R       
Sbjct: 181 ELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRDFVRDPI 240

Query: 259 LNSIIQKNFPEEYAERKSEHDSLIN 283
           +    +    +E  E+       I+
Sbjct: 241 MELRCKIAKMKESQEQDKRSSQAID 265

>1e4u_A Transcriptional repressor NOT4; gene regulation, transcriptional control; NMR {Homo sapiens} SCOP: g.44.1.1 PDB: 1ur6_B Length = 78

 Score = 40.5 bits (94), Expect = 5e-05
 Identities = 15/49 (30%), Positives = 20/49 (40%), Gaps = 5/49 (10%)

Query: 201 DDFDCTLCLKLL----YEPITTPCGHSFCRSCLFQ-SMDRGNKCPLCRA 244
           D  +C LC++ L           CG+  CR C  +   D    CP CR 
Sbjct: 10  DPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRK 58

>2ct0_A Non-SMC element 1 homolog; ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 74

 Score = 40.3 bits (94), Expect = 7e-05
 Identities = 10/47 (21%), Positives = 17/47 (36%), Gaps = 3/47 (6%)

Query: 201 DDFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQ--SMDRGNKCPLCRA 244
               C +C  LL +  +   CG      C+ +    +   +CP C  
Sbjct: 14  AVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCND 60

>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 Length = 327

 Score = 43.8 bits (104), Expect = 7e-05
 Identities = 22/153 (14%), Positives = 38/153 (24%), Gaps = 32/153 (20%)

Query: 62  NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF----------LKHRPPSASEYRPL 111
               AI   + A  + P D  V    + ++                L  +P         
Sbjct: 70  KDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHNANAALASLRAWLLSQPQYEQLGSVN 129

Query: 112 NGLDPTTHAE------LALKDAEKL----------LNLQSNSMKSHLLKANALILLERYD 155
              D                   +           L +  N  + H        L   YD
Sbjct: 130 LQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNPNDAQLHASLGVLYNLSNNYD 189

Query: 156 MARDAILSGLQVDP-----FSNPLQASLQNLER 183
            A   +   +++ P     ++  L A+L N  R
Sbjct: 190 SAAANLRRAVELRPDDAQLWNK-LGATLANGNR 221

>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 Length = 327

 Score = 40.7 bits (96), Expect = 6e-04
 Identities = 23/180 (12%), Positives = 54/180 (30%), Gaps = 22/180 (12%)

Query: 28  DYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNR 87
            Y            D      ++  +       + + E  +    A  + P D  +  + 
Sbjct: 121 QYEQLGSVNLQADVDIDD--LNVQSEDFFFAAPNEYRECRTLLHAALEMNPNDAQLHASL 178

Query: 88  SSAYIRISQF----------LKHRPPSASEYRPLNGLDPTTHAEL-----ALKDAEKLLN 132
              Y   + +          ++ RP  A  +   N L   T A       AL    + L+
Sbjct: 179 GVLYNLSNNYDSAAANLRRAVELRPDDAQLW---NKLG-ATLANGNRPQEALDAYNRALD 234

Query: 133 LQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP-FSNPLQASLQNLERTTASLIGR 191
           +    ++     A +   + +YD+A   ++  + +    + P   + +   R+       
Sbjct: 235 INPGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRM 294

>2kr4_A Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ring, E3 ligase, UBL conjugation pathway; NMR {Mus musculus} Length = 85

 Score = 40.4 bits (95), Expect = 8e-05
 Identities = 12/46 (26%), Positives = 20/46 (43%)

Query: 201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL 246
           D+F   L   L+ +P+  P G    RS + + +      P  R +L
Sbjct: 13  DEFRDPLMDTLMTDPVRLPSGTVMDRSIILRHLLNSPTDPFNRQML 58

>1t1h_A Gspef-atpub14, armadillo repeat containing protein; ubiquitin ligase, E3 ligase, U-BOX,; NMR {Arabidopsis thaliana} SCOP: g.44.1.2 Length = 78

 Score = 40.2 bits (95), Expect = 8e-05
 Identities = 17/53 (32%), Positives = 31/53 (58%), Gaps = 1/53 (1%)

Query: 195 GTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNK-CPLCRAVL 246
           G+PE  + F C + L+L+ +P+    G ++ RS + + +D G+K CP  +  L
Sbjct: 1   GSPEFPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETL 53

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis} Length = 112

 Score = 40.9 bits (97), Expect = 9e-05
 Identities = 15/120 (12%), Positives = 42/120 (35%), Gaps = 25/120 (20%)

Query: 52  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 111
            +G   +   N+ E+I  + +A  + P +      +  A   + ++              
Sbjct: 11  LEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERY-------------- 56

Query: 112 NGLDPTTHAELALKDAEKLLNLQSNSMKSHLL--KANALILLERYDMARDAILSGLQVDP 169
                    E A+     ++N+  +     +   KA+AL  +E  ++  +   +  +++ 
Sbjct: 57  ---------EEAVDCYNYVINVIEDEYNKDVWAAKADALRYIEGKEVEAEIAEARAKLEH 107

>2kre_A Ubiquitin conjugation factor E4 B; U-box domain, E3 ubiquitin ligase, E4 polyubiquitin chain EL factor, phosphoprotein, UBL conjugation pathway; NMR {Homo sapiens} PDB: 3l1x_A 3l1z_B Length = 100

 Score = 40.1 bits (94), Expect = 1e-04
 Identities = 12/46 (26%), Positives = 19/46 (41%)

Query: 201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL 246
           D+F   L   L+ +P+  P G    RS + + +      P  R  L
Sbjct: 28  DEFRDPLMDTLMTDPVRLPSGTIMDRSIILRHLLNSPTDPFNRQTL 73

>2vje_A E3 ubiquitin-protein ligase MDM2; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_A* 2hdp_A Length = 64

 Score = 38.6 bits (90), Expect = 2e-04
 Identities = 12/46 (26%), Positives = 16/46 (34%), Gaps = 9/46 (19%)

Query: 205 CTLCLKLLYEPITT-----PCGHSF-CRSCLFQSMDRGNKCPLCRA 244
           C +C      P          GH   C +C  +   R   CP+CR 
Sbjct: 11  CVICQG---RPKNGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQ 53

>2bay_A PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin ligase, E3 ligase; 1.50A {Saccharomyces cerevisiae} SCOP: g.44.1.2 PDB: 1n87_A Length = 61

 Score = 38.1 bits (89), Expect = 2e-04
 Identities = 10/45 (22%), Positives = 17/45 (37%), Gaps = 1/45 (2%)

Query: 203 FDCTLCLKLLYEPITTP-CGHSFCRSCLFQSMDRGNKCPLCRAVL 246
             C +  K+   P+ +P     F +S L Q +      P+    L
Sbjct: 4   MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPL 48

>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 Length = 368

 Score = 42.3 bits (100), Expect = 2e-04
 Identities = 15/130 (11%), Positives = 34/130 (26%), Gaps = 23/130 (17%)

Query: 40  PWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLK 99
             +         ++G R  +E +   A+  +  A    P          +      Q   
Sbjct: 57  EENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQE-- 114

Query: 100 HRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARD 159
                                 LA+    + L L+ ++  + +  A +         A +
Sbjct: 115 ---------------------LLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACE 153

Query: 160 AILSGLQVDP 169
            +   L+  P
Sbjct: 154 ILRDWLRYTP 163

>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 Length = 368

 Score = 41.6 bits (98), Expect = 4e-04
 Identities = 21/131 (16%), Positives = 33/131 (25%), Gaps = 16/131 (12%)

Query: 60  ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH 119
           ES   +A           P    ++                        R L  L   + 
Sbjct: 145 ESLQRQACEILRDWLRYTPAYAHLVTPAEEGAG--------GAGLGPSKRILGSLLSDSL 196

Query: 120 AELALKDAEKLLNLQSNSM--KSHLLKANALILLERYDMARDAILSGLQVDP-----FSN 172
                +     + L   S+             L   YD A D   + L V P     ++ 
Sbjct: 197 FLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNK 256

Query: 173 PLQASLQNLER 183
            L A+L N  +
Sbjct: 257 -LGATLANGNQ 266

>2ep4_A Ring finger protein 24; zinc binding, ubiquitin, E3 enzyme, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 74

 Score = 38.6 bits (90), Expect = 2e-04
 Identities = 16/59 (27%), Positives = 26/59 (44%), Gaps = 5/59 (8%)

Query: 198 ERTDDFDCTLCLKLLYEP----ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRT 252
           E      C +CL+  ++P       PC H+F R CL + ++    CPLC   +    + 
Sbjct: 11  ELNLHELCAVCLED-FKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQL 68

>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 Length = 252

 Score = 41.5 bits (98), Expect = 3e-04
 Identities = 15/127 (11%), Positives = 33/127 (25%), Gaps = 23/127 (18%)

Query: 54  GNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNG 113
           G  + +     +A   + ++  +    P V    +    +  ++                
Sbjct: 148 GLVSLQMKKPAQAKEYFEKSLRLNRNQPSVALEMADLLYKEREY---------------- 191

Query: 114 LDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP 173
                    A +  +        + +S LL      + E  D A    L   ++ P S  
Sbjct: 192 -------VPARQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLYPGSLE 244

Query: 174 LQASLQN 180
            Q     
Sbjct: 245 YQEFQAE 251

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus} Length = 217

 Score = 41.0 bits (97), Expect = 3e-04
 Identities = 19/125 (15%), Positives = 34/125 (27%), Gaps = 15/125 (12%)

Query: 62  NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE 121
               A+ N        P         S AY+ + +  + R                   E
Sbjct: 54  LVNPALENGKTLVARTPRYLGGYMVLSEAYVALYRQAEDRERGKGYL------------E 101

Query: 122 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS---NPLQASL 178
            AL   +    +       HL +     LL   D A  ++   L ++      + L    
Sbjct: 102 QALSVLKDAERVNPRYAPLHLQRGLVYALLGERDKAEASLKQALALEDTPEIRSALAELY 161

Query: 179 QNLER 183
            ++ R
Sbjct: 162 LSMGR 166

>3tax_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; thiocarbamate crosslink, covalent inhibitor, gylcosyltransfe inhibitor, O-GLCNAC transferase; HET: UDP; 1.88A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* Length = 723

 Score = 42.5 bits (99), Expect = 3e-04
 Identities = 22/127 (17%), Positives = 43/127 (33%), Gaps = 11/127 (8%)

Query: 54  GNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF----------LKHRPP 103
            N    + N EEA+  Y +A  + P       N +S   +  +           ++  P 
Sbjct: 16  ANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPT 75

Query: 104 SASEYRPL-NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAIL 162
            A  Y  + N L      + AL+   + + +      +H   A+          A  +  
Sbjct: 76  FADAYSNMGNTLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYR 135

Query: 163 SGLQVDP 169
           + L++ P
Sbjct: 136 TALKLKP 142

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus} Length = 101

 Score = 39.1 bits (90), Expect = 3e-04
 Identities = 13/42 (30%), Positives = 16/42 (38%), Gaps = 2/42 (4%)

Query: 205 CTLCLK-LLYEPITTPCGHSFCRSCLFQSMDRGNK-CPLCRA 244
           C  C   +       PC H FC  C      +G+K CP C  
Sbjct: 4   CDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSD 45

>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 68

 Score = 37.9 bits (88), Expect = 4e-04
 Identities = 13/49 (26%), Positives = 19/49 (38%), Gaps = 5/49 (10%)

Query: 197 PERTDDFDCTLCLKLLYEPITTPCGH-SFCRSCLFQSMDRGNKCPLCRA 244
           P   +  DC +C       +  PC H   C  C  +      +CP+CR 
Sbjct: 10  PSEENSKDCVVCQNGTVNWVLLPCRHTCLCDGC-VKYFQ---QCPMCRQ 54

>2cs3_A Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.3 Length = 93

 Score = 38.2 bits (88), Expect = 5e-04
 Identities = 12/59 (20%), Positives = 18/59 (30%), Gaps = 9/59 (15%)

Query: 195 GTPERTDDFDCTLCLKLLYEPITTPC----GHSFCRSCLFQSMDRGNK-----CPLCRA 244
                +    CT+C + L +     C     H FC  C  +S+          CP    
Sbjct: 8   SPMANSGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKAQGATGEVYCPSGEK 66

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1 Length = 275

 Score = 40.8 bits (96), Expect = 6e-04
 Identities = 23/117 (19%), Positives = 40/117 (34%), Gaps = 23/117 (19%)

Query: 53  KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLN 112
           +G           A +++S+A  I+P  P V         +   F               
Sbjct: 49  RGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNF--------------- 93

Query: 113 GLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 169
                   + A +  + +L L      +HL +  AL    R  +A+D +L+  Q DP
Sbjct: 94  --------DAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDP 142

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1 Length = 275

 Score = 40.4 bits (95), Expect = 7e-04
 Identities = 15/109 (13%), Positives = 26/109 (23%), Gaps = 13/109 (11%)

Query: 62  NFEEAISNYSRANNIKPGDPIVLGNRSSAYI-------------RISQFLKHRPPSASEY 108
             + A  +        P DP        A                  +  K +       
Sbjct: 126 RDKLAQDDLLAFYQDDPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWGWNIVE 185

Query: 109 RPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMA 157
             L  +   T  E    DA    +L  +  +++       + L   D A
Sbjct: 186 FYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSA 234

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	476
3m65_A	209	ATP-dependent protease LA 1; coiled-coil, ATP-bind	99.98
3ljc_A	252	ATP-dependent protease LA; LON N-domain, allosteri	99.97
1zbo_A	210	Hypothetical protein BPP1347; alpha-beta protein,	99.97
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.95
2ane_A	125	ATP-dependent protease LA; LONN119, LON protease,	99.88
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.79
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	99.73
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	99.69
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	99.67
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	99.66
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	99.63
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.62
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	99.6
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	99.59
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	99.57
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.56
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	99.52
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	99.5
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	99.5
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	99.49
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	99.48
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	99.48
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	99.46
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	99.46
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.45
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	99.45
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.43
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.43
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	99.43
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	99.42
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.41
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.41
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	99.4
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.4
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	99.4
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.4
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.4
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.38
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.35
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.35
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.35
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.34
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.34
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.34
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.33
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.32
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.31
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	99.31
3k9i_A	117	BH0479 protein; putative protein binding protein,	99.31
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	99.3
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.29
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.29
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.28
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	99.28
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.28
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.27
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.27
2l6j_A	111	TPR repeat-containing protein associated with HSP;	99.26
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	99.24
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	99.24
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.18
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.18
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.17
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.17
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.17
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.16
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.16
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.16
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.15
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.15
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.14
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.14
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	99.14
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.14
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.14
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.13
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.11
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	99.11
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.11
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.1
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.09
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.08
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.08
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.08
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.08
2kat_A	115	Uncharacterized protein; NESG, structure, structur	99.08
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.07
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.07
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.07
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.07
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.07
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.06
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.06
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.06
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.06
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.05
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.04
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.04
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.03
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.02
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.02
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.02
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.02
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.01
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	99.01
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.01
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	99.01
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.01
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.01
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.0
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.0
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.0
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.0
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.0
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.0
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.0
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.99
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	98.99
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	98.97
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	98.97
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	98.97
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.97
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	98.96
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	98.96
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.93
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	98.93
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	98.93
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	98.92
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	98.92
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	98.92
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	98.91
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	98.9
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.9
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	98.9
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.9
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.89
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	98.89
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.88
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.87
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	98.87
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.87
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.86
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	98.86
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.86
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	98.85
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.85
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.85
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	98.85
2ect_A	78	Ring finger protein 126; metal binding protein, st	98.84
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	98.83
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	98.83
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	98.82
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	98.82
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	98.79
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.79
4g1t_A	472	Interferon-induced protein with tetratricopeptide	98.78
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	98.78
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	98.78
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	98.78
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.78
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.78
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.77
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.76
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.76
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	98.76
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.75
2gw1_A	514	Mitochondrial precursor proteins import receptor;	98.74
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.73
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.72
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	98.72
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.72
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	98.71
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.71
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.7
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.7
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.69
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.69
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.68
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	98.68
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.68
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.67
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.67
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.67
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.67
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	98.66
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.65
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.65
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	98.64
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	98.64
1pc2_A	152	Mitochondria fission protein; unknown function; NM	98.64
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.63
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.62
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	98.61
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.61
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.61
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	98.6
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	98.59
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.59
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.59
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.57
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.57
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.56
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.56
4g1t_A	472	Interferon-induced protein with tetratricopeptide	98.55
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.54
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.54
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.54
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	98.53
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.53
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.52
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.52
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	98.51
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.51
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.51
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.51
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.5
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	98.5
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.49
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.48
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.48
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.48
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.47
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.47
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.47
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.47
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	98.46
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.45
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	98.45
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.44
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.43
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.41
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.4
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.4
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	98.4
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.38
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.35
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.35
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.34
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	98.34
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	98.33
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.3
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	98.3
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	98.29
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	98.28
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	98.27
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	98.27
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.26
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.26
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	98.26
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	98.25
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.21
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	98.21
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	98.2
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.2
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.19
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	98.12
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.1
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.08
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.05
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	98.04
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	98.02
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	97.98
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	97.96
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.89
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.88
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.87
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.86
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	97.85
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	97.7
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.65
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	97.64
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.61
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	97.55
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	97.54
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	97.52
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	97.49
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	97.46
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	97.45
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	97.43
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	97.42
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	97.4
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	97.35
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.3
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.25
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.22
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	97.08
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.01
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	96.99
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	96.89
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	96.7
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.67
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.59
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	96.47
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.34
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.08
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	95.85
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	95.82
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	95.78
3mv2_A	325	Coatomer subunit alpha; vesicular membrane coat CO	95.16
3mkr_B	320	Coatomer subunit alpha; tetratricopeptide repeats	95.0
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	94.68
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	94.28
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	93.59
3nw0_A	238	Non-structural maintenance of chromosomes element	93.58
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	93.4
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	93.27
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	93.03
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	92.15
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	90.55
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	89.11
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	87.78
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	87.28
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	87.08
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	86.47
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	82.75
1ya0_A	497	SMG-7 transcript variant 2; alpha-helical repeat,	82.32
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	82.07
1ya0_A	497	SMG-7 transcript variant 2; alpha-helical repeat,	80.09

>3m65_A ATP-dependent protease LA 1; coiled-coil, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; 2.60A {Bacillus subtilis}

Probab=99.98  E-value=1.8e-32  Score=254.29  Aligned_cols=174  Identities=14%  Similarity=0.267  Sum_probs=151.5

Q ss_pred             CCCcceee--cccCCCccCCCCCChhHHHHHHHHHhcCceeEEEEec------CCCCCcccceeEEEEEEeeecCCceEE
Q 011861          288 LMPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIID------PTTGSVADFACEVEITECEPLPDGRFV  359 (476)
Q Consensus       288 ~lPl~~l~--vlfP~~~~pl~v~~~~~~~~v~~a~~~~~~~~v~~~~------~~~~~l~~iGt~~~I~~~~~~~dG~~~  359 (476)
                      .+|+||++  |+|||+++||+||+++|++|+++|+++++.||++++.      |..+++|+|||+|+|.++.++|||+++
T Consensus         8 ~lPl~PLr~~vlfPg~~~pL~V~~~r~~~~v~~a~~~~~~i~lv~q~~~~~~~p~~~~l~~vGt~a~I~~~~~l~dG~~~   87 (209)
T 3m65_A            8 SIPLLPLRGLLVYPTMVLHLDVGRDKSVQALEQAMMHDHMIFLATQQDISIDEPGEDEIFTVGTYTKIKQMLKLPNGTIR   87 (209)
T ss_dssp             EEEEEEESSCCCCTTCEEEEEECSHHHHHHHHHHTTTTSEEEEEEBSSTTCSSCCGGGBCSEEEEEEEEEEEECTTSCEE
T ss_pred             ceEEEEeCCccccCCccEEEEECCHHHHHHHHHHHhcCCEEEEEEecCCCcCCCCcchhhheeEEEEEEEEEECCCCeEE
Confidence            59999997  9999999999999999999999999999999999983      334689999999999999999999999


Q ss_pred             EEEEecceeEEeeeecCCCeeEEEEEEecCCCCCCcchhhhHHHHHHHHHHHHHHHHHHhHHhhHHHHHHHHHHhhcccC
Q 011861          360 LEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVM  439 (476)
Q Consensus       360 V~v~G~~R~~I~~~~~~~~~~~a~v~~l~d~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~~l~~il~~~~~  439 (476)
                      |+++|.+||+|.++.+.+||+.|+|++++|++.    ...+.+++.+.+.+.+.+|...++.++.+..       ..   
T Consensus        88 v~v~G~~R~ri~~~~~~~~~~~a~v~~~~~~~~----~~~e~~al~~~l~~~~~~~~~~~~~~~~e~~-------~~---  153 (209)
T 3m65_A           88 VLVEGLKRAHIVKYNEHEDYTSVDIQLIHEDDS----KDTEDEALMRTLLDHFDQYIKISKKISAETY-------AA---  153 (209)
T ss_dssp             EEEEEEEEEEEEEEEECSSSEEEEEEECCCC------CCSHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HH---
T ss_pred             EEEEEEEEEEEEEEEcCCCcEEEEEEEecCCCC----CCHHHHHHHHHHHHHHHHHHHhCCCCCHHHH-------HH---
Confidence            999999999999999999999999999987532    2246788999999999999988776665321       11   


Q ss_pred             CCCCCChhhhHHHHHhcCCCChHHhHhhcccCCCCC
Q 011861          440 MPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRE  475 (476)
Q Consensus       440 ~~~~~~p~~l~~~va~~l~l~~~~kq~LLe~~d~~e  475 (476)
                      +...+||++|+|++|+++|++.++||+|||+.|+.+
T Consensus       154 ~~~~~dp~~lad~ia~~l~l~~~ekQ~lLe~~d~~~  189 (209)
T 3m65_A          154 VTDIEEPGRMADIVASHLPLKLKDKQDILETADVKD  189 (209)
T ss_dssp             HHTCCCHHHHHHHHHHHSCCCHHHHHHHHTCCSHHH
T ss_pred             HHccCCHHHHHHHHHHhCCCCHHHHHHHHcCCCHHH
Confidence            224599999999999999999999999999999753

>3ljc_A ATP-dependent protease LA; LON N-domain, allosteric enzyme, ATP-binding, DNA-binding, H nucleotide-binding, serine protease, stress respo; 2.60A {Escherichia coli}

Probab=99.97  E-value=1.2e-31  Score=255.65  Aligned_cols=175  Identities=19%  Similarity=0.249  Sum_probs=153.0

Q ss_pred             CCCCcceee--cccCCCccCCCCCChhHHHHHHHHHhcCceeEEEEec------CCCCCcccceeEEEEEEeeecCCceE
Q 011861          287 DLMPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIID------PTTGSVADFACEVEITECEPLPDGRF  358 (476)
Q Consensus       287 ~~lPl~~l~--vlfP~~~~pl~v~~~~~~~~v~~a~~~~~~~~v~~~~------~~~~~l~~iGt~~~I~~~~~~~dG~~  358 (476)
                      ..+|+||++  |+|||+++||+||+++|+.|+++|+++++.||++++.      |..+++|+|||+|+|.++.++|||++
T Consensus        16 ~~lPl~PLr~~VlfPg~~~pL~I~~~r~~~~v~~a~~~~~~~~lv~q~~~~~~~p~~~~l~~vGt~a~I~~~~~lpdG~~   95 (252)
T 3ljc_A           16 IEIPVLPLRDVVVYPHMVIPLFVGREKSIRCLEAAMDHDKKIMLVAQKEASTDEPGVNDLFTVGTVASILQMLKLPDGTV   95 (252)
T ss_dssp             CCCEEEEESSCCCCBTCEEEEEECCTTTHHHHHHHHTTTTEEEEEEBCSSCCSSCCSSSBCSEEEEEEECCCBCCTTSCE
T ss_pred             CceeEEEeCCccccCCcceEEEECCHHHHHHHHHHHhcCCEEEEEEecCCCcCCCCccchhheeEEEEEEEEEECCCCeE
Confidence            359999998  9999999999999999999999999999999999983      34468999999999999999999999


Q ss_pred             EEEEEecceeEEeeeecCCCeeEEEEEEecCCCCCCcchhhhHHHHHHHHHHHHHHHHHHhHHhhHHHHHHHHHHhhccc
Q 011861          359 VLEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEV  438 (476)
Q Consensus       359 ~V~v~G~~R~~I~~~~~~~~~~~a~v~~l~d~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~~l~~il~~~~  438 (476)
                      +|+++|.+||+|.++.+.+||+.|+|+++++++.    ...+.+++.+.+.+.+.+|...++.++.+          ...
T Consensus        96 ~v~v~G~~R~rI~~~~~~~~~~~a~ve~l~d~~~----~~~e~~al~~~l~~~~~~~~~l~~~~~~e----------~~~  161 (252)
T 3ljc_A           96 KVLVEGLQRARISALSDNGEHFSAKAEYLESPTI----DEREQEVLVRTAISQFEGYIKLNKKIPPE----------VLT  161 (252)
T ss_dssp             EEEEEEEEEEECSEEEEETTEEEEECCCCCCCCS----CHHHHHHHHHHHHHHHHHHHHHHCSSCHH----------HHH
T ss_pred             EEEEEEEEEEEEEEEEcCCCcEEEEEEeecCCCC----CChHHHHHHHHHHHHHHHHHHhcccCCHH----------HHH
Confidence            9999999999999999999999999999987532    23467889999999999999877666652          112


Q ss_pred             CCCCCCChhhhHHHHHhcCCCChHHhHhhcccCCCCC
Q 011861          439 MMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRE  475 (476)
Q Consensus       439 ~~~~~~~p~~l~~~va~~l~l~~~~kq~LLe~~d~~e  475 (476)
                      .+...+||++|+|++|+++|++.++||+|||+.|+.+
T Consensus       162 ~~~~~~dp~~Lad~ia~~l~l~~~eKQ~LLe~~d~~~  198 (252)
T 3ljc_A          162 SLNSIDDPARLADTIAAHMPLKLADKQSVLEMSDVNE  198 (252)
T ss_dssp             HTTSCCCHHHHHHHHHHTSCCCHHHHHHHHHCCCHHH
T ss_pred             HHHccCCHHHHHHHHHHhCCCCHHHHHHHHhcCCHHH
Confidence            2445699999999999999999999999999999753

>1zbo_A Hypothetical protein BPP1347; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.60A {Bordetella parapertussis} SCOP: b.122.1.10

Probab=99.97  E-value=7.1e-31  Score=243.76  Aligned_cols=175  Identities=20%  Similarity=0.240  Sum_probs=145.5

Q ss_pred             CCCcceee-cccCCCccCCCCCChhHHHHHHHHHhcCceeEEEEecCC--------CCCcccceeEEEEEEeeecCCceE
Q 011861          288 LMPLFVMD-VVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPT--------TGSVADFACEVEITECEPLPDGRF  358 (476)
Q Consensus       288 ~lPl~~l~-vlfP~~~~pl~v~~~~~~~~v~~a~~~~~~~~v~~~~~~--------~~~l~~iGt~~~I~~~~~~~dG~~  358 (476)
                      .+|+||+. |+|||+++||+||+++|++|+++|+++++.||++++...        .+++|+|||+|+|.++.++|||++
T Consensus         3 ~lPl~PL~~vlfPg~~~pL~V~~~r~~~~v~~a~~~~~~~glv~~~~~~~~~~~~~~~dl~~vGt~a~I~~~~~lpdG~~   82 (210)
T 1zbo_A            3 EIPLFPLSNALFPAGVLRLRVFEIRYLDMVRRCIADGSEFGVVVLEQGTEVRRPDGREVLARAGTMARIDHWEAPMPALL   82 (210)
T ss_dssp             EEEEEEESSCCCTTBEEEEEECSTTTHHHHHHHHHTTCCEEEEEESSSCSSCCSSCCCCEEEEEEEEEEEEEECSSTTCE
T ss_pred             EeeEEecCeeecCCCceeeEECCHHHHHHHHHHHhcCCcEEEEEeCCCcccCcccccCchhceEEEEEEEEEEeCCCceE
Confidence            48999998 999999999999999999999999999999999998421        246999999999999999999999


Q ss_pred             EEEEEecceeEEee-eecCCCeeEEEEEEecCCCCCCcchhhhHHHHHHHHHHHHHHHHHHhHHhhHHHHHHHHHHhhcc
Q 011861          359 VLEIESRRRFRILR-SWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVE  437 (476)
Q Consensus       359 ~V~v~G~~R~~I~~-~~~~~~~~~a~v~~l~d~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~~l~~il~~~  437 (476)
                      +|+++|.+||+|.+ +.+.+||+.|+|++++|++..  +...+.+++.+.+++.+.+|...+. .+.        . ..+
T Consensus        83 ~v~v~G~~R~rI~~~~~~~~~y~~a~ve~l~~~~~~--~~~~e~~al~~~l~~~~~~~~~~~~-~~~--------~-~~l  150 (210)
T 1zbo_A           83 ELACTGTGRFRLHACTQGKYGLWTGQAEPVPDDAPL--EVPPELARSASALGRLIARLQREGV-PPH--------I-MPM  150 (210)
T ss_dssp             EEEEEEEEEEEEEEEEECGGGCEEEEEEEECCCCCC--CCCGGGHHHHHHHHHHHHHHHHTTC-CTT--------T-CSB
T ss_pred             EEEEEEEEEEEEEEEeecCCCcEEEEEEEcCCCCCC--CCcHHHHHHHHHHHHHHHHHHHhcc-ccc--------c-ccC
Confidence            99999999999965 668899999999999885321  1234678899999999988877650 000        0 001


Q ss_pred             cCCCCCCChhhhHHHHHhcCCCChHHhHhhcccCCCCC
Q 011861          438 VMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRE  475 (476)
Q Consensus       438 ~~~~~~~~p~~l~~~va~~l~l~~~~kq~LLe~~d~~e  475 (476)
                      ......+||+.|+|++|+++|++.++||+|||+ |+.+
T Consensus       151 ~~~~~~~dp~~lad~ia~~l~l~~~ekQ~lLe~-d~~~  187 (210)
T 1zbo_A          151 AAPFRLDDCGWVADRWAEMLSLPPADKARLLLL-PPLD  187 (210)
T ss_dssp             CSCCCTTCHHHHHHHHHHHSCCCHHHHHHHHHS-CHHH
T ss_pred             CCcCCCCCHHHHHHHHHHhCCCCHHHHHHHHhC-CHHH
Confidence            114456899999999999999999999999999 8753

>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=99.95  E-value=6.8e-28  Score=233.92  Aligned_cols=199  Identities=23%  Similarity=0.355  Sum_probs=165.3

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      .+..+...|+.++..|+|++|+..|++|++.+|+++.+|.++|.+|..+|++                       ++|+.
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~-----------------------~~A~~   59 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQP-----------------------EQALA   59 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCH-----------------------HHHHH
Confidence            4678899999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchh-----hHHHH---------------------
Q 011861          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL-----QASLQ---------------------  179 (476)
Q Consensus       126 ~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~-----~~~~~---------------------  179 (476)
                      ++++|++++|++..+++.+|.++..+|+|++|+..|+++++++|+++..     ...+.                     
T Consensus        60 ~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i  139 (281)
T 2c2l_A           60 DCRRALELDGQSVKAHFFLGQCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRIAKKKRWNSIEERRIHQESEL  139 (281)
T ss_dssp             HHHHHTTSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHHHHHHHHHHHHHHHTCCCCCCHH
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHH
Confidence            9999999999999999999999999999999999999999999876321     11110                     


Q ss_pred             ----------HHHHhhhhh----------------------------------hcc--cCCCCCCCCccccccccccccc
Q 011861          180 ----------NLERTTASL----------------------------------IGR--RIHGTPERTDDFDCTLCLKLLY  213 (476)
Q Consensus       180 ----------~~~~~~~~~----------------------------------~~~--~~~~~~~~~~~~~C~iC~~~~~  213 (476)
                                ..++++...                                  ...  ...........+.|+||+++|.
T Consensus       140 ~~~l~~l~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~~~~~~~~~~~~c~i~~~~~~  219 (281)
T 2c2l_A          140 HSYLTRLIAAERERELEECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEKRKKRDIPDYLCGKISFELMR  219 (281)
T ss_dssp             HHHHHHHHHHHHHHHHTTTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCTTSCCCCCSTTBCTTTCSBCS
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhccccCCCCCcccCCcCcCCHhc
Confidence                      001111000                                  000  1123345667999999999999


Q ss_pred             CcEEccCCCcccHhhHHHhhhc-CCCCcccccccccCCCCcccchhHHHHHHHhCch
Q 011861          214 EPITTPCGHSFCRSCLFQSMDR-GNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPE  269 (476)
Q Consensus       214 ~P~~~~cgh~fC~~Cl~~~~~~-~~~Cp~cr~~~~~~~~~~~~n~~l~~~~~~~~~~  269 (476)
                      +||+++|||+||+.||..|+.. +..||.||.++.  ...+.+|..|.++++.|+..
T Consensus       220 dPv~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~--~~~l~~n~~l~~~i~~~~~~  274 (281)
T 2c2l_A          220 EPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLT--QEQLIPNLAMKEVIDAFISE  274 (281)
T ss_dssp             SEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCC--GGGCEECHHHHHHHHHHHTT
T ss_pred             CCeECCCCCEECHHHHHHHHHHCCCCCcCCCCCCc--hhcCcccHHHHHHHHHHHHH
Confidence            9999999999999999999985 445999999884  35788999999999988643

>2ane_A ATP-dependent protease LA; LONN119, LON protease, hydrolase; 2.03A {Escherichia coli} SCOP: b.122.1.10

Probab=99.88  E-value=1.6e-22  Score=170.76  Aligned_cols=101  Identities=21%  Similarity=0.295  Sum_probs=93.1

Q ss_pred             CCCcceee--cccCCCccCCCCCChhHHHHHHHHHhcCceeEEEEec------CCCCCcccceeEEEEEEeeecCCceEE
Q 011861          288 LMPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIID------PTTGSVADFACEVEITECEPLPDGRFV  359 (476)
Q Consensus       288 ~lPl~~l~--vlfP~~~~pl~v~~~~~~~~v~~a~~~~~~~~v~~~~------~~~~~l~~iGt~~~I~~~~~~~dG~~~  359 (476)
                      .+|+||++  |+|||+++||+|++++|++|+++|+++++.|+++++.      +..+++|+|||+|+|.++.++|||+++
T Consensus        17 ~lPl~PLr~~vlfPg~~~pL~V~~~r~i~~v~~a~~~~~~i~lv~~k~~~~~~p~~~dl~~vGt~a~I~~~~~lpdG~~~   96 (125)
T 2ane_A           17 EIPVLPLRDVVVYPHMVIPLFVGREKSIRCLEAAMDHDKKIMLVAQKEASTDEPGVNDLFTVGTVASILQMLKLPDGTVK   96 (125)
T ss_dssp             EEEEEEESSCCCCTTCEEEEEECCHHHHHHHHHHHTTTSEEEEEEBCTTCCSSCCGGGBCSEEEEEEEEEEEECTTSCEE
T ss_pred             eEEEEEeCCeeeCCCccEEEEECCHHHHHHHHHHHhcCCEEEEEEecCCCccCCCccchhccEEEEEEEEEeeCCCCcEE
Confidence            49999997  9999999999999999999999999999899999883      233579999999999999999999999


Q ss_pred             EEEEecceeEEeeeecCCCeeEEEEEEec
Q 011861          360 LEIESRRRFRILRSWDQDGYRVAEIEWVQ  388 (476)
Q Consensus       360 V~v~G~~R~~I~~~~~~~~~~~a~v~~l~  388 (476)
                      |+++|.+||+|.++.+.+||+.|+|++++
T Consensus        97 ilv~G~~R~rI~~~~~~~~~~~a~V~~l~  125 (125)
T 2ane_A           97 VLVEGLQRARISALSDNGEHFSAKAEYLE  125 (125)
T ss_dssp             EEEEEEEEEEEEEEEECSSSEEEEEEEC-
T ss_pred             EEEEEEEEEEEEEEEcCCCcEEEEEEECC
Confidence            99999999999999899999999999863

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.79  E-value=2.2e-19  Score=152.36  Aligned_cols=116  Identities=25%  Similarity=0.430  Sum_probs=111.4

Q ss_pred             hhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHH
Q 011861           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (476)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (476)
                      .+..+..+.++|+.+|++|+|++|+..|++|++++|+++.+|.++|.+|.++|++                       ++
T Consensus         9 nP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~-----------------------~~   65 (126)
T 4gco_A            9 NPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEF-----------------------QR   65 (126)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HH
T ss_pred             CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccH-----------------------HH
Confidence            3566889999999999999999999999999999999999999999999999999                       99


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          123 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       123 a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      |+.++++|++++|++..+|+.+|.++..+|+|++|+..|+++++++|++..+...+.++
T Consensus        66 A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~l~P~~~~a~~~l~~~  124 (126)
T 4gco_A           66 ALDDCDTCIRLDSKFIKGYIRKAACLVAMREWSKAQRAYEDALQVDPSNEEAREGVRNC  124 (126)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhhhHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcCCHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999988877765

>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=99.73  E-value=2.2e-18  Score=150.67  Aligned_cols=126  Identities=18%  Similarity=0.153  Sum_probs=117.3

Q ss_pred             hhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCC-------Ccc-----cccchhHHHHHHHhhhccCCCCCcccC
Q 011861           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPG-------DPI-----VLGNRSSAYIRISQFLKHRPPSASEYR  109 (476)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~-------~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~  109 (476)
                      .....+..++..|+.+|..|+|++|+..|++||+++|+       +..     +|.|+|.++.++|+|            
T Consensus         6 ~~~~~a~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~------------   73 (159)
T 2hr2_A            6 KEVVGAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSF------------   73 (159)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCH------------
T ss_pred             HHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCH------------
Confidence            34567889999999999999999999999999999999       433     999999999999999            


Q ss_pred             CCCCCCCcchHHHHHHHHHHHhhc-------cccchHHH----HHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHH
Q 011861          110 PLNGLDPTTHAELALKDAEKLLNL-------QSNSMKSH----LLKANALILLERYDMARDAILSGLQVDPFSNPLQASL  178 (476)
Q Consensus       110 ~~~~~~~~~~~~~a~~~~~~al~l-------~p~~~~~~----~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~  178 (476)
                                 ++|+..|++||++       +|++.++|    +++|.++..+|+|++|+..|+++++++|++..+...+
T Consensus        74 -----------~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~~~~~  142 (159)
T 2hr2_A           74 -----------DEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGK  142 (159)
T ss_dssp             -----------HHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTTH
T ss_pred             -----------HHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHH
Confidence                       9999999999999       99999999    9999999999999999999999999999999999999


Q ss_pred             HHHHHhhhhhhc
Q 011861          179 QNLERTTASLIG  190 (476)
Q Consensus       179 ~~~~~~~~~~~~  190 (476)
                      ..+++.+.....
T Consensus       143 ~~~~~~~~~~~~  154 (159)
T 2hr2_A          143 ERMMEVAIDRIA  154 (159)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999888776543

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=99.69  E-value=3.3e-17  Score=144.32  Aligned_cols=127  Identities=22%  Similarity=0.260  Sum_probs=116.6

Q ss_pred             chhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhcc------------------CCCCcccccchhHHHHHHHhhhccCC
Q 011861           41 WDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNI------------------KPGDPIVLGNRSSAYIRISQFLKHRP  102 (476)
Q Consensus        41 ~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~------------------~p~~~~~~~~~a~~~~~~~~~~~~~~  102 (476)
                      .+....+..+...|+.+|+.|+|++|+..|++|+.+                  +|.+..+|.++|.+|.++|+|     
T Consensus         5 ~e~~~~a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~-----   79 (162)
T 3rkv_A            5 DDKLKSVEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDL-----   79 (162)
T ss_dssp             ---CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCH-----
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcH-----
Confidence            345677899999999999999999999999999999                  777779999999999999999     


Q ss_pred             CCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCc-hhhHHHHHH
Q 011861          103 PSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN-PLQASLQNL  181 (476)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~-~~~~~~~~~  181 (476)
                                        ++|+.++++|++++|+++++|+++|.+|..+|+|++|+.+|+++++++|+++ .+...+..+
T Consensus        80 ------------------~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~l~~~  141 (162)
T 3rkv_A           80 ------------------HEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAASVVAREMKIV  141 (162)
T ss_dssp             ------------------HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHH
T ss_pred             ------------------HHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCHHHHHHHHHHH
Confidence                              9999999999999999999999999999999999999999999999999998 778888888


Q ss_pred             HHhhhhhhc
Q 011861          182 ERTTASLIG  190 (476)
Q Consensus       182 ~~~~~~~~~  190 (476)
                      .+.+.....
T Consensus       142 ~~~~~~~~~  150 (162)
T 3rkv_A          142 TERRAEKKA  150 (162)
T ss_dssp             HHHHHHHTT
T ss_pred             HHHHHHHHH
Confidence            887776554

>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=99.67  E-value=1.1e-16  Score=135.59  Aligned_cols=116  Identities=19%  Similarity=0.252  Sum_probs=103.7

Q ss_pred             hhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHH
Q 011861           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (476)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (476)
                      ....+.++.+.|+.+|++|+|++|+.+|++|++++|+++.+|.++|.+|..+|+|                       ++
T Consensus         4 ~~d~A~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~-----------------------~~   60 (127)
T 4gcn_A            4 MTDAAIAEKDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKF-----------------------AE   60 (127)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HH
T ss_pred             cHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhH-----------------------HH
Confidence            4456788999999999999999999999999999999999999999999999999                       99


Q ss_pred             HHHHHHHHhhccccch-------HHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHH
Q 011861          123 ALKDAEKLLNLQSNSM-------KSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (476)
Q Consensus       123 a~~~~~~al~l~p~~~-------~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~  182 (476)
                      |+.++++|++++|++.       ++|+++|.++..+|+|++|+..|+++++.+|+ ++....+.+++
T Consensus        61 A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~kal~~~~~-~~~~~~l~~le  126 (127)
T 4gcn_A           61 CVQFCEKAVEVGRETRADYKLIAKAMSRAGNAFQKQNDLSLAVQWFHRSLSEFRD-PELVKKVKELE  126 (127)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCC-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcC-HHHHHHHHHhC
Confidence            9999999999998764       58899999999999999999999999998875 44444444443

>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=99.66  E-value=1.5e-16  Score=133.66  Aligned_cols=118  Identities=19%  Similarity=0.277  Sum_probs=111.7

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      ..+..+...|..++..|+|++|+..|.++++++|+++.+|.++|.+|..+|++                       ++|+
T Consensus         2 ~~a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~-----------------------~~A~   58 (126)
T 3upv_A            2 MKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSF-----------------------PEAI   58 (126)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHH
T ss_pred             chHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCH-----------------------HHHH
Confidence            45788999999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccC------CCCchhhHHHHHHHHhh
Q 011861          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVD------PFSNPLQASLQNLERTT  185 (476)
Q Consensus       125 ~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~------p~~~~~~~~~~~~~~~~  185 (476)
                      ..++++++++|++..+|+.+|.++..+|+|++|+..|+++++++      |.+..+...+..+.+.+
T Consensus        59 ~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~p~~~~~~~~l~~~~~~l  125 (126)
T 3upv_A           59 ADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYKASQQR  125 (126)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHHhCHHHHHHHHHHHHHhCcccCCchhHHHHHHHHHHHHHhh
Confidence            99999999999999999999999999999999999999999999      88888888887776543

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=99.63  E-value=1.2e-15  Score=134.44  Aligned_cols=126  Identities=25%  Similarity=0.306  Sum_probs=117.9

Q ss_pred             hhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHH
Q 011861           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (476)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (476)
                      +....+..+...|..++..|+|++|+..|.++++++|+++.+|.++|.+|..+|++                       +
T Consensus         6 ~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~-----------------------~   62 (164)
T 3sz7_A            6 APTPESDKLKSEGNAAMARKEYSKAIDLYTQALSIAPANPIYLSNRAAAYSASGQH-----------------------E   62 (164)
T ss_dssp             SCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCH-----------------------H
T ss_pred             hhhhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHHccCH-----------------------H
Confidence            44567889999999999999999999999999999999999999999999999999                       9


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCch--hhHHHHHHHHhhhhhhc
Q 011861          122 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP--LQASLQNLERTTASLIG  190 (476)
Q Consensus       122 ~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~--~~~~~~~~~~~~~~~~~  190 (476)
                      +|+..++++++++|++..+|+.+|.++..+|+|++|+..|+++++++|++..  ....+..+++.+.+...
T Consensus        63 ~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~  133 (164)
T 3sz7_A           63 KAAEDAELATVVDPKYSKAWSRLGLARFDMADYKGAKEAYEKGIEAEGNGGSDAMKRGLETTKRKIEEANR  133 (164)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999999999999999999998  66777777777776654

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.62  E-value=1e-15  Score=133.94  Aligned_cols=107  Identities=12%  Similarity=-0.011  Sum_probs=103.0

Q ss_pred             hhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHH
Q 011861           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (476)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (476)
                      .+..+..+...|..+++.|+|++|+..|.+++.++|+++.+|.++|.+|..+|+|                       ++
T Consensus        32 ~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~-----------------------~~   88 (151)
T 3gyz_A           32 PDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQF-----------------------QQ   88 (151)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HH
T ss_pred             CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccH-----------------------HH
Confidence            3456788999999999999999999999999999999999999999999999999                       99


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCc
Q 011861          123 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (476)
Q Consensus       123 a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~  172 (476)
                      |+..|++|++++|+++.+|+++|.+|..+|++++|+..|+++++++|+++
T Consensus        89 Ai~~~~~al~l~P~~~~~~~~lg~~~~~lg~~~eA~~~~~~al~l~~~~~  138 (151)
T 3gyz_A           89 AADLYAVAFALGKNDYTPVFHTGQCQLRLKAPLKAKECFELVIQHSNDEK  138 (151)
T ss_dssp             HHHHHHHHHHHSSSCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHH
T ss_pred             HHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHH
Confidence            99999999999999999999999999999999999999999999998765

>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=99.60  E-value=2.5e-15  Score=130.87  Aligned_cols=124  Identities=8%  Similarity=0.052  Sum_probs=114.6

Q ss_pred             hhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHH
Q 011861           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (476)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (476)
                      ......+...|..++..|+|++|+..|.+++.++|+++.+|.++|.+|..+|++                       ++|
T Consensus        18 p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~-----------------------~~A   74 (148)
T 2vgx_A           18 SDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQY-----------------------DLA   74 (148)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHH
T ss_pred             HhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhH-----------------------HHH
Confidence            345778889999999999999999999999999999999999999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhhhhc
Q 011861          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIG  190 (476)
Q Consensus       124 ~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~~~~  190 (476)
                      +..|+++++++|+++.+++.+|.+|..+|++++|+..|+++++++|+++........+.+.+....+
T Consensus        75 ~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~l~~l~~  141 (148)
T 2vgx_A           75 IHSYSYGAVMDIXEPRFPFHAAECLLQXGELAEAESGLFLAQELIANXPEFXELSTRVSSMLEAIKL  141 (148)
T ss_dssp             HHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHhcCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCCcchHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999999999999999999887777777777766554

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=99.59  E-value=3.5e-15  Score=128.45  Aligned_cols=124  Identities=11%  Similarity=0.064  Sum_probs=115.6

Q ss_pred             hhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHH
Q 011861           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (476)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (476)
                      ......+...|..++..|+|++|+..|.+++..+|+++.+|.++|.+|..+|++                       ++|
T Consensus        15 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~-----------------------~~A   71 (142)
T 2xcb_A           15 EDTLEQLYALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLY-----------------------EQA   71 (142)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHH
T ss_pred             HHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhH-----------------------HHH
Confidence            445678889999999999999999999999999999999999999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhhhhc
Q 011861          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIG  190 (476)
Q Consensus       124 ~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~~~~  190 (476)
                      +..++++++++|+++.+++.+|.++..+|++++|+..|+++++++|+++........+...+....+
T Consensus        72 ~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~l~~l~~  138 (142)
T 2xcb_A           72 LQSYSYGALMDINEPRFPFHAAECHLQLGDLDGAESGFYSARALAAAQPAHEALAARAGAMLEAVTA  138 (142)
T ss_dssp             HHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCGGGHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999999999999999999888877777777766543

>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=99.57  E-value=7.6e-15  Score=133.50  Aligned_cols=147  Identities=16%  Similarity=0.172  Sum_probs=123.9

Q ss_pred             eeeecccCccccccCCCCCCchhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc----------------ccc
Q 011861           21 VGIDDVDDYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----------------IVL   84 (476)
Q Consensus        21 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~----------------~~~   84 (476)
                      .......+|....+.......+....+..+...|+.++..|+|++|+..|.+++++.|+++                .++
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (198)
T 2fbn_A           12 SGRENLYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCN   91 (198)
T ss_dssp             ----------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHH
T ss_pred             hhhhhhhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHH
Confidence            3344455555555544444456677888999999999999999999999999999999998                899


Q ss_pred             cchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcc
Q 011861           85 GNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSG  164 (476)
Q Consensus        85 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  164 (476)
                      .++|.+|..+|++                       ++|+..++++++++|++..+++.+|.++..+|+|++|+..|+++
T Consensus        92 ~~la~~~~~~~~~-----------------------~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~a  148 (198)
T 2fbn_A           92 LNLATCYNKNKDY-----------------------PKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKA  148 (198)
T ss_dssp             HHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCH-----------------------HHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence            9999999999999                       99999999999999999999999999999999999999999999


Q ss_pred             cccCCCCchhhHHHHHHHHhhhhhhc
Q 011861          165 LQVDPFSNPLQASLQNLERTTASLIG  190 (476)
Q Consensus       165 l~l~p~~~~~~~~~~~~~~~~~~~~~  190 (476)
                      ++++|++..+...+..+...+.....
T Consensus       149 l~~~p~~~~~~~~l~~~~~~~~~~~~  174 (198)
T 2fbn_A          149 ASLNPNNLDIRNSYELCVNKLKEARK  174 (198)
T ss_dssp             HHHSTTCHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHCCCcHHHHHHHHHHHHHHHHHHH
Confidence            99999999999888888777765544

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.56  E-value=3.1e-15  Score=130.41  Aligned_cols=114  Identities=12%  Similarity=0.015  Sum_probs=105.0

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      .....++..|+.|++.|+|++|+..|.++++++|+++.+|.++|.+|..+|++                       ++|+
T Consensus        29 ~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~-----------------------~~A~   85 (150)
T 4ga2_A           29 QKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEENT-----------------------DKAV   85 (150)
T ss_dssp             HHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHH
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCch-----------------------HHHH
Confidence            44556778899999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHH-HhcccccCCCCchhhHHHHHH
Q 011861          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDA-ILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       125 ~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~-~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      ..|+++++++|+++.+|+.+|.+|...|++++|... ++++++++|+++.+......+
T Consensus        86 ~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l~~~l  143 (150)
T 4ga2_A           86 ECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKLKEQL  143 (150)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHHHHHH
Confidence            999999999999999999999999999999887765 589999999999887665554

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=99.52  E-value=2.6e-14  Score=119.83  Aligned_cols=103  Identities=13%  Similarity=0.057  Sum_probs=93.5

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHH
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (476)
                      ..+...|..+++.|++++|+..|.++++.+|+++.+|+++|.++..+|++                       ++|+..+
T Consensus        18 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~-----------------------~~A~~~~   74 (121)
T 1hxi_A           18 ENPMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKD-----------------------GLAIIAL   74 (121)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHHH
T ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCH-----------------------HHHHHHH
Confidence            34788899999999999999999999999999999999999999999999                       9999999


Q ss_pred             HHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCch
Q 011861          128 EKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (476)
Q Consensus       128 ~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~  173 (476)
                      ++|++++|++..+++.+|.++...|++++|+..|+++++++|.+..
T Consensus        75 ~~al~l~P~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~P~~~~  120 (121)
T 1hxi_A           75 NHARMLDPKDIAVHAALAVSHTNEHNANAALASLRAWLLSQPQYEQ  120 (121)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-------
T ss_pred             HHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCCC
Confidence            9999999999999999999999999999999999999999998754

>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=99.50  E-value=4.6e-14  Score=145.96  Aligned_cols=124  Identities=15%  Similarity=0.290  Sum_probs=112.0

Q ss_pred             hhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC---------------cccccchhHHHHHHHhhhccCCCCCc
Q 011861           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---------------PIVLGNRSSAYIRISQFLKHRPPSAS  106 (476)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~---------------~~~~~~~a~~~~~~~~~~~~~~~~~~  106 (476)
                      .....+..+...|+.+++.|+|++|+..|.+|++++|++               ..+|.++|.+|+++|+|         
T Consensus       263 ~~~~~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~---------  333 (457)
T 1kt0_A          263 EKLEQAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREY---------  333 (457)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCH---------
T ss_pred             HHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCH---------
Confidence            445678899999999999999999999999999999999               59999999999999999         


Q ss_pred             ccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhh
Q 011861          107 EYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  186 (476)
Q Consensus       107 ~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~  186 (476)
                                    ++|+..|++|++++|++.++|+++|.+|..+|+|++|+.+|+++++++|++..+...+..+...+.
T Consensus       334 --------------~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~  399 (457)
T 1kt0_A          334 --------------TKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQKKAK  399 (457)
T ss_dssp             --------------HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHHHHH
T ss_pred             --------------HHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHH
Confidence                          999999999999999999999999999999999999999999999999999999888887776665


Q ss_pred             hh
Q 011861          187 SL  188 (476)
Q Consensus       187 ~~  188 (476)
                      ..
T Consensus       400 ~~  401 (457)
T 1kt0_A          400 EH  401 (457)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>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=99.50  E-value=4.1e-14  Score=119.85  Aligned_cols=120  Identities=24%  Similarity=0.377  Sum_probs=110.6

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      ..+..+...|..++..|+|++|+..|.+++.++|+++.++.++|.+|..+|++                       ++|+
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~-----------------------~~A~   63 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQP-----------------------EQAL   63 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCH-----------------------HHHH
Confidence            45788999999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCC-----CchhhHHHHHHHHhhhh
Q 011861          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF-----SNPLQASLQNLERTTAS  187 (476)
Q Consensus       125 ~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~-----~~~~~~~~~~~~~~~~~  187 (476)
                      ..++++++++|+++.+++.+|.++..+|++++|+..|.++++++|+     +..+...+..+++....
T Consensus        64 ~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~l~~~~~~~~~  131 (137)
T 3q49_B           64 ADCRRALELDGQSVKAHFFLGQCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRIAKKKRWN  131 (137)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCchhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHChhHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999998     66666666666655433

>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=99.49  E-value=1.4e-13  Score=112.35  Aligned_cols=115  Identities=31%  Similarity=0.482  Sum_probs=108.9

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      .+..+...|..++..|+|++|+..|.+++..+|+++.++.++|.+|...|++                       ++|+.
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~-----------------------~~A~~   59 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDY-----------------------QKAYE   59 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH-----------------------HHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHhhccH-----------------------HHHHH
Confidence            4678899999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHH
Q 011861          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  183 (476)
Q Consensus       126 ~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~  183 (476)
                      .++++++++|++..+++.+|.++...|++++|+..|+++++++|++..+...+..+.+
T Consensus        60 ~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  117 (118)
T 1elw_A           60 DGCKTVDLKPDWGKGYSRKAAALEFLNRFEEAKRTYEEGLKHEANNPQLKEGLQNMEA  117 (118)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHhhc
Confidence            9999999999999999999999999999999999999999999999888777766643

>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=99.48  E-value=5.9e-14  Score=122.29  Aligned_cols=117  Identities=17%  Similarity=0.159  Sum_probs=100.4

Q ss_pred             HhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccch
Q 011861           59 RESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSM  138 (476)
Q Consensus        59 ~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~  138 (476)
                      +.+.|++|+..|.++++++|+++.+|.++|.++..++++-             -|..+-.+.++|+..|++|++++|++.
T Consensus        14 r~~~feeA~~~~~~Ai~l~P~~aea~~n~G~~l~~l~~~~-------------~g~~al~~~~eAi~~le~AL~ldP~~~   80 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFH-------------SISDAKQMIQEAITKFEEALLIDPKKD   80 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHS-------------CHHHHHHHHHHHHHHHHHHHHHCTTCH
T ss_pred             HHhHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccc-------------hhhhhHhHHHHHHHHHHHHHHhCcCcH
Confidence            4568999999999999999999999999999999999870             000001122699999999999999999


Q ss_pred             HHHHHHHHHHHhhh-----------hHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhhh
Q 011861          139 KSHLLKANALILLE-----------RYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  188 (476)
Q Consensus       139 ~~~~~~~~~~~~~~-----------~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~~  188 (476)
                      .+|+.+|.+|..+|           +|++|+..|+++++++|++...+..++.+.+.-+-.
T Consensus        81 ~A~~~LG~ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~~~y~~al~~~~ka~el~  141 (158)
T 1zu2_A           81 EAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSLEMTAKAPQLH  141 (158)
T ss_dssp             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHTHHHHH
T ss_pred             HHHHHHHHHHHHhcccCcchhhhhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHhCHhcc
Confidence            99999999999875           999999999999999999999988888887776544

>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=99.48  E-value=1e-13  Score=137.45  Aligned_cols=123  Identities=17%  Similarity=0.269  Sum_probs=113.8

Q ss_pred             hhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC---------------cccccchhHHHHHHHhhhccCCCCCc
Q 011861           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---------------PIVLGNRSSAYIRISQFLKHRPPSAS  106 (476)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~---------------~~~~~~~a~~~~~~~~~~~~~~~~~~  106 (476)
                      .....+..+...|+.++..|+|++|+..|.+|++++|++               ..+|.++|.+|.++|+|         
T Consensus       142 ~~p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~---------  212 (336)
T 1p5q_A          142 EKLEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAF---------  212 (336)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCH---------
T ss_pred             HHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCH---------
Confidence            455678899999999999999999999999999999999               59999999999999999         


Q ss_pred             ccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhh
Q 011861          107 EYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  186 (476)
Q Consensus       107 ~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~  186 (476)
                                    ++|+..|++|++++|++..+|+++|.+|..+|+|++|+..|+++++++|++..+...+..+...+.
T Consensus       213 --------------~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~  278 (336)
T 1p5q_A          213 --------------SAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIR  278 (336)
T ss_dssp             --------------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHH
T ss_pred             --------------HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHH
Confidence                          999999999999999999999999999999999999999999999999999988877766655554


Q ss_pred             h
Q 011861          187 S  187 (476)
Q Consensus       187 ~  187 (476)
                      .
T Consensus       279 ~  279 (336)
T 1p5q_A          279 R  279 (336)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.46  E-value=1.1e-13  Score=139.25  Aligned_cols=125  Identities=20%  Similarity=0.282  Sum_probs=116.0

Q ss_pred             hhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhc----------------cCCCCcccccchhHHHHHHHhhhccCCCCC
Q 011861           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANN----------------IKPGDPIVLGNRSSAYIRISQFLKHRPPSA  105 (476)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~----------------~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~  105 (476)
                      .....+..+...|+.+++.|+|++|+..|++|++                ++|.+..+|.++|.+|+++|+|        
T Consensus       218 ~~~~~a~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~--------  289 (370)
T 1ihg_A          218 KILLISEDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDW--------  289 (370)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCH--------
T ss_pred             HHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCH--------
Confidence            3445677899999999999999999999999999                7888899999999999999999        


Q ss_pred             cccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhh
Q 011861          106 SEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (476)
Q Consensus       106 ~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~  185 (476)
                                     ++|+..+++|++++|+++++|+++|.+|..+|+|++|+.+|+++++++|++..+...+..+.+.+
T Consensus       290 ---------------~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~~~~  354 (370)
T 1ihg_A          290 ---------------QGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKI  354 (370)
T ss_dssp             ---------------HHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             ---------------HHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence                           99999999999999999999999999999999999999999999999999999988888887776


Q ss_pred             hhhh
Q 011861          186 ASLI  189 (476)
Q Consensus       186 ~~~~  189 (476)
                      ....
T Consensus       355 ~~~~  358 (370)
T 1ihg_A          355 KAQK  358 (370)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6544

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=99.46  E-value=1.3e-13  Score=115.24  Aligned_cols=120  Identities=26%  Similarity=0.397  Sum_probs=111.4

Q ss_pred             CchhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcch
Q 011861           40 PWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH  119 (476)
Q Consensus        40 ~~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (476)
                      .........++...|..++..|+|++|+..|.++++.+|++..++.++|.+|...|++                      
T Consensus         9 ~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~----------------------   66 (133)
T 2lni_A            9 SHMNPDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEF----------------------   66 (133)
T ss_dssp             CCSSSCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCH----------------------
T ss_pred             CCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccH----------------------
Confidence            3445566889999999999999999999999999999999999999999999999999                      


Q ss_pred             HHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHH
Q 011861          120 AELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (476)
Q Consensus       120 ~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~  182 (476)
                       ++|+..++++++++|++..+++.+|.++..+|++++|+..|+++++++|.+..+...+..+.
T Consensus        67 -~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  128 (133)
T 2lni_A           67 -QLALKDCEECIQLEPTFIKGYTRKAAALEAMKDYTKAMDVYQKALDLDSSCKEAADGYQRCM  128 (133)
T ss_dssp             -HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGTHHHHHHHHHH
T ss_pred             -HHHHHHHHHHHHhCCCchHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCCCchHHHHHHHHHH
Confidence             99999999999999999999999999999999999999999999999999888776666554

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.45  E-value=7.7e-14  Score=128.25  Aligned_cols=113  Identities=16%  Similarity=0.065  Sum_probs=107.9

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccc----------------hhHHHHHHHhhhccCCCCCcccC
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGN----------------RSSAYIRISQFLKHRPPSASEYR  109 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~----------------~a~~~~~~~~~~~~~~~~~~~~~  109 (476)
                      .+..+..+|..++..|+|++|+..|.++++++|+++.+|+.                +|.+|..+|++            
T Consensus         3 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~------------   70 (208)
T 3urz_A            3 SVDEMLQKVSAAIEAGQNGQAVSYFRQTIALNIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNY------------   70 (208)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCH------------
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCH------------
Confidence            46778999999999999999999999999999999999999                99999999999            


Q ss_pred             CCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          110 PLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       110 ~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                                 ++|+..++++++++|++..+++.+|.++...|++++|+..|+++++++|++..+...+..+
T Consensus        71 -----------~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~  131 (208)
T 3urz_A           71 -----------DKAYLFYKELLQKAPNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEADNLAANIFLGNY  131 (208)
T ss_dssp             -----------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             -----------HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence                       9999999999999999999999999999999999999999999999999999988776654

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.45  E-value=2.4e-13  Score=116.03  Aligned_cols=117  Identities=21%  Similarity=0.356  Sum_probs=110.2

Q ss_pred             hhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC---cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcch
Q 011861           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH  119 (476)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (476)
                      ....+..+...|..++..|+|++|+..|.++++++|++   ..++.++|.+|..+|++                      
T Consensus        24 ~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~----------------------   81 (148)
T 2dba_A           24 GASSVEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDY----------------------   81 (148)
T ss_dssp             TCCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCH----------------------
T ss_pred             chHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccH----------------------
Confidence            34568889999999999999999999999999999998   89999999999999999                      


Q ss_pred             HHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHH
Q 011861          120 AELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (476)
Q Consensus       120 ~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~  182 (476)
                       ++|+..++++++++|++..+++.+|.++..+|++++|+..|+++++++|++..+...+..+.
T Consensus        82 -~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~  143 (148)
T 2dba_A           82 -DKAETEASKAIEKDGGDVKALYRRSQALEKLGRLDQAVLDLQRCVSLEPKNKVFQEALRNIS  143 (148)
T ss_dssp             -HHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHH
T ss_pred             -HHHHHHHHHHHhhCccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHH
Confidence             99999999999999999999999999999999999999999999999999998887776664

>2kr4_A Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ring, E3 ligase, UBL conjugation pathway; NMR {Mus musculus}

Probab=99.43  E-value=1e-13  Score=108.49  Aligned_cols=74  Identities=22%  Similarity=0.295  Sum_probs=64.5

Q ss_pred             CCCCcccccccccccccCcEEccCCCcccHhhHHHhhhcCCCCcccccccccCCCCcccchhHHHHHHHhCchHHh
Q 011861          197 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYA  272 (476)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~~~~~~~~~n~~l~~~~~~~~~~~~~  272 (476)
                      ....+.+.|+||+++|.+||+++|||+||+.||..|+.....||.|+..+..  ..+..|..|+++++.|......
T Consensus         9 ~~~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~--~~l~pn~~L~~~i~~~~~~~~~   82 (85)
T 2kr4_A            9 SDAPDEFRDPLMDTLMTDPVRLPSGTVMDRSIILRHLLNSPTDPFNRQMLTE--SMLEPVPELKEQIQAWMREKQS   82 (85)
T ss_dssp             TTCCTTTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCG--GGCEECHHHHHHHHHHHHHHHH
T ss_pred             hcCchheECcccCchhcCCeECCCCCEECHHHHHHHHhcCCCCCCCcCCCCh--HhcchHHHHHHHHHHHHHHhhh
Confidence            3456789999999999999999999999999999999987889999998843  5788999999999988655443

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.43  E-value=3.6e-13  Score=124.57  Aligned_cols=117  Identities=16%  Similarity=0.226  Sum_probs=108.7

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      ..+..+...|..++..|++++|+..|.++++.+|+++.++.++|.++.++|++                       ++|+
T Consensus         3 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~-----------------------~~A~   59 (217)
T 2pl2_A            3 TAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLV-----------------------NPAL   59 (217)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCH-----------------------HHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH-----------------------HHHH
Confidence            34567889999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHhh-----------hhHHHHHHHHhcccccCCCCchhhHHHHHHHHh
Q 011861          125 KDAEKLLNLQSNSMKSHLLKANALILL-----------ERYDMARDAILSGLQVDPFSNPLQASLQNLERT  184 (476)
Q Consensus       125 ~~~~~al~l~p~~~~~~~~~~~~~~~~-----------~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~  184 (476)
                      ..++++++++|+++.+++.+|.++...           |++++|+..|+++++++|++..+...+..+-..
T Consensus        60 ~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~lg~~~~~  130 (217)
T 2pl2_A           60 ENGKTLVARTPRYLGGYMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPRYAPLHLQRGLVYAL  130 (217)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            999999999999999999999999999           999999999999999999999887766555433

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=99.43  E-value=8.9e-14  Score=138.01  Aligned_cols=121  Identities=21%  Similarity=0.263  Sum_probs=97.8

Q ss_pred             hhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc-----------------ccccchhHHHHHHHhhhccCCCC
Q 011861           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP-----------------IVLGNRSSAYIRISQFLKHRPPS  104 (476)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~-----------------~~~~~~a~~~~~~~~~~~~~~~~  104 (476)
                      .....+..+...|+.++..|+|++|+..|.+|+.+.|++.                 .+|.++|.+|.++|+|       
T Consensus       174 ~~~~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~-------  246 (338)
T 2if4_A          174 ERIGAADRRKMDGNSLFKEEKLEEAMQQYEMAIAYMGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRY-------  246 (338)
T ss_dssp             HHHHHHHHHHHHHHHTCSSSCCHHHHHHHHHHHHHSCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCC-------
T ss_pred             HHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCH-------
Confidence            4566788999999999999999999999999999999887                 4899999999999999       


Q ss_pred             CcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHh
Q 011861          105 ASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERT  184 (476)
Q Consensus       105 ~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~  184 (476)
                                      ++|+..|+++++++|++.++|+++|.+|..+|+|++|+.+|+++++++|++..++..+..+...
T Consensus       247 ----------------~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~  310 (338)
T 2if4_A          247 ----------------DEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQ  310 (338)
T ss_dssp             ----------------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC------------------
T ss_pred             ----------------HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
Confidence                            9999999999999999999999999999999999999999999999999999988877776443


Q ss_pred             h
Q 011861          185 T  185 (476)
Q Consensus       185 ~  185 (476)
                      .
T Consensus       311 ~  311 (338)
T 2if4_A          311 E  311 (338)
T ss_dssp             -
T ss_pred             H
Confidence            3

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=99.42  E-value=8.5e-13  Score=109.49  Aligned_cols=121  Identities=22%  Similarity=0.318  Sum_probs=112.3

Q ss_pred             hhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHH
Q 011861           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (476)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (476)
                      .....+..+...|..++..|+|++|+..|.++++.+|+++.++.++|.+|...|++                       +
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~-----------------------~   63 (131)
T 2vyi_A            7 EDSAEAERLKTEGNEQMKVENFEAAVHFYGKAIELNPANAVYFCNRAAAYSKLGNY-----------------------A   63 (131)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------H
T ss_pred             cchhhhHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhhch-----------------------H
Confidence            45567888999999999999999999999999999999999999999999999999                       9


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhh
Q 011861          122 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (476)
Q Consensus       122 ~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~  185 (476)
                      +|+..+.++++++|++..+++.+|.++...|++++|+..|+++++++|.+..+...+..+...+
T Consensus        64 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  127 (131)
T 2vyi_A           64 GAVQDCERAICIDPAYSKAYGRMGLALSSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKL  127 (131)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCccCHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999988777666665443

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.41  E-value=3.3e-13  Score=146.73  Aligned_cols=114  Identities=18%  Similarity=0.170  Sum_probs=80.8

Q ss_pred             hhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHH
Q 011861           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (476)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (476)
                      +..+.++...|+.+.++|+|++|+..|.+|++++|+++.+|.++|.+|.++|++                       ++|
T Consensus         6 P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~-----------------------~eA   62 (723)
T 4gyw_A            6 PTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKL-----------------------QEA   62 (723)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCH-----------------------HHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH-----------------------HHH
Confidence            345666777777777777777777777777777777777777777777777777                       777


