Citrus Sinensis ID: 011050

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490----
Protein Sequence
MYCTIFSQMSAEATSSGFPLVGIDDVDDYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAERKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAEEQGCRLQ
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccHHHHHHcccccccccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHcccccccccccccccccccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHcHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHcccccccccccccccccHHHHHHHHcccccccccccccHHHHHHHcccccccccccccccccccccccHHHHHHHHHHHcccHHHHHHcccccccccccccccccccccccccccccccccccHHHHHHHHHHHccccEEEEEEccccccccEEEEEEEEEEcEEcccccEEEEEEccccEEEEEEEEcccEEEEEEEEEEccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccHHHHHHHHcccccHHHHHHHHccccHHHHHHHHHHHHHHHHcccccc
Secondary Structure Prediction (SSPRO)
ccEEEEEcccccccccccccHHHHcccccccccccccccccccHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHcccccccEEEccHHHHHHHHHHHHHHccHHHHccccccccccccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHccHHccccccccccccccccHHHHHHHHccccccccccHHHHHHHHHHccccccccccccccccccccccccHHHHHHHHHHcHHHHHHHHHHHHHHHHHccccccEEEEEEcccccccccEEcccHHEHHHHEHccccccEEEEEccccccccccccEEEEEEEEEEcccccEEEEEccccEEEEEEccccccccEEEEEEEEccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccHHHHHHHHHccccHHHHHHHHccccHHHHHHHHHHHHHHHHcccccc
Coil and Loop (DISEMBL)
myctifsqmsaeatssgfplvgiddvddyiwanegegslpwdrytHVFDLVQKGNRAFRESNFEEAISNYsrannikpgdpivlgnrssaYIRISQFlkhrppsaseyrplngldpttHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSglqvdpfsnplqASLQNLERTTASLIgrrihgtpertddfdCTLCLKllyepittpcghsfcrsclfqsmdrgnkcplcravlfitprtcAVSVTLNSIIQKNFPEEYAERKSEHDslinfgvdlmplfvmdvvipcqrfplhifepRYRLMVRRIMEgnhrmgmviidpttgsvadfaceveiteceplpdgrfvlEIESRRRFRILRSwdqdgyrvaeiewvqdihpegvedradlQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVevmmppsqdperFSFWLAtlsdrrpserLELLRIRDTRERIRRGLIFLRAEEQGCRLQ
Flexible Loop (DISEMBL)
MYCTIFSQMSAEATSSGFPLVGIDDVDDYIWANEgegslpwdryTHVFDLVQKGNRAFRESNFEEAISNysrannikpgdpiVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLigrrihgtpertddFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAERKSEHDSLINFGVDLMPLFVMDVVIPCQRfplhifeprYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEIteceplpdgrfvleIESRRRFRilrswdqdgyrVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLrrekesarqdrrRLEKllnvevmmppsqdperFSFWLatlsdrrpserlellrirdtrerirrgliflraeeqgcrlq
Low Complexity Region (SEG)
MYCTIFSQMSAEATSSGFPLVGIDDVDDYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHaelalkdaekllnlQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAERKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSerlellrirdtrerirrgliFLRAEEQGCRLQ
Disordered region (IsUnstruct)
***TIF*********SGFPLVGIDDVDDYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYS**NNIKPGDPIVLGNRSSAYIRISQFL*****************************************SHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAE***EHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLR*******************************FSFWLATLS*******LELLRIRDTRERIRRGLIFLR*********
Disordered Region (DISOPRED)
*YCTI******************DDVDDY********************LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFL*************************LKD**************HLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNF*****************GVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIH**************NNAAEYARLWLRREKESAR*****************PSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAEEQGC***
Disordered Region (DISEMBL)
MYCTIFSQMSAEATSSGFPLVGIDDVDDYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAERKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAEEQGCRLQ
Disordered Region (DISPRO)
MYCTIFSQMS****SSGFPLVGIDDVDDYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA************RTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAERKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAEEQGC***
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MYCTIFSQMSAEATSSGFPLVGIDDVDDYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAERKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWxxxxxxxxxxxxxxxxxxxxxEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAEEQGCRLQ
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	494	2.2.26 [Sep-21-2011]
Q8HXH0	718	LON peptidase N-terminal	N/A	no	0.858	0.590	0.298	3e-46
Q9D4H7	753	LON peptidase N-terminal	yes	no	0.558	0.366	0.360	1e-43
Q496Y0	759	LON peptidase N-terminal	no	no	0.558	0.363	0.360	2e-43
Q17RB8	773	LON peptidase N-terminal	no	no	0.564	0.360	0.334	3e-43
Q1L5Z9	754	LON peptidase N-terminal	no	no	0.552	0.362	0.342	5e-40
O60106	486	LON peptidase N-terminal	yes	no	0.331	0.337	0.279	2e-15
Q03605	160	Uncharacterized RING fing	yes	no	0.153	0.475	0.389	3e-08
Q8NHY2	731	E3 ubiquitin-protein liga	no	no	0.123	0.083	0.377	6e-08
Q8IYW5	571	E3 ubiquitin-protein liga	no	no	0.159	0.138	0.341	6e-08
Q9D9R0	233	E3 ubiquitin-protein liga	no	no	0.089	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 =  186 bits (473), Expect = 3e-46,   Method: Compositional matrix adjust.
 Identities = 143/479 (29%), Positives = 223/479 (46%), Gaps = 55/479 (11%)

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 QDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLN 435
           +DGY  A+IE+++D   +G ED A+L  L N   + A LW    K S +       ++LN
Sbjct: 602 RDGYNTADIEYIEDQKVQG-EDCAELMGLHNCVYQQASLWFHSLKSSLKN------RILN 654

Query: 436 VEVMMP-----PSQDPE--RFSFWLATLSDRRPSERLELLRIRDTRER---IRRGLIFL 484
               MP     P  +P    + +W+  +       +L  L +R  ++R   IRR L F+
Sbjct: 655 HFGPMPEKDADPQMNPNGPAWCWWMLAVLPLESRAQLPFLAMRSLKDRLNGIRRVLAFI 713

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 =  178 bits (451), Expect = 1e-43,   Method: Compositional matrix adjust.
 Identities = 109/302 (36%), Positives = 162/302 (53%), Gaps = 26/302 (8%)

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 ILEELIATFLPEEFKERKRLYEEEMEELSNLNKNV-PIFVCTMAYPTVPCPLHIFEPCYR 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 SWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEK 432
              +DGY  A+IE+++D   +G +D A+L  L N   E A  W    K S +       +
Sbjct: 634 QGQRDGYNTADIEYIEDQKVQG-DDCAELMGLHNCVYEQASSWFHSLKASLKN------R 686

Query: 433 LLNVEVMMPPS-QDPE------RFSFWLATLSDRRPSERLELLRIRDTRER---IRRGLI 482
           +LN    MP   +DP+       + +W   +       +L  L +R  ++R   IRR L 
Sbjct: 687 ILNHFGPMPEKDEDPQVNPNGPAWCWWTLAVLPLESRAQLPFLAMRSLKDRLNGIRRILA 746

Query: 483 FL 484
           F+
Sbjct: 747 FI 748

Mus musculus (taxid: 10090)

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

 Score =  177 bits (448), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 109/302 (36%), Positives = 161/302 (53%), Gaps = 26/302 (8%)

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 SWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEK 432
              +DGY  A+IE+++D   +G ED A+L  L N   + A LW    K S +       +
Sbjct: 640 QSQRDGYNTADIEYIEDQKVQG-EDCAELMGLHNCVYQQASLWFHSLKLSLKN------R 692

Query: 433 LLNVEVMMP-----PSQDPE--RFSFWLATLSDRRPSERLELLRIRDTRER---IRRGLI 482
           +LN    MP     P  +P    + +W+  +       +L  L +R  ++R   IRR L 
Sbjct: 693 ILNHFGPMPEKDADPQMNPNGPAWCWWMLAVLPLESRAQLPFLAMRSLKDRLNGIRRVLA 752

Query: 483 FL 484
           F+
Sbjct: 753 FI 754

Homo sapiens (taxid: 9606)

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

 Score =  176 bits (447), Expect = 3e-43,   Method: Compositional matrix adjust.
 Identities = 96/287 (33%), Positives = 162/287 (56%), Gaps = 8/287 (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 LLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRR 479
           +   E  +  + +   + +WL  +    P  +L +L ++  +ER+ +
Sbjct: 713 MPEREENLQAAPNGPAWCWWLLAVLPVDPRYQLSVLSMKSLKERLTK 759

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 =  166 bits (419), Expect = 5e-40,   Method: Compositional matrix adjust.
 Identities = 103/301 (34%), Positives = 163/301 (54%), Gaps = 28/301 (9%)

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--------RFSFWLATLSDRRPSERLELLRIRDTRER---IRRGLIF 483
           +  VM  P ++PE         +S+W+  +       +L +L +   +ER   IRR L+ 
Sbjct: 678 HFGVM--PDREPEPQSNPSGPAWSWWILAVLPLERKAQLAILGMTSLKERLLAIRRILVI 735

Query: 484 L 484
           +
Sbjct: 736 I 736

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 = 60.8 bits (146), 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|Q8NHY2|RFWD2_HUMAN E3 ubiquitin-protein ligase RFWD2 OS=Homo sapiens GN=RFWD2 PE=1 SV=1

 Score = 59.7 bits (143), 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|Q8IYW5|RN168_HUMAN E3 ubiquitin-protein ligase RNF168 OS=Homo sapiens GN=RNF168 PE=1 SV=1

 Score = 59.3 bits (142), Expect = 6e-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|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	494
449440816	487	PREDICTED: LON peptidase N-terminal doma	0.983	0.997	0.753	0.0
356508525	486	PREDICTED: LON peptidase N-terminal doma	0.947	0.962	0.753	0.0
297733938	486	unnamed protein product [Vitis vinifera]	0.981	0.997	0.702	0.0
359491313	1383	PREDICTED: probable receptor-like protei	0.971	0.347	0.704	0.0
224119058	444	predicted protein [Populus trichocarpa]	0.874	0.972	0.775	0.0
18394639	486	zinc finger (C3HC4-type RING finger) fam	0.981	0.997	0.691	0.0
21554128	486	unknown [Arabidopsis thaliana]	0.981	0.997	0.689	0.0
297844822	476	zinc finger family protein [Arabidopsis	0.943	0.978	0.700	0.0
255547323	1646	kinase, putative [Ricinus communis] gi|2	0.870	0.261	0.720	0.0
42571537	491	zinc finger (C3HC4-type RING finger) fam	0.957	0.963	0.684	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 =  769 bits (1986), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 367/487 (75%), Positives = 430/487 (88%), Gaps = 1/487 (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 RRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAE 487
            + ++LLNVE MMP S+DPERFSFWLATLS+RRP ERLELLR+ DTRERIRRGL++L+AE
Sbjct: 421 IKRDRLLNVEAMMPSSRDPERFSFWLATLSNRRPLERLELLRMTDTRERIRRGLVYLKAE 480

Query: 488 EQGCRLQ 494
           EQGC++Q
Sbjct: 481 EQGCQMQ 487

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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 =  728 bits (1880), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 355/471 (75%), Positives = 403/471 (85%), Gaps = 3/471 (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 QDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAEEQGCRLQ 494
           +DPERFSFWLATLS+RRP+ERL+LLRIRDT ERIRRGLIFLR EEQGCR+Q
Sbjct: 436 KDPERFSFWLATLSNRRPAERLDLLRIRDTAERIRRGLIFLRQEEQGCRIQ 486

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  720 bits (1858), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 342/487 (70%), Positives = 409/487 (83%), Gaps = 2/487 (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 RRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAE 487
           RRL +L + E MMP  QDPE FSFWLA LS+RRP ERL+LL IRDT+ERIRRGLI++R  
Sbjct: 420 RRLAELCHAEAMMPTPQDPELFSFWLAGLSNRRPPERLDLLYIRDTKERIRRGLIYMRDA 479

Query: 488 EQGCRLQ 494
           EQGC++Q
Sbjct: 480 EQGCQVQ 486

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  720 bits (1858), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 341/484 (70%), Positives = 403/484 (83%), Gaps = 4/484 (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 RLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAEE 488
           RL +L + E MMP  QDPE FSFWLA LS+RRP ERL+LL IRDT+ERIRRGLI++R  E
Sbjct: 417 RLAELCHAEAMMPTPQDPELFSFWLAGLSNRRPPERLDLLYIRDTKERIRRGLIYMRDAE 476

Query: 489 QGCR 492
           QGC+
Sbjct: 477 QGCQ 480

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  716 bits (1849), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 336/433 (77%), Positives = 385/433 (88%), Gaps = 1/433 (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 SARQDRRRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGL 481
           +ARQDRRRLEK LNVE MMP   DPERFSFWLATL+DRRPSERLELLR RDT +RIR+GL
Sbjct: 372 AARQDRRRLEKFLNVEAMMPMPLDPERFSFWLATLTDRRPSERLELLRTRDTTKRIRQGL 431

Query: 482 IFLRAEEQGCRLQ 494
            +L   EQGCR+Q
Sbjct: 432 DYLGKAEQGCRMQ 444

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

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 =  710 bits (1832), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 337/487 (69%), Positives = 410/487 (84%), Gaps = 2/487 (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 RRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAE 487
           RRLE LLNVE M+P  QDPERFSFWLATL+DRRPSERLELLR++DT ERI+RGLI+LR+ 
Sbjct: 420 RRLEILLNVESMIPTPQDPERFSFWLATLTDRRPSERLELLRLQDTGERIKRGLIYLRSV 479

Query: 488 EQGCRLQ 494
           E+GCR+Q
Sbjct: 480 ERGCRMQ 486

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 =  709 bits (1829), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 336/487 (68%), Positives = 410/487 (84%), Gaps = 2/487 (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 RRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAE 487
           RRLE LLNVE M+P  QDPERFSFWLATL+DRRPSERLELLR++DT ERI+RGLI+LR+ 
Sbjct: 420 RRLEILLNVESMIPTPQDPERFSFWLATLTDRRPSERLELLRLQDTGERIKRGLIYLRSV 479

Query: 488 EQGCRLQ 494
           E+GCR+Q
Sbjct: 480 ERGCRMQ 486

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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 =  688 bits (1775), 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|255547323|ref|XP_002514719.1| kinase, putative [Ricinus communis] gi|223546323|gb|EEF47825.1| kinase, putative [Ricinus communis]

 Score =  682 bits (1759), 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|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 =  682 bits (1759), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 325/475 (68%), Positives = 395/475 (83%), Gaps = 2/475 (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 RRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLI 482
           RRLE LLNVE M+P  QDPERFSFWLATL+DRRPSERLELLR++DT E +   L+
Sbjct: 420 RRLEILLNVESMIPTPQDPERFSFWLATLTDRRPSERLELLRLQDTGEVLDYRLV 474

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	494
TAIR|locus:2035025	491	AT1G18660 [Arabidopsis thalian	0.917	0.922	0.668	1.1e-165
MGI|MGI:1921615	753	Lonrf3 "LON peptidase N-termin	0.479	0.314	0.389	1.3e-50
UNIPROTKB|Q496Y0	759	LONRF3 "LON peptidase N-termin	0.479	0.312	0.389	1.9e-49
UNIPROTKB|K7GLC4	752	LONRF3 "Uncharacterized protei	0.479	0.315	0.385	2.2e-49
UNIPROTKB|F1RU80	788	LONRF3 "Uncharacterized protei	0.479	0.300	0.385	4e-49
UNIPROTKB|H0Y7Q8	525	LONRF3 "LON peptidase N-termin	0.479	0.451	0.389	8.7e-49
UNIPROTKB|G3X6C1	759	LONRF3 "Uncharacterized protei	0.445	0.289	0.395	1.2e-48
UNIPROTKB|K7GKX2	711	LONRF3 "Uncharacterized protei	0.479	0.333	0.385	1.7e-47
UNIPROTKB|F1PSB6	765	LONRF3 "Uncharacterized protei	0.445	0.287	0.404	2.8e-47
UNIPROTKB|F1NNQ7	632	Gga.54568 "Uncharacterized pro	0.457	0.357	0.395	1.5e-46

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

 Score = 1612 (572.5 bits), Expect = 1.1e-165, P = 1.1e-165
 Identities = 304/455 (66%), Positives = 367/455 (80%)

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 RRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPS 462
             RRLE LLNVE M+P  QDPERFSFWLATL+DRRPS
Sbjct:   420 RRLEILLNVESMIPTPQDPERFSFWLATLTDRRPS 454

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 = 439 (159.6 bits), Expect = 1.9e-49, Sum P(3) = 1.9e-49
 Identities = 99/254 (38%), Positives = 142/254 (55%)

Query:   202 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF--ITPRTCAVSVTL 259
             D +C LC++L YEP+TTPCGH+FC  CL + +D   KCPLC+  L   +  R  + +V +
Sbjct:   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 NVEVMMPPSQ-DPE 447
             N    MP    DP+
Sbjct:   695 NHFGPMPEKDADPQ 708

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 = 439 (159.6 bits), Expect = 8.7e-49, Sum P(2) = 8.7e-49
 Identities = 99/254 (38%), Positives = 142/254 (55%)

Query:   202 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF--ITPRTCAVSVTL 259
             D +C LC++L YEP+TTPCGH+FC  CL + +D   KCPLC+  L   +  R  + +V +
Sbjct:   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 NVEVMMPPSQ-DPE 447
             N    MP    DP+
Sbjct:   461 NHFGPMPEKDADPQ 474

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 = 437 (158.9 bits), Expect = 1.5e-46, Sum P(2) = 1.5e-46
 Identities = 95/240 (39%), Positives = 139/240 (57%)

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

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	0.691

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: fgenesh4_pg.C_LG_XII000664 hypothetical protein (444 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	494
pfam02190	191	pfam02190, LON, ATP-dependent protease La (LON) do	3e-30
COG2802	221	COG2802, COG2802, Uncharacterized protein, similar	1e-24
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	3e-12
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	3e-11
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	1e-10
cd00189	100	cd00189, TPR, Tetratricopeptide repeat domain; typ	4e-10
smart00184	40	smart00184, RING, Ring finger	6e-10
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	9e-09
COG5574	271	COG5574, PEX10, RING-finger-containing E3 ubiquiti	1e-07
COG0466	782	COG0466, Lon, ATP-dependent Lon protease, bacteria	1e-07
COG5152	259	COG5152, COG5152, Uncharacterized conserved protei	7e-07
PLN03088	356	PLN03088, PLN03088, SGT1, suppressor of G2 allele	2e-06
pfam13920	49	pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RI	2e-06
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	7e-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	0.004

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

 Score =  115 bits (291), Expect = 3e-30
 Identities = 57/202 (28%), Positives = 90/202 (44%), Gaps = 20/202 (9%)

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 ERLELLRIRDTRERIRRGLIFL 484
           E+ ELL   D +ER+ + L  L
Sbjct: 168 EKQELLETLDVKERLEKLLELL 189

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 =  101 bits (254), Expect = 1e-24
 Identities = 59/211 (27%), Positives = 83/211 (39%), Gaps = 25/211 (11%)

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 FSFWLATLSDRRPSERLELLRIRDTRERIRR 479
            +  L  L    P+E+  LL   D   R  R
Sbjct: 169 LANRLYMLLPFDPAEKQALLEAPDLPTRAER 199

Length = 221

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

 Score = 60.6 bits (147), Expect = 3e-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 = 57.8 bits (140), Expect = 3e-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 = 56.6 bits (137), Expect = 1e-10
 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 = 4e-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 = 54.1 bits (130), Expect = 6e-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 = 50.9 bits (122), Expect = 9e-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|223542 COG0466, Lon, ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

 Score = 53.7 bits (130), Expect = 1e-07
 Identities = 48/209 (22%), Positives = 93/209 (44%), Gaps = 25/209 (11%)

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 RRPSERLELLRIRDTRERIRRGLIFLRAE 487
            +  E+ E+L   D +ER+ + L  L  E
Sbjct: 176 LKLEEKQEILETLDVKERLEKLLDLLEKE 204

Length = 782

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

 Score = 50.1 bits (119), 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|215568 PLN03088, PLN03088, SGT1, suppressor of G2 allele of SKP1; Provisional

 Score = 49.8 bits (119), 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|222454 pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RING finger)

 Score = 44.3 bits (105), Expect = 2e-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|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 = 42.0 bits (98), 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 = 7e-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 = 0.004
 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	494
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	99.94
PF02190	205	LON: ATP-dependent protease La (LON) domain; Inter	99.93
COG2802	221	Uncharacterized protein, similar to the N-terminal	99.93
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	99.92
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	99.91
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	99.9
KOG0553	304	consensus TPR repeat-containing protein [General f	99.84
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.66
KOG4234	271	consensus TPR repeat-containing protein [General f	99.64
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	99.64
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.64
KOG4648	536	consensus Uncharacterized conserved protein, conta	99.6
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	99.59
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.56
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	99.5
PRK15359	144	type III secretion system chaperone protein SscB;	99.47
KOG0376	476	consensus Serine-threonine phosphatase 2A, catalyt	99.41
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	99.41
TIGR02552	135	LcrH_SycD type III secretion low calcium response	99.35
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	99.3
PRK10370	198	formate-dependent nitrite reductase complex subuni	99.25
KOG0551	390	consensus Hsp90 co-chaperone CNS1 (contains TPR re	99.24
KOG0545	329	consensus Aryl-hydrocarbon receptor-interacting pr	99.24
PRK11189	296	lipoprotein NlpI; Provisional	99.22
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.2
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.2
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.2
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	99.2
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.18
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.14
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	99.13
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	99.05
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	99.02
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.01
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	99.0
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.99
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	98.96
smart00464	92	LON Found in ATP-dependent protease La (LON). N-te	98.96
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	98.96
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	98.96
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.94
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.94
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	98.93
KOG0547	606	consensus Translocase of outer mitochondrial membr	98.93
KOG1126	638	consensus DNA-binding cell division cycle control	98.92
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.92
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.92
KOG4555	175	consensus TPR repeat-containing protein [Function	98.91
KOG1125	579	consensus TPR repeat-containing protein [General f	98.89
KOG1308	377	consensus Hsp70-interacting protein Hip/Transient	98.89
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	98.88
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.87
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.86
PRK15331	165	chaperone protein SicA; Provisional	98.86
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.84
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	98.84
PRK15359	144	type III secretion system chaperone protein SscB;	98.83
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.82
KOG1126	638	consensus DNA-binding cell division cycle control	98.82
PRK11189	296	lipoprotein NlpI; Provisional	98.8
PRK12370	553	invasion protein regulator; Provisional	98.8
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	98.79
PRK12370	553	invasion protein regulator; Provisional	98.79
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.76
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.76
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	98.75
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.74
PRK10803	263	tol-pal system protein YbgF; Provisional	98.73
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.73
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.73
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	98.73
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.72
PLN02789	320	farnesyltranstransferase	98.71
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.7
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	98.69
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.69
PHA02929	238	N1R/p28-like protein; Provisional	98.66
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.66
KOG1310	758	consensus WD40 repeat protein [General function pr	98.65
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	98.65
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.65
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	98.65
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.64
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	98.63
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.63
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.62
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	98.61
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	98.59
COG5152	259	Uncharacterized conserved protein, contains RING a	98.57
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	98.56
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	98.56
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	98.56
PRK11788	389	tetratricopeptide repeat protein; Provisional	98.55
PLN02789	320	farnesyltranstransferase	98.53
PF13512	142	TPR_18: Tetratricopeptide repeat	98.53
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.52
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.52
PF13371	73	TPR_9: Tetratricopeptide repeat	98.51
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.49
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.49
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.48
PF13371	73	TPR_9: Tetratricopeptide repeat	98.48
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	98.47
PF14634	44	zf-RING_5: zinc-RING finger domain	98.46
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	98.44
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	98.43
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	98.42
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.42
KOG2076	895	consensus RNA polymerase III transcription factor	98.4
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	98.39
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	98.38
PHA02926	242	zinc finger-like protein; Provisional	98.37
KOG2003	840	consensus TPR repeat-containing protein [General f	98.37
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.37
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.37
PRK11906	458	transcriptional regulator; Provisional	98.37
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.32
KOG2660	331	consensus Locus-specific chromosome binding protei	98.31
PRK11788	389	tetratricopeptide repeat protein; Provisional	98.31
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.3
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	98.3
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	98.29
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	98.28
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	98.27
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.26
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.25
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.25
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.24
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	98.22
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	98.22
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.22
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.22
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	98.21
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	98.21
KOG1125	579	consensus TPR repeat-containing protein [General f	98.19
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.19
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	98.17
KOG1400	371	consensus Predicted ATP-dependent protease PIL, co	98.15
PRK14574	822	hmsH outer membrane protein; Provisional	98.15
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	98.11
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.1
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.08
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	98.08
PF12688	120	TPR_5: Tetratrico peptide repeat	98.07
KOG0546	372	consensus HSP90 co-chaperone CPR7/Cyclophilin [Pos	98.07
PRK14574	822	hmsH outer membrane protein; Provisional	98.04
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	98.02
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	98.01
KOG0553	304	consensus TPR repeat-containing protein [General f	98.01
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	97.99
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.96
KOG2076	895	consensus RNA polymerase III transcription factor	97.96
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	97.96
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.95
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	97.95
PRK11906	458	transcriptional regulator; Provisional	97.94
KOG1128	777	consensus Uncharacterized conserved protein, conta	97.93
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.92
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	97.91
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.88
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	97.85
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.82
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	97.81
PRK14720	906	transcript cleavage factor/unknown domain fusion p	97.8
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	97.79
KOG1941	518	consensus Acetylcholine receptor-associated protei	97.79
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.78
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.78
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	97.77
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	97.76
PF13431	34	TPR_17: Tetratricopeptide repeat	97.72
KOG0495	913	consensus HAT repeat protein [RNA processing and m	97.71
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	97.69
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.65
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	97.64
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	97.63
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.62
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.59
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	97.58
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.58
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.57
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	97.56
COG4105	254	ComL DNA uptake lipoprotein [General function pred	97.52
KOG4234	271	consensus TPR repeat-containing protein [General f	97.52
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	97.52
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.51
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.48
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	97.48
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.47
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	97.47
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.44
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.44
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	97.43
PF13428	44	TPR_14: Tetratricopeptide repeat	97.42
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	97.41
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.4
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	97.4
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	97.39
COG3118	304	Thioredoxin domain-containing protein [Posttransla	97.38
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.37
KOG1129	478	consensus TPR repeat-containing protein [General f	97.37
KOG1128	777	consensus Uncharacterized conserved protein, conta	97.33
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	97.3
PF12968	144	DUF3856: Domain of Unknown Function (DUF3856); Int	97.28
PRK14720	906	transcript cleavage factor/unknown domain fusion p	97.28
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	97.27
KOG3785	557	consensus Uncharacterized conserved protein [Funct	97.24
PF13431	34	TPR_17: Tetratricopeptide repeat	97.23
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	97.23
COG5222	427	Uncharacterized conserved protein, contains RING Z	97.22
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	97.18
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.17
KOG1129	478	consensus TPR repeat-containing protein [General f	97.16
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.15
KOG4507	886	consensus Uncharacterized conserved protein, conta	97.13
PRK10803	263	tol-pal system protein YbgF; Provisional	97.12
PF13428	44	TPR_14: Tetratricopeptide repeat	97.12
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.11
KOG2003	840	consensus TPR repeat-containing protein [General f	97.11
PF04781	111	DUF627: Protein of unknown function (DUF627); Inte	97.11
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	97.1
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	97.05
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	96.99
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	96.98
PF15015	569	NYD-SP12_N: Spermatogenesis-associated, N-terminal	96.93
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	96.92
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	96.86
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.85
KOG4555	175	consensus TPR repeat-containing protein [Function	96.85
PF13512	142	TPR_18: Tetratricopeptide repeat	96.81
PF12688	120	TPR_5: Tetratrico peptide repeat	96.75
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	96.75
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.72
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	96.68
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	96.67
KOG4151	748	consensus Myosin assembly protein/sexual cycle pro	96.66
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	96.64
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	96.63
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	96.57
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	96.56
KOG0376	476	consensus Serine-threonine phosphatase 2A, catalyt	96.51
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	96.51
PRK15331	165	chaperone protein SicA; Provisional	96.51
KOG4648	536	consensus Uncharacterized conserved protein, conta	96.47
KOG0495	913	consensus HAT repeat protein [RNA processing and m	96.46
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	96.42
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	96.42
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.41
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	96.36
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	96.33
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	96.33
KOG2376	652	consensus Signal recognition particle, subunit Srp	96.32
KOG1002	791	consensus Nucleotide excision repair protein RAD16	96.23
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	96.09
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	96.08
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	96.03
KOG0545	329	consensus Aryl-hydrocarbon receptor-interacting pr	95.99
COG5219	1525	Uncharacterized conserved protein, contains RING Z	95.98
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	95.95
KOG4340	459	consensus Uncharacterized conserved protein [Funct	95.94
KOG4340	459	consensus Uncharacterized conserved protein [Funct	95.87
PRK10941	269	hypothetical protein; Provisional	95.85
KOG2376	652	consensus Signal recognition particle, subunit Srp	95.85
KOG4367	699	consensus Predicted Zn-finger protein [Function un	95.7
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	95.64
KOG3785	557	consensus Uncharacterized conserved protein [Funct	95.64
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	95.61
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	95.58
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	95.56
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	95.54
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.53
PRK10941	269	hypothetical protein; Provisional	95.52
KOG3824	472	consensus Huntingtin interacting protein HYPE [Gen	95.39
KOG4739	233	consensus Uncharacterized protein involved in syna	95.34
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	95.33
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.29
KOG3364	149	consensus Membrane protein involved in organellar	95.25
KOG0551	390	consensus Hsp90 co-chaperone CNS1 (contains TPR re	95.23
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	95.1
KOG0825	1134	consensus PHD Zn-finger protein [General function	95.09
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	95.04
PF14561	90	TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S	95.04
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.0
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	94.95
COG4976	287	Predicted methyltransferase (contains TPR repeat)	94.87
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	94.85
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	94.84
KOG3824	472	consensus Huntingtin interacting protein HYPE [Gen	94.79
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	94.78
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	94.74
PF06957	422	COPI_C: Coatomer (COPI) alpha subunit C-terminus;	94.69
KOG2796	366	consensus Uncharacterized conserved protein [Funct	94.57
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	94.57
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	94.54
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	94.51
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	94.51
KOG4814	872	consensus Uncharacterized conserved protein [Funct	94.44
KOG2610	491	consensus Uncharacterized conserved protein [Funct	94.44
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	94.44
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	94.27
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.24
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	94.22
KOG2471	696	consensus TPR repeat-containing protein [General f	94.18
KOG1001	674	consensus Helicase-like transcription factor HLTF/	94.08
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	94.07
KOG1586	288	consensus Protein required for fusion of vesicles	94.0
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	93.99
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	93.97
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	93.79
PF03704	146	BTAD: Bacterial transcriptional activator domain;	93.54
KOG2796	366	consensus Uncharacterized conserved protein [Funct	93.54
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	93.49
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	93.42
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	93.42
PLN03077	857	Protein ECB2; Provisional	93.08
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	93.01
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	92.87
PF04641	260	Rtf2: Rtf2 RING-finger	92.78
KOG2610	491	consensus Uncharacterized conserved protein [Funct	92.75
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	92.7
COG5191	435	Uncharacterized conserved protein, contains HAT (H	92.63
KOG4445	368	consensus Uncharacterized conserved protein, conta	92.47
KOG3039	303	consensus Uncharacterized conserved protein [Funct	92.44
COG4976	287	Predicted methyltransferase (contains TPR repeat)	92.36
COG2912	269	Uncharacterized conserved protein [Function unknow	92.26
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	92.12
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	91.93
COG5236	493	Uncharacterized conserved protein, contains RING Z	91.8
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	91.71
COG2912	269	Uncharacterized conserved protein [Function unknow	91.71
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	91.7
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	91.62
KOG1585	308	consensus Protein required for fusion of vesicles	91.6
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	91.51
KOG1915	677	consensus Cell cycle control protein (crooked neck	91.39
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	91.39
KOG0292	1202	consensus Vesicle coat complex COPI, alpha subunit	91.36
KOG1941	518	consensus Acetylcholine receptor-associated protei	91.13
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	91.11
PF14561	90	TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S	90.98
PF09986	214	DUF2225: Uncharacterized protein conserved in bact	90.97
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	90.96
KOG1308	377	consensus Hsp70-interacting protein Hip/Transient	90.94
COG5175	480	MOT2 Transcriptional repressor [Transcription]	90.93
PRK04841	903	transcriptional regulator MalT; Provisional	90.27
KOG3364	149	consensus Membrane protein involved in organellar	90.24
cd02682	75	MIT_AAA_Arch MIT: domain contained within Microtub	90.18
KOG3002	299	consensus Zn finger protein [General function pred	90.16
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	89.95
KOG1585	308	consensus Protein required for fusion of vesicles	89.67
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	89.59
COG4700	251	Uncharacterized protein conserved in bacteria cont	89.51
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	89.47
PRK04841	903	transcriptional regulator MalT; Provisional	89.33
KOG1915	677	consensus Cell cycle control protein (crooked neck	89.17
KOG0298	1394	consensus DEAD box-containing helicase-like transc	89.01
COG3914	620	Spy Predicted O-linked N-acetylglucosamine transfe	88.83
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	88.79
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	88.76
PLN03218	1060	maturation of RBCL 1; Provisional	88.42
PLN03218	1060	maturation of RBCL 1; Provisional	88.36
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	88.27
PF10516	38	SHNi-TPR: SHNi-TPR; InterPro: IPR019544 The tetrat	87.74
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	87.72
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	87.6
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	87.39
KOG0530	318	consensus Protein farnesyltransferase, alpha subun	87.07
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	86.53
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	86.4
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	85.77
PRK13184	932	pknD serine/threonine-protein kinase; Reviewed	85.58
KOG3039	303	consensus Uncharacterized conserved protein [Funct	85.29
KOG1586	288	consensus Protein required for fusion of vesicles	84.81
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	84.8
KOG2042	943	consensus Ubiquitin fusion degradation protein-2 [	84.68
PF07720	36	TPR_3: Tetratricopeptide repeat; InterPro: IPR0117	84.56
PLN03077	857	Protein ECB2; Provisional	84.21
KOG4507	886	consensus Uncharacterized conserved protein, conta	84.17
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	84.09
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	83.77
COG3629	280	DnrI DNA-binding transcriptional activator of the	83.64
PF10516	38	SHNi-TPR: SHNi-TPR; InterPro: IPR019544 The tetrat	83.51
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	83.41
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	83.24
COG3947	361	Response regulator containing CheY-like receiver a	82.49
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	80.87
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	80.46
KOG0546	372	consensus HSP90 co-chaperone CPR7/Cyclophilin [Pos	80.23
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	80.23
PF04212	69	MIT: MIT (microtubule interacting and transport) d	80.2
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	80.13
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	80.06