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHH
Q 011861          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (476)
Q Consensus       124 ~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~  180 (476)
                      +..|++|++++|++..+|+++|.+|..+|++++|+..|+++++++|++..+...+..
T Consensus        63 ~~~~~~Al~l~P~~~~a~~nLg~~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~  119 (723)
T 4gyw_A           63 LMHYKEAIRISPTFADAYSNMGNTLKEMQDVQGALQCYTRAIQINPAFADAHSNLAS  119 (723)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            777777777777777777777777777777777777777777777776666554433

>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=99.41  E-value=9.9e-13  Score=114.51  Aligned_cols=119  Identities=25%  Similarity=0.385  Sum_probs=110.4

Q ss_pred             CchhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcch
Q 011861           40 PWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH  119 (476)
Q Consensus        40 ~~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (476)
                      +......+..+...|..++..|+|++|+..|.++++.+|+++.++.++|.++..+|++                      
T Consensus         6 ~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~~~~~----------------------   63 (166)
T 1a17_A            6 ADGALKRAEELKTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECY----------------------   63 (166)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCH----------------------
T ss_pred             hhhHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCH----------------------
Confidence            3455677889999999999999999999999999999999999999999999999999                      


Q ss_pred             HHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          120 AELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       120 ~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                       ++|+..+.++++++|++..+++.+|.++..+|++++|+..|.++++++|.+..+...+..+
T Consensus        64 -~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~  124 (166)
T 1a17_A           64 -GYALGDATRAIELDKKYIKGYYRRAASNMALGKFRAALRDYETVVKVKPHDKDAKMKYQEC  124 (166)
T ss_dssp             -HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             -HHHHHHHHHHHHhCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence             9999999999999999999999999999999999999999999999999998876544443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=99.40  E-value=7.1e-13  Score=110.86  Aligned_cols=113  Identities=12%  Similarity=0.083  Sum_probs=105.1

Q ss_pred             HHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc---ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      .+...|..++..|+|++|+..|.++++.+|+++   .+++.+|.+|...|++                       ++|+.
T Consensus         4 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~-----------------------~~A~~   60 (129)
T 2xev_A            4 TAYNVAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNF-----------------------QLAEA   60 (129)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccH-----------------------HHHHH
Confidence            467889999999999999999999999999998   7999999999999999                       99999


Q ss_pred             HHHHHhhccccc---hHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHh
Q 011861          126 DAEKLLNLQSNS---MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERT  184 (476)
Q Consensus       126 ~~~~al~l~p~~---~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~  184 (476)
                      .++++++.+|++   +.+++.+|.++..+|++++|+..|+++++.+|++..+......+.+.
T Consensus        61 ~~~~~~~~~p~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~l~~l  122 (129)
T 2xev_A           61 QFRDLVSRYPTHDKAAGGLLKLGLSQYGEGKNTEAQQTLQQVATQYPGSDAARVAQERLQSI  122 (129)
T ss_dssp             HHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHH
Confidence            999999999999   88999999999999999999999999999999998877766666543

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.40  E-value=9e-14  Score=121.08  Aligned_cols=107  Identities=18%  Similarity=0.161  Sum_probs=98.5

Q ss_pred             hhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhh
Q 011861           53 KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLN  132 (476)
Q Consensus        53 ~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~  132 (476)
                      .|..+..+|++++||..|.+++..+|+++..++++|.+|+++|+|                       ++|+..++++++
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~~~p~~~~~~~~la~~y~~~~~~-----------------------~~A~~~~~~al~   59 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTPSPRQKSIKGFYFAKLYYEAKEY-----------------------DLAKKYICTYIN   59 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSCSHHHHHTTHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHH
T ss_pred             hHHHHHHcChHHHHHHHHHHhcccCcccHHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHHH
Confidence            367778899999999999999999999999999999999999999                       999999999999


Q ss_pred             ccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHH
Q 011861          133 LQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (476)
Q Consensus       133 l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~  182 (476)
                      ++|+++.+|+.+|.++..+|++++|+..|+++++++|++..+...+..+-
T Consensus        60 ~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~  109 (150)
T 4ga2_A           60 VQERDPKAHRFLGLLYELEENTDKAVECYRRSVELNPTQKDLVLKIAELL  109 (150)
T ss_dssp             HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hCCCCHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999998877666553

>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=99.40  E-value=8.9e-13  Score=109.55  Aligned_cols=119  Identities=17%  Similarity=0.280  Sum_probs=109.5

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      .+..+...|..++..|+|++|+..|.++++.+|.++.++.++|.+|...|++                       ++|+.
T Consensus         3 ~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~-----------------------~~A~~   59 (131)
T 1elr_A            3 QALKEKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDY-----------------------NKCRE   59 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH-----------------------HHHHH
T ss_pred             HHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhccH-----------------------HHHHH
Confidence            4677889999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccc-------hHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhhh
Q 011861          126 DAEKLLNLQSNS-------MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  188 (476)
Q Consensus       126 ~~~~al~l~p~~-------~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~~  188 (476)
                      .+.++++++|++       ..+++.+|.++...|++++|+..|+++++++| ++.....+..+.+.+...
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~  128 (131)
T 1elr_A           60 LCEKAIEVGRENREDYRQIAKAYARIGNSYFKEEKYKDAIHFYNKSLAEHR-TPDVLKKCQQAEKILKEQ  128 (131)
T ss_dssp             HHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHhhccccchhHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CHHHHHHHHHHHHHHHHh
Confidence            999999999987       89999999999999999999999999999998 577777777776666543

>2kre_A Ubiquitin conjugation factor E4 B; U-box domain, E3 ubiquitin ligase, E4 polyubiquitin chain EL factor, phosphoprotein, UBL conjugation pathway; NMR {Homo sapiens} PDB: 3l1x_A 3l1z_B

Probab=99.40  E-value=1.7e-13  Score=110.52  Aligned_cols=71  Identities=23%  Similarity=0.293  Sum_probs=63.1

Q ss_pred             CCCCcccccccccccccCcEEccCCCcccHhhHHHhhhcCCCCcccccccccCCCCcccchhHHHHHHHhCch
Q 011861          197 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPE  269 (476)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~~~~~~~~~n~~l~~~~~~~~~~  269 (476)
                      ....+.+.|+||+++|.+||+++|||+||+.||..|+.....||.|+.++..  .++.+|..|+++++.|...
T Consensus        24 ~~~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~--~~L~pn~~Lk~~I~~~~~~   94 (100)
T 2kre_A           24 SDAPDEFRDPLMDTLMTDPVRLPSGTIMDRSIILRHLLNSPTDPFNRQTLTE--SMLEPVPELKEQIQAWMRE   94 (100)
T ss_dssp             SSCSTTTBCTTTCSBCSSEEEETTTEEEEHHHHHHHTTSCSBCSSSCCBCCT--TSSEECHHHHHHHHHHHHT
T ss_pred             ccCcHhhCCcCccCcccCCeECCCCCEEchHHHHHHHHcCCCCCCCCCCCCh--hhceECHHHHHHHHHHHHH
Confidence            3457799999999999999999999999999999999987889999998843  6788999999999888644

>3fl2_A E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA damage, DNA repair, ring finger domain, metal binding, DNA replication; 1.75A {Homo sapiens}

Probab=99.40  E-value=1.8e-13  Score=115.45  Aligned_cols=73  Identities=33%  Similarity=0.681  Sum_probs=63.5

Q ss_pred             cccccccccccccCcEEccCCCcccHhhHHHhhhcC-CCCcccccccccCCCCcccchhHHHHHHHhCchHHhhh
Q 011861          201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRG-NKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAER  274 (476)
Q Consensus       201 ~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~~-~~Cp~cr~~~~~~~~~~~~n~~l~~~~~~~~~~~~~~~  274 (476)
                      +.+.|+||++.+.+|++++|||+||..||..|+... ..||.||..+.. ...+..|..+.++++.++|+...+|
T Consensus        51 ~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~-~~~~~~n~~l~~~i~~~~p~~~~~R  124 (124)
T 3fl2_A           51 ETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR-SYAMQVNQPLQTVLNQLFPGYGNGR  124 (124)
T ss_dssp             HHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT-TCCCCCCHHHHHHHHHHSTTTTTTC
T ss_pred             cCCCCCcCChHHcCcEEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCC-CCCCCCCHHHHHHHHHHcccccccC
Confidence            467899999999999999999999999999999854 479999999853 2568899999999999999876543

>1t1h_A Gspef-atpub14, armadillo repeat containing protein; ubiquitin ligase, E3 ligase, U-BOX,; NMR {Arabidopsis thaliana} SCOP: g.44.1.2

Probab=99.38  E-value=3.3e-13  Score=103.98  Aligned_cols=71  Identities=24%  Similarity=0.475  Sum_probs=61.1

Q ss_pred             CCCCCcccccccccccccCcEEccCCCcccHhhHHHhhhc-CCCCcccccccccCCCCcccchhHHHHHHHhCc
Q 011861          196 TPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR-GNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFP  268 (476)
Q Consensus       196 ~~~~~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~-~~~Cp~cr~~~~~~~~~~~~n~~l~~~~~~~~~  268 (476)
                      .....+.+.|+||++.+.+|+.++|||+||+.||.+|+.. ...||.||..+..  ..+..|..+.+++++|..
T Consensus         2 ~~~~~~~~~C~IC~~~~~~Pv~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~--~~l~~n~~l~~~i~~~~~   73 (78)
T 1t1h_A            2 SPEFPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLH--AGLTPNYVLKSLIALWCE   73 (78)
T ss_dssp             CCCCSSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSS--CCCEECTTTHHHHHHHHH
T ss_pred             CcCCcccCCCCCccccccCCEEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCCh--hhCccCHHHHHHHHHHHH
Confidence            3456678999999999999999999999999999999986 6679999998743  567789999999987753

>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=99.35  E-value=7.6e-13  Score=133.50  Aligned_cols=116  Identities=10%  Similarity=-0.058  Sum_probs=82.1

Q ss_pred             hhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHh-hhccCCCCCcccCCCCCCCCcchHHH
Q 011861           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQ-FLKHRPPSASEYRPLNGLDPTTHAEL  122 (476)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (476)
                      ...+..+...|..+...|+|++|+..|+++|+++|+++.+|.+||.++..+|+ +                       ++
T Consensus        94 p~~~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~P~~~~a~~~~g~~l~~~g~d~-----------------------~e  150 (382)
T 2h6f_A           94 DKFRDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDL-----------------------HE  150 (382)
T ss_dssp             HHHHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCH-----------------------HH
T ss_pred             hhhHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcccCH-----------------------HH
Confidence            34455666677777777777777777777777777777777777777777775 7                       77


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHH
Q 011861          123 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (476)
Q Consensus       123 a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~  182 (476)
                      |+..+++|++++|+++.+|+.+|.++..+|+|++|+..|+++++++|.+..++..+..+-
T Consensus       151 Al~~~~~al~l~P~~~~a~~~~g~~~~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~  210 (382)
T 2h6f_A          151 EMNYITAIIEEQPKNYQVWHHRRVLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVI  210 (382)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHH
Confidence            777777777777777777777777777777777777777777777777766655544433

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.35  E-value=1.2e-12  Score=142.39  Aligned_cols=114  Identities=13%  Similarity=0.067  Sum_probs=108.0

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      .+..+...|..+++.|++++|+..|.+|++++|+++.+|.++|.+|..+|++                       ++|++
T Consensus        42 ~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~~~~a~~nLg~~l~~~g~~-----------------------~~A~~   98 (723)
T 4gyw_A           42 FAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQDV-----------------------QGALQ   98 (723)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH-----------------------HHHHH
Confidence            4677889999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHH
Q 011861          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (476)
Q Consensus       126 ~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~  182 (476)
                      .|++|++++|++..+|+++|.+|..+|++++|+..|+++++++|++..+...+..+.
T Consensus        99 ~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l  155 (723)
T 4gyw_A           99 CYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCL  155 (723)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHH
Confidence            999999999999999999999999999999999999999999999998877665543

>1wgm_A Ubiquitin conjugation factor E4A; ubiquitinating enzyme, KIAA0126, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.44.1.2

Probab=99.35  E-value=7e-13  Score=106.43  Aligned_cols=71  Identities=20%  Similarity=0.303  Sum_probs=62.8

Q ss_pred             CCCCcccccccccccccCcEEccCC-CcccHhhHHHhhhcCCCCcccccccccCCCCcccchhHHHHHHHhCch
Q 011861          197 PERTDDFDCTLCLKLLYEPITTPCG-HSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPE  269 (476)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~P~~~~cg-h~fC~~Cl~~~~~~~~~Cp~cr~~~~~~~~~~~~n~~l~~~~~~~~~~  269 (476)
                      ....+++.|+||+++|.+||+++|| |+||+.||.+|+.....||.||.++..  ..+.+|..|+++++.|...
T Consensus        17 ~~~p~~~~CpI~~~~m~dPV~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~~--~~L~pn~~Lk~~I~~~~~~   88 (98)
T 1wgm_A           17 ADACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTM--DQIRPNTELKEKIQRWLAE   88 (98)
T ss_dssp             CSCCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCT--TTSEECHHHHHHHHHHHHH
T ss_pred             hcCcHhcCCcCccccccCCeECCCCCeEECHHHHHHHHHhCCCCCCCCCCCCh--hhceEcHHHHHHHHHHHHH
Confidence            3456789999999999999999999 999999999999987889999998843  6788999999999888643

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.34  E-value=6.3e-12  Score=115.33  Aligned_cols=105  Identities=20%  Similarity=0.250  Sum_probs=92.1

Q ss_pred             hhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhh
Q 011861           53 KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLN  132 (476)
Q Consensus        53 ~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~  132 (476)
                      .|..++..|+|++|+..|.++++++|+++.++.++|.+|..+|++                       ++|+..|+++++
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~-----------------------~~A~~~~~~al~  116 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQKAPNNVDCLEACAEMQVCRGQE-----------------------KDALRMYEKILQ  116 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH-----------------------HHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHHH
Confidence            899999999999999999999999999999999999999999999                       999999999999


Q ss_pred             ccccchHHHHHHHHHHHh-----------------------------------hhhHHHHHHHHhcccccCCCCchhhHH
Q 011861          133 LQSNSMKSHLLKANALIL-----------------------------------LERYDMARDAILSGLQVDPFSNPLQAS  177 (476)
Q Consensus       133 l~p~~~~~~~~~~~~~~~-----------------------------------~~~~~~A~~~~~~~l~l~p~~~~~~~~  177 (476)
                      ++|+++.+++.+|.+|+.                                   +|+|++|+..|+++++++|++. ....
T Consensus       117 ~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~~~-~~~~  195 (208)
T 3urz_A          117 LEADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSSPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPSTE-AQKT  195 (208)
T ss_dssp             HCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCCHH-HHHH
T ss_pred             cCCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCHH-HHHH
Confidence            999999988888877643                                   3457889999999999988643 3334


Q ss_pred             HHHH
Q 011861          178 LQNL  181 (476)
Q Consensus       178 ~~~~  181 (476)
                      +..+
T Consensus       196 l~~i  199 (208)
T 3urz_A          196 LDKI  199 (208)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4443

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.34  E-value=3.6e-12  Score=117.76  Aligned_cols=114  Identities=17%  Similarity=0.104  Sum_probs=106.0

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHH-----------HhhhccCCCCCcccCCCCC
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRI-----------SQFLKHRPPSASEYRPLNG  113 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~-----------~~~~~~~~~~~~~~~~~~~  113 (476)
                      ..+..+...|..++..|++++|+..|.++++++|+++.++.++|.+|..+           |++                
T Consensus        37 ~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~g~~----------------  100 (217)
T 2pl2_A           37 QDPEALYWLARTQLKLGLVNPALENGKTLVARTPRYLGGYMVLSEAYVALYRQAEDRERGKGYL----------------  100 (217)
T ss_dssp             SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHTCSSHHHHHHHH----------------
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhhhhhhhhcccccCH----------------
Confidence            34677889999999999999999999999999999999999999999999           999                


Q ss_pred             CCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHH
Q 011861          114 LDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (476)
Q Consensus       114 ~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~  182 (476)
                             ++|+..++++++++|++..+++.+|.++..+|++++|+..|+++++++ ++..+...+..+-
T Consensus       101 -------~~A~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~la~~~  161 (217)
T 2pl2_A          101 -------EQALSVLKDAERVNPRYAPLHLQRGLVYALLGERDKAEASLKQALALE-DTPEIRSALAELY  161 (217)
T ss_dssp             -------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCHHHHHHHHHHH
T ss_pred             -------HHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc-cchHHHHHHHHHH
Confidence                   999999999999999999999999999999999999999999999999 7777766555543

>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=99.34  E-value=3.2e-12  Score=118.28  Aligned_cols=106  Identities=16%  Similarity=0.165  Sum_probs=102.0

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCC-CCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKP-GDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      ...+...|..++..|+|++|+..|.++++++| .+..+++++|.+|..+|++                       ++|+.
T Consensus         7 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~-----------------------~~A~~   63 (228)
T 4i17_A            7 PNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKY-----------------------KEAAD   63 (228)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcH-----------------------HHHHH
Confidence            47889999999999999999999999999999 9999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhh
Q 011861          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  175 (476)
Q Consensus       126 ~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~  175 (476)
                      .++++++++|++..+++.+|.++..+|+|++|+..|+++++++|++....
T Consensus        64 ~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~  113 (228)
T 4i17_A           64 YFDIAIKKNYNLANAYIGKSAAYRDMKNNQEYIATLTEGIKAVPGNATIE  113 (228)
T ss_dssp             HHHHHHHTTCSHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHH
T ss_pred             HHHHHHHhCcchHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHH
Confidence            99999999999999999999999999999999999999999999998553

>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=99.33  E-value=1.6e-12  Score=131.05  Aligned_cols=117  Identities=9%  Similarity=-0.017  Sum_probs=110.0

Q ss_pred             hhHHHHHHhhHHHHHhcc-HHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHH
Q 011861           45 THVFDLVQKGNRAFRESN-FEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~-~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (476)
                      ..+..+..+|..+...|+ |++|+..|.+|++++|+++.+|.+||.++..+|++                       ++|
T Consensus       129 ~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~~~~~g~~-----------------------~eA  185 (382)
T 2h6f_A          129 ANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEWLRDP-----------------------SQE  185 (382)
T ss_dssp             TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCC-----------------------TTH
T ss_pred             cCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHccCH-----------------------HHH
Confidence            345677889999999996 99999999999999999999999999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHh
Q 011861          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERT  184 (476)
Q Consensus       124 ~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~  184 (476)
                      +..|++|++++|++..+|+.+|.++..+|+|++|+..|+++++++|.+..++..+..+-..
T Consensus       186 l~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~~~~a~~~lg~~l~~  246 (382)
T 2h6f_A          186 LEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISN  246 (382)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999998887777444

>3l11_A E3 ubiquitin-protein ligase RNF168; E3 ligase, ring domain, DNA damage, chromatin regulator, CHR protein, DNA repair, metal-binding, nucleus; 2.12A {Homo sapiens}

Probab=99.32  E-value=5.4e-13  Score=110.92  Aligned_cols=82  Identities=34%  Similarity=0.788  Sum_probs=67.9

Q ss_pred             CCCcccccccccccccCcEEccCCCcccHhhHHHhhhc-CCCCccccccccc-----CCCCcccchhHHHHHHHhCchHH
Q 011861          198 ERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR-GNKCPLCRAVLFI-----TPRTCAVSVTLNSIIQKNFPEEY  271 (476)
Q Consensus       198 ~~~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~-~~~Cp~cr~~~~~-----~~~~~~~n~~l~~~~~~~~~~~~  271 (476)
                      ...+++.|+||++.+.+|+.++|||+||..||..|+.. ...||.||..+..     ...+..+|..+..++++++|.+.
T Consensus        11 ~~~~~~~C~iC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~n~~l~~~i~~~~p~~~   90 (115)
T 3l11_A           11 PSLSECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRRNSLVNVELWTIIQKHYPREC   90 (115)
T ss_dssp             CCHHHHBCTTTCSBCSSCEECTTSCEECHHHHCCCCCTTTSBCTTTCCBCHHHHHHHHHTTCCBCHHHHHHHHHHSHHHH
T ss_pred             CCCCCCCCccCCcccCceeEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccCccccccccccchhhHHHHHHHHHHCCHHH
Confidence            44568899999999999999999999999999999976 5679999998742     11456788999999999999998


Q ss_pred             hhhhhcch
Q 011861          272 AERKSEHD  279 (476)
Q Consensus       272 ~~~~~~~~  279 (476)
                      ..+....+
T Consensus        91 ~~r~~~~e   98 (115)
T 3l11_A           91 KLRASGQE   98 (115)
T ss_dssp             HHHHHC--
T ss_pred             HHHHhhhh
Confidence            87765543

>1z6u_A NP95-like ring finger protein isoform B; structural genomics consortium, ligase, ubiquitin-protein ligase, cell cycle regulation, SGC; 2.10A {Homo sapiens}

Probab=99.31  E-value=1.1e-12  Score=113.94  Aligned_cols=73  Identities=32%  Similarity=0.642  Sum_probs=63.8

Q ss_pred             cccccccccccccCcEEccCCCcccHhhHHHhhhcCC-CCcccccccccCCCCcccchhHHHHHHHhCchHHhhh
Q 011861          201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGN-KCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAER  274 (476)
Q Consensus       201 ~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~~~-~Cp~cr~~~~~~~~~~~~n~~l~~~~~~~~~~~~~~~  274 (476)
                      +.+.|+||++.+.+|++++|||+||..||..|+.... .||.||..+... ..+..|..+.++++.++|+...+|
T Consensus        77 ~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~-~~l~~n~~l~~lv~~~~p~~~~~R  150 (150)
T 1z6u_A           77 QSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQN-YIMIPNEILQTLLDLFFPGYSKGR  150 (150)
T ss_dssp             HHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT-CCCCBCHHHHHHHHHHSTTTTTTC
T ss_pred             cCCEeecCChhhcCCEEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCCC-CCCCCCHHHHHHHHHHhhHhhccC
Confidence            4679999999999999999999999999999998654 799999998532 378899999999999999876654

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=99.31  E-value=1.7e-12  Score=104.83  Aligned_cols=103  Identities=16%  Similarity=0.164  Sum_probs=97.9

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      +..+...|..++..|+|++|+..|.++++++|++..++.++|.+|..+|++                       ++|+..
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~-----------------------~~A~~~   62 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERY-----------------------EEAVDC   62 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCH-----------------------HHHHHH
Confidence            344677899999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhcccc--chHHHHHHHHHHHhh-hhHHHHHHHHhcccccCCCCc
Q 011861          127 AEKLLNLQSN--SMKSHLLKANALILL-ERYDMARDAILSGLQVDPFSN  172 (476)
Q Consensus       127 ~~~al~l~p~--~~~~~~~~~~~~~~~-~~~~~A~~~~~~~l~l~p~~~  172 (476)
                      ++++++++|+  +..+++.+|.++..+ |++++|+..+++++..+|.+.
T Consensus        63 ~~~a~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~p~~~  111 (112)
T 2kck_A           63 YNYVINVIEDEYNKDVWAAKADALRYIEGKEVEAEIAEARAKLEHHHHH  111 (112)
T ss_dssp             HHHHHHTSCCTTCHHHHHHHHHHHTTCSSCSHHHHHHHHHHGGGCCCCC
T ss_pred             HHHHHHhCcccchHHHHHHHHHHHHHHhCCHHHHHHHHHHHhhcccCCC
Confidence            9999999999  999999999999999 999999999999999999764

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=99.31  E-value=3.8e-13  Score=111.49  Aligned_cols=98  Identities=14%  Similarity=0.068  Sum_probs=88.2

Q ss_pred             HhccHHHHHHHHHHHhcc---CCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccc
Q 011861           59 RESNFEEAISNYSRANNI---KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQS  135 (476)
Q Consensus        59 ~~~~~~~Ai~~y~~al~~---~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p  135 (476)
                      ..|+|++|+..|.+++++   +|+++.++.++|.+|..+|++                       ++|+..++++++++|
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~-----------------------~~A~~~~~~al~~~p   58 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEY-----------------------RKAEAVLANGVKQFP   58 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHCT
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHHHhCC
Confidence            368999999999999999   699999999999999999999                       999999999999999


Q ss_pred             cchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHH
Q 011861          136 NSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQ  179 (476)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~  179 (476)
                      +++.+++.+|.++..+|++++|+..|+++++.+|+++.+.....
T Consensus        59 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~  102 (117)
T 3k9i_A           59 NHQALRVFYAMVLYNLGRYEQGVELLLKIIAETSDDETIQSYKQ  102 (117)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHTHH
T ss_pred             CchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHH
Confidence            99999999999999999999999999999999999987655433

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=99.30  E-value=1e-11  Score=102.01  Aligned_cols=113  Identities=23%  Similarity=0.346  Sum_probs=106.5

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      +..+...|..++..|++++|+..|.++++.+|++..++..+|.++...|++                       ++|+..
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~-----------------------~~A~~~   65 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDY-----------------------DEAIEY   65 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHhCCH-----------------------HHHHHH
Confidence            567888999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHH
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~  182 (476)
                      ++++++.+|++..+++.+|.++...|++++|+..|+++++++|.+..+...+..+.
T Consensus        66 ~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  121 (125)
T 1na0_A           66 YQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAK  121 (125)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999988777666553

>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=99.29  E-value=5.9e-12  Score=116.46  Aligned_cols=116  Identities=11%  Similarity=0.082  Sum_probs=107.4

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc-------ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcc
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP-------IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT  118 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~-------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (476)
                      ....+...|..++..|+|++|+..|.++++++|+++       .+|.++|.++..+|++                     
T Consensus        75 ~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~---------------------  133 (228)
T 4i17_A           75 LANAYIGKSAAYRDMKNNQEYIATLTEGIKAVPGNATIEKLYAIYYLKEGQKFQQAGNI---------------------  133 (228)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHTTCH---------------------
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhHHHHHhccH---------------------
Confidence            456788899999999999999999999999999998       6699999999999999                     


Q ss_pred             hHHHHHHHHHHHhhcccc--chHHHHHHHHHHHhhhhH---------------------------HHHHHHHhcccccCC
Q 011861          119 HAELALKDAEKLLNLQSN--SMKSHLLKANALILLERY---------------------------DMARDAILSGLQVDP  169 (476)
Q Consensus       119 ~~~~a~~~~~~al~l~p~--~~~~~~~~~~~~~~~~~~---------------------------~~A~~~~~~~l~l~p  169 (476)
                        ++|+..++++++++|+  +..+++.+|.++...|+.                           ++|+..|+++++++|
T Consensus       134 --~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~l~p  211 (228)
T 4i17_A          134 --EKAEENYKHATDVTSKKWKTDALYSLGVLFYNNGADVLRKATPLASSNKEKYASEKAKADAAFKKAVDYLGEAVTLSP  211 (228)
T ss_dssp             --HHHHHHHHHHTTSSCHHHHHHHHHHHHHHHHHHHHHHHHHHGGGTTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             --HHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCC
Confidence              9999999999999999  999999999999999988                           999999999999999


Q ss_pred             CCchhhHHHHHHHHh
Q 011861          170 FSNPLQASLQNLERT  184 (476)
Q Consensus       170 ~~~~~~~~~~~~~~~  184 (476)
                      ++..+...+..++..
T Consensus       212 ~~~~~~~~l~~i~~~  226 (228)
T 4i17_A          212 NRTEIKQMQDQVKAM  226 (228)
T ss_dssp             TCHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHHHh
Confidence            999988888777654

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.29  E-value=8.2e-12  Score=111.32  Aligned_cols=113  Identities=16%  Similarity=0.233  Sum_probs=99.7

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      .+.-+...|+.++.+|+|++|+..|+++++++|+++.++.++|.+|..+|++                       ++|+.
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~-----------------------~~a~~   60 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLP-----------------------NDAIE   60 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCH-----------------------HHHHH
Confidence            3566888999999999999999999999999999999999999999999999                       88888


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       126 ~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      .+.+++..+|++..++..+|.++...++++.|...+.++++++|.+..+...+..+
T Consensus        61 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~  116 (184)
T 3vtx_A           61 SLKKFVVLDTTSAEAYYILGSANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLV  116 (184)
T ss_dssp             HHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHhcCchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHH
Confidence            88888888888888888888888888888888888888888888887766655444

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.28  E-value=2e-12  Score=115.32  Aligned_cols=100  Identities=14%  Similarity=0.049  Sum_probs=59.2

Q ss_pred             HHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHH
Q 011861           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (476)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (476)
                      .+...|..++..++++.|+..+.++++++|++..++..+|.+|..+|++                       ++|+..++
T Consensus        75 ~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~-----------------------~~A~~~~~  131 (184)
T 3vtx_A           75 AYYILGSANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEH-----------------------DKAIEAYE  131 (184)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCc-----------------------hhHHHHHH
Confidence            3444555555555555555556666655665556666666666666666                       66666666


Q ss_pred             HHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCC
Q 011861          129 KLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (476)
Q Consensus       129 ~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~  171 (476)
                      ++++++|+++.+|+.+|.+|..+|++++|+..|+++++++|++
T Consensus       132 ~~l~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~  174 (184)
T 3vtx_A          132 KTISIKPGFIRAYQSIGLAYEGKGLRDEAVKYFKKALEKEEKK  174 (184)
T ss_dssp             HHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTHHH
T ss_pred             HHHHhcchhhhHHHHHHHHHHHCCCHHHHHHHHHHHHhCCccC
Confidence            6666666666666666666666666666666666666655543

>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=99.28  E-value=1.8e-12  Score=134.70  Aligned_cols=116  Identities=26%  Similarity=0.420  Sum_probs=108.7

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      ..+..+...|+.++..|+|++|+..|++|++++|+++.+|.++|.+|.++|++                       ++|+
T Consensus         4 ~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~~~p~~~~~~~~lg~~~~~~g~~-----------------------~~A~   60 (477)
T 1wao_1            4 KRAEELKTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECY-----------------------GYAL   60 (477)
T ss_dssp             HHHTTSSSSSSSTTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHH
T ss_pred             hHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCH-----------------------HHHH
Confidence            44666778899999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHH
Q 011861          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  183 (476)
Q Consensus       125 ~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~  183 (476)
                      +.+++|++++|+++.+++.+|.+|..+|+|++|+..|+++++++|++..+...+..+..
T Consensus        61 ~~~~~al~l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~l~~~~~  119 (477)
T 1wao_1           61 GDATRAIELDKKYIKGYYRRAASNMALGKFRAALRDYETVVKVKPHDKDAKMKYQECNK  119 (477)
T ss_dssp             HHHHHHHHSCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCTTHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999988877766633

>3ztg_A E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mRNA processing, mRNA splicing; NMR {Homo sapiens}

Probab=99.28  E-value=3.8e-12  Score=101.26  Aligned_cols=71  Identities=20%  Similarity=0.565  Sum_probs=59.8

Q ss_pred             CCCCcccccccccccccCcEEcc-CCCcccHhhHHHhhhc--CCCCcccccccccCCCCcccchhHHHHHHHhCc
Q 011861          197 PERTDDFDCTLCLKLLYEPITTP-CGHSFCRSCLFQSMDR--GNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFP  268 (476)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~P~~~~-cgh~fC~~Cl~~~~~~--~~~Cp~cr~~~~~~~~~~~~n~~l~~~~~~~~~  268 (476)
                      ....+++.|+||++.+.+|++++ |||+||..||..|+..  ...||.||..+. ....+..|..+.++++.+..
T Consensus         8 ~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~-~~~~~~~n~~l~~~i~~~~~   81 (92)
T 3ztg_A            8 DPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV-SPDALIANKFLRQAVNNFKN   81 (92)
T ss_dssp             CCCCTTTEETTTTEECSSCEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC-CTTSCEECHHHHHHHHHHHH
T ss_pred             ccCCcCCCCCCCChhhcCceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC-CccccCcCHHHHHHHHHHHH
Confidence            34567899999999999999999 9999999999999863  357999999863 23577889999999988754

>4ayc_A E3 ubiquitin-protein ligase RNF8; DNA damage, K63 chains; HET: CPQ; 1.90A {Homo sapiens} PDB: 4epo_C

Probab=99.27  E-value=1.1e-12  Score=112.68  Aligned_cols=74  Identities=27%  Similarity=0.693  Sum_probs=55.1

Q ss_pred             cccccccccccccCcEEccCCCcccHhhHHHhhhcCCCCcccccccccCCCCcccchhHHHHHHHhCchHHhhhh
Q 011861          201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAERK  275 (476)
Q Consensus       201 ~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~~~~~~~~~n~~l~~~~~~~~~~~~~~~~  275 (476)
                      +++.|+||++.+.+|++++|||+||..||..|+.....||.||..+...+.++..+..+..++.. ++.+..++.
T Consensus        52 ~~~~C~iC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~i~~~~~~-l~~~~~~rr  125 (138)
T 4ayc_A           52 NELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICRKDIKSKTYSLVLDNCINKMVNN-LSSEVKERR  125 (138)
T ss_dssp             HHSBCTTTCSBCSSEEEETTSCEEEHHHHHHHTTTCSBCTTTCCBCCCEEECHHHHHHHHHHHTT-SCHHHHHHH
T ss_pred             ccCCCcccCcccCCceECCCCCCccHHHHHHHHHcCCcCCCCCCcCCCCCCccchhHHHHHHHHH-hhHHHHHHH
Confidence            46789999999999999999999999999999998889999999884322233334444444433 455554443

>2ckl_A Polycomb group ring finger protein 4; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_B 2h0d_A

Probab=99.27  E-value=4.2e-12  Score=104.25  Aligned_cols=74  Identities=26%  Similarity=0.597  Sum_probs=63.0

Q ss_pred             CcccccccccccccCcEEc-cCCCcccHhhHHHhhhcCCCCcccccccccCC--CCcccchhHHHHHHHhCchHHhh
Q 011861          200 TDDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDRGNKCPLCRAVLFITP--RTCAVSVTLNSIIQKNFPEEYAE  273 (476)
Q Consensus       200 ~~~~~C~iC~~~~~~P~~~-~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~~~~--~~~~~n~~l~~~~~~~~~~~~~~  273 (476)
                      .+++.|+||++.+.+|+.+ +|||+||..|+..|+..+..||.||..+....  ..+..|..+.++++.+++.....
T Consensus        13 ~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~l~~n~~l~~~i~~~~~~~~~~   89 (108)
T 2ckl_A           13 NPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLLNIRSDKTLQDIVYKLVPGLFKN   89 (108)
T ss_dssp             GGGTBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHTSCSBCTTTCCBSCSSCGGGGEEECHHHHHHHHHHSTTHHHH
T ss_pred             CCcCCCccCChHHhCcCEeCCCCChhhHHHHHHHHHhCCcCcCCCccccccCcccccCcCHHHHHHHHHHhhhHHHH
Confidence            4588999999999999997 99999999999999998889999999874321  25678899999999999865533

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=99.26  E-value=3.1e-12  Score=103.75  Aligned_cols=96  Identities=17%  Similarity=0.240  Sum_probs=90.2

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      .+..+...|..++..|+|++|+..|.++++++|+++.++.++|.+|..+|++                       ++|+.
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~-----------------------~~A~~   59 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEY-----------------------TQAIQ   59 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCH-----------------------HHHHH
Confidence            4678899999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccc------hHHHHHHHHHHHhhhhHHHHHHHHhcc
Q 011861          126 DAEKLLNLQSNS------MKSHLLKANALILLERYDMARDAILSG  164 (476)
Q Consensus       126 ~~~~al~l~p~~------~~~~~~~~~~~~~~~~~~~A~~~~~~~  164 (476)
                      .++++++++|++      ..+++.+|.++..+|+++.|+..+.+.
T Consensus        60 ~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  104 (111)
T 2l6j_A           60 MCQQGLRYTSTAEHVAIRSKLQYRLELAQGAVGSVQIPVVEVDEL  104 (111)
T ss_dssp             HHHHHHTSCSSTTSHHHHHHHHHHHHHHHHHHHCCCCCSSSSSSC
T ss_pred             HHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHhHhhhHhHHHHh
Confidence            999999999999      899999999999999998888776654

>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=99.24  E-value=2.2e-11  Score=108.06  Aligned_cols=117  Identities=13%  Similarity=0.190  Sum_probs=105.7

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHH-HHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSA-YIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      ....+...|..++..|+|++|+..|.++++++|+++.++.++|.+ |...|++..                     ++|+
T Consensus        43 ~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~---------------------~~A~  101 (177)
T 2e2e_A           43 NSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMT---------------------AQTR  101 (177)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCC---------------------HHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcch---------------------HHHH
Confidence            456788999999999999999999999999999999999999999 888888411                     8999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHH
Q 011861          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  183 (476)
Q Consensus       125 ~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~  183 (476)
                      ..++++++++|++..+++.+|.++...|++++|+..|.++++++|.+......+..+.+
T Consensus       102 ~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~i~~  160 (177)
T 2e2e_A          102 AMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPRINRTQLVESINM  160 (177)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTSCHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCCccHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999998876655555544

>2f42_A STIP1 homology and U-box containing protein 1; chaperone; 2.50A {Danio rerio} PDB: 2c2v_S 2oxq_C

Probab=99.24  E-value=9.8e-12  Score=110.13  Aligned_cols=70  Identities=21%  Similarity=0.338  Sum_probs=61.4

Q ss_pred             CCCCCcccccccccccccCcEEccCCCcccHhhHHHhhhc-CCCCcccccccccCCCCcccchhHHHHHHHhC
Q 011861          196 TPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR-GNKCPLCRAVLFITPRTCAVSVTLNSIIQKNF  267 (476)
Q Consensus       196 ~~~~~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~-~~~Cp~cr~~~~~~~~~~~~n~~l~~~~~~~~  267 (476)
                      ....++.+.|+||+++|.+||+++|||+||+.||..|+.. +..||.|+.++..  .++.+|..|+++++.|.
T Consensus       100 ~~~ip~~f~CPI~~elm~DPV~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~--~~L~pN~~Lk~~Ie~~~  170 (179)
T 2f42_A          100 KREIPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQ--DQLIPNLAMKEVIDAFI  170 (179)
T ss_dssp             CCCCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG--GGCEECHHHHHHHHHHH
T ss_pred             ccCCcHhhcccCccccCCCCeECCCCCEECHHHHHHHHHhCCCCCCCCcCCCCh--hhCcchHHHHHHHHHHH
Confidence            3455789999999999999999999999999999999985 4569999998843  57889999999998875

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=99.18  E-value=2.1e-11  Score=132.30  Aligned_cols=112  Identities=11%  Similarity=-0.028  Sum_probs=67.9

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      ..+..+...|..++..|+|++|+..|+++++++|+++.+|+++|.+|..+|++                       ++|+
T Consensus       431 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~-----------------------~~A~  487 (681)
T 2pzi_A          431 ESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLTGDY-----------------------DSAT  487 (681)
T ss_dssp             TCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTCH-----------------------HHHH
T ss_pred             cchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHcCCH-----------------------HHHH
Confidence            34455666666666666666666666666666666666666666666666666                       6666


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHH
Q 011861          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (476)
Q Consensus       125 ~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~  180 (476)
                      +.|++|++++|+++.+|+.+|.++..+|+|++ +..|+++++++|++..+...+..
T Consensus       488 ~~~~~al~l~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~  542 (681)
T 2pzi_A          488 KHFTEVLDTFPGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLAR  542 (681)
T ss_dssp             HHHHHHHHHSTTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHhCCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHH
Confidence            66666666666666666666666666666655 55566666555555555444433

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=99.18  E-value=4.8e-11  Score=108.72  Aligned_cols=104  Identities=15%  Similarity=0.090  Sum_probs=98.4

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      +..+...|..++..|+|++|+..|.++++++|+++.++.++|.+|..+|++                       ++|+..
T Consensus        37 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~-----------------------~~A~~~   93 (213)
T 1hh8_A           37 SRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKY-----------------------DLAIKD   93 (213)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             hHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcccH-----------------------HHHHHH
Confidence            568889999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccch----------------HHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCch
Q 011861          127 AEKLLNLQSNSM----------------KSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (476)
Q Consensus       127 ~~~al~l~p~~~----------------~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~  173 (476)
                      +++++++.|++.                .+++.+|.++..+|++++|+..|+++++++|++..
T Consensus        94 ~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~  156 (213)
T 1hh8_A           94 LKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEPRH  156 (213)
T ss_dssp             HHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSGGG
T ss_pred             HHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCccccc
Confidence            999999877765                99999999999999999999999999999997643

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.17  E-value=9.9e-11  Score=110.70  Aligned_cols=113  Identities=11%  Similarity=0.096  Sum_probs=104.0

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC---cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (476)
                      ..+..++..|..++..|+|++|+..|.++++.+|++   +.+++.+|.+|+++|+|                       +
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~-----------------------~   69 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEY-----------------------L   69 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCH-----------------------H
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcH-----------------------H
Confidence            457789999999999999999999999999999999   89999999999999999                       9


Q ss_pred             HHHHHHHHHhhcccc---chHHHHHHHHHHHh--------hhhHHHHHHHHhcccccCCCCchhhHHHHH
Q 011861          122 LALKDAEKLLNLQSN---SMKSHLLKANALIL--------LERYDMARDAILSGLQVDPFSNPLQASLQN  180 (476)
Q Consensus       122 ~a~~~~~~al~l~p~---~~~~~~~~~~~~~~--------~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~  180 (476)
                      +|+..++++++++|+   ...+++.+|.++..        .|++++|+..|+++++.+|++..+......
T Consensus        70 ~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~  139 (261)
T 3qky_A           70 LAASEYERFIQIYQIDPRVPQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPNHELVDDATQK  139 (261)
T ss_dssp             HHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCCchhHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcCchhHHHHHHH
Confidence            999999999999885   46799999999999        999999999999999999999877655433

>2y43_A E3 ubiquitin-protein ligase RAD18; DNA repair, metal-binding, translesion synthesis, UB conjugation pathway; 1.80A {Homo sapiens}

Probab=99.17  E-value=1.5e-11  Score=99.18  Aligned_cols=65  Identities=17%  Similarity=0.514  Sum_probs=57.4

Q ss_pred             cccccccccccccCcEEc-cCCCcccHhhHHHhhhcCCCCcccccccccCCCCcccchhHHHHHHHhC
Q 011861          201 DDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNF  267 (476)
Q Consensus       201 ~~~~C~iC~~~~~~P~~~-~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~~~~~~~~~n~~l~~~~~~~~  267 (476)
                      +.+.|+||++.+.+|+.+ +|||+||..|+..|+.....||.||..+..  .++..|..+.++++.+.
T Consensus        21 ~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~--~~l~~n~~l~~~i~~~~   86 (99)
T 2y43_A           21 DLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTE--PDLKNNRILDELVKSLN   86 (99)
T ss_dssp             HHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCG--GGCEECHHHHHHHHHHH
T ss_pred             CCCCcccCChhhCCcCEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCCh--hhCCcCHHHHHHHHHHH
Confidence            467999999999999998 999999999999999988899999998743  56788999999987763

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.17  E-value=3.8e-11  Score=111.86  Aligned_cols=113  Identities=19%  Similarity=0.286  Sum_probs=103.7

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      ....+...|..++..|+|++|+..|.++++.+|+++.++.++|.+|..+|++                       ++|+.
T Consensus       138 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~-----------------------~~A~~  194 (258)
T 3uq3_A          138 KAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSF-----------------------PEAIA  194 (258)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             hHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCH-----------------------HHHHH
Confidence            4566788999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccC------CCCchhhHHHHHH
Q 011861          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVD------PFSNPLQASLQNL  181 (476)
Q Consensus       126 ~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~------p~~~~~~~~~~~~  181 (476)
                      .++++++++|++..+++.+|.++...|++++|+..|+++++++      |.+..+...+..+
T Consensus       195 ~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~p~~~~~~~~l~~~  256 (258)
T 3uq3_A          195 DCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYKA  256 (258)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHT
T ss_pred             HHHHHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhChhhcCCCchHHHHHHHHHh
Confidence            9999999999999999999999999999999999999999999      8777766655543

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.16  E-value=6.6e-12  Score=109.61  Aligned_cols=99  Identities=9%  Similarity=-0.079  Sum_probs=90.4

Q ss_pred             HHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHH
Q 011861           65 EAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLK  144 (476)
Q Consensus        65 ~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~  144 (476)
                      .+-..|.++++++|+++.+++++|.++++.|++                       ++|+..|+++++++|+++.+|+.+
T Consensus        20 ~~~~~l~~al~l~p~~~~~~~~lg~~~~~~g~~-----------------------~eA~~~~~~al~~~P~~~~~~~~l   76 (151)
T 3gyz_A           20 NSGATLKDINAIPDDMMDDIYSYAYDFYNKGRI-----------------------EEAEVFFRFLCIYDFYNVDYIMGL   76 (151)
T ss_dssp             HTSCCTGGGCCSCHHHHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HCCCCHHHHhCCCHHHHHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHHHhCCCCHHHHHHH
Confidence            344668889999999999999999999999999                       999999999999999999999999


Q ss_pred             HHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhh
Q 011861          145 ANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  186 (476)
Q Consensus       145 ~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~  186 (476)
                      |.++..+|+|++|+..|+++++++|+++.+...+..+-..++
T Consensus        77 g~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~lg~~~~~lg  118 (151)
T 3gyz_A           77 AAIYQIKEQFQQAADLYAVAFALGKNDYTPVFHTGQCQLRLK  118 (151)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcC
Confidence            999999999999999999999999999998877666554443

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.16  E-value=1.4e-10  Score=107.43  Aligned_cols=112  Identities=14%  Similarity=0.167  Sum_probs=101.7

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc---ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (476)
                      +..+...|..++..|+|++|+..|.++++..|+++   .+++++|.+|+++|+|                       ++|
T Consensus         4 ~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~-----------------------~~A   60 (225)
T 2yhc_A            4 PNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADL-----------------------PLA   60 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCH-----------------------HHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCH-----------------------HHH
Confidence            56788999999999999999999999999999875   6899999999999999                       999


Q ss_pred             HHHHHHHhhccccchH---HHHHHHHHHHh------------------hhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          124 LKDAEKLLNLQSNSMK---SHLLKANALIL------------------LERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       124 ~~~~~~al~l~p~~~~---~~~~~~~~~~~------------------~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      +..++++++.+|++..   +++.+|.++..                  .|++++|+..|+++++.+|++..+......+
T Consensus        61 ~~~~~~~l~~~P~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~~~~a~~a~~~l  139 (225)
T 2yhc_A           61 QAAIDRFIRLNPTHPNIDYVMYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGYPNSQYTTDATKRL  139 (225)
T ss_dssp             HHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTCTTCTTHHHHHHHH
T ss_pred             HHHHHHHHHHCcCCCcHHHHHHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHCcCChhHHHHHHHH
Confidence            9999999999999875   89999999876                  5799999999999999999998776554444

>2csy_A Zinc finger protein 183-like 1; ring finger protein 161, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.16  E-value=2.5e-11  Score=94.05  Aligned_cols=63  Identities=24%  Similarity=0.538  Sum_probs=51.6

Q ss_pred             CCCCcccccccccccccCcEEccCCCcccHhhHHHhhhcCCCCcccccccccCCCCcccchhHHHH
Q 011861          197 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSI  262 (476)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~~~~~~~~~n~~l~~~  262 (476)
                      ......+.|+||++.+.+|+.++|||+||..|+.+|+.....||.||..+.   ..+..|..+...
T Consensus        10 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~---~~~~~~~~l~~~   72 (81)
T 2csy_A           10 EEEEIPFRCFICRQAFQNPVVTKCRHYFCESCALEHFRATPRCYICDQPTG---GIFNPAKELMAK   72 (81)
T ss_dssp             SCCCCCSBCSSSCSBCCSEEECTTSCEEEHHHHHHHHHHCSBCSSSCCBCC---SCCEECHHHHHH
T ss_pred             ccCCCCCCCcCCCchhcCeeEccCCCHhHHHHHHHHHHCCCcCCCcCcccc---ccCCcHHHHHHH
Confidence            344567899999999999999999999999999999998889999999874   345555444333

>3lrq_A E3 ubiquitin-protein ligase TRIM37; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; HET: MSE; 2.29A {Homo sapiens}

Probab=99.15  E-value=1.8e-11  Score=98.92  Aligned_cols=63  Identities=25%  Similarity=0.560  Sum_probs=53.5

Q ss_pred             cccccccccccccCcEE-ccCCCcccHhhHHHhhhcC-CCCcccccccccCCCCcccchhHHHHHHH
Q 011861          201 DDFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRG-NKCPLCRAVLFITPRTCAVSVTLNSIIQK  265 (476)
Q Consensus       201 ~~~~C~iC~~~~~~P~~-~~cgh~fC~~Cl~~~~~~~-~~Cp~cr~~~~~~~~~~~~n~~l~~~~~~  265 (476)
                      +.+.|+||++.+.+|+. ++|||+||..||.+|+... ..||.||..+..  ..+..+..+.++++.
T Consensus        21 ~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~--~~l~~~~~~~~i~~~   85 (100)
T 3lrq_A           21 EVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQL--RELVNCRWAEEVTQQ   85 (100)
T ss_dssp             HHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCG--GGCEECTTHHHHHHH
T ss_pred             CCCCCccCCccccCccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCH--HHhHhhHHHHHHHHH
Confidence            47899999999999999 9999999999999999976 689999998843  566667777766654

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.15  E-value=1.1e-10  Score=110.17  Aligned_cols=110  Identities=22%  Similarity=0.168  Sum_probs=104.2

Q ss_pred             hhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHH
Q 011861           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (476)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (476)
                      ...+..+...|..++..|++++|+..|.++++++|+++.++.++|.+|...|++                       ++|
T Consensus        40 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~-----------------------~~A   96 (275)
T 1xnf_A           40 DERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNF-----------------------DAA   96 (275)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCH-----------------------HHH
T ss_pred             chhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHccCH-----------------------HHH
Confidence            456778889999999999999999999999999999999999999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhH
Q 011861          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQA  176 (476)
Q Consensus       124 ~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~  176 (476)
                      +..++++++++|++..+++.+|.++...|++++|+..|+++++++|.+.....
T Consensus        97 ~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~  149 (275)
T 1xnf_A           97 YEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPNDPFRSL  149 (275)
T ss_dssp             HHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCChHHHH
Confidence            99999999999999999999999999999999999999999999999875443

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=99.14  E-value=1.2e-10  Score=106.05  Aligned_cols=102  Identities=16%  Similarity=0.174  Sum_probs=95.9

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      ..+..++..|..++..|+|++|+..|.+++  +| ++.++.++|.+|..+|++                       ++|+
T Consensus         4 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~a~--~~-~~~~~~~lg~~~~~~g~~-----------------------~~A~   57 (213)
T 1hh8_A            4 VEAISLWNEGVLAADKKDWKGALDAFSAVQ--DP-HSRICFNIGCMYTILKNM-----------------------TEAE   57 (213)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHTSS--SC-CHHHHHHHHHHHHHTTCH-----------------------HHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHc--CC-ChHHHHHHHHHHHHcCCH-----------------------HHHH
Confidence            356678899999999999999999999996  33 678999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCc
Q 011861          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (476)
Q Consensus       125 ~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~  172 (476)
                      ..++++++++|++..+++.+|.++..+|+|++|+..|++++++.|.+.
T Consensus        58 ~~~~~al~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~  105 (213)
T 1hh8_A           58 KAFTRSINRDKHLAVAYFQRGMLYYQTEKYDLAIKDLKEALIQLRGNQ  105 (213)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCS
T ss_pred             HHHHHHHHhCccchHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCcc
Confidence            999999999999999999999999999999999999999999999877

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.14  E-value=1.5e-10  Score=112.96  Aligned_cols=118  Identities=14%  Similarity=0.220  Sum_probs=109.1

Q ss_pred             HHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc----ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      .....|..++..|++++|+..|.++++..|+++    .++..+|.+|...|++                       ++|+
T Consensus       236 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~-----------------------~~A~  292 (359)
T 3ieg_A          236 KLIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKP-----------------------VEAI  292 (359)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHTTCH-----------------------HHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHccCH-----------------------HHHH
Confidence            345668999999999999999999999999987    4467799999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhhhh
Q 011861          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLI  189 (476)
Q Consensus       125 ~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~~~  189 (476)
                      ..++++++++|+++.+++.+|.++...|++++|+..|+++++++|++..+...+..+.+.+++..
T Consensus       293 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~  357 (359)
T 3ieg_A          293 RICSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNENDQQIREGLEKAQRLLKQSQ  357 (359)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHhc
Confidence            99999999999999999999999999999999999999999999999999999999888877654

>2yu4_A E3 SUMO-protein ligase NSE2; SP-ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.14  E-value=2.4e-11  Score=96.88  Aligned_cols=68  Identities=16%  Similarity=0.473  Sum_probs=57.2

Q ss_pred             CcccccccccccccCcEEcc-CCCcccHhhHHHhhhcC------CCCcc--cccc-cccCCCCcccchhHHHHHHHhCch
Q 011861          200 TDDFDCTLCLKLLYEPITTP-CGHSFCRSCLFQSMDRG------NKCPL--CRAV-LFITPRTCAVSVTLNSIIQKNFPE  269 (476)
Q Consensus       200 ~~~~~C~iC~~~~~~P~~~~-cgh~fC~~Cl~~~~~~~------~~Cp~--cr~~-~~~~~~~~~~n~~l~~~~~~~~~~  269 (476)
                      ...+.|+||+++|.+||+++ |||+||+.||..|+...      ..||.  |+.. +.  ..++..|..|.++++.|...
T Consensus         5 ~~~~~CPI~~~~~~dPV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~--~~~L~pn~~L~~~I~~~~~~   82 (94)
T 2yu4_A            5 SSGFTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIR--KSDLIQDEALRRAIENHNKK   82 (94)
T ss_dssp             SSCCBCTTTCSBCSSEEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBC--GGGEEECHHHHHHHHHHHTT
T ss_pred             CcEeECcCcCchhcCCEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccC--HhhCcCCHHHHHHHHHHHHH
Confidence            46789999999999999996 99999999999999743      47999  8765 53  36788999999999887533

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=99.14  E-value=9.7e-11  Score=124.00  Aligned_cols=119  Identities=13%  Similarity=0.052  Sum_probs=109.2

Q ss_pred             hhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHH
Q 011861           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (476)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (476)
                      ...+..+...|..++..|+|++|+..|.++++++|+++.++.++|.+|..+|++                       ++|
T Consensus        20 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~-----------------------~~A   76 (568)
T 2vsy_A           20 PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRH-----------------------AEA   76 (568)
T ss_dssp             -CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCH-----------------------HHH
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCH-----------------------HHH
Confidence            345678899999999999999999999999999999999999999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhh
Q 011861          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (476)
Q Consensus       124 ~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~  185 (476)
                      ++.++++++++|++..+++.+|.++..+|++++|+..|+++++++|++..+...+..+....
T Consensus        77 ~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~  138 (568)
T 2vsy_A           77 AVLLQQASDAAPEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRL  138 (568)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999988776655544443

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.14  E-value=1e-10  Score=121.32  Aligned_cols=118  Identities=16%  Similarity=0.068  Sum_probs=109.2

Q ss_pred             HHHHHhhHHHHHh---------ccHHHHHHHHHHHhccCCCCcccccchhHHHHHH--------HhhhccCCCCCcccCC
Q 011861           48 FDLVQKGNRAFRE---------SNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRI--------SQFLKHRPPSASEYRP  110 (476)
Q Consensus        48 ~~~~~~g~~~~~~---------~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~--------~~~~~~~~~~~~~~~~  110 (476)
                      ..+...|..++..         |+|++|+..|.+|++++|+++.+|.++|.+|..+        |++             
T Consensus       171 ~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~~~~g~~-------------  237 (474)
T 4abn_A          171 VSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVLDGRSWYILGNAYLSLYFNTGQNPKIS-------------  237 (474)
T ss_dssp             HHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHTTCCHHHH-------------
T ss_pred             HHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHhhccccchH-------------
Confidence            5677788888998         9999999999999999999999999999999999        999             


Q ss_pred             CCCCCCcchHHHHHHHHHHHhhccc---cchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhh
Q 011861          111 LNGLDPTTHAELALKDAEKLLNLQS---NSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  187 (476)
Q Consensus       111 ~~~~~~~~~~~~a~~~~~~al~l~p---~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~  187 (476)
                                ++|+..+++|++++|   +++.+|+.+|.+|..+|+|++|+..|+++++++|++..+...+..+...++.
T Consensus       238 ----------~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~  307 (474)
T 4abn_A          238 ----------QQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSR  307 (474)
T ss_dssp             ----------HHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             ----------HHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHH
Confidence                      999999999999999   9999999999999999999999999999999999999888777766655554


Q ss_pred             h
Q 011861          188 L  188 (476)
Q Consensus       188 ~  188 (476)
                      .
T Consensus       308 ~  308 (474)
T 4abn_A          308 L  308 (474)
T ss_dssp             H
T ss_pred             H
Confidence            3

>2egp_A Tripartite motif-containing protein 34; ZF-C3HC4 domain, tripartite motif protein 34, interferon- responsive finger protein 1; NMR {Homo sapiens}

Probab=99.13  E-value=4.3e-12  Score=97.86  Aligned_cols=62  Identities=31%  Similarity=0.750  Sum_probs=50.4

Q ss_pred             CCCCcccccccccccccCcEEccCCCcccHhhHHHhhhc-------CCCCcccccccccCCCCcccchhHH
Q 011861          197 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR-------GNKCPLCRAVLFITPRTCAVSVTLN  260 (476)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~-------~~~Cp~cr~~~~~~~~~~~~n~~l~  260 (476)
                      ....+.+.|+||++.+.+|+.++|||+||..|+..|+..       ...||.||..+..  .++..|..+.
T Consensus         7 ~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~--~~l~~n~~l~   75 (79)
T 2egp_A            7 GNVQEEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSF--EHLQANQHLA   75 (79)
T ss_dssp             CCCCCCCEETTTTEECSSCCCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCS--SGGGTCSSSC
T ss_pred             hhcccCCCCcCCCcccCCeeECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCH--hhCCcCHHHH
Confidence            345678899999999999999999999999999999875       4579999998743  4555555443

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=99.11  E-value=3.9e-11  Score=130.12  Aligned_cols=111  Identities=6%  Similarity=-0.086  Sum_probs=103.6

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      +..+...|..++..|+|++|+..|++|++++|+++.+|.++|.+|.++|++                       ++ +..
T Consensus       467 ~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~lg~~~~~~g~~-----------------------~~-~~~  522 (681)
T 2pzi_A          467 WRLVWYRAVAELLTGDYDSATKHFTEVLDTFPGELAPKLALAATAELAGNT-----------------------DE-HKF  522 (681)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCC-----------------------CT-TCH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCh-----------------------HH-HHH
Confidence            456777899999999999999999999999999999999999999999999                       89 999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      |++|++++|++..+|+.+|.++..+|++++|+..|+++++++|++..++..+..+
T Consensus       523 ~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~~~~~  577 (681)
T 2pzi_A          523 YQTVWSTNDGVISAAFGLARARSAEGDRVGAVRTLDEVPPTSRHFTTARLTSAVT  577 (681)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHTSCTTSTTHHHHHHHHHHH
T ss_pred             HHHHHHhCCchHHHHHHHHHHHHHcCCHHHHHHHHHhhcccCcccHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999988877666555

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=99.11  E-value=1e-10  Score=93.19  Aligned_cols=93  Identities=10%  Similarity=0.052  Sum_probs=86.3

Q ss_pred             HHHhhHHHHHhccHHHHHHHHHHHhccCCCCcc-cccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHH
Q 011861           50 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPI-VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (476)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (476)
                      .+..|..++..|+|++|+..|.++++.+|+++. ++.++|.+|..+|++                       ++|+..++
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~-----------------------~~A~~~~~   59 (99)
T 2kc7_A            3 QLKTIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDW-----------------------QKALNNYQ   59 (99)
T ss_dssp             THHHHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCH-----------------------HHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCH-----------------------HHHHHHHH
Confidence            356899999999999999999999999999999 999999999999999                       99999999


Q ss_pred             HHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCch
Q 011861          129 KLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (476)
Q Consensus       129 ~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~  173 (476)
                      ++++++|++..++++        +.+.+|+..|.++...+|++..
T Consensus        60 ~al~~~p~~~~~~~~--------~~~~~a~~~~~~~~~~~p~~~~   96 (99)
T 2kc7_A           60 SAIELNPDSPALQAR--------KMVMDILNFYNKDMYNQLEHHH   96 (99)
T ss_dssp             HHHHHCTTSTHHHHH--------HHHHHHHHHHCCTTHHHHCCSS
T ss_pred             HHHhcCCCcHHHHHH--------HHHHHHHHHHHHHhccCccccc
Confidence            999999999988755        8889999999999999887764

>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=99.11  E-value=2.6e-10  Score=94.38  Aligned_cols=110  Identities=25%  Similarity=0.324  Sum_probs=99.7

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHH
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (476)
                      ..+...|..++..|++++|+..|.++++.+|++..++..+|.++...|++                       ++|+..+
T Consensus         2 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~-----------------------~~A~~~~   58 (136)
T 2fo7_A            2 EAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDY-----------------------DEAIEYY   58 (136)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH-----------------------HHHHHHH
T ss_pred             cHHHHHHHHHHHcCcHHHHHHHHHHHHHcCCcchhHHHHHHHHHHHhcCH-----------------------HHHHHHH
Confidence            35677899999999999999999999999999999999999999999999                       9999999


Q ss_pred             HHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHH
Q 011861          128 EKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (476)
Q Consensus       128 ~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~  180 (476)
                      +++++.+|++..+++.+|.++...|++++|+..+.++++.+|.+......+..
T Consensus        59 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~  111 (136)
T 2fo7_A           59 QKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGN  111 (136)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHCCCchHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHH
Confidence            99999999999999999999999999999999999999999887765544433

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.10  E-value=2.2e-10  Score=111.81  Aligned_cols=111  Identities=19%  Similarity=0.310  Sum_probs=104.8

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      .+..+...|..++..|+|++|+..|.++++.+|+++.++.++|.+|..+|++                       ++|+.
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~-----------------------~~A~~   58 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKS-----------------------KAALP   58 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH-----------------------HHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHccCH-----------------------HHHHH
Confidence            4678899999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCC---CCchhhHHHH
Q 011861          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP---FSNPLQASLQ  179 (476)
Q Consensus       126 ~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p---~~~~~~~~~~  179 (476)
                      .++++++++|++..+++.+|.++...|++++|+..|+++++++|   .+......+.
T Consensus        59 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~  115 (359)
T 3ieg_A           59 DLTKVIALKMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLV  115 (359)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCcchHHHHHHHHHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHH
Confidence            99999999999999999999999999999999999999999999   7777665553

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.09  E-value=2.6e-10  Score=117.62  Aligned_cols=107  Identities=24%  Similarity=0.333  Sum_probs=101.7

Q ss_pred             hhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHH
Q 011861           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (476)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (476)
                      ...+..+...|+.++..|+|++|+..|+++++.+| ++.+|.++|.+|..+|++                       ++|
T Consensus         3 ~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~la~~~~~~g~~-----------------------~~A   58 (514)
T 2gw1_A            3 DKYALALKDKGNQFFRNKKYDDAIKYYNWALELKE-DPVFYSNLSACYVSVGDL-----------------------KKV   58 (514)
T ss_dssp             HHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHHTCH-----------------------HHH
T ss_pred             chhHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCc-cHHHHHhHHHHHHHHhhH-----------------------HHH
Confidence            45788999999999999999999999999999999 699999999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchh
Q 011861          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  174 (476)
Q Consensus       124 ~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~  174 (476)
                      +..++++++++|++..+++.+|.++..+|++++|+..|+++++++|.+...
T Consensus        59 ~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  109 (514)
T 2gw1_A           59 VEMSTKALELKPDYSKVLLRRASANEGLGKFADAMFDLSVLSLNGDFNDAS  109 (514)
T ss_dssp             HHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSCCGGG
T ss_pred             HHHHHHHhccChHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCccch
Confidence            999999999999999999999999999999999999999999999866553

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.08  E-value=1.9e-10  Score=119.33  Aligned_cols=114  Identities=17%  Similarity=0.021  Sum_probs=106.7

Q ss_pred             hHHHHHHhhHHHHHhccH-HHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNF-EEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~-~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      .+..+...|..++..|+| ++|+..|.+|++++|+++.+|.++|.+|...|++                       ++|+
T Consensus       101 ~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~-----------------------~~A~  157 (474)
T 4abn_A          101 EAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDV-----------------------TSAH  157 (474)
T ss_dssp             CHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH-----------------------HHHH
T ss_pred             hHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCH-----------------------HHHH
Confidence            467788999999999999 9999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHhh---------hhHHHHHHHHhcccccCCCCchhhHHHHHHHH
Q 011861          125 KDAEKLLNLQSNSMKSHLLKANALILL---------ERYDMARDAILSGLQVDPFSNPLQASLQNLER  183 (476)
Q Consensus       125 ~~~~~al~l~p~~~~~~~~~~~~~~~~---------~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~  183 (476)
                      ..|++|++++|+ ..+++.+|.++..+         |+|++|+..|+++++++|++..++..+..+-.
T Consensus       158 ~~~~~al~~~p~-~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~  224 (474)
T 4abn_A          158 TCFSGALTHCKN-KVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVLDGRSWYILGNAYL  224 (474)
T ss_dssp             HHHHHHHTTCCC-HHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhhCCC-HHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            999999999999 69999999999999         99999999999999999999988776655543

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=99.08  E-value=4.5e-11  Score=106.34  Aligned_cols=131  Identities=11%  Similarity=0.050  Sum_probs=99.3

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCC--cc-------
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDP--TT-------  118 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~-------  118 (476)
                      ..+...|..++..|++++|+..|.++++.+|+++.++.++|.+|...|++-+    +...++.....++  ..       
T Consensus         7 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~----A~~~~~~a~~~~p~~~~~~~~~~~   82 (176)
T 2r5s_A            7 EQLLKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFEL----AQELLATIPLEYQDNSYKSLIAKL   82 (176)
T ss_dssp             TTHHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHH----HHHHHTTCCGGGCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHH----HHHHHHHhhhccCChHHHHHHHHH
Confidence            3467788888888899999999999888888888888888888888887721    1112222222222  00       


Q ss_pred             -hH-----HHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCch--hhHHHHHHH
Q 011861          119 -HA-----ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP--LQASLQNLE  182 (476)
Q Consensus       119 -~~-----~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~--~~~~~~~~~  182 (476)
                       +.     ..|+..++++++++|+++.+++.+|.++...|++++|+..|+++++++|++..  +...+..+-
T Consensus        83 ~~~~~~~~~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~  154 (176)
T 2r5s_A           83 ELHQQAAESPELKRLEQELAANPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDIL  154 (176)
T ss_dssp             HHHHHHTSCHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHH
T ss_pred             HHHhhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHH
Confidence             00     23688899999999999999999999999999999999999999999997643  555554443

>2ckl_B Ubiquitin ligase protein RING2; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_C 2h0d_B

Probab=99.08  E-value=4.9e-11  Score=105.61  Aligned_cols=70  Identities=29%  Similarity=0.742  Sum_probs=59.5

Q ss_pred             CCcccccccccccccCcEEc-cCCCcccHhhHHHhhhc-CCCCcccccccccCCCCcccchhHHHHHHHhCch
Q 011861          199 RTDDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDR-GNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPE  269 (476)
Q Consensus       199 ~~~~~~C~iC~~~~~~P~~~-~cgh~fC~~Cl~~~~~~-~~~Cp~cr~~~~~~~~~~~~n~~l~~~~~~~~~~  269 (476)
                      ..+.+.|+||++.+.+|+.+ +|||+||..|+..|+.. ...||.||..+.. ...+..|..+.+++..+++.
T Consensus        51 ~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~-~~~l~~~~~l~~~i~~~~~~  122 (165)
T 2ckl_B           51 LHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVS-KRSLRPDPNFDALISKIYPS  122 (165)
T ss_dssp             CHHHHBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCS-GGGEEECHHHHHHHHHHC--
T ss_pred             CCCCCCCcccChHhhCcCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCC-cccCCcCHHHHHHHHHHHcc
Confidence            45678999999999999987 99999999999999986 6679999998842 25678899999999998875

>2ecw_A Tripartite motif-containing protein 30; metal binding protein, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.08  E-value=2.2e-11  Score=95.14  Aligned_cols=63  Identities=29%  Similarity=0.754  Sum_probs=50.9

Q ss_pred             CCCCCcccccccccccccCcEEccCCCcccHhhHHHhhhc------CCCCcccccccccCCCCcccchhHH
Q 011861          196 TPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR------GNKCPLCRAVLFITPRTCAVSVTLN  260 (476)
Q Consensus       196 ~~~~~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~------~~~Cp~cr~~~~~~~~~~~~n~~l~  260 (476)
                      .....+.+.|+||++.+.+|+.++|||+||..|+..|+..      ...||.||..+..  ..+..|..+.
T Consensus        13 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~--~~~~~n~~l~   81 (85)
T 2ecw_A           13 LEMIKEEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPF--GNLKPNLHVA   81 (85)
T ss_dssp             CCCCCTTTSCTTTCSCCSSCEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCT--TCCEECSCCC
T ss_pred             HHhCccCCCCcCCChhhCcceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCH--HhCCcCHHHH
Confidence            3445678899999999999999999999999999999886      5679999998743  3455554443

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=99.08  E-value=9e-11  Score=96.40  Aligned_cols=87  Identities=15%  Similarity=0.067  Sum_probs=82.6

Q ss_pred             HHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHH
Q 011861           64 EEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLL  143 (476)
Q Consensus        64 ~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~  143 (476)
                      ++|+..|.++++.+|+++.++.++|.+|...|++                       ++|+..++++++++|++..+|+.
T Consensus         2 ~~a~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~-----------------------~~A~~~~~~al~~~p~~~~~~~~   58 (115)
T 2kat_A            2 QAITERLEAMLAQGTDNMLLRFTLGKTYAEHEQF-----------------------DAALPHLRAALDFDPTYSVAWKW   58 (115)
T ss_dssp             CCHHHHHHHHHTTTCCCHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             hHHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCH-----------------------HHHHHHHHHHHHHCCCcHHHHHH
Confidence            3689999999999999999999999999999999                       99999999999999999999999


Q ss_pred             HHHHHHhhhhHHHHHHHHhcccccCCCCch
Q 011861          144 KANALILLERYDMARDAILSGLQVDPFSNP  173 (476)
Q Consensus       144 ~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~  173 (476)
                      +|.++..+|++++|+..|+++++++|.+..
T Consensus        59 la~~~~~~g~~~~A~~~~~~al~~~~~~~~   88 (115)
T 2kat_A           59 LGKTLQGQGDRAGARQAWESGLAAAQSRGD   88 (115)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhcccccc
Confidence            999999999999999999999999885443

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.07  E-value=2.4e-10  Score=107.82  Aligned_cols=113  Identities=16%  Similarity=0.238  Sum_probs=89.3

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHH
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (476)
                      ..+...|..++..|+|++|+..|.++++.+|+++.++..+|.+|..+|++                       ++|+..+
T Consensus         4 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~-----------------------~~A~~~~   60 (272)
T 3u4t_A            4 DVEFRYADFLFKNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKY-----------------------DLAQKDI   60 (272)
T ss_dssp             -CHHHHHHHHHTTTCHHHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCH-----------------------HHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhH-----------------------HHHHHHH
Confidence            44677888888888999999999998888888888888888888888888                       8888888


Q ss_pred             HHHhhccccc----hHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHh
Q 011861          128 EKLLNLQSNS----MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERT  184 (476)
Q Consensus       128 ~~al~l~p~~----~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~  184 (476)
                      +++++ .|++    ..+|+.+|.++...|++++|+..|+++++++|.+..+...+..+-..
T Consensus        61 ~~a~~-~~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~  120 (272)
T 3u4t_A           61 ETYFS-KVNATKAKSADFEYYGKILMKKGQDSLAIQQYQAAVDRDTTRLDMYGQIGSYFYN  120 (272)
T ss_dssp             HHHHT-TSCTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHH
T ss_pred             HHHHh-ccCchhHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHH
Confidence            88888 4433    33478888888888888888888888888888887766655554433

>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=99.07  E-value=5.3e-10  Score=98.16  Aligned_cols=112  Identities=16%  Similarity=0.162  Sum_probs=88.7

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      ...+...|..++..|++++|+..|.++++.+|+++.++.++|.++...|++                       ++|+..
T Consensus        42 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~-----------------------~~A~~~   98 (186)
T 3as5_A           42 VDVALHLGIAYVKTGAVDRGTELLERSLADAPDNVKVATVLGLTYVQVQKY-----------------------DLAVPL   98 (186)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH-----------------------HHHHHH
T ss_pred             hHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCH-----------------------HHHHHH
Confidence            556677788888888888888888888888888888888888888888888                       888888


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      ++++++.+|++..+++.+|.++...|++++|+..++++++.+|.+..+...+..+
T Consensus        99 ~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~  153 (186)
T 3as5_A           99 LIKVAEANPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFS  153 (186)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHhcCcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHH
Confidence            8888888888888888888888888888888888888888887776655444433

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.07  E-value=4.9e-10  Score=105.85  Aligned_cols=116  Identities=18%  Similarity=0.155  Sum_probs=103.1

Q ss_pred             HHHHHHhhHHHHH--------hccHHHHHHHHHHHhccCCCCcccc-----------------cchhHHHHHHHhhhccC
Q 011861           47 VFDLVQKGNRAFR--------ESNFEEAISNYSRANNIKPGDPIVL-----------------GNRSSAYIRISQFLKHR  101 (476)
Q Consensus        47 ~~~~~~~g~~~~~--------~~~~~~Ai~~y~~al~~~p~~~~~~-----------------~~~a~~~~~~~~~~~~~  101 (476)
                      ...+...|..++.        .|++++|+..|.++++.+|+++.+.                 +++|.+|...|++    
T Consensus        89 ~~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~----  164 (261)
T 3qky_A           89 PQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPNHELVDDATQKIRELRAKLARKQYEAARLYERRELY----  164 (261)
T ss_dssp             HHHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCH----
T ss_pred             HHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCH----
Confidence            4567888999999        9999999999999999999998777                 8889999999999    


Q ss_pred             CCCCcccCCCCCCCCcchHHHHHHHHHHHhhcccc---chHHHHHHHHHHHhh----------hhHHHHHHHHhcccccC
Q 011861          102 PPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSN---SMKSHLLKANALILL----------ERYDMARDAILSGLQVD  168 (476)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~---~~~~~~~~~~~~~~~----------~~~~~A~~~~~~~l~l~  168 (476)
                                         ++|+..++++++.+|+   ...+++.+|.+|..+          |++++|+..|+++++.+
T Consensus       165 -------------------~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~  225 (261)
T 3qky_A          165 -------------------EAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIF  225 (261)
T ss_dssp             -------------------HHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHC
T ss_pred             -------------------HHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHC
Confidence                               9999999999999998   567999999999977          99999999999999999


Q ss_pred             CCCchhhHHHHHHHHhh
Q 011861          169 PFSNPLQASLQNLERTT  185 (476)
Q Consensus       169 p~~~~~~~~~~~~~~~~  185 (476)
                      |+++.+......+.+..
T Consensus       226 p~~~~~~~a~~~l~~~~  242 (261)
T 3qky_A          226 PDSPLLRTAEELYTRAR  242 (261)
T ss_dssp             TTCTHHHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHH
Confidence            99987665554444433

>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.07  E-value=1e-10  Score=88.34  Aligned_cols=53  Identities=32%  Similarity=0.747  Sum_probs=47.3

Q ss_pred             CCCCCCcccccccccccccCcEEc-cCCCcccHhhHHHhhhcCCCCcccccccc
Q 011861          195 GTPERTDDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       195 ~~~~~~~~~~C~iC~~~~~~P~~~-~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      ......+.+.|+||++.+.+|+.+ +|||+||..||.+|+.....||.||..+.
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   61 (72)
T 2djb_A            8 NLSELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVH   61 (72)
T ss_dssp             CCCCCCGGGSCTTTSSCCSSCEECSSSCCEECHHHHHHHHHHCSSCTTTCCCCC
T ss_pred             hHhhcCCCCCCCCCChHHHCcCEECCCCCHHHHHHHHHHHHcCCcCCCcCcccC
Confidence            344566789999999999999997 99999999999999988889999999874

>2yur_A Retinoblastoma-binding protein 6; P53-associated cellular protein of testis, proliferation potential-related protein, protein P2P-R; NMR {Homo sapiens}

Probab=99.07  E-value=1.2e-10  Score=88.58  Aligned_cols=52  Identities=23%  Similarity=0.745  Sum_probs=45.4

Q ss_pred             CCCCCcccccccccccccCcEEcc-CCCcccHhhHHHhhhcC--CCCcccccccc
Q 011861          196 TPERTDDFDCTLCLKLLYEPITTP-CGHSFCRSCLFQSMDRG--NKCPLCRAVLF  247 (476)
Q Consensus       196 ~~~~~~~~~C~iC~~~~~~P~~~~-cgh~fC~~Cl~~~~~~~--~~Cp~cr~~~~  247 (476)
                      .....+.+.|+||++.+.+|+.++ |||+||..||..|+...  ..||.||..+.
T Consensus         9 ~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   63 (74)
T 2yur_A            9 DDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   63 (74)
T ss_dssp             CCCSCGGGSCSSSCCCCTTCEECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSC
T ss_pred             cccCCCCCCCcCCChHHhCCeEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCC
Confidence            445567899999999999999999 99999999999999854  57999999753

>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=99.06  E-value=1.2e-10  Score=121.00  Aligned_cols=109  Identities=26%  Similarity=0.346  Sum_probs=96.1

Q ss_pred             hhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHH
Q 011861           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (476)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (476)
                      .....+..+...|+.++..|+|++|+..|+++++.+|+++.+|.++|.+|..+|++                       +
T Consensus        20 ~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~-----------------------~   76 (537)
T 3fp2_A           20 QRQAYAVQLKNRGNHFFTAKNFNEAIKYYQYAIELDPNEPVFYSNISACYISTGDL-----------------------E   76 (537)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCCC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH-----------------------H
T ss_pred             hhHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCH-----------------------H
Confidence            44567889999999999999999999999999999999999999999999999999                       9


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchh
Q 011861          122 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  174 (476)
Q Consensus       122 ~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~  174 (476)
                      +|+..++++++++|++..+++.+|.++..+|++++|+..|+ ++.++|+....
T Consensus        77 ~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~-~~~~~~~~~~~  128 (537)
T 3fp2_A           77 KVIEFTTKALEIKPDHSKALLRRASANESLGNFTDAMFDLS-VLSLNGDFDGA  128 (537)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHH-HHC--------
T ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHHHHHcCCHHHHHHHHH-HHhcCCCCChH
Confidence            99999999999999999999999999999999999999996 88888876653

>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=99.06  E-value=3.5e-10  Score=99.35  Aligned_cols=113  Identities=13%  Similarity=0.159  Sum_probs=105.3

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      .+..+...|..++..|++++|+..|.++++.+|+++.++..+|.+|...|++                       ++|+.
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------------~~A~~   63 (186)
T 3as5_A            7 RQVYYRDKGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAV-----------------------DRGTE   63 (186)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             hhHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCH-----------------------HHHHH
Confidence            4667888999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       126 ~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      .++++++++|++..+++.+|.++...|++++|...+.++++.+|.+..+...+..+
T Consensus        64 ~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~  119 (186)
T 3as5_A           64 LLERSLADAPDNVKVATVLGLTYVQVQKYDLAVPLLIKVAEANPINFNVRFRLGVA  119 (186)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcHhHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999887766555444

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.06  E-value=2.5e-10  Score=105.56  Aligned_cols=113  Identities=14%  Similarity=0.064  Sum_probs=88.0

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      ....+...|..++..|++++|+..|.++++.+|+++.++..+|.+|...|++                       ++|+.
T Consensus        90 ~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~-----------------------~~A~~  146 (243)
T 2q7f_A           90 AATAYYGAGNVYVVKEMYKEAKDMFEKALRAGMENGDLFYMLGTVLVKLEQP-----------------------KLALP  146 (243)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHTSCH-----------------------HHHHH
T ss_pred             chHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccH-----------------------HHHHH
Confidence            4566677788888888888888888888888888888888888888888888                       88888


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       126 ~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      .++++++++|++..+++.+|.++...|++++|+..|+++++.+|.+..+...+..+
T Consensus       147 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~  202 (243)
T 2q7f_A          147 YLQRAVELNENDTEARFQFGMCLANEGMLDEALSQFAAVTEQDPGHADAFYNAGVT  202 (243)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHhCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHH
Confidence            88888888888888888888888888888888888888888777776665544443

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.06  E-value=7.6e-11  Score=99.26  Aligned_cols=93  Identities=13%  Similarity=0.076  Sum_probs=82.3

Q ss_pred             HHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHh
Q 011861           71 SRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALIL  150 (476)
Q Consensus        71 ~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~  150 (476)
                      .++..++|+.+..|.++|.+|++.|+|                       ++|+..|++|++++|+++.+|+.+|.++..
T Consensus         3 ar~a~inP~~a~~~~~~G~~~~~~g~~-----------------------~~A~~~~~~al~~~p~~~~~~~~~~~~~~~   59 (126)
T 4gco_A            3 ARLAYINPELAQEEKNKGNEYFKKGDY-----------------------PTAMRHYNEAVKRDPENAILYSNRAACLTK   59 (126)
T ss_dssp             ----CCCHHHHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             hHHHHHCHHHHHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHHHhCCCCHHHHHHHhhHHHh
Confidence            345668999999999999999999999                       999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhh
Q 011861          151 LERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  186 (476)
Q Consensus       151 ~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~  186 (476)
                      +|++++|+..|+++++++|++..+...+..+-..++
T Consensus        60 ~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~   95 (126)
T 4gco_A           60 LMEFQRALDDCDTCIRLDSKFIKGYIRKAACLVAMR   95 (126)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             hccHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHCC
Confidence            999999999999999999999988776666544443

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.05  E-value=2.7e-10  Score=110.02  Aligned_cols=136  Identities=12%  Similarity=0.070  Sum_probs=108.8

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchH-----
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA-----  120 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----  120 (476)
                      ....+...|..++..|++++|+..|.++++.+|+++.++.++|.+|...|++-    .+...++.+...++....     
T Consensus       116 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~----~A~~~l~~~~~~~p~~~~~~~~~  191 (287)
T 3qou_A          116 EEELXAQQAMQLMQESNYTDALPLLXDAWQLSNQNGEIGLLLAETLIALNRSE----DAEAVLXTIPLQDQDTRYQGLVA  191 (287)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHTTCHH----HHHHHHTTSCGGGCSHHHHHHHH
T ss_pred             chhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCcchhHHHHHHHHHHHCCCHH----HHHHHHHhCchhhcchHHHHHHH
Confidence            35678889999999999999999999999999999999999999999999871    112233333333331111     


Q ss_pred             ----------HHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCC--chhhHHHHHHHHhh
Q 011861          121 ----------ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS--NPLQASLQNLERTT  185 (476)
Q Consensus       121 ----------~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~--~~~~~~~~~~~~~~  185 (476)
                                ..|+..++++++++|++..+++.+|.++...|++++|+..|.++++.+|++  ..++..+..+-..+
T Consensus       192 ~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~  268 (287)
T 3qou_A          192 QIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAAL  268 (287)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHH
T ss_pred             HHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHc
Confidence                      346788899999999999999999999999999999999999999999988  55666555554444

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.04  E-value=3.3e-10  Score=112.11  Aligned_cols=102  Identities=19%  Similarity=0.159  Sum_probs=91.7

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      +..+...|..++..|++++|+..|.++++++|+++.+|.++|.+|...|++                       ++|+..
T Consensus       213 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~-----------------------~~A~~~  269 (365)
T 4eqf_A          213 PDLQTGLGVLFHLSGEFNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRS-----------------------EEAVEA  269 (365)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH-----------------------HHHHHH
Confidence            456777888889999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCC
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~  171 (476)
                      ++++++++|++..+++.+|.++..+|++++|+..|+++++++|.+
T Consensus       270 ~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~  314 (365)
T 4eqf_A          270 YTRALEIQPGFIRSRYNLGISCINLGAYREAVSNFLTALSLQRKS  314 (365)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHhcCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccc
Confidence            999999999999999999999999999999999999999988764

>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.04  E-value=1.4e-10  Score=87.30  Aligned_cols=51  Identities=29%  Similarity=0.729  Sum_probs=45.9

Q ss_pred             CCCCcccccccccccccCcEEccCCCcccHhhHHHhhhcCCCCcccccccc
Q 011861          197 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      ....+.+.|+||++.+.+|+.++|||.||..|+..|+.....||+||..+.
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (71)
T 2d8t_A           10 APSLTVPECAICLQTCVHPVSLPCKHVFCYLCVKGASWLGKRCALCRQEIP   60 (71)
T ss_dssp             CSSSSCCBCSSSSSBCSSEEEETTTEEEEHHHHHHCTTCSSBCSSSCCBCC
T ss_pred             ccCCCCCCCccCCcccCCCEEccCCCHHHHHHHHHHHHCCCcCcCcCchhC
Confidence            345567899999999999999999999999999999998889999999763

>2ecv_A Tripartite motif-containing protein 5; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.03  E-value=3.4e-11  Score=94.03  Aligned_cols=62  Identities=29%  Similarity=0.767  Sum_probs=50.6

Q ss_pred             CCCCcccccccccccccCcEEccCCCcccHhhHHHhhhc------CCCCcccccccccCCCCcccchhHH
Q 011861          197 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR------GNKCPLCRAVLFITPRTCAVSVTLN  260 (476)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~------~~~Cp~cr~~~~~~~~~~~~n~~l~  260 (476)
                      ....+.+.|+||++.+.+|+.++|||+||..|+..|+..      ...||.||..+..  .++..|..+.
T Consensus        14 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~--~~~~~n~~l~   81 (85)
T 2ecv_A           14 VNVKEEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQP--ENIRPNRHVA   81 (85)
T ss_dssp             CCCCCCCCCTTTCSCCSSCBCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCS--SSCCCSCCCC
T ss_pred             HHccCCCCCCCCCcccCCceeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCH--HhcCccHHHH
Confidence            345678899999999999999999999999999999876      6679999998743  4555555443

>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=99.02  E-value=4.5e-10  Score=110.77  Aligned_cols=103  Identities=17%  Similarity=0.149  Sum_probs=94.7

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      .+..+...|..++..|++++|+..|.++++++|+++.++.++|.+|...|++                       ++|+.
T Consensus       216 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~-----------------------~~A~~  272 (368)
T 1fch_A          216 DPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQS-----------------------EEAVA  272 (368)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHcCCH-----------------------HHHHH
Confidence            3566777899999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCC
Q 011861          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (476)
Q Consensus       126 ~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~  171 (476)
                      .++++++++|++..+++.+|.++...|++++|+..|+++++++|.+
T Consensus       273 ~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~  318 (368)
T 1fch_A          273 AYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKS  318 (368)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            9999999999999999999999999999999999999999998877

>1jm7_B BARD1, BRCA1-associated ring domain protein 1; ring finger, zinc-binding protein, heterodimer, ubiquitin ligase, antitumor; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=99.02  E-value=1e-10  Score=97.28  Aligned_cols=63  Identities=27%  Similarity=0.663  Sum_probs=55.4

Q ss_pred             cccccccccccccCcEEc-cCCCcccHhhHHHhhhcCCCCcccccccccCCCCcccchhHHHHHHHhC
Q 011861          201 DDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNF  267 (476)
Q Consensus       201 ~~~~C~iC~~~~~~P~~~-~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~~~~~~~~~n~~l~~~~~~~~  267 (476)
                      +.+.|+||++.+.+|+++ +|||+||..||..|+.  ..||.||..+.  ...+..|..+.++++.+.
T Consensus        21 ~~~~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~--~~~~~~n~~l~~l~~~~~   84 (117)
T 1jm7_B           21 KLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAW--IQDLKINRQLDSMIQLCS   84 (117)
T ss_dssp             HTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCS--CSSCCCCHHHHHHHHHHH
T ss_pred             hCCCCCCCChHhhCccEeCCCCCHHHHHHHHHHhc--CCCcCCCCcCc--cccccccHHHHHHHHHHH
Confidence            478999999999999999 9999999999999987  67999999873  357888999999987653

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.02  E-value=1.3e-09  Score=102.82  Aligned_cols=108  Identities=6%  Similarity=0.029  Sum_probs=98.5

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCccc----ccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHH
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIV----LGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (476)
                      ..+...|..++..|+|++|+..|.++++ .|.++..    |.++|.+|..+|++                       ++|
T Consensus        38 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~-~~~~~~~~~~~~~~lg~~~~~~~~~-----------------------~~A   93 (272)
T 3u4t_A           38 YIYNRRAVCYYELAKYDLAQKDIETYFS-KVNATKAKSADFEYYGKILMKKGQD-----------------------SLA   93 (272)
T ss_dssp             TTHHHHHHHHHHTTCHHHHHHHHHHHHT-TSCTTTCCHHHHHHHHHHHHHTTCH-----------------------HHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHh-ccCchhHHHHHHHHHHHHHHHcccH-----------------------HHH
Confidence            3577789999999999999999999999 5666655    89999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHH
Q 011861          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQ  179 (476)
Q Consensus       124 ~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~  179 (476)
                      +..++++++++|++..+++.+|.++...|++++|+..|+++++++|.+..+...+.
T Consensus        94 ~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~  149 (272)
T 3u4t_A           94 IQQYQAAVDRDTTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTTDPKVFYELG  149 (272)
T ss_dssp             HHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCCCHHHHHHHH
T ss_pred             HHHHHHHHhcCcccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCCcHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999888766555

>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=99.02  E-value=6.1e-10  Score=92.13  Aligned_cols=102  Identities=25%  Similarity=0.347  Sum_probs=96.4

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      ...+...|..++..|++++|+..|.+++...|.++.++.++|.++...|++                       ++|+..
T Consensus        35 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----------------------~~A~~~   91 (136)
T 2fo7_A           35 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDY-----------------------DEAIEY   91 (136)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCH-----------------------HHHHHH
T ss_pred             hhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHhcCH-----------------------HHHHHH
Confidence            455677899999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCC
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~  171 (476)
                      +.++++.+|++..+++.+|.++...|++++|...+.++++.+|.+
T Consensus        92 ~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~  136 (136)
T 2fo7_A           92 YQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRS  136 (136)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSTTC
T ss_pred             HHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccCCCC
Confidence            999999999999999999999999999999999999999988863

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.01  E-value=1.5e-10  Score=114.65  Aligned_cols=108  Identities=17%  Similarity=0.119  Sum_probs=101.5

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      ..+..+...|..+++.|+|++|+..|.++++.+|+++.+|.++|.+|..+|++                       ++|+
T Consensus        63 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~-----------------------~~A~  119 (365)
T 4eqf_A           63 KDWPGAFEEGLKRLKEGDLPVTILFMEAAILQDPGDAEAWQFLGITQAENENE-----------------------QAAI  119 (365)
T ss_dssp             TTCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHH
T ss_pred             cchhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHCCCH-----------------------HHHH
Confidence            34566899999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhh
Q 011861          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  175 (476)
Q Consensus       125 ~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~  175 (476)
                      ..++++++++|++..+++.+|.+|...|++++|+..|+++++++|.+....
T Consensus       120 ~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  170 (365)
T 4eqf_A          120 VALQRCLELQPNNLKALMALAVSYTNTSHQQDACEALKNWIKQNPKYKYLV  170 (365)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHCC-
T ss_pred             HHHHHHHhcCCCCHHHHHHHHHHHHccccHHHHHHHHHHHHHhCccchHHH
Confidence            999999999999999999999999999999999999999999998766544

>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=99.01  E-value=8.7e-11  Score=101.80  Aligned_cols=97  Identities=13%  Similarity=-0.004  Sum_probs=88.5

Q ss_pred             HHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHH
Q 011861           66 AISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKA  145 (476)
Q Consensus        66 Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~  145 (476)
                      +-..|.+++.++|++..+++++|.+++..|++                       ++|+..++++++++|+++.+|+.+|
T Consensus         6 ~~~~~~~al~~~p~~~~~~~~~g~~~~~~g~~-----------------------~~A~~~~~~al~~~p~~~~~~~~lg   62 (148)
T 2vgx_A            6 GGGTIAMLNEISSDTLEQLYSLAFNQYQSGXY-----------------------EDAHXVFQALCVLDHYDSRFFLGLG   62 (148)
T ss_dssp             CCCSHHHHTTCCHHHHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             hhhhHHHHHcCCHhhHHHHHHHHHHHHHcCCh-----------------------HHHHHHHHHHHHcCcccHHHHHHHH
Confidence            34568899999999999999999999999999                       9999999999999999999999999


Q ss_pred             HHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhh
Q 011861          146 NALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (476)
Q Consensus       146 ~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~  185 (476)
                      .++..+|+|++|+..|+++++++|++..+...+..+-..+
T Consensus        63 ~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~  102 (148)
T 2vgx_A           63 ACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAECLLQX  102 (148)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHT
T ss_pred             HHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHc
Confidence            9999999999999999999999999998877665554333

>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=99.01  E-value=5.4e-10  Score=111.64  Aligned_cols=114  Identities=18%  Similarity=0.076  Sum_probs=101.2

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      .....+...|..++..|++++|+..|.++++++|+++.+|.++|.+|.+.|++                       ++|+
T Consensus       235 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~-----------------------~~A~  291 (388)
T 1w3b_A          235 NHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSV-----------------------AEAE  291 (388)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHHSCH-----------------------HHHH
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCH-----------------------HHHH
Confidence            34667788899999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       125 ~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      ..++++++++|++..+++.+|.++...|++++|+..|+++++++|++..+...+..+
T Consensus       292 ~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~  348 (388)
T 1w3b_A          292 DCYNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASV  348 (388)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHH
T ss_pred             HHHHHHHhhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999888776655444

>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=99.01  E-value=5e-11  Score=105.65  Aligned_cols=110  Identities=12%  Similarity=0.040  Sum_probs=96.1

Q ss_pred             HHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHH
Q 011861           50 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  129 (476)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  129 (476)
                      +...++.++..|+|++|+..|.++++.+|+++.++..+|.+|...|++                       ++|+..+++
T Consensus        13 ~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~-----------------------~~A~~~~~~   69 (177)
T 2e2e_A           13 QRDPLHQFASQQNPEAQLQALQDKIRANPQNSEQWALLGEYYLWQNDY-----------------------SNSLLAYRQ   69 (177)
T ss_dssp             SSTTTCCCC-----CCCCHHHHHHHHHCCSCHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHH
T ss_pred             HhhhhhhhhhccCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCH-----------------------HHHHHHHHH
Confidence            445566688899999999999999999999999999999999999999                       999999999


Q ss_pred             HhhccccchHHHHHHHHH-HHhhhhH--HHHHHHHhcccccCCCCchhhHHHHHHH
Q 011861          130 LLNLQSNSMKSHLLKANA-LILLERY--DMARDAILSGLQVDPFSNPLQASLQNLE  182 (476)
Q Consensus       130 al~l~p~~~~~~~~~~~~-~~~~~~~--~~A~~~~~~~l~l~p~~~~~~~~~~~~~  182 (476)
                      +++++|+++.+++.+|.+ +...|++  ++|+..|+++++++|++..+...+..+.
T Consensus        70 al~~~p~~~~~~~~la~~l~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~  125 (177)
T 2e2e_A           70 ALQLRGENAELYAALATVLYYQASQHMTAQTRAMIDKALALDSNEITALMLLASDA  125 (177)
T ss_dssp             HHHHHCSCHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHcCCCCHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhCCCcHHHHHHHHHHH
Confidence            999999999999999999 7899999  9999999999999999988776655543

>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=99.01  E-value=9.6e-10  Score=106.22  Aligned_cols=112  Identities=15%  Similarity=0.095  Sum_probs=100.9

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccC---------CCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCc
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIK---------PGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPT  117 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~---------p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (476)
                      ...+...|..++..|++++|+..|.+++++.         |.++.++.++|.+|..+|++                    
T Consensus       193 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~--------------------  252 (330)
T 3hym_B          193 PFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKY--------------------  252 (330)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCH--------------------
T ss_pred             hHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCH--------------------
Confidence            4567778888889999999999999998876         66678889999999999999                    


Q ss_pred             chHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          118 THAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       118 ~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                         ++|+..++++++++|++..+++.+|.++..+|++++|+..|+++++++|++..+...+..+
T Consensus       253 ---~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~  313 (330)
T 3hym_B          253 ---AEALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFSVTMLGHC  313 (330)
T ss_dssp             ---HHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCCHHHHHHHHHH
T ss_pred             ---HHHHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCCchHHHHHHHHH
Confidence               9999999999999999999999999999999999999999999999999998877766654

>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=99.01  E-value=6.5e-10  Score=112.87  Aligned_cols=114  Identities=20%  Similarity=0.327  Sum_probs=105.7

Q ss_pred             hhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHH
Q 011861           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (476)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (476)
                      ..+..+..+...|..++..|+|++|+..|+++++.+|+++.++..+|.+|..+|++                       +
T Consensus        21 ~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~-----------------------~   77 (450)
T 2y4t_A           21 QSMADVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKS-----------------------K   77 (450)
T ss_dssp             --CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------H
T ss_pred             ccHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCH-----------------------H
Confidence            34466888999999999999999999999999999999999999999999999999                       9


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCc---hhhHHH
Q 011861          122 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN---PLQASL  178 (476)
Q Consensus       122 ~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~---~~~~~~  178 (476)
                      +|+..++++++++|++..+++.+|.+|...|++++|+..|+++++++|.+.   .....+
T Consensus        78 ~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l  137 (450)
T 2y4t_A           78 AALPDLTKVIQLKMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQL  137 (450)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHH
Confidence            999999999999999999999999999999999999999999999999887   554433

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.00  E-value=5.9e-10  Score=103.67  Aligned_cols=113  Identities=14%  Similarity=0.159  Sum_probs=102.0

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhc--------------------------cCCCCcccccchhHHHHHHHhhhcc
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANN--------------------------IKPGDPIVLGNRSSAYIRISQFLKH  100 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~--------------------------~~p~~~~~~~~~a~~~~~~~~~~~~  100 (476)
                      +..+...|..++..|++++|+..|.++++                          .+|.++.++.++|.++...|++   
T Consensus        79 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---  155 (258)
T 3uq3_A           79 SKSFARIGNAYHKLGDLKKTIEYYQKSLTEHRTADILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTKSDW---  155 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHTTCH---
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHhcCchhHHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHhcCH---
Confidence            56778889999999999999999999999                          7777889999999999999999   


Q ss_pred             CCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHH
Q 011861          101 RPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (476)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~  180 (476)
                                          ++|+..++++++++|+++.+++.+|.++...|++++|+..|+++++++|++..+...+..
T Consensus       156 --------------------~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~  215 (258)
T 3uq3_A          156 --------------------PNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKAT  215 (258)
T ss_dssp             --------------------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             --------------------HHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHHHHHHHHHHHH
Confidence                                999999999999999999999999999999999999999999999999998877665555


Q ss_pred             HH
Q 011861          181 LE  182 (476)
Q Consensus       181 ~~  182 (476)
                      +-
T Consensus       216 ~~  217 (258)
T 3uq3_A          216 AQ  217 (258)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>2ecy_A TNF receptor-associated factor 3; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.00  E-value=2e-10  Score=85.18  Aligned_cols=51  Identities=31%  Similarity=0.808  Sum_probs=44.8

Q ss_pred             CCCCcccccccccccccCcEEccCCCcccHhhHHHhhh-cCCCCcccccccc
Q 011861          197 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD-RGNKCPLCRAVLF  247 (476)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~-~~~~Cp~cr~~~~  247 (476)
                      ....+.+.|+||++.+.+|+.++|||+||..|+.+|+. ....||.||..+.
T Consensus        10 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   61 (66)
T 2ecy_A           10 KTVEDKYKCEKCHLVLCSPKQTECGHRFCESCMAALLSSSSPKCTACQESIV   61 (66)
T ss_dssp             CSCCCCEECTTTCCEESSCCCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCC
T ss_pred             hcCCcCCCCCCCChHhcCeeECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCC
Confidence            34566889999999999999999999999999999995 4567999999874

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.00  E-value=8.8e-10  Score=101.77  Aligned_cols=114  Identities=12%  Similarity=0.128  Sum_probs=106.3

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      .....+...|..++..|++++|+..|.++++.+|++..++..+|.+|...|++                       ++|+
T Consensus        55 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~-----------------------~~A~  111 (243)
T 2q7f_A           55 EDAIPYINFANLLSSVNELERALAFYDKALELDSSAATAYYGAGNVYVVKEMY-----------------------KEAK  111 (243)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHH
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHhccH-----------------------HHHH
Confidence            34678889999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       125 ~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      ..++++++++|++..+++.+|.++...|++++|+..++++++++|.+..+...+..+
T Consensus       112 ~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  168 (243)
T 2q7f_A          112 DMFEKALRAGMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNENDTEARFQFGMC  168 (243)
T ss_dssp             HHHHHHHHHTCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999988776554443

>1jm7_A BRCA1, breast cancer type 1 susceptibility protein; ring finger, zinc-binding protein, heterodimer, ubiquitin ligase, antitumor; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=99.00  E-value=1.9e-10  Score=94.88  Aligned_cols=64  Identities=28%  Similarity=0.834  Sum_probs=52.7

Q ss_pred             ccccccccccccCcEEccCCCcccHhhHHHhhhcC---CCCcccccccccCCCCcccchhHHHHHHHhC
Q 011861          202 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRG---NKCPLCRAVLFITPRTCAVSVTLNSIIQKNF  267 (476)
Q Consensus       202 ~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~~---~~Cp~cr~~~~~~~~~~~~n~~l~~~~~~~~  267 (476)
                      .+.|+||++.+.+|+.++|||+||..|+..|+...   ..||.||..+..  ..+..|..+.++++.+.
T Consensus        21 ~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~--~~~~~~~~l~~~~~~~~   87 (112)
T 1jm7_A           21 ILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK--RSLQESTRFSQLVEELL   87 (112)
T ss_dssp             HTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCT--TTCBCCCSSSHHHHHHH
T ss_pred             CCCCcccChhhcCeEECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCH--hhcCccHHHHHHHHHHH
Confidence            67899999999999999999999999999999854   379999998743  45666666666666553

>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=99.00  E-value=9.9e-10  Score=111.52  Aligned_cols=117  Identities=14%  Similarity=0.228  Sum_probs=107.9

Q ss_pred             HHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc----ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      .....|..++..|++++|+..|.++++++|+++    .++.++|.++.++|++                       ++|+
T Consensus       259 ~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~l~~~~~~~g~~-----------------------~~A~  315 (450)
T 2y4t_A          259 KLIESAEELIRDGRYTDATSKYESVMKTEPSIAEYTVRSKERICHCFSKDEKP-----------------------VEAI  315 (450)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHTTTCH-----------------------HHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHHCCCH-----------------------HHHH
Confidence            345569999999999999999999999999985    4889999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhhh
Q 011861          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  188 (476)
Q Consensus       125 ~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~~  188 (476)
                      ..++++++++|++..+++.+|.++...|++++|+..|+++++++|++..+...+..+...+...
T Consensus       316 ~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~  379 (450)
T 2y4t_A          316 RVCSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQS  379 (450)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhhcc
Confidence            9999999999999999999999999999999999999999999999999988888877666554

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.00  E-value=9.8e-10  Score=99.90  Aligned_cols=112  Identities=13%  Similarity=0.017  Sum_probs=100.0

Q ss_pred             hhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHH
Q 011861           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (476)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (476)
                      ...+..+...|..++..|++++|+..|.++++.+|+++.++..+|.+|...|++                       ++|
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----------------------~~A   61 (225)
T 2vq2_A            5 NQVSNIKTQLAMEYMRGQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVN-----------------------DKA   61 (225)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHH
T ss_pred             cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCCh-----------------------HHH
Confidence            345677889999999999999999999999999999999999999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHhh-hhHHHHHHHHhcccc--cCCCCchhhHHH
Q 011861          124 LKDAEKLLNLQSNSMKSHLLKANALILL-ERYDMARDAILSGLQ--VDPFSNPLQASL  178 (476)
Q Consensus       124 ~~~~~~al~l~p~~~~~~~~~~~~~~~~-~~~~~A~~~~~~~l~--l~p~~~~~~~~~  178 (476)
                      +..++++++++|++..+++.+|.++... |++++|+..++++++  .+|.+..+...+
T Consensus        62 ~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l  119 (225)
T 2vq2_A           62 QESFRQALSIKPDSAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNK  119 (225)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHH
T ss_pred             HHHHHHHHHhCCCChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHH
Confidence            9999999999999999999999999999 999999999999999  344434444333

>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=99.00  E-value=1.3e-09  Score=108.79  Aligned_cols=116  Identities=23%  Similarity=0.287  Sum_probs=107.3

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      .....+...|..+...|++++|+..|.+++.++|+++.++.++|.+|...|++                       ++|+
T Consensus       201 ~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~-----------------------~~A~  257 (388)
T 1w3b_A          201 NFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLI-----------------------DLAI  257 (388)
T ss_dssp             TCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCH-----------------------HHHH
Confidence            34677889999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHH
Q 011861          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  183 (476)
Q Consensus       125 ~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~  183 (476)
                      ..++++++++|+++.+++.+|.++...|++++|+..|+++++++|.+......+..+..
T Consensus       258 ~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~  316 (388)
T 1w3b_A          258 DTYRRAIELQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKR  316 (388)
T ss_dssp             HHHHHHHHTCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999887766655433

>2ysl_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.00  E-value=3.4e-10  Score=85.67  Aligned_cols=51  Identities=35%  Similarity=0.858  Sum_probs=44.8

Q ss_pred             CCCCcccccccccccccCcEEccCCCcccHhhHHHhhh---cCCCCcccccccc
Q 011861          197 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD---RGNKCPLCRAVLF  247 (476)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~---~~~~Cp~cr~~~~  247 (476)
                      ....+.+.|+||++.+.+|+.++|||+||..|+..|+.   ....||.||..+.
T Consensus        15 ~~~~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~   68 (73)
T 2ysl_A           15 NKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVR   68 (73)
T ss_dssp             CCCCCCCBCTTTCSBCSSEEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCC
T ss_pred             HhCccCCEeccCCcccCCeEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCC
Confidence            34567889999999999999999999999999999997   3457999999874

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.99  E-value=1.1e-09  Score=84.99  Aligned_cols=85  Identities=21%  Similarity=0.315  Sum_probs=80.1

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      ..+..+...|..++..|+|++|+..|.++++.+|+++.++.++|.+|..+|++                       ++|+
T Consensus         7 ~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~-----------------------~~A~   63 (91)
T 1na3_A            7 NSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDY-----------------------DEAI   63 (91)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHH
T ss_pred             ccHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhH-----------------------HHHH
Confidence            34677888999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHhhh
Q 011861          125 KDAEKLLNLQSNSMKSHLLKANALILLE  152 (476)
Q Consensus       125 ~~~~~al~l~p~~~~~~~~~~~~~~~~~  152 (476)
                      ..++++++++|++..+++.+|.++...|
T Consensus        64 ~~~~~a~~~~p~~~~~~~~l~~~~~~~g   91 (91)
T 1na3_A           64 EYYQKALELDPNNAEAKQNLGNAKQKQG   91 (91)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHhcCCCCHHHHHHHHHHHHhcC
Confidence            9999999999999999999999987654

>3hct_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 3hcu_A 2eci_A 2jmd_A

Probab=98.99  E-value=2.4e-10  Score=95.20  Aligned_cols=67  Identities=30%  Similarity=0.725  Sum_probs=54.8

Q ss_pred             CCCCcccccccccccccCcEEccCCCcccHhhHHHhhhcCC-CCcccccccccCCCCcccchhHHHHHHH
Q 011861          197 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGN-KCPLCRAVLFITPRTCAVSVTLNSIIQK  265 (476)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~~~-~Cp~cr~~~~~~~~~~~~n~~l~~~~~~  265 (476)
                      ....+.+.|+||++.+.+|+.++|||+||..|+..|+.... .||.||..+..  ..+..+..+.+.+..
T Consensus        13 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~--~~~~~~~~l~~~i~~   80 (118)
T 3hct_A           13 PPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE--NQLFPDNFAKREILS   80 (118)
T ss_dssp             SCCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCG--GGCEECHHHHHHHHT
T ss_pred             cCCCCCCCCCcCChhhcCeEECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCH--HhcccCHHHHHHHcc
Confidence            34567899999999999999999999999999999998654 89999998743  345566666666655

>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=98.97  E-value=1.1e-09  Score=107.97  Aligned_cols=107  Identities=15%  Similarity=0.103  Sum_probs=101.8

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      +..+...|..++..|+|++|+..|.++++.+|+++.++.++|.+|...|++                       ++|+..
T Consensus        64 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~-----------------------~~A~~~  120 (368)
T 1fch_A           64 HPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQE-----------------------LLAISA  120 (368)
T ss_dssp             CSSHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             hHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCH-----------------------HHHHHH
Confidence            556788999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhH
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQA  176 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~  176 (476)
                      ++++++++|++..+++.+|.++...|++++|+..|.++++++|.+.....
T Consensus       121 ~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  170 (368)
T 1fch_A          121 LRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVT  170 (368)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC
T ss_pred             HHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHH
Confidence            99999999999999999999999999999999999999999998876554

>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=98.97  E-value=2.2e-09  Score=103.66  Aligned_cols=112  Identities=12%  Similarity=0.007  Sum_probs=89.5

Q ss_pred             HHHHHHhhHHHHHhc-cHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           47 VFDLVQKGNRAFRES-NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~-~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      ...+...|..++..| ++++|+..|.++++++|+++.+|..+|.+|...|++                       ++|+.
T Consensus        90 ~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~-----------------------~~A~~  146 (330)
T 3hym_B           90 PVSWFAVGCYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEH-----------------------DQAMA  146 (330)
T ss_dssp             THHHHHHHHHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCH-----------------------HHHHH
T ss_pred             HHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCH-----------------------HHHHH
Confidence            455667777888888 888888888888888888888888888888888888                       88888


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       126 ~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      .++++++++|++..+++.+|.++...|++++|+..++++++.+|.+..+...+..+
T Consensus       147 ~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~  202 (330)
T 3hym_B          147 AYFTAAQLMKGCHLPMLYIGLEYGLTNNSKLAERFFSQALSIAPEDPFVMHEVGVV  202 (330)
T ss_dssp             HHHHHHHHTTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHH
T ss_pred             HHHHHHHhccccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCCCChHHHHHHHHH
Confidence            88888888888888888888888888888888888888888888877665544433

>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=98.97  E-value=1.1e-09  Score=102.22  Aligned_cols=112  Identities=19%  Similarity=0.120  Sum_probs=102.5

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      .+..+...|..++..|++++|+..|.++++.+|++..++..+|.+|...|++                       ++|+.
T Consensus        36 ~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~-----------------------~~A~~   92 (252)
T 2ho1_A           36 ARDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEP-----------------------KLADE   92 (252)
T ss_dssp             HHHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             HHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCH-----------------------HHHHH
Confidence            4788999999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccc--cCCCCchhhHHHHH
Q 011861          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQ--VDPFSNPLQASLQN  180 (476)
Q Consensus       126 ~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~--l~p~~~~~~~~~~~  180 (476)
                      .++++++++|++..+++.+|.++...|++++|+..|+++++  .+|.+..+...+..
T Consensus        93 ~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~  149 (252)
T 2ho1_A           93 EYRKALASDSRNARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGL  149 (252)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHH
T ss_pred             HHHHHHHHCcCcHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHH
Confidence            99999999999999999999999999999999999999999  66665555544433

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.97  E-value=2.3e-09  Score=99.21  Aligned_cols=119  Identities=15%  Similarity=0.104  Sum_probs=94.2

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcc---cccchhHHHHHHHhhhccCCCCCcccCCCCCCC----Ccch
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPI---VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLD----PTTH  119 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~  119 (476)
                      ...+...|..++..|+|++|+..|+++++.+|+++.   +++.+|.+|..++..         ....++...    ....
T Consensus        41 ~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g~~~~~~~~~---------~~~~~~~~~~~~~~~~~  111 (225)
T 2yhc_A           41 QQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRGLTNMALDDS---------ALQGFFGVDRSDRDPQQ  111 (225)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHC-----------------------CCHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHHHHHHhhhhh---------hhhhhhccchhhcCcHH
Confidence            457888999999999999999999999999999875   799999999875311         000000000    0111


Q ss_pred             HHHHHHHHHHHhhccccchHHH-----------------HHHHHHHHhhhhHHHHHHHHhcccccCCCCchh
Q 011861          120 AELALKDAEKLLNLQSNSMKSH-----------------LLKANALILLERYDMARDAILSGLQVDPFSNPL  174 (476)
Q Consensus       120 ~~~a~~~~~~al~l~p~~~~~~-----------------~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~  174 (476)
                      .++|+..++++++.+|++..+.                 +.+|.+|...|+|++|+..|+++++..|+++..
T Consensus       112 ~~~A~~~~~~~l~~~P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~  183 (225)
T 2yhc_A          112 ARAAFSDFSKLVRGYPNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQAT  183 (225)
T ss_dssp             HHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHH
T ss_pred             HHHHHHHHHHHHHHCcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCcc
Confidence            2999999999999999987654                 678999999999999999999999999998744

>2ysj_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.96  E-value=5.8e-10  Score=81.78  Aligned_cols=46  Identities=39%  Similarity=0.945  Sum_probs=40.7

Q ss_pred             CCCCcccccccccccccCcEEccCCCcccHhhHHHhhh---cCCCCccc
Q 011861          197 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD---RGNKCPLC  242 (476)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~---~~~~Cp~c  242 (476)
                      ....+.+.|+||++.+.+|+.++|||+||..||.+|+.   ....||.|
T Consensus        15 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           15 NKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCCCBCTTTCSBCSSCEECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             HhCccCCCCCcCCchhCCeEEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            44567889999999999999999999999999999997   34579988

>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=98.96  E-value=1.8e-09  Score=100.59  Aligned_cols=113  Identities=12%  Similarity=0.032  Sum_probs=104.0

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      ...+...|..++..|++++|+..|.++++.+|++..++.++|.+|...|++                       ++|+..
T Consensus        71 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~-----------------------~~A~~~  127 (252)
T 2ho1_A           71 ADAHAALAVVFQTEMEPKLADEEYRKALASDSRNARVLNNYGGFLYEQKRY-----------------------EEAYQR  127 (252)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHHhHH-----------------------HHHHHH
Confidence            456777899999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhh--ccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHH
Q 011861          127 AEKLLN--LQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (476)
Q Consensus       127 ~~~al~--l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~  182 (476)
                      ++++++  .+|.+..+++.+|.++...|++++|+..|+++++.+|.+..+...+..+-
T Consensus       128 ~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~  185 (252)
T 2ho1_A          128 LLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRNQPSVALEMADLL  185 (252)
T ss_dssp             HHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHH
T ss_pred             HHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcccHHHHHHHHHHH
Confidence            999999  88999999999999999999999999999999999999877666555443

>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=98.93  E-value=2e-09  Score=106.40  Aligned_cols=97  Identities=19%  Similarity=0.205  Sum_probs=90.8

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      +..+...|..+++.|+|++|+..|++|++++|+++.+|+++|.+|..+|++                       ++|+..
T Consensus       196 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~-----------------------~~A~~~  252 (336)
T 1p5q_A          196 LASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDF-----------------------ELARAD  252 (336)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCH-----------------------HHHHHH
Confidence            567888999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhhHHHH-HHHHhcccc
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLERYDMA-RDAILSGLQ  166 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A-~~~~~~~l~  166 (476)
                      +++|++++|++..+++.+|.++..+|++++| ...|.+.+.
T Consensus       253 ~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~~  293 (336)
T 1p5q_A          253 FQKVLQLYPNNKAAKTQLAVCQQRIRRQLAREKKLYANMFE  293 (336)
T ss_dssp             HHHHHHHCSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999 456666654

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=98.93  E-value=2.5e-09  Score=97.16  Aligned_cols=113  Identities=13%  Similarity=0.075  Sum_probs=102.0

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHH-HhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRI-SQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      ...+...|..++..|++++|+..|.++++.+|++..++.++|.+|... |++                       ++|+.
T Consensus        42 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~-----------------------~~A~~   98 (225)
T 2vq2_A           42 ELAWLVRAEIYQYLKVNDKAQESFRQALSIKPDSAEINNNYGWFLCGRLNRP-----------------------AESMA   98 (225)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCCH-----------------------HHHHH
T ss_pred             hHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCcH-----------------------HHHHH
Confidence            456778899999999999999999999999999999999999999999 999                       99999


Q ss_pred             HHHHHhh--ccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHH
Q 011861          126 DAEKLLN--LQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (476)
Q Consensus       126 ~~~~al~--l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~  182 (476)
                      .++++++  .+|.+..+++.+|.++...|++++|+..+.++++.+|.+......+..+-
T Consensus        99 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~  157 (225)
T 2vq2_A           99 YFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTK  157 (225)
T ss_dssp             HHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHH
Confidence            9999999  67777899999999999999999999999999999998877666555443

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=98.93  E-value=1.3e-09  Score=105.51  Aligned_cols=56  Identities=13%  Similarity=0.007  Sum_probs=29.7

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhH
Q 011861          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQA  176 (476)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~  176 (476)
                      ++|+..++++++.+|+++.+++.+|.++..+|++++|...|+++++++|+++.+..
T Consensus       183 ~eA~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~~~~l~  238 (291)
T 3mkr_A          183 QDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETLI  238 (291)
T ss_dssp             HHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHH
Confidence            55555555555555555555555555555555555555555555555555554443

>2ct2_A Tripartite motif protein 32; zinc-finger protein HT2A, TAT- interacting protein, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.92  E-value=8e-10  Score=86.82  Aligned_cols=52  Identities=27%  Similarity=0.777  Sum_probs=45.3

Q ss_pred             CCCCCcccccccccccccC----cEEccCCCcccHhhHHHhhhcC---CCCcccccccc
Q 011861          196 TPERTDDFDCTLCLKLLYE----PITTPCGHSFCRSCLFQSMDRG---NKCPLCRAVLF  247 (476)
Q Consensus       196 ~~~~~~~~~C~iC~~~~~~----P~~~~cgh~fC~~Cl~~~~~~~---~~Cp~cr~~~~  247 (476)
                      .....+.+.|+||++.+.+    |+.++|||+||..|+.+|+...   ..||.||..+.
T Consensus         9 ~~~~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~   67 (88)
T 2ct2_A            9 LDALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITR   67 (88)
T ss_dssp             CCCCCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBC
T ss_pred             hhhccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCccc
Confidence            3445668899999999998    9999999999999999999864   67999999874

>2ea6_A Ring finger protein 4; RNF4, RES4-26, ring domain, zinc- binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.92  E-value=5.4e-10  Score=83.45  Aligned_cols=51  Identities=33%  Similarity=0.826  Sum_probs=45.2

Q ss_pred             CCCCcccccccccccccCc-------EEccCCCcccHhhHHHhhhcCCCCcccccccc
Q 011861          197 PERTDDFDCTLCLKLLYEP-------ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~P-------~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      ....+.+.|+||++.+.+|       +.++|||.||..|+..|+.....||.||..+.
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   67 (69)
T 2ea6_A           10 LRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN   67 (69)
T ss_dssp             CCTTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHCSSCTTTCCCCC
T ss_pred             cCCCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcCCCCCCCCCccC
Confidence            3455688999999999988       88999999999999999998889999998763

>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=98.92  E-value=1.9e-09  Score=104.02  Aligned_cols=101  Identities=15%  Similarity=0.178  Sum_probs=96.2

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      ...+...|..++..|++++|+..|.++++.+|+++.++.++|.+|...|++                       ++|+..
T Consensus       172 ~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----------------------~~A~~~  228 (327)
T 3cv0_A          172 AQLHASLGVLYNLSNNYDSAAANLRRAVELRPDDAQLWNKLGATLANGNRP-----------------------QEALDA  228 (327)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCH-----------------------HHHHHH
Confidence            456677889999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCC
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF  170 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~  170 (476)
                      ++++++++|++..+++.+|.++...|++++|+..|+++++++|.
T Consensus       229 ~~~a~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~  272 (327)
T 3cv0_A          229 YNRALDINPGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVG  272 (327)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHcCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCc
Confidence            99999999999999999999999999999999999999999998

>3ng2_A RNF4, snurf, ring finger protein 4; ring domain, E3 ligase, ubiquitylation, sumoylation, zinc-FI metal binding protein; 1.80A {Rattus norvegicus}

Probab=98.91  E-value=3.9e-10  Score=84.82  Aligned_cols=49  Identities=35%  Similarity=0.873  Sum_probs=44.5

Q ss_pred             CCcccccccccccccCc-------EEccCCCcccHhhHHHhhhcCCCCcccccccc
Q 011861          199 RTDDFDCTLCLKLLYEP-------ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       199 ~~~~~~C~iC~~~~~~P-------~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      ..+.+.|+||++.+.+|       +.++|||+||..|+.+|+.....||.||..+.
T Consensus         7 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   62 (71)
T 3ng2_A            7 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN   62 (71)
T ss_dssp             CTTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCC
T ss_pred             CCCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCccC
Confidence            34678999999999998       88999999999999999998889999999874

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=98.90  E-value=4.9e-09  Score=98.62  Aligned_cols=104  Identities=14%  Similarity=0.059  Sum_probs=88.6

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      ...+...|..++..|+|++|+..|.++++++|+++.++.++|.+|..+|++                       ++|+..
T Consensus        77 ~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~-----------------------~~A~~~  133 (275)
T 1xnf_A           77 PEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRD-----------------------KLAQDD  133 (275)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCccccHHHHHHHHHHHHhccH-----------------------HHHHHH
Confidence            456778899999999999999999999999999999999999999999999                       777777


Q ss_pred             HHHHhhccccch--------------------------------------------------------------------
Q 011861          127 AEKLLNLQSNSM--------------------------------------------------------------------  138 (476)
Q Consensus       127 ~~~al~l~p~~~--------------------------------------------------------------------  138 (476)
                      ++++++++|++.                                                                    
T Consensus       134 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  213 (275)
T 1xnf_A          134 LLAFYQDDPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWGWNIVEFYLGNISEQTLMERLKADATDNTSLAEH  213 (275)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCSTHHHHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHH
T ss_pred             HHHHHHhCCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHhcCHHHHHHHHHHHhccccccccc
Confidence            777777766653                                                                    


Q ss_pred             --HHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCch
Q 011861          139 --KSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (476)
Q Consensus       139 --~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~  173 (476)
                        .+++.+|.++...|++++|+..|+++++++|.+..
T Consensus       214 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~  250 (275)
T 1xnf_A          214 LSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFV  250 (275)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCH
T ss_pred             ccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchhHH
Confidence              56677888888888888888888888888886654

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.90  E-value=5.6e-10  Score=95.53  Aligned_cols=94  Identities=12%  Similarity=-0.016  Sum_probs=84.2

Q ss_pred             HHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHH
Q 011861           68 SNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANA  147 (476)
Q Consensus        68 ~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~  147 (476)
                      ..|.++++++|++...++++|.++++.|++                       ++|+..+++++.++|+++.+|+.+|.+
T Consensus         5 ~~l~~al~~~p~~~~~~~~~a~~~~~~g~~-----------------------~~A~~~~~~al~~~p~~~~~~~~lg~~   61 (142)
T 2xcb_A            5 GTLAMLRGLSEDTLEQLYALGFNQYQAGKW-----------------------DDAQKIFQALCMLDHYDARYFLGLGAC   61 (142)
T ss_dssp             ----CCTTCCHHHHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             hhHHHHHcCCHHHHHHHHHHHHHHHHHccH-----------------------HHHHHHHHHHHHhCCccHHHHHHHHHH
Confidence            568889999999999999999999999999                       999999999999999999999999999


Q ss_pred             HHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHh
Q 011861          148 LILLERYDMARDAILSGLQVDPFSNPLQASLQNLERT  184 (476)
Q Consensus       148 ~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~  184 (476)
                      +..+|+|++|+..|+++++++|+++.....+..+-..
T Consensus        62 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~   98 (142)
T 2xcb_A           62 RQSLGLYEQALQSYSYGALMDINEPRFPFHAAECHLQ   98 (142)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHH
Confidence            9999999999999999999999999887666555433

>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=98.90  E-value=2.6e-09  Score=102.94  Aligned_cols=109  Identities=13%  Similarity=0.050  Sum_probs=101.4

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      ....+...|..++..|+|++|+..|.++++.+|+++.++..+|.++...|++                       ++|+.
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----------------------~~A~~   76 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAAPEREEAWRSLGLTQAENEKD-----------------------GLAII   76 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH-----------------------HHHHH
Confidence            4556889999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHH
Q 011861          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQAS  177 (476)
Q Consensus       126 ~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~  177 (476)
                      .++++++++|++..+++.+|.++...|++++|+..+.++++.+|.+......
T Consensus        77 ~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  128 (327)
T 3cv0_A           77 ALNHARMLDPKDIAVHAALAVSHTNEHNANAALASLRAWLLSQPQYEQLGSV  128 (327)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTTTC---
T ss_pred             HHHHHHhcCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHH
Confidence            9999999999999999999999999999999999999999999988765543

>1rmd_A RAG1; V(D)J recombination, antibody, MAD, ring finger, zinc binuclear cluster, zinc finger, DNA-binding protein; 2.10A {Mus musculus} SCOP: g.37.1.1 g.44.1.1

Probab=98.90  E-value=9.2e-10  Score=91.35  Aligned_cols=65  Identities=29%  Similarity=0.732  Sum_probs=50.5

Q ss_pred             CcccccccccccccCcEEccCCCcccHhhHHHhhhc-CCCCcccccccccCCCCcccchhHHHHHHH
Q 011861          200 TDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR-GNKCPLCRAVLFITPRTCAVSVTLNSIIQK  265 (476)
Q Consensus       200 ~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~-~~~Cp~cr~~~~~~~~~~~~n~~l~~~~~~  265 (476)
                      .+.+.|+||++.+.+|+.++|||+||..|+.+|+.. +..||.||..+... .....+..+.+++.+
T Consensus        21 ~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~-~~~~~~~~l~~~i~~   86 (116)
T 1rmd_A           21 VKSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPT-DLESPVKSFLNILNS   86 (116)
T ss_dssp             HHHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGG-GCBCCCHHHHHHHHH
T ss_pred             cCCCCCCCCCcHhcCcEEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCHh-hccccHHHHHHHHHH
Confidence            357899999999999999999999999999999986 67899999987432 222334455555543

>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=98.89  E-value=2.1e-09  Score=111.47  Aligned_cols=106  Identities=10%  Similarity=0.151  Sum_probs=94.1

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      .+..+...|..+++.|+|++|+..|++|++++|+++.+|.++|.+|..+|++                       ++|++
T Consensus        39 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~-----------------------~eA~~   95 (477)
T 1wao_1           39 NAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKF-----------------------RAALR   95 (477)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCH-----------------------HHHHH
T ss_pred             cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH-----------------------HHHHH
Confidence            3667788999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHH--HHhhhhHHHHHHHHh-----------cccccCCCCchh
Q 011861          126 DAEKLLNLQSNSMKSHLLKANA--LILLERYDMARDAIL-----------SGLQVDPFSNPL  174 (476)
Q Consensus       126 ~~~~al~l~p~~~~~~~~~~~~--~~~~~~~~~A~~~~~-----------~~l~l~p~~~~~  174 (476)
                      .+++|++++|++..++..+|.+  +...|+|++|+..+.           ++++++|.....
T Consensus        96 ~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~al~~~~~~~~~  157 (477)
T 1wao_1           96 DYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRSVVDSLDIESMTIEDEYSGP  157 (477)
T ss_dssp             HHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC------CCSTTTCCTTSSCCCCTTCCSC
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhccccccchhHhhhhhhhcccccccccc
Confidence            9999999999999999999998  889999999999999           899988865443

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=98.89  E-value=5.9e-09  Score=100.79  Aligned_cols=95  Identities=7%  Similarity=0.002  Sum_probs=79.6

Q ss_pred             hccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchH
Q 011861           60 ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMK  139 (476)
Q Consensus        60 ~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~  139 (476)
                      .|++++|+..|+++++.+|+++.+|.++|.++.++|++                       ++|+..++++++++|+++.
T Consensus       179 ~~~~~eA~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~-----------------------~eA~~~l~~al~~~p~~~~  235 (291)
T 3mkr_A          179 GEKLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRW-----------------------EAAEGVLQEALDKDSGHPE  235 (291)
T ss_dssp             TTHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHCTTCHH
T ss_pred             chHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHHHhCCCCHH
Confidence            47888888888888888888888888888888888888                       8888888888888888888


Q ss_pred             HHHHHHHHHHhhhhHHH-HHHHHhcccccCCCCchhhHH
Q 011861          140 SHLLKANALILLERYDM-ARDAILSGLQVDPFSNPLQAS  177 (476)
Q Consensus       140 ~~~~~~~~~~~~~~~~~-A~~~~~~~l~l~p~~~~~~~~  177 (476)
                      +++++|.++..+|++++ +...++++++++|+++.+...
T Consensus       236 ~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~~~~d~  274 (291)
T 3mkr_A          236 TLINLVVLSQHLGKPPEVTNRYLSQLKDAHRSHPFIKEY  274 (291)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCCChHHHHH
Confidence            88888888888888876 457778888888888877653

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.88  E-value=2.5e-09  Score=103.20  Aligned_cols=106  Identities=15%  Similarity=0.030  Sum_probs=88.9

Q ss_pred             HHHHHHhhHHHHHh-ccHHHHHHHHHHHhccCCCC------cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcch
Q 011861           47 VFDLVQKGNRAFRE-SNFEEAISNYSRANNIKPGD------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH  119 (476)
Q Consensus        47 ~~~~~~~g~~~~~~-~~~~~Ai~~y~~al~~~p~~------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (476)
                      +..+...|..+... |+|++|+.+|.+|+++.|.+      ..++.++|.+|..+|++                      
T Consensus       117 a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~----------------------  174 (292)
T 1qqe_A          117 ANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQY----------------------  174 (292)
T ss_dssp             HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH----------------------
T ss_pred             HHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCH----------------------
Confidence            45677788889997 99999999999999998865      46789999999999999                      


Q ss_pred             HHHHHHHHHHHhhccccchH-------HHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhh
Q 011861          120 AELALKDAEKLLNLQSNSMK-------SHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  175 (476)
Q Consensus       120 ~~~a~~~~~~al~l~p~~~~-------~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~  175 (476)
                       ++|+..++++++++|++..       +++.+|.++..+|++++|+..|+++++++|......
T Consensus       175 -~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~  236 (292)
T 1qqe_A          175 -IEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSR  236 (292)
T ss_dssp             -HHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC--------
T ss_pred             -HHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcH
Confidence             9999999999999987653       678999999999999999999999999999877643

>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=98.87  E-value=3.7e-09  Score=111.79  Aligned_cols=107  Identities=14%  Similarity=0.011  Sum_probs=101.0

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      ....+...|..++..|++++|+..|.++++++|+++.++.++|.+|..+|++                       ++|++
T Consensus        56 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~-----------------------~~A~~  112 (568)
T 2vsy_A           56 HPEAVARLGRVRWTQQRHAEAAVLLQQASDAAPEHPGIALWLGHALEDAGQA-----------------------EAAAA  112 (568)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCH-----------------------HHHHH
Confidence            3567788999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHhh---hhHHHHHHHHhcccccCCCCchhh
Q 011861          126 DAEKLLNLQSNSMKSHLLKANALILL---ERYDMARDAILSGLQVDPFSNPLQ  175 (476)
Q Consensus       126 ~~~~al~l~p~~~~~~~~~~~~~~~~---~~~~~A~~~~~~~l~l~p~~~~~~  175 (476)
                      .++++++++|++..+++.+|.++..+   |++++|...|+++++.+|.+....
T Consensus       113 ~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  165 (568)
T 2vsy_A          113 AYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQGVGAVEPF  165 (568)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHTCCCSCHH
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcCCcccChH
Confidence            99999999999999999999999999   999999999999999999875443

>2ecj_A Tripartite motif-containing protein 39; TRIM39, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.87  E-value=1.4e-09  Score=78.15  Aligned_cols=47  Identities=34%  Similarity=0.947  Sum_probs=40.3

Q ss_pred             CCCCCcccccccccccccCcEEccCCCcccHhhHHHhhh---cCCCCccc
Q 011861          196 TPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD---RGNKCPLC  242 (476)
Q Consensus       196 ~~~~~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~---~~~~Cp~c  242 (476)
                      .....+.+.|+||++.+.+|+.++|||+||..|+.+|+.   ....||.|
T Consensus         9 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A            9 LENLQVEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             SSCSCCCCBCSSSCCBCSSCCCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             hhccccCCCCccCCcccCccEeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            334556889999999999999999999999999999954   45679987

>3htk_C E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-ring, ring, ATP-binding, chromosomal protein, coiled coil, DNA damage; 2.31A {Saccharomyces cerevisiae}

Probab=98.87  E-value=1.2e-09  Score=101.30  Aligned_cols=66  Identities=18%  Similarity=0.353  Sum_probs=57.0

Q ss_pred             CCcccccccccccccCcEEc-cCCCcccHhhHHHhhhcC--CCCcc--cccccccCCCCcccchhHHHHHHHh
Q 011861          199 RTDDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDRG--NKCPL--CRAVLFITPRTCAVSVTLNSIIQKN  266 (476)
Q Consensus       199 ~~~~~~C~iC~~~~~~P~~~-~cgh~fC~~Cl~~~~~~~--~~Cp~--cr~~~~~~~~~~~~n~~l~~~~~~~  266 (476)
                      ....+.|+||+..|.+||+. .|||+||+.||.+|+..+  ..||.  |++.+.  ..++.+|..|.++++.+
T Consensus       178 ~~~el~CPIcl~~f~DPVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~--~~dL~pN~~L~~lve~~  248 (267)
T 3htk_C          178 GKIELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVS--MRDFVRDPIMELRCKIA  248 (267)
T ss_dssp             SBCCSBCTTTSSBCSSEEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEEC--GGGEEECHHHHHHHHHH
T ss_pred             CceeeECcCccCcccCCeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCc--hhhCCcCHHHHHHHHHH
Confidence            45688999999999999985 999999999999999753  36999  999874  36889999999998765

>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=98.86  E-value=5.7e-09  Score=90.28  Aligned_cols=97  Identities=11%  Similarity=0.151  Sum_probs=88.4

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      ...+...|..++..|+|++|+..|.++++++|+++.++.++|.+|..+|++                       ++|+..
T Consensus        47 ~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~-----------------------~~A~~~  103 (166)
T 1a17_A           47 AIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKF-----------------------RAALRD  103 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             hHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhccH-----------------------HHHHHH
Confidence            566788899999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHH--HHhhhhHHHHHHHHhcccc
Q 011861          127 AEKLLNLQSNSMKSHLLKANA--LILLERYDMARDAILSGLQ  166 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~--~~~~~~~~~A~~~~~~~l~  166 (476)
                      +.++++++|++..++..++.+  +...|++++|+..+.+...
T Consensus       104 ~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A          104 YETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            999999999999988555544  8899999999999887644

>2xeu_A Ring finger protein 4; transcription, zinc-finger, metal-binding; HET: SUC; 1.50A {Homo sapiens}

Probab=98.86  E-value=7.2e-10  Score=81.42  Aligned_cols=47  Identities=36%  Similarity=0.882  Sum_probs=42.9

Q ss_pred             cccccccccccccCc-------EEccCCCcccHhhHHHhhhcCCCCcccccccc
Q 011861          201 DDFDCTLCLKLLYEP-------ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       201 ~~~~C~iC~~~~~~P-------~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      +.+.|+||++.+.+|       +.++|||.||..|+.+|+.....||.||..+.
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   55 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN   55 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHCSBCTTTCCBCT
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcCCCCCCCCccCC
Confidence            467899999999887       78899999999999999998889999999874

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.86  E-value=8.7e-10  Score=88.53  Aligned_cols=76  Identities=18%  Similarity=0.152  Sum_probs=69.7

Q ss_pred             cCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHH
Q 011861           76 IKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYD  155 (476)
Q Consensus        76 ~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~  155 (476)
                      .+|+++.+++++|.+|+.+|++                       ++|+..++++++++|+++.+|+.+|.+|..+|+++
T Consensus         2 ~~p~~~~~~~~lg~~~~~~g~~-----------------------~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~   58 (100)
T 3ma5_A            2 EDPEDPFTRYALAQEHLKHDNA-----------------------SRALALFEELVETDPDYVGTYYHLGKLYERLDRTD   58 (100)
T ss_dssp             ---CCHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHH
T ss_pred             CCccCHHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHH
Confidence            4799999999999999999999                       99999999999999999999999999999999999


Q ss_pred             HHHHHHhcccccCCCCchh
Q 011861          156 MARDAILSGLQVDPFSNPL  174 (476)
Q Consensus       156 ~A~~~~~~~l~l~p~~~~~  174 (476)
                      +|+..|++++++.|.+...
T Consensus        59 ~A~~~~~~al~l~~~~~~~   77 (100)
T 3ma5_A           59 DAIDTYAQGIEVAREEGTQ   77 (100)
T ss_dssp             HHHHHHHHHHHHHHHHSCH
T ss_pred             HHHHHHHHHHhhhhcCCch
Confidence            9999999999998765554

>2ecn_A Ring finger protein 141; RNF141, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.85  E-value=1.6e-09  Score=81.23  Aligned_cols=50  Identities=34%  Similarity=0.870  Sum_probs=44.8

Q ss_pred             CCCCcccccccccccccCcEEccCCCcccHhhHHHhhhcCCCCcccccccc
Q 011861          197 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      ....+...|+||++.+.+ +.++|||.||..|+.+|+.....||.||..+.
T Consensus        10 ~~~~~~~~C~IC~~~~~~-~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   59 (70)
T 2ecn_A           10 KQLTDEEECCICMDGRAD-LILPCAHSFCQKCIDKWSDRHRNCPICRLQMT   59 (70)
T ss_dssp             CCCCCCCCCSSSCCSCCS-EEETTTEEECHHHHHHSSCCCSSCHHHHHCTT
T ss_pred             hcCCCCCCCeeCCcCccC-cccCCCCcccHHHHHHHHHCcCcCCCcCCccc
Confidence            345567899999999999 88999999999999999998889999999874

>3knv_A TNF receptor-associated factor 2; cross-brace, alternative splicing, apoptosis, cytoplasm, metal-binding, UBL conjugation, zinc, zinc-finger; 1.90A {Homo sapiens}

Probab=98.85  E-value=1.1e-09  Score=94.07  Aligned_cols=48  Identities=27%  Similarity=0.736  Sum_probs=43.6