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

Probab=99.94  E-value=6e-26  Score=246.79  Aligned_cols=193  Identities=17%  Similarity=0.243  Sum_probs=162.1

Q ss_pred             ccccceee--eccCCCccCccccchhHHHHHHHHHhCCceEEEEEeCC------CCCccccccceEEEEEeeecCCceEE
Q 011050          288 LMPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDP------TTGSVADFACEVEITECEPLPDGRFV  359 (494)
Q Consensus       288 ~lPl~~l~--v~fP~~~~pl~i~~~~~~~~~~~~~~~~~~~~v~~~~~------~~~~~~~iG~~~~I~~~~~~~dg~~~  359 (494)
                      .+|+||++  |+|||+.+||+||+++|+.|+++++.+++.||++++.+      ...++|.|||+|+|.++.+++||++.
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            59999997  99999999999999999999999999999999999843      22478999999999999999999999


Q ss_pred             EEEEeccceEEeeeecCCCeeEEEEEEecCCCCCCcccHHhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHhhhhcC
Q 011050          360 LEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVM  439 (494)
Q Consensus       360 v~~~g~~R~~i~~~~~~~~~~~a~ve~l~d~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  439 (494)
                      |.++|.+||+|.++.+.+||+.|+|+++++...+    ..+..++.+.+.+.+.++.......+.       +....   
T Consensus        90 Ilv~Gl~RfrI~~~~~~~py~~A~Ve~l~~~~~~----~~e~~al~~~ll~~~~~~~~l~~~~~~-------e~~~~---  155 (784)
T PRK10787         90 VLVEGLQRARISALSDNGEHFSAKAEYLESPTID----EREQEVLVRTAISQFEGYIKLNKKIPP-------EVLTS---  155 (784)
T ss_pred             EEEEEEEEEEEEEEEcCCCCEEEEEEEecCCCCC----chHHHHHHHHHHHHHHHHHHhcccCCH-------HHHhh---
Confidence            9999999999999988999999999999874322    133456666677777777665443322       11111   


Q ss_pred             CCCCCCcchhHHHHHhcCCCChHHHhhhccCCCHHHHHHHHHHHHHhhhccccCC
Q 011050          440 MPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAEEQGCRLQ  494 (494)
Q Consensus       440 ~~~~~~~~~l~~~ia~~l~l~~~~kq~LLe~~d~~~Rl~~l~~~L~~~~~~~~~~  494 (494)
                      ....+||++++|++|++++++.++||+|||+.|+.+|+++++.+|+++++...+|
T Consensus       156 ~~~~ddp~~Lad~iA~~Lpl~~~eKQ~LLE~~d~~eRLe~Ll~lL~~Eleil~l~  210 (784)
T PRK10787        156 LNSIDDPARLADTIAAHMPLKLADKQSVLEMSDVNERLEYLMAMMESEIDLLQVE  210 (784)
T ss_pred             hhccccHHHHHHHHHHHCCCCHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            3457899999999999999999999999999999999999999999988765543

>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=99.93  E-value=1.1e-25  Score=209.62  Aligned_cols=189  Identities=29%  Similarity=0.522  Sum_probs=131.3

Q ss_pred             cccceee--eccCCCccCccccchhHHHHHHHHHhCCce-EEEEEe-C-------CCCCccccccceEEEEEeeecCCce
Q 011050          289 MPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGNHR-MGMVII-D-------PTTGSVADFACEVEITECEPLPDGR  357 (494)
Q Consensus       289 lPl~~l~--v~fP~~~~pl~i~~~~~~~~~~~~~~~~~~-~~v~~~-~-------~~~~~~~~iG~~~~I~~~~~~~dg~  357 (494)
                      +|+||++  |+|||+..|+++++++|+.|+++++.+++. ||+++. .       +..+++|.+||+|+|.++...+||+
T Consensus         2 lPv~pl~~~vlfPg~~~~i~i~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~G~~~~I~~~~~~~dg~   81 (205)
T PF02190_consen    2 LPVFPLRNQVLFPGQTLPIHIFEPRYIALLKRALDNNNPYFGIFLVKSNKDDSDEPSIDDLYSVGTLARIIRVEELPDGT   81 (205)
T ss_dssp             EEEEEESSS---TTBEEEEEE-SHHHHHHHHHHHTTTSE-EEEEEE-EBSSTSSSS-GGGB-SEEEEEEEEEEEESTTS-
T ss_pred             EEEEEeCCcccCCCeeEEEEECCHHHHHHHHHHHhcCCCceeEEeecccCCcccCCcccccccceEEEEEEEEEecCCCC
Confidence            7999996  999999999999999999999999998776 888887 1       2345789999999999999999999


Q ss_pred             EEEEEEeccceEEeee---ecCCCeeEEEEEEecCC-CCCCcccHHhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 011050          358 FVLEIESRRRFRILRS---WDQDGYRVAEIEWVQDI-HPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKL  433 (494)
Q Consensus       358 ~~v~~~g~~R~~i~~~---~~~~~~~~a~ve~l~d~-~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  433 (494)
                      +.|.++|.+||+|.++   ..++||++|+|++++|. +....+...++.++...+.+...++.........   .   +.
T Consensus        82 ~~v~~~g~~R~ki~~~~~~~~~~~~~~a~v~~l~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~---~~  155 (205)
T PF02190_consen   82 YKVLVQGLQRFKILKINNETQEDPYLVAEVEPLEDVEPPESDELDEEIKALLRELIKKIKEAYENLKELLP---W---DL  155 (205)
T ss_dssp             EEEEEEEEEEEEEEEEEE--ECSSCEEEEEEEE-----GCGHHHHHHHHHHHHHHHHHHH---HHHCCC-C---H---HH
T ss_pred             EEEEEEEEEEEEEEEEecccccCCceEEEEEEecccCccchhhhHHHHHHHHHHHHHHHHHHHHhhhcccc---h---hh
Confidence            9999999999999999   56899999999999873 3332222234444444444433321111111100   0   11


Q ss_pred             hhhhcCCCCCCCcchhHHHHHhcCCCChHHHhhhccCCCHHHHHHHHHHHHHh
Q 011050          434 LNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRA  486 (494)
Q Consensus       434 ~~~~~~~~~~~~~~~l~~~ia~~l~l~~~~kq~LLe~~d~~~Rl~~l~~~L~~  486 (494)
                      ...   +...++|..|+||+|++++++.++||+||++.|+.+|++.++++|++
T Consensus       156 ~~~---~~~~~~~~~l~~~~~~~l~~~~~ek~~lL~~~~~~~Rl~~l~~~L~~  205 (205)
T PF02190_consen  156 LLK---INNPDNPPELADFVASLLPLSPEEKQELLETDDLKERLKLLIELLKK  205 (205)
T ss_dssp             HHH---TTTHHHHHHHHHHHHHHS---HHHHHHHHC--SHHHHHHHHHHHHH-
T ss_pred             hhh---hhccCCHHHHHHHHHHhCCCCHHHHHHHHcCCCHHHHHHHHHHHhcC
Confidence            111   34567788899999999999999999999999999999999999975

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.

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

Probab=99.93  E-value=1.8e-24  Score=193.47  Aligned_cols=188  Identities=29%  Similarity=0.453  Sum_probs=148.3

Q ss_pred             Cccccceee--eccCCCccCccccchhHHHHHHHHHhCCceEEEEEeCCC---CC----ccccccceEEEEEeeecCCce
Q 011050          287 DLMPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPT---TG----SVADFACEVEITECEPLPDGR  357 (494)
Q Consensus       287 ~~lPl~~l~--v~fP~~~~pl~i~~~~~~~~~~~~~~~~~~~~v~~~~~~---~~----~~~~iG~~~~I~~~~~~~dg~  357 (494)
                      ..+|+||++  |+|||...|++||++||..|++.++.+++.|||+..+++   .+    .+..|||+++|+++...+||+
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            359999995  999999999999999999999999999999999999762   22    678999999999999999999


Q ss_pred             EEEEEEeccceEEeeeec-CCCeeEEEEEEecCCCCCCcccHHhHHHHHH-HHHHHHHHHHHHHHHHHHHhHHHHHHHhh
Q 011050          358 FVLEIESRRRFRILRSWD-QDGYRVAEIEWVQDIHPEGVEDRADLQDLTN-NAAEYARLWLRREKESARQDRRRLEKLLN  435 (494)
Q Consensus       358 ~~v~~~g~~R~~i~~~~~-~~~~~~a~ve~l~d~~~~~~~~~~~l~~l~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  435 (494)
                      +.|.++|.+||||.++.- .+||..+++++++|.+..... ..+++.... .+...+..|.....-.        .+|..
T Consensus        90 ~~I~~~G~~RFRv~~~~~~~~pyr~~~~~~~~D~~~~~~~-a~evdr~~~~~l~~~~r~~~~~~~l~--------~d~~~  160 (221)
T COG2802          90 YLILVRGGQRFRVLEELADDDPYRRARVPFWPDLPSDPDG-AEEVDRRLDALLMRAARAYLQRLELL--------ADWES  160 (221)
T ss_pred             EEEEEEeEEEEEEEEEecccCcceeeccccCCCCccCcch-HHHHHHHHHHHHHHHHHHHhhhcchh--------hhhcc
Confidence            999999999999999985 899999999999996554221 122222111 1222222222221100        02221


Q ss_pred             hhcCCCCCCCcchhHHHHHhcCCCChHHHhhhccCCCHHHHHHHHHHHHHhhh
Q 011050          436 VEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAEE  488 (494)
Q Consensus       436 ~~~~~~~~~~~~~l~~~ia~~l~l~~~~kq~LLe~~d~~~Rl~~l~~~L~~~~  488 (494)
                           -...++.++++.++..+|+++.+||.+|+..|+..|+..++.+++...
T Consensus       161 -----~~~~~~~~l~n~L~~llp~~~~~k~~ll~a~d~~~r~~~L~~~~e~l~  208 (221)
T COG2802         161 -----YERASNADLANRLYMLLPFDPAEKQALLEAPDLPTRAERLIRLLEQLL  208 (221)
T ss_pred             -----cccccHHHHHHHHHHhCCCChhHHHHHHhccchHHHHHHHHHHHHHHH
Confidence                 235788999999999999999999999999999999999999988654

>TIGR00763 lon ATP-dependent protease La

Probab=99.92  E-value=2.3e-24  Score=236.75  Aligned_cols=192  Identities=19%  Similarity=0.300  Sum_probs=159.5

Q ss_pred             ccceee--eccCCCccCccccchhHHHHHHHHHhCCceEE-EEEeCC------CCCccccccceEEEEEeeecCC---ce
Q 011050          290 PLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMG-MVIIDP------TTGSVADFACEVEITECEPLPD---GR  357 (494)
Q Consensus       290 Pl~~l~--v~fP~~~~pl~i~~~~~~~~~~~~~~~~~~~~-v~~~~~------~~~~~~~iG~~~~I~~~~~~~d---g~  357 (494)
                      |+||++  |+|||+.+||+||+|+|+.|+++++.+++.|+ ++++++      ...++|.|||+|+|+++.+++|   |+
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            899996  99999999999999999999999999888887 666642      2347899999999999999544   99


Q ss_pred             EEEEEEeccceEEeeeecCCCeeEEEEEEecCCCCCCcccHHhHHHHHHHHHHHHHHHHHHHH--HHHHHhHHHHHHHhh
Q 011050          358 FVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREK--ESARQDRRRLEKLLN  435 (494)
Q Consensus       358 ~~v~~~g~~R~~i~~~~~~~~~~~a~ve~l~d~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~--~~~~~~~~~l~~~~~  435 (494)
                      +.|.++|.+||+|.++.+++||+.|+|+++++++...  ...++.++.+.+.+.+.++.....  ..+..      .+..
T Consensus        81 ~~Ilv~G~~R~rI~~~~~~~p~~~A~V~~l~~~~~~~--~~~e~~al~~~l~~~~~el~~l~~l~~~~~e------~~~~  152 (775)
T TIGR00763        81 YKVVVEGLRRIRIKELSDKGGYLVVRVDNLKEEPFDK--DDEEIKALTREIKETFRELISLSKLFREQPA------LLSA  152 (775)
T ss_pred             EEEEEEEEEEEEEEEEecCCCcEEEEEEEecCcCCCC--CcHHHHHHHHHHHHHHHHHHHhCccccCCHH------HHHH
Confidence            9999999999999999999999999999998753321  124577888888888888876544  22211      1111


Q ss_pred             hhcCCCCCCCcchhHHHHHhcCCCC-hHHHhhhccCCCHHHHHHHHHHHHHhhhccccC
Q 011050          436 VEVMMPPSQDPERFSFWLATLSDRR-PSERLELLRIRDTRERIRRGLIFLRAEEQGCRL  493 (494)
Q Consensus       436 ~~~~~~~~~~~~~l~~~ia~~l~l~-~~~kq~LLe~~d~~~Rl~~l~~~L~~~~~~~~~  493 (494)
                          +...+||++++|++|++++++ .++||+|||+.|+.+|+++++.+|.++++.-.+
T Consensus       153 ----~~~~~dp~~Lad~ia~~L~l~~~~eKQ~LLE~~d~~~RL~~l~~lL~~ele~l~l  207 (775)
T TIGR00763       153 ----LEDIDEPGRLADFVAASLQLKEKDELQEVLETVNIEKRLKKALELLKKELELLKL  207 (775)
T ss_pred             ----HhccCCHHHHHHHHHHhcCCCcHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHH
Confidence                345789999999999999999 999999999999999999999999999876544

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.

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

Probab=99.91  E-value=2.2e-24  Score=213.19  Aligned_cols=288  Identities=32%  Similarity=0.587  Sum_probs=218.8

Q ss_pred             cCCCCCCCcccccccccccccCcEEcCCCCcccHhhHHHhccCCCCCCCCCcccccCC---CCCcccccHHHHHHHhChH
Q 011050          193 IHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITP---RTCAVSVTLNSIIQKNFPE  269 (494)
Q Consensus       193 ~~~~~~~~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~~~~---~~~~~~~~l~~~~~~~~p~  269 (494)
                      ..+......+|.|.+|...+..||++||||+||..||...+.....||.||.++...+   ....+|+.+..++.+|+++
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            3444555789999999999999999999999999999998888889999999885211   1223466777888889988


Q ss_pred             HHhhhhhccc-c--cccccCCccccceee-eccCCCccCccccchhHHHHHHHHHhC-CceEEEEEeCCCCCc--ccccc
Q 011050          270 EYAERKSEHD-S--LINFGVDLMPLFVMD-VVIPCQRFPLHIFEPRYRLMVRRIMEG-NHRMGMVIIDPTTGS--VADFA  342 (494)
Q Consensus       270 ~~~~r~~~~~-~--l~~~~~~~lPl~~l~-v~fP~~~~pl~i~~~~~~~~~~~~~~~-~~~~~v~~~~~~~~~--~~~iG  342 (494)
                      ....+...++ .  -........|+|++. +.||....|+++|+++|..|++++++. +.+|++++.+...+.  .+.+|
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            8764433222 1  112334569999876 999999999999999999999999986 678999999876554  78999


Q ss_pred             ceEEEEEeeecCCceEEEEEEeccceEEeeeecCCCeeEEEEEEecCCC---CCCcccHHhHHHHHHHHHHHHHHHHHHH
Q 011050          343 CEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIH---PEGVEDRADLQDLTNNAAEYARLWLRRE  419 (494)
Q Consensus       343 ~~~~I~~~~~~~dg~~~v~~~g~~R~~i~~~~~~~~~~~a~ve~l~d~~---~~~~~~~~~l~~l~~~~~~~~~~~~~~~  419 (494)
                      |+.+|..+..+.||+..+...|..||++.....+++|.+|++++++|.+   ..+.+..+.+..++..+......|....
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            9999999999999999999999999999999999999999999999953   1122212333444444444444454443


Q ss_pred             HHHHHHhHHHHHHHhhhhcCCC-------CCCCcchhHHHHHhcCCCChHHHhhhccCCCHHHHHHHHHHHHHh
Q 011050          420 KESARQDRRRLEKLLNVEVMMP-------PSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRA  486 (494)
Q Consensus       420 ~~~~~~~~~~l~~~~~~~~~~~-------~~~~~~~l~~~ia~~l~l~~~~kq~LLe~~d~~~Rl~~l~~~L~~  486 (494)
                      ......      .+...++.++       ...+...+++|....++++...+-.++.+.++.+|+.....++..
T Consensus       315 ~~~~~~------~~~~~~~~~p~le~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~sl~~~l~~~~~~~t~  382 (398)
T KOG4159|consen  315 ADPMKG------RLLVHFGCMPFLEINFECLESGPAWCWWKTALLPSEARLKSEFLAMRSLKNRLTAIDRELTL  382 (398)
T ss_pred             chhhhh------hhhhcccccccchhchhhhccchHHHHHHHhcCCcHHHHHHHHHhccchhhhhcccchhhhh
Confidence            322221      2222222111       234678889999999999999999999999999999888777654

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

Probab=99.90  E-value=3e-23  Score=213.10  Aligned_cols=193  Identities=21%  Similarity=0.277  Sum_probs=168.6

Q ss_pred             ccccceee--eccCCCccCccccchhHHHHHHHHHhCC-ceEEEEEeCC------CCCccccccceEEEEEeeecCCceE
Q 011050          288 LMPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGN-HRMGMVIIDP------TTGSVADFACEVEITECEPLPDGRF  358 (494)
Q Consensus       288 ~lPl~~l~--v~fP~~~~pl~i~~~~~~~~~~~~~~~~-~~~~v~~~~~------~~~~~~~iG~~~~I~~~~~~~dg~~  358 (494)
                      .+|++|++  |+||+++.|+.+++++++.+++.++.++ +.+++++|..      ..+++|.+||+|+|.++.++|||++
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            58999998  9999999999999999999999999986 7888888852      3458999999999999999999999


Q ss_pred             EEEEEeccceEEeeeecCCCeeEEEEEEecCCCCCCcccHHhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHhhhhc
Q 011050          359 VLEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEV  438 (494)
Q Consensus       359 ~v~~~g~~R~~i~~~~~~~~~~~a~ve~l~d~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  438 (494)
                      +|.++|.+|++|.++...++++.|+++.+++.+.++   ..+++++.+.+...+.++.......+.       +.+..  
T Consensus        89 kvlveg~~R~~I~~~~~~~~~~~a~~~~i~~~~~~~---~~~~~al~~~i~~~~~~~~~l~~~~~~-------e~l~~--  156 (782)
T COG0466          89 KVLVEGLQRVRISKLSDEEEFFEAEIELLPDEPIDE---EREIEALVRSILSEFEEYAKLNKKIPP-------EELQS--  156 (782)
T ss_pred             EEEEEeeeeEEEEeeccCCCceEEEEEecCCCcccc---hhHHHHHHHHHHHHHHHHHHhccCCCH-------HHHHH--
Confidence            999999999999999999999999999999865432   356788999999999999888765443       22222  


Q ss_pred             CCCCCCCcchhHHHHHhcCCCChHHHhhhccCCCHHHHHHHHHHHHHhhhccccC
Q 011050          439 MMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAEEQGCRL  493 (494)
Q Consensus       439 ~~~~~~~~~~l~~~ia~~l~l~~~~kq~LLe~~d~~~Rl~~l~~~L~~~~~~~~~  493 (494)
                       +...++|+.++|.+|++++++.+++|++||+.|+.+||+.++.+|..+++.-.+
T Consensus       157 -~~~i~~~~klad~iaa~l~~~~~~kQ~iLe~~~v~~Rlek~l~~l~~ei~~~~~  210 (782)
T COG0466         157 -LNSIDDPGKLADTIAAHLPLKLEEKQEILETLDVKERLEKLLDLLEKEIDLLQL  210 (782)
T ss_pred             -HhcccchHHHHHHHHHhCCCCHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHH
Confidence             235789999999999999999999999999999999999999999999876544

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

Probab=99.84  E-value=1.2e-20  Score=176.22  Aligned_cols=125  Identities=23%  Similarity=0.392  Sum_probs=120.1

Q ss_pred             hhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHH
Q 011050           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (494)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (494)
                      +....|+.++.+|+.+++.++|++|+..|++||+++|+|+.+|.|||.+|.++|+|                       .
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            56777999999999999999999999999999999999999999999999999999                       9


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhhhh
Q 011050          122 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLI  189 (494)
Q Consensus       122 ~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~  189 (494)
                      .|++|++.|+.+||.+.++|-++|.+|..+|+|++|++.|++||.++|+|...++.++.++..+....
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            99999999999999999999999999999999999999999999999999999999998888876655

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

Probab=99.66  E-value=3.9e-16  Score=155.61  Aligned_cols=117  Identities=29%  Similarity=0.477  Sum_probs=112.0

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      .+...+.+|+.+|+.|||..|+.+|++||..+|+|+.+|+|||.||.+++++                       ..|++
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 011050          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~  185 (494)
                      |++++++++|++.++|++.|.++..+++|++|++.|.+++++||++.++...+.++..++
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            999999999999999999999999999999999999999999999999988888877765

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

Probab=99.64  E-value=1.1e-15  Score=134.40  Aligned_cols=124  Identities=25%  Similarity=0.361  Sum_probs=116.0

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC-----cccccChhHHHHHHHhhhccCCCCCccccccCCCCCch
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD-----PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT  118 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~-----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (494)
                      ...+..++..||.+|+.|+|++|...|+.||++.|..     +.+|.|||.|+++++.+                     
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            4467889999999999999999999999999999975     48999999999999999                     


Q ss_pred             hHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhhhhc
Q 011050          119 HAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIG  190 (494)
Q Consensus       119 ~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~  190 (494)
                        ..|+.++.|||+++|.+-+|+.++|.+|..+.+|++|+.+|.+.+.++|....+++++..+...+...+.
T Consensus       151 --e~aI~dcsKaiel~pty~kAl~RRAeayek~ek~eealeDyKki~E~dPs~~ear~~i~rl~~~i~ernE  220 (271)
T KOG4234|consen  151 --ESAIEDCSKAIELNPTYEKALERRAEAYEKMEKYEEALEDYKKILESDPSRREAREAIARLPPKINERNE  220 (271)
T ss_pred             --HHHHHHHHhhHhcCchhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCcchHHHHHHHHhcCHHHHHHHH
Confidence              9999999999999999999999999999999999999999999999999999999999888877766654

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

Probab=99.64  E-value=6.2e-16  Score=139.47  Aligned_cols=201  Identities=22%  Similarity=0.324  Sum_probs=161.9

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      ..-+..+.++|+.+|....|..||.+|.+||.++|..+.+|.|||.||+++.+|                       +.+
T Consensus         7 s~~a~qlkE~gnk~f~~k~y~~ai~~y~raI~~nP~~~~Y~tnralchlk~~~~-----------------------~~v   63 (284)
T KOG4642|consen    7 SESAEQLKEQGNKCFIPKRYDDAIDCYSRAICINPTVASYYTNRALCHLKLKHW-----------------------EPV   63 (284)
T ss_pred             chHHHHHHhccccccchhhhchHHHHHHHHHhcCCCcchhhhhHHHHHHHhhhh-----------------------hhh
Confidence            344788999999999999999999999999999999999999999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCC-----CCchhHHHHHHHH----------------
Q 011050          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP-----FSNPLQASLQNLE----------------  182 (494)
Q Consensus       124 ~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p-----~~~~~~~~~~~~~----------------  182 (494)
                      ..++++|++++|+.++++|.+|.++...+.|++|+..+.+|+.+--     .-.++.+.+..++                
T Consensus        64 ~~dcrralql~~N~vk~h~flg~~~l~s~~~~eaI~~Lqra~sl~r~~~~~~~~di~~~L~~ak~~~w~v~e~~Ri~Q~~  143 (284)
T KOG4642|consen   64 EEDCRRALQLDPNLVKAHYFLGQWLLQSKGYDEAIKVLQRAYSLLREQPFTFGDDIPKALRDAKKKRWEVSEEKRIRQEL  143 (284)
T ss_pred             hhhHHHHHhcChHHHHHHHHHHHHHHhhccccHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHhCccchhHHHHHHHHh
Confidence            9999999999999999999999999999999999999999965421     1122333322111                


Q ss_pred             -------hh--------hhhhhcc---------------------------------ccCCCCCCCcccccccccccccC
Q 011050          183 -------RT--------TASLIGR---------------------------------RIHGTPERTDDFDCTLCLKLLYE  214 (494)
Q Consensus       183 -------~~--------~~~~~~~---------------------------------~~~~~~~~~~~~~C~iC~~~~~~  214 (494)
                             ..        ++....+                                 .........+.+-|.|.++++.+
T Consensus       144 El~~yl~slie~~~~~~~s~~~~N~~sde~~k~~q~~~~~~~d~~~kel~elf~~v~e~rk~rEvpd~lcgkIt~el~~~  223 (284)
T KOG4642|consen  144 ELHSYLESLIEGDRERELSEWQENGESDEHLKTMQVPIEQDHDHTTKELSELFSKVDEKRKKREVPDYLCGKITLELMRE  223 (284)
T ss_pred             hHHHHHHHHhccchhhHHHHHHHcCCChHHHhhhcchhHHHHHHHHHHHHHHHHHHHHHhccccccchhhhhhhHHhhcC
Confidence                   00        1100100                                 11233345566677899999999


Q ss_pred             cEEcCCCCcccHhhHHHhcc-CCCCCCCCCcccccCCCCCcccccHHHHHHHhChH
Q 011050          215 PITTPCGHSFCRSCLFQSMD-RGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPE  269 (494)
Q Consensus       215 Pv~~~cgh~fc~~Cl~~~~~-~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~p~  269 (494)
                      |+..|.|-+|-+.-|..++. -|...|..|.++.  +.++.+|..++..|..|...
T Consensus       224 pvi~psgIty~ra~I~Ehl~rvghfdpvtr~~Lt--e~q~ipN~alkevIa~fl~~  277 (284)
T KOG4642|consen  224 PVITPSGITYDRADIEEHLQRVGHFDPVTRWPLT--EYQLIPNLALKEVIAAFLKE  277 (284)
T ss_pred             CccCccccchhHHHHHHHHHHhccCCchhcccCC--HHhhccchHHHHHHHHHHHh
Confidence            99999999999999999987 4778999999984  46788999999998877543

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

Probab=99.64  E-value=6.6e-16  Score=154.00  Aligned_cols=113  Identities=35%  Similarity=0.461  Sum_probs=110.1

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      +..++.+||.+|..|||+.|+.+|++||.++|.++.+|+||+.+|.++|+|                       .+|+.|
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 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~  182 (494)
                      +.+.++++|+|+++|.++|.++..+|+|++|+..|.++|+.+|+|+.+...+....
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            99999999999999999999999999999999999999999999999999988887

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

Probab=99.60  E-value=3.8e-15  Score=140.69  Aligned_cols=121  Identities=25%  Similarity=0.332  Sum_probs=113.7

Q ss_pred             hhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHH
Q 011050           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (494)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (494)
                      .....+.+++++||.||++|+|++||.||++++.++|.++..|.|||.+|++++.|                       .
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            45666778899999999999999999999999999999999999999999999999                       9


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhh
Q 011050          122 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (494)
Q Consensus       122 ~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~  185 (494)
                      .|..||..|+.+|..+.+||-++|.+-..+|...+|.++++.+|++.|++.++++.++.+....
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            9999999999999999999999999999999999999999999999999999888877776544

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

Probab=99.59  E-value=5.9e-15  Score=143.70  Aligned_cols=127  Identities=24%  Similarity=0.388  Sum_probs=116.5

Q ss_pred             hhhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC---------------cccccChhHHHHHHHhhhccCCCCC
Q 011050           41 WDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---------------PIVLGNRSSAYIRISQFLKHRPPSA  105 (494)
Q Consensus        41 ~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~---------------~~~~~~~a~~~~~~~~~~~~~~~~~  105 (494)
                      .+....|...++.|+.+|+.|+|..|+..|.+|+..-..+               ..+|.|+|.||.++++|        
T Consensus       202 ~e~l~~A~~~ke~Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~--------  273 (397)
T KOG0543|consen  202 EERLEAADRKKERGNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEY--------  273 (397)
T ss_pred             HHHHHHHHHHHHhhhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhH--------
Confidence            3577888999999999999999999999999998875432               28899999999999999        


Q ss_pred             ccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhh
Q 011050          106 SEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (494)
Q Consensus       106 ~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~  185 (494)
                                     .+|+..++++|.++|+|++|+|++|.||..+++|+.|+.+|+++++++|+|++++..+..+.+.+
T Consensus       274 ---------------~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~k~  338 (397)
T KOG0543|consen  274 ---------------KEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLKQKI  338 (397)
T ss_pred             ---------------HHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHH
Confidence                           99999999999999999999999999999999999999999999999999999999998888877


Q ss_pred             hhhhc
Q 011050          186 ASLIG  190 (494)
Q Consensus       186 ~~~~~  190 (494)
                      +....
T Consensus       339 ~~~~~  343 (397)
T KOG0543|consen  339 REYEE  343 (397)
T ss_pred             HHHHH
Confidence            66553

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

Probab=99.56  E-value=2.9e-14  Score=140.51  Aligned_cols=120  Identities=26%  Similarity=0.415  Sum_probs=105.4

Q ss_pred             chhhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchh
Q 011050           40 PWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH  119 (494)
Q Consensus        40 ~~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (494)
                      ..+..+.|..++.+||.+|+.|+|++||.+|++||+++|+.+.+|+|||.||..+|+|                      
T Consensus       108 ~e~~~k~A~~lK~~GN~~f~~kkY~eAIkyY~~AI~l~p~epiFYsNraAcY~~lgd~----------------------  165 (606)
T KOG0547|consen  108 KEERLKYAAALKTKGNKFFRNKKYDEAIKYYTQAIELCPDEPIFYSNRAACYESLGDW----------------------  165 (606)
T ss_pred             hHHHHHHHHHHHhhhhhhhhcccHHHHHHHHHHHHhcCCCCchhhhhHHHHHHHHhhH----------------------
Confidence            3356777899999999999999999999999999999999999999999999999999                      


Q ss_pred             HHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCC-CchhHHHHHHHH
Q 011050          120 AELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF-SNPLQASLQNLE  182 (494)
Q Consensus       120 ~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~-~~~~~~~~~~~~  182 (494)
                       .+.++++.+|++++|++++|+++++.++..+|++.+|+.+.....-+... |..+..+.+++-
T Consensus       166 -~~Vied~TkALEl~P~Y~KAl~RRA~A~E~lg~~~eal~D~tv~ci~~~F~n~s~~~~~eR~L  228 (606)
T KOG0547|consen  166 -EKVIEDCTKALELNPDYVKALLRRASAHEQLGKFDEALFDVTVLCILEGFQNASIEPMAERVL  228 (606)
T ss_pred             -HHHHHHHHHHhhcCcHHHHHHHHHHHHHHhhccHHHHHHhhhHHHHhhhcccchhHHHHHHHH
Confidence             99999999999999999999999999999999999999998766555443 334444444433

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

Probab=99.50  E-value=5.4e-14  Score=141.61  Aligned_cols=119  Identities=26%  Similarity=0.417  Sum_probs=113.8

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      +..++.+|+.+|..|+|++|+.+|++|++++|+++.+|.+||.+|..+|+|                       .+|+.+
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            356888999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhhh
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  188 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~  188 (494)
                      +++|++++|+++.+|+++|.+|..+|+|++|+.+|+++++++|++..+...+..+...+...
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=99.47  E-value=3e-13  Score=118.34  Aligned_cols=115  Identities=12%  Similarity=0.163  Sum_probs=107.6

Q ss_pred             HHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHH
Q 011050           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (494)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (494)
                      .+...|..++..|+|++|+..|.+++.++|.++.+|.++|.++..+|++                       .+|+..++
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            3567899999999999999999999999999999999999999999999                       99999999


Q ss_pred             HHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhh
Q 011050          129 KLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  186 (494)
Q Consensus       129 ~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~  186 (494)
                      +++.++|+++.+++.+|.++..+|++++|+..|.++++++|++.........+...+.
T Consensus        83 ~Al~l~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~~~~~~~~~~~~l~  140 (144)
T PRK15359         83 HALMLDASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYADASWSEIRQNAQIMVD  140 (144)
T ss_pred             HHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999988877766655443

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

Probab=99.41  E-value=4.1e-13  Score=133.30  Aligned_cols=121  Identities=21%  Similarity=0.309  Sum_probs=116.4

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      .++.+..+|+.+|..++|+.|+..|++||+++|+++.+|.+||.++++.++|                       ..|+.
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            3678889999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhhhh
Q 011050          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLI  189 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~  189 (494)
                      |+.+|++++|.+.++|+++|.+.+.++++.+|+.+|++...+.|+++.+...+...+..+....
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            9999999999999999999999999999999999999999999999999999999998887744

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

Probab=99.41  E-value=6.1e-13  Score=128.91  Aligned_cols=124  Identities=23%  Similarity=0.370  Sum_probs=114.0

Q ss_pred             hHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC----cccccChhHHHHHHHhhhccCCCCCccccccCCCCCch
Q 011050           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD----PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT  118 (494)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (494)
                      ..+....++.+||.+|++|+|..|-.+|+.||.++|++    +.+|.|||.++.++|+.                     
T Consensus       245 ~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl---------------------  303 (486)
T KOG0550|consen  245 MPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRL---------------------  303 (486)
T ss_pred             hHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCc---------------------
Confidence            34556788999999999999999999999999999985    48899999999999999                     


Q ss_pred             hHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhhhhc
Q 011050          119 HAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIG  190 (494)
Q Consensus       119 ~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~  190 (494)
                        .+|+.+++.|+.+||.+.+||.++|.|+..+++|++|+++|++|+++..+ ..++..+.+.+..+.+.+.
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              99999999999999999999999999999999999999999999999888 7888888888887776653

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

Probab=99.35  E-value=6.2e-12  Score=108.65  Aligned_cols=117  Identities=10%  Similarity=0.112  Sum_probs=109.9

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      .+......|..++..|++++|+..|++++..+|.++.++.++|.+++.+|++                       .+|+.
T Consensus        16 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~-----------------------~~A~~   72 (135)
T TIGR02552        16 QLEQIYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEY-----------------------EEAID   72 (135)
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHH-----------------------HHHHH
Confidence            3566889999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhh
Q 011050          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~  185 (494)
                      .+++++..+|+++..++.+|.+|...|++++|+..|+++++++|++.......+.+.+.+
T Consensus        73 ~~~~~~~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~  132 (135)
T TIGR02552        73 AYALAAALDPDDPRPYFHAAECLLALGEPESALKALDLAIEICGENPEYSELKERAEAML  132 (135)
T ss_pred             HHHHHHhcCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999877777766554

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=99.30  E-value=1.7e-11  Score=106.07  Aligned_cols=120  Identities=8%  Similarity=-0.038  Sum_probs=107.3

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      ......+...|..++..|++++|...|.-...++|.++..|+++|.|+-.+|+|                       .+|
T Consensus        32 ~~~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~-----------------------~~A   88 (157)
T PRK15363         32 TQPLNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHW-----------------------GEA   88 (157)
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhH-----------------------HHH
Confidence            455778889999999999999999999999999999999999999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhh
Q 011050          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  186 (494)
Q Consensus       124 ~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~  186 (494)
                      +..|.+|+.++|+++.++++.|.+|..+|+.+.|++.|+.++...-.++.-....++.+..+.
T Consensus        89 I~aY~~A~~L~~ddp~~~~~ag~c~L~lG~~~~A~~aF~~Ai~~~~~~~~~~~l~~~A~~~L~  151 (157)
T PRK15363         89 IYAYGRAAQIKIDAPQAPWAAAECYLACDNVCYAIKALKAVVRICGEVSEHQILRQRAEKMLQ  151 (157)
T ss_pred             HHHHHHHHhcCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHHhccChhHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999987555554444444544443

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

Probab=99.25  E-value=2.3e-11  Score=112.20  Aligned_cols=116  Identities=12%  Similarity=0.154  Sum_probs=104.2

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHH-HHHHh--hhccCCCCCccccccCCCCCchhH
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAY-IRISQ--FLKHRPPSASEYRPLNGLDPTTHA  120 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~-~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~  120 (494)
                      +.+...|...|..+...|++++|+..|.+|+.++|+++.++.++|.++ ...|+  +                       
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            345678999999999999999999999999999999999999999985 66676  5                       


Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHH
Q 011050          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (494)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~  182 (494)
                      .+|...++++++++|+++.+++.+|.++...|+|++|+..|+++++++|.+.+-...++.++
T Consensus       127 ~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~~~~~~r~~~i~~i~  188 (198)
T PRK10370        127 PQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKVLDLNSPRVNRTQLVESIN  188 (198)
T ss_pred             HHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCccHHHHHHHHH
Confidence            89999999999999999999999999999999999999999999999998776555554443

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

Probab=99.24  E-value=3.5e-11  Score=113.93  Aligned_cols=111  Identities=24%  Similarity=0.391  Sum_probs=100.6

Q ss_pred             hHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC----cccccChhHHHHHHHhhhccCCCCCccccccCCCCCch
Q 011050           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD----PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT  118 (494)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (494)
                      .-..|..+++.||.+|+.++|..|+..|+++|.....|    +.+|.|||.|.+.+|+|                     
T Consensus        77 p~E~Aen~KeeGN~~fK~Kryk~A~~~Yt~Glk~kc~D~dlnavLY~NRAAa~~~l~Ny---------------------  135 (390)
T KOG0551|consen   77 PHEQAENYKEEGNEYFKEKRYKDAVESYTEGLKKKCADPDLNAVLYTNRAAAQLYLGNY---------------------  135 (390)
T ss_pred             hHHHHHHHHHHhHHHHHhhhHHHHHHHHHHHHhhcCCCccHHHHHHhhHHHHHHHHHHH---------------------
Confidence            34478999999999999999999999999999986554    48999999999999999                     


Q ss_pred             hHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHH
Q 011050          119 HAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQA  176 (494)
Q Consensus       119 ~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~  176 (494)
                        ..|+.|+.+|+.++|++.+||++-|.|++.+.++.+|+.+.+..++++-+.+.+..
T Consensus       136 --Rs~l~Dcs~al~~~P~h~Ka~~R~Akc~~eLe~~~~a~nw~ee~~~~d~e~K~~~~  191 (390)
T KOG0551|consen  136 --RSALNDCSAALKLKPTHLKAYIRGAKCLLELERFAEAVNWCEEGLQIDDEAKKAIE  191 (390)
T ss_pred             --HHHHHHHHHHHhcCcchhhhhhhhhHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHH
Confidence              99999999999999999999999999999999999999999999888766655443

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

Probab=99.24  E-value=5.1e-11  Score=108.27  Aligned_cols=126  Identities=25%  Similarity=0.315  Sum_probs=108.7

Q ss_pred             hhhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhcc--------CCCCc----------ccccChhHHHHHHHhhhccCC
Q 011050           41 WDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNI--------KPGDP----------IVLGNRSSAYIRISQFLKHRP  102 (494)
Q Consensus        41 ~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~--------~p~~~----------~~~~~~a~~~~~~~~~~~~~~  102 (494)
                      .+..+.+..+.++||.+|+.|+|.+|...|..|+..        .|.++          .++.|.++|+...++|     
T Consensus       172 deKmkav~~l~q~GN~lfk~~~ykEA~~~YreAi~~l~~L~lkEkP~e~eW~eLdk~~tpLllNy~QC~L~~~e~-----  246 (329)
T KOG0545|consen  172 DEKMKAVPVLHQEGNRLFKLGRYKEASSKYREAIICLRNLQLKEKPGEPEWLELDKMITPLLLNYCQCLLKKEEY-----  246 (329)
T ss_pred             hHhhhhhHHHHHhhhhhhhhccHHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHhhhHHHHhHHHHHhhHHHH-----
Confidence            345566678899999999999999999999999653        56554          7899999999999999     


Q ss_pred             CCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCch-hHHHHHHH
Q 011050          103 PSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP-LQASLQNL  181 (494)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~-~~~~~~~~  181 (494)
                                        .++++.+...+..+|.+.+|||++|.++....+..+|.++|.++|+++|.-+. +...++.+
T Consensus       247 ------------------yevleh~seiL~~~~~nvKA~frRakAhaa~Wn~~eA~~D~~~vL~ldpslasvVsrElr~l  308 (329)
T KOG0545|consen  247 ------------------YEVLEHCSEILRHHPGNVKAYFRRAKAHAAVWNEAEAKADLQKVLELDPSLASVVSRELRLL  308 (329)
T ss_pred             ------------------HHHHHHHHHHHhcCCchHHHHHHHHHHHHhhcCHHHHHHHHHHHHhcChhhHHHHHHHHHHH
Confidence                              99999999999999999999999999999999999999999999999997554 45566666


Q ss_pred             Hhhhhhhh
Q 011050          182 ERTTASLI  189 (494)
Q Consensus       182 ~~~~~~~~  189 (494)
                      +..++..+
T Consensus       309 e~r~~ek~  316 (329)
T KOG0545|consen  309 ENRMAEKQ  316 (329)
T ss_pred             HHHHHHhh
Confidence            66555443

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.22  E-value=2.8e-11  Score=119.15  Aligned_cols=105  Identities=19%  Similarity=0.156  Sum_probs=101.6

Q ss_pred             HHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHH
Q 011050           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (494)
                      ..+..+..+|..+...|++++|+..|++|++++|+++.+|.++|.++...|++                       ++|+
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             HHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCc
Q 011050          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (494)
Q Consensus       125 ~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~  172 (494)
                      ..++++++++|++..+|+++|.++...|++++|+..|+++++++|++.
T Consensus       119 ~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~P~~~  166 (296)
T PRK11189        119 EAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDDPNDP  166 (296)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCH
Confidence            999999999999999999999999999999999999999999999987

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

Probab=99.20  E-value=2.2e-11  Score=123.25  Aligned_cols=116  Identities=26%  Similarity=0.272  Sum_probs=89.9

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      +.++...|+.+-..+.|++|+.+|.+|+.+.|+.+.+|.|+|-+|+..|..                       +.|++.
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            456667777777777777777777777777777777777777777777776                       888888


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhh
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~  185 (494)
                      |++|++++|+++.||.++|+++-..|+..+|.+.|++||.+.|+.+++...+.++.+..
T Consensus       309 Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~hadam~NLgni~~E~  367 (966)
T KOG4626|consen  309 YKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPNHADAMNNLGNIYREQ  367 (966)
T ss_pred             HHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh
Confidence            88888888888888888888888888888888888888888888887777666555433

>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=127.99  Aligned_cols=107  Identities=30%  Similarity=0.416  Sum_probs=99.7

Q ss_pred             hHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHH
Q 011050           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (494)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (494)
                      ....+..++.+|+.+|+.|+|++|+..|++++.+.|+ +.+|.|+|.||.++|+|                       ++
T Consensus       123 ~~~~a~~~k~~G~~~~~~~~~~~Ai~~y~~al~~~p~-~~~~~n~a~~~~~l~~~-----------------------~~  178 (615)
T TIGR00990       123 RKKYAAKLKEKGNKAYRNKDFNKAIKLYSKAIECKPD-PVYYSNRAACHNALGDW-----------------------EK  178 (615)
T ss_pred             HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-hHHHHHHHHHHHHhCCH-----------------------HH
Confidence            4455778999999999999999999999999999996 78999999999999999                       99


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCch
Q 011050          123 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (494)
Q Consensus       123 a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~  173 (494)
                      |+++++++++++|++.++|+++|.+|..+|++++|+.+|..++.+++.+..
T Consensus       179 Ai~~~~~al~l~p~~~~a~~~~a~a~~~lg~~~eA~~~~~~~~~~~~~~~~  229 (615)
T TIGR00990       179 VVEDTTAALELDPDYSKALNRRANAYDGLGKYADALLDLTASCIIDGFRNE  229 (615)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccH
Confidence            999999999999999999999999999999999999999988888776553

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

Probab=99.20  E-value=4.6e-11  Score=120.97  Aligned_cols=103  Identities=17%  Similarity=0.138  Sum_probs=72.4

Q ss_pred             HHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHH
Q 011050           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (494)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (494)
                      +....|..+-++|++++|+.+|.+||.++|..+.+|+|+|+.|-.+|+-                       ..|+..+.
T Consensus       390 a~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~~NmGnt~ke~g~v-----------------------~~A~q~y~  446 (966)
T KOG4626|consen  390 AHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADALSNMGNTYKEMGDV-----------------------SAAIQCYT  446 (966)
T ss_pred             hhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHHHHhcchHHHHhhhH-----------------------HHHHHHHH
Confidence            3444555555666666666666666666666666666666666666666                       77777777


Q ss_pred             HHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchh
Q 011050          129 KLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  174 (494)
Q Consensus       129 ~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~  174 (494)
                      +||+.+|.+++||-++|.+|...|+..+|++.|+.||+++|+++++
T Consensus       447 rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA  492 (966)
T KOG4626|consen  447 RAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDA  492 (966)
T ss_pred             HHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchh
Confidence            7777777777777777777777777777777777777777777654

>smart00504 Ubox Modified RING finger domain

Probab=99.20  E-value=1.5e-11  Score=91.34  Aligned_cols=63  Identities=21%  Similarity=0.381  Sum_probs=55.4

Q ss_pred             ccccccccccccCcEEcCCCCcccHhhHHHhccCCCCCCCCCcccccCCCCCcccccHHHHHHHh
Q 011050          202 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKN  266 (494)
Q Consensus       202 ~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~  266 (494)
                      ++.|++|.+.+.+|+.++|||+||+.||..|+..+..||.|+.++.  ..++.+|..+++.++.|
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            4679999999999999999999999999999988788999999873  36788888888887754

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

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

Probab=99.18  E-value=1.3e-11  Score=82.84  Aligned_cols=38  Identities=50%  Similarity=1.238  Sum_probs=30.4

Q ss_pred             cccccccccCcEEcCCCCcccHhhHHHhccCC----CCCCCC
Q 011050          205 CTLCLKLLYEPITTPCGHSFCRSCLFQSMDRG----NKCPLC  242 (494)
Q Consensus       205 C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~~----~~CP~C  242 (494)
                      |+||+++|.+||+++|||+||.+||..++...    ..||.|
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            89999999999999999999999999988743    369987

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

Probab=99.14  E-value=1.2e-10  Score=110.69  Aligned_cols=115  Identities=17%  Similarity=0.282  Sum_probs=107.2

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      ...+...++.|+.++.+|.|..|+.+|..|++.+|++..+++.||..|..+|+-                       ..|
T Consensus        35 ~advekhlElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGks-----------------------k~a   91 (504)
T KOG0624|consen   35 PADVEKHLELGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKS-----------------------KAA   91 (504)
T ss_pred             HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCC-----------------------ccc
Confidence            455788899999999999999999999999999999999999999999999999                       899


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       124 ~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      +.|+.+++++.|++.-|-..+|.++..+|++++|.++|+..|+-+|++....+...++
T Consensus        92 l~Dl~rVlelKpDF~~ARiQRg~vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl  149 (504)
T KOG0624|consen   92 LQDLSRVLELKPDFMAARIQRGVVLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKL  149 (504)
T ss_pred             hhhHHHHHhcCccHHHHHHHhchhhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHH
Confidence            9999999999999999999999999999999999999999999999877665555444

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

Probab=99.13  E-value=3.9e-11  Score=91.49  Aligned_cols=68  Identities=26%  Similarity=0.478  Sum_probs=55.1

Q ss_pred             CcccccccccccccCcEEcCCCCcccHhhHHHhccC-CCCCCCCCcccccCCCCCcccccHHHHHHHhChH
Q 011050          200 TDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR-GNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPE  269 (494)
Q Consensus       200 ~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~-~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~p~  269 (494)
                      .+.|.|+|+.++|.+||.++|||+|++.||..|+.. +..||.|+..+.  ..++.+|..|++.|+.|...
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            468999999999999999999999999999999998 778999999874  36889999999999887543

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 ....

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=99.05  E-value=7.1e-10  Score=93.02  Aligned_cols=110  Identities=14%  Similarity=0.082  Sum_probs=100.1

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC---cccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      ...++..|..++..|+|++|+..|.+++...|++   ..++..+|.+++..|++                       +.|
T Consensus         2 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----------------------~~A   58 (119)
T TIGR02795         2 EEAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKY-----------------------ADA   58 (119)
T ss_pred             cHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccH-----------------------HHH
Confidence            3567889999999999999999999999999876   46888999999999999                       999


Q ss_pred             HHHHHHHhhccccc---hHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHH
Q 011050          124 LKDAEKLLNLQSNS---MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQ  179 (494)
Q Consensus       124 ~~~~~~al~l~p~~---~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~  179 (494)
                      +..+++++..+|++   +.+++.+|.++..+|++++|+..+.++++..|++..+..+.+
T Consensus        59 ~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~  117 (119)
T TIGR02795        59 AKAFLAVVKKYPKSPKAPDALLKLGMSLQELGDKEKAKATLQQVIKRYPGSSAAKLAQK  117 (119)
T ss_pred             HHHHHHHHHHCCCCCcccHHHHHHHHHHHHhCChHHHHHHHHHHHHHCcCChhHHHHHh
Confidence            99999999999885   678999999999999999999999999999999987766544

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.

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

Probab=99.02  E-value=2.4e-09  Score=111.05  Aligned_cols=197  Identities=17%  Similarity=0.207  Sum_probs=140.1

Q ss_pred             Cccccceee--eccCCCccCccccchhHHHHHHHHHhC-CceEEEEEeCCCCC------c--------c-----------
Q 011050          287 DLMPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEG-NHRMGMVIIDPTTG------S--------V-----------  338 (494)
Q Consensus       287 ~~lPl~~l~--v~fP~~~~pl~i~~~~~~~~~~~~~~~-~~~~~v~~~~~~~~------~--------~-----------  338 (494)
                      ..+|++|++  ++|||-..++.+..++..+++++.+.. ...+|+++.+++.+      .        .           
T Consensus        67 ~~l~~Lpi~~~pL~PGf~~~i~v~~~~~~~~i~~~l~~~qpyiG~fl~kdd~~~~~~~t~~~~vyi~~~~~~~~~~~~~l  146 (906)
T KOG2004|consen   67 PRLPALPITRGPLFPGFYKRIEVKSPKVLALIREKLRRQQPYIGAFLLKDDSSGDSVITSINEVYILEVFPGKDKLRMVL  146 (906)
T ss_pred             cccceeeccCCCcCCCceeEEEecCHHHHHHHHHHHHhcCcccceeeeccCCCCCcceeeccccceeeeecCCcchhhhh
Confidence            358899986  999999999999999999999998875 45678887743211      0        0           


Q ss_pred             --cc---ccceEEEEEeeecCCceEEEEEEeccceEEeeeecCCC--eeEEEEEEecCCCCCCcccHHhHHHHHHHHHHH
Q 011050          339 --AD---FACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDG--YRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEY  411 (494)
Q Consensus       339 --~~---iG~~~~I~~~~~~~dg~~~v~~~g~~R~~i~~~~~~~~--~~~a~ve~l~d~~~~~~~~~~~l~~l~~~~~~~  411 (494)
                        +.   +++++.|.+......+.+.+.+.|.+|+++.+...+.+  .+..+++.+.+.+.+..   +++.++...+...
T Consensus       147 ~~hRr~~~~~~~~~~~g~~~~~~~~~~~~~~~~r~~i~e~~~e~~~~vl~v~v~~v~~e~~~~~---~~~ka~~~ei~~t  223 (906)
T KOG2004|consen  147 YPHRRIRITELAPISEGKEDAEVEYSLLVTGLSRLNITEMKEEKEAEVLSVEVENVKDEPFKKD---EEIKALTSEILKT  223 (906)
T ss_pred             hhhhheeeeeeccccccccccccceeecccccccccchhhhccccCCceeeeeecccCCccCcc---hHHHHHHHHHHHH
Confidence              11   11122222211113567778888889999988776533  45566666665544422   3377888888888


Q ss_pred             HHHHHHHHHHHHHHhHHHHHHHhhhhcCCCCCCCcchhHHHHHhcCCCChHHHhhhccCCCHHHHHHHHHHHHHhhhccc
Q 011050          412 ARLWLRREKESARQDRRRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAEEQGC  491 (494)
Q Consensus       412 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~ia~~l~l~~~~kq~LLe~~d~~~Rl~~l~~~L~~~~~~~  491 (494)
                      +.+++..+.-......    .+..    .....+|..|+|+.|+....+..+.|++|+..|+.+||++.+.+|.++.++.
T Consensus       224 ~rdii~~n~l~r~~v~----~~~~----~~~~~~~~~LaD~~aai~~~~~~elq~vL~~~di~~Rl~~al~llkke~e~~  295 (906)
T KOG2004|consen  224 LRDIIAVNSLFREQVA----TLSQ----LIVEDNPIKLADFGAAISGAEFHELQEVLEETDIEKRLEKALELLKKELELA  295 (906)
T ss_pred             HHHHHHhhHHHHHHHH----HHHH----HhcccChhHHHHHHHHHhccCHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHH
Confidence            8877776543332211    1211    2346889999999999999999999999999999999999999999999887


Q ss_pred             cCC
Q 011050          492 RLQ  494 (494)
Q Consensus       492 ~~~  494 (494)
                      +||
T Consensus       296 klq  298 (906)
T KOG2004|consen  296 KLQ  298 (906)
T ss_pred             HHH
Confidence            765

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

Probab=99.01  E-value=1.3e-09  Score=98.81  Aligned_cols=108  Identities=19%  Similarity=0.137  Sum_probs=100.4

Q ss_pred             hhhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhH
Q 011050           41 WDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA  120 (494)
Q Consensus        41 ~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (494)
                      .+....+....+.|..|+..||+..|...+.+||+.+|++..+|..||..|.+.|+.                       
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            445556788899999999999999999999999999999999999999999999999                       


Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCc
Q 011050          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (494)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~  172 (494)
                      +.|-+.|++|++++|++...+.+.|.-++..|+|++|...|++|+. +|...
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 56543

>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=3.2e-10  Score=85.75  Aligned_cols=67  Identities=27%  Similarity=0.461  Sum_probs=64.7

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHH-hhhccCCCCCccccccCCCCCchhHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRIS-QFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (494)
                      ++..+...|..++..|+|++|+..|++|++++|+++.+|.++|.+|..+| ++                       .+|+
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            46789999999999999999999999999999999999999999999999 89                       9999


Q ss_pred             HHHHHHhhccc
Q 011050          125 KDAEKLLNLQS  135 (494)
Q Consensus       125 ~~~~~al~l~p  135 (494)
                      .+++++++++|
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

...

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=98.99  E-value=3.7e-09  Score=83.27  Aligned_cols=99  Identities=28%  Similarity=0.447  Sum_probs=93.8

Q ss_pred             HHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHH
Q 011050           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (494)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (494)
                      .+...|..++..|++++|+..+.++++..|.+..++..+|.++...+++                       ++|+..++
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 011050          129 KLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF  170 (494)
Q Consensus       129 ~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~  170 (494)
                      +++...|.+..+++.+|.++...|++++|...+.++++.+|.
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~  100 (100)
T cd00189          59 KALELDPDNAKAYYNLGLAYYKLGKYEEALEAYEKALELDPN  100 (100)
T ss_pred             HHHhCCCcchhHHHHHHHHHHHHHhHHHHHHHHHHHHccCCC
Confidence            999999999999999999999999999999999999988874

>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=98.96  E-value=5.8e-10  Score=84.31  Aligned_cols=67  Identities=22%  Similarity=0.298  Sum_probs=64.2

Q ss_pred             CcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHH-HHHHHH
Q 011050           80 DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLE-RYDMAR  158 (494)
Q Consensus        80 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~-~~~~A~  158 (494)
                      ++.+|.++|.+++..++|                       ++|+..++++++++|+++.+|+++|.+|..+| ++++|+
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            456788999999999999                       99999999999999999999999999999999 899999


Q ss_pred             HHHHccccCCC
Q 011050          159 DAILSGLQVDP  169 (494)
Q Consensus       159 ~~~~~al~l~p  169 (494)
                      .+++++++++|
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

...