Q ss_pred             CCcccccccccccccCcEEccCCCcccHhhHHHhhhcCC-CCccccccc
Q 011861          199 RTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGN-KCPLCRAVL  246 (476)
Q Consensus       199 ~~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~~~-~Cp~cr~~~  246 (476)
                      ..+.+.|+||++.+.+|+.++|||+||..||.+|+..+. .||.||..+
T Consensus        28 l~~~~~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~   76 (141)
T 3knv_A           28 LEAKYLCSACRNVLRRPFQAQCGHRYCSFCLASILSSGPQNCAACVHEG   76 (141)
T ss_dssp             CCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHGGGSCEECHHHHHTT
T ss_pred             CCcCcCCCCCChhhcCcEECCCCCccCHHHHHHHHhcCCCCCCCCCCcc
Confidence            457899999999999999999999999999999998654 799999975

>1bor_A Transcription factor PML; proto-oncogene, nuclear bodies (PODS), leukemia, transcription regulation; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=98.85  E-value=6.5e-10  Score=79.41  Aligned_cols=46  Identities=30%  Similarity=0.695  Sum_probs=40.2

Q ss_pred             CcccccccccccccCcEEccCCCcccHhhHHHhhhcCCCCccccccccc
Q 011861          200 TDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFI  248 (476)
Q Consensus       200 ~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~~  248 (476)
                      .+.+.|+||++.+.+|+.++|||+||..|+..   ....||.||..+..
T Consensus         4 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~---~~~~CP~Cr~~~~~   49 (56)
T 1bor_A            4 FQFLRCQQCQAEAKCPKLLPCLHTLCSGCLEA---SGMQCPICQAPWPL   49 (56)
T ss_dssp             CCCSSCSSSCSSCBCCSCSTTSCCSBTTTCSS---SSSSCSSCCSSSSC
T ss_pred             ccCCCceEeCCccCCeEEcCCCCcccHHHHcc---CCCCCCcCCcEeec
Confidence            46789999999999999999999999999876   34579999998754

>1iym_A EL5; ring-H2 finger, ubiquitin ligase, DNA binding protein; NMR {Oryza sativa} SCOP: g.44.1.1

Probab=98.85  E-value=1.6e-09  Score=76.98  Aligned_cols=47  Identities=34%  Similarity=0.824  Sum_probs=41.7

Q ss_pred             CcccccccccccccC---cEEcc-CCCcccHhhHHHhhhcCCCCccccccc
Q 011861          200 TDDFDCTLCLKLLYE---PITTP-CGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (476)
Q Consensus       200 ~~~~~C~iC~~~~~~---P~~~~-cgh~fC~~Cl~~~~~~~~~Cp~cr~~~  246 (476)
                      .+...|+||++.+.+   ++.++ |||.||..|+.+|+.....||.||..+
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~   53 (55)
T 1iym_A            3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV   53 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCS
T ss_pred             CCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEe
Confidence            356789999999887   77786 999999999999999888999999865

>2ect_A Ring finger protein 126; metal binding protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=98.84  E-value=2.4e-09  Score=82.05  Aligned_cols=52  Identities=25%  Similarity=0.635  Sum_probs=44.4

Q ss_pred             CCCCCcccccccccccccCc---EEccCCCcccHhhHHHhhhcCCCCcccccccc
Q 011861          196 TPERTDDFDCTLCLKLLYEP---ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       196 ~~~~~~~~~C~iC~~~~~~P---~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      .........|+||++.+.++   +.++|||.||..||.+|+.....||+||..+.
T Consensus         9 ~~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~   63 (78)
T 2ect_A            9 EEHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLT   63 (78)
T ss_dssp             CTTSSSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCCC
T ss_pred             cccCCCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCccC
Confidence            33455678999999999866   45699999999999999998889999999874

>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid herpesvirus 1} SCOP: g.44.1.1

Probab=98.83  E-value=1.3e-09  Score=81.23  Aligned_cols=47  Identities=28%  Similarity=0.707  Sum_probs=42.4

Q ss_pred             cccccccccccccCc-EEccCCCcccHhhHHHhhhcCCCCcccccccc
Q 011861          201 DDFDCTLCLKLLYEP-ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       201 ~~~~C~iC~~~~~~P-~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      ....|+||++.+.+| +.++|||.||..|+.+|+.....||.||..+.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~   51 (68)
T 1chc_A            4 VAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCCCCeeCCccccCCcEecCCCCeeHHHHHHHHHhCcCcCcCCChhhH
Confidence            456899999999997 67899999999999999998889999998873

>2kiz_A E3 ubiquitin-protein ligase arkadia; ring-H2 finger, E3 ligase, Zn binding domain, metal zinc, zinc-finger, metal binding protein; NMR {Homo sapiens}

Probab=98.83  E-value=2.7e-09  Score=79.65  Aligned_cols=50  Identities=34%  Similarity=0.721  Sum_probs=42.7

Q ss_pred             CCCccccccccccccc---CcEEccCCCcccHhhHHHhhhcCCCCcccccccc
Q 011861          198 ERTDDFDCTLCLKLLY---EPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       198 ~~~~~~~C~iC~~~~~---~P~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      .......|+||++.+.   .++.++|||.||..|+.+|+.....||.||..+.
T Consensus        10 ~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~   62 (69)
T 2kiz_A           10 EEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIE   62 (69)
T ss_dssp             STTCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBSC
T ss_pred             cCCCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCcccc
Confidence            3456778999998874   4567899999999999999998888999999874

>2ecm_A Ring finger and CHY zinc finger domain- containing protein 1; RCHY1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2jrj_A

Probab=98.82  E-value=1.7e-09  Score=76.89  Aligned_cols=46  Identities=30%  Similarity=0.792  Sum_probs=41.2

Q ss_pred             cccccccccccccC----cEEccCCCcccHhhHHHhhhcCCCCccccccc
Q 011861          201 DDFDCTLCLKLLYE----PITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (476)
Q Consensus       201 ~~~~C~iC~~~~~~----P~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~  246 (476)
                      +...|+||++.+.+    ++.++|||.||..|+.+|+.....||.||..+
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~   53 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPS   53 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHTCCCTTSCCSS
T ss_pred             CCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcCCcCCCCCCcC
Confidence            46789999999866    67889999999999999999888999999875

>1g25_A CDK-activating kinase assembly factor MAT1; ring finger (C3HC4), metal binding protein; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=98.82  E-value=1.7e-09  Score=79.72  Aligned_cols=47  Identities=36%  Similarity=0.822  Sum_probs=40.5

Q ss_pred             cccccccccc-cccCc----EEccCCCcccHhhHHHhhhcC-CCCcccccccc
Q 011861          201 DDFDCTLCLK-LLYEP----ITTPCGHSFCRSCLFQSMDRG-NKCPLCRAVLF  247 (476)
Q Consensus       201 ~~~~C~iC~~-~~~~P----~~~~cgh~fC~~Cl~~~~~~~-~~Cp~cr~~~~  247 (476)
                      +++.|+||++ .+.+|    +.++|||+||..|+.+|+.++ ..||.||..+.
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   54 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLR   54 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCS
T ss_pred             CCCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCccc
Confidence            4678999999 89999    568999999999999997644 56999999874

>2l0b_A E3 ubiquitin-protein ligase praja-1; zinc finger, NESG, structural genomics, PSI-2, protein struc initiative; NMR {Homo sapiens}

Probab=98.79  E-value=3.2e-09  Score=83.96  Aligned_cols=49  Identities=22%  Similarity=0.678  Sum_probs=43.3

Q ss_pred             CCcccccccccccccC---cEEccCCCcccHhhHHHhhhcCCCCcccccccc
Q 011861          199 RTDDFDCTLCLKLLYE---PITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       199 ~~~~~~C~iC~~~~~~---P~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      ......|+||++.+..   ++.++|||.||..||..|+.....||.||..+.
T Consensus        37 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   88 (91)
T 2l0b_A           37 VGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMFP   88 (91)
T ss_dssp             SSSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTTTCBCTTTCCBSS
T ss_pred             cCCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHcCCcCcCcCccCC
Confidence            4467799999998877   777899999999999999998889999998763

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.79  E-value=7.3e-09  Score=99.92  Aligned_cols=105  Identities=12%  Similarity=-0.090  Sum_probs=94.6

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC------cccccchhHHHHHH-HhhhccCCCCCcccCCCCCCCCcch
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD------PIVLGNRSSAYIRI-SQFLKHRPPSASEYRPLNGLDPTTH  119 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~------~~~~~~~a~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~  119 (476)
                      +..+...|..+...|+|++|+.+|.+|+++.|..      ..++.++|.+|... |++                      
T Consensus        77 a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~----------------------  134 (292)
T 1qqe_A           77 GNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDY----------------------  134 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCH----------------------
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCH----------------------
Confidence            5677889999999999999999999999998754      46899999999995 999                      


Q ss_pred             HHHHHHHHHHHhhccccc------hHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchh
Q 011861          120 AELALKDAEKLLNLQSNS------MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  174 (476)
Q Consensus       120 ~~~a~~~~~~al~l~p~~------~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~  174 (476)
                       ++|+..|++|+++.|..      ..++..+|.++..+|+|++|+..|+++++++|.+...
T Consensus       135 -~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~  194 (292)
T 1qqe_A          135 -AKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLS  194 (292)
T ss_dssp             -HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTT
T ss_pred             -HHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcc
Confidence             99999999999998864      5678999999999999999999999999999987653

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=98.78  E-value=1.4e-08  Score=103.90  Aligned_cols=113  Identities=11%  Similarity=0.060  Sum_probs=97.7

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhcc---------CCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCc
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNI---------KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPT  117 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~---------~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (476)
                      +..+...|..++..|+|++|++.|.+|+++         +|.....|.|+|.+|..+|++                    
T Consensus        51 a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~--------------------  110 (472)
T 4g1t_A           51 ATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRL--------------------  110 (472)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCH--------------------
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCCh--------------------
Confidence            455667899999999999999999999986         666778899999999999999                    


Q ss_pred             chHHHHHHHHHHHhhccc--------cchHHHHHHHHHHHhh--hhHHHHHHHHhcccccCCCCchhhHHHHHHH
Q 011861          118 THAELALKDAEKLLNLQS--------NSMKSHLLKANALILL--ERYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (476)
Q Consensus       118 ~~~~~a~~~~~~al~l~p--------~~~~~~~~~~~~~~~~--~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~  182 (476)
                         ++|+..+++++++.+        ..+..+..+|.++...  ++|++|+..|+++++++|+++.+...+..+.
T Consensus       111 ---~~A~~~~~ka~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~  182 (472)
T 4g1t_A          111 ---SDVQIYVDKVKHVCEKFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIAS  182 (472)
T ss_dssp             ---HHHHHHHHHHHHHHHHSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             ---HHHHHHHHHHHHHhHhcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence               999999999998854        4567888999888654  5899999999999999999998877665553

>1x4j_A Ring finger protein 38; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.78  E-value=3.1e-09  Score=80.80  Aligned_cols=49  Identities=24%  Similarity=0.598  Sum_probs=43.4

Q ss_pred             CCcccccccccccccCc---EEccCCCcccHhhHHHhhhcCCCCcccccccc
Q 011861          199 RTDDFDCTLCLKLLYEP---ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       199 ~~~~~~C~iC~~~~~~P---~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      ..+...|+||++.+..+   +.++|||.||..|+.+|+.....||+||..+.
T Consensus        20 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~   71 (75)
T 1x4j_A           20 QSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSG   71 (75)
T ss_dssp             SSSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHCSSCTTTCCCCC
T ss_pred             cCCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcCCcCcCcCCcCC
Confidence            44577899999999887   67899999999999999998889999999874

>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=98.78  E-value=8e-09  Score=107.18  Aligned_cols=106  Identities=14%  Similarity=0.123  Sum_probs=60.9

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      +..+...|..++..|++++|+..|.++++.+|+ +.++..+|.+|...|++                       ++|+..
T Consensus       243 ~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~-----------------------~~A~~~  298 (537)
T 3fp2_A          243 ALALCYTGIFHFLKNNLLDAQVLLQESINLHPT-PNSYIFLALTLADKENS-----------------------QEFFKF  298 (537)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-HHHHHHHHHHTCCSSCC-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHhcCH-----------------------HHHHHH
Confidence            444555555566666666666666666665555 55555555555555555                       555555


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhH
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQA  176 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~  176 (476)
                      ++++++++|+++.+++.+|.++...|+|++|+..|+++++++|.+..+..
T Consensus       299 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~  348 (537)
T 3fp2_A          299 FQKAVDLNPEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPENVYPYI  348 (537)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCSHHHH
T ss_pred             HHHHhccCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCHHHHH
Confidence            55555555555555555555555555555555555555555555554443

>2ep4_A Ring finger protein 24; zinc binding, ubiquitin, E3 enzyme, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.78  E-value=2.7e-09  Score=80.91  Aligned_cols=52  Identities=29%  Similarity=0.632  Sum_probs=44.1

Q ss_pred             CCCCCcccccccccccccCcEE---ccCCCcccHhhHHHhhhcCCCCcccccccc
Q 011861          196 TPERTDDFDCTLCLKLLYEPIT---TPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       196 ~~~~~~~~~C~iC~~~~~~P~~---~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      .........|+||++.+.++..   ++|||.||..||.+|+.....||.||..+.
T Consensus         9 ~~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~   63 (74)
T 2ep4_A            9 VKELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVL   63 (74)
T ss_dssp             CCCCCCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHCSBCTTTCCBCS
T ss_pred             cccCCCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcCCcCCCcCcccc
Confidence            3445567899999999987743   499999999999999998889999999874

>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=98.78  E-value=1.1e-08  Score=105.39  Aligned_cols=97  Identities=13%  Similarity=0.141  Sum_probs=84.8

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      +..+...|..+++.|+|++|+.+|++|++++|+++.+|+++|.+|..+|+|                       ++|+.+
T Consensus       317 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~-----------------------~~A~~~  373 (457)
T 1kt0_A          317 LAAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEF-----------------------ESAKGD  373 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCH-----------------------HHHHHH
Confidence            466778999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhhHHHHHH-HHhcccc
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARD-AILSGLQ  166 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~-~~~~~l~  166 (476)
                      |++|++++|++..++..++.++..++++++|.. .|.+.+.
T Consensus       374 ~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~f~  414 (457)
T 1kt0_A          374 FEKVLEVNPQNKAARLQISMCQKKAKEHNERDRRIYANMFK  414 (457)
T ss_dssp             HHHHHTTC----CHHHHHHHHHHHHHHHHHHHHHHHHHC--
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            999999999999999999999999999998875 4555443

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.78  E-value=2.3e-09  Score=106.02  Aligned_cols=103  Identities=12%  Similarity=0.037  Sum_probs=58.9

Q ss_pred             HHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHH
Q 011861           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (476)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (476)
                      .+...|..+++.|+|++|+.+|++|++++|++..+|+++|.+|..+|++                       ++|+.+++
T Consensus       232 ~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~-----------------------~~A~~~l~  288 (338)
T 2if4_A          232 CHLNIAACLIKLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQM-----------------------DSARDDFR  288 (338)
T ss_dssp             HHHHHHHHHHTTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCH-----------------------HHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH-----------------------HHHHHHHH
Confidence            5667899999999999999999999999999999999999999999999                       99999999


Q ss_pred             HHhhccccchHHHHHHHHHH-HhhhhHHHHHHHHhcccccCCCCchh
Q 011861          129 KLLNLQSNSMKSHLLKANAL-ILLERYDMARDAILSGLQVDPFSNPL  174 (476)
Q Consensus       129 ~al~l~p~~~~~~~~~~~~~-~~~~~~~~A~~~~~~~l~l~p~~~~~  174 (476)
                      ++++++|++..++..++.+. ...+.++.+...|.+++..+|.++..
T Consensus       289 ~al~l~p~~~~a~~~L~~l~~~~~~~~~~a~~~~~~~l~~~p~~~~~  335 (338)
T 2if4_A          289 KAQKYAPDDKAIRRELRALAEQEKALYQKQKEMYKGIFKGKDEGGAK  335 (338)
T ss_dssp             HTTC-------------------------------------------
T ss_pred             HHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCCC
Confidence            99999999999999999884 56778889999999999999987753

>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=98.77  E-value=1.6e-08  Score=91.29  Aligned_cols=98  Identities=12%  Similarity=0.020  Sum_probs=84.0

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      ...+...|..++..|+|++|+..|.++++++|+++.+++++|.+|..+|++                       ++|+..
T Consensus        88 ~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~-----------------------~~A~~~  144 (198)
T 2fbn_A           88 ISCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFL-----------------------EEAKEN  144 (198)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccH-----------------------HHHHHH
Confidence            367788999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhhHHHHH-HHHhccccc
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLERYDMAR-DAILSGLQV  167 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~-~~~~~~l~l  167 (476)
                      ++++++++|++..++..++.++..++++.++. ..|.+.+..
T Consensus       145 ~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~~  186 (198)
T 2fbn_A          145 LYKAASLNPNNLDIRNSYELCVNKLKEARKKDKLTFGGMFDK  186 (198)
T ss_dssp             HHHHHHHSTTCHHHHHHHHHHHHHHHHHHC------------
T ss_pred             HHHHHHHCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            99999999999999999999999999999887 455555543

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.76  E-value=1.5e-08  Score=88.33  Aligned_cols=91  Identities=12%  Similarity=-0.034  Sum_probs=80.6

Q ss_pred             hhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHH
Q 011861           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (476)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (476)
                      ....+..+...|..++..|+|++|+..|++|++++|+++.+|+++|.+|..+|++                       ++
T Consensus        59 ~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~-----------------------~~  115 (162)
T 3rkv_A           59 DRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKL-----------------------DE  115 (162)
T ss_dssp             HHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCH-----------------------HH
T ss_pred             HHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcH-----------------------HH
Confidence            3445678889999999999999999999999999999999999999999999999                       99


Q ss_pred             HHHHHHHHhhccccch-HHHHHHHHHHHhhhhHHH
Q 011861          123 ALKDAEKLLNLQSNSM-KSHLLKANALILLERYDM  156 (476)
Q Consensus       123 a~~~~~~al~l~p~~~-~~~~~~~~~~~~~~~~~~  156 (476)
                      |+.++.++++++|++. .....++.+....+++.+
T Consensus       116 A~~~~~~al~l~p~~~~~~~~~l~~~~~~~~~~~~  150 (162)
T 3rkv_A          116 AEEDLKLLLRNHPAAASVVAREMKIVTERRAEKKA  150 (162)
T ss_dssp             HHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999998 556677777766665543

>3hcs_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.20A {Homo sapiens}

Probab=98.76  E-value=4.1e-09  Score=93.65  Aligned_cols=67  Identities=30%  Similarity=0.729  Sum_probs=54.0

Q ss_pred             CCCCcccccccccccccCcEEccCCCcccHhhHHHhhhcC-CCCcccccccccCCCCcccchhHHHHHHH
Q 011861          197 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRG-NKCPLCRAVLFITPRTCAVSVTLNSIIQK  265 (476)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~~-~~Cp~cr~~~~~~~~~~~~n~~l~~~~~~  265 (476)
                      ....+.+.|+||++.+.+|+.++|||+||..|+.+|+..+ ..||.||..+..  ..+..+..+.+.+.+
T Consensus        13 ~~~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~--~~~~~~~~~~~~i~~   80 (170)
T 3hcs_A           13 PPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE--NQLFPDNFAKREILS   80 (170)
T ss_dssp             SCCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCG--GGCEECHHHHHHHHT
T ss_pred             cCCCCCCCCCCCChhhcCcEECCCCCHHHHHHHHHHHHhCCCCCCCCccCcch--hhhhhhHHHHHHHhh
Confidence            3566789999999999999999999999999999999754 489999998743  344555566666654

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=98.76  E-value=1.2e-08  Score=107.66  Aligned_cols=112  Identities=19%  Similarity=0.210  Sum_probs=99.7

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhcc------CCCC-cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcch
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNI------KPGD-PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH  119 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~------~p~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (476)
                      ...+...|..+++.|++++|+..|.++++.      +|++ ..+|..+|.+|.+.|++                      
T Consensus       475 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~----------------------  532 (597)
T 2xpi_A          475 PLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMY----------------------  532 (597)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCH----------------------
T ss_pred             hHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCH----------------------
Confidence            455677888888999999999999999888      5554 57889999999999999                      


Q ss_pred             HHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          120 AELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       120 ~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                       ++|++.++++++++|++..+|+.+|.+|...|++++|...|+++++++|++..+...+..+
T Consensus       533 -~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~  593 (597)
T 2xpi_A          533 -DAAIDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLHESLAISPNEIMASDLLKRA  593 (597)
T ss_dssp             -HHHHHHHHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHT
T ss_pred             -HHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCChHHHHHHHHH
Confidence             9999999999999999999999999999999999999999999999999998877766554

>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=98.75  E-value=6.2e-09  Score=100.03  Aligned_cols=108  Identities=8%  Similarity=0.046  Sum_probs=90.5

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      .+..+...|..++..|+|++|+..|.+|++++|+++.+++++|.+|..+|++                       ++|+.
T Consensus        37 ~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~-----------------------~~A~~   93 (281)
T 2c2l_A           37 VAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQLEMESY-----------------------DEAIA   93 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH-----------------------HHHHH
Confidence            4567888999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHH-----H--HHHH----------------------HHHHhhhhHHHHHHHHhcccccCCCCchhhH
Q 011861          126 DAEKLLNLQSNSMKS-----H--LLKA----------------------NALILLERYDMARDAILSGLQVDPFSNPLQA  176 (476)
Q Consensus       126 ~~~~al~l~p~~~~~-----~--~~~~----------------------~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~  176 (476)
                      .++++++++|++...     +  +.++                      ...+..|++++|++.++++++++|.+..+..
T Consensus        94 ~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~l~~~~~~~A~~~~~~al~~~p~~~~~~~  173 (281)
T 2c2l_A           94 NLQRAYSLAKEQRLNFGDDIPSALRIAKKKRWNSIEERRIHQESELHSYLTRLIAAERERELEECQRNHEGHEDDGHIRA  173 (281)
T ss_dssp             HHHHHHHHHHHTTCCCCSHHHHHHHHHHHHHHHHHHHTCCCCCCHHHHHHHHHHHHHHHHHHTTTSGGGTTTSCHHHHTH
T ss_pred             HHHHHHHhCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHhhhccccchhhhhh
Confidence            999999999976311     1  1111                      0112478999999999999999998765544

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=98.74  E-value=1.2e-08  Score=105.10  Aligned_cols=113  Identities=15%  Similarity=0.048  Sum_probs=102.6

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcc------cccchhHHHHH---HHhhhccCCCCCcccCCCCCCCCc
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPI------VLGNRSSAYIR---ISQFLKHRPPSASEYRPLNGLDPT  117 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~------~~~~~a~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~  117 (476)
                      ...+...|..++..|++++|+..|.++++.+|+++.      ++.++|.+|..   .|++                    
T Consensus       372 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~--------------------  431 (514)
T 2gw1_A          372 PEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENF--------------------  431 (514)
T ss_dssp             SHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHH--------------------
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCH--------------------
Confidence            345667888999999999999999999999998866      89999999999   9999                    


Q ss_pred             chHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHH
Q 011861          118 THAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (476)
Q Consensus       118 ~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~  182 (476)
                         ++|+..++++++++|++..+++.+|.++...|++++|+..|+++++++|++..+...+...+
T Consensus       432 ---~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~  493 (514)
T 2gw1_A          432 ---IEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFEESADLARTMEEKLQAITFAE  493 (514)
T ss_dssp             ---HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSHHHHHHHHHHHH
T ss_pred             ---HHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhccccHHHHHHHHHHH
Confidence               99999999999999999999999999999999999999999999999999988877654443

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.73  E-value=2e-08  Score=82.54  Aligned_cols=86  Identities=16%  Similarity=0.127  Sum_probs=81.7

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      ...+...|..++..|++++|+..|.++++.+|+++.++.++|.+|..+|++                       ++|+..
T Consensus        46 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------------~~A~~~  102 (131)
T 2vyi_A           46 AVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLALSSLNKH-----------------------VEAVAY  102 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHHHHHhCCH-----------------------HHHHHH
Confidence            566788899999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhhHH
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLERYD  155 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~~~  155 (476)
                      +.++++++|++..+++.+|.++..+|+++
T Consensus       103 ~~~~~~~~p~~~~~~~~l~~~~~~~~~~~  131 (131)
T 2vyi_A          103 YKKALELDPDNETYKSNLKIAELKLREAP  131 (131)
T ss_dssp             HHHHHHHSTTCHHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHhcCccchHHHHHHHHHHHHHhcCC
Confidence            99999999999999999999999998863

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.72  E-value=2.8e-08  Score=105.22  Aligned_cols=117  Identities=6%  Similarity=-0.095  Sum_probs=106.1

Q ss_pred             hhHHHHHHhhHHHHHhcc----------HHHHHHHHHHHhccCCCCcccccchhHHHHHHH--hhhccCCCCCcccCCCC
Q 011861           45 THVFDLVQKGNRAFRESN----------FEEAISNYSRANNIKPGDPIVLGNRSSAYIRIS--QFLKHRPPSASEYRPLN  112 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~----------~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~--~~~~~~~~~~~~~~~~~  112 (476)
                      +.+..|..+|..+...|+          |++|+..|+++++.+|+++.+|..|+.++.+++  +|               
T Consensus        61 ~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK~y~aW~hR~w~l~~l~~~~~---------------  125 (567)
T 1dce_A           61 DFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNW---------------  125 (567)
T ss_dssp             TCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCSSCCH---------------
T ss_pred             hhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccccH---------------
Confidence            345667778888888887          999999999999999999999999999999999  78               


Q ss_pred             CCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhh-hHHHHHHHHhcccccCCCCchhhHHHHHHHHh
Q 011861          113 GLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLE-RYDMARDAILSGLQVDPFSNPLQASLQNLERT  184 (476)
Q Consensus       113 ~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~-~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~  184 (476)
                              +++++.+++++++||++..+|..+|.++..+| .+++|++++.++++.+|.|..++.....+-..
T Consensus       126 --------~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~  190 (567)
T 1dce_A          126 --------ARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQ  190 (567)
T ss_dssp             --------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHH
T ss_pred             --------HHHHHHHHHHHhhccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHh
Confidence                    99999999999999999999999999999999 99999999999999999999988766555433

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=98.72  E-value=3.1e-08  Score=96.11  Aligned_cols=108  Identities=13%  Similarity=-0.065  Sum_probs=57.3

Q ss_pred             HHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcc-cccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHH
Q 011861           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPI-VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (476)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (476)
                      .+...|..+...|++++|+..|.++++++|.++. +|.++|.++.+.|++                       ++|...|
T Consensus       101 ~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~-----------------------~~A~~~~  157 (308)
T 2ond_A          101 LYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGI-----------------------KSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCH-----------------------HHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCH-----------------------HHHHHHH
Confidence            3444455555555555555555555555555554 555555555555555                       5555555


Q ss_pred             HHHhhccccchHHHHHHHHHHH-hhhhHHHHHHHHhcccccCCCCchhhHHHH
Q 011861          128 EKLLNLQSNSMKSHLLKANALI-LLERYDMARDAILSGLQVDPFSNPLQASLQ  179 (476)
Q Consensus       128 ~~al~l~p~~~~~~~~~~~~~~-~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~  179 (476)
                      ++|++.+|.+...|...|.... ..|++++|+..|+++++++|++..++....
T Consensus       158 ~~a~~~~p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~  210 (308)
T 2ond_A          158 KKAREDARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYI  210 (308)
T ss_dssp             HHHHTSTTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHhcCCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHH
Confidence            5555555555444443333322 245555555555555555555554444333

>1e4u_A Transcriptional repressor NOT4; gene regulation, transcriptional control; NMR {Homo sapiens} SCOP: g.44.1.1 PDB: 1ur6_B

Probab=98.72  E-value=1.2e-08  Score=77.99  Aligned_cols=50  Identities=30%  Similarity=0.705  Sum_probs=40.0

Q ss_pred             CCCccccccccccccc--CcEEcc--CCCcccHhhHHHhhhc-CCCCcccccccc
Q 011861          198 ERTDDFDCTLCLKLLY--EPITTP--CGHSFCRSCLFQSMDR-GNKCPLCRAVLF  247 (476)
Q Consensus       198 ~~~~~~~C~iC~~~~~--~P~~~~--cgh~fC~~Cl~~~~~~-~~~Cp~cr~~~~  247 (476)
                      ...+++.|+||++.+.  ++..++  |||+||+.|+.+++.. ...||.||+.+.
T Consensus         7 ~~~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~   61 (78)
T 1e4u_A            7 AKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYP   61 (78)
T ss_dssp             CCCCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCS
T ss_pred             ccccCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccC
Confidence            3457889999999874  445555  9999999999998753 457999999874

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=98.71  E-value=5.6e-08  Score=94.28  Aligned_cols=109  Identities=10%  Similarity=-0.009  Sum_probs=96.0

Q ss_pred             hHHHHHHhhHHHH-------HhccH-------HHHHHHHHHHhc-cCCCCcccccchhHHHHHHHhhhccCCCCCcccCC
Q 011861           46 HVFDLVQKGNRAF-------RESNF-------EEAISNYSRANN-IKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRP  110 (476)
Q Consensus        46 ~~~~~~~~g~~~~-------~~~~~-------~~Ai~~y~~al~-~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  110 (476)
                      .+..+...|..+.       ..|++       ++|+..|.+|++ ++|++..+|.++|.++...|++             
T Consensus        49 ~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~~~~-------------  115 (308)
T 2ond_A           49 HPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKY-------------  115 (308)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCH-------------
T ss_pred             CHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCH-------------
Confidence            3455566666655       34775       999999999999 7999999999999999999999             


Q ss_pred             CCCCCCcchHHHHHHHHHHHhhccccchH-HHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHH
Q 011861          111 LNGLDPTTHAELALKDAEKLLNLQSNSMK-SHLLKANALILLERYDMARDAILSGLQVDPFSNPLQAS  177 (476)
Q Consensus       111 ~~~~~~~~~~~~a~~~~~~al~l~p~~~~-~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~  177 (476)
                                ++|...|+++++++|+++. +|..+|..+...|++++|+..|.++++.+|.+..+...
T Consensus       116 ----------~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~  173 (308)
T 2ond_A          116 ----------EKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVT  173 (308)
T ss_dssp             ----------HHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTCCTHHHHH
T ss_pred             ----------HHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCCCHHHHHH
Confidence                      9999999999999999987 99999999999999999999999999999987665543

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.71  E-value=2.1e-08  Score=82.44  Aligned_cols=89  Identities=10%  Similarity=0.015  Sum_probs=78.6

Q ss_pred             hhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHH
Q 011861           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (476)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (476)
                      .......+...|..++..|+|++|+..|.++++++|+++.++.++|.+|..+|++                       ++
T Consensus        23 ~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~-----------------------~~   79 (117)
T 3k9i_A           23 GKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRY-----------------------EQ   79 (117)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH-----------------------HH
T ss_pred             CccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCH-----------------------HH
Confidence            3456788999999999999999999999999999999999999999999999999                       99


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhccc
Q 011861          123 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGL  165 (476)
Q Consensus       123 a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l  165 (476)
                      |+..++++++.+|+++...           .|..|+..+...+
T Consensus        80 A~~~~~~al~~~p~~~~~~-----------~~~~ai~~~~~~l  111 (117)
T 3k9i_A           80 GVELLLKIIAETSDDETIQ-----------SYKQAILFYADKL  111 (117)
T ss_dssp             HHHHHHHHHHHHCCCHHHH-----------HTHHHHHHHTTCT
T ss_pred             HHHHHHHHHHhCCCcHHHH-----------HHHHHHHHHHHHH
Confidence            9999999999999987653           4556666666554

>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=98.70  E-value=8.1e-09  Score=86.70  Aligned_cols=72  Identities=14%  Similarity=0.075  Sum_probs=67.2

Q ss_pred             cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHH
Q 011861           81 PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDA  160 (476)
Q Consensus        81 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~  160 (476)
                      +.++.++|.++++.|+|                       ++|+..|++|++++|+++.+|+.+|.+|..+|+|++|+.+
T Consensus         8 A~a~~~lG~~~~~~~~~-----------------------~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~   64 (127)
T 4gcn_A            8 AIAEKDLGNAAYKQKDF-----------------------EKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQF   64 (127)
T ss_dssp             HHHHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHH
Confidence            46678899999999999                       9999999999999999999999999999999999999999


Q ss_pred             HhcccccCCCCchhh
Q 011861          161 ILSGLQVDPFSNPLQ  175 (476)
Q Consensus       161 ~~~~l~l~p~~~~~~  175 (476)
                      ++++++++|.+....
T Consensus        65 ~~~al~~~~~~~~~~   79 (127)
T 4gcn_A           65 CEKAVEVGRETRADY   79 (127)
T ss_dssp             HHHHHHHHHHTTCCH
T ss_pred             HHHHHHhCcccchhh
Confidence            999999999876543

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.70  E-value=2.4e-08  Score=87.23  Aligned_cols=82  Identities=12%  Similarity=0.073  Sum_probs=76.7

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      ....+...|..++..|+|++|+..|.++++++|+++.+|+++|.+|..+|++                       ++|+.
T Consensus        44 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~-----------------------~~A~~  100 (164)
T 3sz7_A           44 NPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLARFDMADY-----------------------KGAKE  100 (164)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHccCH-----------------------HHHHH
Confidence            4567888999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHh
Q 011861          126 DAEKLLNLQSNSMKSHLLKANALIL  150 (476)
Q Consensus       126 ~~~~al~l~p~~~~~~~~~~~~~~~  150 (476)
                      .++++++++|++..+++.++.....
T Consensus       101 ~~~~al~~~p~~~~~~~~~~l~~~~  125 (164)
T 3sz7_A          101 AYEKGIEAEGNGGSDAMKRGLETTK  125 (164)
T ss_dssp             HHHHHHHHHSSSCCHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCchHHHHHHHHHHHH
Confidence            9999999999999988888877654

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=98.69  E-value=4.9e-08  Score=97.78  Aligned_cols=91  Identities=14%  Similarity=0.198  Sum_probs=85.6

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      +..+...|..+++.|+|++|+.+|++|++++|+++.+|+++|.+|..+|++                       ++|+..
T Consensus       273 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~-----------------------~eA~~~  329 (370)
T 1ihg_A          273 LSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEY-----------------------DQALAD  329 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCH-----------------------HHHHHH
Confidence            345667888899999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhhHHHHHHH
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDA  160 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~  160 (476)
                      +++|++++|++..++..++.++..++++++|...
T Consensus       330 l~~Al~l~P~~~~~~~~l~~~~~~~~~~~~a~k~  363 (370)
T 1ihg_A          330 LKKAQEIAPEDKAIQAELLKVKQKIKAQKDKEKA  363 (370)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999998764

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.69  E-value=3e-08  Score=105.00  Aligned_cols=118  Identities=10%  Similarity=-0.048  Sum_probs=107.8

Q ss_pred             hhhHHHHHHhhHHHHHhc--cHHHHHHHHHHHhccCCCCcccccchhHHHHHHH-hhhccCCCCCcccCCCCCCCCcchH
Q 011861           44 YTHVFDLVQKGNRAFRES--NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRIS-QFLKHRPPSASEYRPLNGLDPTTHA  120 (476)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~--~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~  120 (476)
                      ++....|..+|..+.+.+  +|++|+..|+++++++|.+..+|.+|+.+..++| .+                       
T Consensus       104 pK~y~aW~hR~w~l~~l~~~~~~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~~~-----------------------  160 (567)
T 1dce_A          104 PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAP-----------------------  160 (567)
T ss_dssp             TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCH-----------------------
T ss_pred             CCCHHHHHHHHHHHHHcccccHHHHHHHHHHHHhhccccccHHHHHHHHHHHcCCCh-----------------------
Confidence            455677888888888888  7799999999999999999999999999999999 78                       


Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHhh--------------hhHHHHHHHHhcccccCCCCchhhHHHHHHHHh
Q 011861          121 ELALKDAEKLLNLQSNSMKSHLLKANALILL--------------ERYDMARDAILSGLQVDPFSNPLQASLQNLERT  184 (476)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~--------------~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~  184 (476)
                      +++++.+.++++.+|.+..||+.+|.++..+              +.+++|++.+.+++.++|++..++..+.-+-..
T Consensus       161 ~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~~~~~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~  238 (567)
T 1dce_A          161 AEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGR  238 (567)
T ss_dssp             HHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHHHCCCCccHHHHHHHHHHhhcccccccccccccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhc
Confidence            9999999999999999999999999999875              889999999999999999999999887776443

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=98.68  E-value=9.4e-09  Score=96.53  Aligned_cols=101  Identities=14%  Similarity=0.021  Sum_probs=92.8

Q ss_pred             hhhHHHHHHhhHHHHHhccHHHHHHHHHHHhcc--------CCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCC
Q 011861           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNI--------KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLD  115 (476)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~--------~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (476)
                      ...+..+...|..++..|+|++|+..|.+++++        +|....++.++|.+|...|++                  
T Consensus        40 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~------------------  101 (283)
T 3edt_B           40 PDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKY------------------  101 (283)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCH------------------
T ss_pred             HHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccH------------------
Confidence            345667888999999999999999999999987        466678999999999999999                  


Q ss_pred             CcchHHHHHHHHHHHhhc--------cccchHHHHHHHHHHHhhhhHHHHHHHHhccccc
Q 011861          116 PTTHAELALKDAEKLLNL--------QSNSMKSHLLKANALILLERYDMARDAILSGLQV  167 (476)
Q Consensus       116 ~~~~~~~a~~~~~~al~l--------~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l  167 (476)
                           ++|+..+.+++++        +|....+++.+|.++...|++++|+..|++++++
T Consensus       102 -----~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  156 (283)
T 3edt_B          102 -----KEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEI  156 (283)
T ss_dssp             -----HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             -----HHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence                 9999999999998        5788899999999999999999999999999988

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=98.68  E-value=4.9e-08  Score=102.85  Aligned_cols=111  Identities=12%  Similarity=0.071  Sum_probs=91.8

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      ...+...|..+++.|++++|+..|.++++++|++..+|..+|.+|.+.|++                       ++|++.
T Consensus       373 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-----------------------~~A~~~  429 (597)
T 2xpi_A          373 AVTWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEH-----------------------DQAISA  429 (597)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH-----------------------HHHHHH
Confidence            455666788888888888888888888888888888888888888888888                       888888


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHH
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~  180 (476)
                      ++++++.+|++..+++.+|.+|...|++++|+..|+++++++|.+..+...+..
T Consensus       430 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~  483 (597)
T 2xpi_A          430 YTTAARLFQGTHLPYLFLGMQHMQLGNILLANEYLQSSYALFQYDPLLLNELGV  483 (597)
T ss_dssp             HHHHHHTTTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCHHHHHHHHH
T ss_pred             HHHHHHhCccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHH
Confidence            888888888888888888888888888888888888888888887766554433

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.68  E-value=3.6e-08  Score=81.59  Aligned_cols=85  Identities=11%  Similarity=0.066  Sum_probs=80.1

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      ....+...|..++..|++++|+..|.++++.+|+++.++.++|.+|..+|++                       ++|+.
T Consensus        49 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~-----------------------~~A~~  105 (133)
T 2lni_A           49 DAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAALEAMKDY-----------------------TKAMD  105 (133)
T ss_dssp             CHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             cHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHHhhH-----------------------HHHHH
Confidence            3567888999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHhhhh
Q 011861          126 DAEKLLNLQSNSMKSHLLKANALILLER  153 (476)
Q Consensus       126 ~~~~al~l~p~~~~~~~~~~~~~~~~~~  153 (476)
                      .++++++++|++..+++.+|.++...|+
T Consensus       106 ~~~~~~~~~p~~~~~~~~l~~~~~~~~~  133 (133)
T 2lni_A          106 VYQKALDLDSSCKEAADGYQRCMMAQYN  133 (133)
T ss_dssp             HHHHHHHHCGGGTHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHhCCCchHHHHHHHHHHHHhcC
Confidence            9999999999999999999999987763

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.67  E-value=1.9e-08  Score=80.88  Aligned_cols=69  Identities=19%  Similarity=0.155  Sum_probs=66.1

Q ss_pred             CcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHH
Q 011861           80 DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARD  159 (476)
Q Consensus        80 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~  159 (476)
                      ++..+.++|.+++..|+|                       ++|+..++++++++|+++.+++.+|.++..+|+|++|+.
T Consensus         3 ~~~~~~~~g~~~~~~~~~-----------------------~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~   59 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLY-----------------------REAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQ   59 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCH-----------------------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHH
Confidence            346788999999999999                       999999999999999999999999999999999999999


Q ss_pred             HHhcccccCCCC
Q 011861          160 AILSGLQVDPFS  171 (476)
Q Consensus       160 ~~~~~l~l~p~~  171 (476)
                      .|+++++++|++
T Consensus        60 ~~~~al~~~p~~   71 (111)
T 2l6j_A           60 MCQQGLRYTSTA   71 (111)
T ss_dssp             HHHHHHTSCSST
T ss_pred             HHHHHHHhCCCc
Confidence            999999999998

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.67  E-value=1.4e-08  Score=78.58  Aligned_cols=81  Identities=22%  Similarity=0.266  Sum_probs=74.5

Q ss_pred             CCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHH
Q 011861           79 GDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMAR  158 (476)
Q Consensus        79 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~  158 (476)
                      .++.++.++|.++...|++                       ++|+..++++++++|++..+++.+|.++...|++++|+
T Consensus         7 ~~~~~~~~la~~~~~~~~~-----------------------~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~   63 (91)
T 1na3_A            7 NSAEAWYNLGNAYYKQGDY-----------------------DEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAI   63 (91)
T ss_dssp             HHHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             ccHHHHHHHHHHHHHccCH-----------------------HHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHH
Confidence            3567899999999999999                       99999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCCCchhhHHHHHHH
Q 011861          159 DAILSGLQVDPFSNPLQASLQNLE  182 (476)
Q Consensus       159 ~~~~~~l~l~p~~~~~~~~~~~~~  182 (476)
                      ..|+++++++|++..+...+..+.
T Consensus        64 ~~~~~a~~~~p~~~~~~~~l~~~~   87 (91)
T 1na3_A           64 EYYQKALELDPNNAEAKQNLGNAK   87 (91)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCHHHHHHHHHHH
Confidence            999999999999988776665553

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.67  E-value=2.3e-08  Score=79.99  Aligned_cols=87  Identities=21%  Similarity=0.154  Sum_probs=78.6

Q ss_pred             cCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHH
Q 011861           76 IKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYD  155 (476)
Q Consensus        76 ~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~  155 (476)
                      ++|+++.++..+|.++...|++                       ++|+..++++++++|++..+++.+|.++...|+|+
T Consensus         1 l~p~~~~~~~~~~~~~~~~~~~-----------------------~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~   57 (112)
T 2kck_A            1 MVDQNPEEYYLEGVLQYDAGNY-----------------------TESIDLFEKAIQLDPEESKYWLMKGKALYNLERYE   57 (112)
T ss_dssp             CCCSSTTGGGGHHHHHHSSCCH-----------------------HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHH
T ss_pred             CCCCcHHHHHHHHHHHHHhhhH-----------------------HHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCHH
Confidence            4789999999999999999999                       99999999999999999999999999999999999


Q ss_pred             HHHHHHhcccccCCC--CchhhHHHHHHHHhh
Q 011861          156 MARDAILSGLQVDPF--SNPLQASLQNLERTT  185 (476)
Q Consensus       156 ~A~~~~~~~l~l~p~--~~~~~~~~~~~~~~~  185 (476)
                      +|+..|+++++++|.  +..+...+..+...+
T Consensus        58 ~A~~~~~~a~~~~~~~~~~~~~~~l~~~~~~~   89 (112)
T 2kck_A           58 EAVDCYNYVINVIEDEYNKDVWAAKADALRYI   89 (112)
T ss_dssp             HHHHHHHHHHHTSCCTTCHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhCcccchHHHHHHHHHHHHHH
Confidence            999999999999999  777666555554333

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.67  E-value=5e-08  Score=78.04  Aligned_cols=85  Identities=11%  Similarity=0.078  Sum_probs=72.5

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      ..+..+...|..++..|+|++|+..|.++++++|+++.+|.++|.+|..+|++                       ++|+
T Consensus         5 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~-----------------------~~A~   61 (100)
T 3ma5_A            5 EDPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRT-----------------------DDAI   61 (100)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCH-----------------------HHHH
T ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCH-----------------------HHHH
Confidence            45678899999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchH--HHHHHHHHHHhhh
Q 011861          125 KDAEKLLNLQSNSMK--SHLLKANALILLE  152 (476)
Q Consensus       125 ~~~~~al~l~p~~~~--~~~~~~~~~~~~~  152 (476)
                      ..+++++++.|++..  ....+...+...+
T Consensus        62 ~~~~~al~l~~~~~~~~~~~~l~~~l~~~~   91 (100)
T 3ma5_A           62 DTYAQGIEVAREEGTQKDLSELQDAKLKAE   91 (100)
T ss_dssp             HHHHHHHHHHHHHSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhhcCCchhHHHHHHHHHHHcc
Confidence            999999999886543  3334444444443

>1v87_A Deltex protein 2; ring-H2 domain, zinc-binding domain, notch signaling, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: g.44.1.1

Probab=98.66  E-value=1.2e-08  Score=84.28  Aligned_cols=47  Identities=28%  Similarity=0.634  Sum_probs=39.6

Q ss_pred             cccccccccccccCcE------------------EccCCCcccHhhHHHhhh-----cCCCCcccccccc
Q 011861          201 DDFDCTLCLKLLYEPI------------------TTPCGHSFCRSCLFQSMD-----RGNKCPLCRAVLF  247 (476)
Q Consensus       201 ~~~~C~iC~~~~~~P~------------------~~~cgh~fC~~Cl~~~~~-----~~~~Cp~cr~~~~  247 (476)
                      .+..|+||++.+..|.                  .++|||.||..||..|+.     ....||+||..+.
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~   93 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYG   93 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSS
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccC
Confidence            3568999999997764                  679999999999999994     4567999998874

>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=98.65  E-value=4.5e-08  Score=81.19  Aligned_cols=81  Identities=16%  Similarity=0.141  Sum_probs=75.3

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      ....+...|..++..|+|++|+..|.++++++|+++.+|.++|.+|..+|++                       ++|+.
T Consensus        37 ~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~-----------------------~~A~~   93 (126)
T 3upv_A           37 DARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEY-----------------------ASALE   93 (126)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             ChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhCH-----------------------HHHHH
Confidence            3577888999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhcc------ccchHHHHHHHHHHH
Q 011861          126 DAEKLLNLQ------SNSMKSHLLKANALI  149 (476)
Q Consensus       126 ~~~~al~l~------p~~~~~~~~~~~~~~  149 (476)
                      .++++++++      |++..++..++.+..
T Consensus        94 ~~~~al~~~p~~~~~p~~~~~~~~l~~~~~  123 (126)
T 3upv_A           94 TLDAARTKDAEVNNGSSAREIDQLYYKASQ  123 (126)
T ss_dssp             HHHHHHHHHHHHHTTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCcccCCchhHHHHHHHHHHHHH
Confidence            999999999      888888888777654

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=98.65  E-value=4.3e-08  Score=85.23  Aligned_cols=72  Identities=22%  Similarity=0.291  Sum_probs=64.9

Q ss_pred             hhHHHHHHhhHHHHHhccH----------HHHHHHHHHHhccCCCCcccccchhHHHHHHH-----------hhhccCCC
Q 011861           45 THVFDLVQKGNRAFRESNF----------EEAISNYSRANNIKPGDPIVLGNRSSAYIRIS-----------QFLKHRPP  103 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~----------~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~-----------~~~~~~~~  103 (476)
                      ..+..+...|..+...+++          ++||..|.+||+++|+++.+|+++|.+|..+|           ++      
T Consensus        34 ~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~lg~l~P~~~~a~g~~------  107 (158)
T 1zu2_A           34 LDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNF------  107 (158)
T ss_dssp             TCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHH------
T ss_pred             CCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhcccCcchhhhhccH------
Confidence            4567788889988888775          59999999999999999999999999999986           78      


Q ss_pred             CCcccCCCCCCCCcchHHHHHHHHHHHhhccccchH
Q 011861          104 SASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMK  139 (476)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~  139 (476)
                                       ++|++.|++|++++|++..
T Consensus       108 -----------------~eA~~~~~kAl~l~P~~~~  126 (158)
T 1zu2_A          108 -----------------DLATQFFQQAVDEQPDNTH  126 (158)
T ss_dssp             -----------------HHHHHHHHHHHHHCTTCHH
T ss_pred             -----------------HHHHHHHHHHHHhCCCCHH
Confidence                             9999999999999999853

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=98.64  E-value=6.3e-08  Score=76.77  Aligned_cols=82  Identities=13%  Similarity=0.077  Sum_probs=71.9

Q ss_pred             CCCCcccccchhHHHHHHHh---hhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhh
Q 011861           77 KPGDPIVLGNRSSAYIRISQ---FLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLER  153 (476)
Q Consensus        77 ~p~~~~~~~~~a~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~  153 (476)
                      +|+++.++..+|.+++..++   .                       ++|...+++|+++||+++.+++.+|..++..|+
T Consensus         2 ~p~~~~~~~~~a~al~~~~~~~~~-----------------------~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~   58 (93)
T 3bee_A            2 NAVTATQLAAKATTLYYLHKQAMT-----------------------DEVSLLLEQALQLEPYNEAALSLIANDHFISFR   58 (93)
T ss_dssp             CCCCHHHHHHHHHHHHHTTTTCCC-----------------------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             CCCCHHHHHHHHHHHHHhcCCCCC-----------------------HHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCC
Confidence            68999999999999976665   4                       999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          154 YDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       154 ~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      |++|+..|++.++.+|.++........+
T Consensus        59 y~~Ai~~w~~~l~~~p~~~~~~~i~~~I   86 (93)
T 3bee_A           59 FQEAIDTWVLLLDSNDPNLDRVTIIESI   86 (93)
T ss_dssp             HHHHHHHHHHHHTCCCTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhCCCCccHHHHHHHH
Confidence            9999999999999999955544333333

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=98.64  E-value=3.1e-08  Score=99.19  Aligned_cols=102  Identities=18%  Similarity=0.236  Sum_probs=95.9

Q ss_pred             hhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc----ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcch
Q 011861           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH  119 (476)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (476)
                      ...+..+...|..++..|+|++|+..|.++++++|+++    .++.++|.+|..+|++                      
T Consensus        45 ~~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~lg~~~~~~g~~----------------------  102 (411)
T 4a1s_A           45 SSMCLELALEGERLCNAGDCRAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGDY----------------------  102 (411)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHTCH----------------------
T ss_pred             hHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHCCCH----------------------
Confidence            56678889999999999999999999999999999987    5899999999999999                      


Q ss_pred             HHHHHHHHHHHhhc------cccchHHHHHHHHHHHhhhhHHHHHHHHhcccccC
Q 011861          120 AELALKDAEKLLNL------QSNSMKSHLLKANALILLERYDMARDAILSGLQVD  168 (476)
Q Consensus       120 ~~~a~~~~~~al~l------~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~  168 (476)
                       ++|+..+++++++      +|....+++.+|.++...|++++|+..|.+++++.
T Consensus       103 -~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  156 (411)
T 4a1s_A          103 -NKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLA  156 (411)
T ss_dssp             -HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             -HHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence             9999999999998      68888999999999999999999999999999873

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=98.64  E-value=3.7e-08  Score=84.79  Aligned_cols=104  Identities=12%  Similarity=0.071  Sum_probs=94.1

Q ss_pred             ccHHHHHHHHHHHhccCCCCcccccchhHHHHHHH---hhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhcc-c-
Q 011861           61 SNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRIS---QFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQ-S-  135 (476)
Q Consensus        61 ~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~-p-  135 (476)
                      +....+...|.+++..+|.+..+.++.|.++.+..   ++                       ++++..++..++.+ | 
T Consensus        12 ~~l~~~~~~y~~e~~~~~~~~~~~F~ya~~Lv~S~~~~~~-----------------------~~gI~lLe~ll~~~~p~   68 (152)
T 1pc2_A           12 EDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRSKYNDDI-----------------------RKGIVLLEELLPKGSKE   68 (152)
T ss_dssp             HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHTCSSHHHH-----------------------HHHHHHHHHHHHHSCHH
T ss_pred             HHHHHHHHHHHHHHccCCCcHHHHHHHHHHHHcCCCHHHH-----------------------HHHHHHHHHHHhcCCcc
Confidence            44567788888888989999999999999999966   66                       89999999999999 7 


Q ss_pred             cchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhh
Q 011861          136 NSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  187 (476)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~  187 (476)
                      ++..++|++|.+++.+|+|++|+.+++++++++|+|..+....+.+++.+..
T Consensus        69 ~~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~ieP~n~QA~~Lk~~ie~~~~k  120 (152)
T 1pc2_A           69 EQRDYVFYLAVGNYRLKEYEKALKYVRGLLQTEPQNNQAKELERLIDKAMKK  120 (152)
T ss_dssp             HHHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHH
Confidence            6789999999999999999999999999999999999999988888887755

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus}

Probab=98.63  E-value=9.8e-09  Score=87.02  Aligned_cols=48  Identities=35%  Similarity=0.897  Sum_probs=44.2

Q ss_pred             CcccccccccccccCc-------EEccCCCcccHhhHHHhhhcCCCCcccccccc
Q 011861          200 TDDFDCTLCLKLLYEP-------ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       200 ~~~~~C~iC~~~~~~P-------~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      .+.+.|+||++.+.+|       +.++|||+||..||.+|+.....||.||+.+.
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   59 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN   59 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCT
T ss_pred             CCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCc
Confidence            3578999999999999       89999999999999999998889999999874

>4ic3_A E3 ubiquitin-protein ligase XIAP; ring domain, zinc-finger, E3 ligase; 1.78A {Homo sapiens} PDB: 4ic2_A

Probab=98.62  E-value=1.1e-08  Score=77.36  Aligned_cols=43  Identities=30%  Similarity=0.839  Sum_probs=39.0

Q ss_pred             cccccccccccccCcEEccCCCc-ccHhhHHHhhhcCCCCcccccccc
Q 011861          201 DDFDCTLCLKLLYEPITTPCGHS-FCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       201 ~~~~C~iC~~~~~~P~~~~cgh~-fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      ++..|++|++.+.+|+.++|||. ||..|+..|    ..||.||..+.
T Consensus        23 ~~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~   66 (74)
T 4ic3_A           23 EEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAV----DKCPMCYTVIT   66 (74)
T ss_dssp             HHTBCTTTSSSBCCEEEETTCCBCCCHHHHTTC----SBCTTTCCBCS
T ss_pred             cCCCCCCCCCCCCCEEEcCCCChhHHHHhhhcC----ccCCCcCcCcc
Confidence            36789999999999999999999 999999887    67999999874

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=98.61  E-value=5.3e-08  Score=93.47  Aligned_cols=104  Identities=20%  Similarity=0.249  Sum_probs=94.7

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc----ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (476)
                      ....+...|..++..|+|++|+..|.++++.+|+++    .++..+|.+|...|++                       +
T Consensus         4 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~-----------------------~   60 (338)
T 3ro2_A            4 SCLELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDY-----------------------A   60 (338)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCH-----------------------H
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCH-----------------------H
Confidence            356788899999999999999999999999999984    7888999999999999                       9


Q ss_pred             HHHHHHHHHhhc------cccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCc
Q 011861          122 LALKDAEKLLNL------QSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (476)
Q Consensus       122 ~a~~~~~~al~l------~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~  172 (476)
                      +|+..+++++++      .|....+++.+|.++...|++++|+..+.+++++.+...
T Consensus        61 ~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~  117 (338)
T 3ro2_A           61 KALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELN  117 (338)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhc
Confidence            999999999988      566788999999999999999999999999998876543

>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=98.61  E-value=4.5e-08  Score=95.03  Aligned_cols=104  Identities=14%  Similarity=0.169  Sum_probs=85.6

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC------cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA  120 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (476)
                      +..+...|..+.. |+|++|+.+|.+|+++.|..      ..++.++|.+|..+|+|                       
T Consensus       116 a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~-----------------------  171 (307)
T 2ifu_A          116 AMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKF-----------------------  171 (307)
T ss_dssp             HHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH-----------------------
T ss_pred             HHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCH-----------------------
Confidence            4566777888888 99999999999999887654      47788899999999999                       


Q ss_pred             HHHHHHHHHHhhccccc------hHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhh
Q 011861          121 ELALKDAEKLLNLQSNS------MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  175 (476)
Q Consensus       121 ~~a~~~~~~al~l~p~~------~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~  175 (476)
                      ++|+..+++++++.|++      ..+++.+|.++..+|++++|+..|++++ ++|......
T Consensus       172 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al-~~p~~~~~~  231 (307)
T 2ifu_A          172 DEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY-SIPGFSGSE  231 (307)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT-TSTTSTTSH
T ss_pred             HHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh-CCCCCCCCH
Confidence            99999999999987654      3477788888888899999999999999 888766543

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=98.61  E-value=5e-08  Score=91.49  Aligned_cols=101  Identities=17%  Similarity=0.042  Sum_probs=93.4

Q ss_pred             hhhHHHHHHhhHHHHHhccHHHHHHHHHHHhcc--------CCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCC
Q 011861           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNI--------KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLD  115 (476)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~--------~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (476)
                      ...+..+...|..++..|+|++|+..|.+++++        +|....++.++|.+|..+|++                  
T Consensus        82 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~------------------  143 (283)
T 3edt_B           82 PAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKA------------------  143 (283)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCH------------------
T ss_pred             hHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCH------------------
Confidence            344667788999999999999999999999998        577789999999999999999                  


Q ss_pred             CcchHHHHHHHHHHHhhc--------cccchHHHHHHHHHHHhhhhHHHHHHHHhccccc
Q 011861          116 PTTHAELALKDAEKLLNL--------QSNSMKSHLLKANALILLERYDMARDAILSGLQV  167 (476)
Q Consensus       116 ~~~~~~~a~~~~~~al~l--------~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l  167 (476)
                           ++|+..+++++++        +|....+++.+|.++...|++++|+..+++++++
T Consensus       144 -----~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~  198 (283)
T 3edt_B          144 -----EEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTR  198 (283)
T ss_dssp             -----HHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             -----HHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence                 9999999999999        7888899999999999999999999999999986

>2ecl_A Ring-box protein 2; RNF7, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.60  E-value=2.5e-08  Score=76.94  Aligned_cols=47  Identities=26%  Similarity=0.661  Sum_probs=40.1

Q ss_pred             cccccccccccccC--------------cEEc-cCCCcccHhhHHHhhhcCCCCcccccccc
Q 011861          201 DDFDCTLCLKLLYE--------------PITT-PCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       201 ~~~~C~iC~~~~~~--------------P~~~-~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      ++..|+||++.+.+              ++.+ +|||.||..||.+|+.....||+||+.+.
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   75 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWV   75 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCC
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcc
Confidence            46679999998876              4454 59999999999999998889999999863

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=98.59  E-value=8.2e-08  Score=75.93  Aligned_cols=69  Identities=23%  Similarity=0.228  Sum_probs=65.9

Q ss_pred             ccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchH-HHHHHHHHHHhhhhHHHHHHHHh
Q 011861           84 LGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMK-SHLLKANALILLERYDMARDAIL  162 (476)
Q Consensus        84 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~-~~~~~~~~~~~~~~~~~A~~~~~  162 (476)
                      .+++|.++...|++                       ++|+..++++++++|++.. +++.+|.++..+|++++|+..|+
T Consensus         3 ~~~~a~~~~~~~~~-----------------------~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~   59 (99)
T 2kc7_A            3 QLKTIKELINQGDI-----------------------ENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQ   59 (99)
T ss_dssp             THHHHHHHHHHTCH-----------------------HHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCH-----------------------HHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            46789999999999                       9999999999999999999 99999999999999999999999


Q ss_pred             cccccCCCCchhh
Q 011861          163 SGLQVDPFSNPLQ  175 (476)
Q Consensus       163 ~~l~l~p~~~~~~  175 (476)
                      ++++++|++..+.
T Consensus        60 ~al~~~p~~~~~~   72 (99)
T 2kc7_A           60 SAIELNPDSPALQ   72 (99)
T ss_dssp             HHHHHCTTSTHHH
T ss_pred             HHHhcCCCcHHHH
Confidence            9999999999876

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.59  E-value=8.8e-08  Score=93.18  Aligned_cols=118  Identities=8%  Similarity=-0.077  Sum_probs=104.9

Q ss_pred             hHHHHHHhhHHH----HHh---ccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcc
Q 011861           46 HVFDLVQKGNRA----FRE---SNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT  118 (476)
Q Consensus        46 ~~~~~~~~g~~~----~~~---~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (476)
                      ....+..++..+    ...   +++++++..++++++.+|.+..+|..|+.+..+++++                     
T Consensus       102 ~y~aW~~R~~iL~~~~~~l~~~~~~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~---------------------  160 (306)
T 3dra_A          102 NYQIWNYRQLIIGQIMELNNNDFDPYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLH---------------------  160 (306)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTTCCCTHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCT---------------------
T ss_pred             cHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccc---------------------
Confidence            344555566666    444   7999999999999999999999999999999999998                     


Q ss_pred             hHH--HHHHHHHHHhhccccchHHHHHHHHHHHhhhh------HHHHHHHHhcccccCCCCchhhHHHHHHHHhhh
Q 011861          119 HAE--LALKDAEKLLNLQSNSMKSHLLKANALILLER------YDMARDAILSGLQVDPFSNPLQASLQNLERTTA  186 (476)
Q Consensus       119 ~~~--~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~------~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~  186 (476)
                        +  ++++.+.++++.||.|..||..++.++..+++      ++++++.+.+++..+|.|..++..+.-+-..++
T Consensus       161 --~~~~EL~~~~~~i~~d~~N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~p~n~SaW~y~~~ll~~~~  234 (306)
T 3dra_A          161 --NDAKELSFVDKVIDTDLKNNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKCPQNPSTWNYLLGIHERFD  234 (306)
T ss_dssp             --TCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTT
T ss_pred             --ChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcC
Confidence              7  99999999999999999999999999999888      999999999999999999999988877755544

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.59  E-value=6.4e-08  Score=80.43  Aligned_cols=81  Identities=11%  Similarity=0.006  Sum_probs=73.5

Q ss_pred             ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHH
Q 011861           82 IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAI  161 (476)
Q Consensus        82 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~  161 (476)
                      ..++.+|.++.+.|++                       ++|+..++++++++|+++.+|+.+|.++...|++++|+..|
T Consensus        18 ~~~~~~g~~~~~~g~~-----------------------~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~   74 (121)
T 1hxi_A           18 ENPMEEGLSMLKLANL-----------------------AEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIAL   74 (121)
T ss_dssp             SCHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHcCCH-----------------------HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            4577899999999999                       99999999999999999999999999999999999999999


Q ss_pred             hcccccCCCCchhhHHHHHHHHhh
Q 011861          162 LSGLQVDPFSNPLQASLQNLERTT  185 (476)
Q Consensus       162 ~~~l~l~p~~~~~~~~~~~~~~~~  185 (476)
                      +++++++|++..+...+..+-...
T Consensus        75 ~~al~l~P~~~~~~~~la~~~~~~   98 (121)
T 1hxi_A           75 NHARMLDPKDIAVHAALAVSHTNE   98 (121)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCCHHHHHHHHHHHHHc
Confidence            999999999998877665554433

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.57  E-value=4.5e-08  Score=83.44  Aligned_cols=103  Identities=25%  Similarity=0.233  Sum_probs=91.5

Q ss_pred             hhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc------ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCc
Q 011861           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP------IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPT  117 (476)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (476)
                      ...+..+...|..++..|+|++|+..|.+++++.+...      .++.++|.+|...|++                    
T Consensus         6 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~--------------------   65 (164)
T 3ro3_A            6 AAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEF--------------------   65 (164)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCH--------------------
T ss_pred             HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCH--------------------
Confidence            45577889999999999999999999999999876543      4899999999999999                    


Q ss_pred             chHHHHHHHHHHHhhccccc------hHHHHHHHHHHHhhhhHHHHHHHHhcccccCC
Q 011861          118 THAELALKDAEKLLNLQSNS------MKSHLLKANALILLERYDMARDAILSGLQVDP  169 (476)
Q Consensus       118 ~~~~~a~~~~~~al~l~p~~------~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p  169 (476)
                         ++|+..+++++++.+..      ..+++.+|.++...|++++|+..+++++++.+
T Consensus        66 ---~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~  120 (164)
T 3ro3_A           66 ---ETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQ  120 (164)
T ss_dssp             ---HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             ---HHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence               99999999999987653      66899999999999999999999999987743

>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=98.57  E-value=1.8e-07  Score=91.78  Aligned_cols=115  Identities=10%  Similarity=-0.041  Sum_probs=103.9

Q ss_pred             hhhHHHHHHhhHHHHHhc--cHHHHHHHHHHHhccCCCCcccccchhHHHHHHHh-hhccCCCCCcccCCCCCCCCcchH
Q 011861           44 YTHVFDLVQKGNRAFRES--NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQ-FLKHRPPSASEYRPLNGLDPTTHA  120 (476)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~--~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~  120 (476)
                      ++....+..++..+...+  ++++++.+++++++.+|.|..+|..|+.+...+|. +                       
T Consensus       105 PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~-----------------------  161 (331)
T 3dss_A          105 PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAP-----------------------  161 (331)
T ss_dssp             TTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCH-----------------------
T ss_pred             CCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCH-----------------------
Confidence            455677777888887777  59999999999999999999999999999999888 6                       


Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHhh--------------hhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          121 ELALKDAEKLLNLQSNSMKSHLLKANALILL--------------ERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~--------------~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      +++++.+.++++.+|.|..||..++.++..+              +.++++++.+.+++..+|+|..++..+.-+
T Consensus       162 ~eel~~~~~~I~~~p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~l  236 (331)
T 3dss_A          162 AEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWL  236 (331)
T ss_dssp             HHHHHHHHHHHHHCSCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            8999999999999999999999999999887              789999999999999999999999765444

>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=98.56  E-value=6.9e-08  Score=80.85  Aligned_cols=85  Identities=11%  Similarity=0.004  Sum_probs=76.6

Q ss_pred             ccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhH
Q 011861           75 NIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERY  154 (476)
Q Consensus        75 ~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~  154 (476)
                      ..+|.++..+..+|.+++..|+|                       ++|+..+.++++++|+++.+++.+|.++..+|+|
T Consensus         3 ~~~~~~~~~~~~~g~~~~~~~~~-----------------------~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~   59 (137)
T 3q49_B            3 HMKSPSAQELKEQGNRLFVGRKY-----------------------PEAAACYGRAITRNPLVAVYYTNRALCYLKMQQP   59 (137)
T ss_dssp             ---CCCHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             CCccccHHHHHHHHHHHHHhCcH-----------------------HHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCH
Confidence            45678899999999999999999                       9999999999999999999999999999999999


Q ss_pred             HHHHHHHhcccccCCCCchhhHHHHHHH
Q 011861          155 DMARDAILSGLQVDPFSNPLQASLQNLE  182 (476)
Q Consensus       155 ~~A~~~~~~~l~l~p~~~~~~~~~~~~~  182 (476)
                      ++|+..|+++++++|++..+...+..+-
T Consensus        60 ~~A~~~~~~al~~~p~~~~~~~~l~~~~   87 (137)
T 3q49_B           60 EQALADCRRALELDGQSVKAHFFLGQCQ   87 (137)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCchhHHHHHHHHHHH
Confidence            9999999999999999888776665553

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.56  E-value=5.3e-08  Score=92.95  Aligned_cols=103  Identities=15%  Similarity=0.117  Sum_probs=92.5

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhcc--------CCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCC
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNI--------KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDP  116 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~--------~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  116 (476)
                      ..+..+...|..++..|++++|+..|.+++++        .|....++.++|.+|..+|++                   
T Consensus       151 ~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~-------------------  211 (311)
T 3nf1_A          151 DVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKF-------------------  211 (311)
T ss_dssp             HHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCH-------------------
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCH-------------------
Confidence            34566778899999999999999999999998        777788999999999999999                   


Q ss_pred             cchHHHHHHHHHHHhhc-------------------------------------------------cccchHHHHHHHHH
Q 011861          117 TTHAELALKDAEKLLNL-------------------------------------------------QSNSMKSHLLKANA  147 (476)
Q Consensus       117 ~~~~~~a~~~~~~al~l-------------------------------------------------~p~~~~~~~~~~~~  147 (476)
                          ++|+..+++++++                                                 +|....+++.+|.+
T Consensus       212 ----~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~  287 (311)
T 3nf1_A          212 ----KQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGAL  287 (311)
T ss_dssp             ----HHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHH
T ss_pred             ----HHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHH
Confidence                9999999999985                                                 46677899999999


Q ss_pred             HHhhhhHHHHHHHHhcccccCCC
Q 011861          148 LILLERYDMARDAILSGLQVDPF  170 (476)
Q Consensus       148 ~~~~~~~~~A~~~~~~~l~l~p~  170 (476)
                      |...|++++|...|++++++.|.
T Consensus       288 ~~~~g~~~~A~~~~~~al~l~~~  310 (311)
T 3nf1_A          288 YRRQGKFEAAETLEEAAMRSRKQ  310 (311)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHC-
T ss_pred             HHHCCCHHHHHHHHHHHHHHhhc
Confidence            99999999999999999988764

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=98.55  E-value=1.1e-07  Score=97.09  Aligned_cols=124  Identities=11%  Similarity=-0.010  Sum_probs=97.7