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

Probab=98.96  E-value=1.8e-09  Score=86.68  Aligned_cols=87  Identities=21%  Similarity=0.358  Sum_probs=72.8

Q ss_pred             cccceee--eccCCCccCccccchhHHHHHHHHHhCCc--eEEEEEeCCCCCccccccceEEEEEeeecCCceEEEEEEe
Q 011050          289 MPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGNH--RMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIES  364 (494)
Q Consensus       289 lPl~~l~--v~fP~~~~pl~i~~~~~~~~~~~~~~~~~--~~~v~~~~~~~~~~~~iG~~~~I~~~~~~~dg~~~v~~~g  364 (494)
                      +|++|++  |+|||+..|+.+++++++.++++++++++  .++++++++..     .+                      
T Consensus         2 lpviPl~~~vlfP~~~~pl~v~~~~~i~~i~~~~~~~~~~~i~~~~~~~~~-----~~----------------------   54 (92)
T smart00464        2 LPLLPIRRRPLFPGFVLPIPVKRPKSVAAIKEALRRSQPYVIVFLLQDDPT-----ET----------------------   54 (92)
T ss_pred             ceEEEcCCCccCCCceEEEEeCCHHHHHHHHHHHhcCCCeEEEEEEccCCC-----CC----------------------
Confidence            6899997  99999999999999999999999998776  44554443221     11                      


Q ss_pred             ccceEEeeeecCCCeeEEEEEEecCCCCCCcccHHhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHhhhhcCCCCCC
Q 011050          365 RRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVMMPPSQ  444 (494)
Q Consensus       365 ~~R~~i~~~~~~~~~~~a~ve~l~d~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~  444 (494)
                                                                                                      
T Consensus        55 --------------------------------------------------------------------------------   54 (92)
T smart00464       55 --------------------------------------------------------------------------------   54 (92)
T ss_pred             --------------------------------------------------------------------------------
Confidence                                                                                            


Q ss_pred             CcchhHHHHHhcCCCChHHHhhhccCCCHHHHHHHHHHH
Q 011050          445 DPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIF  483 (494)
Q Consensus       445 ~~~~l~~~ia~~l~l~~~~kq~LLe~~d~~~Rl~~l~~~  483 (494)
                       |..++||+|+.++++.++||+|||+.|+.+|++.+++|
T Consensus        55 -~~~~~~~~a~~~~~~~~~~q~lL~~~~~~~Rl~~~~~~   92 (92)
T smart00464       55 -PEPLSDTIAALMPLELHEKQELLELEGTNKRLEKVIKL   92 (92)
T ss_pred             -chhhhHHHhhcccccHHHHHHHHhcccHHHHHHHHhcC
Confidence             24589999999999999999999999999999998764

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

>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=98.96  E-value=2.3e-09  Score=116.52  Aligned_cols=114  Identities=17%  Similarity=0.159  Sum_probs=104.4

Q ss_pred             HHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHH
Q 011050           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (494)
                      ..+..+...|..++..|++++|+..|.++++++|++...|.++|.++..+|++                       ++|+
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            34456778899999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       125 ~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      ..++++++++|+++.+|+.+|.+|..+|++++|+.+|+++++++|++..++..+..+
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            999999999999999999999999999999999999999999999988766554443

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=98.96  E-value=4.3e-10  Score=99.87  Aligned_cols=49  Identities=37%  Similarity=0.943  Sum_probs=42.3

Q ss_pred             CCcccccccccccccCcEEcCCCCcccHhhHHHhccC----------------CCCCCCCCcccc
Q 011050          199 RTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR----------------GNKCPLCRAVLF  247 (494)
Q Consensus       199 ~~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~----------------~~~CP~Cr~~~~  247 (494)
                      ....+.|+||++.+.+|+.++|||.||+.||..|+..                ...||.||..+.
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            3467999999999999999999999999999998642                246999999874

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.94  E-value=5.9e-10  Score=111.02  Aligned_cols=67  Identities=25%  Similarity=0.614  Sum_probs=58.9

Q ss_pred             CCCcccccccccccccCcEEcCCCCcccHhhHHHhccCCCCCCCCCcccccCCCCCcccccHHHHHHHh
Q 011050          198 ERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKN  266 (494)
Q Consensus       198 ~~~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~  266 (494)
                      .....+.|+||.+.+.+|+.++|||+||..||..++.....||.|+..+.  ...+..|..+.++++.|
T Consensus        22 ~Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~--~~~Lr~N~~L~~iVe~~   88 (397)
T TIGR00599        22 PLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQ--ESKLRSNWLVSEIVESF   88 (397)
T ss_pred             ccccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCCCCCCCCCCccc--cccCccchHHHHHHHHH
Confidence            44567899999999999999999999999999999987778999999874  24678899999999876

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

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

Probab=98.94  E-value=4e-10  Score=101.68  Aligned_cols=50  Identities=40%  Similarity=1.007  Sum_probs=44.2

Q ss_pred             CCCcccccccccccccCcEEcCCCCcccHhhHHHhccC---CCCCCCCCcccc
Q 011050          198 ERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR---GNKCPLCRAVLF  247 (494)
Q Consensus       198 ~~~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~---~~~CP~Cr~~~~  247 (494)
                      .....|+|.||++.-++||.+.|||.|||.||.+|+..   ...||+|+..+.
T Consensus        43 ~~~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs   95 (230)
T KOG0823|consen   43 RDGGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVS   95 (230)
T ss_pred             CCCCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccc
Confidence            35678999999999999999999999999999999973   345999999873

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

Probab=98.93  E-value=5.1e-10  Score=103.94  Aligned_cols=49  Identities=39%  Similarity=0.903  Sum_probs=44.7

Q ss_pred             CCcccccccccccccCcEEcCCCCcccHhhHHHhccCCCCCCCCCcccc
Q 011050          199 RTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (494)
Q Consensus       199 ~~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~  247 (494)
                      ......|.+|++..++|.-+||||.||++||..|......||+||..+.
T Consensus       236 ~~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~  284 (293)
T KOG0317|consen  236 PEATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSEKAECPLCREKFQ  284 (293)
T ss_pred             CCCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHccccCCCcccccCC
Confidence            4455899999999999999999999999999999998888999999874

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

Probab=98.93  E-value=6.8e-09  Score=103.11  Aligned_cols=106  Identities=20%  Similarity=0.222  Sum_probs=83.1

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      ...+..+..+|.-+|-.|++-.|...++.+|.++|.+..+|..||.+|+...+-                       .+.
T Consensus       323 e~~A~al~~~gtF~fL~g~~~~a~~d~~~~I~l~~~~~~lyI~~a~~y~d~~~~-----------------------~~~  379 (606)
T KOG0547|consen  323 EYMAEALLLRGTFHFLKGDSLGAQEDFDAAIKLDPAFNSLYIKRAAAYADENQS-----------------------EKM  379 (606)
T ss_pred             HHHHHHHHHhhhhhhhcCCchhhhhhHHHHHhcCcccchHHHHHHHHHhhhhcc-----------------------HHH
Confidence            344667777788888888888888888888888887777777888888777776                       777


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCc
Q 011050          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (494)
Q Consensus       124 ~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~  172 (494)
                      ..++.+|.++||+++..||.+|+.++.+++|++|+++|++++.++|++.
T Consensus       380 ~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~pe~~  428 (606)
T KOG0547|consen  380 WKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIADFQKAISLDPENA  428 (606)
T ss_pred             HHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhcChhhh
Confidence            7788888888888888888888888888888888888888888888765

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

Probab=98.92  E-value=2.1e-09  Score=110.51  Aligned_cols=117  Identities=14%  Similarity=0.183  Sum_probs=107.2

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      -+.|-..||.|-.+++++.||.+|.+|+++||+++.+|.-.|--+....+|                       +.|..-
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            467888999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhh
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  186 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~  186 (494)
                      |++|+..+|.+..|||-+|.+|.++++++.|.-+|++|+.+||.|..+.--+.....+++
T Consensus       478 fr~Al~~~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k  537 (638)
T KOG1126|consen  478 FRKALGVDPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLK  537 (638)
T ss_pred             HHhhhcCCchhhHHHHhhhhheeccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhh
Confidence            999999999999999999999999999999999999999999999976555544444443

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

Probab=98.92  E-value=3.8e-10  Score=106.04  Aligned_cols=65  Identities=25%  Similarity=0.648  Sum_probs=57.7

Q ss_pred             CcccccccccccccCcEEcCCCCcccHhhHHHhccCCCCCCCCCcccccCCCCCcccccHHHHHHHh
Q 011050          200 TDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKN  266 (494)
Q Consensus       200 ~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~  266 (494)
                      ...+.|-||+++|..|+.+||||+||.-||..++.....||.|+.++.  ...++.|+.+.++++.|
T Consensus        21 D~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~--Es~Lr~n~il~Eiv~S~   85 (442)
T KOG0287|consen   21 DDLLRCGICFEYFNIPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVT--ESDLRNNRILDEIVKSL   85 (442)
T ss_pred             HHHHHHhHHHHHhcCceeccccchHHHHHHHHHhccCCCCCceecccc--hhhhhhhhHHHHHHHHH
Confidence            355789999999999999999999999999999999999999999874  34778888999988865

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

Probab=98.92  E-value=5.4e-10  Score=79.75  Aligned_cols=58  Identities=29%  Similarity=0.788  Sum_probs=32.5

Q ss_pred             ccccccccccccCcEE-cCCCCcccHhhHHHhccCCCCCCCCCcccccCCCCCcccccHHHHH
Q 011050          202 DFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSII  263 (494)
Q Consensus       202 ~~~C~iC~~~~~~Pv~-~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~  263 (494)
                      .+.|++|.+++++||. ..|.|.||+.|+.+.+.  ..||+|+.+.  ..+++..|+.|++++
T Consensus         7 lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Pa--w~qD~~~NrqLd~~i   65 (65)
T PF14835_consen    7 LLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIG--SECPVCHTPA--WIQDIQINRQLDSMI   65 (65)
T ss_dssp             TTS-SSS-S--SS-B---SSS--B-TTTGGGGTT--TB-SSS--B---S-SS----HHHHHHH
T ss_pred             hcCCcHHHHHhcCCceeccCccHHHHHHhHHhcC--CCCCCcCChH--HHHHHHhhhhhhccC
Confidence            4679999999999986 59999999999988654  4699999986  347899999998875

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

Probab=98.91  E-value=9.5e-09  Score=84.76  Aligned_cols=110  Identities=19%  Similarity=0.160  Sum_probs=97.9

Q ss_pred             chhhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchh
Q 011050           40 PWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH  119 (494)
Q Consensus        40 ~~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (494)
                      ....++....+..+|..+...|+.+.|+..|.+|+.+.|.++++|.|||+++.-.|+-                      
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            3445566678888999999999999999999999999999999999999999999998                      


Q ss_pred             HHHHHHHHHHHhhcccc----chHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCc
Q 011050          120 AELALKDAEKLLNLQSN----SMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (494)
Q Consensus       120 ~~~a~~~~~~al~l~p~----~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~  172 (494)
                       .+|++|+++|+++...    -..+|..+|..|..+|+-++|..+|..|-++-..+.
T Consensus        94 -e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~dd~AR~DFe~AA~LGS~FA  149 (175)
T KOG4555|consen   94 -EEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGNDDAARADFEAAAQLGSKFA  149 (175)
T ss_pred             -HHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCchHHHHHhHHHHHHhCCHHH
Confidence             9999999999999754    346899999999999999999999999988765544

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

Probab=98.89  E-value=1.1e-09  Score=111.01  Aligned_cols=100  Identities=17%  Similarity=0.162  Sum_probs=94.1

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (494)
                      .-....|..|+-.|+|++|+.+|+.||..+|+|..+|..+|..+..-.+.                       .+|+..|
T Consensus       431 dvQ~~LGVLy~ls~efdraiDcf~~AL~v~Pnd~~lWNRLGAtLAN~~~s-----------------------~EAIsAY  487 (579)
T KOG1125|consen  431 DVQSGLGVLYNLSGEFDRAVDCFEAALQVKPNDYLLWNRLGATLANGNRS-----------------------EEAISAY  487 (579)
T ss_pred             hHHhhhHHHHhcchHHHHHHHHHHHHHhcCCchHHHHHHhhHHhcCCccc-----------------------HHHHHHH
Confidence            33445788899999999999999999999999999999999999888888                       9999999


Q ss_pred             HHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCC
Q 011050          128 EKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF  170 (494)
Q Consensus       128 ~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~  170 (494)
                      ++|++|.|.++.+.|++|.+++.+|.|++|+.+|..||.+.+.
T Consensus       488 ~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq~k  530 (579)
T KOG1125|consen  488 NRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSMQRK  530 (579)
T ss_pred             HHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHhhhc
Confidence            9999999999999999999999999999999999999999876

>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=98.89  E-value=1.1e-09  Score=104.57  Aligned_cols=108  Identities=18%  Similarity=0.293  Sum_probs=101.7

Q ss_pred             chhhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchh
Q 011050           40 PWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH  119 (494)
Q Consensus        40 ~~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (494)
                      +.+....+...+.++..++..|+++.||.+|+.||.++|..+.+|.+||.+++++++.                      
T Consensus       107 Tee~~eqa~e~k~~A~eAln~G~~~~ai~~~t~ai~lnp~~a~l~~kr~sv~lkl~kp----------------------  164 (377)
T KOG1308|consen  107 TEEMMDQANDKKVQASEALNDGEFDTAIELFTSAIELNPPLAILYAKRASVFLKLKKP----------------------  164 (377)
T ss_pred             hHHHHHHHHHHHHHHHHHhcCcchhhhhcccccccccCCchhhhcccccceeeeccCC----------------------
Confidence            3456777888899999999999999999999999999999999999999999999999                      


Q ss_pred             HHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCC
Q 011050          120 AELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF  170 (494)
Q Consensus       120 ~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~  170 (494)
                       ..|++||..|+.++|+..+.|-++|.+...+|++++|..++..+.+++=+
T Consensus       165 -~~airD~d~A~ein~Dsa~~ykfrg~A~rllg~~e~aa~dl~~a~kld~d  214 (377)
T KOG1308|consen  165 -NAAIRDCDFAIEINPDSAKGYKFRGYAERLLGNWEEAAHDLALACKLDYD  214 (377)
T ss_pred             -chhhhhhhhhhccCcccccccchhhHHHHHhhchHHHHHHHHHHHhcccc
Confidence             99999999999999999999999999999999999999999999887643

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=98.88  E-value=6.1e-09  Score=116.85  Aligned_cols=112  Identities=9%  Similarity=-0.057  Sum_probs=102.1

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      ...+...|..+.+.|++++|+..|.+++.++|+++.++.++|.++...|++                       ++|+..
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            355677888999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      ++++++++|+++.+++.+|.+|..+|++++|+..|+++++++|++..+......+
T Consensus       666 l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~P~~a~i~~~~g~~  720 (987)
T PRK09782        666 LERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDIDNQALITPLTPEQ  720 (987)
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCchhhhhhhHH
Confidence            9999999999999999999999999999999999999999999998776544433

>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=98.87  E-value=1.2e-09  Score=72.44  Aligned_cols=38  Identities=47%  Similarity=1.351  Sum_probs=33.4

Q ss_pred             cccccccccCc-EEcCCCCcccHhhHHHhccCCCCCCCC
Q 011050          205 CTLCLKLLYEP-ITTPCGHSFCRSCLFQSMDRGNKCPLC  242 (494)
Q Consensus       205 C~iC~~~~~~P-v~~~cgh~fc~~Cl~~~~~~~~~CP~C  242 (494)
                      |+||++.+.+| +.++|||+||..|+..++..+..||.|
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            89999999999 578999999999999999888889987

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

Probab=98.86  E-value=1.8e-09  Score=85.07  Aligned_cols=82  Identities=27%  Similarity=0.431  Sum_probs=73.9

Q ss_pred             HhcChHHHHHHHHHHhccCCC--CcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhcccc
Q 011050           59 RESNFEEAISNYSRANNIKPG--DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSN  136 (494)
Q Consensus        59 ~~~~~~~Ai~~y~~al~~~p~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~  136 (494)
                      .+|+|++|+..|.++++.+|.  +..++.++|.||++.|+|                       .+|+..+++ ...++.
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  567788899999999999                       999999999 999999


Q ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHcc
Q 011050          137 SMKSHLLKANALILLERYDMARDAILSG  164 (494)
Q Consensus       137 ~~~a~~~~g~~~~~~~~~~~A~~~~~~a  164 (494)
                      ++..++.+|.++..+|+|++|+..|.+|
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            9999999999999999999999999864

>PRK15331 chaperone protein SicA; Provisional

Probab=98.86  E-value=1.8e-08  Score=87.69  Aligned_cols=117  Identities=12%  Similarity=0.045  Sum_probs=104.5

Q ss_pred             HHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHH
Q 011050           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (494)
                      .........|..+|..|++++|...|+-...++|.++..+.++|.|+..+++|                       ++|+
T Consensus        35 ~~le~iY~~Ay~~y~~Gk~~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k~y-----------------------~~Ai   91 (165)
T PRK15331         35 DMMDGLYAHAYEFYNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQF-----------------------QKAC   91 (165)
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHH-----------------------HHHH
Confidence            34678889999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhh
Q 011050          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (494)
Q Consensus       125 ~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~  185 (494)
                      ..|..|..++++++..+|..|.||..+|+.+.|+..|..++. .|.+..++..-+.+-+.+
T Consensus        92 ~~Y~~A~~l~~~dp~p~f~agqC~l~l~~~~~A~~~f~~a~~-~~~~~~l~~~A~~~L~~l  151 (165)
T PRK15331         92 DLYAVAFTLLKNDYRPVFFTGQCQLLMRKAAKARQCFELVNE-RTEDESLRAKALVYLEAL  151 (165)
T ss_pred             HHHHHHHHcccCCCCccchHHHHHHHhCCHHHHHHHHHHHHh-CcchHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999998 577666555444333333

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.84  E-value=1.1e-08  Score=92.47  Aligned_cols=107  Identities=18%  Similarity=0.211  Sum_probs=96.7

Q ss_pred             hhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC---cccccChhHHHHHHHhhhccCCCCCccccccCCCCCch
Q 011050           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT  118 (494)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (494)
                      .....+..+...|..+...|+|++|+.+|.+++...|+.   ..++.++|.++..+|++                     
T Consensus        30 ~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~---------------------   88 (172)
T PRK02603         30 KKAKEAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEH---------------------   88 (172)
T ss_pred             cHhhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCH---------------------
Confidence            345567888999999999999999999999999887764   46899999999999999                     


Q ss_pred             hHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHH--------------HHHHHHHHHccccCCCCC
Q 011050          119 HAELALKDAEKLLNLQSNSMKSHLLKANALILLER--------------YDMARDAILSGLQVDPFS  171 (494)
Q Consensus       119 ~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~--------------~~~A~~~~~~al~l~p~~  171 (494)
                        ++|+..+.++++.+|++..++..+|.+|...|+              +++|++.++++++++|++
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              999999999999999999999999999988776              688899999999999887

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

Probab=98.84  E-value=1.7e-08  Score=99.67  Aligned_cols=121  Identities=20%  Similarity=0.156  Sum_probs=97.2

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      ...|...|-.|...++-..|+..|++|++++|.|..+|+++|++|.-++-.                       -=|+-.
T Consensus       364 ~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~p~DyRAWYGLGQaYeim~Mh-----------------------~YaLyY  420 (559)
T KOG1155|consen  364 LSAWTLMGHEYVEMKNTHAAIESYRRAVDINPRDYRAWYGLGQAYEIMKMH-----------------------FYALYY  420 (559)
T ss_pred             hHHHHHhhHHHHHhcccHHHHHHHHHHHhcCchhHHHHhhhhHHHHHhcch-----------------------HHHHHH
Confidence            456667788888888888888888888888888888888888888888776                       668888


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhhhhc
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIG  190 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~  190 (494)
                      +++|+.+.|++...|..+|.||..+++.++|+..|.+|+...-.+..+...+.++.+.+....+
T Consensus       421 fqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d~~e  484 (559)
T KOG1155|consen  421 FQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKDLNE  484 (559)
T ss_pred             HHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhHHH
Confidence            8888888888888888888888888888888888888888877777776667666666655443

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.83  E-value=8.5e-09  Score=90.15  Aligned_cols=93  Identities=15%  Similarity=0.085  Sum_probs=83.6

Q ss_pred             HHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHH
Q 011050           67 ISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKAN  146 (494)
Q Consensus        67 i~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~  146 (494)
                      ...|.+|++++|++   +.++|.++...|++                       .+|+..+++++.++|.+..+|+.+|.
T Consensus        13 ~~~~~~al~~~p~~---~~~~g~~~~~~g~~-----------------------~~A~~~~~~al~~~P~~~~a~~~lg~   66 (144)
T PRK15359         13 EDILKQLLSVDPET---VYASGYASWQEGDY-----------------------SRAVIDFSWLVMAQPWSWRAHIALAG   66 (144)
T ss_pred             HHHHHHHHHcCHHH---HHHHHHHHHHcCCH-----------------------HHHHHHHHHHHHcCCCcHHHHHHHHH
Confidence            45799999999986   56789999999999                       99999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhh
Q 011050          147 ALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (494)
Q Consensus       147 ~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~  185 (494)
                      ++..+|++++|+..|.++++++|++..++..+..+-..+
T Consensus        67 ~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~~~  105 (144)
T PRK15359         67 TWMMLKEYTTAINFYGHALMLDASHPEPVYQTGVCLKMM  105 (144)
T ss_pred             HHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHc
Confidence            999999999999999999999999998877665544433

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.82  E-value=1.5e-08  Score=96.33  Aligned_cols=117  Identities=15%  Similarity=0.167  Sum_probs=104.8

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc---ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhH
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA  120 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (494)
                      ...+..++..|..++..|+|++|+..|.+++...|+++   .++..+|.+++..+++                       
T Consensus        30 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~-----------------------   86 (235)
T TIGR03302        30 EWPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDY-----------------------   86 (235)
T ss_pred             cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCH-----------------------
Confidence            44567889999999999999999999999999999876   5789999999999999                       


Q ss_pred             HHHHHHHHHHhhccccchH---HHHHHHHHHHHH--------HHHHHHHHHHHccccCCCCCchhHHHHHHHHh
Q 011050          121 ELALKDAEKLLNLQSNSMK---SHLLKANALILL--------ERYDMARDAILSGLQVDPFSNPLQASLQNLER  183 (494)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~---a~~~~g~~~~~~--------~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~  183 (494)
                      ++|+..++++++.+|+++.   +++.+|.++...        |++++|+..|+++++.+|++......+..+..
T Consensus        87 ~~A~~~~~~~l~~~p~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~~~~  160 (235)
T TIGR03302        87 AEAIAAADRFIRLHPNHPDADYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPNSEYAPDAKKRMDY  160 (235)
T ss_pred             HHHHHHHHHHHHHCcCCCchHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCCChhHHHHHHHHHH
Confidence            9999999999999998876   799999999876        89999999999999999999877666654433

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).

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

Probab=98.82  E-value=6.6e-09  Score=106.92  Aligned_cols=124  Identities=18%  Similarity=0.184  Sum_probs=106.1

Q ss_pred             hHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHH
Q 011050           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (494)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (494)
                      ..++..+|+..|..|.++++|+.|.-+|.+|++++|.+..+....|..+.++|+.                       ++
T Consensus       485 ~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~-----------------------d~  541 (638)
T KOG1126|consen  485 DPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRK-----------------------DK  541 (638)
T ss_pred             CchhhHHHHhhhhheeccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhh-----------------------hH
Confidence            3455678888888888888888888888888888888888888888888888888                       89


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhhhh
Q 011050          123 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLI  189 (494)
Q Consensus       123 a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~  189 (494)
                      |+..+++|+-+||.++-..|.+|.++..+++|.+|+..+++.-++.|++..+...+.++-+.+.+..
T Consensus       542 AL~~~~~A~~ld~kn~l~~~~~~~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~  608 (638)
T KOG1126|consen  542 ALQLYEKAIHLDPKNPLCKYHRASILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTD  608 (638)
T ss_pred             HHHHHHHHHhcCCCCchhHHHHHHHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccch
Confidence            9999999999999999999999999999999999999999988889998888888877777765544

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.80  E-value=1.6e-08  Score=99.67  Aligned_cols=139  Identities=14%  Similarity=0.041  Sum_probs=96.4

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCC---------CCccccc------
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPP---------SASEYRP------  110 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~---------~~~~~~~------  110 (494)
                      .+..+...|..+...|+|++|+..|.+|++++|++..+|.++|.+++..|++-++...         .+.....      
T Consensus        97 ~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~P~~~~~~~~~~l~~  176 (296)
T PRK11189         97 MADAYNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDDPNDPYRALWLYLAE  176 (296)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            3567888999999999999999999999999999999999999999887776433210         0100000      


Q ss_pred             ---------------cCCCCCchhH-------------HHHHHHH----HHHhhccccchHHHHHHHHHHHHHHHHHHHH
Q 011050          111 ---------------LNGLDPTTHA-------------ELALKDA----EKLLNLQSNSMKSHLLKANALILLERYDMAR  158 (494)
Q Consensus       111 ---------------~~~~~~~~~~-------------~~a~~~~----~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~  158 (494)
                                     ....++..+.             .+++..+    +.+++++|....+|+.+|.+|..+|++++|+
T Consensus       177 ~~~~~~~A~~~l~~~~~~~~~~~~~~~~~~~~lg~~~~~~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~  256 (296)
T PRK11189        177 SKLDPKQAKENLKQRYEKLDKEQWGWNIVEFYLGKISEETLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAA  256 (296)
T ss_pred             ccCCHHHHHHHHHHHHhhCCccccHHHHHHHHccCCCHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHH
Confidence                           0000111100             1122222    2233556667789999999999999999999


Q ss_pred             HHHHccccCCC-CCchhHHHHHHHHhh
Q 011050          159 DAILSGLQVDP-FSNPLQASLQNLERT  184 (494)
Q Consensus       159 ~~~~~al~l~p-~~~~~~~~~~~~~~~  184 (494)
                      .+|++|++++| ++.+.+-++-++.+.
T Consensus       257 ~~~~~Al~~~~~~~~e~~~~~~e~~~~  283 (296)
T PRK11189        257 ALFKLALANNVYNFVEHRYALLELALL  283 (296)
T ss_pred             HHHHHHHHhCCchHHHHHHHHHHHHHH
Confidence            99999999997 666666555555444

>PRK12370 invasion protein regulator; Provisional

Probab=98.80  E-value=1.4e-08  Score=108.83  Aligned_cols=92  Identities=15%  Similarity=0.098  Sum_probs=88.0

Q ss_pred             cChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHH
Q 011050           61 SNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKS  140 (494)
Q Consensus        61 ~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a  140 (494)
                      +++++|+..+.+|++++|+++.+|..+|.++...|++                       ++|+..+++|++++|+++.+
T Consensus       318 ~~~~~A~~~~~~Al~ldP~~~~a~~~lg~~~~~~g~~-----------------------~~A~~~~~~Al~l~P~~~~a  374 (553)
T PRK12370        318 NAMIKAKEHAIKATELDHNNPQALGLLGLINTIHSEY-----------------------IVGSLLFKQANLLSPISADI  374 (553)
T ss_pred             hHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHccCH-----------------------HHHHHHHHHHHHhCCCCHHH
Confidence            5589999999999999999999999999999999999                       99999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhH
Q 011050          141 HLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  175 (494)
Q Consensus       141 ~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~  175 (494)
                      |+.+|.+|..+|++++|+..++++++++|.+....
T Consensus       375 ~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~~~~~~  409 (553)
T PRK12370        375 KYYYGWNLFMAGQLEEALQTINECLKLDPTRAAAG  409 (553)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhcCCCChhhH
Confidence            99999999999999999999999999999987543

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

Probab=98.79  E-value=3.7e-08  Score=93.53  Aligned_cols=118  Identities=16%  Similarity=0.084  Sum_probs=103.5

Q ss_pred             hHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHH
Q 011050           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (494)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (494)
                      .+.+++.|...|..|+..|++..|...|.+|+++.|+++.++..+|.+++....-                    ....+
T Consensus       152 nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~--------------------~~ta~  211 (287)
T COG4235         152 NPGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQ--------------------QMTAK  211 (287)
T ss_pred             CCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCC--------------------cccHH
Confidence            3446788999999999999999999999999999999999999999888765542                    12278


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHH
Q 011050          123 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (494)
Q Consensus       123 a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~  180 (494)
                      +...+++++.+||++..+.+.+|..++..|+|.+|+..++..++..|.+..-...++.
T Consensus       212 a~~ll~~al~~D~~~iral~lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~~rr~~ie~  269 (287)
T COG4235         212 ARALLRQALALDPANIRALSLLAFAAFEQGDYAEAAAAWQMLLDLLPADDPRRSLIER  269 (287)
T ss_pred             HHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCCCCCchHHHHHH
Confidence            8899999999999999999999999999999999999999999999988765544443

>PRK12370 invasion protein regulator; Provisional

Probab=98.79  E-value=1.3e-08  Score=109.00  Aligned_cols=113  Identities=14%  Similarity=-0.052  Sum_probs=100.4

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      .+..+...|..+...|++++|+..|.+|++++|+++.+|+++|.++...|++                       ++|+.
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            3455677888999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCC-CCCchhHHHHHHH
Q 011050          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVD-PFSNPLQASLQNL  181 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~-p~~~~~~~~~~~~  181 (494)
                      .++++++++|.++.+++.++.+++..|++++|+..++++++.+ |+++.+...+..+
T Consensus       394 ~~~~Al~l~P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~  450 (553)
T PRK12370        394 TINECLKLDPTRAAAGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMF  450 (553)
T ss_pred             HHHHHHhcCCCChhhHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHH
Confidence            9999999999999888888888888999999999999999875 6777665555444

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

Probab=98.76  E-value=5.3e-08  Score=92.94  Aligned_cols=117  Identities=19%  Similarity=0.208  Sum_probs=106.7

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      ...+..+...++..||++.||...+..|++.|.++.+|..||.||...|+.                       ..|+.|
T Consensus       155 ~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~~Wda~l~~~Rakc~i~~~e~-----------------------k~AI~D  211 (504)
T KOG0624|consen  155 HWVLVQQLKSASGSGDCQNAIEMITHLLEIQPWDASLRQARAKCYIAEGEP-----------------------KKAIHD  211 (504)
T ss_pred             HHHHHHHHHHHhcCCchhhHHHHHHHHHhcCcchhHHHHHHHHHHHhcCcH-----------------------HHHHHH
Confidence            445677888899999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhh
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  186 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~  186 (494)
                      .+.+-.+..++..++|..+..++..|+.+.++...+++|++||+++..-...+.+.+..+
T Consensus       212 lk~askLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKldpdHK~Cf~~YKklkKv~K  271 (504)
T KOG0624|consen  212 LKQASKLSQDNTEGHYKISQLLYTVGDAENSLKEIRECLKLDPDHKLCFPFYKKLKKVVK  271 (504)
T ss_pred             HHHHHhccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHccCcchhhHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999977665555544443

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.76  E-value=3e-08  Score=107.33  Aligned_cols=110  Identities=12%  Similarity=-0.016  Sum_probs=101.0

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      .+..+...|......|.+++|...+..+++++|++..++.++|.++.+.+++                       ++|+.
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~-----------------------eeA~~  141 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGI-----------------------EAGRA  141 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccH-----------------------HHHHH
Confidence            4667788899999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHH
Q 011050          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASL  178 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~  178 (494)
                      .++++++.+|+++.+++.+|.++..+|+|++|++.|+++++-+|++..++-..
T Consensus       142 ~~~~~l~~~p~~~~~~~~~a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~  194 (694)
T PRK15179        142 EIELYFSGGSSSAREILLEAKSWDEIGQSEQADACFERLSRQHPEFENGYVGW  194 (694)
T ss_pred             HHHHHhhcCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHH
Confidence            99999999999999999999999999999999999999999888887665544

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

Probab=98.75  E-value=2.7e-08  Score=98.34  Aligned_cols=112  Identities=13%  Similarity=0.129  Sum_probs=104.0

Q ss_pred             HHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhh
Q 011050           53 KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLN  132 (494)
Q Consensus        53 ~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~  132 (494)
                      -||-|--+++.++|+.+|++|++++|+...+|.-.|--|+.+++-                       ..|+..|++|++
T Consensus       336 IaNYYSlr~eHEKAv~YFkRALkLNp~~~~aWTLmGHEyvEmKNt-----------------------~AAi~sYRrAvd  392 (559)
T KOG1155|consen  336 IANYYSLRSEHEKAVMYFKRALKLNPKYLSAWTLMGHEYVEMKNT-----------------------HAAIESYRRAVD  392 (559)
T ss_pred             ehhHHHHHHhHHHHHHHHHHHHhcCcchhHHHHHhhHHHHHhccc-----------------------HHHHHHHHHHHh
Confidence            467777889999999999999999999999999999999999998                       999999999999


Q ss_pred             ccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhh
Q 011050          133 LQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  187 (494)
Q Consensus       133 l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~  187 (494)
                      ++|.+..|||.+|++|.-++-+.=|+=+|++|+++.|+++.++.++.++-.++..
T Consensus       393 i~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~  447 (559)
T KOG1155|consen  393 INPRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNR  447 (559)
T ss_pred             cCchhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhcc
Confidence            9999999999999999999999999999999999999999999988776655543

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.74  E-value=5.2e-08  Score=87.58  Aligned_cols=107  Identities=16%  Similarity=0.059  Sum_probs=92.7

Q ss_pred             hHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC---cccccChhHHHHHHHhhhccCCCCCccccccCCCCCchh
Q 011050           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH  119 (494)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (494)
                      ....+..+...|..++..|+|++|+..|.+|+.+.|+.   +.+|.++|.+|...|++                      
T Consensus        31 ~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~----------------------   88 (168)
T CHL00033         31 GEKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEH----------------------   88 (168)
T ss_pred             hhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCH----------------------
Confidence            34457788999999999999999999999999887763   35899999999999999                      


Q ss_pred             HHHHHHHHHHHhhccccchHHHHHHHHHHH-------HHHHHH-------HHHHHHHccccCCCCCc
Q 011050          120 AELALKDAEKLLNLQSNSMKSHLLKANALI-------LLERYD-------MARDAILSGLQVDPFSN  172 (494)
Q Consensus       120 ~~~a~~~~~~al~l~p~~~~a~~~~g~~~~-------~~~~~~-------~A~~~~~~al~l~p~~~  172 (494)
                       ++|+..+++++.++|.+..++..+|.+|.       .+|+++       +|+..|++++.++|.+.
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       556655       67777777888888654

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=98.73  E-value=4e-08  Score=94.29  Aligned_cols=112  Identities=7%  Similarity=-0.084  Sum_probs=100.7

Q ss_pred             HHHHHHHHHHH-HHhcChHHHHHHHHHHhccCCCCc---ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHH
Q 011050           47 VFDLVQKGNRA-FRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (494)
Q Consensus        47 ~~~~~~~g~~~-~~~~~~~~Ai~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (494)
                      ....+..|..+ ++.|+|++|+..|.+.+...|++.   .+++.+|.+|+..|+|                       ++
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            35667777776 667999999999999999999984   7999999999999999                       99


Q ss_pred             HHHHHHHHhhcccc---chHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          123 ALKDAEKLLNLQSN---SMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       123 a~~~~~~al~l~p~---~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      |+..+.+++...|+   .+.+++.+|.+|..+|++++|+..|+++++..|+...+..+.+.+
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            99999999988776   577999999999999999999999999999999999887777666

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

Probab=98.73  E-value=7.2e-08  Score=89.38  Aligned_cols=117  Identities=19%  Similarity=0.210  Sum_probs=107.2

Q ss_pred             HHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHH
Q 011050           50 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  129 (494)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  129 (494)
                      +...|..++..|+|..|+..+.+|..++|+|..+|+.+|.+|.++|++                       +.|-..|.+
T Consensus       103 l~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~lgaaldq~Gr~-----------------------~~Ar~ay~q  159 (257)
T COG5010         103 LAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLLGAALDQLGRF-----------------------DEARRAYRQ  159 (257)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhHHHHHHHHccCh-----------------------hHHHHHHHH
Confidence            344899999999999999999999999999999999999999999999                       999999999


Q ss_pred             HhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhhhh
Q 011050          130 LLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLI  189 (494)
Q Consensus       130 al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~  189 (494)
                      ++++.|+.+..+.++|..|+..|+++.|...+..+...-+.+..+...+..+........
T Consensus       160 Al~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~  219 (257)
T COG5010         160 ALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFR  219 (257)
T ss_pred             HHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChH
Confidence            999999999999999999999999999999999998888888888887776665554443

>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=98.73  E-value=6.9e-09  Score=72.92  Aligned_cols=45  Identities=36%  Similarity=0.971  Sum_probs=40.5

Q ss_pred             ccccccccccccCcEEcCCCCc-ccHhhHHHhccCCCCCCCCCccc
Q 011050          202 DFDCTLCLKLLYEPITTPCGHS-FCRSCLFQSMDRGNKCPLCRAVL  246 (494)
Q Consensus       202 ~~~C~iC~~~~~~Pv~~~cgh~-fc~~Cl~~~~~~~~~CP~Cr~~~  246 (494)
                      +..|.+|++...+++.+||||. ||..|+..++.....||.||.++
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

...