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      ...+...|..+...|++++|+..|.+|++.+|+++.++.++|.+|...+........    .............+.|+..
T Consensus       247 ~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~y~~~~~~~~~~~~----~~~~~~~~~~~~~~~A~~~  322 (472)
T 4g1t_A          247 TDVLRSAAKFYRRKDEPDKAIELLKKALEYIPNNAYLHCQIGCCYRAKVFQVMNLRE----NGMYGKRKLLELIGHAVAH  322 (472)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHC----------CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHhhhHHH----HHHHHHHHHHhhHHHHHHH
Confidence            445667899999999999999999999999999999999999999876543111100    0000000111223889999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchh
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  174 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~  174 (476)
                      +.++++++|++..+++.+|.++...|+|++|+..|+++++++|++...
T Consensus       323 ~~~a~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~  370 (472)
T 4g1t_A          323 LKKADEANDNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAK  370 (472)
T ss_dssp             HHHHHHHCTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHH
T ss_pred             HHHHhhcCCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHH
Confidence            999999999999999999999999999999999999999998876553

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.54  E-value=1.5e-07  Score=91.44  Aligned_cols=115  Identities=7%  Similarity=-0.134  Sum_probs=99.9

Q ss_pred             HHHHHHhhHHHHHhc--cHHHHHHHHHHHhccCCCCcccccchhHHH----HHH---HhhhccCCCCCcccCCCCCCCCc
Q 011861           47 VFDLVQKGNRAFRES--NFEEAISNYSRANNIKPGDPIVLGNRSSAY----IRI---SQFLKHRPPSASEYRPLNGLDPT  117 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~--~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~----~~~---~~~~~~~~~~~~~~~~~~~~~~~  117 (476)
                      ...+.-+|..+...+  ++++|+..+++++..+|++..+|..|+.++    ..+   +++                    
T Consensus        67 ~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk~y~aW~~R~~iL~~~~~~l~~~~~~--------------------  126 (306)
T 3dra_A           67 YTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEKNYQIWNYRQLIIGQIMELNNNDFDP--------------------  126 (306)
T ss_dssp             HHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTTTCCCT--------------------
T ss_pred             HHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHhccccCCH--------------------
Confidence            355666777777777  999999999999999999999999999998    444   345                    


Q ss_pred             chHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHH--HHHHHHhcccccCCCCchhhHHHHHHHHh
Q 011861          118 THAELALKDAEKLLNLQSNSMKSHLLKANALILLERYD--MARDAILSGLQVDPFSNPLQASLQNLERT  184 (476)
Q Consensus       118 ~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~--~A~~~~~~~l~l~p~~~~~~~~~~~~~~~  184 (476)
                         .+++..+.++++.+|++..+++.++.++..+|.++  ++++.+.++++.||.|-.++.....+-..
T Consensus       127 ---~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~N~sAW~~R~~ll~~  192 (306)
T 3dra_A          127 ---YREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLKNNSAWSHRFFLLFS  192 (306)
T ss_dssp             ---HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHS
T ss_pred             ---HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHh
Confidence               89999999999999999999999999999999999  99999999999999999988766655433

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.54  E-value=4.9e-08  Score=93.95  Aligned_cols=101  Identities=15%  Similarity=0.049  Sum_probs=88.1

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhcc-------CCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCc
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNI-------KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPT  117 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~-------~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (476)
                      ..+..+...|..++..|+|++|+.+|.+|++.       .+....++.++|.+|.++|+|                    
T Consensus       153 ~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y--------------------  212 (293)
T 3u3w_A          153 QNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRY--------------------  212 (293)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCH--------------------
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHH--------------------
Confidence            34556888999999999999999999999953       233346899999999999999                    


Q ss_pred             chHHHHHHHHHHHhhccccc------hHHHHHHHHHHHhhh-hHHHHHHHHhcccccC
Q 011861          118 THAELALKDAEKLLNLQSNS------MKSHLLKANALILLE-RYDMARDAILSGLQVD  168 (476)
Q Consensus       118 ~~~~~a~~~~~~al~l~p~~------~~~~~~~~~~~~~~~-~~~~A~~~~~~~l~l~  168 (476)
                         ++|+..+++|+++.+..      ..+|+.+|.++..+| .+++|+..|++++.+.
T Consensus       213 ---~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al~i~  267 (293)
T 3u3w_A          213 ---EESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKASFFF  267 (293)
T ss_dssp             ---HHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHH
T ss_pred             ---HHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHH
Confidence               99999999999987654      779999999999999 5799999999998764

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.54  E-value=4.9e-08  Score=84.99  Aligned_cols=74  Identities=12%  Similarity=0.093  Sum_probs=68.7

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhcc-------CCCCcccc----cchhHHHHHHHhhhccCCCCCcccCCCCCC
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNI-------KPGDPIVL----GNRSSAYIRISQFLKHRPPSASEYRPLNGL  114 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~-------~p~~~~~~----~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  114 (476)
                      .+..+..+|..+...|+|++|+..|++||++       +|+++.+|    +++|.++..+|++                 
T Consensus        56 ~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~-----------------  118 (159)
T 2hr2_A           56 DAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRG-----------------  118 (159)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCH-----------------
T ss_pred             hHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCH-----------------
Confidence            4558999999999999999999999999999       99999999    9999999999999                 


Q ss_pred             CCcchHHHHHHHHHHHhhccccchHHHH
Q 011861          115 DPTTHAELALKDAEKLLNLQSNSMKSHL  142 (476)
Q Consensus       115 ~~~~~~~~a~~~~~~al~l~p~~~~~~~  142 (476)
                            ++|+.+|++|++++|++...+-
T Consensus       119 ------eEAl~~y~kAlel~p~d~~~~~  140 (159)
T 2hr2_A          119 ------AEAMPEFKKVVEMIEERKGETP  140 (159)
T ss_dssp             ------HHHHHHHHHHHHHHHHCCSCCT
T ss_pred             ------HHHHHHHHHHHhcCCCcHHHHH
Confidence                  9999999999999998755433

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=98.53  E-value=7.8e-08  Score=95.51  Aligned_cols=104  Identities=19%  Similarity=0.239  Sum_probs=95.1

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc----ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA  120 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (476)
                      ..+..+...|..++..|+|++|+..|.+++++.|+++    .++..+|.+|...|++                       
T Consensus         7 ~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~-----------------------   63 (406)
T 3sf4_A            7 ASCLELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDY-----------------------   63 (406)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCH-----------------------
T ss_pred             HHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCH-----------------------
Confidence            3467789999999999999999999999999999984    6899999999999999                       


Q ss_pred             HHHHHHHHHHhhc------cccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCC
Q 011861          121 ELALKDAEKLLNL------QSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (476)
Q Consensus       121 ~~a~~~~~~al~l------~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~  171 (476)
                      ++|+..+++++++      .|....+++.+|.++...|++++|+..+.+++++.|..
T Consensus        64 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~  120 (406)
T 3sf4_A           64 AKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISREL  120 (406)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhc
Confidence            9999999999988      46678899999999999999999999999999987654

>2bay_A PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin ligase, E3 ligase; 1.50A {Saccharomyces cerevisiae} SCOP: g.44.1.2 PDB: 1n87_A

Probab=98.53  E-value=2.6e-08  Score=72.13  Aligned_cols=46  Identities=20%  Similarity=0.247  Sum_probs=41.8

Q ss_pred             ccccccccccccCcEEc-cCCCcccHhhHHHhhhcCCCCcccccccc
Q 011861          202 DFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       202 ~~~C~iC~~~~~~P~~~-~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      .+.|++|++.+.+|+.+ +|||+||+.||.+|+.....||.+++++.
T Consensus         3 ~~~CpIs~~~m~dPV~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~   49 (61)
T 2bay_A            3 HMLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLS   49 (61)
T ss_dssp             -CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCC
T ss_pred             eEEecCCCCCCCCCEEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCC
Confidence            57899999999999999 99999999999999986667999999874

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.52  E-value=1.7e-07  Score=89.44  Aligned_cols=108  Identities=12%  Similarity=0.029  Sum_probs=97.6

Q ss_pred             CCCchhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhcc--------CCCCcccccchhHHHHHHHhhhccCCCCCcccC
Q 011861           38 SLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNI--------KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYR  109 (476)
Q Consensus        38 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~--------~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  109 (476)
                      ....+....+..+...|..++..|+|++|+..|.+++++        .|....++..+|.+|...|++            
T Consensus        18 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~------------   85 (311)
T 3nf1_A           18 GGGYEIPARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKY------------   85 (311)
T ss_dssp             SSCTTSCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCH------------
T ss_pred             CCCCcchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCH------------
Confidence            344556677889999999999999999999999999995        677789999999999999999            


Q ss_pred             CCCCCCCcchHHHHHHHHHHHhhc--------cccchHHHHHHHHHHHhhhhHHHHHHHHhcccccC
Q 011861          110 PLNGLDPTTHAELALKDAEKLLNL--------QSNSMKSHLLKANALILLERYDMARDAILSGLQVD  168 (476)
Q Consensus       110 ~~~~~~~~~~~~~a~~~~~~al~l--------~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~  168 (476)
                                 ++|+..+++++++        +|....+++.+|.++...|++++|+..|.+++++.
T Consensus        86 -----------~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  141 (311)
T 3nf1_A           86 -----------KDAANLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIR  141 (311)
T ss_dssp             -----------HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHH
T ss_pred             -----------HHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHH
Confidence                       9999999999988        47778899999999999999999999999999874

>2y1n_A E3 ubiquitin-protein ligase; ligase-transferase complex, ubiquitin ring E3 ligase; HET: PTR; 2.00A {Homo sapiens} PDB: 2y1m_A* 4a4c_A* 4a4b_A* 1fbv_A* 3vgo_A 4a49_A* 2k4d_A 2ldr_A*

Probab=98.52  E-value=4.3e-08  Score=96.82  Aligned_cols=45  Identities=33%  Similarity=0.792  Sum_probs=41.8

Q ss_pred             cccccccccccCcEEccCCCcccHhhHHHhhh-cCCCCcccccccc
Q 011861          203 FDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD-RGNKCPLCRAVLF  247 (476)
Q Consensus       203 ~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~-~~~~Cp~cr~~~~  247 (476)
                      ..|+||++.+.+|+.++|||.||..|+..|.. ....||.||..+.
T Consensus       333 ~~C~ICle~~~~pv~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~  378 (389)
T 2y1n_A          333 QLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIK  378 (389)
T ss_dssp             SBCTTTSSSBCCEEEETTCCEECHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCccCcCCCCeEEeCCCChhhHHHHHHHHhcCCCCCCCCCCccC
Confidence            68999999999999999999999999999998 6778999999874

>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=98.51  E-value=2.2e-07  Score=87.84  Aligned_cols=106  Identities=17%  Similarity=0.106  Sum_probs=90.3

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHH----HHhhhccCCCCCcccCCCCCCCCcchH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIR----ISQFLKHRPPSASEYRPLNGLDPTTHA  120 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (476)
                      ..+..+...|..++..|++++|+..|.++++  |+++.++.++|.+|..    .+++                       
T Consensus         4 ~~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~--~~~~~a~~~lg~~~~~g~~~~~~~-----------------------   58 (273)
T 1ouv_A            4 QDPKELVGLGAKSYKEKDFTQAKKYFEKACD--LKENSGCFNLGVLYYQGQGVEKNL-----------------------   58 (273)
T ss_dssp             -CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--TTCHHHHHHHHHHHHHTSSSCCCH-----------------------
T ss_pred             CChHHHHHHHHHHHhCCCHHHHHHHHHHHHH--CCCHHHHHHHHHHHHcCCCcCCCH-----------------------
Confidence            4567788899999999999999999999998  7788999999999999    8999                       


Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHh----hhhHHHHHHHHhcccccCCCCchhhHHHH
Q 011861          121 ELALKDAEKLLNLQSNSMKSHLLKANALIL----LERYDMARDAILSGLQVDPFSNPLQASLQ  179 (476)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~~~~~~~~~~~~----~~~~~~A~~~~~~~l~l~p~~~~~~~~~~  179 (476)
                      ++|+..++++++++  ++.+++.+|.+|..    .+++++|+..|+++++.+  +..+...+.
T Consensus        59 ~~A~~~~~~a~~~~--~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~--~~~a~~~lg  117 (273)
T 1ouv_A           59 KKAASFYAKACDLN--YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK--YAEGCASLG  117 (273)
T ss_dssp             HHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHH
T ss_pred             HHHHHHHHHHHHCC--CHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC--CccHHHHHH
Confidence            99999999999885  78899999999998    999999999999998864  444444333

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.51  E-value=1.2e-07  Score=91.27  Aligned_cols=100  Identities=14%  Similarity=0.064  Sum_probs=88.2

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHh---ccCCCCc----ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcc
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRAN---NIKPGDP----IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT  118 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al---~~~p~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (476)
                      .+..+...|..++..|+|++|+..|.+|+   +..|++.    .++.++|.+|..+|+|                     
T Consensus       154 ~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y---------------------  212 (293)
T 2qfc_A          154 NLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRY---------------------  212 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCH---------------------
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhH---------------------
Confidence            46678889999999999999999999999   4456543    6999999999999999                     


Q ss_pred             hHHHHHHHHHHHhhcccc------chHHHHHHHHHHHhhhhHHHH-HHHHhcccccC
Q 011861          119 HAELALKDAEKLLNLQSN------SMKSHLLKANALILLERYDMA-RDAILSGLQVD  168 (476)
Q Consensus       119 ~~~~a~~~~~~al~l~p~------~~~~~~~~~~~~~~~~~~~~A-~~~~~~~l~l~  168 (476)
                        ++|+..+++|+++.++      ...+|+.+|.++..+|++++| ...|++++.+.
T Consensus       213 --~~Al~~~~kal~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~~~  267 (293)
T 2qfc_A          213 --EESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKASFFF  267 (293)
T ss_dssp             --HHHHHHHHHHHHHHHHTTBCSSHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHH
T ss_pred             --HHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHH
Confidence              9999999999998754      267999999999999999999 77799988764

>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=98.51  E-value=2.6e-07  Score=91.03  Aligned_cols=124  Identities=10%  Similarity=-0.048  Sum_probs=95.4

Q ss_pred             hHHHHHHhhHHHHHh-c-cHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHH
Q 011861           46 HVFDLVQKGNRAFRE-S-NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~-~-~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (476)
                      ....+..++..+... + ++++++..++++++.+|++..+|..|+.+..+++.+               ......+..++
T Consensus       122 ny~aW~hR~wlL~~l~~~~~~~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~---------------~~~~~~~~~eE  186 (349)
T 3q7a_A          122 SYQVWHHRLLLLDRISPQDPVSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTL---------------GRISEAQWGSE  186 (349)
T ss_dssp             CHHHHHHHHHHHHHHCCSCCHHHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHT---------------TCCCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccc---------------cccchhhHHHH
Confidence            344555566665555 5 677777777777777777777777777777777776               00011222499


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHhhhh-------HHHHHHHHhcccccCCCCchhhHHHHHHHHh
Q 011861          124 LKDAEKLLNLQSNSMKSHLLKANALILLER-------YDMARDAILSGLQVDPFSNPLQASLQNLERT  184 (476)
Q Consensus       124 ~~~~~~al~l~p~~~~~~~~~~~~~~~~~~-------~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~  184 (476)
                      ++.+.++++.+|.|..||..++.++..+++       ++++++.+.+++.++|+|..++..+.-+-..
T Consensus       187 Le~~~k~I~~dp~N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~~~P~n~SaW~Ylr~Ll~~  254 (349)
T 3q7a_A          187 LDWCNEMLRVDGRNNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHLIPHNVSAWNYLRGFLKH  254 (349)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHh
Confidence            999999999999999999999999998886       7999999999999999999999887766443

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.51  E-value=2.7e-07  Score=74.97  Aligned_cols=83  Identities=22%  Similarity=0.322  Sum_probs=77.7

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      ...+...|..++..|++++|+..|.++++.+|.++.++.++|.+|...|++                       ++|+..
T Consensus        43 ~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~-----------------------~~A~~~   99 (125)
T 1na0_A           43 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDY-----------------------DEAIEY   99 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCH-----------------------HHHHHH
Confidence            456778899999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhh
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLE  152 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~  152 (476)
                      ++++++++|++..++..+|.++...|
T Consensus       100 ~~~~~~~~~~~~~~~~~l~~~~~~~g  125 (125)
T 1na0_A          100 YQKALELDPNNAEAKQNLGNAKQKQG  125 (125)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHhcc
Confidence            99999999999999999999987654

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.50  E-value=3.6e-07  Score=74.46  Aligned_cols=86  Identities=13%  Similarity=-0.003  Sum_probs=73.7

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      ....+...|..++..|+|++|+..|.++++++|+++.+|.++|.+|..+|++                       ++|+.
T Consensus        18 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~-----------------------~~A~~   74 (115)
T 2kat_A           18 NMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDR-----------------------AGARQ   74 (115)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH-----------------------HHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCH-----------------------HHHHH
Confidence            3567889999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccch--HHHHHHHHHHHhhhhH
Q 011861          126 DAEKLLNLQSNSM--KSHLLKANALILLERY  154 (476)
Q Consensus       126 ~~~~al~l~p~~~--~~~~~~~~~~~~~~~~  154 (476)
                      .++++++++|.+.  .+...+...+..+++.
T Consensus        75 ~~~~al~~~~~~~~~~~~~~l~~~l~~l~~~  105 (115)
T 2kat_A           75 AWESGLAAAQSRGDQQVVKELQVFLRRLARE  105 (115)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccccccHHHHHHHHHHHHHhccc
Confidence            9999999998643  4444555555555544

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=98.50  E-value=1.3e-07  Score=94.30  Aligned_cols=102  Identities=10%  Similarity=0.037  Sum_probs=90.0

Q ss_pred             hhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc-------ccccchhHHHHHHHhhhccCCCCCcccCCCCCCC
Q 011861           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP-------IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLD  115 (476)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~-------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (476)
                      ....+..+...|..++..|++++|+.+|.+|+++.+...       .++.++|.+|..+|++                  
T Consensus       139 ~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~------------------  200 (383)
T 3ulq_A          139 RIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATNFLDLKQY------------------  200 (383)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHHHHHHTTCH------------------
T ss_pred             HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHhcCH------------------
Confidence            344677888999999999999999999999999855543       5899999999999999                  


Q ss_pred             CcchHHHHHHHHHHHhhccccc------hHHHHHHHHHHHhhhhHHHHHHHHhccccc
Q 011861          116 PTTHAELALKDAEKLLNLQSNS------MKSHLLKANALILLERYDMARDAILSGLQV  167 (476)
Q Consensus       116 ~~~~~~~a~~~~~~al~l~p~~------~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l  167 (476)
                           ++|+..+.+|+++.+..      ..+++.+|.+|..+|+|++|+..|++++++
T Consensus       201 -----~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~  253 (383)
T 3ulq_A          201 -----EDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAV  253 (383)
T ss_dssp             -----HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             -----HHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence                 99999999999986543      358999999999999999999999999984

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.49  E-value=9.7e-08  Score=91.25  Aligned_cols=114  Identities=11%  Similarity=-0.071  Sum_probs=96.4

Q ss_pred             hhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC--cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchH
Q 011861           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD--PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA  120 (476)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (476)
                      .+... ..+..|..+++.++|++|+..|++++...++.  ..+++++|.++..+|++                       
T Consensus       132 ~p~~~-~~~~~a~l~~~~~r~~dA~~~l~~a~~~~d~~~~~~a~~~LG~al~~LG~~-----------------------  187 (282)
T 4f3v_A          132 GSEHL-VAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAGAAGVAHGVAAANLALF-----------------------  187 (282)
T ss_dssp             TCHHH-HHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHHHHHHHHHHHHHHHHTTCH-----------------------
T ss_pred             CCchH-HHHHHHHHHHHcCCHHHHHHHHHHhhccCCcccHHHHHHHHHHHHHHCCCH-----------------------
Confidence            34455 77889999999999999999999888764221  35899999999999999                       


Q ss_pred             HHHHHHHHHHhhcc--cc-chHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          121 ELALKDAEKLLNLQ--SN-SMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       121 ~~a~~~~~~al~l~--p~-~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      ++|+..|++++.-.  |. ...+++++|.++..+|+.++|...|++++..+|. ..+...+...
T Consensus       188 ~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~-~~~~~aL~~~  250 (282)
T 4f3v_A          188 TEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE-PKVAAALKDP  250 (282)
T ss_dssp             HHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC-HHHHHHHHCT
T ss_pred             HHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-HHHHHHHhCC
Confidence            99999999998654  65 7789999999999999999999999999999998 7666655443

>2vje_A E3 ubiquitin-protein ligase MDM2; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_A* 2hdp_A

Probab=98.48  E-value=5.7e-08  Score=71.20  Aligned_cols=49  Identities=22%  Similarity=0.455  Sum_probs=43.3

Q ss_pred             CCcccccccccccccCcEEc--cCCCc-ccHhhHHHhhhcCCCCcccccccc
Q 011861          199 RTDDFDCTLCLKLLYEPITT--PCGHS-FCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       199 ~~~~~~C~iC~~~~~~P~~~--~cgh~-fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      ..++..|.+|++...+++.+  ||||. ||..|+..|...+..||.||+.+.
T Consensus         5 ~~~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   56 (64)
T 2vje_A            5 LNAIEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQ   56 (64)
T ss_dssp             CGGGSCCTTTSSSCSCEEEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCC
T ss_pred             CCCcCCCCcCCCCCCCEEEECCCCCChhhHHHHHHHHHHcCCcCCCcCcchh
Confidence            34567899999999999977  99999 899999999988888999999763

>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=98.48  E-value=3.5e-07  Score=73.55  Aligned_cols=79  Identities=14%  Similarity=0.112  Sum_probs=74.6

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      ...+...|..++..|+|++|+..|.++++.+|+++.++.++|.+|..+|++                       ++|+..
T Consensus        38 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~-----------------------~~A~~~   94 (118)
T 1elw_A           38 HVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRF-----------------------EEAKRT   94 (118)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhH-----------------------HHHHHH
Confidence            567788999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHH
Q 011861          127 AEKLLNLQSNSMKSHLLKANAL  148 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~  148 (476)
                      +.++++++|++..++..++.+.
T Consensus        95 ~~~~~~~~~~~~~~~~~l~~~~  116 (118)
T 1elw_A           95 YEEGLKHEANNPQLKEGLQNME  116 (118)
T ss_dssp             HHHHHTTCTTCHHHHHHHHHHH
T ss_pred             HHHHHHcCCCCHHHHHHHHHhh
Confidence            9999999999999998888764

>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=98.48  E-value=3.9e-07  Score=89.81  Aligned_cols=110  Identities=15%  Similarity=0.008  Sum_probs=91.1

Q ss_pred             HHHHHhhHHHHHh-ccHHHHHHHHHHHhccCCCCcccccchhHHHHHHH-hhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           48 FDLVQKGNRAFRE-SNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRIS-QFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        48 ~~~~~~g~~~~~~-~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      ..++..-...+.. +..++|+..++++|.++|++..+|..|+.++..++ .+                       ++++.
T Consensus        54 ~~~~~~~r~~~~~~e~se~AL~lt~~~L~~nP~~ytaWn~R~~iL~~l~~~l-----------------------~eEL~  110 (349)
T 3q7a_A           54 KDAMDYFRAIAAKEEKSERALELTEIIVRMNPAHYTVWQYRFSLLTSLNKSL-----------------------EDELR  110 (349)
T ss_dssp             HHHHHHHHHHHHTTCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCH-----------------------HHHHH
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHhCchhHHHHHHHHHHHHHhhhhH-----------------------HHHHH
Confidence            3344434444444 44578999999999999999999999999999998 48                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHhh-h-hHHHHHHHHhcccccCCCCchhhHHHHH
Q 011861          126 DAEKLLNLQSNSMKSHLLKANALILL-E-RYDMARDAILSGLQVDPFSNPLQASLQN  180 (476)
Q Consensus       126 ~~~~al~l~p~~~~~~~~~~~~~~~~-~-~~~~A~~~~~~~l~l~p~~~~~~~~~~~  180 (476)
                      .+.+++..+|++..+|+.++.++..+ + ++++++..+.++++.+|.|-.++....-
T Consensus       111 ~~~~~L~~nPKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~L~~dpkNy~AW~~R~w  167 (349)
T 3q7a_A          111 LMNEFAVQNLKSYQVWHHRLLLLDRISPQDPVSEIEYIHGSLLPDPKNYHTWAYLHW  167 (349)
T ss_dssp             HHHHHHHTTCCCHHHHHHHHHHHHHHCCSCCHHHHHHHHHHTSSCTTCHHHHHHHHH
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            99999999999999999999999887 7 8999999999999999998887655433

>2vje_B MDM4 protein; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_B*

Probab=98.47  E-value=6.3e-08  Score=70.72  Aligned_cols=48  Identities=25%  Similarity=0.477  Sum_probs=42.5

Q ss_pred             CcccccccccccccCcEEc--cCCCc-ccHhhHHHhhhcCCCCcccccccc
Q 011861          200 TDDFDCTLCLKLLYEPITT--PCGHS-FCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       200 ~~~~~C~iC~~~~~~P~~~--~cgh~-fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      .....|.+|++...+++.+  ||||. ||..|+.++...+..||+||+.+.
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   55 (63)
T 2vje_B            5 NLLKPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQ   55 (63)
T ss_dssp             GGGSBCTTTSSSBSCEEEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCC
T ss_pred             CcCCCCcccCCcCCCeEEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhh
Confidence            3467899999999999877  99998 999999999888888999999873

>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=98.47  E-value=9.8e-08  Score=84.43  Aligned_cols=83  Identities=11%  Similarity=0.028  Sum_probs=74.7

Q ss_pred             ccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccc--h
Q 011861           61 SNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNS--M  138 (476)
Q Consensus        61 ~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~--~  138 (476)
                      ++..+|+..|.++++.+|+++.+++++|.++...|++                       ++|+..++++++++|++  .
T Consensus        88 ~~~~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~-----------------------~~A~~~~~~~l~~~p~~~~~  144 (176)
T 2r5s_A           88 AAESPELKRLEQELAANPDNFELACELAVQYNQVGRD-----------------------EEALELLWNILKVNLGAQDG  144 (176)
T ss_dssp             HTSCHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHTTCTTTTTT
T ss_pred             cccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccH-----------------------HHHHHHHHHHHHhCcccChH
Confidence            3444578888888899999999999999999999999                       99999999999999986  5


Q ss_pred             HHHHHHHHHHHhhhhHHHHHHHHhcccc
Q 011861          139 KSHLLKANALILLERYDMARDAILSGLQ  166 (476)
Q Consensus       139 ~~~~~~~~~~~~~~~~~~A~~~~~~~l~  166 (476)
                      .+++.+|.++..+|++++|+..|++++.
T Consensus       145 ~a~~~l~~~~~~~g~~~~A~~~y~~al~  172 (176)
T 2r5s_A          145 EVKKTFMDILSALGQGNAIASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHHHHHHCSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCcHHHHHHHHHH
Confidence            6999999999999999999999998763

>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=2.5e-07  Score=88.96  Aligned_cols=98  Identities=13%  Similarity=0.117  Sum_probs=84.4

Q ss_pred             HHhhHHHHHhccHHHHHHHHHHHhccCCCCcc------cccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           51 VQKGNRAFRESNFEEAISNYSRANNIKPGDPI------VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        51 ~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~------~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      ...|..++..++|++|+..|.+|+.+.+....      ++.++|.+|..+|++                       ++|+
T Consensus       119 ~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~-----------------------~~A~  175 (293)
T 3u3w_A          119 YYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYL-----------------------KKGI  175 (293)
T ss_dssp             HHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCH-----------------------HHHH
T ss_pred             HHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCH-----------------------HHHH
Confidence            34678888889999999999999997655443      689999999999999                       9999


Q ss_pred             HHHHHHhh-------ccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCC
Q 011861          125 KDAEKLLN-------LQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (476)
Q Consensus       125 ~~~~~al~-------l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~  171 (476)
                      ..+++|++       ..+....+++.+|.+|..+|+|++|+..+++++++.+..
T Consensus       176 ~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~  229 (293)
T 3u3w_A          176 DLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRI  229 (293)
T ss_dssp             HHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHc
Confidence            99999995       334556699999999999999999999999999886543

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.47  E-value=2e-07  Score=89.67  Aligned_cols=92  Identities=12%  Similarity=0.004  Sum_probs=81.2

Q ss_pred             HhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHh
Q 011861           52 QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLL  131 (476)
Q Consensus        52 ~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al  131 (476)
                      ..+..+...+++++|+..|.+++..+|+++.+++++|.+|...|++                       ++|+..+.+++
T Consensus       190 ~~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~-----------------------~~A~~~l~~~l  246 (287)
T 3qou_A          190 VAQIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRN-----------------------EEALELLFGHL  246 (287)
T ss_dssp             HHHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHHHH
T ss_pred             HHHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccH-----------------------HHHHHHHHHHH
Confidence            3344455566666677778888889999999999999999999999                       99999999999


Q ss_pred             hccccc--hHHHHHHHHHHHhhhhHHHHHHHHhcccc
Q 011861          132 NLQSNS--MKSHLLKANALILLERYDMARDAILSGLQ  166 (476)
Q Consensus       132 ~l~p~~--~~~~~~~~~~~~~~~~~~~A~~~~~~~l~  166 (476)
                      +.+|++  ..++..+|.++..+|+.++|...|++++.
T Consensus       247 ~~~p~~~~~~a~~~l~~~~~~~g~~~~a~~~~r~al~  283 (287)
T 3qou_A          247 RXDLTAADGQTRXTFQEILAALGTGDALASXYRRQLY  283 (287)
T ss_dssp             HHCTTGGGGHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hcccccccchHHHHHHHHHHHcCCCCcHHHHHHHHHH
Confidence            999999  88999999999999999999999998764

>3dpl_R Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST-virus interaction, receptor, UBL conjugation, UBL conjugation pathway, acetylation, cytoplasm; 2.60A {Homo sapiens} SCOP: g.44.1.1 PDB: 3dqv_R 3rtr_B 4f52_B 1u6g_B 2hye_D* 4a0c_D 4a0l_F* 1ldj_B 1ldk_C 2lgv_A

Probab=98.46  E-value=9.6e-08  Score=77.34  Aligned_cols=46  Identities=20%  Similarity=0.435  Sum_probs=40.0

Q ss_pred             cccccccccccccCc------------------EEccCCCcccHhhHHHhhhcCCCCccccccc
Q 011861          201 DDFDCTLCLKLLYEP------------------ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (476)
Q Consensus       201 ~~~~C~iC~~~~~~P------------------~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~  246 (476)
                      ++..|+||++.+..+                  +.++|||.||..||.+|+.....||+||..+
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~   99 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREW   99 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBC
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCCcCcCCCCcc
Confidence            356799999988865                  3469999999999999999988999999875

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.45  E-value=1.4e-07  Score=80.24  Aligned_cols=100  Identities=17%  Similarity=0.115  Sum_probs=87.7

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC------cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA  120 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (476)
                      +..+...|..++..|+|++|+..|.+++++.+..      ..++.++|.+|...|++                       
T Consensus        49 ~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----------------------  105 (164)
T 3ro3_A           49 RIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDY-----------------------  105 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH-----------------------
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhH-----------------------
Confidence            4567788999999999999999999999986543      57899999999999999                       


Q ss_pred             HHHHHHHHHHhhccc------cchHHHHHHHHHHHhhhhHHHHHHHHhcccccCC
Q 011861          121 ELALKDAEKLLNLQS------NSMKSHLLKANALILLERYDMARDAILSGLQVDP  169 (476)
Q Consensus       121 ~~a~~~~~~al~l~p------~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p  169 (476)
                      ++|+..+++++++.+      ....+++.+|.++...|++++|...+++++++..
T Consensus       106 ~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~  160 (164)
T 3ro3_A          106 EKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISR  160 (164)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHH
Confidence            999999999998743      2356889999999999999999999999987643

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=98.45  E-value=1.8e-07  Score=93.31  Aligned_cols=103  Identities=16%  Similarity=0.108  Sum_probs=92.7

Q ss_pred             hhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc------ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCc
Q 011861           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP------IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPT  117 (476)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (476)
                      ...+..+...|..+...|+|++|+..|.+|+++.+...      .++.++|.+|..+|++                    
T Consensus       181 ~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~--------------------  240 (383)
T 3ulq_A          181 IRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQY--------------------  240 (383)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH--------------------
T ss_pred             HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCH--------------------
Confidence            34456778889999999999999999999999866544      5899999999999999                    


Q ss_pred             chHHHHHHHHHHHhh-----cc-ccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCC
Q 011861          118 THAELALKDAEKLLN-----LQ-SNSMKSHLLKANALILLERYDMARDAILSGLQVDP  169 (476)
Q Consensus       118 ~~~~~a~~~~~~al~-----l~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p  169 (476)
                         ++|+..+++|++     .+ |....+++.+|.++..+|++++|...+++++++.+
T Consensus       241 ---~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~  295 (383)
T 3ulq_A          241 ---EDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQ  295 (383)
T ss_dssp             ---HHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             ---HHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence               999999999999     46 88899999999999999999999999999998754

>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=98.44  E-value=4.4e-07  Score=88.95  Aligned_cols=117  Identities=6%  Similarity=-0.099  Sum_probs=102.6

Q ss_pred             hHHHHHHhhHHHHHhcc----------HHHHHHHHHHHhccCCCCcccccchhHHHHHHHh--hhccCCCCCcccCCCCC
Q 011861           46 HVFDLVQKGNRAFRESN----------FEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQ--FLKHRPPSASEYRPLNG  113 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~----------~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~--~~~~~~~~~~~~~~~~~  113 (476)
                      ....+.-++......++          +++++.+++.++..+|.++.+|..|+.++..+++  +                
T Consensus        63 ~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PKny~aW~hR~wlL~~l~~~~~----------------  126 (331)
T 3dss_A           63 FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNW----------------  126 (331)
T ss_dssp             CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHCSSCCH----------------
T ss_pred             hHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHhccCcccH----------------
Confidence            34555556666655444          7999999999999999999999999999999884  7                


Q ss_pred             CCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhh-HHHHHHHHhcccccCCCCchhhHHHHHHHHhh
Q 011861          114 LDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLER-YDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (476)
Q Consensus       114 ~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~-~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~  185 (476)
                             .+++..+.++++.+|.|..+|..++.++..+|. ++++++.+.++++.+|.|..++.....+-..+
T Consensus       127 -------~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~N~SAW~~R~~ll~~l  192 (331)
T 3dss_A          127 -------ARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQL  192 (331)
T ss_dssp             -------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHH
T ss_pred             -------HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHh
Confidence                   999999999999999999999999999999999 69999999999999999999998877765444

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.43  E-value=1.6e-07  Score=83.97  Aligned_cols=102  Identities=12%  Similarity=-0.006  Sum_probs=90.0

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhc------cCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcc
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANN------IKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT  118 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~------~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (476)
                      ..+..+...|..++..|+|++|+..|.+++.      ..|....++.++|.+|..+|++                     
T Consensus        24 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~---------------------   82 (203)
T 3gw4_A           24 TASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNW---------------------   82 (203)
T ss_dssp             THHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH---------------------
T ss_pred             HHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCH---------------------
Confidence            3467788899999999999999999999999      4555678999999999999999                     


Q ss_pred             hHHHHHHHHHHHhhc------cc-cchHHHHHHHHHHHhhhhHHHHHHHHhcccccCC
Q 011861          119 HAELALKDAEKLLNL------QS-NSMKSHLLKANALILLERYDMARDAILSGLQVDP  169 (476)
Q Consensus       119 ~~~~a~~~~~~al~l------~p-~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p  169 (476)
                        ++|+..+.+++++      ++ ....+++.+|.++...|++++|...+++++++.+
T Consensus        83 --~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~  138 (203)
T 3gw4_A           83 --DAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQ  138 (203)
T ss_dssp             --HHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             --HHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHH
Confidence              9999999999998      33 3456899999999999999999999999987643

>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.41  E-value=6.6e-08  Score=73.35  Aligned_cols=42  Identities=31%  Similarity=0.819  Sum_probs=37.4

Q ss_pred             ccccccccccccCcEEccCCCc-ccHhhHHHhhhcCCCCcccccccc
Q 011861          202 DFDCTLCLKLLYEPITTPCGHS-FCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       202 ~~~C~iC~~~~~~P~~~~cgh~-fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      ...|+||++.+.+|+.++|||. ||..|+..    ...||.||..+.
T Consensus        25 ~~~C~IC~~~~~~~~~~pCgH~~~C~~C~~~----~~~CP~Cr~~i~   67 (75)
T 2ecg_A           25 EKLCKICMDRNIAIVFVPCGHLVTCKQCAEA----VDKCPMCYTVIT   67 (75)
T ss_dssp             HHSCSSSCSSCCCBCCSSSCCCCBCHHHHHH----CSBCTTTCCBCC
T ss_pred             CCCCCcCCCCCCCEEEecCCCHHHHHHHhhC----CCCCccCCceec
Confidence            5689999999999999999999 99999964    367999999874

>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=98.40  E-value=7.9e-08  Score=93.29  Aligned_cols=100  Identities=11%  Similarity=0.026  Sum_probs=60.6

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCCC--C----cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHH
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPG--D----PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~--~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (476)
                      ..+...|..+...|+|++|+.+|.+|+++.+.  +    ..++.++|.+|.. |++                       +
T Consensus        77 ~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~-----------------------~  132 (307)
T 2ifu_A           77 KAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDL-----------------------S  132 (307)
T ss_dssp             HHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCH-----------------------H
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCH-----------------------H
Confidence            34445556666666666666666666665322  1    2455566666666 666                       6


Q ss_pred             HHHHHHHHHhhccccc------hHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCC
Q 011861          122 LALKDAEKLLNLQSNS------MKSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (476)
Q Consensus       122 ~a~~~~~~al~l~p~~------~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~  171 (476)
                      +|+..|++|+++.|..      ..++..+|.+|..+|+|++|+..|++++++.|.+
T Consensus       133 ~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~  188 (307)
T 2ifu_A          133 KAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEM  188 (307)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHc
Confidence            6666666666665532      4466666666666666666666666666665443

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.40  E-value=6.5e-07  Score=85.97  Aligned_cols=97  Identities=13%  Similarity=0.153  Sum_probs=83.0

Q ss_pred             HHHhhHHHHHhccHHHHHHHHHHHhccCCCC------cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHH
Q 011861           50 LVQKGNRAFRESNFEEAISNYSRANNIKPGD------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (476)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (476)
                      +...|..+...|+|++|+..|.+|+++.+..      ..++.++|.+|..+|++                       ++|
T Consensus       118 ~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~-----------------------~~A  174 (293)
T 2qfc_A          118 QYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYL-----------------------KKG  174 (293)
T ss_dssp             HHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHHHHHHHHHHTTCH-----------------------HHH
T ss_pred             HHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHcCCH-----------------------HHH
Confidence            4456777788899999999999999876544      35889999999999999                       999


Q ss_pred             HHHHHHHhhc---cccc----hHHHHHHHHHHHhhhhHHHHHHHHhcccccCC
Q 011861          124 LKDAEKLLNL---QSNS----MKSHLLKANALILLERYDMARDAILSGLQVDP  169 (476)
Q Consensus       124 ~~~~~~al~l---~p~~----~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p  169 (476)
                      +..+++|+++   .|++    ..+++.+|.+|..+|+|++|+..+++++++.+
T Consensus       175 ~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~  227 (293)
T 2qfc_A          175 IDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISC  227 (293)
T ss_dssp             HHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            9999999944   4543    26999999999999999999999999998754

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=98.40  E-value=6.1e-07  Score=89.37  Aligned_cols=103  Identities=16%  Similarity=0.054  Sum_probs=92.7

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCC------CcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcc
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPG------DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT  118 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~------~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (476)
                      ..+..+...|..++..|+|++|+..|.+|+++.+.      ...++.++|.+|..+|++                     
T Consensus       180 ~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~---------------------  238 (378)
T 3q15_A          180 RTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDD---------------------  238 (378)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH---------------------
T ss_pred             hHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCH---------------------
Confidence            34667778899999999999999999999997432      246899999999999999                     


Q ss_pred             hHHHHHHHHHHHhh-----ccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCC
Q 011861          119 HAELALKDAEKLLN-----LQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF  170 (476)
Q Consensus       119 ~~~~a~~~~~~al~-----l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~  170 (476)
                        ++|+..+.+|++     .+|....+++.+|.++..+|++++|+..+++++++.+.
T Consensus       239 --~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~  293 (378)
T 3q15_A          239 --QMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITA  293 (378)
T ss_dssp             --HHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCT
T ss_pred             --HHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence              999999999999     78888999999999999999999999999999998664

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.38  E-value=9.2e-07  Score=74.49  Aligned_cols=79  Identities=16%  Similarity=0.179  Sum_probs=73.9

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      ...+...|..++..|+|++|+..|.++++++|+++.++.++|.+|..+|++                       ++|+..
T Consensus        65 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~-----------------------~~A~~~  121 (148)
T 2dba_A           65 AVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRRSQALEKLGRL-----------------------DQAVLD  121 (148)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHTCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHHHHHHHHcCCH-----------------------HHHHHH
Confidence            567788899999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHH
Q 011861          127 AEKLLNLQSNSMKSHLLKANAL  148 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~  148 (476)
                      ++++++++|++..++..++.+.
T Consensus       122 ~~~al~~~p~~~~~~~~l~~~~  143 (148)
T 2dba_A          122 LQRCVSLEPKNKVFQEALRNIS  143 (148)
T ss_dssp             HHHHHHHCSSCHHHHHHHHHHH
T ss_pred             HHHHHHcCCCcHHHHHHHHHHH
Confidence            9999999999998888777664

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.35  E-value=5.9e-07  Score=93.08  Aligned_cols=113  Identities=12%  Similarity=0.038  Sum_probs=93.6

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhcc-----CCCC---cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCc
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNI-----KPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPT  117 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~-----~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (476)
                      .+....+++..+..+|+|++|+..|.+++++     .|+.   ...+.++|.+|..+|+|                    
T Consensus       308 ~a~~~le~a~~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~--------------------  367 (490)
T 3n71_A          308 FSKDTLEKIDKARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAY--------------------  367 (490)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCH--------------------
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCH--------------------
Confidence            3556677888888999999999999999986     3333   47899999999999999                    


Q ss_pred             chHHHHHHHHHHHhhcc-----ccc---hHHHHHHHHHHHhhhhHHHHHHHHhccccc-----CCCCchhhHHHHHH
Q 011861          118 THAELALKDAEKLLNLQ-----SNS---MKSHLLKANALILLERYDMARDAILSGLQV-----DPFSNPLQASLQNL  181 (476)
Q Consensus       118 ~~~~~a~~~~~~al~l~-----p~~---~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l-----~p~~~~~~~~~~~~  181 (476)
                         ++|+..+++++++.     |++   ...++++|.+|...|+|++|...|++++++     .|+++.+......+
T Consensus       368 ---~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l  441 (490)
T 3n71_A          368 ---EEASHYARRMVDGYMKLYHHNNAQLGMAVMRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMR  441 (490)
T ss_dssp             ---HHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHH
T ss_pred             ---HHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHH
Confidence               99999999999863     444   558999999999999999999999999974     67777766544433

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus}

Probab=98.35  E-value=1.3e-07  Score=79.98  Aligned_cols=48  Identities=35%  Similarity=0.897  Sum_probs=43.8

Q ss_pred             CcccccccccccccCc-------EEccCCCcccHhhHHHhhhcCCCCcccccccc
Q 011861          200 TDDFDCTLCLKLLYEP-------ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       200 ~~~~~C~iC~~~~~~P-------~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      .+...|++|++.+.+|       +.++|||.||..|+.+|+.....||.||..+.
T Consensus        70 ~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~  124 (133)
T 4ap4_A           70 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN  124 (133)
T ss_dssp             SSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCC
T ss_pred             CCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCC
Confidence            4577899999999887       88899999999999999999899999999874

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.34  E-value=1.1e-06  Score=72.54  Aligned_cols=79  Identities=11%  Similarity=0.006  Sum_probs=71.1

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC---cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (476)
                      ...+...|..++..|+|++|+..|.++++.+|++   +.+++++|.+|..+|++                       ++|
T Consensus        39 ~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~~~~~g~~-----------------------~~A   95 (129)
T 2xev_A           39 PNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQYGEGKN-----------------------TEA   95 (129)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCH-----------------------HHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHcCCH-----------------------HHH
Confidence            3678889999999999999999999999999999   78899999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHH
Q 011861          124 LKDAEKLLNLQSNSMKSHLLKANAL  148 (476)
Q Consensus       124 ~~~~~~al~l~p~~~~~~~~~~~~~  148 (476)
                      +..++++++.+|++..+...+..+-
T Consensus        96 ~~~~~~~~~~~p~~~~~~~a~~~l~  120 (129)
T 2xev_A           96 QQTLQQVATQYPGSDAARVAQERLQ  120 (129)
T ss_dssp             HHHHHHHHHHSTTSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCChHHHHHHHHHH
Confidence            9999999999999987665554443

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=98.34  E-value=1.1e-06  Score=70.81  Aligned_cols=77  Identities=19%  Similarity=0.122  Sum_probs=65.7

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccC-------CCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcc
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIK-------PGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT  118 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~-------p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (476)
                      .+.+.+..|+.+|+.++|.+|+..|.+|++..       +..+.++.++|.+|+++|++                     
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~---------------------   62 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDL---------------------   62 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCH---------------------
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCH---------------------
Confidence            36778999999999999999999999999873       23457788888899999988                     


Q ss_pred             hHHHHHHHHHHHhhccccchHHHHHHH
Q 011861          119 HAELALKDAEKLLNLQSNSMKSHLLKA  145 (476)
Q Consensus       119 ~~~~a~~~~~~al~l~p~~~~~~~~~~  145 (476)
                        +.|+..+++|++++|++..+..+++
T Consensus        63 --~~A~~~~~~al~l~P~~~~~~~n~~   87 (104)
T 2v5f_A           63 --DKALLLTKKLLELDPEHQRANGNLK   87 (104)
T ss_dssp             --HHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             --HHHHHHHHHHHhcCCCCHHHHhhHH
Confidence              8899989999999998888777666

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=98.33  E-value=3.5e-07  Score=90.73  Aligned_cols=103  Identities=24%  Similarity=0.193  Sum_probs=92.8

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcc------cccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcch
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPI------VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH  119 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~------~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (476)
                      .+..+...|..++..|+|++|+..|.+++++.+....      ++.++|.+|..+|++                      
T Consensus       186 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~----------------------  243 (406)
T 3sf4_A          186 QGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEF----------------------  243 (406)
T ss_dssp             HHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH----------------------
T ss_pred             HHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCh----------------------
Confidence            3456777899999999999999999999999877665      999999999999999                      


Q ss_pred             HHHHHHHHHHHhhccccc------hHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCC
Q 011861          120 AELALKDAEKLLNLQSNS------MKSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (476)
Q Consensus       120 ~~~a~~~~~~al~l~p~~------~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~  171 (476)
                       ++|+..+++++++.|..      ..+++.+|.++...|++++|+..|++++++.+..
T Consensus       244 -~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~  300 (406)
T 3sf4_A          244 -ETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQEL  300 (406)
T ss_dssp             -HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             -HHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhc
Confidence             99999999999998766      7799999999999999999999999999886544

>2yho_A E3 ubiquitin-protein ligase mylip; ligase, E2 ligase-E3 ligase complex, ring zinc-finger, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 2yhn_A

Probab=98.30  E-value=2.5e-07  Score=70.82  Aligned_cols=42  Identities=33%  Similarity=0.816  Sum_probs=37.7

Q ss_pred             ccccccccccccCcEEccCCCc-ccHhhHHHhhhcCCCCcccccccc
Q 011861          202 DFDCTLCLKLLYEPITTPCGHS-FCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       202 ~~~C~iC~~~~~~P~~~~cgh~-fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      ...|++|++...+|+.+||||. ||..|+..+    ..||.||..+.
T Consensus        18 ~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~   60 (79)
T 2yho_A           18 AMLCMVCCEEEINSTFCPCGHTVCCESCAAQL----QSCPVCRSRVE   60 (79)
T ss_dssp             HTBCTTTSSSBCCEEEETTCBCCBCHHHHTTC----SBCTTTCCBCC
T ss_pred             CCEeEEeCcccCcEEEECCCCHHHHHHHHHhc----CcCCCCCchhh
Confidence            5689999999999999999999 999999865    38999999874

>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=98.30  E-value=6.7e-07  Score=91.22  Aligned_cols=112  Identities=12%  Similarity=0.077  Sum_probs=91.2

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhcc-----CCCCc---ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcc
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNI-----KPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT  118 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~-----~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (476)
                      +....+.++..-..|+|++|+..|.+++++     .|+++   ..+.++|.+|..+|+|                     
T Consensus       298 ~~~~le~~~~~~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~---------------------  356 (433)
T 3qww_A          298 ARNVIEEFRRAKHYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDW---------------------  356 (433)
T ss_dssp             HHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCH---------------------
T ss_pred             HHHHHHHHHHhhhccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCH---------------------
Confidence            334555566666678999999999999986     44443   7789999999999999                     


Q ss_pred             hHHHHHHHHHHHhhcc-----cc---chHHHHHHHHHHHhhhhHHHHHHHHhccccc-----CCCCchhhHHHHHH
Q 011861          119 HAELALKDAEKLLNLQ-----SN---SMKSHLLKANALILLERYDMARDAILSGLQV-----DPFSNPLQASLQNL  181 (476)
Q Consensus       119 ~~~~a~~~~~~al~l~-----p~---~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l-----~p~~~~~~~~~~~~  181 (476)
                        ++|+..+++++++-     |+   -...++++|.+|..+|+|++|...|++++++     .|+++.+.....++
T Consensus       357 --~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~l~~~l  430 (433)
T 3qww_A          357 --EGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYMGLENKAAGEKALKKAIAIMEVAHGKDHPYISEIKQEI  430 (433)
T ss_dssp             --HHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHH
T ss_pred             --HHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHH
Confidence              99999999999862     44   4558999999999999999999999999984     67777776655544

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=98.29  E-value=8e-07  Score=88.52  Aligned_cols=115  Identities=15%  Similarity=0.014  Sum_probs=94.1

Q ss_pred             hhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC-------cccccchhHHHHHHHhhhccCCCCCcccCCCCCCC
Q 011861           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD-------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLD  115 (476)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~-------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (476)
                      ....+..+...|..++..|++++|+.+|.+|+++.+..       ..++.++|.+|..+|++                  
T Consensus       137 ~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~------------------  198 (378)
T 3q15_A          137 DIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHY------------------  198 (378)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCH------------------
T ss_pred             hHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCH------------------
Confidence            34567778889999999999999999999999875532       35788999999999999                  


Q ss_pred             CcchHHHHHHHHHHHhhccc------cchHHHHHHHHHHHhhhhHHHHHHHHhcccc-----cCCCCchhhHHHHH
Q 011861          116 PTTHAELALKDAEKLLNLQS------NSMKSHLLKANALILLERYDMARDAILSGLQ-----VDPFSNPLQASLQN  180 (476)
Q Consensus       116 ~~~~~~~a~~~~~~al~l~p------~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~-----l~p~~~~~~~~~~~  180 (476)
                           ++|+..+.+|+++.+      ....+++.+|.++..+|++++|+..|+++++     .+|....+...+..
T Consensus       199 -----~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~  269 (378)
T 3q15_A          199 -----DKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSW  269 (378)
T ss_dssp             -----HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHH
T ss_pred             -----HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHH
Confidence                 999999999999753      2356899999999999999999999999999     56555444443333

>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=98.28  E-value=1.7e-06  Score=81.62  Aligned_cols=95  Identities=14%  Similarity=0.075  Sum_probs=87.2

Q ss_pred             HHHHHHhhHHHHH----hccHHHHHHHHHHHhccCCCCcccccchhHHHHH----HHhhhccCCCCCcccCCCCCCCCcc
Q 011861           47 VFDLVQKGNRAFR----ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIR----ISQFLKHRPPSASEYRPLNGLDPTT  118 (476)
Q Consensus        47 ~~~~~~~g~~~~~----~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~  118 (476)
                      ...+...|..++.    .+++++|+..|.++++.+  ++.++.++|.+|..    .+++                     
T Consensus        38 ~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~--~~~a~~~lg~~~~~g~~~~~~~---------------------   94 (273)
T 1ouv_A           38 NSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN--YSNGCHLLGNLYYSGQGVSQNT---------------------   94 (273)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCH---------------------
T ss_pred             HHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC--CHHHHHHHHHHHhCCCCcccCH---------------------
Confidence            4567788999999    999999999999999986  88999999999999    9999                     


Q ss_pred             hHHHHHHHHHHHhhccccchHHHHHHHHHHHh----hhhHHHHHHHHhcccccC
Q 011861          119 HAELALKDAEKLLNLQSNSMKSHLLKANALIL----LERYDMARDAILSGLQVD  168 (476)
Q Consensus       119 ~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~----~~~~~~A~~~~~~~l~l~  168 (476)
                        ++|+..++++++.+  ++.+++.+|.+|..    .+++++|+..|+++++.+
T Consensus        95 --~~A~~~~~~a~~~~--~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~  144 (273)
T 1ouv_A           95 --NKALQYYSKACDLK--YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN  144 (273)
T ss_dssp             --HHHHHHHHHHHHTT--CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT
T ss_pred             --HHHHHHHHHHHHcC--CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC
Confidence              99999999999884  88999999999999    999999999999999876

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=98.27  E-value=4.9e-07  Score=86.60  Aligned_cols=102  Identities=25%  Similarity=0.191  Sum_probs=90.9

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcc------cccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPI------VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA  120 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~------~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (476)
                      +..+...|..++..|++++|+..|.+++++.+....      ++.++|.+|...|++                       
T Consensus       183 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-----------------------  239 (338)
T 3ro2_A          183 GRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEF-----------------------  239 (338)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCH-----------------------
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCH-----------------------
Confidence            456677899999999999999999999998765544      999999999999999                       


Q ss_pred             HHHHHHHHHHhhccccc------hHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCC
Q 011861          121 ELALKDAEKLLNLQSNS------MKSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (476)
Q Consensus       121 ~~a~~~~~~al~l~p~~------~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~  171 (476)
                      ++|+..+++++++.+..      ..+++.+|.++...|++++|...+++++++.+..
T Consensus       240 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~  296 (338)
T 3ro2_A          240 ETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQEL  296 (338)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhc
Confidence            99999999999988765      7799999999999999999999999999876543

>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=98.27  E-value=1.7e-06  Score=85.34  Aligned_cols=123  Identities=11%  Similarity=0.084  Sum_probs=75.9

Q ss_pred             hHHHHHHhhHHHHHh---ccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccC------------C
Q 011861           46 HVFDLVQKGNRAFRE---SNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYR------------P  110 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~---~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~------------~  110 (476)
                      .+.+++.+|..++..   .++.+|+.+|.+|++++|+++.+|..++.+|.....+  . ........            .
T Consensus       195 ~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lDP~~a~A~A~la~a~~~~~~~--~-~~~~~~~~~l~~a~~a~~a~~  271 (372)
T 3ly7_A          195 ALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSSPEFTYARAEKALVDIVRHSQ--H-PLDEKQLAALNTEIDNIVTLP  271 (372)
T ss_dssp             GGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHH--S-CCCHHHHHHHHHHHHHHHTCG
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhcc--C-CCchhhHHHHHHHHHHHHhcc
Confidence            467788889888875   4568999999999999999999999999999854433  0 00000000            0


Q ss_pred             CCCCCCcc------------hHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCc
Q 011861          111 LNGLDPTT------------HAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (476)
Q Consensus       111 ~~~~~~~~------------~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~  172 (476)
                      +...++..            ..++|+..+++|+.++|+ ..+|..+|.++...|++++|.+.|.+|+.++|..+
T Consensus       272 ~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s-~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~~~  344 (372)
T 3ly7_A          272 ELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMS-WLNYVLLGKVYEMKGMNREAADAYLTAFNLRPGAN  344 (372)
T ss_dssp             GGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCSHH
T ss_pred             cCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcC
Confidence            00000000            015556666666666653 44555666666666666666666666666666543

>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.26  E-value=6.9e-07  Score=66.15  Aligned_cols=47  Identities=28%  Similarity=0.762  Sum_probs=40.3

Q ss_pred             CCCCcccccccccccccCcEEccCCCc-ccHhhHHHhhhcCCCCcccccccc
Q 011861          197 PERTDDFDCTLCLKLLYEPITTPCGHS-FCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~P~~~~cgh~-fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      ....+...|.||++...+++.+||||. ||..|+..    ...||+||..+.
T Consensus        10 ~~~~~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~----~~~CP~CR~~i~   57 (68)
T 2ea5_A           10 PSEENSKDCVVCQNGTVNWVLLPCRHTCLCDGCVKY----FQQCPMCRQFVQ   57 (68)
T ss_dssp             CSCCCSSCCSSSSSSCCCCEETTTTBCCSCTTHHHH----CSSCTTTCCCCC
T ss_pred             ccCCCCCCCCCcCcCCCCEEEECCCChhhhHHHHhc----CCCCCCCCcchh
Confidence            344567899999999999999999999 99999984    367999999874

>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=98.26  E-value=9.3e-07  Score=80.85  Aligned_cols=107  Identities=16%  Similarity=0.069  Sum_probs=91.5

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHH----hhhccCCCCCcccCCCCCCCCcchH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRIS----QFLKHRPPSASEYRPLNGLDPTTHA  120 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~  120 (476)
                      ..+..+...|..++..+++++|+..|.+|++.  +++.+++++|.+|.. +    ++                       
T Consensus        16 g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~--g~~~a~~~lg~~y~~-~g~~~~~-----------------------   69 (212)
T 3rjv_A           16 GDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQ--GDGDALALLAQLKIR-NPQQADY-----------------------   69 (212)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHT--TCHHHHHHHHHHTTS-STTSCCH-----------------------
T ss_pred             CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHc--CCHHHHHHHHHHHHc-CCCCCCH-----------------------
Confidence            45678889999999999999999999999886  588999999999988 6    77                       


Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHh----hhhHHHHHHHHhcccccCCC--CchhhHHHH
Q 011861          121 ELALKDAEKLLNLQSNSMKSHLLKANALIL----LERYDMARDAILSGLQVDPF--SNPLQASLQ  179 (476)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~~~~~~~~~~~~----~~~~~~A~~~~~~~l~l~p~--~~~~~~~~~  179 (476)
                      ++|+..+++|+  ++.++.+++.+|.+|..    .+++++|+..|+++.+.++.  ++.+...+.
T Consensus        70 ~~A~~~~~~A~--~~g~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg  132 (212)
T 3rjv_A           70 PQARQLAEKAV--EAGSKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLG  132 (212)
T ss_dssp             HHHHHHHHHHH--HTTCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHH--HCCCHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHH
Confidence            99999999995  46789999999999987    88999999999999998873  244444333

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=98.26  E-value=2.1e-06  Score=89.72  Aligned_cols=114  Identities=12%  Similarity=-0.035  Sum_probs=86.7

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc-ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP-IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      ...+...|..+...|++++|+..|.+++++.|.++ .+|.+.+.++.+.|++                       ++|.+
T Consensus       321 ~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~-----------------------~~A~~  377 (530)
T 2ooe_A          321 MLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGI-----------------------KSGRM  377 (530)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHH-----------------------HHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhCccccCchHHHHHHHHHHHHhcCH-----------------------HHHHH
Confidence            44555666667778888888888888888888875 5788888888888888                       88888


Q ss_pred             HHHHHhhccccchHHHHHHHHH-HHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHH
Q 011861          126 DAEKLLNLQSNSMKSHLLKANA-LILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  183 (476)
Q Consensus       126 ~~~~al~l~p~~~~~~~~~~~~-~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~  183 (476)
                      .+.+|++..|.....+...|.. +...|++++|+..|+++++.+|++..++.....+..
T Consensus       378 ~~~~Al~~~~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~p~~~~~~~~~~~~~~  436 (530)
T 2ooe_A          378 IFKKAREDARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLS  436 (530)
T ss_dssp             HHHHHHTCTTCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHHhccCCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHCCCCHHHHHHHHHHHH
Confidence            8888888888777777666655 335788888888888888888888777665555533

>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=98.25  E-value=1.9e-06  Score=87.78  Aligned_cols=117  Identities=12%  Similarity=0.039  Sum_probs=96.0

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhcc-----CCCC---cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcc
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNI-----KPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT  118 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~-----~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (476)
                      +.........+..+|+|++|+..|.+++++     .|++   ...+.++|.+|..+|+|                     
T Consensus       287 ~~~ll~~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~---------------------  345 (429)
T 3qwp_A          287 VQESLKKIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLL---------------------  345 (429)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCH---------------------
T ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccH---------------------
Confidence            445556667788899999999999999976     3344   37889999999999999                     


Q ss_pred             hHHHHHHHHHHHhhcc-----ccc---hHHHHHHHHHHHhhhhHHHHHHHHhccccc-----CCCCchhhHHHHHHHHhh
Q 011861          119 HAELALKDAEKLLNLQ-----SNS---MKSHLLKANALILLERYDMARDAILSGLQV-----DPFSNPLQASLQNLERTT  185 (476)
Q Consensus       119 ~~~~a~~~~~~al~l~-----p~~---~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l-----~p~~~~~~~~~~~~~~~~  185 (476)
                        ++|+..+++++++.     |++   ...++++|.+|...|+|++|...|++++++     .|+++.+.....++....
T Consensus       346 --~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~nLa~~~~~~g~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~  423 (429)
T 3qwp_A          346 --EEALFYGTRTMEPYRIFFPGSHPVRGVQVMKVGKLQLHQGMFPQAMKNLRLAFDIMRVTHGREHSLIEDLILLLEECD  423 (429)
T ss_dssp             --HHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHH
T ss_pred             --HHHHHHHHHHHHhHHHHcCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHH
Confidence              99999999999763     444   458999999999999999999999999984     678888777666665544


Q ss_pred             h
Q 011861          186 A  186 (476)
Q Consensus       186 ~  186 (476)
                      .
T Consensus       424 ~  424 (429)
T 3qwp_A          424 A  424 (429)
T ss_dssp             H
T ss_pred             H
Confidence            4

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.21  E-value=1.1e-06  Score=78.50  Aligned_cols=103  Identities=12%  Similarity=-0.006  Sum_probs=87.4

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhcc---CCC----CcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCc
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNI---KPG----DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPT  117 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~---~p~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (476)
                      ..+..+...|..++..|++++|+..|.+++.+   .++    ...++.++|.+|..+|++                    
T Consensus        64 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~--------------------  123 (203)
T 3gw4_A           64 AEHRALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDL--------------------  123 (203)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCH--------------------
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCH--------------------
Confidence            34567788899999999999999999999998   442    346799999999999999                    


Q ss_pred             chHHHHHHHHHHHhhcccc------chHHHHHHHHHHHhhhhHHHHHHHHhcccccCCC
Q 011861          118 THAELALKDAEKLLNLQSN------SMKSHLLKANALILLERYDMARDAILSGLQVDPF  170 (476)
Q Consensus       118 ~~~~~a~~~~~~al~l~p~------~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~  170 (476)
                         ++|+..+++++++.+.      ...++..+|.++...|++++|...+.+++++...
T Consensus       124 ---~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~  179 (203)
T 3gw4_A          124 ---AGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNLLEAQQHWLRARDIFAE  179 (203)
T ss_dssp             ---HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             ---HHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHH
Confidence               9999999999987532      2346789999999999999999999999987543

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=98.21  E-value=8.1e-07  Score=88.76  Aligned_cols=99  Identities=16%  Similarity=0.144  Sum_probs=90.4

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhcc------CCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNI------KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA  120 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~------~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (476)
                      +..+...|..++..|+|++|+..|.+++++      .|....++.++|.+|..+|++                       
T Consensus        86 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-----------------------  142 (411)
T 4a1s_A           86 SAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTLKVMGRF-----------------------  142 (411)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH-----------------------
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCH-----------------------
Confidence            356778899999999999999999999998      577789999999999999999                       


Q ss_pred             HHHHHHHHHHhhc------cccchHHHHHHHHHHHhhhh-----------------HHHHHHHHhcccccC
Q 011861          121 ELALKDAEKLLNL------QSNSMKSHLLKANALILLER-----------------YDMARDAILSGLQVD  168 (476)
Q Consensus       121 ~~a~~~~~~al~l------~p~~~~~~~~~~~~~~~~~~-----------------~~~A~~~~~~~l~l~  168 (476)
                      ++|+..+++++++      .|....+++.+|.++...|+                 |++|+..+.+++++.
T Consensus       143 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~  213 (411)
T 4a1s_A          143 DEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLM  213 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            9999999999999      67778899999999999999                 999999999988764

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=98.20  E-value=5.4e-06  Score=86.52  Aligned_cols=106  Identities=9%  Similarity=-0.042  Sum_probs=93.9

Q ss_pred             HHHHHHhhHHHHH-------hccHH-------HHHHHHHHHhc-cCCCCcccccchhHHHHHHHhhhccCCCCCcccCCC
Q 011861           47 VFDLVQKGNRAFR-------ESNFE-------EAISNYSRANN-IKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL  111 (476)
Q Consensus        47 ~~~~~~~g~~~~~-------~~~~~-------~Ai~~y~~al~-~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  111 (476)
                      ...+...|..+..       .|+++       +|+..|.+|++ ++|++..+|..+|..+.+.|++              
T Consensus       272 ~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~--------------  337 (530)
T 2ooe_A          272 PDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKY--------------  337 (530)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCH--------------
T ss_pred             HHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCH--------------
Confidence            3455666776665       69987       99999999998 8999999999999999999999              


Q ss_pred             CCCCCcchHHHHHHHHHHHhhccccch-HHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhh
Q 011861          112 NGLDPTTHAELALKDAEKLLNLQSNSM-KSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  175 (476)
Q Consensus       112 ~~~~~~~~~~~a~~~~~~al~l~p~~~-~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~  175 (476)
                               ++|...|+++++++|+++ .+|...|..+...|++++|+..|.++++..|.+....
T Consensus       338 ---------~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~~~~~~~  393 (530)
T 2ooe_A          338 ---------EKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVY  393 (530)
T ss_dssp             ---------HHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTCCTHHH
T ss_pred             ---------HHHHHHHHHHhCccccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCCchHHH
Confidence                     999999999999999985 6999999999999999999999999999988765543

>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=98.20  E-value=1.3e-06  Score=79.82  Aligned_cols=106  Identities=8%  Similarity=-0.046  Sum_probs=81.8

Q ss_pred             HHHHHHhhHHHHHhc----cHHHHHHHHHHHhccCCCCcccccchhHHHHH----HHhhhccCCCCCcccCCCCCCCCcc
Q 011861           47 VFDLVQKGNRAFRES----NFEEAISNYSRANNIKPGDPIVLGNRSSAYIR----ISQFLKHRPPSASEYRPLNGLDPTT  118 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~----~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~  118 (476)
                      +.++...|..++. +    ++++|+..|.+|.+  ++++.+++++|.+|..    .+++                     
T Consensus        50 ~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~--~g~~~a~~~Lg~~y~~g~g~~~d~---------------------  105 (212)
T 3rjv_A           50 GDALALLAQLKIR-NPQQADYPQARQLAEKAVE--AGSKSGEIVLARVLVNRQAGATDV---------------------  105 (212)
T ss_dssp             HHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHH--TTCHHHHHHHHHHHTCGGGSSCCH---------------------
T ss_pred             HHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHH--CCCHHHHHHHHHHHHcCCCCccCH---------------------
Confidence            4556667777777 6    88889998888854  4678888888888876    6677                     


Q ss_pred             hHHHHHHHHHHHhhccc--cchHHHHHHHHHHHh----hhhHHHHHHHHhcccccCCCCchhhHHHH
Q 011861          119 HAELALKDAEKLLNLQS--NSMKSHLLKANALIL----LERYDMARDAILSGLQVDPFSNPLQASLQ  179 (476)
Q Consensus       119 ~~~~a~~~~~~al~l~p--~~~~~~~~~~~~~~~----~~~~~~A~~~~~~~l~l~p~~~~~~~~~~  179 (476)
                        .+|+..+++|++.+|  +++.+++.+|.+|..    .+++++|+..|+++.++ |.+..+...+.
T Consensus       106 --~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~-~~~~~a~~~Lg  169 (212)
T 3rjv_A          106 --AHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL-SRTGYAEYWAG  169 (212)
T ss_dssp             --HHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT-SCTTHHHHHHH
T ss_pred             --HHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc-CCCHHHHHHHH
Confidence              888888888888887  468888888888887    77888888888888877 45555444433

>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=98.19  E-value=1.9e-06  Score=70.54  Aligned_cols=84  Identities=10%  Similarity=0.105  Sum_probs=75.3

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC-------cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcch
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD-------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH  119 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~-------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (476)
                      ...+...|..++..|+|++|+..|.+++...|++       +.++.++|.+|..+|++                      
T Consensus        38 ~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~----------------------   95 (131)
T 1elr_A           38 MTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNSYFKEEKY----------------------   95 (131)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHTTCH----------------------
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHHHHHHHHhccH----------------------
Confidence            5667888999999999999999999999998877       88999999999999999                      


Q ss_pred             HHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhH
Q 011861          120 AELALKDAEKLLNLQSNSMKSHLLKANALILLERY  154 (476)
Q Consensus       120 ~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~  154 (476)
                       ++|+..++++++++| +......++.+...+++.
T Consensus        96 -~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~  128 (131)
T 1elr_A           96 -KDAIHFYNKSLAEHR-TPDVLKKCQQAEKILKEQ  128 (131)
T ss_dssp             -HHHHHHHHHHHHHCC-CHHHHHHHHHHHHHHHHC
T ss_pred             -HHHHHHHHHHHHhCC-CHHHHHHHHHHHHHHHHh
Confidence             999999999999999 578888888887666543

>4a0k_B E3 ubiquitin-protein ligase RBX1; ligase-DNA-binding protein-DNA complex, DNA-binding protein- complex; HET: DNA 3DR; 5.93A {Mus musculus}