>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=98.73  E-value=3.4e-09  Score=72.30  Aligned_cols=40  Identities=43%  Similarity=1.113  Sum_probs=34.5

Q ss_pred             cccccccccc---CcEEcCCCCcccHhhHHHhccCCCCCCCCC
Q 011050          204 DCTLCLKLLY---EPITTPCGHSFCRSCLFQSMDRGNKCPLCR  243 (494)
Q Consensus       204 ~C~iC~~~~~---~Pv~~~cgh~fc~~Cl~~~~~~~~~CP~Cr  243 (494)
                      .|+||++.+.   .++.++|||.||.+||..|+.....||+||
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            5999999884   446789999999999999999888999997

...

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

Probab=98.72  E-value=6.3e-09  Score=95.94  Aligned_cols=46  Identities=30%  Similarity=0.772  Sum_probs=43.1

Q ss_pred             cccccccccccccCcEEcCCCCcccHhhHHHhccCCCCCCCCCccc
Q 011050          201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (494)
Q Consensus       201 ~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~  246 (494)
                      .-+.|.||.+.++.|+.++|||+||.-||..++.+...||+||...
T Consensus        24 s~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~   69 (391)
T COG5432          24 SMLRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDP   69 (391)
T ss_pred             hHHHhhhhhheeecceecccccchhHHHHHHHhcCCCCCccccccH
Confidence            4468999999999999999999999999999999999999999874

>PLN02789 farnesyltranstransferase

Probab=98.71  E-value=6.3e-08  Score=95.73  Aligned_cols=123  Identities=15%  Similarity=0.131  Sum_probs=75.7

Q ss_pred             HHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHH-hhhcc-------CCCCCccccccC-------CCCCchhHHH
Q 011050           58 FRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRIS-QFLKH-------RPPSASEYRPLN-------GLDPTTHAEL  122 (494)
Q Consensus        58 ~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~-~~~~~-------~~~~~~~~~~~~-------~~~~~~~~~~  122 (494)
                      ...+.+++|+..++++|+++|++..+|..|+.++..++ .+.+.       .....+-|+.|.       .++. ....+
T Consensus        48 ~~~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~-~~~~~  126 (320)
T PLN02789         48 ASDERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGP-DAANK  126 (320)
T ss_pred             HcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCc-hhhHH
Confidence            34456666777777777777766666666666666655 22000       011222222221       1110 01145


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          123 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       123 a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      ++..++++++.||++..+|..+|.++..+|++++|++.+.++++.||.|..++.....+
T Consensus       127 el~~~~kal~~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N~sAW~~R~~v  185 (320)
T PLN02789        127 ELEFTRKILSLDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRNNSAWNQRYFV  185 (320)
T ss_pred             HHHHHHHHHHhCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCchhHHHHHHHH
Confidence            67777788888888888888888888888888888888888888888887776554443

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

Probab=98.70  E-value=1.5e-08  Score=75.55  Aligned_cols=64  Identities=20%  Similarity=0.236  Sum_probs=59.5

Q ss_pred             ChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccc
Q 011050           86 NRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGL  165 (494)
Q Consensus        86 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al  165 (494)
                      .+|..++..|+|                       ++|+..++++++.+|+++.+++.+|.++..+|++++|+..|++++
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            468889999999                       999999999999999999999999999999999999999999999


Q ss_pred             cCCCCCc
Q 011050          166 QVDPFSN  172 (494)
Q Consensus       166 ~l~p~~~  172 (494)
                      +++|+++
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

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=98.69  E-value=9.3e-08  Score=89.24  Aligned_cols=103  Identities=17%  Similarity=0.124  Sum_probs=96.8

Q ss_pred             hHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHH
Q 011050           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (494)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (494)
                      ....+..+...|..++..|+|++|+..|.++++.+|++..++..+|.++...|++                       ++
T Consensus        27 ~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~-----------------------~~   83 (234)
T TIGR02521        27 RNKAAKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGEL-----------------------EK   83 (234)
T ss_pred             CCcHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCH-----------------------HH
Confidence            3445778889999999999999999999999999999999999999999999999                       99


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCC
Q 011050          123 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVD  168 (494)
Q Consensus       123 a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~  168 (494)
                      |++.++++++++|.+..+++.+|.++...|++++|+..|.++++..
T Consensus        84 A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  129 (234)
T TIGR02521        84 AEDSFRRALTLNPNNGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDP  129 (234)
T ss_pred             HHHHHHHHHhhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHhcc
Confidence            9999999999999999999999999999999999999999999864

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.

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

Probab=98.69  E-value=3.6e-08  Score=90.99  Aligned_cols=97  Identities=14%  Similarity=0.111  Sum_probs=89.8

Q ss_pred             hcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchH
Q 011050           60 ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMK  139 (494)
Q Consensus        60 ~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~  139 (494)
                      .++.++++..|.++++.+|+++.+|.++|.+|..+|++                       ++|+..++++++++|+++.
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            57778999999999999999999999999999999999                       9999999999999999999


Q ss_pred             HHHHHHHHH-HHHHH--HHHHHHHHHccccCCCCCchhHHHHH
Q 011050          140 SHLLKANAL-ILLER--YDMARDAILSGLQVDPFSNPLQASLQ  179 (494)
Q Consensus       140 a~~~~g~~~-~~~~~--~~~A~~~~~~al~l~p~~~~~~~~~~  179 (494)
                      .++.+|.++ ...|+  +++|...++++++++|++..+...+.
T Consensus       109 ~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA  151 (198)
T PRK10370        109 LYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLA  151 (198)
T ss_pred             HHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHH
Confidence            999999986 67777  59999999999999999988766553

>PHA02929 N1R/p28-like protein; Provisional

Probab=98.66  E-value=1.4e-08  Score=94.52  Aligned_cols=48  Identities=31%  Similarity=0.891  Sum_probs=41.0

Q ss_pred             CcccccccccccccCc--------EEcCCCCcccHhhHHHhccCCCCCCCCCcccc
Q 011050          200 TDDFDCTLCLKLLYEP--------ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (494)
Q Consensus       200 ~~~~~C~iC~~~~~~P--------v~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~  247 (494)
                      ..+..|+||++.+.++        +..+|||.||..||..|+.....||+||..+.
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            4568999999987653        45689999999999999988889999999863

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

Probab=98.66  E-value=7.6e-08  Score=82.89  Aligned_cols=95  Identities=14%  Similarity=0.040  Sum_probs=86.5

Q ss_pred             HHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHH
Q 011050           68 SNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANA  147 (494)
Q Consensus        68 ~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~  147 (494)
                      ..|.+++..+|++..++..+|.+++..|++                       .+|+..+++++.++|.+..+++.+|.+
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             HHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhh
Q 011050          148 LILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (494)
Q Consensus       148 ~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~  185 (494)
                      |..+|++++|+..|.++++++|++......+..+....
T Consensus        61 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~   98 (135)
T TIGR02552        61 CQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLAL   98 (135)
T ss_pred             HHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHc
Confidence            99999999999999999999999988766655444333

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

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

Probab=98.65  E-value=5.1e-08  Score=97.63  Aligned_cols=126  Identities=28%  Similarity=0.258  Sum_probs=110.8

Q ss_pred             hhhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhH
Q 011050           41 WDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA  120 (494)
Q Consensus        41 ~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (494)
                      .+.+..++.++..|+..|-.+....||.+|.+++...|....+|.|||.++++.+..                    .+.
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            466778899999999999999999999999999999999999999999999887764                    234


Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhh
Q 011050          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  186 (494)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~  186 (494)
                      ..|++|+..|+++||...+|||+++.++..++++.+|++....+....|.+.+......-+.+-+.
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            789999999999999999999999999999999999999999999999977766665554444443

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=98.65  E-value=6.6e-08  Score=108.68  Aligned_cols=106  Identities=18%  Similarity=0.176  Sum_probs=92.2

Q ss_pred             HHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhcc
Q 011050           55 NRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQ  134 (494)
Q Consensus        55 ~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~  134 (494)
                      ......|++++|+..|.+|++++|+ +.+|.++|.++.++|++                       ++|+..+++++.++
T Consensus       584 ~~l~~~Gr~~eAl~~~~~AL~l~P~-~~a~~~LA~~l~~lG~~-----------------------deA~~~l~~AL~l~  639 (987)
T PRK09782        584 AQRYIPGQPELALNDLTRSLNIAPS-ANAYVARATIYRQRHNV-----------------------PAAVSDLRAALELE  639 (987)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCCC-HHHHHHHHHHHHHCCCH-----------------------HHHHHHHHHHHHhC
Confidence            3344559999999999999999996 88999999999999999                       99999999999999


Q ss_pred             ccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhh
Q 011050          135 SNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERT  184 (494)
Q Consensus       135 p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~  184 (494)
                      |+++.++..+|.++...|++++|++.|.++++++|++..++..+..+...
T Consensus       640 Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~  689 (987)
T PRK09782        640 PNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQR  689 (987)
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999998877665554433

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

Probab=98.65  E-value=3e-08  Score=73.93  Aligned_cols=64  Identities=17%  Similarity=0.309  Sum_probs=60.1

Q ss_pred             HHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHh
Q 011050           52 QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLL  131 (494)
Q Consensus        52 ~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al  131 (494)
                      ..|..++..|+|++|+..|.++++.+|+++.++..+|.++...|++                       ++|+..+++++
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            5799999999999999999999999999999999999999999999                       99999999999


Q ss_pred             hccccch
Q 011050          132 NLQSNSM  138 (494)
Q Consensus       132 ~l~p~~~  138 (494)
                      +++|+++
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

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=98.65  E-value=1.3e-07  Score=88.24  Aligned_cols=112  Identities=18%  Similarity=0.205  Sum_probs=97.2

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      ...+...|..++..|++++|+..|.++++..|.+..++.++|.++...|++                       ++|+..
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 011050          127 AEKLLNLQ--SNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       127 ~~~al~l~--p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      +.++++..  +.....++.+|.++...|++++|...+.++++.+|++..+...+..+
T Consensus       122 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~  178 (234)
T TIGR02521       122 FEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAEL  178 (234)
T ss_pred             HHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHH
Confidence            99998754  45667888899999999999999999999999999887655544433

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.

>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=98.64  E-value=1.7e-08  Score=67.75  Aligned_cols=38  Identities=50%  Similarity=1.292  Sum_probs=34.6

Q ss_pred             cccccccccCcE-EcCCCCcccHhhHHHhcc--CCCCCCCC
Q 011050          205 CTLCLKLLYEPI-TTPCGHSFCRSCLFQSMD--RGNKCPLC  242 (494)
Q Consensus       205 C~iC~~~~~~Pv-~~~cgh~fc~~Cl~~~~~--~~~~CP~C  242 (494)
                      |+||.+.+.+|+ .++|||+||..|+..++.  ....||.|
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            899999999999 789999999999999998  45579987

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 ....

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

Probab=98.63  E-value=6.2e-08  Score=94.65  Aligned_cols=106  Identities=21%  Similarity=0.321  Sum_probs=99.3

Q ss_pred             cCCCCCchhhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCC
Q 011050           34 EGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNG  113 (494)
Q Consensus        34 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  113 (494)
                      .+.-+...+....++..+.+|+.++++.+|.+|+..|+.|+++.|+++..|.|||.+++.+++|                
T Consensus        36 ~~~~s~~~~~~~~Ae~~k~~gn~~yk~k~Y~nal~~yt~Ai~~~pd~a~yy~nRAa~~m~~~~~----------------   99 (486)
T KOG0550|consen   36 SPEYSFSQEAAQQAEEAKEEGNAFYKQKTYGNALKNYTFAIDMCPDNASYYSNRAATLMMLGRF----------------   99 (486)
T ss_pred             CccccccchHHHHHHHHHhhcchHHHHhhHHHHHHHHHHHHHhCccchhhhchhHHHHHHHHhH----------------
Confidence            3445556677888999999999999999999999999999999999999999999999999999                


Q ss_pred             CCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHH
Q 011050          114 LDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAIL  162 (494)
Q Consensus       114 ~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~  162 (494)
                             ++|+-++++.++++|...+++.+.++++..++...+|-..|+
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                   999999999999999999999999999999999999988877

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

Probab=98.63  E-value=1.6e-07  Score=85.47  Aligned_cols=113  Identities=17%  Similarity=0.156  Sum_probs=101.5

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      ....+..+|..|.+.|+.+.|-..|.+|+.++|++.+++.|.|.-+...|+|                       ++|..
T Consensus        68 ~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~qg~~-----------------------~eA~q  124 (250)
T COG3063          68 YYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGDVLNNYGAFLCAQGRP-----------------------EEAMQ  124 (250)
T ss_pred             cHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccchhhhhhHHHHhCCCh-----------------------HHHHH
Confidence            3467888999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhcc--ccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          126 DAEKLLNLQ--SNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       126 ~~~~al~l~--p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      .+++|+..-  +..+..+-++|.|-.+.|+++.|.++|+++|+++|+++.....+...
T Consensus       125 ~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~  182 (250)
T COG3063         125 QFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARL  182 (250)
T ss_pred             HHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHH
Confidence            999999842  34567899999999999999999999999999999999876655544

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

Probab=98.62  E-value=1.5e-08  Score=87.44  Aligned_cols=50  Identities=34%  Similarity=0.953  Sum_probs=43.0

Q ss_pred             CCCcccccccccccccCc--EEcCCCCcccHhhHHHhccCCCCCCCCCcccc
Q 011050          198 ERTDDFDCTLCLKLLYEP--ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (494)
Q Consensus       198 ~~~~~~~C~iC~~~~~~P--v~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~  247 (494)
                      .....+.|+||++-+..-  +.+.|||.||+.||...+.++..||+|+..+.
T Consensus       127 ~~~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt  178 (187)
T KOG0320|consen  127 RKEGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKIT  178 (187)
T ss_pred             ccccccCCCceecchhhccccccccchhHHHHHHHHHHHhCCCCCCcccccc
Confidence            345669999999988765  45799999999999999999999999998763

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=98.61  E-value=1.1e-07  Score=103.88  Aligned_cols=99  Identities=17%  Similarity=0.112  Sum_probs=61.7

Q ss_pred             HHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHH----HHHHHHH
Q 011050           54 GNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL----ALKDAEK  129 (494)
Q Consensus        54 g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----a~~~~~~  129 (494)
                      |..++..|++++|+..|.++++.+|+++.++.++|.+|...|++                       .+    |+..+++
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            45556666777777777777777776666666667666666666                       32    5555666


Q ss_pred             HhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhH
Q 011050          130 LLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  175 (494)
Q Consensus       130 al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~  175 (494)
                      +++++|+++.++..+|.++...|++++|+..++++++++|++..+.
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            6666666555666666666666666666666666666666555443

>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=98.59  E-value=1.1e-07  Score=83.51  Aligned_cols=108  Identities=22%  Similarity=0.245  Sum_probs=85.1

Q ss_pred             hHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHH
Q 011050           63 FEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHL  142 (494)
Q Consensus        63 ~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~  142 (494)
                      |+.|...|..+...+|.|+..+.+-|.++..+.++.   +..          +....+++|+.-++.|+.++|+...|++
T Consensus         7 FE~ark~aea~y~~nP~DadnL~~WG~ALLELAqfk---~g~----------es~~miedAisK~eeAL~I~P~~hdAlw   73 (186)
T PF06552_consen    7 FEHARKKAEAAYAKNPLDADNLTNWGGALLELAQFK---QGP----------ESKKMIEDAISKFEEALKINPNKHDALW   73 (186)
T ss_dssp             HHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHHHHS----HH----------HHHHHHHHHHHHHHHHHHH-TT-HHHHH
T ss_pred             HHHHHHHHHHHHHhCcHhHHHHHHHHHHHHHHHhcc---Ccc----------hHHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            678999999999999999999999999999998871   000          1112348899999999999999999999


Q ss_pred             HHHHHHHHHHH-----------HHHHHHHHHccccCCCCCchhHHHHHHHHh
Q 011050          143 LKANALILLER-----------YDMARDAILSGLQVDPFSNPLQASLQNLER  183 (494)
Q Consensus       143 ~~g~~~~~~~~-----------~~~A~~~~~~al~l~p~~~~~~~~~~~~~~  183 (494)
                      .+|++|..++.           |++|.+.|.+|...+|+|...+..++...+
T Consensus        74 ~lGnA~ts~A~l~~d~~~A~~~F~kA~~~FqkAv~~~P~ne~Y~ksLe~~~k  125 (186)
T PF06552_consen   74 CLGNAYTSLAFLTPDTAEAEEYFEKATEYFQKAVDEDPNNELYRKSLEMAAK  125 (186)
T ss_dssp             HHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHh
Confidence            99999987544           889999999999999999998888776544

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.

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

Probab=98.57  E-value=1.9e-08  Score=87.65  Aligned_cols=119  Identities=21%  Similarity=0.404  Sum_probs=89.2

Q ss_pred             HHhhccccchHHHHHHHHH-HHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhhhhccccCCCCCCCccccccc
Q 011050          129 KLLNLQSNSMKSHLLKANA-LILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTL  207 (494)
Q Consensus       129 ~al~l~p~~~~a~~~~g~~-~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~i  207 (494)
                      .++...|+-.+-|-..|.+ |.....|-...++|..++++|.++.+      .+++......       ....-.|.|.|
T Consensus       135 ~viD~qpdVCKdyk~TGYCGYGDsCKflH~R~D~KtGWkLn~EWnA------~~Ee~~v~~~-------~~e~IPF~C~i  201 (259)
T COG5152         135 EVIDTQPDVCKDYKETGYCGYGDSCKFLHDRSDFKTGWKLNQEWNA------EYEEAPVISG-------PGEKIPFLCGI  201 (259)
T ss_pred             ceeecCcccccchhhcccccCCchhhhhhhhhhhhcccccchhhcc------hhhhcccccC-------CCCCCceeehh
Confidence            3456678777888888887 67788999999999999999998873      2222221111       12234689999


Q ss_pred             ccccccCcEEcCCCCcccHhhHHHhccCCCCCCCCCcccccCCCCCcccccHHHHH
Q 011050          208 CLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSII  263 (494)
Q Consensus       208 C~~~~~~Pv~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~  263 (494)
                      |..-+..||.+.|||.||..|.-.-...+..|-+|.....   ..+.+...+..++
T Consensus       202 CKkdy~spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~---G~f~V~~d~~kmL  254 (259)
T COG5152         202 CKKDYESPVVTECGHSFCSLCAIRKYQKGDECGVCGKATY---GRFWVVSDLQKML  254 (259)
T ss_pred             chhhccchhhhhcchhHHHHHHHHHhccCCcceecchhhc---cceeHHhhHHHHH
Confidence            9999999999999999999999988888999999998763   2344444444444

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

Probab=98.56  E-value=1.9e-07  Score=94.60  Aligned_cols=110  Identities=22%  Similarity=0.211  Sum_probs=97.7

Q ss_pred             HHHHHHHHHHHhcChHHHHHHHHHHhccC-------CCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHH
Q 011050           49 DLVQKGNRAFRESNFEEAISNYSRANNIK-------PGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (494)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~-------p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (494)
                      -+.+.|..+|..+.|.+|+.+|..++..-       +.....+.|+|-+|.+++.|                       .
T Consensus       416 v~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~-----------------------~  472 (611)
T KOG1173|consen  416 VLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKY-----------------------E  472 (611)
T ss_pred             hhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhH-----------------------H
Confidence            45678888999999999999999999432       22456789999999999999                       9


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          122 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       122 ~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      +|+..+++++.+.|.++.+|--.|.+|..+|+++.|+++|.++|.++|+|.-+...+...
T Consensus       473 eAI~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~~a  532 (611)
T KOG1173|consen  473 EAIDYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLKLA  532 (611)
T ss_pred             HHHHHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999998776666533

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=98.56  E-value=1.6e-07  Score=102.43  Aligned_cols=103  Identities=17%  Similarity=0.119  Sum_probs=85.5

Q ss_pred             HHHHHHHHHHHHhcChHH----HHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           48 FDLVQKGNRAFRESNFEE----AISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~----Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      ..+...|..++..|++++    |+..|.++++++|+++.++.++|.++...|++                       ++|
T Consensus       247 ~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~-----------------------~eA  303 (656)
T PRK15174        247 ALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFNSDNVRIVTLYADALIRTGQN-----------------------EKA  303 (656)
T ss_pred             HHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHCCCH-----------------------HHH
Confidence            445567788888888875    78888888888888888888888888888888                       888


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCch
Q 011050          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (494)
Q Consensus       124 ~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~  173 (494)
                      +..++++++++|+++.+++.+|.+|..+|++++|++.|.++++.+|++..
T Consensus       304 ~~~l~~al~l~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~~~~  353 (656)
T PRK15174        304 IPLLQQSLATHPDLPYVRAMYARALRQVGQYTAASDEFVQLAREKGVTSK  353 (656)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccchH
Confidence            88888888888888888888888888888888888888888888887654

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

Probab=98.56  E-value=6.4e-08  Score=94.60  Aligned_cols=119  Identities=15%  Similarity=0.170  Sum_probs=95.1

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      ...-+...|..+.+.|++++|+..|.+|++++|+++.+...++..++..|++                       .++..
T Consensus       145 ~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~P~~~~~~~~l~~~li~~~~~-----------------------~~~~~  201 (280)
T PF13429_consen  145 SARFWLALAEIYEQLGDPDKALRDYRKALELDPDDPDARNALAWLLIDMGDY-----------------------DEARE  201 (280)
T ss_dssp             -HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHCTTCHH-----------------------HHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCh-----------------------HHHHH
Confidence            3456778899999999999999999999999999999999999999988998                       77666


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhh
Q 011050          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  187 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~  187 (494)
                      .+.......|+++..+..+|.+|..+|++++|+..|+++++.+|+|+.+...+..+-...+.
T Consensus       202 ~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~~~~~~~a~~l~~~g~  263 (280)
T PF13429_consen  202 ALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDDPLWLLAYADALEQAGR  263 (280)
T ss_dssp             HHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHT----
T ss_pred             HHHHHHHHCcCHHHHHHHHHHHhccccccccccccccccccccccccccccccccccccccc
Confidence            66666666677878888899999999999999999999999999999888777666544443

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=98.55  E-value=2e-07  Score=95.30  Aligned_cols=103  Identities=9%  Similarity=-0.000  Sum_probs=84.0

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (494)
                      ..+...|..+++.|++++|+..|.++++.+|++..++..+|.+|.+.|++                       ++|++.+
T Consensus       181 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~-----------------------~~A~~~~  237 (389)
T PRK11788        181 HFYCELAQQALARGDLDAARALLKKALAADPQCVRASILLGDLALAQGDY-----------------------AAAIEAL  237 (389)
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcCCHHHHHHHHHHHHHCCCH-----------------------HHHHHHH
Confidence            34567888888889999999999999988888888888888888888888                       8888888


Q ss_pred             HHHhhccccc-hHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCch
Q 011050          128 EKLLNLQSNS-MKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (494)
Q Consensus       128 ~~al~l~p~~-~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~  173 (494)
                      +++++.+|.+ ..++..++.+|...|++++|+..++++++.+|++..
T Consensus       238 ~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~~~  284 (389)
T PRK11788        238 ERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEYPGADL  284 (389)
T ss_pred             HHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchH
Confidence            8888887766 356677788888888888888888888888886643

>PLN02789 farnesyltranstransferase

Probab=98.53  E-value=4.1e-07  Score=89.98  Aligned_cols=56  Identities=13%  Similarity=0.086  Sum_probs=35.8

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHH-HHHHHHHHHHccccCCCCCchhHH
Q 011050          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLE-RYDMARDAILSGLQVDPFSNPLQA  176 (494)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~-~~~~A~~~~~~al~l~p~~~~~~~  176 (494)
                      .+|+..+.++|+++|++..+|..+|.++..+| +++++++.+.++++.+|.+..++.
T Consensus        54 erAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npknyqaW~  110 (320)
T PLN02789         54 PRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPKNYQIWH  110 (320)
T ss_pred             HHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCcchHHhH
Confidence            56666666666666666666666666666665 456666666666666666655544

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=98.53  E-value=5.9e-07  Score=76.66  Aligned_cols=109  Identities=16%  Similarity=0.162  Sum_probs=93.6

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc---ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      ...+...|...++.|+|.+|+..+......-|...   .+...++-+|++.++|                       .+|
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            57888999999999999999999999998877654   7778899999999999                       999


Q ss_pred             HHHHHHHhhccccchH---HHHHHHHHHHHHHH---------------HHHHHHHHHccccCCCCCchhHHHH
Q 011050          124 LKDAEKLLNLQSNSMK---SHLLKANALILLER---------------YDMARDAILSGLQVDPFSNPLQASL  178 (494)
Q Consensus       124 ~~~~~~al~l~p~~~~---a~~~~g~~~~~~~~---------------~~~A~~~~~~al~l~p~~~~~~~~~  178 (494)
                      +..+++.++++|++++   ++|.+|.+++.+..               ..+|..+|+..++.-|++.-+..+.
T Consensus        67 ~a~~~rFirLhP~hp~vdYa~Y~~gL~~~~~~~~~~~~~~~~drD~~~~~~A~~~f~~lv~~yP~S~ya~dA~  139 (142)
T PF13512_consen   67 IAAYDRFIRLHPTHPNVDYAYYMRGLSYYEQDEGSLQSFFRSDRDPTPARQAFRDFEQLVRRYPNSEYAADAR  139 (142)
T ss_pred             HHHHHHHHHhCCCCCCccHHHHHHHHHHHHHhhhHHhhhcccccCcHHHHHHHHHHHHHHHHCcCChhHHHHH
Confidence            9999999999998765   89999999988876               7778888888888888776655443

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.52  E-value=3.5e-07  Score=99.11  Aligned_cols=116  Identities=16%  Similarity=0.002  Sum_probs=103.1

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      +..+......|..+.+.+++++|+..+.+++..+|+++.+++.+|.++.++|+|                       ++|
T Consensus       117 Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~~~~~~~~~a~~l~~~g~~-----------------------~~A  173 (694)
T PRK15179        117 PDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSSSAREILLEAKSWDEIGQS-----------------------EQA  173 (694)
T ss_pred             CCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHhcch-----------------------HHH
Confidence            335677888999999999999999999999999999999999999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCc-hhHHHHHHHH
Q 011050          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN-PLQASLQNLE  182 (494)
Q Consensus       124 ~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~-~~~~~~~~~~  182 (494)
                      +..|++++..+|+++.++..+|.++..+|+.++|...|++|++...+-. ...+.+.+++
T Consensus       174 ~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~  233 (694)
T PRK15179        174 DACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARKLTRRLVDLN  233 (694)
T ss_pred             HHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999998866533 3233344443

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.52  E-value=7.3e-07  Score=84.64  Aligned_cols=103  Identities=16%  Similarity=0.127  Sum_probs=90.7

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcc---cccChhHHHHHH--------HhhhccCCCCCccccccCCCCC
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPI---VLGNRSSAYIRI--------SQFLKHRPPSASEYRPLNGLDP  116 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~---~~~~~a~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~  116 (494)
                      ..+...|..++..|++++|+..|.++++..|+++.   +++++|.+++..        +++                   
T Consensus        71 ~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~-------------------  131 (235)
T TIGR03302        71 QAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYLRGLSNYNQIDRVDRDQTAA-------------------  131 (235)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHHHHHHHHHhcccccCCHHHH-------------------
Confidence            46788899999999999999999999999999887   688899999876        667                   


Q ss_pred             chhHHHHHHHHHHHhhccccchHHH-----------------HHHHHHHHHHHHHHHHHHHHHccccCCCCCch
Q 011050          117 TTHAELALKDAEKLLNLQSNSMKSH-----------------LLKANALILLERYDMARDAILSGLQVDPFSNP  173 (494)
Q Consensus       117 ~~~~~~a~~~~~~al~l~p~~~~a~-----------------~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~  173 (494)
                          .+|++.+++++..+|++..++                 +.+|..|...|++.+|+..|.++++..|+.+.
T Consensus       132 ----~~A~~~~~~~~~~~p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~  201 (235)
T TIGR03302       132 ----REAFEAFQELIRRYPNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRFETVVENYPDTPA  201 (235)
T ss_pred             ----HHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcc
Confidence                999999999999999886542                 46688889999999999999999999887653

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).

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=98.51  E-value=3.3e-07  Score=69.88  Aligned_cols=69  Identities=26%  Similarity=0.468  Sum_probs=64.4

Q ss_pred             HHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhc
Q 011050           54 GNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNL  133 (494)
Q Consensus        54 g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l  133 (494)
                      +..+++.++|++|+..+++++.++|.++.++..+|.+++.+|+|                       .+|+.+++++++.
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             cccchHHHHHHH
Q 011050          134 QSNSMKSHLLKA  145 (494)
Q Consensus       134 ~p~~~~a~~~~g  145 (494)
                      +|+...+...++
T Consensus        59 ~p~~~~~~~~~a   70 (73)
T PF13371_consen   59 SPDDPDARALRA   70 (73)
T ss_pred             CCCcHHHHHHHH
Confidence            999988776554

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

Probab=98.49  E-value=3.4e-07  Score=95.83  Aligned_cols=104  Identities=14%  Similarity=0.091  Sum_probs=92.8

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH-
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK-  125 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~-  125 (494)
                      +..+...|..+..+|.+.+|...|..|+.++|+++.....+|.++...|+-                       ..|.. 
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            455688899999999999999999999999999999999999999999976                       45555 


Q ss_pred             -HHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCch
Q 011050          126 -DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (494)
Q Consensus       126 -~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~  173 (494)
                       ....++++||.+++|||.+|.++...|+.++|.+.|..|+++++.++-
T Consensus       741 ~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe~S~PV  789 (799)
T KOG4162|consen  741 SLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLEESNPV  789 (799)
T ss_pred             HHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhccCCCc
Confidence             889999999999999999999999999999999999999999888763

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

Probab=98.49  E-value=5.6e-08  Score=65.11  Aligned_cols=30  Identities=37%  Similarity=1.113  Sum_probs=21.1

Q ss_pred             cccccccccC----cEEcCCCCcccHhhHHHhccC
Q 011050          205 CTLCLKLLYE----PITTPCGHSFCRSCLFQSMDR  235 (494)
Q Consensus       205 C~iC~~~~~~----Pv~~~cgh~fc~~Cl~~~~~~  235 (494)
                      |+||.+ +.+    |+.++|||+||+.||.+....
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    999999999999999998774

>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=98.48  E-value=9.3e-08  Score=65.26  Aligned_cols=42  Identities=45%  Similarity=1.129  Sum_probs=36.5

Q ss_pred             ccccccccccCcEEcC-CCCcccHhhHHHhccC-CCCCCCCCcc
Q 011050          204 DCTLCLKLLYEPITTP-CGHSFCRSCLFQSMDR-GNKCPLCRAV  245 (494)
Q Consensus       204 ~C~iC~~~~~~Pv~~~-cgh~fc~~Cl~~~~~~-~~~CP~Cr~~  245 (494)
                      .|++|.+.+.+++.++ |||.||..|+..|+.. ...||.|+..
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 9999999999999886 6679999875

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=98.48  E-value=2.4e-07  Score=70.66  Aligned_cols=71  Identities=25%  Similarity=0.354  Sum_probs=64.7

Q ss_pred             hHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccC
Q 011050           88 SSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQV  167 (494)
Q Consensus        88 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l  167 (494)
                      +.+|+..++|                       .+|++.+++++.++|+++.+++.+|.+|..+|++.+|+.+|+++++.
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            4678888899                       99999999999999999999999999999999999999999999999


Q ss_pred             CCCCchhHHHHHHH
Q 011050          168 DPFSNPLQASLQNL  181 (494)
Q Consensus       168 ~p~~~~~~~~~~~~  181 (494)
                      +|++..+......+
T Consensus        59 ~p~~~~~~~~~a~l   72 (73)
T PF13371_consen   59 SPDDPDARALRAML   72 (73)
T ss_pred             CCCcHHHHHHHHhc
Confidence            99998876655543

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=98.47  E-value=4.3e-07  Score=101.11  Aligned_cols=111  Identities=12%  Similarity=0.061  Sum_probs=103.7

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      +..+...|..+...|++++|+..|.++++++|.++.++.++|.++...|++                       .+|+..
T Consensus        49 a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~l~~~g~~-----------------------~eA~~~  105 (765)
T PRK10049         49 ARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILTLADAGQY-----------------------DEALVK  105 (765)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCH-----------------------HHHHHH
Confidence            455788899999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      +++++..+|++.. ++.+|.++...|++++|+..|+++++++|++..+...+..+
T Consensus       106 l~~~l~~~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~  159 (765)
T PRK10049        106 AKQLVSGAPDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQA  159 (765)
T ss_pred             HHHHHHhCCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            9999999999999 99999999999999999999999999999999876655443

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.46  E-value=1.2e-07  Score=64.48  Aligned_cols=41  Identities=39%  Similarity=1.028  Sum_probs=34.3

Q ss_pred             ccccccccc---cCcEEcCCCCcccHhhHHHhccCCCCCCCCCc
Q 011050          204 DCTLCLKLL---YEPITTPCGHSFCRSCLFQSMDRGNKCPLCRA  244 (494)
Q Consensus       204 ~C~iC~~~~---~~Pv~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~  244 (494)
                      .|++|.+.+   ..|+.++|||+||..|+.........||.||+
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            488999988   34577899999999999998755668999984

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=98.44  E-value=5.2e-07  Score=104.97  Aligned_cols=126  Identities=19%  Similarity=0.211  Sum_probs=98.5

Q ss_pred             HHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCc--------------
Q 011050           52 QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPT--------------  117 (494)
Q Consensus        52 ~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------  117 (494)
                      .+|..++..|++++|+..|.++++.+|+++.++..+|.+|...|++-++.    ..++....++|.              
T Consensus       274 ~~G~~~~~~g~~~~A~~~l~~aL~~~P~~~~a~~~Lg~~~~~~g~~~eA~----~~l~~Al~~~p~~~~~~~~~~ll~~~  349 (1157)
T PRK11447        274 AQGLAAVDSGQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAV----AQFEKALALDPHSSNRDKWESLLKVN  349 (1157)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHH----HHHHHHHHhCCCccchhHHHHHHHhh
Confidence            45788888888888888888888888888888888888888877763222    222222222221              


Q ss_pred             ---------------hhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          118 ---------------THAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       118 ---------------~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                                     ...++|+..++++++++|++..+++.+|.+|...|++++|++.|+++++++|++..+...+..+
T Consensus       350 ~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~~~L~~l  428 (1157)
T PRK11447        350 RYWLLIQQGDAALKANNLAQAERLYQQARQVDNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAVRGLANL  428 (1157)
T ss_pred             hHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence                           2237899999999999999999999999999999999999999999999999998776555443

>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=98.43  E-value=2.4e-07  Score=69.57  Aligned_cols=67  Identities=21%  Similarity=0.318  Sum_probs=61.4

Q ss_pred             HHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhcccc
Q 011050           57 AFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSN  136 (494)
Q Consensus        57 ~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~  136 (494)
                      ++..|+|++|+..|.+++..+|++..++..+|.+|++.|++                       ++|...+.+++..+|+
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             chHHHHHHHH
Q 011050          137 SMKSHLLKAN  146 (494)
Q Consensus       137 ~~~a~~~~g~  146 (494)
                      ++..+..++.
T Consensus        58 ~~~~~~l~a~   67 (68)
T PF14559_consen   58 NPEYQQLLAQ   67 (68)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhc
Confidence            8777766664

...

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

Probab=98.42  E-value=9e-07  Score=99.64  Aligned_cols=112  Identities=18%  Similarity=0.179  Sum_probs=103.0

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      ...+..+...|..++..|+|++|+..|.++++.+|++..++..+|.++...|++                       ++|
T Consensus       122 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~-----------------------~~A  178 (899)
T TIGR02917       122 EGAAELLALRGLAYLGLGQLELAQKSYEQALAIDPRSLYAKLGLAQLALAENRF-----------------------DEA  178 (899)
T ss_pred             hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHCCCH-----------------------HHH
Confidence            344677888999999999999999999999999999999999999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHH
Q 011050          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASL  178 (494)
Q Consensus       124 ~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~  178 (494)
                      +..+++++..+|.+..+++.+|.++...|++++|+..|++++.++|++..+...+
T Consensus       179 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~~  233 (899)
T TIGR02917       179 RALIDEVLTADPGNVDALLLKGDLLLSLGNIELALAAYRKAIALRPNNPAVLLAL  233 (899)
T ss_pred             HHHHHHHHHhCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCCHHHHHHH
Confidence            9999999999999999999999999999999999999999999999887654433

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.

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

Probab=98.42  E-value=9e-08  Score=88.06  Aligned_cols=48  Identities=46%  Similarity=0.978  Sum_probs=41.6

Q ss_pred             CcccccccccccccCcEEcCCCCcccHhhHHH-hccCCC-CCCCCCcccc
Q 011050          200 TDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQ-SMDRGN-KCPLCRAVLF  247 (494)
Q Consensus       200 ~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~-~~~~~~-~CP~Cr~~~~  247 (494)
                      ..++.|.+|++....|..++|||.||+.||.. |..... .||+||+...
T Consensus       213 ~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~  262 (271)
T COG5574         213 LADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVY  262 (271)
T ss_pred             ccccceeeeecccCCcccccccchhhHHHHHHHHHhhccccCchhhhhcc
Confidence            35899999999999999999999999999999 554444 5999999764

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

Probab=98.40  E-value=2.3e-06  Score=91.23  Aligned_cols=127  Identities=16%  Similarity=0.148  Sum_probs=94.5

Q ss_pred             hHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCC-------CCCccccccCCCC
Q 011050           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRP-------PSASEYRPLNGLD  115 (494)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~-------~~~~~~~~~~~~~  115 (494)
                      ....+..+...||.+|.+|++++|...+.++|..+|.++.+|+.+|.+|-+.|+..|..+       ...+.+--|+..-
T Consensus       135 l~~~l~~ll~eAN~lfarg~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~la  214 (895)
T KOG2076|consen  135 LAPELRQLLGEANNLFARGDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLA  214 (895)
T ss_pred             cCHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHH
Confidence            344578899999999999999999999999999999999999999999999988622111       1111111121111


Q ss_pred             ----CchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCC
Q 011050          116 ----PTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP  169 (494)
Q Consensus       116 ----~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p  169 (494)
                          .++....|.--|.+||+++|.+.+.++.++..|..+|++..|++.|.+.++++|
T Consensus       215 dls~~~~~i~qA~~cy~rAI~~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p  272 (895)
T KOG2076|consen  215 DLSEQLGNINQARYCYSRAIQANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDP  272 (895)
T ss_pred             HHHHhcccHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCC
Confidence                223346677777788888888878888888888788888888888888888777

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=98.39  E-value=1e-06  Score=98.19  Aligned_cols=111  Identities=11%  Similarity=-0.024  Sum_probs=103.3

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (494)
                      ..+...|..+...|++++|+..+.+++...|.+..++.++|.++...|++                       .+|+..+
T Consensus       360 ~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~n~~l~~~lA~l~~~~g~~-----------------------~~A~~~l  416 (765)
T PRK10049        360 QGQSLLSQVAKYSNDLPQAEMRARELAYNAPGNQGLRIDYASVLQARGWP-----------------------RAAENEL  416 (765)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCH-----------------------HHHHHHH
Confidence            45567888999999999999999999999999999999999999999999                       9999999


Q ss_pred             HHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          128 EKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       128 ~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      ++++.++|++...++.+|.++..++++++|...++++++.+|+++.+...-...
T Consensus       417 ~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~Pd~~~~~~~~~~~  470 (765)
T PRK10049        417 KKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAREPQDPGVQRLARAR  470 (765)
T ss_pred             HHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999876554443

>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=98.38  E-value=7.4e-07  Score=66.86  Aligned_cols=60  Identities=25%  Similarity=0.277  Sum_probs=55.6

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHH
Q 011050          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (494)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~  180 (494)
                      ++|+..++++++.+|++..+++.+|.+|...|++++|...+.+++..+|+++.++..+.+
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            999999999999999999999999999999999999999999999999998877766654

...

>PHA02926 zinc finger-like protein; Provisional

Probab=98.37  E-value=1.6e-07  Score=84.37  Aligned_cols=47  Identities=26%  Similarity=0.854  Sum_probs=37.6

Q ss_pred             CcccccccccccccC---------cEEcCCCCcccHhhHHHhccCC------CCCCCCCccc
Q 011050          200 TDDFDCTLCLKLLYE---------PITTPCGHSFCRSCLFQSMDRG------NKCPLCRAVL  246 (494)
Q Consensus       200 ~~~~~C~iC~~~~~~---------Pv~~~cgh~fc~~Cl~~~~~~~------~~CP~Cr~~~  246 (494)
                      +.+..|+||++...+         ++..+|+|+||..||..|....      ..||+||..+
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            356889999997644         2456999999999999998642      3599999976

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

Probab=98.37  E-value=4.6e-07  Score=89.32  Aligned_cols=113  Identities=23%  Similarity=0.201  Sum_probs=105.0

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      ++.++..+||..|..|++++|...|.+|+.-+.....+++|.|..+-.+|++                       ++|++
T Consensus       489 n~~a~~nkgn~~f~ngd~dka~~~ykeal~ndasc~ealfniglt~e~~~~l-----------------------deald  545 (840)
T KOG2003|consen  489 NAAALTNKGNIAFANGDLDKAAEFYKEALNNDASCTEALFNIGLTAEALGNL-----------------------DEALD  545 (840)
T ss_pred             CHHHhhcCCceeeecCcHHHHHHHHHHHHcCchHHHHHHHHhcccHHHhcCH-----------------------HHHHH
Confidence            3678889999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      -+-+.-.+--++++.++.++.+|..+.+..+|+++|.++..+-|+++.+..-+..+
T Consensus       546 ~f~klh~il~nn~evl~qianiye~led~aqaie~~~q~~slip~dp~ilskl~dl  601 (840)
T KOG2003|consen  546 CFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQANSLIPNDPAILSKLADL  601 (840)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcccCCCCHHHHHHHHHH
Confidence            99998888788999999999999999999999999999999999999876655554

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=98.37  E-value=5.2e-07  Score=88.21  Aligned_cols=142  Identities=20%  Similarity=0.179  Sum_probs=110.8

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCC---------ccccccCC-
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSA---------SEYRPLNG-  113 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~---------~~~~~~~~-  113 (494)
                      .+....+..+|+.+...|+.++|+-+|..|..+.|.+...|.++--+|...+++.++.--+.         ..--.+++ 
T Consensus       331 ~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~~~~sA~~LtL~g~  410 (564)
T KOG1174|consen  331 PRNHEALILKGRLLIALERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRLFQNSARSLTLFGT  410 (564)
T ss_pred             cccchHHHhccHHHHhccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHHhhcchhhhhhhcc
Confidence            44567899999999999999999999999999999999999999999988777644332111         11111232 


Q ss_pred             ----CCCchhHHHHHHHHHHHhhccccchHH---------------------------------HHHHHHHHHHHHHHHH
Q 011050          114 ----LDPTTHAELALKDAEKLLNLQSNSMKS---------------------------------HLLKANALILLERYDM  156 (494)
Q Consensus       114 ----~~~~~~~~~a~~~~~~al~l~p~~~~a---------------------------------~~~~g~~~~~~~~~~~  156 (494)
                          .||.+. ++|-+.+++++.++|.+..|                                 |..+|.++.....+.+
T Consensus       411 ~V~~~dp~~r-EKAKkf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D~~LH~~Lgd~~~A~Ne~Q~  489 (564)
T KOG1174|consen  411 LVLFPDPRMR-EKAKKFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFPDVNLHNHLGDIMRAQNEPQK  489 (564)
T ss_pred             eeeccCchhH-HHHHHHHHhhhccCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhccccHHHHHHHHHHHHhhhHHH
Confidence                222221 67888899999999987765                                 5667777777888999


Q ss_pred             HHHHHHccccCCCCCchhHHHHHHHHhhhh
Q 011050          157 ARDAILSGLQVDPFSNPLQASLQNLERTTA  186 (494)
Q Consensus       157 A~~~~~~al~l~p~~~~~~~~~~~~~~~~~  186 (494)
                      |+++|.+||++||.+....+.++.+++...
T Consensus       490 am~~y~~ALr~dP~~~~sl~Gl~~lEK~~~  519 (564)
T KOG1174|consen  490 AMEYYYKALRQDPKSKRTLRGLRLLEKSDD  519 (564)
T ss_pred             HHHHHHHHHhcCccchHHHHHHHHHHhccC
Confidence            999999999999999999999999988776

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.37  E-value=1.5e-06  Score=91.60  Aligned_cols=127  Identities=14%  Similarity=0.134  Sum_probs=94.0

Q ss_pred             HHHHHHHHHHHHHHhcC---hHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCC----CCCcccccc-----CC
Q 011050           46 HVFDLVQKGNRAFRESN---FEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRP----PSASEYRPL-----NG  113 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~---~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~~~~-----~~  113 (494)
                      .+..++.+|..++..++   +.+|+.+|.+|++++|+++.+|..+|.+|.....|.-..+    .+.......     ..
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            46788899999887655   8899999999999999999999999998877655511000    000000011     11


Q ss_pred             CCC------------chhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCch
Q 011050          114 LDP------------TTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (494)
Q Consensus       114 ~~~------------~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~  173 (494)
                      .++            +...++|...+++|+.++| +..+|..+|.++...|++++|++.|.+|++++|.++.
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            111            2233788889999999999 4789999999999999999999999999999998774

>PRK11906 transcriptional regulator; Provisional

Probab=98.37  E-value=2.6e-06  Score=85.86  Aligned_cols=118  Identities=9%  Similarity=-0.037  Sum_probs=100.1

Q ss_pred             HHHHHHHHHHHhcCh---HHHHHHHHHHh---ccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHH
Q 011050           49 DLVQKGNRAFRESNF---EEAISNYSRAN---NIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (494)
Q Consensus        49 ~~~~~g~~~~~~~~~---~~Ai~~y~~al---~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (494)
                      ++..+|...+.++.-   +.|+..+.+|+   .++|..+.+|..+|.|++.....            -|  .++...+.+
T Consensus       257 d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~------------g~--~~~~~~~~~  322 (458)
T PRK11906        257 DEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALH------------GK--SELELAAQK  322 (458)
T ss_pred             HHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHh------------cC--CCchHHHHH
Confidence            667788888766544   47899999999   99999999999999999876543            11  225666689


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHH
Q 011050          123 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (494)
Q Consensus       123 a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~  180 (494)
                      |.+.+++|+++||.++.|++.+|.++...++++.|...|++|+.++|+.+.++-...-
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            9999999999999999999999999999999999999999999999999987665544

>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.32  E-value=3.2e-07  Score=92.06  Aligned_cols=53  Identities=32%  Similarity=0.862  Sum_probs=44.2

Q ss_pred             ccccccccccccCcEEcCCCCcccHhhHHHhccCC-----CCCCCCCcccccCCCCCccc
Q 011050          202 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRG-----NKCPLCRAVLFITPRTCAVS  256 (494)
Q Consensus       202 ~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~~-----~~CP~Cr~~~~~~~~~~~~~  256 (494)
                      +..||||++...-|+.+.|||.||..||...|..+     ..||+|+..+.+  +++.+-
T Consensus       186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~--kdl~pv  243 (513)
T KOG2164|consen  186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL--KDLLPV  243 (513)
T ss_pred             CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccc--cceeee
Confidence            78899999999999999999999999999987644     469999998753  444443

>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]

Probab=98.31  E-value=2.4e-07  Score=88.00  Aligned_cols=74  Identities=30%  Similarity=0.592  Sum_probs=64.1

Q ss_pred             CCCcccccccccccccCcEEc-CCCCcccHhhHHHhccCCCCCCCCCcccccCC--CCCcccccHHHHHHHhChHHH
Q 011050          198 ERTDDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDRGNKCPLCRAVLFITP--RTCAVSVTLNSIIQKNFPEEY  271 (494)
Q Consensus       198 ~~~~~~~C~iC~~~~~~Pv~~-~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~~~~--~~~~~~~~l~~~~~~~~p~~~  271 (494)
                      ....+.+|.+|..+|.++.++ .|=||||++||..++.....||.|...+....  .++..+..|++++.+++|.-+
T Consensus        11 ~~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~pl~ni~~DrtlqdiVyKLVPgl~   87 (331)
T KOG2660|consen   11 ELNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKTHPLLNIRSDRTLQDIVYKLVPGLQ   87 (331)
T ss_pred             hcccceehhhccceeecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccCccccccCCcchHHHHHHHHHcchHH
Confidence            345788999999999999875 89999999999999998889999999875432  467788999999999999865

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=98.31  E-value=2.7e-06  Score=87.00  Aligned_cols=108  Identities=18%  Similarity=0.137  Sum_probs=81.1

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (494)
                      ..+...|..++..|+|++|+..|.++++.+|.+..++..++.++.+.|++                       ++|++.+
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            45666788888888888888888888888888888888888888888888                       7777777


Q ss_pred             HHHhhccccch-----HHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHH
Q 011050          128 EKLLNLQSNSM-----KSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASL  178 (494)
Q Consensus       128 ~~al~l~p~~~-----~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~  178 (494)
                      +++++.+|.+.     ..+..+|.++...|++++|+..|.++++++|++..+...+
T Consensus       165 ~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l  220 (389)
T PRK11788        165 ERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAADPQCVRASILL  220 (389)
T ss_pred             HHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcCCHHHHHHH
Confidence            77777766542     2345667777777888888888888877777766544443

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

Probab=98.30  E-value=2.8e-06  Score=85.25  Aligned_cols=120  Identities=17%  Similarity=0.102  Sum_probs=105.2

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      ....+..+...+..|++++|...++..+...|+|+.++..++.+++..++.                       .+|.+.
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            345667788889999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhhhh
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLI  189 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~  189 (494)
                      +++++.++|+.+-..+.+|++|...|++.+|+..++..+.-+|+++..|..+.+....+.+..
T Consensus       363 ~~kal~l~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~  425 (484)
T COG4783         363 LKKALALDPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRA  425 (484)
T ss_pred             HHHHHhcCCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchH
Confidence            999999999998889999999999999999999999999999999998888776655554433

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=98.30  E-value=1.4e-06  Score=87.71  Aligned_cols=71  Identities=14%  Similarity=0.089  Sum_probs=65.3

Q ss_pred             hhhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCccc---ccChhHHHHHHHhhhccCCCCCccccccCCCCCc
Q 011050           41 WDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIV---LGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPT  117 (494)
Q Consensus        41 ~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (494)
                      ...+..+..+.+.|..++..|+|++|+..|++|++++|++..+   |+|+|.+|..+|++                    
T Consensus        69 ~~dP~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~--------------------  128 (453)
T PLN03098         69 EADVKTAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEG--------------------  128 (453)
T ss_pred             cCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCH--------------------
Confidence            3556678999999999999999999999999999999999855   99999999999999                    


Q ss_pred             hhHHHHHHHHHHHhhcc
Q 011050          118 THAELALKDAEKLLNLQ  134 (494)
Q Consensus       118 ~~~~~a~~~~~~al~l~  134 (494)
                         ++|+..+++|+++.
T Consensus       129 ---dEAla~LrrALels  142 (453)
T PLN03098        129 ---KKAADCLRTALRDY  142 (453)
T ss_pred             ---HHHHHHHHHHHHhc
Confidence               99999999999983

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

Probab=98.29  E-value=4.6e-06  Score=77.39  Aligned_cols=113  Identities=19%  Similarity=0.187  Sum_probs=91.9

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc---ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (494)
                      .+..+...|..++..|+|.+|+..|++.+...|...   .+...+|.++++.++|                       .+
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   7888999999999999                       99


Q ss_pred             HHHHHHHHhhccccch---HHHHHHHHHHHHHH-----------HHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          123 ALKDAEKLLNLQSNSM---KSHLLKANALILLE-----------RYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       123 a~~~~~~al~l~p~~~---~a~~~~g~~~~~~~-----------~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      |+..++..++..|+++   .++|.+|.+++.+.           ...+|+..|+..++..|++.-+..+...+
T Consensus        61 A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~~~~~~~~~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l  133 (203)
T PF13525_consen   61 AIAAYERFIKLYPNSPKADYALYMLGLSYYKQIPGILRSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRL  133 (203)
T ss_dssp             HHHHHHHHHHH-TT-TTHHHHHHHHHHHHHHHHHHHH-TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCCcchhhHHHHHHHHHHHhCccchhcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHH
Confidence            9999999999998765   58999999976654           34589999999999999988666554443

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=98.28  E-value=2e-06  Score=100.12  Aligned_cols=101  Identities=15%  Similarity=0.061  Sum_probs=89.4

Q ss_pred             HHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHH
Q 011050           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (494)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (494)
                      .+...|..+.+.|++++|+..|.++++.+|+++.++.++|.+|...|++                       ++|+..++
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            4556788888899999999999999999999999999999999999999                       99999999


Q ss_pred             HHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCc
Q 011050          129 KLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (494)
Q Consensus       129 ~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~  172 (494)
                      ++++.+|+++.++..+|.++..+|++++|++.|++++...|+++
T Consensus       662 ~ll~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~  705 (1157)
T PRK11447        662 KLPATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQP  705 (1157)
T ss_pred             HHhccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCC
Confidence            99999999999999999999999999999999999988877654

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=98.27  E-value=6.5e-07  Score=89.99  Aligned_cols=69  Identities=19%  Similarity=0.060  Sum_probs=66.3

Q ss_pred             cCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHH---HHHHHHHHHHHH
Q 011050           76 IKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKS---HLLKANALILLE  152 (494)
Q Consensus        76 ~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a---~~~~g~~~~~~~  152 (494)
                      .+|+++.+|.|+|.+|+.+|+|                       ++|+..+++|++++|++..+   ||++|.+|..+|
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            5888999999999999999999                       99999999999999999865   999999999999


Q ss_pred             HHHHHHHHHHccccC
Q 011050          153 RYDMARDAILSGLQV  167 (494)
Q Consensus       153 ~~~~A~~~~~~al~l  167 (494)
                      ++++|+++|++|+++
T Consensus       127 r~dEAla~LrrALel  141 (453)
T PLN03098        127 EGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHh
Confidence            999999999999997

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

Probab=98.26  E-value=3.5e-06  Score=84.54  Aligned_cols=118  Identities=17%  Similarity=0.121  Sum_probs=107.3

Q ss_pred             HHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHH
Q 011050           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (494)
                      ++..-+...+..+++.++..+|++.+.+++.++|+.+.+..++|.+|++.|++                       .+|+
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            34455667899999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhh
Q 011050          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (494)
Q Consensus       125 ~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~  185 (494)
                      ..++..+.-+|+++..|..+|.+|..+|+-.+|...+-+++.+......+...+....+.+
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            9999999999999999999999999999999999999999999988888777766665554

>smart00184 RING Ring finger

Probab=98.25  E-value=7e-07  Score=58.65  Aligned_cols=38  Identities=47%  Similarity=1.315  Sum_probs=33.8

Q ss_pred             cccccccccCcEEcCCCCcccHhhHHHhcc-CCCCCCCC
Q 011050          205 CTLCLKLLYEPITTPCGHSFCRSCLFQSMD-RGNKCPLC  242 (494)
Q Consensus       205 C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~-~~~~CP~C  242 (494)
                      |++|++....++.++|||.||..|+..|+. ....||.|
T Consensus         1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCCCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            789999989999999999999999999987 44569987

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)

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

Probab=98.25  E-value=3.3e-06  Score=73.90  Aligned_cols=95  Identities=18%  Similarity=0.254  Sum_probs=79.9

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC---cccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      ....+..|..++..|+|++|+..|.+++...|+.   ..+..++|.+++..|+|                       ++|
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            5667789999999999999999999999987654   36778889999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccc
Q 011050          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGL  165 (494)
Q Consensus       124 ~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al  165 (494)
                      +..++.. .-.+-.+.++..+|.+|...|++++|+..|++||
T Consensus       105 l~~L~~~-~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~Al  145 (145)
T PF09976_consen  105 LATLQQI-PDEAFKALAAELLGDIYLAQGDYDEARAAYQKAL  145 (145)
T ss_pred             HHHHHhc-cCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHhC
Confidence            9988663 3344556788889999999999999999999875

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

Probab=98.24  E-value=2.7e-06  Score=85.93  Aligned_cols=84  Identities=14%  Similarity=0.183  Sum_probs=78.2

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      .+..+..+|..++..|+|++|+..+.+|+.++|+++.+|+++|.+|+.+|+|                       .+|+.
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            3567889999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHH
Q 011050          126 DAEKLLNLQSNSMKSHLLKANALILLE  152 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~~~~  152 (494)
                      .+++++.++|++..++.+++.+...+.
T Consensus        92 ~~~~al~l~P~~~~~~~~l~~~~~kl~  118 (356)
T PLN03088         92 ALEKGASLAPGDSRFTKLIKECDEKIA  118 (356)
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHHH
Confidence            999999999999999999888875553

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=98.22  E-value=5.6e-06  Score=77.93  Aligned_cols=112  Identities=13%  Similarity=0.066  Sum_probs=100.9

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC---cccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      +..+.+.|..+++.|+|..|...|..-++.-|++   +.+++.+|.+++.+|+|                       ..|
T Consensus       141 ~~~~Y~~A~~~~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y-----------------------~~A  197 (262)
T COG1729         141 ATKLYNAALDLYKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDY-----------------------EDA  197 (262)
T ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccc-----------------------hHH
Confidence            3558899999999999999999999999998886   48999999999999999                       999


Q ss_pred             HHHHHHHhhccccc---hHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          124 LKDAEKLLNLQSNS---MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       124 ~~~~~~al~l~p~~---~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      ...+..+++-.|++   +++++.+|.++..+|+-++|...|.++++..|+...+..+...+
T Consensus       198 a~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d~A~atl~qv~k~YP~t~aA~~Ak~~~  258 (262)
T COG1729         198 AYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTDEACATLQQVIKRYPGTDAAKLAKVAL  258 (262)
T ss_pred             HHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            99999998877655   56799999999999999999999999999999999887766555

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

Probab=98.22  E-value=1.2e-06  Score=78.90  Aligned_cols=106  Identities=24%  Similarity=0.230  Sum_probs=99.2

Q ss_pred             HHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHH
Q 011050           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (494)
                      ..|.-++++|+-|=.-|-..-|...|++++.+.|+-+.++.-+|.-+...|+|                       +.|.
T Consensus        63 eRA~l~fERGvlYDSlGL~~LAR~DftQaLai~P~m~~vfNyLG~Yl~~a~~f-----------------------daa~  119 (297)
T COG4785          63 ERAQLLFERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNF-----------------------DAAY  119 (297)
T ss_pred             HHHHHHHHhcchhhhhhHHHHHhhhhhhhhhcCCCcHHHHHHHHHHHHhcccc-----------------------hHHH
Confidence            34677888888888888888999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCch
Q 011050          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (494)
Q Consensus       125 ~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~  173 (494)
                      +.++-.+++||.+-.|+.++|.+++-.|+|.-|.+++.+-.+-||+++-
T Consensus       120 eaFds~~ELDp~y~Ya~lNRgi~~YY~gR~~LAq~d~~~fYQ~D~~DPf  168 (297)
T COG4785         120 EAFDSVLELDPTYNYAHLNRGIALYYGGRYKLAQDDLLAFYQDDPNDPF  168 (297)
T ss_pred             HHhhhHhccCCcchHHHhccceeeeecCchHhhHHHHHHHHhcCCCChH
Confidence            9999999999999999999999999999999999999999999999884

>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.22  E-value=6.8e-07  Score=88.97  Aligned_cols=64  Identities=34%  Similarity=0.868  Sum_probs=53.0

Q ss_pred             CCcccccccccccccCcEEcCCCCcccHhhHHHhccCCCCCCCCCcccccCCCCCcccccHHHHHHHh
Q 011050          199 RTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKN  266 (494)
Q Consensus       199 ~~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~  266 (494)
                      ....+.|+||++.|.+|+.++|||+||..|+..++.....||.||. ..   .++..|..+.+++..+
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            4478899999999999988999999999999998884457999995 32   2556788888887764

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.22  E-value=5.9e-06  Score=78.71  Aligned_cols=113  Identities=14%  Similarity=0.162  Sum_probs=94.6

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccc---cChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVL---GNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (494)
                      .+..+...|..++.+|+|++|+..|.+.+...|..+.+.   .++|.+|++.++|                       .+
T Consensus        31 ~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y-----------------------~~   87 (243)
T PRK10866         31 PPSEIYATAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADL-----------------------PL   87 (243)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCH-----------------------HH
Confidence            356788899999999999999999999999999887444   8899999999999                       99


Q ss_pred             HHHHHHHHhhccccch---HHHHHHHHHHHHHH------------------HHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          123 ALKDAEKLLNLQSNSM---KSHLLKANALILLE------------------RYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       123 a~~~~~~al~l~p~~~---~a~~~~g~~~~~~~------------------~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      |+..+++.+++.|+++   .++|.+|.++..++                  .-.+|+..|+..++.-|+..-+.++...+
T Consensus        88 A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~yP~S~ya~~A~~rl  167 (243)
T PRK10866         88 AQAAIDRFIRLNPTHPNIDYVLYMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRGYPNSQYTTDATKRL  167 (243)
T ss_pred             HHHHHHHHHHhCcCCCchHHHHHHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHHCcCChhHHHHHHHH
Confidence            9999999999998764   57899998864443                  23578899999999999887665554433

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

Probab=98.21  E-value=4.2e-06  Score=94.26  Aligned_cols=108  Identities=20%  Similarity=0.266  Sum_probs=74.1

Q ss_pred             HHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHH
Q 011050           50 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  129 (494)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  129 (494)
                      +...|..+...|++++|+..|.+++...|.++.+|..+|.++...|++                       ++|+..+++
T Consensus       570 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----------------------~~A~~~~~~  626 (899)
T TIGR02917       570 ALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDL-----------------------NKAVSSFKK  626 (899)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCH-----------------------HHHHHHHHH
Confidence            344555666666777777777777666666666677777777777777                       777777777


Q ss_pred             HhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHH
Q 011050          130 LLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (494)
Q Consensus       130 al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~  180 (494)
                      +++.+|.++.+++.+|.+|...|++++|+..|+++++.+|++..++..+..
T Consensus       627 ~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  677 (899)
T TIGR02917       627 LLALQPDSALALLLLADAYAVMKNYAKAITSLKRALELKPDNTEAQIGLAQ  677 (899)
T ss_pred             HHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHH
Confidence            777777777777777777777777777777777777777776655544433

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.