Probab=98.12  E-value=3.6e-07  Score=75.00  Aligned_cols=45  Identities=20%  Similarity=0.495  Sum_probs=0.5

Q ss_pred             ccccccccccccCc-----------------E-EccCCCcccHhhHHHhhhcCCCCccccccc
Q 011861          202 DFDCTLCLKLLYEP-----------------I-TTPCGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (476)
Q Consensus       202 ~~~C~iC~~~~~~P-----------------~-~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~  246 (476)
                      +..|+||++.+.++                 + ..+|+|.||..||.+|+.....||+||..+
T Consensus        48 ~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~  110 (117)
T 4a0k_B           48 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREW  110 (117)
T ss_dssp             C--------------------------------------------------------------
T ss_pred             CCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCee
Confidence            46899999998764                 2 248999999999999999888999999875

>3t6p_A Baculoviral IAP repeat-containing protein 2; ring, BIR, CARD, UBA, apoptosis, ubiquitin ligase, SMAC/ ubiquitin, caspase, IAP family, SMAC mimetic; 1.90A {Homo sapiens} PDB: 1qbh_A 2l9m_A 3eb5_A 3eb6_A 4auq_B

Probab=98.10  E-value=6.9e-07  Score=87.68  Aligned_cols=43  Identities=30%  Similarity=0.893  Sum_probs=39.1

Q ss_pred             cccccccccccccCcEEccCCCc-ccHhhHHHhhhcCCCCcccccccc
Q 011861          201 DDFDCTLCLKLLYEPITTPCGHS-FCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       201 ~~~~C~iC~~~~~~P~~~~cgh~-fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      ++..|+||++.+.+|+.+||||+ ||..|+..+    ..||.||..+.
T Consensus       294 ~~~~C~IC~~~~~~~v~lpCgH~~fC~~C~~~~----~~CP~CR~~i~  337 (345)
T 3t6p_A          294 EERTCKVCMDKEVSVVFIPCGHLVVCQECAPSL----RKCPICRGIIK  337 (345)
T ss_dssp             TTCBCTTTSSSBCCEEEETTCCEEECTTTGGGC----SBCTTTCCBCC
T ss_pred             CCCCCCccCCcCCceEEcCCCChhHhHHHHhcC----CcCCCCCCCcc
Confidence            46799999999999999999999 999999876    67999999874

>1wim_A KIAA0161 protein; ring finger domain, UBCM4-interacting protein 4, UIP4, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=98.08  E-value=5.8e-07  Score=71.29  Aligned_cols=45  Identities=33%  Similarity=0.636  Sum_probs=37.0

Q ss_pred             cccccccccccccCcEEc---cCCCcccHhhHHHhhhc----C----CCCcc--cccc
Q 011861          201 DDFDCTLCLKLLYEPITT---PCGHSFCRSCLFQSMDR----G----NKCPL--CRAV  245 (476)
Q Consensus       201 ~~~~C~iC~~~~~~P~~~---~cgh~fC~~Cl~~~~~~----~----~~Cp~--cr~~  245 (476)
                      ..++|+||++.+..|..+   +|||+||..|+.+++..    +    ..||.  |+..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            477999999999888653   79999999999988752    2    25999  9886

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.05  E-value=3.2e-06  Score=80.72  Aligned_cols=97  Identities=8%  Similarity=-0.021  Sum_probs=86.0

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHH
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (476)
                      .-....|..+...|+|++|...|..++...|++. .++.+|.++++.++|                       ++|+..+
T Consensus       103 dl~LayA~~L~~~g~y~eA~~~l~~~~~~~p~~~-~~~~~a~l~~~~~r~-----------------------~dA~~~l  158 (282)
T 4f3v_A          103 AITMGFAACEAAQGNYADAMEALEAAPVAGSEHL-VAWMKAVVYGAAERW-----------------------TDVIDQV  158 (282)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTSSCCTTCHHH-HHHHHHHHHHHTTCH-----------------------HHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCchH-HHHHHHHHHHHcCCH-----------------------HHHHHHH
Confidence            4455678889999999999999999999999998 999999999999999                       9999999


Q ss_pred             HHHhhcc-ccc-hHHHHHHHHHHHhhhhHHHHHHHHhcccccC
Q 011861          128 EKLLNLQ-SNS-MKSHLLKANALILLERYDMARDAILSGLQVD  168 (476)
Q Consensus       128 ~~al~l~-p~~-~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~  168 (476)
                      +++.... |.. ..+++.+|.++..+|++++|+..|.+++..+
T Consensus       159 ~~a~~~~d~~~~~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~  201 (282)
T 4f3v_A          159 KSAGKWPDKFLAGAAGVAHGVAAANLALFTEAERRLTEANDSP  201 (282)
T ss_dssp             TTGGGCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTST
T ss_pred             HHhhccCCcccHHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCC
Confidence            9888764 322 4589999999999999999999999998543

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=98.04  E-value=6.6e-06  Score=68.18  Aligned_cols=110  Identities=11%  Similarity=0.042  Sum_probs=92.0

Q ss_pred             HHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhcc-c-
Q 011861           58 FRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQ-S-  135 (476)
Q Consensus        58 ~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~-p-  135 (476)
                      ........+...|.+++..++....+.++.|.++.+..+.                    ..+.+++..++..+.-+ | 
T Consensus        12 ~~~~~l~~~~~~y~~e~~~~~~s~~~~F~yAw~Lv~S~~~--------------------~d~~~GI~lLe~l~~~~~p~   71 (126)
T 1nzn_A           12 VSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYN--------------------DDIRKGIVLLEELLPKGSKE   71 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSH--------------------HHHHHHHHHHHHHTTTSCHH
T ss_pred             CCHHHHHHHHHHHHHHhccCCCcHHHHHHHHHHHHcCCCH--------------------HHHHHHHHHHHHHHhcCCcc
Confidence            3445567778888888888888889999999999875544                    23367999999999987 6 


Q ss_pred             cchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhh
Q 011861          136 NSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  187 (476)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~  187 (476)
                      ..-..+|.+|.+++.+|+|+.|+..+...|+.+|+|..+......+++++..
T Consensus        72 ~~Rd~lY~LAvg~yklg~Y~~A~~~~~~lL~~eP~n~QA~~Lk~~i~~~i~k  123 (126)
T 1nzn_A           72 EQRDYVFYLAVGNYRLKEYEKALKYVRGLLQTEPQNNQAKELERLIDKAMKK  123 (126)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHh
Confidence            6778999999999999999999999999999999999998888887776653

>3m62_A Ubiquitin conjugation factor E4; armadillo-like repeats, UBL conjugation pathway, DNA damage, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae} PDB: 3m63_A* 2qiz_A 2qj0_A

Probab=98.02  E-value=4.1e-06  Score=91.00  Aligned_cols=74  Identities=16%  Similarity=0.182  Sum_probs=65.2

Q ss_pred             CCCCcccccccccccccCcEEccCC-CcccHhhHHHhhhcCCCCcccccccccCCCCcccchhHHHHHHHhCchHHh
Q 011861          197 PERTDDFDCTLCLKLLYEPITTPCG-HSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYA  272 (476)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~P~~~~cg-h~fC~~Cl~~~~~~~~~Cp~cr~~~~~~~~~~~~n~~l~~~~~~~~~~~~~  272 (476)
                      ...+++|.|||..++|.+||+++.| ++|.+.+|.+|+..+..||..|+++..  ..+.+|..|++.|++|..+...
T Consensus       886 ~~iP~~F~cPIs~~lM~DPVilpsG~~TydR~~I~~wl~~~~tdP~Tr~~L~~--~~liPN~~Lk~~I~~w~~~~~~  960 (968)
T 3m62_A          886 GDVPDEFLDPLMYTIMKDPVILPASKMNIDRSTIKAHLLSDSTDPFNRMPLKL--EDVTPNEELRQKILCFKKQKKE  960 (968)
T ss_dssp             CCSCGGGBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCG--GGCEECHHHHHHHHHHHHHHHT
T ss_pred             cCCcHHhCCcchhhHHhCCeEcCCCCEEECHHHHHHHHhcCCCCCCCCCCCCc--ccccccHHHHHHHHHHHHHHHh
Confidence            4567899999999999999999998 699999999999988899999999843  5788999999999999765443

>2d8s_A Cellular modulator of immune recognition; C-MIR, march8, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.98  E-value=6e-06  Score=63.06  Aligned_cols=49  Identities=27%  Similarity=0.549  Sum_probs=40.6

Q ss_pred             CCcccccccccccc--cCcEEccCC-----CcccHhhHHHhhhcC--CCCcccccccc
Q 011861          199 RTDDFDCTLCLKLL--YEPITTPCG-----HSFCRSCLFQSMDRG--NKCPLCRAVLF  247 (476)
Q Consensus       199 ~~~~~~C~iC~~~~--~~P~~~~cg-----h~fC~~Cl~~~~~~~--~~Cp~cr~~~~  247 (476)
                      ..+...|.||++.+  .+++.+||.     |.|+..||.+|+...  ..||+||..+.
T Consensus        12 ~~~~~~C~IC~~~~~~~~~l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~   69 (80)
T 2d8s_A           12 PSSQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFI   69 (80)
T ss_dssp             CTTSCCCSSSCCCCCSSSCEECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCC
T ss_pred             CCCCCCCeEcCccccCCCeeEeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeee
Confidence            34566899999876  467888996     999999999999854  47999999874

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=97.96  E-value=8.5e-06  Score=80.45  Aligned_cols=103  Identities=15%  Similarity=0.108  Sum_probs=89.2

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc------ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcch
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP------IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH  119 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (476)
                      .+..+...|..++..|+|++|+..|.+++.+.|...      .++.++|.++...|++                      
T Consensus        52 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~G~~----------------------  109 (373)
T 1hz4_A           52 RIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFL----------------------  109 (373)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH----------------------
T ss_pred             HHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHCCCH----------------------
Confidence            455677889999999999999999999999876543      3367899999999999                      


Q ss_pred             HHHHHHHHHHHhhcc--------ccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCC
Q 011861          120 AELALKDAEKLLNLQ--------SNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (476)
Q Consensus       120 ~~~a~~~~~~al~l~--------p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~  171 (476)
                       ++|+..+++++++.        |....++..+|.++...|++++|...+.+++.+.+..
T Consensus       110 -~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~  168 (373)
T 1hz4_A          110 -QTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSY  168 (373)
T ss_dssp             -HHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTS
T ss_pred             -HHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcc
Confidence             99999999999986        3456688889999999999999999999999987754

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.89  E-value=1.5e-05  Score=64.07  Aligned_cols=83  Identities=13%  Similarity=-0.047  Sum_probs=72.1

Q ss_pred             ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhcc-------ccchHHHHHHHHHHHhhhhH
Q 011861           82 IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQ-------SNSMKSHLLKANALILLERY  154 (476)
Q Consensus        82 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~-------p~~~~~~~~~~~~~~~~~~~  154 (476)
                      .-.+.+|..+++.++|                       ..|+.-++.|++..       +.....+..+|.++..+|++
T Consensus         6 ~dc~~lG~~~~~~~~y-----------------------~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~   62 (104)
T 2v5f_A            6 EDCFELGKVAYTEADY-----------------------YHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDL   62 (104)
T ss_dssp             HHHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHccch-----------------------HHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCH
Confidence            3456789999999999                       99999999999874       34677899999999999999


Q ss_pred             HHHHHHHhcccccCCCCchhhHHHHHHHHhhhh
Q 011861          155 DMARDAILSGLQVDPFSNPLQASLQNLERTTAS  187 (476)
Q Consensus       155 ~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~  187 (476)
                      +.|+..++++++++|++..+..++..+++.+..
T Consensus        63 ~~A~~~~~~al~l~P~~~~~~~n~~~~~~~~~~   95 (104)
T 2v5f_A           63 DKALLLTKKLLELDPEHQRANGNLKYFEYIMAK   95 (104)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCCHHHHhhHHHHHHHHHh
Confidence            999999999999999999988777777665544

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.88  E-value=1.4e-05  Score=63.11  Aligned_cols=70  Identities=14%  Similarity=0.104  Sum_probs=64.2

Q ss_pred             hhHHHHHHhhHHHHHhcc---HHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHH
Q 011861           45 THVFDLVQKGNRAFRESN---FEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~---~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (476)
                      .++..+...|+.++..++   ..+|...+.+|++++|+++.+++.+|..+++.|+|                       +
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y-----------------------~   60 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRF-----------------------Q   60 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------H
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCH-----------------------H
Confidence            346778889999986665   79999999999999999999999999999999999                       9


Q ss_pred             HHHHHHHHHhhccccc
Q 011861          122 LALKDAEKLLNLQSNS  137 (476)
Q Consensus       122 ~a~~~~~~al~l~p~~  137 (476)
                      +|+..++++++.+|..
T Consensus        61 ~Ai~~w~~~l~~~p~~   76 (93)
T 3bee_A           61 EAIDTWVLLLDSNDPN   76 (93)
T ss_dssp             HHHHHHHHHHTCCCTT
T ss_pred             HHHHHHHHHHhhCCCC
Confidence            9999999999999984

>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=97.87  E-value=1e-05  Score=76.76  Aligned_cols=88  Identities=24%  Similarity=0.244  Sum_probs=80.5

Q ss_pred             ccHHHHHHHHHHHhccCCC--CcccccchhHHHHHH-----HhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhc
Q 011861           61 SNFEEAISNYSRANNIKPG--DPIVLGNRSSAYIRI-----SQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNL  133 (476)
Q Consensus        61 ~~~~~Ai~~y~~al~~~p~--~~~~~~~~a~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l  133 (476)
                      +...+|...+.+|+++||+  +..+|..+|..|.+.     |+.                       ++|.+.|++|+++
T Consensus       177 ~~l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~-----------------------ekA~~~ferAL~L  233 (301)
T 3u64_A          177 DTVHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGM-----------------------EKAHTAFEHLTRY  233 (301)
T ss_dssp             HHHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCH-----------------------HHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCH-----------------------HHHHHHHHHHHHh
Confidence            3457899999999999999  678999999999995     899                       9999999999999


Q ss_pred             cccc-hHHHHHHHHHHHh-hhhHHHHHHHHhcccccCCCC
Q 011861          134 QSNS-MKSHLLKANALIL-LERYDMARDAILSGLQVDPFS  171 (476)
Q Consensus       134 ~p~~-~~~~~~~~~~~~~-~~~~~~A~~~~~~~l~l~p~~  171 (476)
                      +|+. ...++..|..++. .|++++|...+++++..+|..
T Consensus       234 nP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~p~~  273 (301)
T 3u64_A          234 CSAHDPDHHITYADALCIPLNNRAGFDEALDRALAIDPES  273 (301)
T ss_dssp             CCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCCGGG
T ss_pred             CCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCCC
Confidence            9975 9999999999987 599999999999999998874

>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=97.86  E-value=1.9e-05  Score=67.00  Aligned_cols=89  Identities=11%  Similarity=-0.002  Sum_probs=80.7

Q ss_pred             hhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHH----HHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHH
Q 011861           53 KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIR----ISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (476)
Q Consensus        53 ~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (476)
                      .|..++..+.+++|+..|.+|.+.  +++.+++++|.+|..    .+++                       .+|+..++
T Consensus        31 lg~~y~~g~~~~~A~~~~~~Aa~~--g~~~a~~~Lg~~y~~G~g~~~d~-----------------------~~A~~~~~   85 (138)
T 1klx_A           31 LSLVSNSQINKQKLFQYLSKACEL--NSGNGCRFLGDFYENGKYVKKDL-----------------------RKAAQYYS   85 (138)
T ss_dssp             HHHHTCTTSCHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHCSSSCCCH-----------------------HHHHHHHH
T ss_pred             HHHHHHcCCCHHHHHHHHHHHHcC--CCHHHHHHHHHHHHcCCCCCccH-----------------------HHHHHHHH
Confidence            677788888999999999999997  689999999999988    7788                       99999999


Q ss_pred             HHhhccccchHHHHHHHHHHHh----hhhHHHHHHHHhcccccC
Q 011861          129 KLLNLQSNSMKSHLLKANALIL----LERYDMARDAILSGLQVD  168 (476)
Q Consensus       129 ~al~l~p~~~~~~~~~~~~~~~----~~~~~~A~~~~~~~l~l~  168 (476)
                      +|.+.  .++.+++.+|.+|..    .+++++|+..|+++.+..
T Consensus        86 ~Aa~~--g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           86 KACGL--NDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHT--TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHcC--CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            99887  689999999999998    899999999999998763

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=97.85  E-value=1.5e-05  Score=78.72  Aligned_cols=97  Identities=13%  Similarity=0.127  Sum_probs=84.6

Q ss_pred             HHHHhhHHHHHhccHHHHHHHHHHHhccC--------CCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchH
Q 011861           49 DLVQKGNRAFRESNFEEAISNYSRANNIK--------PGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA  120 (476)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~--------p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (476)
                      .+...|..++..|+|++|+..|.+++++.        |....++.++|.+|...|++                       
T Consensus        95 ~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~-----------------------  151 (373)
T 1hz4_A           95 SLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARL-----------------------  151 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCH-----------------------
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCH-----------------------
Confidence            35667888999999999999999999975        33446788899999999999                       


Q ss_pred             HHHHHHHHHHhhcccc-----chHHHHHHHHHHHhhhhHHHHHHHHhcccccC
Q 011861          121 ELALKDAEKLLNLQSN-----SMKSHLLKANALILLERYDMARDAILSGLQVD  168 (476)
Q Consensus       121 ~~a~~~~~~al~l~p~-----~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~  168 (476)
                      ++|...+++++++.+.     ...++..+|.++...|++++|...+.+++.+.
T Consensus       152 ~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~  204 (373)
T 1hz4_A          152 DEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLL  204 (373)
T ss_dssp             HHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            9999999999998764     34678899999999999999999999998764

>2ct0_A Non-SMC element 1 homolog; ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.70  E-value=8.2e-05  Score=55.56  Aligned_cols=48  Identities=21%  Similarity=0.512  Sum_probs=39.4

Q ss_pred             CcccccccccccccCcEE-ccCCCcccHhhHHHhhhcC--CCCcccccccc
Q 011861          200 TDDFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRG--NKCPLCRAVLF  247 (476)
Q Consensus       200 ~~~~~C~iC~~~~~~P~~-~~cgh~fC~~Cl~~~~~~~--~~Cp~cr~~~~  247 (476)
                      .....|.||...+..-.. ..|+|.|+..||.+|+...  ..||.||..+.
T Consensus        13 ~~i~~C~IC~~~i~~g~~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~   63 (74)
T 2ct0_A           13 DAVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP   63 (74)
T ss_dssp             SSSCBCSSSCCBCSSSEECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCC
T ss_pred             CCCCcCcchhhHcccCCccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCC
Confidence            345689999998874443 3899999999999999866  77999998763

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.65  E-value=3.8e-05  Score=79.47  Aligned_cols=105  Identities=8%  Similarity=-0.077  Sum_probs=87.5

Q ss_pred             CCchhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhcc--------CCCCcccccchhHHHHHHHhhhccCCCCCcccCC
Q 011861           39 LPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNI--------KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRP  110 (476)
Q Consensus        39 ~~~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~--------~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  110 (476)
                      +.++....+..+...|..|..+|+|++|+.+|.+++.+        +|.-...+.|+|.+|..+|+|             
T Consensus       343 lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~~G~~-------------  409 (490)
T 3n71_A          343 FADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRAGLTNWHAGHI-------------  409 (490)
T ss_dssp             BCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHTTCH-------------
T ss_pred             cCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCH-------------
Confidence            34445556677788899999999999999999999987        333348899999999999999             


Q ss_pred             CCCCCCcchHHHHHHHHHHHhhc-----cccch---HHHHHHHHHHHhhhhHHHHHHHHhcccc
Q 011861          111 LNGLDPTTHAELALKDAEKLLNL-----QSNSM---KSHLLKANALILLERYDMARDAILSGLQ  166 (476)
Q Consensus       111 ~~~~~~~~~~~~a~~~~~~al~l-----~p~~~---~~~~~~~~~~~~~~~~~~A~~~~~~~l~  166 (476)
                                ++|+..+++|+++     .|+++   +....++.++..++.|.+|...|.++.+
T Consensus       410 ----------~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          410 ----------EVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             ----------HHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ----------HHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                      9999999999985     35554   4667899999999999999999988754

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=97.64  E-value=4.6e-05  Score=78.56  Aligned_cols=93  Identities=14%  Similarity=0.041  Sum_probs=55.3

Q ss_pred             HHHhhHHHHHhc---cHHHHHHHHHHHhccCCCCcccccchhHHHHH----HHhhhccCCCCCcccCCCCCCCCcchHHH
Q 011861           50 LVQKGNRAFRES---NFEEAISNYSRANNIKPGDPIVLGNRSSAYIR----ISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (476)
Q Consensus        50 ~~~~g~~~~~~~---~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (476)
                      +...|..++..|   ++++|+..|.+|++.  +++.+++++|.+|..    .+++                       ++
T Consensus       331 ~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~--~~~~a~~~Lg~~y~~g~g~~~~~-----------------------~~  385 (490)
T 2xm6_A          331 QANLGAIYFRLGSEEEHKKAVEWFRKAAAK--GEKAAQFNLGNALLQGKGVKKDE-----------------------QQ  385 (490)
T ss_dssp             HHHHHHHHHHSCCHHHHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHTSSSCCCH-----------------------HH
T ss_pred             HHHHHHHHHhCCCcccHHHHHHHHHHHHHC--CCHHHHHHHHHHHHcCCCCCCCH-----------------------HH
Confidence            334444444433   566666666666655  355666666666655    4555                       66


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHh----hhhHHHHHHHHhcccccCC
Q 011861          123 ALKDAEKLLNLQSNSMKSHLLKANALIL----LERYDMARDAILSGLQVDP  169 (476)
Q Consensus       123 a~~~~~~al~l~p~~~~~~~~~~~~~~~----~~~~~~A~~~~~~~l~l~p  169 (476)
                      |+..+++|++.+  ++.+++.+|.+|..    .+++++|...|+++++.+|
T Consensus       386 A~~~~~~A~~~~--~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~  434 (490)
T 2xm6_A          386 AAIWMRKAAEQG--LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTNDM  434 (490)
T ss_dssp             HHHHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhCC--CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCC
Confidence            666666666543  45666666666665    5666666666666666663

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.61  E-value=6.2e-05  Score=64.58  Aligned_cols=79  Identities=13%  Similarity=0.016  Sum_probs=68.8

Q ss_pred             HHHHHHhhHHHHHhc---cHHHHHHHHHHHhccC-C-CCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHH
Q 011861           47 VFDLVQKGNRAFRES---NFEEAISNYSRANNIK-P-GDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~---~~~~Ai~~y~~al~~~-p-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (476)
                      .+..++.|..+.+.+   +.++||..+.+.++.+ | ++.++++++|.+|+++++|                       .
T Consensus        32 ~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y-----------------------~   88 (152)
T 1pc2_A           32 KSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEY-----------------------E   88 (152)
T ss_dssp             HHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCH-----------------------H
T ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCH-----------------------H
Confidence            455667777888766   8889999999999998 7 5689999999999999999                       9


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHH
Q 011861          122 LALKDAEKLLNLQSNSMKSHLLKANAL  148 (476)
Q Consensus       122 ~a~~~~~~al~l~p~~~~~~~~~~~~~  148 (476)
                      +|.+.++++++++|+|.++...+..+-
T Consensus        89 ~A~~y~~~lL~ieP~n~QA~~Lk~~ie  115 (152)
T 1pc2_A           89 KALKYVRGLLQTEPQNNQAKELERLID  115 (152)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCCHHHHHHHHHHH
Confidence            999999999999999988877665554

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=97.55  E-value=0.00011  Score=75.07  Aligned_cols=103  Identities=11%  Similarity=-0.043  Sum_probs=77.6

Q ss_pred             HHHHhhHHHHHhc---cHHHHHHHHHHHhccCCCCcccccchhHHHHHH----HhhhccCCCCCcccCCCCCCCCcchHH
Q 011861           49 DLVQKGNRAFRES---NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRI----SQFLKHRPPSASEYRPLNGLDPTTHAE  121 (476)
Q Consensus        49 ~~~~~g~~~~~~~---~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (476)
                      .+...|..+...|   ++++|+..|.++.+..|.++..++++|.+|...    +++                       +
T Consensus       178 a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~-----------------------~  234 (452)
T 3e4b_A          178 CYVELATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDE-----------------------K  234 (452)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCH-----------------------H
T ss_pred             HHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCH-----------------------H
Confidence            4566677777788   888888888888888888877778888887654    456                       7


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHH-H--HhhhhHHHHHHHHhcccccCCCCchhhHHHH
Q 011861          122 LALKDAEKLLNLQSNSMKSHLLKANA-L--ILLERYDMARDAILSGLQVDPFSNPLQASLQ  179 (476)
Q Consensus       122 ~a~~~~~~al~l~p~~~~~~~~~~~~-~--~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~  179 (476)
                      +|+..|+++.   |+++.+++.+|.+ +  ...+++++|+..|+++.+.+  +..+...+.
T Consensus       235 ~A~~~~~~aa---~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g--~~~A~~~Lg  290 (452)
T 3e4b_A          235 TAQALLEKIA---PGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD--QPRAELLLG  290 (452)
T ss_dssp             HHHHHHHHHG---GGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT--CHHHHHHHH
T ss_pred             HHHHHHHHHc---CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC--CHHHHHHHH
Confidence            8888888887   7888888888887 4  46788888888888877543  455444443

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=97.54  E-value=0.0002  Score=69.18  Aligned_cols=100  Identities=9%  Similarity=-0.037  Sum_probs=86.4

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCC--CCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKP--GDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      ..+...|..++..|++++|+..+.+++..+|  ++.+++...+.+|+++|+.                       +.|.+
T Consensus       101 ~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~-----------------------d~A~k  157 (310)
T 3mv2_B          101 YELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNV-----------------------STAST  157 (310)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCH-----------------------HHHHH
Confidence            4456889999999999999999999999997  8889999999999999999                       99999


Q ss_pred             HHHHHhhcccc------chHHHHHHHHHHHhhh--hHHHHHHHHhcccccCCC
Q 011861          126 DAEKLLNLQSN------SMKSHLLKANALILLE--RYDMARDAILSGLQVDPF  170 (476)
Q Consensus       126 ~~~~al~l~p~------~~~~~~~~~~~~~~~~--~~~~A~~~~~~~l~l~p~  170 (476)
                      .+++..+.+|+      .....+.-|++.+..|  ++.+|...|++..+..|+
T Consensus       158 ~l~~~~~~~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~p~  210 (310)
T 3mv2_B          158 IFDNYTNAIEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTFPT  210 (310)
T ss_dssp             HHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTSCS
T ss_pred             HHHHHHhcCccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhCCC
Confidence            99999999993      3334444465577667  999999999999888776

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=97.52  E-value=0.00015  Score=61.08  Aligned_cols=89  Identities=11%  Similarity=0.041  Sum_probs=73.5

Q ss_pred             CCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccc-cchHHHHHHHHHHHhhhhHHHH
Q 011861           79 GDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQS-NSMKSHLLKANALILLERYDMA  157 (476)
Q Consensus        79 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p-~~~~~~~~~~~~~~~~~~~~~A  157 (476)
                      -.....++.|.++.+..+.                    ..+.+++..++..+.-+| ..-..+|.+|.+++.+|+|++|
T Consensus        37 vs~~t~F~YAw~Lv~S~~~--------------------~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~A   96 (144)
T 1y8m_A           37 ATIQSRFNYAWGLIKSTDV--------------------NDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMA   96 (144)
T ss_dssp             SCHHHHHHHHHHHHHSSSH--------------------HHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCH--------------------HHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHH
Confidence            3556777777777765543                    233889999999998888 4667899999999999999999


Q ss_pred             HHHHhcccccCCCCchhhHHHHHHHHhhhh
Q 011861          158 RDAILSGLQVDPFSNPLQASLQNLERTTAS  187 (476)
Q Consensus       158 ~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~  187 (476)
                      +.+....|+.+|+|..+......+++++..
T Consensus        97 r~y~d~lL~~eP~n~QA~~Lk~~Ie~~i~k  126 (144)
T 1y8m_A           97 KRYVDTLFEHERNNKQVGALKSMVEDKIQK  126 (144)
T ss_dssp             HHHHHHHHHTCCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCcHHHHHHHHHHHHHHHH
Confidence            999999999999999999888888877754

>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=97.49  E-value=0.00016  Score=60.06  Aligned_cols=67  Identities=12%  Similarity=0.076  Sum_probs=60.6

Q ss_pred             HHHHHHHHHHhhcccc-chHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhh
Q 011861          121 ELALKDAEKLLNLQSN-SMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  187 (476)
Q Consensus       121 ~~a~~~~~~al~l~p~-~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~  187 (476)
                      .+++..+...++.+|. .-..+|.+|.+++.+|+|+.|+......|+.+|+|..+......+++++..
T Consensus        60 ~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~eP~N~QA~~Lk~~Ie~ki~k  127 (134)
T 3o48_A           60 RLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVGALKSMVEDKIQK  127 (134)
T ss_dssp             HHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHHHh
Confidence            7899999999988884 577899999999999999999999999999999999999888888887764

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=97.46  E-value=0.00026  Score=72.81  Aligned_cols=103  Identities=11%  Similarity=-0.041  Sum_probs=83.6

Q ss_pred             hhHHHHHHhhHHHHH----hccHHHHHHHHHHHhccCCCCcccccchhHHHHH----HHhhhccCCCCCcccCCCCCCCC
Q 011861           45 THVFDLVQKGNRAFR----ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIR----ISQFLKHRPPSASEYRPLNGLDP  116 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~----~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~----~~~~~~~~~~~~~~~~~~~~~~~  116 (476)
                      ..+..+...|..++.    .+++++|+..|.++.+.  +++.+++.+|.+|..    .+++                   
T Consensus        37 g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~--~~~~a~~~Lg~~y~~g~g~~~~~-------------------   95 (490)
T 2xm6_A           37 GEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQ--GYTPAEYVLGLRYMNGEGVPQDY-------------------   95 (490)
T ss_dssp             TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHTSSSCCCH-------------------
T ss_pred             CCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHC--CCHHHHHHHHHHHHcCCCCCCCH-------------------
Confidence            346777888888888    89999999999999876  578889999999888    7788                   


Q ss_pred             cchHHHHHHHHHHHhhccccchHHHHHHHHHHHh----hhhHHHHHHHHhcccccCCCCchhhH
Q 011861          117 TTHAELALKDAEKLLNLQSNSMKSHLLKANALIL----LERYDMARDAILSGLQVDPFSNPLQA  176 (476)
Q Consensus       117 ~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~----~~~~~~A~~~~~~~l~l~p~~~~~~~  176 (476)
                          ++|+..+++|.+.  +++.+++.+|.+|..    .+++++|+..|+++.+.  .+..+..
T Consensus        96 ----~~A~~~~~~a~~~--~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~--~~~~a~~  151 (490)
T 2xm6_A           96 ----AQAVIWYKKAALK--GLPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQ--GRDSGQQ  151 (490)
T ss_dssp             ----HHHHHHHHHHHHT--TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT--TCHHHHH
T ss_pred             ----HHHHHHHHHHHHC--CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC--CCHHHHH
Confidence                8999999998765  578888999998887    78899999999988764  3444433

>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=97.45  E-value=0.00025  Score=80.35  Aligned_cols=104  Identities=14%  Similarity=0.156  Sum_probs=82.7

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      ...+...|+.++..|+|++|+.+|++|        ..|..+|.+|.++|++                       ++|++.
T Consensus      1195 ~ad~~~iGd~le~eg~YeeA~~~Y~kA--------~ny~rLA~tLvkLge~-----------------------q~AIEa 1243 (1630)
T 1xi4_A         1195 NAHIQQVGDRCYDEKMYDAAKLLYNNV--------SNFGRLASTLVHLGEY-----------------------QAAVDG 1243 (1630)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHhh--------hHHHHHHHHHHHhCCH-----------------------HHHHHH
Confidence            346778999999999999999999996        5899999999999999                       999999


Q ss_pred             HHHHhhccc-------------------------cchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          127 AEKLLNLQS-------------------------NSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       127 ~~~al~l~p-------------------------~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      +++|....+                         .++.-+..++..|...|.|++|+..+++++.+++.+......+..+
T Consensus      1244 arKA~n~~aWkev~~acve~~Ef~LA~~cgl~Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiL 1323 (1630)
T 1xi4_A         1244 ARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAIL 1323 (1630)
T ss_pred             HHHhCCHHHHHHHHHHHhhhhHHHHHHHHHHhhhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHH
Confidence            999855433                         1333445666667788999999999999999988777666444433

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=97.43  E-value=0.0003  Score=71.92  Aligned_cols=99  Identities=10%  Similarity=0.015  Sum_probs=82.2

Q ss_pred             HHhhHHHHHh----ccHHHHHHHHHHHhccCCCCcccccchhHHHH---HHHhhhccCCCCCcccCCCCCCCCcchHHHH
Q 011861           51 VQKGNRAFRE----SNFEEAISNYSRANNIKPGDPIVLGNRSSAYI---RISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (476)
Q Consensus        51 ~~~g~~~~~~----~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (476)
                      ...|..|...    +++++|+..|.++.   |+++.+++++|.+|+   ..+++                       ++|
T Consensus       217 ~~Lg~~y~~g~~~~~d~~~A~~~~~~aa---~g~~~a~~~Lg~~~~~~~~~~d~-----------------------~~A  270 (452)
T 3e4b_A          217 DSVARVLGDATLGTPDEKTAQALLEKIA---PGYPASWVSLAQLLYDFPELGDV-----------------------EQM  270 (452)
T ss_dssp             HHHHHHHTCGGGSSCCHHHHHHHHHHHG---GGSTHHHHHHHHHHHHSGGGCCH-----------------------HHH
T ss_pred             HHHHHHHhCCCCCCCCHHHHHHHHHHHc---CCCHHHHHHHHHHHHhCCCCCCH-----------------------HHH
Confidence            4455556544    79999999999998   999999999999944   56677                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHhhh-----hHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          124 LKDAEKLLNLQSNSMKSHLLKANALILLE-----RYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       124 ~~~~~~al~l~p~~~~~~~~~~~~~~~~~-----~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      +..+++|.+.  +++.+++.+|.+|. .|     ++++|+..|+++.   +.+..+...+..+
T Consensus       271 ~~~~~~Aa~~--g~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa---~g~~~A~~~Lg~~  327 (452)
T 3e4b_A          271 MKYLDNGRAA--DQPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV---GREVAADYYLGQI  327 (452)
T ss_dssp             HHHHHHHHHT--TCHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT---TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHC--CCHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh---CCCHHHHHHHHHH
Confidence            9999999865  48999999999998 55     9999999999998   7777776655544

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=97.42  E-value=0.00025  Score=61.30  Aligned_cols=93  Identities=9%  Similarity=0.035  Sum_probs=78.3

Q ss_pred             HHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcc---------cccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcch
Q 011861           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPI---------VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH  119 (476)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (476)
                      .+++....++..|.|+.|+..++.++.+..+++.         ++...|.+++..++|                      
T Consensus        22 ~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~ey----------------------   79 (167)
T 3ffl_A           22 NVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEY----------------------   79 (167)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCH----------------------
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHH----------------------
Confidence            3677888999999999999999998887655544         788999999999999                      


Q ss_pred             HHHHHHHHHHHhhccc---cc----------------------hHHHHHHHHHHHhhhhHHHHHHHHhcc
Q 011861          120 AELALKDAEKLLNLQS---NS----------------------MKSHLLKANALILLERYDMARDAILSG  164 (476)
Q Consensus       120 ~~~a~~~~~~al~l~p---~~----------------------~~~~~~~~~~~~~~~~~~~A~~~~~~~  164 (476)
                       .+|...|++|+.+..   ++                      .+..|..|.||..+|++.+|+..++..
T Consensus        80 -rrA~~~y~qALq~~k~l~k~~s~~~~~~~~ss~p~s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~I  148 (167)
T 3ffl_A           80 -RNAVSKYTMALQQKKALSKTSKVRPSTGNSASTPQSQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGI  148 (167)
T ss_dssp             -HHHHHHHHHHHHHHHCC--------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTS
T ss_pred             -HHHHHHHHHHHHHHHHHhcCCCccccccccCCCcccccccchHHHHHHHHHHHHHHCCHHHHHHHHhcC
Confidence             999999999877531   11                      257799999999999999999988865

>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=97.40  E-value=0.00016  Score=73.04  Aligned_cols=96  Identities=16%  Similarity=0.196  Sum_probs=61.4

Q ss_pred             HHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHH
Q 011861           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (476)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (476)
                      .+..-|..++..|+|++|+.+|+++        ..|..+|.++.++|+|                       ++|++.++
T Consensus       124 a~~~IGd~~~~~g~yeeA~~~Y~~a--------~n~~~LA~~L~~Lg~y-----------------------q~AVea~~  172 (449)
T 1b89_A          124 HIQQVGDRCYDEKMYDAAKLLYNNV--------SNFGRLASTLVHLGEY-----------------------QAAVDGAR  172 (449)
T ss_dssp             -------------CTTTHHHHHHHT--------TCHHHHHHHHHTTTCH-----------------------HHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHh--------hhHHHHHHHHHHhccH-----------------------HHHHHHHH
Confidence            6778888889999999999999876        5788889999999999                       88888888


Q ss_pred             HHhhccccchHHHHH------------------------------HHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHH
Q 011861          129 KLLNLQSNSMKSHLL------------------------------KANALILLERYDMARDAILSGLQVDPFSNPLQASL  178 (476)
Q Consensus       129 ~al~l~p~~~~~~~~------------------------------~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~  178 (476)
                      +|-     +++.|..                              +...|...|++++|+..+++++.+++.+-.+...+
T Consensus       173 KA~-----~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~le~ah~~~ftel  247 (449)
T 1b89_A          173 KAN-----STRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTEL  247 (449)
T ss_dssp             HHT-----CHHHHHHHHHHHHHTTCHHHHHHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHH
T ss_pred             HcC-----CchhHHHHHHHHHHcCcHHHHHHHHHHHHhCHhhHHHHHHHHHHCCCHHHHHHHHHHHhCCcHHHHHHHHHH
Confidence            882     3332222                              33556677888888888888888887776665555


Q ss_pred             HH
Q 011861          179 QN  180 (476)
Q Consensus       179 ~~  180 (476)
                      ..
T Consensus       248 ~i  249 (449)
T 1b89_A          248 AI  249 (449)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=97.35  E-value=0.00025  Score=68.50  Aligned_cols=98  Identities=11%  Similarity=-0.017  Sum_probs=82.5

Q ss_pred             hhHHHHHhc--cHHHHHHHHHHHhccCCC--CcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHH
Q 011861           53 KGNRAFRES--NFEEAISNYSRANNIKPG--DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (476)
Q Consensus        53 ~g~~~~~~~--~~~~Ai~~y~~al~~~p~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (476)
                      .|...+..|  ++++|+..|+++....|+  .+..+.+   ++.++|+|                       ++|.+.++
T Consensus       182 ea~v~l~~g~~~~q~A~~~f~El~~~~p~~~~~~lLln---~~~~~g~~-----------------------~eAe~~L~  235 (310)
T 3mv2_B          182 ESYIKFATNKETATSNFYYYEELSQTFPTWKTQLGLLN---LHLQQRNI-----------------------AEAQGIVE  235 (310)
T ss_dssp             HHHHHHHHTCSTTTHHHHHHHHHHTTSCSHHHHHHHHH---HHHHHTCH-----------------------HHHHHHHH
T ss_pred             HHHHHHHhCCccHHHHHHHHHHHHHhCCCcccHHHHHH---HHHHcCCH-----------------------HHHHHHHH
Confidence            454566666  999999999999998886  3445555   89999999                       99999999


Q ss_pred             HHhhc----------cccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHH
Q 011861          129 KLLNL----------QSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASL  178 (476)
Q Consensus       129 ~al~l----------~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~  178 (476)
                      ++++.          +|+++.++.++..+...+|+  +|...+.++.+.+|+++.+....
T Consensus       236 ~l~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp~i~d~~  293 (310)
T 3mv2_B          236 LLLSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHAFIKHHQ  293 (310)
T ss_dssp             HHHSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCHHHHHHH
T ss_pred             HHHHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCChHHHHHH
Confidence            88877          58899999999888888887  89999999999999999876543

>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=97.30  E-value=0.00026  Score=59.72  Aligned_cols=89  Identities=12%  Similarity=-0.018  Sum_probs=73.3

Q ss_pred             hccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchH
Q 011861           60 ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMK  139 (476)
Q Consensus        60 ~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~  139 (476)
                      .+|+++|+..|.++.+..  ++.+.  +|.+|...+..                       ++|+..+++|.+.  .++.
T Consensus         8 ~~d~~~A~~~~~~aa~~g--~~~a~--lg~~y~~g~~~-----------------------~~A~~~~~~Aa~~--g~~~   58 (138)
T 1klx_A            8 KKDLKKAIQYYVKACELN--EMFGC--LSLVSNSQINK-----------------------QKLFQYLSKACEL--NSGN   58 (138)
T ss_dssp             HHHHHHHHHHHHHHHHTT--CTTHH--HHHHTCTTSCH-----------------------HHHHHHHHHHHHT--TCHH
T ss_pred             ccCHHHHHHHHHHHHcCC--CHhhh--HHHHHHcCCCH-----------------------HHHHHHHHHHHcC--CCHH
Confidence            468999999999999987  44444  88888777777                       8899999999987  6899


Q ss_pred             HHHHHHHHHHh----hhhHHHHHHHHhcccccCCCCchhhHHHH
Q 011861          140 SHLLKANALIL----LERYDMARDAILSGLQVDPFSNPLQASLQ  179 (476)
Q Consensus       140 ~~~~~~~~~~~----~~~~~~A~~~~~~~l~l~p~~~~~~~~~~  179 (476)
                      +++.+|.+|..    .+++++|+..|+++.+.  .++.+...+.
T Consensus        59 a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~--g~~~a~~~Lg  100 (138)
T 1klx_A           59 GCRFLGDFYENGKYVKKDLRKAAQYYSKACGL--NDQDGCLILG  100 (138)
T ss_dssp             HHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT--TCHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCCCccHHHHHHHHHHHHcC--CCHHHHHHHH
Confidence            99999999998    89999999999999876  3444444433

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.25  E-value=0.00057  Score=68.42  Aligned_cols=102  Identities=9%  Similarity=0.043  Sum_probs=73.7

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC--------------------------------------------
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD--------------------------------------------   80 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~--------------------------------------------   80 (476)
                      ....++...|..|+..|+|++|+..|.+++.+.+..                                            
T Consensus        53 ~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  132 (434)
T 4b4t_Q           53 EQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVF  132 (434)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCS
T ss_pred             hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccH
Confidence            344567778888888888888888888776653321                                            


Q ss_pred             --cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhc------cccchHHHHHHHHHHHhhh
Q 011861           81 --PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNL------QSNSMKSHLLKANALILLE  152 (476)
Q Consensus        81 --~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l------~p~~~~~~~~~~~~~~~~~  152 (476)
                        ..++.++|.+|...|+|                       .+|+..+.+++..      .+....++...|.+|..+|
T Consensus       133 ~~~~~~~~la~~~~~~g~~-----------------------~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  189 (434)
T 4b4t_Q          133 LKHSLSIKLATLHYQKKQY-----------------------KDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLR  189 (434)
T ss_dssp             SHHHHHHHHHHHHHHHTCH-----------------------HHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHccCh-----------------------HHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhC
Confidence              13555677778888888                       8888888777765      2344567888888888888


Q ss_pred             hHHHHHHHHhcccccCC
Q 011861          153 RYDMARDAILSGLQVDP  169 (476)
Q Consensus       153 ~~~~A~~~~~~~l~l~p  169 (476)
                      +|++|...+++++.+.+
T Consensus       190 ~~~~A~~~~~~al~~~~  206 (434)
T 4b4t_Q          190 NLAKSKASLTAARTAAN  206 (434)
T ss_dssp             CHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhh
Confidence            88888888888876654

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.22  E-value=0.00039  Score=69.63  Aligned_cols=95  Identities=9%  Similarity=0.026  Sum_probs=67.4

Q ss_pred             HHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcc-----------------cccchhHHHHHHHhhhccCCCCCcccCCC
Q 011861           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPI-----------------VLGNRSSAYIRISQFLKHRPPSASEYRPL  111 (476)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~-----------------~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  111 (476)
                      ...++|+.++..|+|++|++.|.++++.+|+...                 ++.++|.+|...|+|              
T Consensus         6 ~~l~~a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~--------------   71 (434)
T 4b4t_Q            6 SKLEEARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAK--------------   71 (434)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCH--------------
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCH--------------
Confidence            4677899999999999999999999999988754                 367789999999999              


Q ss_pred             CCCCCcchHHHHHHHHHHHhhccccchH------HHHHHHHHHHhhhhHHHHHHHHhcccc
Q 011861          112 NGLDPTTHAELALKDAEKLLNLQSNSMK------SHLLKANALILLERYDMARDAILSGLQ  166 (476)
Q Consensus       112 ~~~~~~~~~~~a~~~~~~al~l~p~~~~------~~~~~~~~~~~~~~~~~A~~~~~~~l~  166 (476)
                               ++|++.+.+++.+.+...+      .+..+|.++...|+++.|+..++.++.
T Consensus        72 ---------~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  123 (434)
T 4b4t_Q           72 ---------DKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIE  123 (434)
T ss_dssp             ---------HHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHH
T ss_pred             ---------HHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence                     8888888888776544322      122233333344444444444444443

>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=97.08  E-value=0.00047  Score=78.19  Aligned_cols=65  Identities=11%  Similarity=0.005  Sum_probs=59.6

Q ss_pred             CCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHH
Q 011861           78 PGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMA  157 (476)
Q Consensus        78 p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A  157 (476)
                      .+.+.+|+++|.++...|++                       ++|+..|.+|     +++.+|.+.|.++..+|+|++|
T Consensus      1102 vn~p~vWsqLAKAql~~G~~-----------------------kEAIdsYiKA-----dD~say~eVa~~~~~lGkyEEA 1153 (1630)
T 1xi4_A         1102 CNEPAVWSQLAKAQLQKGMV-----------------------KEAIDSYIKA-----DDPSSYMEVVQAANTSGNWEEL 1153 (1630)
T ss_pred             cCCHHHHHHHHHHHHhCCCH-----------------------HHHHHHHHhc-----CChHHHHHHHHHHHHcCCHHHH
Confidence            46789999999999999999                       9999999887     8899999999999999999999


Q ss_pred             HHHHhcccccCCC
Q 011861          158 RDAILSGLQVDPF  170 (476)
Q Consensus       158 ~~~~~~~l~l~p~  170 (476)
                      +..|..+.+.+++
T Consensus      1154 IeyL~mArk~~~e 1166 (1630)
T 1xi4_A         1154 VKYLQMARKKARE 1166 (1630)
T ss_pred             HHHHHHHHhhccc
Confidence            9999998887744

>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=97.01  E-value=0.0021  Score=61.01  Aligned_cols=121  Identities=11%  Similarity=-0.023  Sum_probs=84.0

Q ss_pred             hhHHHHHHhhHHHHH------hccHHHHHHH-----HHHHhc-cCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCC
Q 011861           45 THVFDLVQKGNRAFR------ESNFEEAISN-----YSRANN-IKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLN  112 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~------~~~~~~Ai~~-----y~~al~-~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  112 (476)
                      .++..++.+|..|-.      ...|.+++..     +.+++. .+|+++.+++-.|.+....-.-            ...
T Consensus       104 ~RA~~Ly~ra~~y~~raL~~~~~~~~~~~~~~~~~~~~~~l~~~~~~dve~L~W~ai~~ss~a~~------------~~g  171 (301)
T 3u64_A          104 SRARKLYLRGARYALSSLETAYPGFTREVFSGDEQRLHKVLSRCTRVDVGTLYWVGTGYVAAFAL------------TPL  171 (301)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHSTTHHHHHTSSCHHHHHHHHTTCCGGGHHHHHHHHHHHHHHHTT------------SCT
T ss_pred             HHHHHHHHHHHHHHHHHHHHhCccHHHHHHhcchhhHHHHHHHcCccccHHHHHHHHHHHHHHhc------------CCC
Confidence            345666666665521      1344444432     334433 4777888877777776442111            023


Q ss_pred             CCCCcchHHHHHHHHHHHhhcccc--chHHHHHHHHHHHh-----hhhHHHHHHHHhcccccCCCC-chhhHH
Q 011861          113 GLDPTTHAELALKDAEKLLNLQSN--SMKSHLLKANALIL-----LERYDMARDAILSGLQVDPFS-NPLQAS  177 (476)
Q Consensus       113 ~~~~~~~~~~a~~~~~~al~l~p~--~~~~~~~~~~~~~~-----~~~~~~A~~~~~~~l~l~p~~-~~~~~~  177 (476)
                      +..+-.+++.|...+++|+++||+  +..+|..+|..|..     .|+.+.|..+|+++++++|+. ......
T Consensus       172 g~~Al~~l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~  244 (301)
T 3u64_A          172 GSALPDTVHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHIT  244 (301)
T ss_dssp             TSCCHHHHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHH
T ss_pred             ChHHHHhHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHH
Confidence            455666779999999999999999  56699999999988     599999999999999999975 555443

>1vyx_A ORF K3, K3RING; zinc-binding protein, ring domain, cross-brace motif; NMR {Human herpesvirus 8} SCOP: g.44.1.3

Probab=96.99  E-value=0.00051  Score=49.08  Aligned_cols=47  Identities=28%  Similarity=0.479  Sum_probs=37.9

Q ss_pred             cccccccccccccCcEEccCCC-----cccHhhHHHhhhc--CCCCcccccccc
Q 011861          201 DDFDCTLCLKLLYEPITTPCGH-----SFCRSCLFQSMDR--GNKCPLCRAVLF  247 (476)
Q Consensus       201 ~~~~C~iC~~~~~~P~~~~cgh-----~fC~~Cl~~~~~~--~~~Cp~cr~~~~  247 (476)
                      +...|.||+....++...||.+     .|+..||.+|+..  ...||+|+..+.
T Consensus         5 ~~~~CrIC~~~~~~~l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            5 DVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             SCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCEeEEeecCCCCceecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            4568999998877777778653     7999999999973  467999998763

>3k1l_B Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A {Drosophila melanogaster}

Probab=96.89  E-value=0.00027  Score=67.85  Aligned_cols=48  Identities=23%  Similarity=0.668  Sum_probs=37.6

Q ss_pred             CcccccccccccccC----cE----EccCCCcccHhhHHHhhhcC-----------CCCcccccccc
Q 011861          200 TDDFDCTLCLKLLYE----PI----TTPCGHSFCRSCLFQSMDRG-----------NKCPLCRAVLF  247 (476)
Q Consensus       200 ~~~~~C~iC~~~~~~----P~----~~~cgh~fC~~Cl~~~~~~~-----------~~Cp~cr~~~~  247 (476)
                      .....|+||+..+.+    |-    ...|||.|+..||.+|+...           ..||.||.++.
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs  372 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLS  372 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEE
T ss_pred             cCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCC
Confidence            456689999998776    31    23799999999999999731           24999999874

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus}

Probab=96.70  E-value=0.001  Score=51.79  Aligned_cols=43  Identities=26%  Similarity=0.559  Sum_probs=33.8

Q ss_pred             ccccccccccCc-EEccCCCcccHhhHHHhhh-cCCCCccccccc
Q 011861          204 DCTLCLKLLYEP-ITTPCGHSFCRSCLFQSMD-RGNKCPLCRAVL  246 (476)
Q Consensus       204 ~C~iC~~~~~~P-~~~~cgh~fC~~Cl~~~~~-~~~~Cp~cr~~~  246 (476)
                      .|+.|.-.+..- ..+||.|.||..|+..|.. +.+.||.|+.++
T Consensus         3 fC~~C~~Pi~iygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V   47 (101)
T 3vk6_A            3 FCDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPV   47 (101)
T ss_dssp             BCTTTCSBCSEEEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBC
T ss_pred             ecCccCCCeEEEeeeccccccHHHHHHHHHHhccCCCCcCcCCee
Confidence            477777655543 4579999999999999875 456799999876

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=96.67  E-value=0.0022  Score=63.21  Aligned_cols=91  Identities=10%  Similarity=-0.030  Sum_probs=71.3

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHH
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (476)
                      ..+.-.|..++..|++++|+..+++|+.++|+ ..+|..+|.++...|++                       ++|++.+
T Consensus       278 ~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s-~~a~~llG~~~~~~G~~-----------------------~eA~e~~  333 (372)
T 3ly7_A          278 IIYQIKAVSALVKGKTDESYQAINTGIDLEMS-WLNYVLLGKVYEMKGMN-----------------------REAADAY  333 (372)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHTTCH-----------------------HHHHHHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCC-HHHHHHHHHHHHHCCCH-----------------------HHHHHHH
Confidence            34444566677889999999999999999974 67788999999999999                       9999999


Q ss_pred             HHHhhccccchHHHHHHHHHH-HhhhhHHHHHHHHh
Q 011861          128 EKLLNLQSNSMKSHLLKANAL-ILLERYDMARDAIL  162 (476)
Q Consensus       128 ~~al~l~p~~~~~~~~~~~~~-~~~~~~~~A~~~~~  162 (476)
                      .+|+.++|.....++..+.++ ..+....-++..|.
T Consensus       334 ~~AlrL~P~~~t~~~~~~l~F~sn~~~i~~~~~~~~  369 (372)
T 3ly7_A          334 LTAFNLRPGANTLYWIENGIFQTSVPYVVPYLDKFL  369 (372)
T ss_dssp             HHHHHHSCSHHHHHHHHHSSSCCCHHHHCHHHHHHH
T ss_pred             HHHHhcCCCcChHHHHhCceeecchhhhHHHHHhcc
Confidence            999999998865444444443 35666666665553

>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=96.59  E-value=0.0025  Score=64.72  Aligned_cols=91  Identities=14%  Similarity=0.031  Sum_probs=71.9

Q ss_pred             CCCCchhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhcc--------CCCCcccccchhHHHHHHHhhhccCCCCCccc
Q 011861           37 GSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNI--------KPGDPIVLGNRSSAYIRISQFLKHRPPSASEY  108 (476)
Q Consensus        37 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~--------~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  108 (476)
                      ..+.+.....+..+...|..|..+|+|++|+.+|.+++.+        +|.-...+.++|.+|..+|++           
T Consensus       319 ~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~nLa~~~~~~g~~-----------  387 (429)
T 3qwp_A          319 ERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMKVGKLQLHQGMF-----------  387 (429)
T ss_dssp             CCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCH-----------
T ss_pred             CcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHHHHHHHHhcCCH-----------
Confidence            4455666667788888999999999999999999999976        333347899999999999999           


Q ss_pred             CCCCCCCCcchHHHHHHHHHHHhhc-----cccchH---HHHHHHHHHHh
Q 011861          109 RPLNGLDPTTHAELALKDAEKLLNL-----QSNSMK---SHLLKANALIL  150 (476)
Q Consensus       109 ~~~~~~~~~~~~~~a~~~~~~al~l-----~p~~~~---~~~~~~~~~~~  150 (476)
                                  ++|+..+++|+++     .|+++.   .+..++.+...
T Consensus       388 ------------~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e  425 (429)
T 3qwp_A          388 ------------PQAMKNLRLAFDIMRVTHGREHSLIEDLILLLEECDAN  425 (429)
T ss_dssp             ------------HHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHH
T ss_pred             ------------HHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHH
Confidence                        9999999999986     355543   44455555543

>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=96.47  E-value=0.0046  Score=62.45  Aligned_cols=107  Identities=15%  Similarity=0.089  Sum_probs=85.4

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchh------------------------------HHHHHHHh
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRS------------------------------SAYIRISQ   96 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a------------------------------~~~~~~~~   96 (476)
                      +..+...|..+++.|+|++|++.|.+|     +++..|....                              ..|.+.|+
T Consensus       148 a~n~~~LA~~L~~Lg~yq~AVea~~KA-----~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~~~ad~l~~lv~~Yek~G~  222 (449)
T 1b89_A          148 VSNFGRLASTLVHLGEYQAAVDGARKA-----NSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGY  222 (449)
T ss_dssp             TTCHHHHHHHHHTTTCHHHHHHHHHHH-----TCHHHHHHHHHHHHHTTCHHHHHHTTTTTTTCHHHHHHHHHHHHHTTC
T ss_pred             hhhHHHHHHHHHHhccHHHHHHHHHHc-----CCchhHHHHHHHHHHcCcHHHHHHHHHHHHhCHhhHHHHHHHHHHCCC
Confidence            344556788899999999999999999     2444444433                              45566666


Q ss_pred             hhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHH--HhhhhHHHHHHHHhcccccCC-----
Q 011861           97 FLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANAL--ILLERYDMARDAILSGLQVDP-----  169 (476)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~--~~~~~~~~A~~~~~~~l~l~p-----  169 (476)
                      |                       ++|+..+++++.+++.+...+..+|.+|  +..++..++++.|...+.+.|     
T Consensus       223 ~-----------------------eEai~lLe~aL~le~ah~~~ftel~il~~ky~p~k~~ehl~~~~~~ini~k~~~~~  279 (449)
T 1b89_A          223 F-----------------------EELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLELFWSRVNIPKVLRAA  279 (449)
T ss_dssp             H-----------------------HHHHHHHHHHTTSTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTTSCHHHHHHHH
T ss_pred             H-----------------------HHHHHHHHHHhCCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhcCcHHHHHH
Confidence            6                       9999999999999999999999999888  579999999999999999888     


Q ss_pred             CCchhhHHHHHH
Q 011861          170 FSNPLQASLQNL  181 (476)
Q Consensus       170 ~~~~~~~~~~~~  181 (476)
                      .+..++..+--+
T Consensus       280 ~~~~~w~e~~~l  291 (449)
T 1b89_A          280 EQAHLWAELVFL  291 (449)
T ss_dssp             HTTTCHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            667666554433

>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=96.34  E-value=0.0023  Score=64.96  Aligned_cols=78  Identities=8%  Similarity=-0.014  Sum_probs=65.0

Q ss_pred             CCchhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhcc--------CCCCcccccchhHHHHHHHhhhccCCCCCcccCC
Q 011861           39 LPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNI--------KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRP  110 (476)
Q Consensus        39 ~~~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~--------~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  110 (476)
                      +.++....+..+...|..|..+|+|++|+.+|.+++++        +|+-...+.|+|.+|..+|+|             
T Consensus       332 lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~-------------  398 (433)
T 3qww_A          332 FEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYMGLENK-------------  398 (433)
T ss_dssp             BCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCH-------------
T ss_pred             cChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhccCH-------------
Confidence            44455556777888899999999999999999999977        334458899999999999999             


Q ss_pred             CCCCCCcchHHHHHHHHHHHhhcc-----ccchH
Q 011861          111 LNGLDPTTHAELALKDAEKLLNLQ-----SNSMK  139 (476)
Q Consensus       111 ~~~~~~~~~~~~a~~~~~~al~l~-----p~~~~  139 (476)
                                ++|+..+++|+++-     |+++.
T Consensus       399 ----------~eA~~~~~~Al~i~~~~lG~~Hp~  422 (433)
T 3qww_A          399 ----------AAGEKALKKAIAIMEVAHGKDHPY  422 (433)
T ss_dssp             ----------HHHHHHHHHHHHHHHHHTCTTCHH
T ss_pred             ----------HHHHHHHHHHHHHHHHHcCCCChH
Confidence                      99999999999863     66654

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.08  E-value=0.01  Score=48.97  Aligned_cols=78  Identities=13%  Similarity=-0.012  Sum_probs=63.3

Q ss_pred             HHHHHhhHHHHHhccH---HHHHHHHHHHhccC-C-CCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHH
Q 011861           48 FDLVQKGNRAFRESNF---EEAISNYSRANNIK-P-GDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~---~~Ai~~y~~al~~~-p-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (476)
                      ...+..|..+.+..+-   .++|..+...++.+ | ..-++++.+|.+|+++|+|                       .+
T Consensus        36 ~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y-----------------------~~   92 (126)
T 1nzn_A           36 STQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEY-----------------------EK   92 (126)
T ss_dssp             HHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCH-----------------------HH
T ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhH-----------------------HH
Confidence            4445556666655544   44999999999987 5 4569999999999999999                       99


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHH
Q 011861          123 ALKDAEKLLNLQSNSMKSHLLKANAL  148 (476)
Q Consensus       123 a~~~~~~al~l~p~~~~~~~~~~~~~  148 (476)
                      |.+.++..|+++|+|.+|...+..+-
T Consensus        93 A~~~~~~lL~~eP~n~QA~~Lk~~i~  118 (126)
T 1nzn_A           93 ALKYVRGLLQTEPQNNQAKELERLID  118 (126)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            99999999999999998877666554

>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=95.85  E-value=0.033  Score=55.57  Aligned_cols=101  Identities=17%  Similarity=0.035  Sum_probs=83.5

Q ss_pred             hhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc----------------------ccccchhHHHHHHHhhhcc
Q 011861           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----------------------IVLGNRSSAYIRISQFLKH  100 (476)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~----------------------~~~~~~a~~~~~~~~~~~~  100 (476)
                      .......+...|......|+.+.|+..+.+|+.+-...+                      .+...++.++...|++   
T Consensus       111 D~~~f~~l~~~~~~~~~~~~~~~a~~~l~~Al~L~rG~~L~~~~~~~w~~~~r~~l~~~~~~a~~~~~~~~l~~g~~---  187 (388)
T 2ff4_A          111 DLGRFVAEKTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRA---  187 (388)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCH---
T ss_pred             hHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHCCCH---
Confidence            344556777888888889999999999999999853321                      2333466777788888   


Q ss_pred             CCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccc
Q 011861          101 RPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQ  166 (476)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~  166 (476)
                                          .+++..+..++..+|-+-.+|..+..+|+..|+..+|+..|.++-+
T Consensus       188 --------------------~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~  233 (388)
T 2ff4_A          188 --------------------SAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKT  233 (388)
T ss_dssp             --------------------HHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             --------------------HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                                9999999999999999999999999999999999999999887643

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=95.82  E-value=0.011  Score=49.02  Aligned_cols=98  Identities=8%  Similarity=0.016  Sum_probs=73.5

Q ss_pred             ccccccCCCCCCchhhhhHHHHH--------------HhhHHHHHh---ccHHHHHHHHHHHhccCCC-CcccccchhHH
Q 011861           29 YIWANEGEGSLPWDRYTHVFDLV--------------QKGNRAFRE---SNFEEAISNYSRANNIKPG-DPIVLGNRSSA   90 (476)
Q Consensus        29 ~~~~~~~~~~~~~~~~~~~~~~~--------------~~g~~~~~~---~~~~~Ai~~y~~al~~~p~-~~~~~~~~a~~   90 (476)
                      ++.+.+...++++++....+..+              .-|..+.+.   .+..++|..+...++.+|. .-+.++.+|.+
T Consensus         8 ~p~~~~~~~~~~~eeL~~l~~qy~~E~~~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg   87 (134)
T 3o48_A            8 WPTLKDAYEPLYPQQLEILRQQVVSEGGPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIG   87 (134)
T ss_dssp             CCCTTGGGCCCCHHHHHHHHHHHHHTTGGGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHH
T ss_pred             cchHHHhcCCCCHHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHH
Confidence            44455555666676655544333              223333333   4667899999999998884 46999999999


Q ss_pred             HHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHH
Q 011861           91 YIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALI  149 (476)
Q Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~  149 (476)
                      |+++|+|                       .+|.+.++..+++.|+|.+|...+..+--
T Consensus        88 ~yklgdY-----------------------~~Ar~y~d~lL~~eP~N~QA~~Lk~~Ie~  123 (134)
T 3o48_A           88 CYKLGEY-----------------------SMAKRYVDTLFEHERNNKQVGALKSMVED  123 (134)
T ss_dssp             HHHHTCH-----------------------HHHHHHHHHHHTTCTTCHHHHHHHHHHHH
T ss_pred             HHHhhhH-----------------------HHHHHHHHHHHhhCCCCHHHHHHHHHHHH
Confidence            9999999                       99999999999999999988777666543

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=95.78  E-value=0.029  Score=47.09  Aligned_cols=65  Identities=9%  Similarity=0.083  Sum_probs=56.5

Q ss_pred             ccHHHHHHHHHHHhccCCC-CcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchH
Q 011861           61 SNFEEAISNYSRANNIKPG-DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMK  139 (476)
Q Consensus        61 ~~~~~Ai~~y~~al~~~p~-~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~  139 (476)
                      .+-.++|..+...++..|. .-+.++.+|.+|+++|+|                       .+|.+.++..++++|+|.+
T Consensus        56 ~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y-----------------------~~Ar~y~d~lL~~eP~n~Q  112 (144)
T 1y8m_A           56 NDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEY-----------------------SMAKRYVDTLFEHERNNKQ  112 (144)
T ss_dssp             HHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCH-----------------------HHHHHHHHHHHHTCCCCHH
T ss_pred             HHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhH-----------------------HHHHHHHHHHHhcCCCcHH
Confidence            4556899999999998884 459999999999999999                       9999999999999999988


Q ss_pred             HHHHHHHHH
Q 011861          140 SHLLKANAL  148 (476)
Q Consensus       140 ~~~~~~~~~  148 (476)
                      +...+..+-
T Consensus       113 A~~Lk~~Ie  121 (144)
T 1y8m_A          113 VGALKSMVE  121 (144)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            776665554

>3mv2_A Coatomer subunit alpha; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_A

Probab=95.16  E-value=0.57  Score=44.75  Aligned_cols=114  Identities=13%  Similarity=0.020  Sum_probs=68.0

Q ss_pred             hhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc--------cc--ccchhHHH-----HHHHhhhccCCCCCcc
Q 011861           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP--------IV--LGNRSSAY-----IRISQFLKHRPPSASE  107 (476)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~--------~~--~~~~a~~~-----~~~~~~~~~~~~~~~~  107 (476)
                      ...........|-.++..|+|++|+..|..+|..-|-..        ++  +...+.=|     +.+.+-  .       
T Consensus       110 ~l~~L~~~Lk~gyk~~t~gKf~eAl~~Fr~iL~~i~l~~v~~~~e~~e~~eli~icrEYilal~iEl~Rr--~-------  180 (325)
T 3mv2_A          110 GLDVVNEKMNEGYKNFKLNKPDIAIECFREAIYRITLLMVDDAEDEKLAHKILETAREYILGLSIELERR--S-------  180 (325)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCCBCSSHHHHHHHHHHHHHHHHHHHHHHHHHHH--T-------
T ss_pred             CHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhheeeeccHHHHHHHHHHHHHHHHHHHHHHHHHHHH--h-------
Confidence            344455567789999999999999999999987643211        11  11111111     111111  0       


Q ss_pred             cCCCCCCCCcchHHHHH--HHHHHHhhccccchHHHHHHHHHH-HhhhhHHHHHHHHhcccccCCCCc
Q 011861          108 YRPLNGLDPTTHAELAL--KDAEKLLNLQSNSMKSHLLKANAL-ILLERYDMARDAILSGLQVDPFSN  172 (476)
Q Consensus       108 ~~~~~~~~~~~~~~~a~--~~~~~al~l~p~~~~~~~~~~~~~-~~~~~~~~A~~~~~~~l~l~p~~~  172 (476)
                            .+ .+...+.+  ..|=-...+.|.+...-++.|+.. +..++|.-|....++.|+++|..+
T Consensus       181 ------l~-~~~~kR~lELAAYFT~c~LQp~H~~LaLr~AM~~a~K~KNy~tAa~fArrLLel~p~~~  241 (325)
T 3mv2_A          181 ------LK-EGNTVRMLELAAYFTKAKLSPIHRTNALQVAMSQHFKHKNFLQASYFAGEFLKIISSGP  241 (325)
T ss_dssp             ------CC-TTCHHHHHHHHHHGGGSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSH
T ss_pred             ------cC-cccHHHHHHHHHHhccCCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCHH
Confidence                  00 01112221  222234455676666666777665 689999999999999999998643

>3mkr_B Coatomer subunit alpha; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=95.00  E-value=0.71  Score=44.04  Aligned_cols=113  Identities=17%  Similarity=0.080  Sum_probs=67.3

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc--------ccc--cchhHHH-----HHHHhhhccCCCCCcccC
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP--------IVL--GNRSSAY-----IRISQFLKHRPPSASEYR  109 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~--------~~~--~~~a~~~-----~~~~~~~~~~~~~~~~~~  109 (476)
                      .........|-.++..|++++|+..|..+|..-|--.        ++.  ...+.=|     +.+.+-  .         
T Consensus       100 ~~l~~~Lk~gyk~~t~gKf~eAl~~Fr~iL~~i~l~~v~~~~e~~e~~eli~icreYilal~iEl~Rr--~---------  168 (320)
T 3mkr_B          100 NDLIQRLQLCYQLTTVGKFEEAVEKFRSILLSVPLLVVDNKQEIAEAQQLITICREYIVGLSMETERK--K---------  168 (320)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHGGGCCCCSHHHHHHHHHHHHHHHHHHHHHHHHHHHT--T---------
T ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhhheeeccHHHHHHHHHHHHHHHHHHHHHHHHHHHH--h---------
Confidence            3455567889999999999999999999988754211        111  1111111     112111  0         


Q ss_pred             CCCCCCCcchHHHH--HHHHHHHhhccccchHHHHHHHHHH-HhhhhHHHHHHHHhcccccCCC
Q 011861          110 PLNGLDPTTHAELA--LKDAEKLLNLQSNSMKSHLLKANAL-ILLERYDMARDAILSGLQVDPF  170 (476)
Q Consensus       110 ~~~~~~~~~~~~~a--~~~~~~al~l~p~~~~~~~~~~~~~-~~~~~~~~A~~~~~~~l~l~p~  170 (476)
                       + +....+.....  +..|=-...+.|.+...-++.|+.. +..++|.-|....++.|++.|.
T Consensus       169 -l-~~~~~~~~kR~lELAAYFT~c~Lqp~H~~LaLr~AM~~a~K~KNy~tAa~fArrLLel~p~  230 (320)
T 3mkr_B          169 -L-PKETLEQQKRICEMAAYFTHSNLQPVHMILVLRTALNLFFKLKNFRTAAAFARRLLELGPK  230 (320)
T ss_dssp             -S-CCCSHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTBHHHHHHHHHHHHHTCCC
T ss_pred             -c-ccCCchhHHHHHHHHHHhccCCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCC
Confidence             0 00000111111  2222234456677766666777665 6899999999999999999875

>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=94.68  E-value=0.063  Score=57.54  Aligned_cols=111  Identities=13%  Similarity=-0.005  Sum_probs=83.9

Q ss_pred             HHHhhHHHHHhccHHHHHHHHHHHhcc-CCCCcccccchhHHHHHHHh-hhccCCCCCcccCCCCCCCCcchHHHHHHHH
Q 011861           50 LVQKGNRAFRESNFEEAISNYSRANNI-KPGDPIVLGNRSSAYIRISQ-FLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (476)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~-~p~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (476)
                      +...++..-+.|+.+.|.+.|.+|++. .+....+|...|..-.+.++ +                       +.|-+.|
T Consensus       437 Wi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~-----------------------e~Ar~if  493 (679)
T 4e6h_A          437 YCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDT-----------------------KTACKVL  493 (679)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCC-----------------------HHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCH-----------------------HHHHHHH
Confidence            444455555678999999999999998 44456677665555555544 6                       8999999


Q ss_pred             HHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCC---CchhhHHHHHHHH
Q 011861          128 EKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF---SNPLQASLQNLER  183 (476)
Q Consensus       128 ~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~---~~~~~~~~~~~~~  183 (476)
                      +++++..|+++..+...+......|+.+.|+..|++++...|+   ...+.......+.
T Consensus       494 e~~Lk~~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~  552 (679)
T 4e6h_A          494 ELGLKYFATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFES  552 (679)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH
Confidence            9999999999888877788778899999999999999998874   3334444444443

>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=94.28  E-value=0.086  Score=56.51  Aligned_cols=95  Identities=7%  Similarity=-0.024  Sum_probs=78.9

Q ss_pred             HHHhhHHHHHhccHHHHH-HHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHH
Q 011861           50 LVQKGNRAFRESNFEEAI-SNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (476)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai-~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (476)
                      +...|+-....|+.++|+ ..|.+|+...|.+..+|...|....+.|++                       ++|-+.|+
T Consensus       346 W~~ya~~~~~~~~~~~a~r~il~rAi~~~P~s~~Lwl~~a~~ee~~~~~-----------------------e~aR~iye  402 (679)
T 4e6h_A          346 WFNMANYQGEKNTDSTVITKYLKLGQQCIPNSAVLAFSLSEQYELNTKI-----------------------PEIETTIL  402 (679)
T ss_dssp             HHHHHHHHHHHSCCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHHHH
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCCH-----------------------HHHHHHHH
Confidence            444556566778889998 999999999999999999999999999999                       99999999


Q ss_pred             HHhhcc-----------cc-----------chHHHHHHHHHHHhhhhHHHHHHHHhccccc
Q 011861          129 KLLNLQ-----------SN-----------SMKSHLLKANALILLERYDMARDAILSGLQV  167 (476)
Q Consensus       129 ~al~l~-----------p~-----------~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l  167 (476)
                      ++++.-           |.           ....|...+......|..+.|++.|.+|++.
T Consensus       403 k~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~  463 (679)
T 4e6h_A          403 SCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRL  463 (679)
T ss_dssp             HHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            998752           42           3446666777777889999999999999886

>3nw0_A Non-structural maintenance of chromosomes element homolog; E3 ligase, Zn, metal binding protein; 2.92A {Homo sapiens}

Probab=93.58  E-value=0.051  Score=50.18  Aligned_cols=46  Identities=22%  Similarity=0.561  Sum_probs=37.3

Q ss_pred             cccccccccccccCcEE-ccCCCcccHhhHHHhhhcC--CCCccccccc
Q 011861          201 DDFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRG--NKCPLCRAVL  246 (476)
Q Consensus       201 ~~~~C~iC~~~~~~P~~-~~cgh~fC~~Cl~~~~~~~--~~Cp~cr~~~  246 (476)
                      ....|.+|..+...-.. -+|++.|+..|+..|+...  ..||.|+...
T Consensus       179 ~i~~C~iC~~iv~~g~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W  227 (238)
T 3nw0_A          179 AVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYW  227 (238)
T ss_dssp             TCCBCTTTCSBCSSCEECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBC
T ss_pred             CCCcCcchhhHHhCCcccCccChHHHHHHHHHHHHhCCCCCCCCCCCCC
Confidence            36689999998875543 3599999999999998754  4799999876

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=93.40  E-value=0.031  Score=44.15  Aligned_cols=31  Identities=23%  Similarity=0.652  Sum_probs=26.6

Q ss_pred             ccccccccccc-ccCcEE--ccCCCcccHhhHHH
Q 011861          201 DDFDCTLCLKL-LYEPIT--TPCGHSFCRSCLFQ  231 (476)
Q Consensus       201 ~~~~C~iC~~~-~~~P~~--~~cgh~fC~~Cl~~  231 (476)
                      ++..|++|.+. ...|+.  ++|+|+||..|+..
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~   35 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKA   35 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETTTTEEECHHHHHH
T ss_pred             CCCCCcCCCCCCCCCceEECCcCChHHhHHHCHH
Confidence            35789999975 677877  89999999999997

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=93.27  E-value=0.16  Score=43.82  Aligned_cols=53  Identities=21%  Similarity=0.214  Sum_probs=43.0

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccC---CCC----------------------cccccchhHHHHHHHhh
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIK---PGD----------------------PIVLGNRSSAYIRISQF   97 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~---p~~----------------------~~~~~~~a~~~~~~~~~   97 (476)
                      .+++.+.-.|+.+|.+++|.+|...|.+||+..   ++.                      .++.+..|.||.+++++
T Consensus        61 ~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~~~~~~~~ss~p~s~~~~~e~Elkykia~C~~~l~~~  138 (167)
T 3ffl_A           61 QKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKVRPSTGNSASTPQSQCLPSEIEVKYKLAECYTVLKQD  138 (167)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC--------------------CCCCHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCccccccccCCCcccccccchHHHHHHHHHHHHHHCCH
Confidence            456778889999999999999999999997651   111                      15778899999999999

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=93.03  E-value=0.33  Score=45.27  Aligned_cols=64  Identities=16%  Similarity=0.121  Sum_probs=59.9

Q ss_pred             hHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhc
Q 011861           54 GNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNL  133 (476)
Q Consensus        54 g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l  133 (476)
                      ....++.|+.+.|++.....++-+|.|+.....+.+.+.-.|+|                       ++|.+.++.+.++
T Consensus         4 ~~~ll~~g~L~~al~~~~~~VR~~P~da~~R~~LfqLLcv~G~w-----------------------~RA~~QL~~~a~l   60 (273)
T 1zbp_A            4 WKNALSEGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDF-----------------------ERADEQLMQSIKL   60 (273)
T ss_dssp             HHHHTTTTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCH-----------------------HHHHHHHHHHHHH
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCH-----------------------HHHHHHHHHHHHh
Confidence            45688999999999999999999999999999999999999999                       9999999999999


Q ss_pred             cccchHH
Q 011861          134 QSNSMKS  140 (476)
Q Consensus       134 ~p~~~~~  140 (476)
                      +|.....
T Consensus        61 ~p~~~~~   67 (273)
T 1zbp_A           61 FPEYLPG   67 (273)
T ss_dssp             CGGGHHH
T ss_pred             CchhhHH
Confidence            9987553

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=92.15  E-value=0.24  Score=53.32  Aligned_cols=59  Identities=27%  Similarity=0.222  Sum_probs=52.4

Q ss_pred             cccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHh
Q 011861           83 VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAIL  162 (476)
Q Consensus        83 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~  162 (476)
                      ++.--|..+...|+|                       +-|++.+.+|+.+.|.....|+.++.+|..+|+|+.|+-.++
T Consensus       339 LL~~Qa~FLl~K~~~-----------------------elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLN  395 (754)
T 4gns_B          339 LLNIQTNFLLNRGDY-----------------------ELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAIN  395 (754)
T ss_dssp             HHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHhccCcH-----------------------HHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHh
Confidence            444455666667788                       999999999999999999999999999999999999999998


Q ss_pred             cc
Q 011861          163 SG  164 (476)
Q Consensus       163 ~~  164 (476)
                      .+
T Consensus       396 Sc  397 (754)
T 4gns_B          396 SM  397 (754)
T ss_dssp             HS
T ss_pred             cC
Confidence            87

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=90.55  E-value=0.21  Score=53.83  Aligned_cols=49  Identities=12%  Similarity=0.087  Sum_probs=45.5

Q ss_pred             HHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhh
Q 011861           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF   97 (476)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~   97 (476)
                      -+..++.-+..+|+|+-|+.+..+|+...|.+...|+.+|.+|..+|+|
T Consensus       339 LL~~Qa~FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~  387 (754)
T 4gns_B          339 LLNIQTNFLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEY  387 (754)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccH
Confidence            3555777788999999999999999999999999999999999999999

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=89.11  E-value=2  Score=43.91  Aligned_cols=126  Identities=12%  Similarity=-0.071  Sum_probs=65.1

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHH---HHHhhhccCCCCCcccCCC-CCCCC-------
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYI---RISQFLKHRPPSASEYRPL-NGLDP-------  116 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~---~~~~~~~~~~~~~~~~~~~-~~~~~-------  116 (476)
                      .-+...+.-....|+.++|...|.+|+.. |.+..++...+...-   ..++..........+...+ ...+.       
T Consensus       214 ~lW~~ya~~~~~~~~~~~ar~i~erAi~~-P~~~~l~~~y~~~~e~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y  292 (493)
T 2uy1_A          214 EVYFFYSEYLIGIGQKEKAKKVVERGIEM-SDGMFLSLYYGLVMDEEAVYGDLKRKYSMGEAESAEKVFSKELDLLRINH  292 (493)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CCSSHHHHHHHHHTTCTHHHHHHHHHTC----------CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhC-CCcHHHHHHHHhhcchhHHHHHHHHHHHhhccchhhhhcccccHHHHHHH
Confidence            34555666677889999999999999999 998766654333200   0001100000000000000 00000       


Q ss_pred             ------cchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhh-hHHHHHHHHhcccccCCCCchhh
Q 011861          117 ------TTHAELALKDAEKLLNLQSNSMKSHLLKANALILLE-RYDMARDAILSGLQVDPFSNPLQ  175 (476)
Q Consensus       117 ------~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~-~~~~A~~~~~~~l~l~p~~~~~~  175 (476)
                            ..-.+.|-..+.+| ...+.....|...|..-...+ +++.|+..|+.+++..|+++...
T Consensus       293 ~~~~~r~~~~~~AR~i~~~A-~~~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~~~~~~~~  357 (493)
T 2uy1_A          293 LNYVLKKRGLELFRKLFIEL-GNEGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKHPDSTLLK  357 (493)
T ss_dssp             HHHHHHHHCHHHHHHHHHHH-TTSCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHh-hCCCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCCCCHHHH
Confidence                  00115566666677 322223334444444444445 58888888888888777766543

>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=87.78  E-value=1.6  Score=36.95  Aligned_cols=103  Identities=12%  Similarity=-0.023  Sum_probs=74.3

Q ss_pred             HHHHHhhHHHHHhccH------HHHHHHHHHHhccCCCCc--------ccccchhHHHHHHHhhhccCCCCCcccCCCCC
Q 011861           48 FDLVQKGNRAFRESNF------EEAISNYSRANNIKPGDP--------IVLGNRSSAYIRISQFLKHRPPSASEYRPLNG  113 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~------~~Ai~~y~~al~~~p~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  113 (476)
                      +.++.-....-+.|+.      ++-++.|.+|+..-|-..        -+|.+.|. +..+++.                
T Consensus        14 d~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~~Pp~k~~~wrrYI~LWIrYA~-~~ei~D~----------------   76 (161)
T 4h7y_A           14 EDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEALPPDKYGQNESFARIQVRFAE-LKAIQEP----------------   76 (161)
T ss_dssp             HHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHHSCGGGGTTCHHHHHHHHHHHH-HHHHHCG----------------
T ss_pred             HHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHcCCccccccHHHHHHHHHHHHH-HHHhcCH----------------
Confidence            3344433334344666      888899999999876543        22233332 2445666                


Q ss_pred             CCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchh
Q 011861          114 LDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  174 (476)
Q Consensus       114 ~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~  174 (476)
                             ++|-..|+.++.+...+++.|...|+--...|+...|+..+.+++.+.|.....
T Consensus        77 -------d~aR~vy~~a~~~hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~~  130 (161)
T 4h7y_A           77 -------DDARDYFQMARANCKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLEM  130 (161)
T ss_dssp             -------GGCHHHHHHHHHHCTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHHH
T ss_pred             -------HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHHH
Confidence                   888899999999888887777777777789999999999999999988876543

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=87.28  E-value=3.3  Score=42.29  Aligned_cols=92  Identities=10%  Similarity=-0.122  Sum_probs=69.5

Q ss_pred             HHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHH-hhhccCCCCCcccCCCCCCCCcchHHHHHHHHH
Q 011861           50 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRIS-QFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (476)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (476)
                      +..-++-..+.++.++|...|.+| +..+....+|...|..-...+ +.                       +.|...++
T Consensus       289 w~~y~~~~~r~~~~~~AR~i~~~A-~~~~~~~~v~i~~A~lE~~~~~d~-----------------------~~ar~ife  344 (493)
T 2uy1_A          289 RINHLNYVLKKRGLELFRKLFIEL-GNEGVGPHVFIYCAFIEYYATGSR-----------------------ATPYNIFS  344 (493)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHH-TTSCCCHHHHHHHHHHHHHHHCCS-----------------------HHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHh-hCCCCChHHHHHHHHHHHHHCCCh-----------------------HHHHHHHH
Confidence            444555555678899999999999 433334455655565555566 47                       99999999


Q ss_pred             HHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhccc
Q 011861          129 KLLNLQSNSMKSHLLKANALILLERYDMARDAILSGL  165 (476)
Q Consensus       129 ~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l  165 (476)
                      .+++..|+.+..+...+.-....|+.+.|+..|.++.
T Consensus       345 ~al~~~~~~~~~~~~yid~e~~~~~~~~aR~l~er~~  381 (493)
T 2uy1_A          345 SGLLKHPDSTLLKEEFFLFLLRIGDEENARALFKRLE  381 (493)
T ss_dssp             HHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC
T ss_pred             HHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999989888766666666678999999999999983

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=87.08  E-value=0.58  Score=47.04  Aligned_cols=95  Identities=6%  Similarity=-0.014  Sum_probs=73.9

Q ss_pred             HHHhhHHHHHhccHHHHHHHHHHHhccCCCC---cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           50 LVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      +...|.-+++.||+++|++.|.++.....+.   ..++.....+++..++|                       ..+...
T Consensus       134 ~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~-----------------------~~~~~~  190 (429)
T 4b4t_R          134 WINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQ-----------------------LYVKEK  190 (429)
T ss_dssp             CHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccH-----------------------HHHHHH
Confidence            4567888999999999999999998875543   36777788888889999                       888888


Q ss_pred             HHHHhhcc---ccc---hHHHHHHHHHHHhhhhHHHHHHHHhccccc
Q 011861          127 AEKLLNLQ---SNS---MKSHLLKANALILLERYDMARDAILSGLQV  167 (476)
Q Consensus       127 ~~~al~l~---p~~---~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l  167 (476)
                      +.++-.+-   +++   .+.....|.+++..++|..|...|..++.-
T Consensus       191 ~~ka~~~~~~~~d~~~~~~lk~~~gl~~l~~r~f~~Aa~~f~e~~~t  237 (429)
T 4b4t_R          191 LEAVNSMIEKGGDWERRNRYKTYYGIHCLAVRNFKEAAKLLVDSLAT  237 (429)
T ss_dssp             HHHHHHHHTTCCCTHHHHHHHHHHHHGGGGTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhcCCCHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHhcc
Confidence            88876552   222   123445677778999999999999887654

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=86.47  E-value=0.99  Score=44.75  Aligned_cols=92  Identities=12%  Similarity=-0.033  Sum_probs=70.4

Q ss_pred             HhhHHHHHhccHHHHHHHHHHHhccCCC--C----cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           52 QKGNRAFRESNFEEAISNYSRANNIKPG--D----PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        52 ~~g~~~~~~~~~~~Ai~~y~~al~~~p~--~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      ..|.-|+..|+|.+|+..+++..+...+  +    .+++.....+|..++++                       .++-.
T Consensus       104 kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~-----------------------~k~k~  160 (394)
T 3txn_A          104 RLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNL-----------------------PKARA  160 (394)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccH-----------------------HHHHH
Confidence            4688899999999999999998875322  2    26778888999999999                       88877


Q ss_pred             HHHHHhhcc------cc-chHHHHHHHHHHH-hhhhHHHHHHHHhcccc
Q 011861          126 DAEKLLNLQ------SN-SMKSHLLKANALI-LLERYDMARDAILSGLQ  166 (476)
Q Consensus       126 ~~~~al~l~------p~-~~~~~~~~~~~~~-~~~~~~~A~~~~~~~l~  166 (476)
                      .+.+|....      |. .......-|..++ ..++|..|...|-.+++
T Consensus       161 ~l~~a~~~~~ai~~~p~i~a~i~~~~Gi~~l~~~rdyk~A~~~F~eaf~  209 (394)
T 3txn_A          161 ALTSARTTANAIYCPPKVQGALDLQSGILHAADERDFKTAFSYFYEAFE  209 (394)
T ss_dssp             HHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhccCCCCHHHHHHHHHHhhHHHHHhccCHHHHHHHHHHHHh
Confidence            777776543      21 2234446777788 89999999999988864

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=82.75  E-value=1.1  Score=41.77  Aligned_cols=56  Identities=11%  Similarity=0.094  Sum_probs=52.3

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhH
Q 011861          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQA  176 (476)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~  176 (476)
                      +.|++.....++-+|.+......+-+.++-.|+|+.|...++.+.+++|.......
T Consensus        14 ~~al~~~~~~VR~~P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~p~~~~~a~   69 (273)
T 1zbp_A           14 QQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGAS   69 (273)
T ss_dssp             HHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHH
T ss_pred             HHHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhhHHHH
Confidence            99999999999999999999999999999999999999999999999998776543

>1ya0_A SMG-7 transcript variant 2; alpha-helical repeat, tetratricopetide repeat (TPR), 14-3-3, signaling protein; 2.55A {Homo sapiens} SCOP: a.118.8.1

Probab=82.32  E-value=1.6  Score=44.67  Aligned_cols=61  Identities=10%  Similarity=-0.205  Sum_probs=52.2

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      ..|...|.+|..++|++...|..+|......|++-+|+=+|.+++....-.+.+..++..+
T Consensus       169 ~~A~~~Y~~A~~~~P~~G~~~nqLavla~~~~~~l~a~y~y~rsl~~~~Pf~~a~~nL~~~  229 (497)
T 1ya0_A          169 SQAESYYRHAAQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKFPFPAASTNLQKA  229 (497)
T ss_dssp             HHHHHHHHHHHHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCchHHHHHHHHhcccccHHHHHHHHHHHhcCCCChhHHHHHHHH
Confidence            7899999999999999999999999999999999999999999987655555555544443

>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=82.07  E-value=5.3  Score=40.84  Aligned_cols=89  Identities=9%  Similarity=0.018  Sum_probs=68.8

Q ss_pred             hhHHHHHhccHHHHHHHHHHHhcc--CCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHH
Q 011861           53 KGNRAFRESNFEEAISNYSRANNI--KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKL  130 (476)
Q Consensus        53 ~g~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a  130 (476)
                      .-+.+.+.|++++|...|.+..+.  .| +...|..+-.+|.+.|+.                       ++|.+.++..
T Consensus       111 lI~~~~~~g~~~~A~~l~~~M~~~g~~P-d~~tyn~lI~~~~~~g~~-----------------------~~A~~l~~~M  166 (501)
T 4g26_A          111 GARLAVAKDDPEMAFDMVKQMKAFGIQP-RLRSYGPALFGFCRKGDA-----------------------DKAYEVDAHM  166 (501)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHTTCCC-CHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCC-ccceehHHHHHHHHCCCH-----------------------HHHHHHHHHH
Confidence            345577889999999999888765  33 567777788888888998                       8898888887


Q ss_pred             hhcc--ccchHHHHHHHHHHHhhhhHHHHHHHHhcccc
Q 011861          131 LNLQ--SNSMKSHLLKANALILLERYDMARDAILSGLQ  166 (476)
Q Consensus       131 l~l~--p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~  166 (476)
                      .+..  | +...|..+-.+|...|++++|...|.+.-+
T Consensus       167 ~~~G~~P-d~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~  203 (501)
T 4g26_A          167 VESEVVP-EEPELAALLKVSMDTKNADKVYKTLQRLRD  203 (501)
T ss_dssp             HHTTCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HhcCCCC-CHHHHHHHHHHHhhCCCHHHHHHHHHHHHH
Confidence            6643  4 445677788888899999999988887543

>1ya0_A SMG-7 transcript variant 2; alpha-helical repeat, tetratricopetide repeat (TPR), 14-3-3, signaling protein; 2.55A {Homo sapiens} SCOP: a.118.8.1

Probab=80.09  E-value=3.5  Score=42.11  Aligned_cols=78  Identities=14%  Similarity=0.015  Sum_probs=68.4

Q ss_pred             HHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHH
Q 011861           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (476)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (476)
                      -+.-.|...-.+..+..|..+|.+|+.+.|++...|..+|..+...|+.                       -.|+-.|.
T Consensus       154 ~l~~LGDL~RY~~~~~~A~~~Y~~A~~~~P~~G~~~nqLavla~~~~~~-----------------------l~a~y~y~  210 (497)
T 1ya0_A          154 CLVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILASSKGDH-----------------------LTTIFYYC  210 (497)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHHHTTCH-----------------------HHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHHHHHHHhCCCCCchHHHHHHHHhccccc-----------------------HHHHHHHH
Confidence            3455777777788899999999999999999999999999999999998                       88999999


Q ss_pred             HHhhccccchHHHHHHHHHHH
Q 011861          129 KLLNLQSNSMKSHLLKANALI  149 (476)
Q Consensus       129 ~al~l~p~~~~~~~~~~~~~~  149 (476)
                      +++....-++.+.-++...+-
T Consensus       211 rsl~~~~Pf~~a~~nL~~~f~  231 (497)
T 1ya0_A          211 RSIAVKFPFPAASTNLQKALS  231 (497)
T ss_dssp             HHHSSSBCCHHHHHHHHHHHH
T ss_pred             HHHhcCCCChhHHHHHHHHHH
Confidence            999887778888888877764

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	476
d2anea1	110	b.122.1.10 (A:8-117) ATP-dependent protease La (Lo	1e-15
d1zboa1	197	b.122.1.10 (A:2-198) Hypothetical protein BPP1347	2e-14
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	5e-13
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	9e-13
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	2e-12
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	3e-11
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	2e-10
d1t1ha_	78	g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cre	5e-10
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	1e-08
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	2e-08
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	7e-06
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	1e-04
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	0.003
d2c2la1	201	a.118.8.1 (A:24-224) STIP1 homology and U box-cont	2e-08
d1elra_	128	a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9	9e-08
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	4e-07
d1elwa_	117	a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9	7e-06
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	8e-06
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	1e-05
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	2e-05
d2c2la2	80	g.44.1.2 (A:225-304) STIP1 homology and U box-cont	3e-05
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	3e-05
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	6e-05
d1fcha_	323	a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting	2e-04
d1kt1a1	168	a.118.8.1 (A:254-421) FKBP51, C-terminal domain {M	2e-04
d2fbna1	153	a.118.8.1 (A:22-174) Putative 70 kda peptidylproly	0.001
d1ihga1	169	a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos tau	0.002
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	0.002
d1p5qa1	170	a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal d	0.004
d1zbpa1	264	e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {V	0.004

>d2anea1 b.122.1.10 (A:8-117) ATP-dependent protease La (Lon), N-terminal domain {Escherichia coli [TaxId: 562]} Length = 110

class: All beta proteins
fold: PUA domain-like
superfamily: PUA domain-like
family: LON domain-like
domain: ATP-dependent protease La (Lon), N-terminal domain
species: Escherichia coli [TaxId: 562]

 Score = 70.9 bits (173), Expect = 1e-15
 Identities = 21/107 (19%), Positives = 41/107 (38%), Gaps = 8/107 (7%)

Query: 289 MPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIID------PTTGSVAD 340
           +P+  +   VV P    PL +   +    +   M+ + ++ +V         P    +  
Sbjct: 4   IPVLPLRDVVVYPHMVIPLFVGREKSIRCLEAAMDHDKKIMLVAQKEASTDEPGVNDLFT 63

Query: 341 FACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWV 387
                 I +   LPDG   + +E  +R RI    D   +  A+ E++
Sbjct: 64  VGTVASILQMLKLPDGTVKVLVEGLQRARISALSDNGEHFSAKAEYL 110

>d1zboa1 b.122.1.10 (A:2-198) Hypothetical protein BPP1347 {Bordetella parapertussis [TaxId: 519]} Length = 197

class: All beta proteins
fold: PUA domain-like
superfamily: PUA domain-like
family: LON domain-like
domain: Hypothetical protein BPP1347
species: Bordetella parapertussis [TaxId: 519]

 Score = 69.6 bits (169), Expect = 2e-14
 Identities = 35/194 (18%), Positives = 53/194 (27%), Gaps = 22/194 (11%)

Query: 289 MPLFVMDVVI-PCQRFPLHIFEPRYRLMVRRIMEGNHRM--------GMVIIDPTTGSVA 339
           +PLF +   + P     L +FE RY  MVRR +                V        +A
Sbjct: 3   IPLFPLSNALFPAGVLRLRVFEIRYLDMVRRCIADGSEFGVVVLEQGTEVRRPDGREVLA 62

Query: 340 DFACEVEITECEPLPDGRFVLEIESRRRFRILRSW-DQDGYRVAEIEWVQDIHPEGVEDR 398
                  I   E        L      RFR+      + G    + E V D  P   E  
Sbjct: 63  RAGTMARIDHWEAPMPALLELACTGTGRFRLHACTQGKYGLWTGQAEPVPDDAPL--EVP 120

Query: 399 ADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVMMPPSQDPERFSFWLATLSD 458
            +L    +          R              +L           D    +   A +  
Sbjct: 121 PELARSASALGRLIARLQREGVPPHIMPMAAPFRL----------DDCGWVADRWAEMLS 170

Query: 459 RRPSERLELLRIRD 472
             P+++  LL +  
Sbjct: 171 LPPADKARLLLLPP 184

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 62.2 bits (151), Expect = 5e-13
 Identities = 21/61 (34%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD-RGNKCPLCRAVLFITPRTCAVSVTL 259
               C +C  +L +P+ T C H FCR C+ + +   G+ CP CR   F T     V   L
Sbjct: 22  KSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESPVKSFL 81

Query: 260 N 260
           N
Sbjct: 82  N 82

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 60.7 bits (147), Expect = 9e-13
 Identities = 17/58 (29%), Positives = 23/58 (39%), Gaps = 3/58 (5%)

Query: 198 ERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAV 255
           E      C  C      P   PC H+ C  CL  S     +CP+C+A   +   T A+
Sbjct: 2   EEFQFLRCQQCQAEAKCPKLLPCLHTLCSGCLEASG---MQCPICQAPWPLGADTPAL 56

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 61.2 bits (148), Expect = 2e-12
 Identities = 20/68 (29%), Positives = 40/68 (58%), Gaps = 5/68 (7%)

Query: 201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGN---KCPLCRAVLFITPRTCAVSV 257
              +C +CL+L+ EP++T C H FC+ C+ + +++     +CPLC+    IT R+   S 
Sbjct: 20  KILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKND--ITKRSLQEST 77

Query: 258 TLNSIIQK 265
             + ++++
Sbjct: 78  RFSQLVEE 85

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 56.9 bits (137), Expect = 3e-11
 Identities = 15/48 (31%), Positives = 21/48 (43%), Gaps = 1/48 (2%)

Query: 200 TDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD-RGNKCPLCRAVL 246
           +    C +C +   +    PCGH  C SCL    +  G  CP CR  +
Sbjct: 21  STFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI 68

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

 Score = 54.6 bits (131), Expect = 2e-10
 Identities = 14/48 (29%), Positives = 24/48 (50%), Gaps = 1/48 (2%)

Query: 200 TDDFDCTLCLKLLYEP-ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL 246
           T    C +CL+      +  PC H+FC  C+ + + +   CPLC+  +
Sbjct: 3   TVAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPV 50

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 78

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 53.5 bits (128), Expect = 5e-10
 Identities = 17/71 (23%), Positives = 33/71 (46%), Gaps = 1/71 (1%)

Query: 195 GTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCA 254
           G+PE  + F C + L+L+ +P+    G ++ RS + + +D G+K         +      
Sbjct: 1   GSPEFPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQE-TLLHAGLT 59

Query: 255 VSVTLNSIIQK 265
            +  L S+I  
Sbjct: 60  PNYVLKSLIAL 70

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 48.7 bits (116), Expect = 1e-08
 Identities = 15/52 (28%), Positives = 23/52 (44%), Gaps = 4/52 (7%)

Query: 201 DDFDCTLCLKLLYEP----ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFI 248
           D  +C +CL  L +         CGH F   C+   +   + CPLCR  + +
Sbjct: 4   DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVVV 55

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 54.3 bits (129), Expect = 2e-08
 Identities = 27/164 (16%), Positives = 50/164 (30%), Gaps = 14/164 (8%)

Query: 17  GFPLVGIDDVDDYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNI 76
           G  L      D  + A     SL  +      +L       + +   + AI  Y RA  +
Sbjct: 210 GNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNL---ACVYYEQGLIDLAIDTYRRAIEL 266

Query: 77  KPGDPIVLGNRSSAYIRISQFLK--HRPPSASEYRPLNGLDPTTHAEL---------ALK 125
           +P  P    N ++A        +      +A    P +       A +         A++
Sbjct: 267 QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNIEEAVR 326

Query: 126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 169
              K L +      +H   A+ L    +   A       +++ P
Sbjct: 327 LYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISP 370

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.8 bits (107), Expect = 7e-06
 Identities = 10/99 (10%), Positives = 30/99 (30%), Gaps = 23/99 (23%)

Query: 50  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYR 109
            ++  +R ++  +FE A  +  +    +P +  VL   SS + +  +             
Sbjct: 2   PMELAHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRL------------ 49

Query: 110 PLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANAL 148
                      + +   +   +       +++    N  
Sbjct: 50  -----------DRSAHFSTLAIKQNPLLAEAYSNLGNVY 77

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.0 bits (97), Expect = 1e-04
 Identities = 18/128 (14%), Positives = 37/128 (28%), Gaps = 23/128 (17%)

Query: 25  DVDDYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVL 84
           +      A +   +      TH   L    N    + N EEA+  Y +A  + P      
Sbjct: 283 EKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAH 342

Query: 85  GNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLK 144
            N +S   +  +                        + AL   ++ + +      ++   
Sbjct: 343 SNLASVLQQQGKL-----------------------QEALMHYKEAIRISPTFADAYSNM 379

Query: 145 ANALILLE 152
            N L  ++
Sbjct: 380 GNTLKEMQ 387

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.3 bits (85), Expect = 0.003
 Identities = 24/143 (16%), Positives = 49/143 (34%), Gaps = 11/143 (7%)

Query: 52  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIR-------ISQFLKHRPPS 104
             G     +     AI ++ +A  + P       N  +           ++ +L+    S
Sbjct: 174 NLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS 233

Query: 105 ASEYRPLNGLDPTTHA----ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDA 160
            +       L    +     +LA+    + + LQ +   ++   ANAL        A D 
Sbjct: 234 PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSVAEAEDC 293

Query: 161 ILSGLQVDPFSNPLQASLQNLER 183
             + L++ P       +L N++R
Sbjct: 294 YNTALRLCPTHADSLNNLANIKR 316

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 201

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]

 Score = 52.3 bits (124), Expect = 2e-08
 Identities = 24/121 (19%), Positives = 42/121 (34%), Gaps = 23/121 (19%)

Query: 49  DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEY 108
           +L ++GNR F    + EA + Y RA    P   +   NR+  Y+++ Q  +         
Sbjct: 6   ELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADC---- 61

Query: 109 RPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVD 168
                               + L L   S+K+H       + +E YD A   +     + 
Sbjct: 62  -------------------RRALELDGQSVKAHFFLGQCQLEMESYDEAIANLQRAYSLA 102

Query: 169 P 169
            
Sbjct: 103 K 103

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]} Length = 128

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.7 bits (115), Expect = 9e-08
 Identities = 22/132 (16%), Positives = 48/132 (36%), Gaps = 17/132 (12%)

Query: 52  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 111
           + GN A+++ +F+ A+ +Y +A  + P +   + N+++ Y     + K R          
Sbjct: 9   ELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCR---------- 58

Query: 112 NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS 171
                    E A++   +         K++    N+    E+Y  A       L     +
Sbjct: 59  ------ELCEKAIEVGRENREDYRQIAKAYARIGNSYFKEEKYKDAIHFYNKSLAEHR-T 111

Query: 172 NPLQASLQNLER 183
             +    Q  E+
Sbjct: 112 PDVLKKCQQAEK 123

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 65

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.2 bits (106), Expect = 4e-07
 Identities = 17/52 (32%), Positives = 20/52 (38%), Gaps = 6/52 (11%)

Query: 201 DDFDCTLCLKLLYEP-----ITTPCGHSFCRSCLFQSMDRG-NKCPLCRAVL 246
           DD  C  C    Y       +   CGH+ C SC+     RG   CP C   L
Sbjct: 2   DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPL 53

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]} Length = 117

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.1 bits (100), Expect = 7e-06
 Identities = 32/134 (23%), Positives = 56/134 (41%), Gaps = 23/134 (17%)

Query: 49  DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEY 108
           +L +KGN+A    N ++A+  YS A  + P + ++  NRS+AY +   + K         
Sbjct: 5   ELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTV 64

Query: 109 RPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVD 168
                                    + +  K +  KA AL  L R++ A+     GL+ +
Sbjct: 65  DL-----------------------KPDWGKGYSRKAAALEFLNRFEEAKRTYEEGLKHE 101

Query: 169 PFSNPLQASLQNLE 182
             +  L+  LQN+E
Sbjct: 102 ANNPQLKEGLQNME 115

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]} Length = 52

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.9 bits (95), Expect = 8e-06
 Identities = 14/46 (30%), Positives = 19/46 (41%), Gaps = 5/46 (10%)

Query: 204 DCTLCLKLLYE----PITTPCGHSFCRSCLFQSMDRGNK-CPLCRA 244
           +C LC++ L           CG+  CR C  +     N  CP CR 
Sbjct: 2   ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRK 47

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 40.5 bits (94), Expect = 1e-05
 Identities = 10/43 (23%), Positives = 17/43 (39%), Gaps = 1/43 (2%)

Query: 205 CTLCLKLLYEPITTP-CGHSFCRSCLFQSMDRGNKCPLCRAVL 246
           C +  K+   P+ +P     F +S L Q +      P+    L
Sbjct: 3   CAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPL 45

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.9 bits (95), Expect = 2e-05
 Identities = 7/30 (23%), Positives = 11/30 (36%)

Query: 215 PITTPCGHSFCRSCLFQSMDRGNKCPLCRA 244
                C H+F   C+ + +     CPL   
Sbjct: 52  VAWGVCNHAFHFHCISRWLKTRQVCPLDNR 81

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 80

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 40.2 bits (93), Expect = 3e-05
 Identities = 11/65 (16%), Positives = 24/65 (36%), Gaps = 1/65 (1%)

Query: 201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLN 260
           D     +  +L+ EP  TP G ++ R  + + + R            +T      ++ + 
Sbjct: 6   DYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPV-TRSPLTQEQLIPNLAMK 64

Query: 261 SIIQK 265
            +I  
Sbjct: 65  EVIDA 69

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 97

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.5 bits (94), Expect = 3e-05
 Identities = 18/66 (27%), Positives = 30/66 (45%), Gaps = 5/66 (7%)

Query: 201 DDFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTL 259
               C+ C  +L EP+    C H FC +C+   +  G  CP+C        +   ++  L
Sbjct: 21  KLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCI--GTGCPVCYTP--AWIQDLKINRQL 76

Query: 260 NSIIQK 265
           +S+IQ 
Sbjct: 77  DSMIQL 82

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 114

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 40.4 bits (93), Expect = 6e-05
 Identities = 11/33 (33%), Positives = 15/33 (45%), Gaps = 5/33 (15%)

Query: 218 TPCGHSFCRSCLFQSMDRGN-----KCPLCRAV 245
           T C H+F   CL      GN     +CP C+ +
Sbjct: 59  TKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTI 91

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]} Length = 323

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]

 Score = 41.3 bits (95), Expect = 2e-04
 Identities = 7/54 (12%), Positives = 14/54 (25%)

Query: 44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF 97
                  ++G R  +E +   A+  +  A    P          +      Q 
Sbjct: 16 LRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQE 69

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]} Length = 168

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]

 Score = 39.6 bits (91), Expect = 2e-04
 Identities = 15/150 (10%), Positives = 41/150 (27%), Gaps = 26/150 (17%)

Query: 42  DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNI---------------KPGDPIVLGN 86
           ++      + +KG   F+   + +A+  Y +  +                +        N
Sbjct: 10  EKLEQAAIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLN 69

Query: 87  RSSAYIRISQFLKHRPPSASEYRP-----------LNGLDPTTHAELALKDAEKLLNLQS 135
            +  Y+++ ++ K                                E A  D EK+L +  
Sbjct: 70  LAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNP 129

Query: 136 NSMKSHLLKANALILLERYDMARDAILSGL 165
            +  + L         + ++       + +
Sbjct: 130 QNKAARLQIFMCQKKAKEHNERDRRTYANM 159

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]} Length = 153

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]

 Score = 37.3 bits (85), Expect = 0.001
 Identities = 15/142 (10%), Positives = 42/142 (29%), Gaps = 7/142 (4%)

Query: 42  DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHR 101
           ++    FD+ ++GN  F+++   EAI  Y  A +                 +  +   + 
Sbjct: 12  EKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNL 71

Query: 102 PPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAI 161
             +   Y               +   +K        +    +           + A++ +
Sbjct: 72  NLATC-YNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMY------FGFLEEAKENL 124

Query: 162 LSGLQVDPFSNPLQASLQNLER 183
                ++P +  ++ S +    
Sbjct: 125 YKAASLNPNNLDIRNSYELCVN 146

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]} Length = 169

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 37.0 bits (84), Expect = 0.002
 Identities = 27/136 (19%), Positives = 52/136 (38%), Gaps = 9/136 (6%)

Query: 49  DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEY 108
           DL   GN  F+  N+E AI  Y++      G          A    +   K +P + S  
Sbjct: 29  DLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSR--------AAAEDADGAKLQPVALSCV 80

Query: 109 RPL-NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQV 167
             +       +  + A+    + L +  ++ K+   +A     L+ YD A   +    ++
Sbjct: 81  LNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEI 140

Query: 168 DPFSNPLQASLQNLER 183
            P    +QA L  +++
Sbjct: 141 APEDKAIQAELLKVKQ 156

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]} Length = 60

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

 Score = 34.5 bits (78), Expect = 0.002
 Identities = 12/54 (22%), Positives = 18/54 (33%), Gaps = 7/54 (12%)

Query: 198 ERTDDFDCTLCL-----KLLYEPITTPCGHSFCRSCLFQ--SMDRGNKCPLCRA 244
           E  D   C +C      +       T    +  RSCL    ++ R   C +C  
Sbjct: 2   EDEDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGV 55

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 170

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]

 Score = 36.2 bits (82), Expect = 0.004
 Identities = 18/142 (12%), Positives = 46/142 (32%), Gaps = 8/142 (5%)

Query: 42  DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHR 101
           ++      + ++G   F+E  +++A+  Y +  +    +       +     +       
Sbjct: 8   EKLEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLN 67

Query: 102 PPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAI 161
                           +          K L L SN+ K    +  A + +  +++AR   
Sbjct: 68  LAMCHLKLQAFSAAIESC--------NKALELDSNNEKGLSRRGEAHLAVNDFELARADF 119

Query: 162 LSGLQVDPFSNPLQASLQNLER 183
              LQ+ P +   +  L   ++
Sbjct: 120 QKVLQLYPNNKAAKTQLAVCQQ 141

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]} Length = 264

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

 Score = 36.9 bits (85), Expect = 0.004
 Identities = 8/63 (12%), Positives = 25/63 (39%)

Query: 121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN 180
           + AL+   + +                L +   ++ A + ++  +++ P   P  + L++
Sbjct: 13  QQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRH 72

Query: 181 LER 183
           L +
Sbjct: 73  LVK 75

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	476
d1zboa1	197	Hypothetical protein BPP1347 {Bordetella parapertu	99.96
d2anea1	110	ATP-dependent protease La (Lon), N-terminal domain	99.85
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	99.78
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	99.74
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	99.72
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	99.69
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	99.68
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	99.67
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	99.66
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	99.64
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	99.49
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.49
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.45
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.45
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.44
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	99.43
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	99.4
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	99.39
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	99.3
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.3
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	99.26
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.24
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.23
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.22
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.19
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.18
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.18
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.16
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.14
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	99.11
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.03
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.01
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	99.01
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.95
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	98.93
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	98.92
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.92
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.91
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.85
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.85
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.85
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.84
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	98.83
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	98.81
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	98.79
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.78
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.75
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.72
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	98.7
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.58
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.55
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.52
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.52
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.51
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.44
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	98.44
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	98.43
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.23
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	98.19
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.16
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.16
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.08
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.95
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	97.9
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	97.81
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.76
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.73
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	97.65
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	97.55
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.33
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	97.21
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	96.79
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.3
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	95.1
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	94.23
d1wfda_	93	Hypothetical protein 1500032H18Rik {Mouse (Mus mus	82.4

>d1zboa1 b.122.1.10 (A:2-198) Hypothetical protein BPP1347 {Bordetella parapertussis [TaxId: 519]}

class: All beta proteins
fold: PUA domain-like
superfamily: PUA domain-like
family: LON domain-like
domain: Hypothetical protein BPP1347
species: Bordetella parapertussis [TaxId: 519]

Probab=99.96  E-value=2.7e-29  Score=228.51  Aligned_cols=173  Identities=20%  Similarity=0.218  Sum_probs=141.9

Q ss_pred             CCCcceee-cccCCCccCCCCCChhHHHHHHHHHhcCceeEEEEecC--------CCCCcccceeEEEEEEeeecCCceE
Q 011861          288 LMPLFVMD-VVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDP--------TTGSVADFACEVEITECEPLPDGRF  358 (476)
Q Consensus       288 ~lPl~~l~-vlfP~~~~pl~v~~~~~~~~v~~a~~~~~~~~v~~~~~--------~~~~l~~iGt~~~I~~~~~~~dG~~  358 (476)
                      .+|+||++ |+|||+++||+||+++|++|+++|+++++.++++....        ..+++|+|||+|+|.++.+++||++
T Consensus         2 elPlfpL~~VlfP~~~~PL~Ife~ry~~~i~~~l~~~~~~~~v~~~~~~~~~~~~~~~~l~~vGt~~~I~~~~~~~dG~~   81 (197)
T d1zboa1           2 EIPLFPLSNALFPAGVLRLRVFEIRYLDMVRRCIADGSEFGVVVLEQGTEVRRPDGREVLARAGTMARIDHWEAPMPALL   81 (197)
T ss_dssp             EEEEEEESSCCCTTBEEEEEECSTTTHHHHHHHHHTTCCEEEEEESSSCSSCCSSCCCCEEEEEEEEEEEEEECSSTTCE
T ss_pred             CCCEEeCCCccCCCcceeeEeCchHHHHHHHHHHhcCCCeeeeccccccccccccccccccceeEEEEEeeecccCCCce
Confidence            48999998 99999999999999999999999999999888877521        2357999999999999999999999


Q ss_pred             EEEEEecceeEEeeeecC-CCeeEEEEEEecCCCCCCcchhhhHHHHHHHHHHHHHHHHHHhHHhhHHHHHHHHHHhhcc
Q 011861          359 VLEIESRRRFRILRSWDQ-DGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVE  437 (476)
Q Consensus       359 ~V~v~G~~R~~I~~~~~~-~~~~~a~v~~l~d~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~~l~~il~~~  437 (476)
                      +|+++|.+||+|.++..+ ++|+.|.+++++++...  +...+..++.+.+.+.+..+.........          ...
T Consensus        82 ~i~v~G~~R~~i~~~~~~~~~~~~~~v~~~~~~~~~--~~~~~~~~l~~~l~~~~~~~~~~~~~~~~----------~~~  149 (197)
T d1zboa1          82 ELACTGTGRFRLHACTQGKYGLWTGQAEPVPDDAPL--EVPPELARSASALGRLIARLQREGVPPHI----------MPM  149 (197)
T ss_dssp             EEEEEEEEEEEEEEEEECGGGCEEEEEEEECCCCCC--CCCGGGHHHHHHHHHHHHHHHHTTCCTTT----------CSB
T ss_pred             eEeeeeccceeeeeeeeccCceEEEEEEeccccCCc--cCcHHHHHHHHHHHHHHHHHHHhcCCchh----------hhh
Confidence            999999999999998754 68899999999875331  23345566777777777776655433222          333


Q ss_pred             cCCCCCCChhhhHHHHHhcCCCChHHhHhhcccCC
Q 011861          438 VMMPPSQDPERFSFWLATLSDRRPSERLELLRIRD  472 (476)
Q Consensus       438 ~~~~~~~~p~~l~~~va~~l~l~~~~kq~LLe~~d  472 (476)
                      ......+||+.++|++|++++++.++||+|||+++
T Consensus       150 ~~~~~~~~~~~l~~~la~~l~l~~~~kQ~lLE~~~  184 (197)
T d1zboa1         150 AAPFRLDDCGWVADRWAEMLSLPPADKARLLLLPP  184 (197)
T ss_dssp             CSCCCTTCHHHHHHHHHHHSCCCHHHHHHHHHSCH
T ss_pred             hhhhccCCHHHHHHHHHHhCCCCHHHHHHHHCCCH
Confidence            44556789999999999999999999999999754

>d2anea1 b.122.1.10 (A:8-117) ATP-dependent protease La (Lon), N-terminal domain {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: PUA domain-like
superfamily: PUA domain-like
family: LON domain-like
domain: ATP-dependent protease La (Lon), N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=99.85  E-value=1e-21  Score=160.82  Aligned_cols=100  Identities=21%  Similarity=0.292  Sum_probs=92.8

Q ss_pred             CCCcceee--cccCCCccCCCCCChhHHHHHHHHHhcCceeEEEEec------CCCCCcccceeEEEEEEeeecCCceEE
Q 011861          288 LMPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIID------PTTGSVADFACEVEITECEPLPDGRFV  359 (476)
Q Consensus       288 ~lPl~~l~--vlfP~~~~pl~v~~~~~~~~v~~a~~~~~~~~v~~~~------~~~~~l~~iGt~~~I~~~~~~~dG~~~  359 (476)
                      .+|+||++  |+|||+++||+|++++|++|+++++++++.++++.+.      +..+++|.+||+|+|.++.+++||+++
T Consensus         3 ~lPv~pl~~~vlFPg~~~pl~v~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vG~~~~i~~~~~~~dg~~~   82 (110)
T d2anea1           3 EIPVLPLRDVVVYPHMVIPLFVGREKSIRCLEAAMDHDKKIMLVAQKEASTDEPGVNDLFTVGTVASILQMLKLPDGTVK   82 (110)
T ss_dssp             EEEEEEESSCCCCTTCEEEEEECCHHHHHHHHHHHTTTSEEEEEEBCTTCCSSCCGGGBCSEEEEEEEEEEEECTTSCEE
T ss_pred             eEeEEEcCCceeCCCccEEEEECCHHHHHHHHHHHhccCceeeeeeccccccccccchhhceeeEEEEEEEEeccCCeEE
Confidence            48999997  9999999999999999999999999999999888873      233479999999999999999999999


Q ss_pred             EEEEecceeEEeeeecCCCeeEEEEEEe
Q 011861          360 LEIESRRRFRILRSWDQDGYRVAEIEWV  387 (476)
Q Consensus       360 V~v~G~~R~~I~~~~~~~~~~~a~v~~l  387 (476)
                      |+++|.+||+|.++.+++||+.|+|+++
T Consensus        83 i~v~g~~R~~I~~~~~~~p~~~a~Ve~l  110 (110)
T d2anea1          83 VLVEGLQRARISALSDNGEHFSAKAEYL  110 (110)
T ss_dssp             EEEEEEEEEEEEEEEECSSSEEEEEEEC
T ss_pred             EEEEEEEEEEEEEEEcCCCCEEEEEEEC
Confidence            9999999999999999999999999975

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.78  E-value=3.6e-19  Score=147.04  Aligned_cols=115  Identities=31%  Similarity=0.482  Sum_probs=111.0

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      ++..++++|+.+|..|+|++|+..|+++|+++|+++.+|.++|.+|..+|++                       .+|+.
T Consensus         2 ~~~~l~~~g~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~-----------------------~~A~~   58 (117)
T d1elwa_           2 QVNELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDY-----------------------QKAYE   58 (117)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH-----------------------HHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccc-----------------------cccch
Confidence            4678999999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHH
Q 011861          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  183 (476)
Q Consensus       126 ~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~  183 (476)
                      .+.++++++|+++.+|+++|.++..+|+|++|+..|+++++++|+++.+...+.+++.
T Consensus        59 ~~~~al~~~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~l~~  116 (117)
T d1elwa_          59 DGCKTVDLKPDWGKGYSRKAAALEFLNRFEEAKRTYEEGLKHEANNPQLKEGLQNMEA  116 (117)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHH
T ss_pred             hhhhHHHhccchhhHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhC
Confidence            9999999999999999999999999999999999999999999999999988888754

>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=99.74  E-value=3.4e-18  Score=148.87  Aligned_cols=122  Identities=25%  Similarity=0.383  Sum_probs=114.6

Q ss_pred             chhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchH
Q 011861           41 WDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA  120 (476)
Q Consensus        41 ~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (476)
                      .....++..+..+|+.+|+.|+|++|+..|++|++++|+++.+|.++|.+|+.+|++                       
T Consensus         4 ~~~l~~a~~l~~~gn~~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~-----------------------   60 (159)
T d1a17a_           4 DGALKRAEELKTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECY-----------------------   60 (159)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCH-----------------------
T ss_pred             hHHHHHHHHHHHHHHHHHHcCCHHHHHHHhhhccccchhhhhhhhhhHHHHHhcccc-----------------------
Confidence            345678999999999999999999999999999999999999999999999999999                       


Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhh
Q 011861          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (476)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~  185 (476)
                      ++|+..|+++++++|++..+|+.+|.++..+|+|++|+..|+++++++|++..+...+..+.+.+
T Consensus        61 ~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~~eA~~~~~~a~~~~p~~~~~~~~l~~~~~~~  125 (159)
T d1a17a_          61 GYALGDATRAIELDKKYIKGYYRRAASNMALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIV  125 (159)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHcccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999887776665443

>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=99.72  E-value=1.2e-17  Score=144.65  Aligned_cols=124  Identities=18%  Similarity=0.271  Sum_probs=114.5

Q ss_pred             hhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc----------------ccccchhHHHHHHHhhhccCCCCC
Q 011861           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----------------IVLGNRSSAYIRISQFLKHRPPSA  105 (476)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~----------------~~~~~~a~~~~~~~~~~~~~~~~~  105 (476)
                      +....+..+.++|+.+|+.|+|.+|+..|++|+++.+...                .+|.|+|.+|+++|++        
T Consensus        12 e~~~~a~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~--------   83 (153)
T d2fbna1          12 EKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDY--------   83 (153)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCH--------
T ss_pred             HHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhccc--------
Confidence            4556788899999999999999999999999999876543                4788999999999999        


Q ss_pred             cccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhh
Q 011861          106 SEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (476)
Q Consensus       106 ~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~  185 (476)
                                     ++|+.++.+|++++|++.++|+++|.++..+|+|++|+.+|+++++++|+|..+...+..+.+.+
T Consensus        84 ---------------~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~kl  148 (153)
T d2fbna1          84 ---------------PKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVNKL  148 (153)
T ss_dssp             ---------------HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH
T ss_pred             ---------------chhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence                           99999999999999999999999999999999999999999999999999999999988888877


Q ss_pred             hhh
Q 011861          186 ASL  188 (476)
Q Consensus       186 ~~~  188 (476)
                      .+.
T Consensus       149 ~~~  151 (153)
T d2fbna1         149 KEA  151 (153)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            654

>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=99.69  E-value=2.3e-17  Score=144.98  Aligned_cols=145  Identities=19%  Similarity=0.207  Sum_probs=124.8

Q ss_pred             eeecccCccccccCCCCCCchhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhcc----------------CCCCccccc
Q 011861           22 GIDDVDDYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNI----------------KPGDPIVLG   85 (476)
Q Consensus        22 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~----------------~p~~~~~~~   85 (476)
                      .+|...||+........-.......+..+...|+.++..|+|.+|+..|++|+++                +|.+..+|.
T Consensus         2 ~gd~~~d~p~d~~~~l~~~~~~~~~a~~~~~~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (169)
T d1ihga1           2 SGDSHPDFPEDADVDLKDVDKILLISEDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVL   81 (169)
T ss_dssp             SCCCSCSSGGGSSSCTTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHH
T ss_pred             CCCCCCCCchhhHHCHhhHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHH
Confidence            4677778876544433223344556778899999999999999999999999864                455668899


Q ss_pred             chhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhccc
Q 011861           86 NRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGL  165 (476)
Q Consensus        86 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l  165 (476)
                      ++|.+|.++|+|                       ++|+.+|++|++++|+++.+|+++|.+|..+|+|++|+..|++++
T Consensus        82 nla~~~~~~~~~-----------------------~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al  138 (169)
T d1ihga1          82 NIGACKLKMSDW-----------------------QGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQ  138 (169)
T ss_dssp             HHHHHHHHTTCH-----------------------HHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhhccc-----------------------chhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHH
Confidence            999999999999                       999999999999999999999999999999999999999999999


Q ss_pred             ccCCCCchhhHHHHHHHHhhhhhh
Q 011861          166 QVDPFSNPLQASLQNLERTTASLI  189 (476)
Q Consensus       166 ~l~p~~~~~~~~~~~~~~~~~~~~  189 (476)
                      +++|++..+...+..+.+.+....
T Consensus       139 ~l~p~n~~~~~~l~~~~~~l~~~~  162 (169)
T d1ihga1         139 EIAPEDKAIQAELLKVKQKIKAQK  162 (169)
T ss_dssp             HHCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HhCCCCHHHHHHHHHHHHHHHHHH
Confidence            999999999998888887776544

>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=99.68  E-value=1.5e-17  Score=149.24  Aligned_cols=106  Identities=26%  Similarity=0.382  Sum_probs=101.5

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      .+..+.++|+.+|+.|+|++|+..|++|++++|+++.+|.++|.+|.++|+|                       ++|+.
T Consensus         3 ~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~~~~~~~~lg~~y~~~~~~-----------------------~~Ai~   59 (201)
T d2c2la1           3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQP-----------------------EQALA   59 (201)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHhhhhhh-----------------------hhhhH
Confidence            3678999999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchh
Q 011861          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  174 (476)
Q Consensus       126 ~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~  174 (476)
                      .|.+|++++|++..+|+++|.+|..+|+|++|+..|+++++++|++...
T Consensus        60 ~~~~al~l~p~~~~a~~~lg~~~~~l~~~~~A~~~~~~al~l~p~~~~~  108 (201)
T d2c2la1          60 DCRRALELDGQSVKAHFFLGQCQLEMESYDEAIANLQRAYSLAKEQRLN  108 (201)
T ss_dssp             HHHHHTTSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHH
Confidence            9999999999999999999999999999999999999999998865543

>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=99.67  E-value=9.6e-17  Score=141.30  Aligned_cols=125  Identities=17%  Similarity=0.275  Sum_probs=114.5

Q ss_pred             hhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc---------------ccccchhHHHHHHHhhhccCCCCCc
Q 011861           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---------------IVLGNRSSAYIRISQFLKHRPPSAS  106 (476)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~---------------~~~~~~a~~~~~~~~~~~~~~~~~~  106 (476)
                      +....+..+.++|+.+|+.|+|++|+..|++||.+.|...               .+|.++|.||+++|+|         
T Consensus         8 ek~~~a~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~---------   78 (170)
T d1p5qa1           8 EKLEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAF---------   78 (170)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCH---------
T ss_pred             HHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhc---------
Confidence            4456788899999999999999999999999999988764               5677899999999999         


Q ss_pred             ccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhh
Q 011861          107 EYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  186 (476)
Q Consensus       107 ~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~  186 (476)
                                    ++|+.++++|++++|+++.+|+++|.+|..+|+|++|+..|+++++++|+|+.+...+..+.+.+.
T Consensus        79 --------------~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~~  144 (170)
T d1p5qa1          79 --------------SAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIR  144 (170)
T ss_dssp             --------------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHH
T ss_pred             --------------ccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHH
Confidence                          999999999999999999999999999999999999999999999999999999988888877665


Q ss_pred             hhh
Q 011861          187 SLI  189 (476)
Q Consensus       187 ~~~  189 (476)
                      ...
T Consensus       145 ~~~  147 (170)
T d1p5qa1         145 RQL  147 (170)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

>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=99.66  E-value=1.1e-16  Score=140.65  Aligned_cols=125  Identities=15%  Similarity=0.271  Sum_probs=113.9

Q ss_pred             hhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc---------------ccccchhHHHHHHHhhhccCCCCCc
Q 011861           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---------------IVLGNRSSAYIRISQFLKHRPPSAS  106 (476)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~---------------~~~~~~a~~~~~~~~~~~~~~~~~~  106 (476)
                      +....+..+.++|+.+|+.|+|.+|+..|++|+.+.|...               .+|.|+|.||+++|+|         
T Consensus        10 E~~~~a~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~---------   80 (168)
T d1kt1a1          10 EKLEQAAIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREY---------   80 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCH---------
T ss_pred             HHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhc---------
Confidence            4556789999999999999999999999999998765543               5688999999999999         


Q ss_pred             ccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhh
Q 011861          107 EYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  186 (476)
Q Consensus       107 ~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~  186 (476)
                                    .+|+.+++++++++|++.++|+++|.++..+|+|++|+.+|.++++++|+++.+...+..+...+.
T Consensus        81 --------------~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~~  146 (168)
T d1kt1a1          81 --------------TKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQKKAK  146 (168)
T ss_dssp             --------------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHH
T ss_pred             --------------ccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHH
Confidence                          999999999999999999999999999999999999999999999999999999888888877765


Q ss_pred             hhh
Q 011861          187 SLI  189 (476)
Q Consensus       187 ~~~  189 (476)
                      ...
T Consensus       147 ~~~  149 (168)
T d1kt1a1         147 EHN  149 (168)
T ss_dssp             HHH
T ss_pred             hHH
Confidence            543

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.64  E-value=2.3e-16  Score=132.09  Aligned_cols=118  Identities=16%  Similarity=0.268  Sum_probs=105.4

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      +.|.++.+.|+.+|..|+|++|+.+|+++|+++|+++.++.++|.+|.++|+|                       ++|+
T Consensus         2 ~~a~~~k~~G~~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~-----------------------~~A~   58 (128)
T d1elra_           2 KQALKEKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDY-----------------------NKCR   58 (128)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH-----------------------HHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCch-----------------------HHHH
Confidence            46888999999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchH-------HHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhh
Q 011861          125 KDAEKLLNLQSNSMK-------SHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  186 (476)
Q Consensus       125 ~~~~~al~l~p~~~~-------~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~  186 (476)
                      .++++|++++|++..       +|+++|.++..+++|++|+..|.+++..+++ +++...+..+++.+.
T Consensus        59 ~~~~~al~l~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~kal~~~~~-~~~~~~l~~~~k~lk  126 (128)
T d1elra_          59 ELCEKAIEVGRENREDYRQIAKAYARIGNSYFKEEKYKDAIHFYNKSLAEHRT-PDVLKKCQQAEKILK  126 (128)
T ss_dssp             HHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCcccHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCC-HHHHHHHHHHHHHHh
Confidence            999999999998754       6777888888889999999999999998865 556666677766654

>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=99.49  E-value=2.5e-14  Score=118.33  Aligned_cols=112  Identities=13%  Similarity=0.054  Sum_probs=102.1

Q ss_pred             HhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHH---HHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHH
Q 011861           52 QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIR---ISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (476)
Q Consensus        52 ~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (476)
                      ..++.++..+++++|.+.|.+++.++|+++.+++++|.++++   .+++                       ++|+..++
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~-----------------------~~Ai~~l~   60 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDI-----------------------RKGIVLLE   60 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHH-----------------------HHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhcchHHH-----------------------HHHHHHHH
Confidence            457788999999999999999999999999999999999985   6677                       89999999


Q ss_pred             HHhhccccc--hHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhh
Q 011861          129 KLLNLQSNS--MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  186 (476)
Q Consensus       129 ~al~l~p~~--~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~  186 (476)
                      +++..+|++  ..+++.+|.+|..+|+|++|+..|+++++++|++..+...+..+++.+.
T Consensus        61 ~~l~~~~~~~~~~~~~~Lg~~y~~~g~~~~A~~~~~~aL~~~P~~~~A~~l~~~I~~~~~  120 (122)
T d1nzna_          61 ELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQTEPQNNQAKELERLIDKAMK  120 (122)
T ss_dssp             HHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHhccCCchHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHHc
Confidence            999998765  4589999999999999999999999999999999999888887777654

>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=99.49  E-value=3.5e-14  Score=131.76  Aligned_cols=115  Identities=22%  Similarity=0.149  Sum_probs=107.7

Q ss_pred             hhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHH
Q 011861           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (476)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (476)
                      ....+..+...|..|++.|+|++|+..|.+|++++|+++.+|.++|.+|.++|++                       ++
T Consensus        33 ~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~-----------------------~~   89 (259)
T d1xnfa_          33 DDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNF-----------------------DA   89 (259)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCH-----------------------HH
T ss_pred             CHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHH-----------------------HH
Confidence            4456888999999999999999999999999999999999999999999999999                       99


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHH
Q 011861          123 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (476)
Q Consensus       123 a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~  180 (476)
                      |+..|+++++++|+++.+++.+|.++..+|++++|+..|+++++++|.+......+..
T Consensus        90 A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~  147 (259)
T d1xnfa_          90 AYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPNDPFRSLWLYL  147 (259)
T ss_dssp             HHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             hhhhhhHHHHHHhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhccccHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999988776544433

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.45  E-value=2.1e-14  Score=108.78  Aligned_cols=71  Identities=24%  Similarity=0.480  Sum_probs=62.2

Q ss_pred             CCCCCcccccccccccccCcEEccCCCcccHhhHHHhhhc-CCCCcccccccccCCCCcccchhHHHHHHHhCc
Q 011861          196 TPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR-GNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFP  268 (476)
Q Consensus       196 ~~~~~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~-~~~Cp~cr~~~~~~~~~~~~n~~l~~~~~~~~~  268 (476)
                      .+..++++.|+||.++|.+|+.++|||+||+.||.+|+.. ...||.|+..+.  ...+..|..|+++|++|..
T Consensus         2 ~peiP~~l~CpIc~~~m~dPV~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~--~~~l~pN~~L~~~I~~~~~   73 (78)
T d1t1ha_           2 SPEFPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLL--HAGLTPNYVLKSLIALWCE   73 (78)
T ss_dssp             CCCCSSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCS--SCCCEECTTTHHHHHHHHH
T ss_pred             CCCCCccCCCcCcCchhhCceEccCCCcchHHHHHHHHHHCCCCCCcccccCC--cccccchHHHHHHHHHHHH
Confidence            4567889999999999999999999999999999999975 456999999874  3677889999999988753

>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=99.45  E-value=8.5e-14  Score=113.20  Aligned_cols=96  Identities=13%  Similarity=0.047  Sum_probs=91.7

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      ....+..|..++++|++.+|+..|+++++.+|+++.+|.++|.+|.++|++                       .+|+..
T Consensus        16 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~-----------------------~~A~~~   72 (112)
T d1hxia_          16 HENPMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKD-----------------------GLAIIA   72 (112)
T ss_dssp             CSCHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhH-----------------------HHhhcc
Confidence            344678899999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhccc
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGL  165 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l  165 (476)
                      ++++++++|++..+++.+|.+|...|++++|++.+++.|
T Consensus        73 ~~~al~~~p~~~~a~~~la~~y~~~g~~~~A~~~l~~~l  111 (112)
T d1hxia_          73 LNHARMLDPKDIAVHAALAVSHTNEHNANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccccccccccccchHHHHHHHHHCCCHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999865

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.44  E-value=2.9e-14  Score=108.41  Aligned_cols=69  Identities=19%  Similarity=0.330  Sum_probs=60.4

Q ss_pred             CCCcccccccccccccCcEEccCCCcccHhhHHHhhh-cCCCCcccccccccCCCCcccchhHHHHHHHhCc
Q 011861          198 ERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD-RGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFP  268 (476)
Q Consensus       198 ~~~~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~-~~~~Cp~cr~~~~~~~~~~~~n~~l~~~~~~~~~  268 (476)
                      ++++++.|+||+++|.+|++++|||+||+.||.+|+. ++..||.||..+.  ..++.+|..|++++++|..
T Consensus         3 eiP~~l~CpIc~~l~~dPv~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~--~~~l~pN~~L~~~I~~~l~   72 (80)
T d2c2la2           3 DIPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLT--QEQLIPNLAMKEVIDAFIS   72 (80)
T ss_dssp             CCCSTTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCC--GGGCEECHHHHHHHHHHHT
T ss_pred             CCCccccCcCcCchhhhhcccCCcCeecHHHHHHHHhcCCccCCCcccccc--ccccccHHHHHHHHHHHHH
Confidence            4578999999999999999999999999999999997 4557999999874  3577889999999988753

>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=99.43  E-value=1.1e-13  Score=118.00  Aligned_cols=122  Identities=16%  Similarity=0.128  Sum_probs=102.2

Q ss_pred             hHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhc
Q 011861           54 GNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNL  133 (476)
Q Consensus        54 g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l  133 (476)
                      +..+-+.+.|++|+..|.+|++++|+++.+++++|.++..++++.    ....         .....++|+..|++|+++
T Consensus         4 ~~~~~r~~~fe~A~~~~e~al~~~P~~~~~~~~~g~~l~~~~~~~----~~~e---------~~~~~~~Ai~~~~kAl~l   70 (145)
T d1zu2a1           4 ETEFDRILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFH----SISD---------AKQMIQEAITKFEEALLI   70 (145)
T ss_dssp             CCSHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHS----CHHH---------HHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHccHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHhhhhh----hhhH---------HHHHHHHHHHHHHHHHHh
Confidence            445566788999999999999999999999999999999877660    0000         111228999999999999


Q ss_pred             cccchHHHHHHHHHHHhhhh-----------HHHHHHHHhcccccCCCCchhhHHHHHHHHhhhhh
Q 011861          134 QSNSMKSHLLKANALILLER-----------YDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  188 (476)
Q Consensus       134 ~p~~~~~~~~~~~~~~~~~~-----------~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~~  188 (476)
                      +|+++.+|+++|.+|..+|+           |++|...|+++++++|++...+..+....++....
T Consensus        71 ~P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l~P~~~~~~~~L~~~~ka~~~~  136 (145)
T d1zu2a1          71 DPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSLEMTAKAPQLH  136 (145)
T ss_dssp             CTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHTHHHHH
T ss_pred             cchhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccccCCCHHHHHHHHHHHHHHHHHH
Confidence            99999999999999988764           79999999999999999999999988887776443

>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=99.40  E-value=2.5e-13  Score=121.42  Aligned_cols=103  Identities=15%  Similarity=0.143  Sum_probs=94.9

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      .++..++.+|..++.+|+|++|+..|.+   +.|.++.+|+++|.+|..+|++                       ++|+
T Consensus         3 ~~~~~l~~~g~~~~~~~d~~~Al~~~~~---i~~~~~~~~~nlG~~~~~~g~~-----------------------~~A~   56 (192)
T d1hh8a_           3 VEAISLWNEGVLAADKKDWKGALDAFSA---VQDPHSRICFNIGCMYTILKNM-----------------------TEAE   56 (192)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHT---SSSCCHHHHHHHHHHHHHTTCH-----------------------HHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHh---cCCCCHHHHHHHHHHHHHcCCc-----------------------hhHH
Confidence            3567888999999999999999999986   4566789999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCch
Q 011861          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (476)
Q Consensus       125 ~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~  173 (476)
                      +.|++|+++||+++.+|+.+|.++..+|+|++|+.+|++++...+.+..
T Consensus        57 ~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~~~A~~~~~kAl~~~~~n~~  105 (192)
T d1hh8a_          57 KAFTRSINRDKHLAVAYFQRGMLYYQTEKYDLAIKDLKEALIQLRGNQL  105 (192)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCSE
T ss_pred             HHHHHHHHHhhhhhhhHHHHHHHHHhhccHHHHHHHHHHHHHhCccCch
Confidence            9999999999999999999999999999999999999999987776654