>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.21  E-value=5.3e-07  Score=84.18  Aligned_cols=105  Identities=22%  Similarity=0.443  Sum_probs=81.2

Q ss_pred             HhhccccchHHHHHHHHH-HHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhhhhccccCCCCCCCcccccccc
Q 011050          130 LLNLQSNSMKSHLLKANA-LILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLC  208 (494)
Q Consensus       130 al~l~p~~~~a~~~~g~~-~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~iC  208 (494)
                      .+...|+-.+-|-..|.+ |.....|-.-..+|..+++|+-++.+.+..             ......-...-.+.|-||
T Consensus       181 ~~d~qpDicKdykeTgycg~gdSckFlh~r~DyK~GWqi~~e~d~~ke~-------------~~~~~~D~~~~Pf~c~ic  247 (313)
T KOG1813|consen  181 RIDYQPDICKDYKETGYCGYGDSCKFLHDRSDYKAGWQIEFEWDSAKEK-------------KRVKIEDIELLPFKCFIC  247 (313)
T ss_pred             eeecCchhhhhhHhhCcccccchhhhhhhhhhccccceeehhhhccccc-------------cceecCCcccCCcccccc
Confidence            345567777777777776 556777888889999999998887765411             111112233456789999


Q ss_pred             cccccCcEEcCCCCcccHhhHHHhccCCCCCCCCCcccc
Q 011050          209 LKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (494)
Q Consensus       209 ~~~~~~Pv~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~  247 (494)
                      ...|.+||.+.|||+||..|....+..+..|++|.+.+.
T Consensus       248 r~~f~~pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~  286 (313)
T KOG1813|consen  248 RKYFYRPVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTH  286 (313)
T ss_pred             ccccccchhhcCCceeehhhhccccccCCcceecccccc
Confidence            999999999999999999999999998999999999864

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

Probab=98.19  E-value=4.2e-06  Score=85.34  Aligned_cols=135  Identities=17%  Similarity=0.112  Sum_probs=98.9

Q ss_pred             hhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHH----------hhhccCCCCCcccccc
Q 011050           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRIS----------QFLKHRPPSASEYRPL  111 (494)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~----------~~~~~~~~~~~~~~~~  111 (494)
                      +.+.++++|...|......++-..||..+.++++++|++..++..+|.+|..-|          +|++..+  ...|...
T Consensus       314 qdP~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~Al~~L~~Wi~~~p--~y~~l~~  391 (579)
T KOG1125|consen  314 QDPQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQALKMLDKWIRNKP--KYVHLVS  391 (579)
T ss_pred             hChHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCc--cchhccc
Confidence            456678999999999999999999999999999999999999999999887644          3433332  1111111


Q ss_pred             CCCCC----------chhHHHHHHHHHHHhhccc--cchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHH
Q 011050          112 NGLDP----------TTHAELALKDAEKLLNLQS--NSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASL  178 (494)
Q Consensus       112 ~~~~~----------~~~~~~a~~~~~~al~l~p--~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~  178 (494)
                      .+.+.          -+.-....+.|-.|...+|  .+++.+.-+|..|+..|+|++|++.|+.||+.+|+|..+|.-+
T Consensus       392 a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~v~Pnd~~lWNRL  470 (579)
T KOG1125|consen  392 AGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQVKPNDYLLWNRL  470 (579)
T ss_pred             cCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHHHHHHhcCCchHHHHHHh
Confidence            11111          1112344455666666667  6788888888888888899999999999999888888777654

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

Probab=98.19  E-value=3.6e-06  Score=78.26  Aligned_cols=106  Identities=20%  Similarity=0.246  Sum_probs=96.0

Q ss_pred             HHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHH
Q 011050           51 VQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKL  130 (494)
Q Consensus        51 ~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a  130 (494)
                      ...+..++..|+-+.+.....++....|.+..++...+...+..|+|                       ..|+..++++
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            45677777788888888888888888999988888889999999999                       9999999999


Q ss_pred             hhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHH
Q 011050          131 LNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQ  179 (494)
Q Consensus       131 l~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~  179 (494)
                      ..++|+++++|..+|.+|...|+++.|...|.+++++.|+++.+...+.
T Consensus       127 ~~l~p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlg  175 (257)
T COG5010         127 ARLAPTDWEAWNLLGAALDQLGRFDEARRAYRQALELAPNEPSIANNLG  175 (257)
T ss_pred             hccCCCChhhhhHHHHHHHHccChhHHHHHHHHHHHhccCCchhhhhHH
Confidence            9999999999999999999999999999999999999999998766553

>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=98.17  E-value=1.7e-06  Score=65.84  Aligned_cols=41  Identities=44%  Similarity=1.001  Sum_probs=33.7

Q ss_pred             cccccccccccCc------------E-EcCCCCcccHhhHHHhccCCCCCCCCC
Q 011050          203 FDCTLCLKLLYEP------------I-TTPCGHSFCRSCLFQSMDRGNKCPLCR  243 (494)
Q Consensus       203 ~~C~iC~~~~~~P------------v-~~~cgh~fc~~Cl~~~~~~~~~CP~Cr  243 (494)
                      -.|.||++.+.+|            + ..+|||.|+..||..|+.....||+||
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            3499999998333            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 ....

>KOG1400 consensus Predicted ATP-dependent protease PIL, contains LON domain [General function prediction only]

Probab=98.15  E-value=2.7e-06  Score=81.11  Aligned_cols=213  Identities=16%  Similarity=0.147  Sum_probs=131.1

Q ss_pred             cccccCCccccceee--eccCCCccCccccchhHHHHHHHHHhC--CceEEEEEeCCCCCccccccceEEEEEeeec-CC
Q 011050          281 LINFGVDLMPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEG--NHRMGMVIIDPTTGSVADFACEVEITECEPL-PD  355 (494)
Q Consensus       281 l~~~~~~~lPl~~l~--v~fP~~~~pl~i~~~~~~~~~~~~~~~--~~~~~v~~~~~~~~~~~~iG~~~~I~~~~~~-~d  355 (494)
                      +.......+|+++..  |+|||.++|+.+..|+-+.+++.....  ++.|.+.......+....-+|.++|...... +.
T Consensus        58 ldd~t~~~~p~~~~~~~v~~PgqtLPl~~i~~~~~s~~r~lvs~ar~~~F~vl~r~~v~~re~~r~tt~evd~~R~p~d~  137 (371)
T KOG1400|consen   58 LDDDTTNWIPICGQVMAVLFPGQTLPLKFIDPQERSIVRRLVSSARDNGFVVLFRSDVPERESLRYTTTEVDAYRVPQDN  137 (371)
T ss_pred             ecCCceeeecccCceeeEecCcccCcchhcCHHHHHHHHHHHHhhcCCceEEEecccchHHhhccccceeccccccchhh
Confidence            344455568999975  999999999999999888888888876  6778777765444444445666665532111 21


Q ss_pred             -c--eEEEEEEeccceEEeeee-cCCCeeEEEEEEecCCCCC----C---------------------------cccHHh
Q 011050          356 -G--RFVLEIESRRRFRILRSW-DQDGYRVAEIEWVQDIHPE----G---------------------------VEDRAD  400 (494)
Q Consensus       356 -g--~~~v~~~g~~R~~i~~~~-~~~~~~~a~ve~l~d~~~~----~---------------------------~~~~~~  400 (494)
                       |  -..+...|+.|++++++. +..|.-.|+|+.+|+....    .                           .+.+.-
T Consensus       138 Fgn~l~~~~~~G~y~~~vl~lR~qs~g~~e~~~qL~P~~~i~~~~~Sf~~~~avq~~~~n~~~ia~~~n~~p~s~e~dm~  217 (371)
T KOG1400|consen  138 FGNALSMVKAMGRYRCKVLKLRTQSLGRGEAEVQLLPDVEIPCLLPSFIPKSAVQLPAHNKCSIATRINGYPFSAERDMT  217 (371)
T ss_pred             hhhhhhhhhhhcccccceeeecccCCCcccceEEeccccccccccccccchhhheecccCcceeccCCCCCccccccchh
Confidence             3  344556799999999985 4556677888877742100    0                           000000


Q ss_pred             HHHHHHHHHH----------HHHHHHHHHH---HHHHHhHHHHHHHhhhhcCCCCCCCcchhHHHHHhcCCCChHHHhhh
Q 011050          401 LQDLTNNAAE----------YARLWLRREK---ESARQDRRRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLEL  467 (494)
Q Consensus       401 l~~l~~~~~~----------~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~ia~~l~l~~~~kq~L  467 (494)
                      -.+....+..          ....|.....   -++.....+...|.+..+.-..+..|..|++++|+.+++...-+++|
T Consensus       218 sla~f~~i~sls~~h~~~ll~~~~was~tyqSy~la~rivenarl~yE~lk~ds~~~kpivlSf~~a~kihv~e~~~~hL  297 (371)
T KOG1400|consen  218 SLAVFRQIGSLSGFHGDDLLSWPKWASLTYQSYFLAKRIVENARLWYELLKEDSAPGKPIVLSFKYAWKIHVCERCREHL  297 (371)
T ss_pred             hhhhheehhhhhhhcccccccccccchHHHHHHHHHHHHHHHHHHHHHhccccccCCCceEeehhhhhhhhhhHHHHHHH
Confidence            0000000000          0001111100   01111111122333332222345679999999999999999999999


Q ss_pred             ccCCCHHHHHHHHHHHHHhhhccccC
Q 011050          468 LRIRDTRERIRRGLIFLRAEEQGCRL  493 (494)
Q Consensus       468 Le~~d~~~Rl~~l~~~L~~~~~~~~~  493 (494)
                      |.+.++.-|+.+.+..++++.--||.
T Consensus       298 ~~~g~v~tRlq~e~~~~~k~ti~fCk  323 (371)
T KOG1400|consen  298 LWEGSVMTRLQREFFGIQKETITFCK  323 (371)
T ss_pred             HhhcccccchheeeecccchhhhhhH
Confidence            99999999999999999998877765

>PRK14574 hmsH outer membrane protein; Provisional

Probab=98.15  E-value=7.4e-06  Score=90.63  Aligned_cols=110  Identities=13%  Similarity=-0.004  Sum_probs=81.3

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      .+.....+|...+++|+|+.|+..|.++++.+|+++.+....+.++...|++                       .+|+.
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            3457788899999999999999999999999999863333667777777877                       77777


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHH
Q 011050          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASL  178 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~  178 (494)
                      .+++++.-+|.+..++..+|.+|..+|+|++|++.|+++++.+|+++++...+
T Consensus        90 ~~eka~~p~n~~~~~llalA~ly~~~gdyd~Aiely~kaL~~dP~n~~~l~gL  142 (822)
T PRK14574         90 VYERYQSSMNISSRGLASAARAYRNEKRWDQALALWQSSLKKDPTNPDLISGM  142 (822)
T ss_pred             HHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHH
Confidence            77777743344444444446677777777777777777777777777665443

>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.11  E-value=5.5e-07  Score=86.03  Aligned_cols=70  Identities=31%  Similarity=0.747  Sum_probs=58.1

Q ss_pred             CCcccccccccccccCcEEc-CCCCcccHhhHHHhccC-CCCCCCCCcccccCCCCCcccccHHHHHHHhChH
Q 011050          199 RTDDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDR-GNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPE  269 (494)
Q Consensus       199 ~~~~~~C~iC~~~~~~Pv~~-~cgh~fc~~Cl~~~~~~-~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~p~  269 (494)
                      ...++.|+||+.+++...++ .|+|.||..||-..+.. ++.||.||+.+.. .+.+..+-....++.+.+|.
T Consensus        40 ~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~S-krsLr~Dp~fdaLis~i~~s  111 (381)
T KOG0311|consen   40 FDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVS-KRSLRIDPNFDALISKIYPS  111 (381)
T ss_pred             hhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccc-cccCCCCccHHHHHHHHhcc
Confidence            44678999999999998775 89999999999888874 5679999999853 36777777778888887776

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.10  E-value=7.8e-06  Score=71.08  Aligned_cols=86  Identities=9%  Similarity=-0.089  Sum_probs=74.8

Q ss_pred             hccC-CCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHH
Q 011050           74 NNIK-PGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLE  152 (494)
Q Consensus        74 l~~~-p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~  152 (494)
                      ..+. ++.-...+.+|..++..|++                       ++|...++-++.+||.+...|+.+|.++..+|
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            3455 55666777788889999999                       99999999999999999999999999999999


Q ss_pred             HHHHHHHHHHccccCCCCCchhHHHHHHHH
Q 011050          153 RYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (494)
Q Consensus       153 ~~~~A~~~~~~al~l~p~~~~~~~~~~~~~  182 (494)
                      +|++|++.|.+|+.++|+++...-....+.
T Consensus        84 ~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~  113 (157)
T PRK15363         84 HWGEAIYAYGRAAQIKIDAPQAPWAAAECY  113 (157)
T ss_pred             hHHHHHHHHHHHHhcCCCCchHHHHHHHHH
Confidence            999999999999999999997655444433

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.08  E-value=3.1e-06  Score=81.15  Aligned_cols=47  Identities=36%  Similarity=0.788  Sum_probs=36.6

Q ss_pred             cccccccccc-cccCcE---E-cCCCCcccHhhHHHhccCC-CCCCCCCcccc
Q 011050          201 DDFDCTLCLK-LLYEPI---T-TPCGHSFCRSCLFQSMDRG-NKCPLCRAVLF  247 (494)
Q Consensus       201 ~~~~C~iC~~-~~~~Pv---~-~~cgh~fc~~Cl~~~~~~~-~~CP~Cr~~~~  247 (494)
                      ++..||+|.. .+.+|-   . .+|||.||.+|+...|..+ ..||.|+.++.
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            4568999997 355663   2 2799999999999977654 47999999874

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).

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

Probab=98.08  E-value=2e-05  Score=77.76  Aligned_cols=98  Identities=14%  Similarity=0.209  Sum_probs=85.4

Q ss_pred             HHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHH
Q 011050           50 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  129 (494)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  129 (494)
                      +.+.+..+.+.++|..|+...+++|.++|+|..+++.||.|+..+++|                       +.|..++++
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            456777788999999999999999999999999999999999999999                       999999999


Q ss_pred             HhhccccchHHHHHHHHHHHHHHHHHH-HHHHHHccccCCCC
Q 011050          130 LLNLQSNSMKSHLLKANALILLERYDM-ARDAILSGLQVDPF  170 (494)
Q Consensus       130 al~l~p~~~~a~~~~g~~~~~~~~~~~-A~~~~~~al~l~p~  170 (494)
                      |++++|.|-.+...+..+-...+++.+ ..+.|...+..-+.
T Consensus       317 a~k~~P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~k~~~  358 (397)
T KOG0543|consen  317 ALKLEPSNKAARAELIKLKQKIREYEEKEKKMYANMFAKLAE  358 (397)
T ss_pred             HHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Confidence            999999998888888887766555555 47788888775543

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=98.07  E-value=1.4e-05  Score=67.02  Aligned_cols=96  Identities=23%  Similarity=0.111  Sum_probs=85.9

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC---cccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (494)
                      ..+++.|..+-..|+.++|+..|.+|+......   ..++.++|.++..+|++                       ++|+
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            356788999999999999999999999976544   47888999999999999                       9999


Q ss_pred             HHHHHHhhcccc---chHHHHHHHHHHHHHHHHHHHHHHHHcccc
Q 011050          125 KDAEKLLNLQSN---SMKSHLLKANALILLERYDMARDAILSGLQ  166 (494)
Q Consensus       125 ~~~~~al~l~p~---~~~a~~~~g~~~~~~~~~~~A~~~~~~al~  166 (494)
                      ..+++++.-.|+   +......++.++...|++++|+..+..++.
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            999999998887   778888899999999999999999988774

>KOG0546 consensus HSP90 co-chaperone CPR7/Cyclophilin [Posttranslational modification, protein turnover, chaperones]

Probab=98.07  E-value=8.3e-06  Score=78.78  Aligned_cols=124  Identities=18%  Similarity=0.224  Sum_probs=104.0

Q ss_pred             hHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCC-------------------CCcccccChhHHHHHHHhhhccCCC
Q 011050           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKP-------------------GDPIVLGNRSSAYIRISQFLKHRPP  103 (494)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p-------------------~~~~~~~~~a~~~~~~~~~~~~~~~  103 (494)
                      ........+..|+..|++++|..|...|.+++..-.                   .....+.|.+.+-++++.+      
T Consensus       218 ~~~~~~~~k~~~~~~~kk~~~~~a~~k~~k~~r~~~~~s~~~~~e~~~~~~~~~~~r~~~~~n~~~~~lk~~~~------  291 (372)
T KOG0546|consen  218 ALEREEKKKNIGNKEFKKQRYREALAKYRKALRYLSEQSRDREKEQENRIPPLRELRFSIRRNLAAVGLKVKGR------  291 (372)
T ss_pred             hhhhhhhhhccchhhhhhccHhHHHHHHHHHhhhhcccccccccccccccccccccccccccchHHhcccccCC------
Confidence            344566778899999999999999999999986521                   1125666777788888888      


Q ss_pred             CCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHh
Q 011050          104 SASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  183 (494)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~  183 (494)
                                       ..|+.....+++.++...++||++|.++..+.++++|..++..+....|+++.+.+.+....+
T Consensus       292 -----------------~~a~~~~~~~~~~~~s~tka~~Rr~~~~~~~~~~~~a~~~~~~a~~~~p~d~~i~~~~~~~~~  354 (372)
T KOG0546|consen  292 -----------------GGARFRTNEALRDERSKTKAHYRRGQAYKLLKNYDEALEDLKKAKQKAPNDKAIEEELENVRQ  354 (372)
T ss_pred             -----------------CcceeccccccccChhhCcHHHHHHhHHHhhhchhhhHHHHHHhhccCcchHHHHHHHHHhhh
Confidence                             788888888888999999999999999999999999999999999999999999888887776


Q ss_pred             hhhhhh
Q 011050          184 TTASLI  189 (494)
Q Consensus       184 ~~~~~~  189 (494)
                      .+....
T Consensus       355 ~~~~~~  360 (372)
T KOG0546|consen  355 KKKQYN  360 (372)
T ss_pred             HHHHHH
Confidence            665544

>PRK14574 hmsH outer membrane protein; Provisional

Probab=98.04  E-value=1.7e-05  Score=87.85  Aligned_cols=107  Identities=13%  Similarity=0.109  Sum_probs=86.4

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (494)
                      ..+...|..+..+|+|++|+..|.++++.+|+++.++..++..|...+++                       .+|++.+
T Consensus       103 ~~llalA~ly~~~gdyd~Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~-----------------------~eAl~~l  159 (822)
T PRK14574        103 RGLASAARAYRNEKRWDQALALWQSSLKKDPTNPDLISGMIMTQADAGRG-----------------------GVVLKQA  159 (822)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCH-----------------------HHHHHHH
Confidence            44455577888889999999999999999999999998888888888888                       9999999


Q ss_pred             HHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHH
Q 011050          128 EKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASL  178 (494)
Q Consensus       128 ~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~  178 (494)
                      .+++..+|.+... ..++.++..++++.+|+..|+++++++|++.++...+
T Consensus       160 ~~l~~~dp~~~~~-l~layL~~~~~~~~~AL~~~ekll~~~P~n~e~~~~~  209 (822)
T PRK14574        160 TELAERDPTVQNY-MTLSYLNRATDRNYDALQASSEAVRLAPTSEEVLKNH  209 (822)
T ss_pred             HHhcccCcchHHH-HHHHHHHHhcchHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            9999999985443 4455555557777779999999999999988764433

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

Probab=98.02  E-value=2.5e-05  Score=79.62  Aligned_cols=115  Identities=23%  Similarity=0.215  Sum_probs=93.9

Q ss_pred             HHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHH
Q 011050           51 VQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKL  130 (494)
Q Consensus        51 ~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a  130 (494)
                      +=-|..+...+++.-|-..|.+|+.+.|+++.++.-.|.+.+..+.|                       .+|+..++++
T Consensus       384 LYlgmey~~t~n~kLAe~Ff~~A~ai~P~Dplv~~Elgvvay~~~~y-----------------------~~A~~~f~~~  440 (611)
T KOG1173|consen  384 LYLGMEYMRTNNLKLAEKFFKQALAIAPSDPLVLHELGVVAYTYEEY-----------------------PEALKYFQKA  440 (611)
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhcCCCcchhhhhhhheeehHhhh-----------------------HHHHHHHHHH
Confidence            34577777778888888888888888888888888888888888888                       9999999999


Q ss_pred             hhc----c---ccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhhh
Q 011050          131 LNL----Q---SNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  188 (494)
Q Consensus       131 l~l----~---p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~  188 (494)
                      +..    +   +.+...+.++|.+|..++++++|+..|+++|.+.|.+...+..+.-+...+++.
T Consensus       441 l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~k~~~~~asig~iy~llgnl  505 (611)
T KOG1173|consen  441 LEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSPKDASTHASIGYIYHLLGNL  505 (611)
T ss_pred             HHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCCCchhHHHHHHHHHHHhcCh
Confidence            832    2   235667889999999999999999999999999999998877766555444443

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

Probab=98.01  E-value=4.6e-05  Score=82.14  Aligned_cols=114  Identities=17%  Similarity=0.159  Sum_probs=103.0

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC-cccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHH
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD-PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (494)
                      .-.+..++..|..+..+|+|++|-.+|.+++..+|++ .-.++++|+.|+..|++                       ..
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            3456789999999999999999999999999999998 78899999999999999                       99


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHHHH----HHHHHHHHHHccccCCCCCchhHHHHHH
Q 011050          123 ALKDAEKLLNLQSNSMKSHLLKANALILLE----RYDMARDAILSGLQVDPFSNPLQASLQN  180 (494)
Q Consensus       123 a~~~~~~al~l~p~~~~a~~~~g~~~~~~~----~~~~A~~~~~~al~l~p~~~~~~~~~~~  180 (494)
                      |..-+++++...|++.+....+|..|...+    ..++|.....++++..|.+.+++-.+..
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    6788999999999999998877665543

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

Probab=98.01  E-value=7.3e-06  Score=77.68  Aligned_cols=83  Identities=18%  Similarity=0.225  Sum_probs=71.5

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (494)
                      --|-.+|-.|.+-|.|+.|+.....||.+||....+|..+|.+|+.+|+|                       .+|++.|
T Consensus       116 VyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~-----------------------~~A~~ay  172 (304)
T KOG0553|consen  116 VYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKY-----------------------EEAIEAY  172 (304)
T ss_pred             hHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcH-----------------------HHHHHHH
Confidence            34567888999999999999999999999999999999999999999999                       9999999


Q ss_pred             HHHhhccccchHHHHHHHHHHHHHHH
Q 011050          128 EKLLNLQSNSMKSHLLKANALILLER  153 (494)
Q Consensus       128 ~~al~l~p~~~~a~~~~g~~~~~~~~  153 (494)
                      .|||+++|++....-.+..+-..+++
T Consensus       173 kKaLeldP~Ne~~K~nL~~Ae~~l~e  198 (304)
T KOG0553|consen  173 KKALELDPDNESYKSNLKIAEQKLNE  198 (304)
T ss_pred             HhhhccCCCcHHHHHHHHHHHHHhcC
Confidence            99999999997555555544444433

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

Probab=97.99  E-value=8e-06  Score=79.75  Aligned_cols=110  Identities=22%  Similarity=0.242  Sum_probs=70.4

Q ss_pred             HHHHHHHHHHhcChHHHHHHHHHHhccC--CCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHH
Q 011050           50 LVQKGNRAFRESNFEEAISNYSRANNIK--PGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (494)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~--p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (494)
                      +......+...++++++...+.++....  +.++.+|..+|.++.+.|++                       ++|++.+
T Consensus       113 l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~-----------------------~~A~~~~  169 (280)
T PF13429_consen  113 LLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDP-----------------------DKALRDY  169 (280)
T ss_dssp             -----H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHH-----------------------HHHHHHH
T ss_pred             hhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCH-----------------------HHHHHHH
Confidence            3344555667777777777777766544  56677777788888888887                       7888888


Q ss_pred             HHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHH
Q 011050          128 EKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (494)
Q Consensus       128 ~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~  182 (494)
                      +++++++|++..+...++.++...|+++++...+....+..|.++.++..+..+.
T Consensus       170 ~~al~~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~  224 (280)
T PF13429_consen  170 RKALELDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAY  224 (280)
T ss_dssp             HHHHHH-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHH
T ss_pred             HHHHHcCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHh
Confidence            8888888888887777777777778887766666666666666666555444333

>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=97.96  E-value=4e-05  Score=59.65  Aligned_cols=76  Identities=24%  Similarity=0.270  Sum_probs=68.0

Q ss_pred             cccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHH
Q 011050           83 VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAIL  162 (494)
Q Consensus        83 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~  162 (494)
                      ++.++|.+++..|++                       .+|+..++++++..|.+..+++.+|.++...+++++|++.+.
T Consensus         2 ~~~~~a~~~~~~~~~-----------------------~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~   58 (100)
T cd00189           2 ALLNLGNLYYKLGDY-----------------------DEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYE   58 (100)
T ss_pred             HHHHHHHHHHHHhcH-----------------------HHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            467789999999999                       999999999999999999999999999999999999999999


Q ss_pred             ccccCCCCCchhHHHHHHH
Q 011050          163 SGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       163 ~al~l~p~~~~~~~~~~~~  181 (494)
                      +++++.|.+..+...+..+
T Consensus        59 ~~~~~~~~~~~~~~~~~~~   77 (100)
T cd00189          59 KALELDPDNAKAYYNLGLA   77 (100)
T ss_pred             HHHhCCCcchhHHHHHHHH
Confidence            9999999888655544433

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

Probab=97.96  E-value=4.5e-05  Score=81.57  Aligned_cols=96  Identities=21%  Similarity=0.192  Sum_probs=83.0

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (494)
                      ..|+.-|....+.|++.+|+-+|++||+.+|.+-..+++|+..|-++|++                       ..|+.-+
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            45667777778889999999999999999999999999999999999999                       9999999


Q ss_pred             HHHhhccc----cchHH-HHHHHHHHHHHHHHHHHHHHHHcccc
Q 011050          128 EKLLNLQS----NSMKS-HLLKANALILLERYDMARDAILSGLQ  166 (494)
Q Consensus       128 ~~al~l~p----~~~~a-~~~~g~~~~~~~~~~~A~~~~~~al~  166 (494)
                      .++++++|    ....+ .+..+..+...++-+.|++.+..++.
T Consensus       265 ~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s  308 (895)
T KOG2076|consen  265 LQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALS  308 (895)
T ss_pred             HHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            99999999    33333 34447778888888999999999987

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=97.96  E-value=3e-05  Score=78.28  Aligned_cols=122  Identities=14%  Similarity=0.055  Sum_probs=78.9

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCC-----------
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDP-----------  116 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------  116 (494)
                      .....+|..++..|++++|+..+.++++.+|++..++.. +..++.++.+.............+...+|           
T Consensus        44 e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~a~  122 (355)
T cd05804          44 ERAHVEALSAWIAGDLPKALALLEQLLDDYPRDLLALKL-HLGAFGLGDFSGMRDHVARVLPLWAPENPDYWYLLGMLAF  122 (355)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHH-hHHHHHhcccccCchhHHHHHhccCcCCCCcHHHHHHHHH
Confidence            445678999999999999999999999999999877665 66666666552222111111111111111           


Q ss_pred             ----chhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCC
Q 011050          117 ----TTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF  170 (494)
Q Consensus       117 ----~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~  170 (494)
                          +....+|+..++++++++|++..++..+|.+|+..|++++|+..+.+++...|.
T Consensus       123 ~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~  180 (355)
T cd05804         123 GLEEAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDC  180 (355)
T ss_pred             HHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCC
Confidence                112256666677777777776666666777777777777777777777666654

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.