>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=99.39  E-value=1.6e-13  Score=118.33  Aligned_cols=119  Identities=18%  Similarity=0.152  Sum_probs=100.0

Q ss_pred             hhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc------------ccccchhHHHHHHHhhhccCCCCCcccCCC
Q 011861           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP------------IVLGNRSSAYIRISQFLKHRPPSASEYRPL  111 (476)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  111 (476)
                      ...+..++..|+.+|..|+|++|+..|++|++++|+.+            .+|.++|.+|..+|+|              
T Consensus         6 ~a~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~--------------   71 (156)
T d2hr2a1           6 VVGAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSF--------------   71 (156)
T ss_dssp             HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCH--------------
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCcc--------------
Confidence            44567778889999999999999999999999988764            5788999999999999              


Q ss_pred             CCCCCcchHHHHHHHHHHHhhcccc-----------chHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHH
Q 011861          112 NGLDPTTHAELALKDAEKLLNLQSN-----------SMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (476)
Q Consensus       112 ~~~~~~~~~~~a~~~~~~al~l~p~-----------~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~  180 (476)
                               ++|+.++++++++.|.           +..+|+++|.+|..+|++++|+..|++++++.|...........
T Consensus        72 ---------~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~~~~~~~~~~~~  142 (156)
T d2hr2a1          72 ---------DEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKER  142 (156)
T ss_dssp             ---------HHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTTHHH
T ss_pred             ---------chhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHhhchHHHHHH
Confidence                     9999999999988653           45589999999999999999999999999998766555444444


Q ss_pred             HHHhh
Q 011861          181 LERTT  185 (476)
Q Consensus       181 ~~~~~  185 (476)
                      +.+.+
T Consensus       143 ~~~~~  147 (156)
T d2hr2a1         143 MMEVA  147 (156)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            43333

>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=99.30  E-value=3.5e-12  Score=113.82  Aligned_cols=102  Identities=16%  Similarity=0.094  Sum_probs=94.3

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      +..+...|..++..|+|++|+..|++|++++|+++.+|.++|.+|.++|++                       ++|+++
T Consensus        36 ~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~-----------------------~~A~~~   92 (192)
T d1hh8a_          36 SRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKY-----------------------DLAIKD   92 (192)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHHHHHHHHhhccH-----------------------HHHHHH
Confidence            456889999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccc----------------hHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCC
Q 011861          127 AEKLLNLQSNS----------------MKSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (476)
Q Consensus       127 ~~~al~l~p~~----------------~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~  171 (476)
                      |++|+...+.+                .+.++.+|.++..+|++++|++.+.+++++.|..
T Consensus        93 ~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~  153 (192)
T d1hh8a_          93 LKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  153 (192)
T ss_dssp             HHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             HHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCc
Confidence            99999875532                4678999999999999999999999999998864

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.30  E-value=5.9e-13  Score=106.27  Aligned_cols=64  Identities=28%  Similarity=0.842  Sum_probs=53.9

Q ss_pred             ccccccccccccCcEEccCCCcccHhhHHHhhhcC---CCCcccccccccCCCCcccchhHHHHHHHhC
Q 011861          202 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRG---NKCPLCRAVLFITPRTCAVSVTLNSIIQKNF  267 (476)
Q Consensus       202 ~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~~---~~Cp~cr~~~~~~~~~~~~n~~l~~~~~~~~  267 (476)
                      .+.|+||++.+.+|++++|||+||..||..|+...   ..||.||..+.  +.++..|..+.++++++.
T Consensus        21 ~l~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~--~~~l~~n~~l~~~ve~l~   87 (103)
T d1jm7a_          21 ILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDIT--KRSLQESTRFSQLVEELL   87 (103)
T ss_dssp             HTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCC--TTTCBCCCSSSHHHHHHH
T ss_pred             CcCCCccCchhCCeEEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCC--hhhCCcCHHHHHHHHHHH
Confidence            67899999999999999999999999999998643   46999999874  356777877777777653

>d1wgma_ g.44.1.2 (A:) Ubiquitin conjugation factor E4A {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Ubiquitin conjugation factor E4A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.26  E-value=3.8e-12  Score=100.10  Aligned_cols=71  Identities=18%  Similarity=0.248  Sum_probs=62.1

Q ss_pred             CCCCCCcccccccccccccCcEEccCC-CcccHhhHHHhhhcCCCCcccccccccCCCCcccchhHHHHHHHhC
Q 011861          195 GTPERTDDFDCTLCLKLLYEPITTPCG-HSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNF  267 (476)
Q Consensus       195 ~~~~~~~~~~C~iC~~~~~~P~~~~cg-h~fC~~Cl~~~~~~~~~Cp~cr~~~~~~~~~~~~n~~l~~~~~~~~  267 (476)
                      .....+++|.|+||..+|.+||+++|| |+||+.||.+|+..+..||.|++++.  ..++..|..|++.|++|.
T Consensus        15 ~~~~~P~~f~CPI~~~lm~dPV~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~--~~~L~pN~~Lr~~I~~~~   86 (98)
T d1wgma_          15 TYADACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLT--MDQIRPNTELKEKIQRWL   86 (98)
T ss_dssp             CCCSCCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCC--TTTSEECHHHHHHHHHHH
T ss_pred             hhcCCcHHhCCcCchhHHHHHHhcccccchhhHHHHHHHHHhcCCccccccccc--chhhcchHHHHHHHHHHH
Confidence            344567899999999999999999877 58999999999998889999999874  367889999999998875

>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=99.24  E-value=8.7e-12  Score=120.01  Aligned_cols=118  Identities=10%  Similarity=-0.052  Sum_probs=106.1

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHh-hhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQ-FLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      -+..+...|..+.+++.+++|+..|++||+++|++..+|.+||.++..+|+ +                       ++|+
T Consensus        42 ~~~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~~~~a~~~r~~~l~~l~~~~-----------------------~eal   98 (315)
T d2h6fa1          42 FRDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDL-----------------------HEEM   98 (315)
T ss_dssp             HHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCH-----------------------HHHH
T ss_pred             HHHHHHHHHHHHHhCCchHHHHHHHHHHHHHCCCChHHHHHHHHHHHHhCcCH-----------------------HHHH
Confidence            345555678888899999999999999999999999999999999999875 8                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhh
Q 011861          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  186 (476)
Q Consensus       125 ~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~  186 (476)
                      ..++++++++|++..+|+.+|.++..+|++++|+..+.++++++|.+..++..+..+-..++
T Consensus        99 ~~~~~al~~~p~~~~a~~~~~~~~~~l~~~~eAl~~~~kal~~dp~n~~a~~~~~~~~~~~~  160 (315)
T d2h6fa1          99 NYITAIIEEQPKNYQVWHHRRVLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFK  160 (315)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhhhhHHHHHhHHHHhhccHHHHHHHHhhhhhhhhcchHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999998887776655443

>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=99.23  E-value=4.1e-12  Score=121.45  Aligned_cols=105  Identities=17%  Similarity=0.144  Sum_probs=97.1

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHH
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (476)
                      ..+...|..++..|++++|+..|.+++..+|+++.+|.++|.+|..+|++                       ++|+..+
T Consensus       173 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~-----------------------~~A~~~~  229 (323)
T d1fcha_         173 DVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQS-----------------------EEAVAAY  229 (323)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHHH
T ss_pred             ccchhhHHHHHHHHHHhhhhcccccccccccccccchhhhhhcccccccc-----------------------hhHHHHH
Confidence            44567788999999999999999999999999999999999999999999                       9999999


Q ss_pred             HHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhh
Q 011861          128 EKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  175 (476)
Q Consensus       128 ~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~  175 (476)
                      +++++++|+++.+|+.+|.+|..+|+|++|+..|+++++++|++....
T Consensus       230 ~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~  277 (323)
T d1fcha_         230 RRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPR  277 (323)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC----
T ss_pred             HHHHHHhhccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhh
Confidence            999999999999999999999999999999999999999999887654

>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=99.22  E-value=6.4e-12  Score=120.98  Aligned_cols=114  Identities=10%  Similarity=-0.007  Sum_probs=105.3

Q ss_pred             hhHHHHHHhhHHHHHhc-cHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHH
Q 011861           45 THVFDLVQKGNRAFRES-NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~-~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (476)
                      ..+.++..+|..+...| ++++|+..|.++++++|++..+|.+||.++.++|++                       ++|
T Consensus        75 ~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~~~l~~~-----------------------~eA  131 (315)
T d2h6fa1          75 ANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEWLRDP-----------------------SQE  131 (315)
T ss_dssp             TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCC-----------------------TTH
T ss_pred             CChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHHHhhccH-----------------------HHH
Confidence            34567788899988865 699999999999999999999999999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       124 ~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      +..+.++++++|++..+|+.+|.++..+|+|++|+..++++++++|.+..++..+..+
T Consensus       132 l~~~~kal~~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~n~~a~~~r~~~  189 (315)
T d2h6fa1         132 LEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFV  189 (315)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHhhhhhhhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCccHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999887665544

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.19  E-value=5.9e-12  Score=95.89  Aligned_cols=47  Identities=36%  Similarity=1.008  Sum_probs=42.6

Q ss_pred             cccccccccccccCcEEccCCCcccHhhHHHhhh-cCCCCcccccccc
Q 011861          201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD-RGNKCPLCRAVLF  247 (476)
Q Consensus       201 ~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~-~~~~Cp~cr~~~~  247 (476)
                      +.+.|++|++.+.+|+.++|||+||+.||.+|+. ++..||.||.++.
T Consensus        22 ~~l~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~   69 (86)
T d1rmda2          22 KSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCF   69 (86)
T ss_dssp             HHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             cCcCCccCCcchhcceecCCCChhhHHHHHHHHhhCCCcCcccCCCCC
Confidence            4578999999999999999999999999999997 5567999999874

>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=99.18  E-value=2.1e-11  Score=116.44  Aligned_cols=102  Identities=16%  Similarity=0.127  Sum_probs=98.2

Q ss_pred             HHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHH
Q 011861           50 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  129 (476)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  129 (476)
                      .+++|..+++.|+|++|+..|.++++.+|+++.+|.++|.+|..+|++                       ++|+..+.+
T Consensus        22 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~-----------------------~~A~~~~~~   78 (323)
T d1fcha_          22 PFEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQE-----------------------LLAISALRR   78 (323)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCh-----------------------HHHHHHHHh
Confidence            578999999999999999999999999999999999999999999999                       999999999


Q ss_pred             HhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchh
Q 011861          130 LLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  174 (476)
Q Consensus       130 al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~  174 (476)
                      +++++|++..+++.+|.+|...|++++|+..+.+++.++|.+...
T Consensus        79 al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~  123 (323)
T d1fcha_          79 CLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHL  123 (323)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGG
T ss_pred             hhccccccccccccccccccccccccccccchhhHHHhccchHHH
Confidence            999999999999999999999999999999999999999877654

>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=99.18  E-value=1.8e-11  Score=118.07  Aligned_cols=132  Identities=17%  Similarity=0.130  Sum_probs=73.8

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCC---------
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDP---------  116 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------  116 (476)
                      .+..+...|..+++.|++++|+..|.++++++|+++.++.++|.++...|++.+.    ...++......+         
T Consensus       236 ~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A----~~~~~~~~~~~~~~~~~~~~l  311 (388)
T d1w3ba_         236 HAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSVAEA----EDCYNTALRLCPTHADSLNNL  311 (388)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHHSCHHHH----HHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHH----HHHHHhhhccCCccchhhhHH
Confidence            3455666777777777777777777777777777777777777777777766000    000000000000         


Q ss_pred             ------cchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          117 ------TTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       117 ------~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                            ....++|+..++++++++|+++.+++.+|.+|..+|++++|+..|+++++++|++..+...+..+
T Consensus       312 ~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~lg~~  382 (388)
T d1w3ba_         312 ANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNT  382 (388)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence                  00005555555555555555555555555555555555555555555555555555554444333

>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=99.16  E-value=1.8e-11  Score=118.08  Aligned_cols=107  Identities=13%  Similarity=0.048  Sum_probs=100.2

Q ss_pred             HHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHH
Q 011861           51 VQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKL  130 (476)
Q Consensus        51 ~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a  130 (476)
                      ++.|+.+|+.|+|++|+..|.++++.+|+++.++..+|.+|.++|++                       ++|+..++++
T Consensus         3 l~la~~~~~~G~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~-----------------------~~A~~~~~~a   59 (388)
T d1w3ba_           3 MELAHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRL-----------------------DRSAHFSTLA   59 (388)
T ss_dssp             CTHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHH
Confidence            46799999999999999999999999999999999999999999999                       9999999999


Q ss_pred             hhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHH
Q 011861          131 LNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (476)
Q Consensus       131 l~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~  180 (476)
                      ++++|+++.+++.+|.++..+|++++|+..+..+.+.+|.+.........
T Consensus        60 l~~~p~~~~a~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  109 (388)
T d1w3ba_          60 IKQNPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAA  109 (388)
T ss_dssp             HHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHhCCCCHHHHHHHHHHhhhhccccccccccccccccccccccccccccc
Confidence            99999999999999999999999999999999999999888776544433

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.14  E-value=1.1e-11  Score=97.52  Aligned_cols=61  Identities=28%  Similarity=0.697  Sum_probs=52.7

Q ss_pred             ccccccccccccCcEEc-cCCCcccHhhHHHhhhcCCCCcccccccccCCCCcccchhHHHHHHHh
Q 011861          202 DFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKN  266 (476)
Q Consensus       202 ~~~C~iC~~~~~~P~~~-~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~~~~~~~~~n~~l~~~~~~~  266 (476)
                      .+.|+||.+.+.+|+.+ +|||+||..||.+|+.  ..||.||..+.  ..++..|..+.++++.+
T Consensus        22 ~l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~--~~~l~~n~~l~~lv~~~   83 (97)
T d1jm7b_          22 LLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAW--IQDLKINRQLDSMIQLC   83 (97)
T ss_dssp             TTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCS--CSSCCCCHHHHHHHHHH
T ss_pred             cCCCccCCchhhcCceeCCCCCchhHHHHHHHHh--ccccccCCcCc--hhhCcccHHHHHHHHHH
Confidence            67899999999999975 8999999999999985  35999999874  36788899999988765

>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=99.11  E-value=4.6e-11  Score=93.57  Aligned_cols=84  Identities=18%  Similarity=0.105  Sum_probs=72.4

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC-------cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcc
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD-------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT  118 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~-------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (476)
                      .+.++++.|..+++.|+|.+|+..|.+|+++.|.+       ..+|.++|.+|.++|++                     
T Consensus         4 saddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~---------------------   62 (95)
T d1tjca_           4 TAEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDL---------------------   62 (95)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCH---------------------
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCCh---------------------
Confidence            36778999999999999999999999999987655       35678889999999999                     


Q ss_pred             hHHHHHHHHHHHhhccccchHHHHHHHHHHHhhh
Q 011861          119 HAELALKDAEKLLNLQSNSMKSHLLKANALILLE  152 (476)
Q Consensus       119 ~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~  152 (476)
                        ++|+..+++|++++|++..++.+++.....++
T Consensus        63 --~~A~~~y~~aL~l~P~~~~a~~Nl~~~~~~l~   94 (95)
T d1tjca_          63 --DKALLLTKKLLELDPEHQRANGNLKYFEYIMA   94 (95)
T ss_dssp             --HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             --HHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhC
Confidence              99999999999999999998888877665443

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.03  E-value=8.3e-11  Score=88.43  Aligned_cols=46  Identities=33%  Similarity=0.742  Sum_probs=41.6

Q ss_pred             ccccccccccccCcEEccCCCcccHhhHHHhhh-cCCCCcccccccc
Q 011861          202 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD-RGNKCPLCRAVLF  247 (476)
Q Consensus       202 ~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~-~~~~Cp~cr~~~~  247 (476)
                      ...|+||++.+.+|+.++|||.||..||..|+. ++..||+||..+.
T Consensus        23 ~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~   69 (79)
T d1fbva4          23 FQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIK   69 (79)
T ss_dssp             TTBCTTTSSSBCCEECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCC
T ss_pred             CCCCccCCCcCCCeEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCcc
Confidence            346999999999999999999999999999997 4567999999884

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.01  E-value=3.7e-11  Score=84.00  Aligned_cols=45  Identities=20%  Similarity=0.249  Sum_probs=41.3

Q ss_pred             cccccccccccCcEEc-cCCCcccHhhHHHhhhcCCCCcccccccc
Q 011861          203 FDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (476)
Q Consensus       203 ~~C~iC~~~~~~P~~~-~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~  247 (476)
                      +.|+||++.+.+|+.+ .|||+||+.||.+|+.....||.||+++.
T Consensus         1 l~C~Ic~~~~~~Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~   46 (56)
T d2baya1           1 MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLS   46 (56)
T ss_dssp             CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCC
T ss_pred             CCCccCCchHHhcCccCCCCCcccHHHHHHHHhhccCCCccCCcCC
Confidence            3699999999999987 69999999999999998889999999874

>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=99.01  E-value=5.7e-10  Score=96.76  Aligned_cols=90  Identities=13%  Similarity=0.186  Sum_probs=83.3

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      .+..+...|..+++.|+|++||..|++||+++|+++.+|+++|.+|.++|++                       ++|+.
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~-----------------------~~A~~  132 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEY-----------------------DQALA  132 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCH-----------------------HHHHH
Confidence            4455677899999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHhhhhHHHHH
Q 011861          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMAR  158 (476)
Q Consensus       126 ~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~  158 (476)
                      ++++|++++|++..++..++.+...+..+.++.
T Consensus       133 ~~~~al~l~p~n~~~~~~l~~~~~~l~~~~~~~  165 (169)
T d1ihga1         133 DLKKAQEIAPEDKAIQAELLKVKQKIKAQKDKE  165 (169)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999988888777764

>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=98.95  E-value=2.1e-10  Score=105.56  Aligned_cols=101  Identities=17%  Similarity=0.081  Sum_probs=89.8

Q ss_pred             hccHHHHHHHHHHHhccC----CCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccc
Q 011861           60 ESNFEEAISNYSRANNIK----PGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQS  135 (476)
Q Consensus        60 ~~~~~~Ai~~y~~al~~~----p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p  135 (476)
                      ..+++.|+..+++++...    +..+.+|+++|.+|.++|++                       ++|+..|++|++++|
T Consensus        12 ~~~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~-----------------------~~A~~~~~~al~l~p   68 (259)
T d1xnfa_          12 TLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLR-----------------------ALARNDFSQALAIRP   68 (259)
T ss_dssp             CHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHCC
T ss_pred             cHHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCH-----------------------HHHHHHHHHhhccCC
Confidence            456778889999998763    34567999999999999999                       999999999999999


Q ss_pred             cchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHH
Q 011861          136 NSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  183 (476)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~  183 (476)
                      +++.+|+.+|.++..+|++++|+..|+++++++|++..+...+..+-.
T Consensus        69 ~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~  116 (259)
T d1xnfa_          69 DMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALY  116 (259)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHH
T ss_pred             CCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhhhhhhHHHHHHHHH
Confidence            999999999999999999999999999999999999988766655443

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.93  E-value=1e-10  Score=81.38  Aligned_cols=46  Identities=33%  Similarity=0.720  Sum_probs=39.7

Q ss_pred             cccccccccccccCcEEccCCCcccHhhHHHhhhcCCCCcccccccccC
Q 011861          201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFIT  249 (476)
Q Consensus       201 ~~~~C~iC~~~~~~P~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~~~~  249 (476)
                      +.+.|+||++.+.+|+.++|||+||..|+.+|   ...||.||+.+...
T Consensus         5 ~~l~C~IC~~~~~~p~~lpCgH~fC~~Ci~~~---~~~CP~Cr~~~~~~   50 (56)
T d1bora_           5 QFLRCQQCQAEAKCPKLLPCLHTLCSGCLEAS---GMQCPICQAPWPLG   50 (56)
T ss_dssp             CCSSCSSSCSSCBCCSCSTTSCCSBTTTCSSS---SSSCSSCCSSSSCC
T ss_pred             CCCCCcccCcccCCCEEecCCCHHhHHHHHcC---CCcCcCCCCcccCC
Confidence            45799999999999999999999999998654   45799999988543

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

Probab=98.92  E-value=1.5e-10  Score=84.36  Aligned_cols=44  Identities=30%  Similarity=0.767  Sum_probs=40.0

Q ss_pred             cccccccccccCcEE-ccCCCcccHhhHHHhhhcCCCCccccccc
Q 011861          203 FDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (476)
Q Consensus       203 ~~C~iC~~~~~~P~~-~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~  246 (476)
                      ..|+||++.+.+|+. ++|||+||..|+.+|+..+..||.||..+
T Consensus         6 d~C~IC~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i   50 (68)
T d1chca_           6 ERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPV   50 (68)
T ss_dssp             CCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCC
T ss_pred             CCCccCCcCccCCcEEeCCCCcCcHHHHHHHHHhCCcCCCCCcch
Confidence            469999999988755 79999999999999999888999999976

>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=98.92  E-value=9.8e-10  Score=89.21  Aligned_cols=81  Identities=14%  Similarity=0.113  Sum_probs=76.1

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      ..+..+...|..++..|+|++|+..|.++++++|+++.+|+++|.+|..+|++                       ++|+
T Consensus        35 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~-----------------------~~A~   91 (117)
T d1elwa_          35 HNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRF-----------------------EEAK   91 (117)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHH
T ss_pred             cchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCH-----------------------HHHH
Confidence            34667888999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHH
Q 011861          125 KDAEKLLNLQSNSMKSHLLKANAL  148 (476)
Q Consensus       125 ~~~~~al~l~p~~~~~~~~~~~~~  148 (476)
                      ..++++++++|+++.++..++.+.
T Consensus        92 ~~~~~a~~~~p~~~~~~~~l~~l~  115 (117)
T d1elwa_          92 RTYEEGLKHEANNPQLKEGLQNME  115 (117)
T ss_dssp             HHHHHHHTTCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHh
Confidence            999999999999999998888764

>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=98.91  E-value=2.4e-09  Score=93.81  Aligned_cols=105  Identities=19%  Similarity=0.083  Sum_probs=95.5

Q ss_pred             hhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc----------------------ccccchhHHHHHHHhhhcc
Q 011861           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----------------------IVLGNRSSAYIRISQFLKH  100 (476)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~----------------------~~~~~~a~~~~~~~~~~~~  100 (476)
                      .....+.+...|+.++..|++++|+..|++|+.+.+++.                      .++.+++.++..+|++   
T Consensus         7 D~~~f~~~~~~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~---   83 (179)
T d2ff4a2           7 DLGRFVAEKTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRA---   83 (179)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCH---
T ss_pred             cHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCc---
Confidence            345577899999999999999999999999999988663                      5678899999999999   


Q ss_pred             CCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhcc-------cccCCC
Q 011861          101 RPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSG-------LQVDPF  170 (476)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~-------l~l~p~  170 (476)
                                          .+|+..++++++++|.+..+|..++.+|..+|++.+|+..|.++       +-++|.
T Consensus        84 --------------------~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~  140 (179)
T d2ff4a2          84 --------------------SAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPG  140 (179)
T ss_dssp             --------------------HHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCC
T ss_pred             --------------------hHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcC
Confidence                                99999999999999999999999999999999999999999998       556665

>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=98.85  E-value=4.2e-09  Score=91.31  Aligned_cols=88  Identities=20%  Similarity=0.215  Sum_probs=81.1

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHH
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (476)
                      ..+...|..+++.|+|++|+..|++||+++|+++.+|+++|.+|..+|+|                       ++|+.+|
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~-----------------------~~A~~~~  119 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDF-----------------------ELARADF  119 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhH-----------------------HHHHHHH
Confidence            34456899999999999999999999999999999999999999999999                       9999999


Q ss_pred             HHHhhccccchHHHHHHHHHHHhhhhHHHHH
Q 011861          128 EKLLNLQSNSMKSHLLKANALILLERYDMAR  158 (476)
Q Consensus       128 ~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~  158 (476)
                      ++|++++|++..+...++.+....+++.+..
T Consensus       120 ~~al~l~P~n~~~~~~l~~~~~~~~~~~~~e  150 (170)
T d1p5qa1         120 QKVLQLYPNNKAAKTQLAVCQQRIRRQLARE  150 (170)
T ss_dssp             HHHHHHCSSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999988777776553

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.85  E-value=4.1e-09  Score=91.13  Aligned_cols=87  Identities=15%  Similarity=0.156  Sum_probs=80.4

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      +..+...|..+++.|+|.+|+.+|+++++++|++..+|+++|.+|..+|+|                       ++|+.+
T Consensus        64 ~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~-----------------------~~A~~~  120 (168)
T d1kt1a1          64 LAAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEF-----------------------ESAKGD  120 (168)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             HHHHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCH-----------------------HHHHHH
Confidence            344556899999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhhHHH
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLERYDM  156 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~~~~  156 (476)
                      +.++++++|++..++..++.+...++++.+
T Consensus       121 ~~~al~l~P~n~~~~~~l~~~~~~~~~~~e  150 (168)
T d1kt1a1         121 FEKVLEVNPQNKAARLQIFMCQKKAKEHNE  150 (168)
T ss_dssp             HHHHHHSCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHHHHhHHH
Confidence            999999999999999999999887777654

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.85  E-value=3.9e-09  Score=89.88  Aligned_cols=84  Identities=14%  Similarity=0.076  Sum_probs=77.4

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      +..+...|..+++.|+|++|+..|++|++++|++..+|+++|.+|..+|++                       ++|+.+
T Consensus        67 ~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~-----------------------~~A~~~  123 (153)
T d2fbna1          67 ISCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFL-----------------------EEAKEN  123 (153)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCH-----------------------HHHHHH
T ss_pred             HHHHhhHHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCH-----------------------HHHHHH
Confidence            345567899999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhhh
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLER  153 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~~  153 (476)
                      ++++++++|++..+...++.+...+++
T Consensus       124 ~~~al~l~P~n~~~~~~l~~~~~kl~~  150 (153)
T d2fbna1         124 LYKAASLNPNNLDIRNSYELCVNKLKE  150 (153)
T ss_dssp             HHHHHHHSTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHHHHH
Confidence            999999999999999988888766554

>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=98.84  E-value=5.2e-09  Score=89.46  Aligned_cols=93  Identities=12%  Similarity=0.182  Sum_probs=83.4

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      ..+..+...|..++..|++++|+..|.++++++|++..+|.++|.+|..+|++                       ++|+
T Consensus        42 ~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~-----------------------~eA~   98 (159)
T d1a17a_          42 SNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKF-----------------------RAAL   98 (159)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHH
T ss_pred             hhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCCH-----------------------HHHH
Confidence            35677888999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHH--HhhhhHHHHHHH
Q 011861          125 KDAEKLLNLQSNSMKSHLLKANAL--ILLERYDMARDA  160 (476)
Q Consensus       125 ~~~~~al~l~p~~~~~~~~~~~~~--~~~~~~~~A~~~  160 (476)
                      ..+++++.++|++..++..++.+.  ...+.+++|+..
T Consensus        99 ~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          99 RDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             HHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            999999999999999988887775  455667776643

>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=98.83  E-value=1.5e-09  Score=84.74  Aligned_cols=82  Identities=13%  Similarity=-0.046  Sum_probs=74.7

Q ss_pred             ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccc-------hHHHHHHHHHHHhhhhH
Q 011861           82 IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNS-------MKSHLLKANALILLERY  154 (476)
Q Consensus        82 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~-------~~~~~~~~~~~~~~~~~  154 (476)
                      +-.+++|.++++.|+|                       .+|+..+++|+++.|.+       ..++..+|.++..+|+|
T Consensus         6 ddc~~lG~~~~~~g~y-----------------------~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~   62 (95)
T d1tjca_           6 EDSFELGKVAYTEADY-----------------------YHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDL   62 (95)
T ss_dssp             HHHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHCCCH-----------------------HHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCCh
Confidence            3457899999999999                       99999999999997654       56899999999999999


Q ss_pred             HHHHHHHhcccccCCCCchhhHHHHHHHHhhh
Q 011861          155 DMARDAILSGLQVDPFSNPLQASLQNLERTTA  186 (476)
Q Consensus       155 ~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~  186 (476)
                      ++|+..|+++++++|+++.+...+..+++.++
T Consensus        63 ~~A~~~y~~aL~l~P~~~~a~~Nl~~~~~~l~   94 (95)
T d1tjca_          63 DKALLLTKKLLELDPEHQRANGNLKYFEYIMA   94 (95)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhC
Confidence            99999999999999999999999999888775

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

Probab=98.81  E-value=9.9e-10  Score=76.09  Aligned_cols=47  Identities=32%  Similarity=0.751  Sum_probs=39.9

Q ss_pred             CcccccccccccccCc---EEc-cCCCcccHhhHHHhhhcCCCCccccccc
Q 011861          200 TDDFDCTLCLKLLYEP---ITT-PCGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (476)
Q Consensus       200 ~~~~~C~iC~~~~~~P---~~~-~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~  246 (476)
                      .+..+|+||++.+.+.   +.+ +|||.||..|+.+|+.....||.||..+
T Consensus         3 ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i   53 (55)
T d1iyma_           3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV   53 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCS
T ss_pred             CCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEe
Confidence            4567899999988643   444 6999999999999999988999999865

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.79  E-value=8.8e-10  Score=79.39  Aligned_cols=47  Identities=36%  Similarity=0.834  Sum_probs=37.9

Q ss_pred             cccccccccccccC-c----EEccCCCcccHhhHHHhhhc-CCCCcccccccc
Q 011861          201 DDFDCTLCLKLLYE-P----ITTPCGHSFCRSCLFQSMDR-GNKCPLCRAVLF  247 (476)
Q Consensus       201 ~~~~C~iC~~~~~~-P----~~~~cgh~fC~~Cl~~~~~~-~~~Cp~cr~~~~  247 (476)
                      ++..|+||++.+.. +    +.++|||.||..||.+|+.. ...||.||+.+.
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~   54 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLR   54 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCS
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCcc
Confidence            56789999986532 2    45699999999999999965 456999999873

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.78  E-value=3.2e-09  Score=93.62  Aligned_cols=98  Identities=6%  Similarity=0.008  Sum_probs=85.2

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      ..+..+...|..|+..|+|++|+..|.+|++++|+++.+|.++|.+|..+|+|                       ++|+
T Consensus        36 ~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg~~~~~l~~~-----------------------~~A~   92 (201)
T d2c2la1          36 LVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQLEMESY-----------------------DEAI   92 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHTTCH-----------------------HHHH
T ss_pred             CCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHHHHHHHCCCH-----------------------HHHH
Confidence            34677888999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHhccc
Q 011861          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGL  165 (476)
Q Consensus       125 ~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l  165 (476)
                      ..+++|++++|++...+...+..+...+++..+........
T Consensus        93 ~~~~~al~l~p~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~  133 (201)
T d2c2la1          93 ANLQRAYSLAKEQRLNFGDDIPSALRIAKKKRWNSIEERRI  133 (201)
T ss_dssp             HHHHHHHHHHHHTTCCCCSHHHHHHHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHhCcccHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence            99999999999887777767777777777666665555443

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.75  E-value=1.4e-08  Score=85.51  Aligned_cols=103  Identities=14%  Similarity=0.073  Sum_probs=81.1

Q ss_pred             hhhHHHHHHhhHHHHH----------hccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCC
Q 011861           44 YTHVFDLVQKGNRAFR----------ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNG  113 (476)
Q Consensus        44 ~~~~~~~~~~g~~~~~----------~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  113 (476)
                      +..+..+...|..++.          .+.+++||..|.+|++++|+++.+|+++|.+|..+|++.       .+..    
T Consensus        28 P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~~~g~~~-------~~~~----   96 (145)
T d1zu2a1          28 PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFLT-------PDET----   96 (145)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHC-------CCHH----
T ss_pred             CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcchhhHHHhhHHHHHHHcccch-------hhHH----
Confidence            3456777778888774          466789999999999999999999999999999988640       0000    


Q ss_pred             CCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHH
Q 011861          114 LDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMAR  158 (476)
Q Consensus       114 ~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~  158 (476)
                       .....-.+|++.|++|++++|++..++..++.+....+.|.++.
T Consensus        97 -~~~~~~~~A~~~~~kal~l~P~~~~~~~~L~~~~ka~~~~~e~~  140 (145)
T d1zu2a1          97 -EAKHNFDLATQFFQQAVDEQPDNTHYLKSLEMTAKAPQLHAEAY  140 (145)
T ss_dssp             -HHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHTHHHHHHHHH
T ss_pred             -HHHHhHHHhhhhhhcccccCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence             00011188999999999999999999999999988888888864

>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=98.72  E-value=1e-08  Score=82.32  Aligned_cols=83  Identities=11%  Similarity=0.006  Sum_probs=75.2

Q ss_pred             ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHH
Q 011861           82 IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAI  161 (476)
Q Consensus        82 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~  161 (476)
                      ..++++|.++++.|++                       .+|+..+++++..+|+++.+|+.+|.++...|++++|+..|
T Consensus        17 ~~~~~~g~~~~~~g~~-----------------------~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~   73 (112)
T d1hxia_          17 ENPMEEGLSMLKLANL-----------------------AEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIAL   73 (112)
T ss_dssp             SCHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhh-----------------------HHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhccc
Confidence            5567899999999999                       99999999999999999999999999999999999999999


Q ss_pred             hcccccCCCCchhhHHHHHHHHhhhh
Q 011861          162 LSGLQVDPFSNPLQASLQNLERTTAS  187 (476)
Q Consensus       162 ~~~l~l~p~~~~~~~~~~~~~~~~~~  187 (476)
                      +++++++|++..+...+..+-...+.
T Consensus        74 ~~al~~~p~~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          74 NHARMLDPKDIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             ccccccccccccchHHHHHHHHHCCC
Confidence            99999999999988777665544443

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.70  E-value=2.7e-09  Score=73.04  Aligned_cols=44  Identities=30%  Similarity=0.746  Sum_probs=36.3

Q ss_pred             cccccccccccCc----EEccCCCcccHhhHHHhhhcC-CCCccccccc
Q 011861          203 FDCTLCLKLLYEP----ITTPCGHSFCRSCLFQSMDRG-NKCPLCRAVL  246 (476)
Q Consensus       203 ~~C~iC~~~~~~P----~~~~cgh~fC~~Cl~~~~~~~-~~Cp~cr~~~  246 (476)
                      .+|+||++.+...    ...+|||.||..|+.+|+... ..||.||+++
T Consensus         1 leCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~   49 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPY   49 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBC
T ss_pred             CCCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcC
Confidence            4799999987533    345899999999999999854 4699999976

>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=98.58  E-value=2.7e-08  Score=81.16  Aligned_cols=84  Identities=12%  Similarity=0.031  Sum_probs=73.0

Q ss_pred             hHHHHHHhhHHHHH---hccHHHHHHHHHHHhccCCCC--cccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchH
Q 011861           46 HVFDLVQKGNRAFR---ESNFEEAISNYSRANNIKPGD--PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA  120 (476)
Q Consensus        46 ~~~~~~~~g~~~~~---~~~~~~Ai~~y~~al~~~p~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (476)
                      ....++..|..+++   .+++++||..|.+++..+|++  ..+|+++|.+|.++|+|                       
T Consensus        32 ~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y~~~g~~-----------------------   88 (122)
T d1nzna_          32 SKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEY-----------------------   88 (122)
T ss_dssp             CHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCH-----------------------
T ss_pred             CHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHHHHhhh-----------------------
Confidence            34567778888876   467788999999999999866  45899999999999999                       


Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHhhh
Q 011861          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLE  152 (476)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~  152 (476)
                      ++|++.++++++++|++..+...++.+...++
T Consensus        89 ~~A~~~~~~aL~~~P~~~~A~~l~~~I~~~~~  120 (122)
T d1nzna_          89 EKALKYVRGLLQTEPQNNQAKELERLIDKAMK  120 (122)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcCCHHHHHHHHHHHHHHc
Confidence            99999999999999999999999988876554

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.55  E-value=2.3e-08  Score=82.20  Aligned_cols=75  Identities=15%  Similarity=0.123  Sum_probs=68.5

Q ss_pred             cccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchHHHHHHHHHHHhhhhHHHHHHHHh
Q 011861           83 VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAIL  162 (476)
Q Consensus        83 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~  162 (476)
                      .+.++|.+|++.|+|                       ++|+..|+++++++|+++.+++.+|.+|..+|+|++|+.++.
T Consensus         6 ~~k~~G~~~~~~~~y-----------------------~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~   62 (128)
T d1elra_           6 KEKELGNDAYKKKDF-----------------------DTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCE   62 (128)
T ss_dssp             HHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCH-----------------------HHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHHH
Confidence            455789999999999                       999999999999999999999999999999999999999999


Q ss_pred             cccccCCCCchhhHHHHH
Q 011861          163 SGLQVDPFSNPLQASLQN  180 (476)
Q Consensus       163 ~~l~l~p~~~~~~~~~~~  180 (476)
                      ++++++|.+......+..
T Consensus        63 ~al~l~~~~~~~~~~~a~   80 (128)
T d1elra_          63 KAIEVGRENREDYRQIAK   80 (128)
T ss_dssp             HHHHHHHHSTTCHHHHHH
T ss_pred             HHHHhCcccHHHHHHHHH
Confidence            999999988876654443

>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=98.52  E-value=7.7e-08  Score=91.93  Aligned_cols=117  Identities=8%  Similarity=-0.074  Sum_probs=102.4

Q ss_pred             HHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHh--hhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQ--FLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      .+...+..+...|++.+|+.+|+++++.+|+++.+|.++|.++..+++  +                       .+|+..
T Consensus        75 ~l~~~~~~~~~~~~~~~al~~~~~~l~~~pk~~~~~~~~~~~~~~~~~~~~-----------------------~~a~~~  131 (334)
T d1dcea1          75 HLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNW-----------------------ARELEL  131 (334)
T ss_dssp             HHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCSSCCH-----------------------HHHHHH
T ss_pred             HHhhhcchHHHHHHHHHHHHHHHHHHHhCCCcHHHHHHhhHHHHHhccccH-----------------------HHHHHH
Confidence            344556677788899999999999999999999999999999988776  6                       899999


Q ss_pred             HHHHhhccccchHHHH-HHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhhh
Q 011861          127 AEKLLNLQSNSMKSHL-LKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  188 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~-~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~~  188 (476)
                      +.++++++|++..+++ ..|.++...|.+++|+..++++++++|.+..++..+..+-..++..
T Consensus       132 ~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~  194 (334)
T d1dcea1         132 CARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQ  194 (334)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHhhCchhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCH
Confidence            9999999999988864 6788999999999999999999999999999988877776555443

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=98.52  E-value=5e-08  Score=90.61  Aligned_cols=92  Identities=11%  Similarity=0.031  Sum_probs=85.0

Q ss_pred             hhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhh
Q 011861           53 KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLN  132 (476)
Q Consensus        53 ~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~  132 (476)
                      +++..++.|++++|+..|.++++.+|+++.++.+++.+|...|++                       ++|++.++++++
T Consensus         2 q~~~aL~~G~l~eAl~~l~~al~~~P~d~~ar~~La~lL~~~G~~-----------------------e~A~~~l~~a~~   58 (264)
T d1zbpa1           2 QWKNALSEGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDF-----------------------ERADEQLMQSIK   58 (264)
T ss_dssp             CHHHHTTTTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCH-----------------------HHHHHHHHHHHH
T ss_pred             hHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCH-----------------------HHHHHHHHHHHH
Confidence            577899999999999999999999999999999999999999999                       999999999999


Q ss_pred             ccccchHHHHHHHHHHHhhhhHHHHHHHHhccccc
Q 011861          133 LQSNSMKSHLLKANALILLERYDMARDAILSGLQV  167 (476)
Q Consensus       133 l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l  167 (476)
                      ++|++..++..++.++...+..+++...+.+...+
T Consensus        59 l~P~~~~~~~~l~~ll~a~~~~~~a~~~~~~~~~~   93 (264)
T d1zbpa1          59 LFPEYLPGASQLRHLVKAAQARKDFAQGAATAKVL   93 (264)
T ss_dssp             HCGGGHHHHHHHHHHHHHHHHHHHHTTSCCCEECC
T ss_pred             hCCCcHHHHHHHHHHHHhccccHHHHHHhhhhhcc
Confidence            99999999999999999999998887766655443

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.51  E-value=1.3e-08  Score=103.54  Aligned_cols=107  Identities=10%  Similarity=-0.157  Sum_probs=73.8

Q ss_pred             HHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHH
Q 011861           51 VQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKL  130 (476)
Q Consensus        51 ~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a  130 (476)
                      ...|..+.+.|++++|+..|.+++..+|.  .++.++|.++...++|                       ++|+..|.+|
T Consensus       124 ~~lg~~~~~~~~~~~A~~~~~~al~~~~~--~~~~~LG~l~~~~~~~-----------------------~~A~~~y~~A  178 (497)
T d1ya0a1         124 SQLGIISNKQTHTSAIVKPQSSSCSYICQ--HCLVHLGDIARYRNQT-----------------------SQAESYYRHA  178 (497)
T ss_dssp             -------------------CCHHHHHHHH--HHHHHHHHHHHHTTCH-----------------------HHHHHHHHHH
T ss_pred             HHhHHHHHhCCCHHHHHHHHHHHhCCCHH--HHHHHHHHHHHHcccH-----------------------HHHHHHHHHH
Confidence            33455555555666666666665555542  4566667777777777                       9999999999


Q ss_pred             hhccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHH
Q 011861          131 LNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (476)
Q Consensus       131 l~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~  182 (476)
                      ++++|++..+|+.+|.++...|++.+|+.+|.+++.++|..+.+..++..+-
T Consensus       179 ~~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~~~~~a~~nL~~~~  230 (497)
T d1ya0a1         179 AQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKFPFPAASTNLQKAL  230 (497)
T ss_dssp             HHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHHHH
T ss_pred             HHHCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999888877766543

>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=98.44  E-value=1.2e-07  Score=90.43  Aligned_cols=104  Identities=13%  Similarity=-0.031  Sum_probs=95.1

Q ss_pred             HhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHh
Q 011861           52 QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLL  131 (476)
Q Consensus        52 ~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al  131 (476)
                      +....+...+.+++|+..|.+++..+|.+..++.+++.++...+++                       .+|+..+.+++
T Consensus       213 ~~~~~~~~l~~~~~a~~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~-----------------------~~a~~~~~~~~  269 (334)
T d1dcea1         213 ELVQNAFFTDPNDQSAWFYHRWLLGRAEPLFRCELSVEKSTVLQSE-----------------------LESCKELQELE  269 (334)
T ss_dssp             HHHHHHHHHCSSCSHHHHHHHHHHSCCCCSSSCCCCHHHHHHHHHH-----------------------HHHHHHHHHHC
T ss_pred             HHHHHHHHhcchhHHHHHHHHHHHhCcchhhHHHHHHHHHHHHhhH-----------------------HHHHHHHHHHH
Confidence            3444556677788999999999999999999999999999999999                       99999999999


Q ss_pred             hccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHH
Q 011861          132 NLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASL  178 (476)
Q Consensus       132 ~l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~  178 (476)
                      ..+|++..+++.+|.++..+|++++|+++|++++++||.+...+..+
T Consensus       270 ~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~~y~~~L  316 (334)
T d1dcea1         270 PENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDL  316 (334)
T ss_dssp             TTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHHHH
T ss_pred             hhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcccHHHHHHH
Confidence            99999999999999999999999999999999999999887766554

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.44  E-value=5.2e-08  Score=74.39  Aligned_cols=44  Identities=20%  Similarity=0.502  Sum_probs=36.0

Q ss_pred             cccccccccccC------------------cEEccCCCcccHhhHHHhhhcCCCCccccccc
Q 011861          203 FDCTLCLKLLYE------------------PITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (476)
Q Consensus       203 ~~C~iC~~~~~~------------------P~~~~cgh~fC~~Cl~~~~~~~~~Cp~cr~~~  246 (476)
                      ..|+||...+.+                  ++.++|||.||..||.+|+.....||+||+.+
T Consensus        22 d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~   83 (88)
T d3dplr1          22 DNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREW   83 (88)
T ss_dssp             CCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBC
T ss_pred             CcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCCCCCCcc
Confidence            357777765543                  24469999999999999999888999999876

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.43  E-value=5.4e-08  Score=78.27  Aligned_cols=45  Identities=31%  Similarity=0.757  Sum_probs=36.7

Q ss_pred             ccccccccccccCc------------------EEccCCCcccHhhHHHhhhcC-----CCCccccccc
Q 011861          202 DFDCTLCLKLLYEP------------------ITTPCGHSFCRSCLFQSMDRG-----NKCPLCRAVL  246 (476)
Q Consensus       202 ~~~C~iC~~~~~~P------------------~~~~cgh~fC~~Cl~~~~~~~-----~~Cp~cr~~~  246 (476)
                      +..|+||++.+..+                  ..++|||.||..||..|+...     ..||+||..+
T Consensus        25 ~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~   92 (114)
T d1v87a_          25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIY   92 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBS
T ss_pred             cccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchh
Confidence            55799999987543                  346999999999999999742     3699999876

>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=98.23  E-value=6.8e-07  Score=83.63  Aligned_cols=106  Identities=14%  Similarity=-0.054  Sum_probs=88.0

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC------cccccchhHHHHH-HHhhhccCCCCCcccCCCCCCCCcch
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD------PIVLGNRSSAYIR-ISQFLKHRPPSASEYRPLNGLDPTTH  119 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~------~~~~~~~a~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (476)
                      +..+...|+.|.+.|++++|+..|.+++++.+..      ..++.++|.+|.. +|++                      
T Consensus        77 a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~----------------------  134 (290)
T d1qqea_          77 GNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDY----------------------  134 (290)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCH----------------------
T ss_pred             HHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHH----------------------
Confidence            4567778888889999999999999998886655      4677778877755 5888                      


Q ss_pred             HHHHHHHHHHHhhcccc------chHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhh
Q 011861          120 AELALKDAEKLLNLQSN------SMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  175 (476)
Q Consensus       120 ~~~a~~~~~~al~l~p~------~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~  175 (476)
                       ++|+..+.+|+++.+.      ...++..+|.++..+|+|++|+..|++++...+.+....
T Consensus       135 -~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~  195 (290)
T d1qqea_         135 -AKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQ  195 (290)
T ss_dssp             -HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTG
T ss_pred             -HHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhh
Confidence             9999999999988543      355788999999999999999999999999988776544

>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=98.19  E-value=1.2e-06  Score=70.33  Aligned_cols=67  Identities=12%  Similarity=0.076  Sum_probs=61.2

Q ss_pred             HHHHHHHHHHhhccccch-HHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHHHHhhhh
Q 011861          121 ELALKDAEKLLNLQSNSM-KSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  187 (476)
Q Consensus       121 ~~a~~~~~~al~l~p~~~-~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~~~~~~  187 (476)
                      ++|+..++.++..+|... .++|.+|.+|+.+|+|+.|+..+.++|+++|+|..+....+.+++++..
T Consensus        55 ~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n~qA~~L~~~Ie~~~~k  122 (124)
T d2pqrb1          55 RLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVGALKSMVEDKIQK  122 (124)
T ss_dssp             HHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCcHHHHHHHHHHHHHHhc
Confidence            899999999999998764 7999999999999999999999999999999999999888888877654

>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=98.16  E-value=4.4e-07  Score=84.97  Aligned_cols=103  Identities=11%  Similarity=-0.046  Sum_probs=87.7

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCC------CCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcc
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKP------GDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT  118 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (476)
                      ..+..+...|+.|...++|++|+..|.+|+++..      .....|.+.|.+|.++|++                     
T Consensus        35 ~Aa~~y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~---------------------   93 (290)
T d1qqea_          35 EAADLCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNS---------------------   93 (290)
T ss_dssp             HHHHHHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH---------------------
T ss_pred             HHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCc---------------------
Confidence            3455677889999999999999999999999732      2347899999999999999                     


Q ss_pred             hHHHHHHHHHHHhhccccc------hHHHHHHHHHHH-hhhhHHHHHHHHhcccccCCC
Q 011861          119 HAELALKDAEKLLNLQSNS------MKSHLLKANALI-LLERYDMARDAILSGLQVDPF  170 (476)
Q Consensus       119 ~~~~a~~~~~~al~l~p~~------~~~~~~~~~~~~-~~~~~~~A~~~~~~~l~l~p~  170 (476)
                        ++|+..+++++++.+..      ..++..+|.++. ..|+|++|+..|++++++.+.
T Consensus        94 --~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~  150 (290)
T d1qqea_          94 --VNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQ  150 (290)
T ss_dssp             --HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHH
T ss_pred             --HHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHh
Confidence              99999999999987655      568888998885 579999999999999987553

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=98.16  E-value=2.1e-06  Score=80.30  Aligned_cols=102  Identities=12%  Similarity=-0.008  Sum_probs=89.5

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc-----ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcch
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP-----IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH  119 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (476)
                      ..++....+|+.++..|++++|+..|+++++..|++.     .++..+|.+|..+|++                      
T Consensus        10 ~~ae~~~lrA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~----------------------   67 (366)
T d1hz4a_          10 MHAEFNALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGEL----------------------   67 (366)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCH----------------------
T ss_pred             hhHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCH----------------------
Confidence            4466677789999999999999999999999999874     5788999999999999                      


Q ss_pred             HHHHHHHHHHHhhccccc------hHHHHHHHHHHHhhhhHHHHHHHHhcccccCC
Q 011861          120 AELALKDAEKLLNLQSNS------MKSHLLKANALILLERYDMARDAILSGLQVDP  169 (476)
Q Consensus       120 ~~~a~~~~~~al~l~p~~------~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p  169 (476)
                       ++|+..+++++++.+..      ..+++.+|.++...|++..|...+.+++.+.+
T Consensus        68 -~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~  122 (366)
T d1hz4a_          68 -TRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLIN  122 (366)
T ss_dssp             -HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             -HHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence             99999999999986543      45788999999999999999999999887543

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

Probab=98.08  E-value=8.9e-07  Score=62.07  Aligned_cols=48  Identities=27%  Similarity=0.453  Sum_probs=39.0

Q ss_pred             CcccccccccccccCcEEccC-----CCcccHhhHHHhhh--cCCCCcccccccc
Q 011861          200 TDDFDCTLCLKLLYEPITTPC-----GHSFCRSCLFQSMD--RGNKCPLCRAVLF  247 (476)
Q Consensus       200 ~~~~~C~iC~~~~~~P~~~~c-----gh~fC~~Cl~~~~~--~~~~Cp~cr~~~~  247 (476)
                      .+...|.||++.+.++...+|     +|.||..||.+|+.  +...||+||+.+.
T Consensus         4 ed~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           4 EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeee
Confidence            456789999999888866655     59999999999986  4457999998763

>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=97.95  E-value=6.3e-06  Score=83.17  Aligned_cols=83  Identities=13%  Similarity=-0.016  Sum_probs=77.7

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      ...+...|..+..+|+|++|+.+|.+|++++|++..+|.++|.+|...|++                       .+|+..
T Consensus       152 ~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~~~~~-----------------------~~A~~~  208 (497)
T d1ya0a1         152 QHCLVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILASSKGDH-----------------------LTTIFY  208 (497)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHcCCH-----------------------HHHHHH
Confidence            356778899999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHhhh
Q 011861          127 AEKLLNLQSNSMKSHLLKANALILLE  152 (476)
Q Consensus       127 ~~~al~l~p~~~~~~~~~~~~~~~~~  152 (476)
                      |.+|+.++|.++.|+.+++..+....
T Consensus       209 y~ral~~~~~~~~a~~nL~~~~~~~~  234 (497)
T d1ya0a1         209 YCRSIAVKFPFPAASTNLQKALSKAL  234 (497)
T ss_dssp             HHHHHSSSBCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHhCCCCCHHHHHHHHHHHHHhh
Confidence            99999999999999999999886543

>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=97.90  E-value=8.8e-06  Score=75.91  Aligned_cols=101  Identities=17%  Similarity=0.009  Sum_probs=87.9

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCc----ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (476)
                      +..+...|..+...|++++|+..|.+++...|.+.    ..+.++|.+|..+|++                       ++
T Consensus       213 ~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~-----------------------~~  269 (366)
T d1hz4a_         213 SNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEF-----------------------EP  269 (366)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCH-----------------------HH
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCH-----------------------HH
Confidence            44566778888999999999999999999988765    4456789999999999                       99


Q ss_pred             HHHHHHHHhh------ccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCC
Q 011861          123 ALKDAEKLLN------LQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF  170 (476)
Q Consensus       123 a~~~~~~al~------l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~  170 (476)
                      |+..+++++.      ..|....++..+|.+|...|++++|+..+++++++.+.
T Consensus       270 A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l~~~  323 (366)
T d1hz4a_         270 AEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANR  323 (366)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhh
Confidence            9999999984      45777889999999999999999999999999987654

>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=97.81  E-value=1.9e-05  Score=63.09  Aligned_cols=79  Identities=8%  Similarity=0.016  Sum_probs=65.6

Q ss_pred             HHHHhhHHHHH---hccHHHHHHHHHHHhccCCCCc-ccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHH
Q 011861           49 DLVQKGNRAFR---ESNFEEAISNYSRANNIKPGDP-IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (476)
Q Consensus        49 ~~~~~g~~~~~---~~~~~~Ai~~y~~al~~~p~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (476)
                      .-++-|..+.+   ..+.++||..+.++++.+|.+. ++++++|.+|+++|+|                       .+|.
T Consensus        37 t~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy-----------------------~~A~   93 (124)
T d2pqrb1          37 SRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEY-----------------------SMAK   93 (124)
T ss_dssp             HHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCH-----------------------HHHH
T ss_pred             hHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhH-----------------------HHHH
Confidence            34445555553   3677899999999999999775 8999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHh
Q 011861          125 KDAEKLLNLQSNSMKSHLLKANALIL  150 (476)
Q Consensus       125 ~~~~~al~l~p~~~~~~~~~~~~~~~  150 (476)
                      +.++++++++|+|..+...+-.+-..
T Consensus        94 ~~~~~~L~ieP~n~qA~~L~~~Ie~~  119 (124)
T d2pqrb1          94 RYVDTLFEHERNNKQVGALKSMVEDK  119 (124)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHccCCCcHHHHHHHHHHHHH
Confidence            99999999999999987776665543

>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=97.76  E-value=5e-06  Score=76.70  Aligned_cols=110  Identities=9%  Similarity=-0.054  Sum_probs=94.1

Q ss_pred             hhhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHH
Q 011861           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (476)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (476)
                      +.++......|+.+...|++++|+..|+++++++|++..++..++.++...+..                       .++
T Consensus        27 P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~~~~~l~~ll~a~~~~-----------------------~~a   83 (264)
T d1zbpa1          27 PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQAR-----------------------KDF   83 (264)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHH-----------------------HHH
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhcccc-----------------------HHH
Confidence            455778888999999999999999999999999999999999999998888887                       666


Q ss_pred             HHHHHHHhh-ccccchHHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhH
Q 011861          124 LKDAEKLLN-LQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQA  176 (476)
Q Consensus       124 ~~~~~~al~-l~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~  176 (476)
                      ...+.+... .+|.....++..+.++...|++++|...+.++.++.|..+....
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~~~~~  137 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGFLAN  137 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCEEET
T ss_pred             HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCCcccc
Confidence            555444333 35777788889999999999999999999999999999887643

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=97.73  E-value=6.2e-06  Score=69.44  Aligned_cols=71  Identities=13%  Similarity=0.062  Sum_probs=61.7

Q ss_pred             hhHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCC-----------cccccchhHHHHHHHhhhccCCCCCcccCCCCC
Q 011861           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD-----------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNG  113 (476)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~-----------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  113 (476)
                      ..+..+...|..++..|+|++|+..|++++++.|..           ..+|+++|.+|..+|++                
T Consensus        53 ~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~----------------  116 (156)
T d2hr2a1          53 FDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRG----------------  116 (156)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCH----------------
T ss_pred             hHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHH----------------
Confidence            346678889999999999999999999999875532           24789999999999999                


Q ss_pred             CCCcchHHHHHHHHHHHhhccccch
Q 011861          114 LDPTTHAELALKDAEKLLNLQSNSM  138 (476)
Q Consensus       114 ~~~~~~~~~a~~~~~~al~l~p~~~  138 (476)
                             ++|+..|++|+++.|...
T Consensus       117 -------eeA~~~~~~Al~l~~~~~  134 (156)
T d2hr2a1         117 -------AEAMPEFKKVVEMIEERK  134 (156)
T ss_dssp             -------HHHHHHHHHHHHHHHHCC
T ss_pred             -------HHHHHHHHHHHHhhHHhh
Confidence                   999999999999987543

>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=97.65  E-value=7.5e-05  Score=69.75  Aligned_cols=111  Identities=13%  Similarity=-0.065  Sum_probs=80.0

Q ss_pred             HHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcc-cccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHH
Q 011861           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPI-VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (476)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (476)
                      -+...+......|++++|...|.+++...|.+.. +|...+....+.|++                       +.|.+.+
T Consensus       101 l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~-----------------------~~ar~i~  157 (308)
T d2onda1         101 LYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGI-----------------------KSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCH-----------------------HHHHHHH
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCCh-----------------------HHHHHHH
Confidence            3455666677778888888888888888877654 677777777777887                       7777777


Q ss_pred             HHHhhccccchHHHHHHHHHH-HhhhhHHHHHHHHhcccccCCCCchhhHHHHHHH
Q 011861          128 EKLLNLQSNSMKSHLLKANAL-ILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (476)
Q Consensus       128 ~~al~l~p~~~~~~~~~~~~~-~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~~  182 (476)
                      .++++..|.....+...|... ...|+++.|...|+++++.+|.+..+......+.
T Consensus       158 ~~al~~~~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~  213 (308)
T d2onda1         158 KKAREDARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYL  213 (308)
T ss_dssp             HHHHTSTTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhhhhHHHHHHHHHHH
Confidence            788777777777777766654 3456777777777777777777776655444433

>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=97.55  E-value=0.00011  Score=68.46  Aligned_cols=111  Identities=12%  Similarity=-0.023  Sum_probs=94.8

Q ss_pred             HHHHHhhHHHHHhccHHHHHHHHHHHhcc-CCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHH
Q 011861           48 FDLVQKGNRAFRESNFEEAISNYSRANNI-KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (476)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~-~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (476)
                      ......|...-..+.+++|...|.+|++. .|.+..+|...|..+...|++                       +.|...
T Consensus        65 ~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~-----------------------~~a~~i  121 (308)
T d2onda1          65 KLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKY-----------------------EKVHSI  121 (308)
T ss_dssp             HHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             chHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccH-----------------------HHHHHH
Confidence            34555666677778899999999999985 788889999999999999999                       999999


Q ss_pred             HHHHhhccccch-HHHHHHHHHHHhhhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          127 AEKLLNLQSNSM-KSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       127 ~~~al~l~p~~~-~~~~~~~~~~~~~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      ++++++.+|.+. ..|...+......|+++.|++.|.++++..|.+..........
T Consensus       122 ~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~~~~~~~~~a~~  177 (308)
T d2onda1         122 YNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALM  177 (308)
T ss_dssp             HHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTCCTHHHHHHHHH
T ss_pred             HHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCcHHHHHHHHHH
Confidence            999999999764 4788889999999999999999999999999888765544433

>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=97.33  E-value=0.00012  Score=63.01  Aligned_cols=62  Identities=13%  Similarity=0.059  Sum_probs=58.5

Q ss_pred             hHHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHH
Q 011861           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (476)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (476)
                      ....+...|+.+...|+|++|+..+.++++++|.+..+|.+++.+|..+|++                       .+|++
T Consensus        66 ~~~a~~~la~~~~~~g~~~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~-----------------------~eAl~  122 (179)
T d2ff4a2          66 KVLAHTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQ-----------------------SDALG  122 (179)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCH-----------------------HHHHH
T ss_pred             HHHHHHHHHHHHHHCCCchHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCH-----------------------HHHHH
Confidence            3466778899999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHH
Q 011861          126 DAEKL  130 (476)
Q Consensus       126 ~~~~a  130 (476)
                      .|+++
T Consensus       123 ~y~~~  127 (179)
T d2ff4a2         123 AYRRV  127 (179)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            99987

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.21  E-value=6.5e-05  Score=57.34  Aligned_cols=44  Identities=30%  Similarity=0.640  Sum_probs=32.5

Q ss_pred             ccccccccccccc--C-cEEccCCCcccHhhHHHhhhc----C--C--CCccccc
Q 011861          201 DDFDCTLCLKLLY--E-PITTPCGHSFCRSCLFQSMDR----G--N--KCPLCRA  244 (476)
Q Consensus       201 ~~~~C~iC~~~~~--~-P~~~~cgh~fC~~Cl~~~~~~----~--~--~Cp~cr~  244 (476)
                      ....|+||++.+.  + +...+|||.||..|+..|+..    +  .  .||.|+-
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CCCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            3568999998774  3 344589999999999998751    1  1  4998654

>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=96.79  E-value=0.0014  Score=58.91  Aligned_cols=96  Identities=17%  Similarity=0.139  Sum_probs=78.4

Q ss_pred             HHHHHHhhHHHHHhccHHHHHHHHHHHhccCCCCcccccchhHHHHH----HHhhhccCCCCCcccCCCCCCCCcchHHH
Q 011861           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIR----ISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (476)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (476)
                      ++++...|..+++++||++|+.+|.+|.+.  ++..+++++|.+|..    ..++                       ..
T Consensus         2 p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~--g~~~A~~~Lg~~y~~G~~~~~d~-----------------------~~   56 (265)
T d1ouva_           2 PKELVGLGAKSYKEKDFTQAKKYFEKACDL--KENSGCFNLGVLYYQGQGVEKNL-----------------------KK   56 (265)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHTSSSCCCH-----------------------HH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHC--CCHHHHHHHHHHHHcCCCcchhH-----------------------HH
Confidence            567888999999999999999999999876  588999999999876    3355                       88


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHh----hhhHHHHHHHHhcccccCC
Q 011861          123 ALKDAEKLLNLQSNSMKSHLLKANALIL----LERYDMARDAILSGLQVDP  169 (476)
Q Consensus       123 a~~~~~~al~l~p~~~~~~~~~~~~~~~----~~~~~~A~~~~~~~l~l~p  169 (476)
                      |...+.++...  .++.+...+|..+..    ..+++.|...++.+.+..+
T Consensus        57 a~~~~~~a~~~--~~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~  105 (265)
T d1ouva_          57 AASFYAKACDL--NYSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLKY  105 (265)
T ss_dssp             HHHHHHHHHHT--TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHhhcccccc--cccchhhccccccccccccchhhHHHHHHHhhhhhhhh
Confidence            88888887654  477888888887754    5678889999998877544

>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=96.30  E-value=0.0048  Score=49.43  Aligned_cols=87  Identities=11%  Similarity=0.045  Sum_probs=66.7

Q ss_pred             HhccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccch
Q 011861           59 RESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSM  138 (476)
Q Consensus        59 ~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~  138 (476)
                      ...++++|+..|.++.+.  +++.+.+++|..|.. |..                  ......+|++.++++.+.  .++
T Consensus        35 ~~~~~~~a~~~~~~aa~~--g~~~a~~~Lg~~y~~-g~~------------------~~~d~~~A~~~~~~aa~~--g~~   91 (133)
T d1klxa_          35 SQINKQKLFQYLSKACEL--NSGNGCRFLGDFYEN-GKY------------------VKKDLRKAAQYYSKACGL--NDQ   91 (133)
T ss_dssp             TTSCHHHHHHHHHHHHHT--TCHHHHHHHHHHHHH-CSS------------------SCCCHHHHHHHHHHHHHT--TCH
T ss_pred             cccCHHHHHHHHhhhhcc--cchhhhhhHHHhhhh-ccc------------------cchhhHHHHHHHhhhhcc--Ccc
Confidence            456889999999999876  478888888888764 221                  011228899999999876  478


Q ss_pred             HHHHHHHHHHHh----hhhHHHHHHHHhcccccC
Q 011861          139 KSHLLKANALIL----LERYDMARDAILSGLQVD  168 (476)
Q Consensus       139 ~~~~~~~~~~~~----~~~~~~A~~~~~~~l~l~  168 (476)
                      .+.+.+|..|..    ..++++|+..|+++.++.
T Consensus        92 ~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          92 DGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            899999999875    468999999999987654

>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=95.10  E-value=0.0092  Score=53.19  Aligned_cols=104  Identities=15%  Similarity=0.104  Sum_probs=76.4

Q ss_pred             HHHHhhHHHHH----hccHHHHHHHHHHHhccCCCCcccccchhHHHHH----HHhhhccCCCCCcccCCCCCCCCcchH
Q 011861           49 DLVQKGNRAFR----ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIR----ISQFLKHRPPSASEYRPLNGLDPTTHA  120 (476)
Q Consensus        49 ~~~~~g~~~~~----~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (476)
                      .+...|..++.    ..+...+...+..+.+  +.++.+++++|.+|..    ..++                       
T Consensus       144 ~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~--~g~~~A~~~lg~~y~~g~~~~~d~-----------------------  198 (265)
T d1ouva_         144 GCTILGSLYDAGRGTPKDLKKALASYDKACD--LKDSPGCFNAGNMYHHGEGATKNF-----------------------  198 (265)
T ss_dssp             HHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH--TTCHHHHHHHHHHHHHTCSSCCCH-----------------------
T ss_pred             hhhhhhhhhccCCCcccccccchhhhhcccc--ccccccccchhhhcccCcccccch-----------------------
Confidence            33445555554    4667777888888775  4578888889888876    3455                       


Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHh----hhhHHHHHHHHhcccccCCCCchhhHHHHHH
Q 011861          121 ELALKDAEKLLNLQSNSMKSHLLKANALIL----LERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (476)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~~~~~~~~~~~~----~~~~~~A~~~~~~~l~l~p~~~~~~~~~~~~  181 (476)
                      ++|+..|.++.+.  +++.+++.+|.+|..    .+++++|+.+|+++.+..  +..+...+.++
T Consensus       199 ~~A~~~~~~aa~~--g~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g--~~~A~~~l~~l  259 (265)
T d1ouva_         199 KEALARYSKACEL--ENGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLG--AKGACDILKQL  259 (265)
T ss_dssp             HHHHHHHHHHHHT--TCHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHT--CHHHHHHHHTC
T ss_pred             hhhhhhHhhhhcc--cCHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCc--CHHHHHHHHHH
Confidence            9999999999887  478899999999975    348999999999998765  34444444444

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=94.23  E-value=0.018  Score=45.87  Aligned_cols=86  Identities=12%  Similarity=0.005  Sum_probs=62.9

Q ss_pred             hccHHHHHHHHHHHhccCCCCcccccchhHHHHHHHhhhccCCCCCcccCCCCCCCCcchHHHHHHHHHHHhhccccchH
Q 011861           60 ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMK  139 (476)
Q Consensus        60 ~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~  139 (476)
                      ..|+++|+..|.+|.+..  ++.+..+++..  ...++                       ++|+..+.++.+.  +++.
T Consensus         6 ~kd~~~A~~~~~kaa~~g--~~~a~~~l~~~--~~~~~-----------------------~~a~~~~~~aa~~--g~~~   56 (133)
T d1klxa_           6 KKDLKKAIQYYVKACELN--EMFGCLSLVSN--SQINK-----------------------QKLFQYLSKACEL--NSGN   56 (133)
T ss_dssp             HHHHHHHHHHHHHHHHTT--CTTHHHHHHTC--TTSCH-----------------------HHHHHHHHHHHHT--TCHH
T ss_pred             ccCHHHHHHHHHHHHHCC--Chhhhhhhccc--cccCH-----------------------HHHHHHHhhhhcc--cchh
Confidence            358999999999998875  44444444321  11223                       8999999999775  5889


Q ss_pred             HHHHHHHHHHh----hhhHHHHHHHHhcccccCCCCchhhH
Q 011861          140 SHLLKANALIL----LERYDMARDAILSGLQVDPFSNPLQA  176 (476)
Q Consensus       140 ~~~~~~~~~~~----~~~~~~A~~~~~~~l~l~p~~~~~~~  176 (476)
                      +.+.+|..|..    ..+++.|+..|+++.+..  ++.+..
T Consensus        57 a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~g--~~~a~~   95 (133)
T d1klxa_          57 GCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN--DQDGCL   95 (133)
T ss_dssp             HHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT--CHHHHH
T ss_pred             hhhhHHHhhhhccccchhhHHHHHHHhhhhccC--cchHHH
Confidence            99999999875    567899999999998753  444433

>d1wfda_ a.7.14.1 (A:) Hypothetical protein 1500032H18Rik {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: Spectrin repeat-like
superfamily: MIT domain
family: MIT domain
domain: Hypothetical protein 1500032H18Rik
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=82.40  E-value=0.71  Score=33.79  Aligned_cols=38  Identities=13%  Similarity=0.161  Sum_probs=32.9

Q ss_pred             CCchhhhhHHHHHHhhHHHHHhccHHHHHHHHHHHhcc
Q 011861           39 LPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNI   76 (476)
Q Consensus        39 ~~~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~   76 (476)
                      ........|..+..+|..+=..|+|++|+.+|.+|+++
T Consensus         7 ~~~~~~~~A~~l~~~Av~~D~~g~y~eA~~~Y~~aie~   44 (93)
T d1wfda_           7 GQDSDSTAAVAVLKRAVELDAESRYQQALVCYQEGIDM   44 (93)
T ss_dssp             CCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            34456677889999999999999999999999999875