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.95  E-value=5.3e-05  Score=70.12  Aligned_cols=109  Identities=17%  Similarity=0.130  Sum_probs=97.0

Q ss_pred             HHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHH
Q 011050           50 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  129 (494)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  129 (494)
                      ...+|..+-..|+|++|+..|+.-++-+|.|..+|-..-.+.-.+|+-                       -+|++....
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            344666777789999999999999999999999988777777778887                       799999999


Q ss_pred             HhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          130 LLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       130 al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      -++..+.+.+||..++.+|...|+|++|.=.|++.+-++|.++-....+..+
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            9999999999999999999999999999999999999999999876665554

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=97.95  E-value=2.5e-05  Score=78.83  Aligned_cols=101  Identities=12%  Similarity=0.009  Sum_probs=90.2

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      ...+...|..+...|++++|+..|.++++++|+++.++..+|.+++..|++                       ++|+..
T Consensus       114 ~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~-----------------------~eA~~~  170 (355)
T cd05804         114 WYLLGMLAFGLEEAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRF-----------------------KEGIAF  170 (355)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCH-----------------------HHHHHH
Confidence            455567888999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccch----HHHHHHHHHHHHHHHHHHHHHHHHccccCCCC
Q 011050          127 AEKLLNLQSNSM----KSHLLKANALILLERYDMARDAILSGLQVDPF  170 (494)
Q Consensus       127 ~~~al~l~p~~~----~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~  170 (494)
                      +.+++...|..+    ..|+.+|.++...|++++|+..|++++...|.
T Consensus       171 l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~  218 (355)
T cd05804         171 MESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAE  218 (355)
T ss_pred             HHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccC
Confidence            999999886432    35668999999999999999999999877764

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.

>PRK11906 transcriptional regulator; Provisional

Probab=97.94  E-value=1.7e-05  Score=80.03  Aligned_cols=91  Identities=15%  Similarity=0.019  Sum_probs=85.3

Q ss_pred             cChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHH
Q 011050           61 SNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKS  140 (494)
Q Consensus        61 ~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a  140 (494)
                      .+-.+|+.+-.+|++++|.|+.++..+|.++...+++                       +.|+..+++|+.++|+++.+
T Consensus       318 ~~~~~a~~~A~rAveld~~Da~a~~~~g~~~~~~~~~-----------------------~~a~~~f~rA~~L~Pn~A~~  374 (458)
T PRK11906        318 LAAQKALELLDYVSDITTVDGKILAIMGLITGLSGQA-----------------------KVSHILFEQAKIHSTDIASL  374 (458)
T ss_pred             HHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHhhcch-----------------------hhHHHHHHHHhhcCCccHHH
Confidence            4456788999999999999999999999999999999                       99999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHccccCCCCCchh
Q 011050          141 HLLKANALILLERYDMARDAILSGLQVDPFSNPL  174 (494)
Q Consensus       141 ~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~  174 (494)
                      |+..|.++...|+.++|++.+++|++++|.-..+
T Consensus       375 ~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~  408 (458)
T PRK11906        375 YYYRALVHFHNEKIEEARICIDKSLQLEPRRRKA  408 (458)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHH
Confidence            9999999999999999999999999999986653

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=97.93  E-value=2.7e-05  Score=81.54  Aligned_cols=105  Identities=14%  Similarity=0.092  Sum_probs=93.7

Q ss_pred             HHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhh
Q 011050           53 KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLN  132 (494)
Q Consensus        53 ~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~  132 (494)
                      .|.-.+..++|++|..++..+++++|-....|+++|-|..+++++                       +.|..+|...+.
T Consensus       491 ~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~-----------------------q~av~aF~rcvt  547 (777)
T KOG1128|consen  491 LALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKE-----------------------QAAVKAFHRCVT  547 (777)
T ss_pred             hccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhh-----------------------HHHHHHHHHHhh
Confidence            344456679999999999999999999999999999999999999                       999999999999


Q ss_pred             ccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHH
Q 011050          133 LQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (494)
Q Consensus       133 l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~  180 (494)
                      ++|++..+|.+++.+|..+++-.+|...+.+|++-+-.+-.+++...-
T Consensus       548 L~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~iWENyml  595 (777)
T KOG1128|consen  548 LEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQIWENYML  595 (777)
T ss_pred             cCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCeeeechhh
Confidence            999999999999999999999999999999999998666666655433

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.92  E-value=1.4e-05  Score=71.79  Aligned_cols=108  Identities=11%  Similarity=0.067  Sum_probs=88.5

Q ss_pred             HHHHHHHhcChHHHHHHHHHHhccCCCC--cccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHH
Q 011050           53 KGNRAFRESNFEEAISNYSRANNIKPGD--PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKL  130 (494)
Q Consensus        53 ~g~~~~~~~~~~~Ai~~y~~al~~~p~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a  130 (494)
                      +.+++|-.+.|..+...+...++..+.+  ..+|.+.|.++...|++                       ++|+..++++
T Consensus         5 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~g~~~~~~g~~-----------------------~~A~~~~~~a   61 (168)
T CHL00033          5 QRNDNFIDKTFTIVADILLRILPTTSGEKEAFTYYRDGMSAQSEGEY-----------------------AEALQNYYEA   61 (168)
T ss_pred             cccccccccccccchhhhhHhccCCchhHHHHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHH
Confidence            4566677777777777776666666655  57778999999999999                       9999999999


Q ss_pred             hhccccc---hHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHh
Q 011050          131 LNLQSNS---MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  183 (494)
Q Consensus       131 l~l~p~~---~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~  183 (494)
                      +.+.|+.   +.+|+.+|.+|..+|++++|+..|.++++++|.+......+..+-.
T Consensus        62 l~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la~i~~  117 (168)
T CHL00033         62 MRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMAVICH  117 (168)
T ss_pred             HhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHH
Confidence            9987763   4589999999999999999999999999999998876655544443

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

Probab=97.91  E-value=4.7e-05  Score=72.74  Aligned_cols=103  Identities=8%  Similarity=0.020  Sum_probs=80.9

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      |.-+=+.|..+....++++|+....+|++.+|++.-+-..+|.++...|+|                       ..|++.
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            344456677777778888888888888888888888888888888888888                       888888


Q ss_pred             HHHHhhccccch-HHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCc
Q 011050          127 AEKLLNLQSNSM-KSHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (494)
Q Consensus       127 ~~~al~l~p~~~-~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~  172 (494)
                      ++.+++.||++. ...-.+..||..+|+.++....+.++.+..+...
T Consensus       237 ~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~  283 (389)
T COG2956         237 LERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGAD  283 (389)
T ss_pred             HHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCcc
Confidence            888888888774 4566777788888888888888888887776654

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=97.88  E-value=4.9e-05  Score=76.91  Aligned_cols=98  Identities=20%  Similarity=0.155  Sum_probs=77.8

Q ss_pred             HHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHh
Q 011050           52 QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLL  131 (494)
Q Consensus        52 ~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al  131 (494)
                      ..+..++..++..+|+....+++...|.++.++..-|..+++.+++                       +.|+..+++|+
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            3566666677778888888888888888888888888888888888                       88888888888


Q ss_pred             hccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCc
Q 011050          132 NLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (494)
Q Consensus       132 ~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~  172 (494)
                      .+.|+..++|+.+|.+|..+|+|+.|+..++.+-...+.++
T Consensus       262 ~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm~~~~~k  302 (395)
T PF09295_consen  262 ELSPSEFETWYQLAECYIQLGDFENALLALNSCPMLTYKDK  302 (395)
T ss_pred             HhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcCCCCccc
Confidence            88888888888888888888888888888776644433333

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=97.85  E-value=5.9e-05  Score=78.06  Aligned_cols=119  Identities=11%  Similarity=0.039  Sum_probs=105.0

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      -..++.++...|..++|.+.+...++.+.-.|....-+...|..+..+|+-                       ++|...
T Consensus         7 E~~lF~~~lk~yE~kQYkkgLK~~~~iL~k~~eHgeslAmkGL~L~~lg~~-----------------------~ea~~~   63 (700)
T KOG1156|consen    7 ENALFRRALKCYETKQYKKGLKLIKQILKKFPEHGESLAMKGLTLNCLGKK-----------------------EEAYEL   63 (700)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHhCCccchhHHhccchhhcccch-----------------------HHHHHH
Confidence            457788888999999999999999999999999998888888888899998                       899999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhhh
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  188 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~  188 (494)
                      .+.+++.|+.+.-.|..+|.++...++|++|++.|..|++++|+|.++...+..++..|...
T Consensus        64 vr~glr~d~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~~dN~qilrDlslLQ~QmRd~  125 (700)
T KOG1156|consen   64 VRLGLRNDLKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIEKDNLQILRDLSLLQIQMRDY  125 (700)
T ss_pred             HHHHhccCcccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHhh
Confidence            99999999999889999999999999999999999999999999999888888777766543

>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]

Probab=97.82  E-value=1.3e-05  Score=84.66  Aligned_cols=75  Identities=28%  Similarity=0.617  Sum_probs=54.0

Q ss_pred             hhHHHHHHHHhhhhhhhccccCCC---------CCCCcccccccccccccCcEEcCCCCcccHhhHHHhcc-CCCCCCCC
Q 011050          173 PLQASLQNLERTTASLIGRRIHGT---------PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD-RGNKCPLC  242 (494)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~-~~~~CP~C  242 (494)
                      .+.+.+..+++.+...++......         .....-+.|+.|..-.++.|++.|||.||..|+..... ....||.|
T Consensus       605 rleEE~e~L~~kle~~k~~~~~~s~d~~L~EElk~yK~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~C  684 (698)
T KOG0978|consen  605 RLEEELERLKRKLERLKKEESGASADEVLAEELKEYKELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQRKCPKC  684 (698)
T ss_pred             HHHHHHHHHHHHHHHhccccccccccHHHHHHHHHHHhceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcCCCCCC
Confidence            445555566666655554332111         11345679999999999999999999999999998776 45689999


Q ss_pred             Ccccc
Q 011050          243 RAVLF  247 (494)
Q Consensus       243 r~~~~  247 (494)
                      +..+.
T Consensus       685 n~aFg  689 (698)
T KOG0978|consen  685 NAAFG  689 (698)
T ss_pred             CCCCC
Confidence            99873

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

Probab=97.81  E-value=9.5e-05  Score=79.75  Aligned_cols=111  Identities=20%  Similarity=0.199  Sum_probs=89.7

Q ss_pred             HHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhc
Q 011050           54 GNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNL  133 (494)
Q Consensus        54 g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l  133 (494)
                      |-.+...|+|..|+..|+++.+.-.++..+|.|+|.||+..|+|                       -.|++.|+.++..
T Consensus       653 giVLA~kg~~~~A~dIFsqVrEa~~~~~dv~lNlah~~~e~~qy-----------------------~~AIqmYe~~lkk  709 (1018)
T KOG2002|consen  653 GIVLAEKGRFSEARDIFSQVREATSDFEDVWLNLAHCYVEQGQY-----------------------RLAIQMYENCLKK  709 (1018)
T ss_pred             hhhhhhccCchHHHHHHHHHHHHHhhCCceeeeHHHHHHHHHHH-----------------------HHHHHHHHHHHHH
Confidence            33445566677777777776666666679999999999999999                       9999999999986


Q ss_pred             c--ccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhh
Q 011050          134 Q--SNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  187 (494)
Q Consensus       134 ~--p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~  187 (494)
                      .  .+.+..+..+|.+++..|.+.+|++++..|+.+.|.|+.+.-.+..+.+.+..
T Consensus       710 f~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~v~kkla~  765 (1018)
T KOG2002|consen  710 FYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLALVLKKLAE  765 (1018)
T ss_pred             hcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHHHHHHHHH
Confidence            4  36788899999999999999999999999999999999876665555554443

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=97.80  E-value=6e-05  Score=82.98  Aligned_cols=127  Identities=9%  Similarity=-0.110  Sum_probs=97.3

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      +..++......+...+++++|+.....+++..|+...+|+..|..+++.+++-   +.+-.   .+..+-+...-..+++
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~l~~q~~~~~---~~~lv---~~l~~~~~~~~~~~ve  103 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGILSLSRRPLN---DSNLL---NLIDSFSQNLKWAIVE  103 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHHHHHhhcchh---hhhhh---hhhhhcccccchhHHH
Confidence            35677778888889999999999999999999999999999999999888861   10000   1111111111135566


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHH
Q 011050          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASL  178 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~  178 (494)
                      ++...+...+.+-.|++.+|.||..+|++++|.+.|+++++++|+|+.+.+.+
T Consensus       104 ~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~n~~aLNn~  156 (906)
T PRK14720        104 HICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKADRDNPEIVKKL  156 (906)
T ss_pred             HHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcccHHHHHHH
Confidence            66666666677778999999999999999999999999999999999765543

>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]

Probab=97.79  E-value=9.8e-06  Score=77.79  Aligned_cols=49  Identities=31%  Similarity=0.770  Sum_probs=41.6

Q ss_pred             CCcccccccccccc-cCc------------EEcCCCCcccHhhHHHhccCCCCCCCCCcccc
Q 011050          199 RTDDFDCTLCLKLL-YEP------------ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (494)
Q Consensus       199 ~~~~~~C~iC~~~~-~~P------------v~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~  247 (494)
                      ..++..|.||.+-+ ..|            ..+||||.++.+|+..|....-.||.||.++.
T Consensus       284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~i  345 (491)
T COG5243         284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVI  345 (491)
T ss_pred             cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccc
Confidence            34678899999874 433            67899999999999999998889999999963

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=97.79  E-value=5.3e-05  Score=73.33  Aligned_cols=97  Identities=22%  Similarity=0.185  Sum_probs=72.0

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc------ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP------IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (494)
                      ......|+.+...+-|+++++.|..|+++.-++.      .++..++..|..+.+|                       +
T Consensus       123 q~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~-----------------------~  179 (518)
T KOG1941|consen  123 QVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDY-----------------------E  179 (518)
T ss_pred             hhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhh-----------------------h
Confidence            4455689999999999999999999998854433      5677788888889998                       7


Q ss_pred             HHHHHHHHHhhcccc----------chHHHHHHHHHHHHHHHHHHHHHHHHccccC
Q 011050          122 LALKDAEKLLNLQSN----------SMKSHLLKANALILLERYDMARDAILSGLQV  167 (494)
Q Consensus       122 ~a~~~~~~al~l~p~----------~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l  167 (494)
                      +|+-...+|.++-..          ...++|.++-+|..+|+.-+|.+..+++.++
T Consensus       180 Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~kl  235 (518)
T KOG1941|consen  180 KALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKL  235 (518)
T ss_pred             HHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHH
Confidence            777777777665321          1235667777777777777777777777665

>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=97.78  E-value=7.6e-06  Score=63.19  Aligned_cols=64  Identities=17%  Similarity=0.249  Sum_probs=55.4

Q ss_pred             cccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhcc-------ccchHHHHHHHHHHHHHHH
Q 011050           81 PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQ-------SNSMKSHLLKANALILLER  153 (494)
Q Consensus        81 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~-------p~~~~a~~~~g~~~~~~~~  153 (494)
                      ..+|.++|.+|..+|+|                       ++|+..+++++++.       |....+++.+|.+|..+|+
T Consensus         5 a~~~~~la~~~~~~~~~-----------------------~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~   61 (78)
T PF13424_consen    5 ANAYNNLARVYRELGRY-----------------------DEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGD   61 (78)
T ss_dssp             HHHHHHHHHHHHHTT-H-----------------------HHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTH
T ss_pred             HHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCC
Confidence            46788999999999999                       99999999999762       3346789999999999999


Q ss_pred             HHHHHHHHHccccC
Q 011050          154 YDMARDAILSGLQV  167 (494)
Q Consensus       154 ~~~A~~~~~~al~l  167 (494)
                      +++|+..+++++++
T Consensus        62 ~~~A~~~~~~al~i   75 (78)
T PF13424_consen   62 YEEALEYYQKALDI   75 (78)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999999999864

...

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.78  E-value=2.3e-05  Score=84.39  Aligned_cols=110  Identities=21%  Similarity=0.132  Sum_probs=100.1

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (494)
                      ..|..+|-.+.+.+++-+|+..++.|++.+|+|..+|..+|.+|...|+|                       ..|++.+
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            45677999999999999999999999999999999999999999999999                       9999999


Q ss_pred             HHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHH
Q 011050          128 EKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (494)
Q Consensus       128 ~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~  180 (494)
                      .||..++|.+..+-|..|...+.+|+|.+|++.+...+.........+..+..
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            99999999999999999999999999999999999988776665555554443

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

Probab=97.77  E-value=9.8e-05  Score=77.87  Aligned_cols=120  Identities=19%  Similarity=0.087  Sum_probs=108.7

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      ..-|...|..+.+.++-++|..+..+|-.++|..+..|+.+|.++...|++                       .+|...
T Consensus       650 ~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~~l~~~~~~~~G~~~~~~~~~-----------------------~EA~~a  706 (799)
T KOG4162|consen  650 QKLWLLAADLFLLSGNDDEARSCLLEASKIDPLSASVYYLRGLLLEVKGQL-----------------------EEAKEA  706 (799)
T ss_pred             HHHHHHHHHHHHhcCCchHHHHHHHHHHhcchhhHHHHHHhhHHHHHHHhh-----------------------HHHHHH
Confidence            345667777777778888999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHHHHHHH--HHHccccCCCCCchhHHHHHHHHhhhhhhh
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARD--AILSGLQVDPFSNPLQASLQNLERTTASLI  189 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~--~~~~al~l~p~~~~~~~~~~~~~~~~~~~~  189 (494)
                      |..|+.+||+++.+...+|.+|...|+..-|.+  .+..++++||.|.++|-.+..+-++.....
T Consensus       707 f~~Al~ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~  771 (799)
T KOG4162|consen  707 FLVALALDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSK  771 (799)
T ss_pred             HHHHHhcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchH
Confidence            999999999999999999999999998887777  999999999999999999988877775544

>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.76  E-value=2.6e-05  Score=76.13  Aligned_cols=45  Identities=24%  Similarity=0.621  Sum_probs=39.0

Q ss_pred             cccccccccccCc---EEcCCCCcccHhhHHHhccCC-CCCCCCCcccc
Q 011050          203 FDCTLCLKLLYEP---ITTPCGHSFCRSCLFQSMDRG-NKCPLCRAVLF  247 (494)
Q Consensus       203 ~~C~iC~~~~~~P---v~~~cgh~fc~~Cl~~~~~~~-~~CP~Cr~~~~  247 (494)
                      ..|.||++-|..-   ..+||+|.|+..|+..|+... ..||+|++...
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            6999999988765   458999999999999999865 56999999764

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=97.72  E-value=2.3e-05  Score=49.93  Aligned_cols=32  Identities=22%  Similarity=0.173  Sum_probs=30.7

Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHHHHHH
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMAR  158 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~  158 (494)
                      +++||+++|+++.+|+++|.+|...|++++|+
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            68999999999999999999999999999986

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

Probab=97.71  E-value=0.00032  Score=72.82  Aligned_cols=139  Identities=22%  Similarity=0.158  Sum_probs=102.3

Q ss_pred             HHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHh-------hhccCCCCCccccc---cCCCCCchhHH
Q 011050           52 QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQ-------FLKHRPPSASEYRP---LNGLDPTTHAE  121 (494)
Q Consensus        52 ~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~-------~~~~~~~~~~~~~~---~~~~~~~~~~~  121 (494)
                      .-+......||...|.....+|++.+|++-.+|..--...+...+       +-+++..+.++.-+   ..-.-.++..+
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            344555677888899999999999999876655432222222111       12222233333222   12222445559


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhhhhc
Q 011050          122 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIG  190 (494)
Q Consensus       122 ~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~  190 (494)
                      +|++.++.+++.-|++.+.|..+|+++..+++.+.|.+.|..+++..|+...++..+.+++++..+..+
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            999999999999999999999999999999999999999999999999999999999999888765544

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=97.69  E-value=2.2e-05  Score=49.99  Aligned_cols=34  Identities=24%  Similarity=0.263  Sum_probs=31.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCC
Q 011050          138 MKSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (494)
Q Consensus       138 ~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~  171 (494)
                      +++|+.+|.+|..+|++++|+.+|++|++++|++
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 ....

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.65  E-value=0.00011  Score=61.06  Aligned_cols=68  Identities=16%  Similarity=0.158  Sum_probs=62.3

Q ss_pred             ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccc---hHHHHHHHHHHHHHHHHHHHH
Q 011050           82 IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNS---MKSHLLKANALILLERYDMAR  158 (494)
Q Consensus        82 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~---~~a~~~~g~~~~~~~~~~~A~  158 (494)
                      ..++..|..+...|++                       ++|+..+.++++.+|++   ..+++.+|.++...|++++|+
T Consensus         3 ~~~~~~~~~~~~~~~~-----------------------~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~   59 (119)
T TIGR02795         3 EAYYDAALLVLKAGDY-----------------------ADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAA   59 (119)
T ss_pred             HHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHH
Confidence            4567888999999999                       99999999999999876   579999999999999999999


Q ss_pred             HHHHccccCCCCCc
Q 011050          159 DAILSGLQVDPFSN  172 (494)
Q Consensus       159 ~~~~~al~l~p~~~  172 (494)
                      ..|+.++..+|++.
T Consensus        60 ~~~~~~~~~~p~~~   73 (119)
T TIGR02795        60 KAFLAVVKKYPKSP   73 (119)
T ss_pred             HHHHHHHHHCCCCC
Confidence            99999999999864

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.

>TIGR00540 hemY_coli hemY protein

Probab=97.64  E-value=0.0003  Score=72.66  Aligned_cols=120  Identities=11%  Similarity=0.070  Sum_probs=102.5

Q ss_pred             hHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHH
Q 011050           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (494)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (494)
                      ..+++.....+|...+..|||+.|.....++.+..|+....+.-.|.++...|++                       +.
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            3446777889999999999999999999999999998888888888999999999                       99


Q ss_pred             HHHHHHHHhhccccch-HHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhh
Q 011050          123 ALKDAEKLLNLQSNSM-KSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (494)
Q Consensus       123 a~~~~~~al~l~p~~~-~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~  185 (494)
                      |.+.+.++.+..|++. ......+.++...|++++|...+++.++.+|+++.+...+..+....
T Consensus       137 A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~~P~~~~~l~ll~~~~~~~  200 (409)
T TIGR00540       137 ANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARHGVDKLLEMAPRHKEVLKLAEEAYIRS  200 (409)
T ss_pred             HHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence            9999999999888875 45555699999999999999999999999999998776665544333

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.

>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.63  E-value=3e-05  Score=72.61  Aligned_cols=45  Identities=29%  Similarity=0.772  Sum_probs=37.6

Q ss_pred             cccccccccccCc---EEcCCCCcccHhhHHHhcc-CCCCCCCCCcccc
Q 011050          203 FDCTLCLKLLYEP---ITTPCGHSFCRSCLFQSMD-RGNKCPLCRAVLF  247 (494)
Q Consensus       203 ~~C~iC~~~~~~P---v~~~cgh~fc~~Cl~~~~~-~~~~CP~Cr~~~~  247 (494)
                      -+|.||++-|..-   +.+||.|.|+..|+.+|.. ....||+||.+++
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            6899999866432   4589999999999999987 5678999999874

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.62  E-value=6.6e-05  Score=67.62  Aligned_cols=82  Identities=12%  Similarity=0.059  Sum_probs=70.4

Q ss_pred             CCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccc---hHHHHHHHHHHHHHHHH
Q 011050           78 PGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNS---MKSHLLKANALILLERY  154 (494)
Q Consensus        78 p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~---~~a~~~~g~~~~~~~~~  154 (494)
                      +..+.+++++|..+...|++                       ++|+..++++++++|+.   ..+++.+|.+|..+|++
T Consensus        32 ~~~a~~~~~lg~~~~~~g~~-----------------------~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~   88 (172)
T PRK02603         32 AKEAFVYYRDGMSAQADGEY-----------------------AEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEH   88 (172)
T ss_pred             hhhHHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCH
Confidence            34567789999999999999                       99999999999987753   56899999999999999


Q ss_pred             HHHHHHHHccccCCCCCchhHHHHHHHH
Q 011050          155 DMARDAILSGLQVDPFSNPLQASLQNLE  182 (494)
Q Consensus       155 ~~A~~~~~~al~l~p~~~~~~~~~~~~~  182 (494)
                      ++|+..|.++++++|.+......+..+-
T Consensus        89 ~~A~~~~~~al~~~p~~~~~~~~lg~~~  116 (172)
T PRK02603         89 DKALEYYHQALELNPKQPSALNNIAVIY  116 (172)
T ss_pred             HHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            9999999999999999877655544443

>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C

Probab=97.59  E-value=3.9e-05  Score=54.98  Aligned_cols=44  Identities=27%  Similarity=0.773  Sum_probs=30.5

Q ss_pred             CCcccccccccccccCcEE-cCCCCcccHhhHHHhccC--CCCCCCC
Q 011050          199 RTDDFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDR--GNKCPLC  242 (494)
Q Consensus       199 ~~~~~~C~iC~~~~~~Pv~-~~cgh~fc~~Cl~~~~~~--~~~CP~C  242 (494)
                      ....+.||+.+..|.+||. ..|||+|.+..|..++..  ...||..
T Consensus         8 ~~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv~   54 (57)
T PF11789_consen    8 GTISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPVA   54 (57)
T ss_dssp             SB--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SCC
T ss_pred             cEeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCCC
Confidence            3457899999999999987 599999999999999943  3459983

>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger

Probab=97.58  E-value=5.2e-05  Score=58.20  Aligned_cols=43  Identities=26%  Similarity=0.671  Sum_probs=31.4

Q ss_pred             ccccccccccC-cEEc-CCCCcccHhhHHHhccCC---CCCCCCCccc
Q 011050          204 DCTLCLKLLYE-PITT-PCGHSFCRSCLFQSMDRG---NKCPLCRAVL  246 (494)
Q Consensus       204 ~C~iC~~~~~~-Pv~~-~cgh~fc~~Cl~~~~~~~---~~CP~Cr~~~  246 (494)
                      .|+.|.....+ |+.. .|+|.|+..||.+|+...   ..||.||++.
T Consensus        34 ~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w   81 (85)
T PF12861_consen   34 CCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPW   81 (85)
T ss_pred             CCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCee
Confidence            35555544434 4433 899999999999999842   4699999975

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.58  E-value=0.00011  Score=79.25  Aligned_cols=130  Identities=12%  Similarity=0.056  Sum_probs=90.5

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhcc-------CCCCCccccc--cCCCCCc
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKH-------RPPSASEYRP--LNGLDPT  117 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~-------~~~~~~~~~~--~~~~~~~  117 (494)
                      +..+--.|..|..--|...|..+|.+|.++|+.++.+....+..|....++-++       .+.+...-..  |-...+-
T Consensus       492 apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~y  571 (1238)
T KOG1127|consen  492 APAFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPY  571 (1238)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhcccc
Confidence            344555677776666777899999999999998886666665555554443111       1111110000  1111111


Q ss_pred             ----hhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHH
Q 011050          118 ----THAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQA  176 (494)
Q Consensus       118 ----~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~  176 (494)
                          ..-..|+.+++-|++.+|++..+|..+|.+|-..|+|..|++.|.+|..++|.+.-.+-
T Consensus       572 yLea~n~h~aV~~fQsALR~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y~~f  634 (1238)
T KOG1127|consen  572 YLEAHNLHGAVCEFQSALRTDPKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSKYGRF  634 (1238)
T ss_pred             ccCccchhhHHHHHHHHhcCCchhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhHHHHH
Confidence                11177899999999999999999999999999999999999999999999998875443

>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=97.57  E-value=5.8e-05  Score=58.16  Aligned_cols=66  Identities=21%  Similarity=0.264  Sum_probs=56.6

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhcc---CC----CCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCch
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNI---KP----GDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT  118 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~---~p----~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (494)
                      .+..+...|..++..|+|++|+.+|.+|+++   .+    .-..++.++|.+|..+|++                     
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            4677889999999999999999999999976   12    2257899999999999999                     


Q ss_pred             hHHHHHHHHHHHhhcc
Q 011050          119 HAELALKDAEKLLNLQ  134 (494)
Q Consensus       119 ~~~~a~~~~~~al~l~  134 (494)
                        ++|+..+++++++.
T Consensus        63 --~~A~~~~~~al~i~   76 (78)
T PF13424_consen   63 --EEALEYYQKALDIF   76 (78)
T ss_dssp             --HHHHHHHHHHHHHH
T ss_pred             --HHHHHHHHHHHhhh
Confidence              99999999998864

...

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=97.56  E-value=5.8e-05  Score=47.86  Aligned_cols=34  Identities=21%  Similarity=0.285  Sum_probs=31.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCC
Q 011050          138 MKSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (494)
Q Consensus       138 ~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~  171 (494)
                      +++++.+|.+|..+|++++|+.+|+++++++|+|
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            4689999999999999999999999999999986

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 ....

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=97.52  E-value=0.00076  Score=63.16  Aligned_cols=109  Identities=20%  Similarity=0.235  Sum_probs=92.1

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc---ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (494)
                      -+..|.++|...++.|+|.+|+..|.......|..+   .+...++.++++.++|                       ++
T Consensus        33 p~~~LY~~g~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y-----------------------~~   89 (254)
T COG4105          33 PASELYNEGLTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEY-----------------------DL   89 (254)
T ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccH-----------------------HH
Confidence            368899999999999999999999999999988765   6777888999999999                       99


Q ss_pred             HHHHHHHHhhccccch---HHHHHHHHHHHH--------HHHHHHHHHHHHccccCCCCCchhHHH
Q 011050          123 ALKDAEKLLNLQSNSM---KSHLLKANALIL--------LERYDMARDAILSGLQVDPFSNPLQAS  177 (494)
Q Consensus       123 a~~~~~~al~l~p~~~---~a~~~~g~~~~~--------~~~~~~A~~~~~~al~l~p~~~~~~~~  177 (494)
                      |+..+++-+.+.|+++   .++|.+|.++..        ..--.+|+..+...++.-|+..=+..+
T Consensus        90 A~~~~drFi~lyP~~~n~dY~~YlkgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~ryPnS~Ya~dA  155 (254)
T COG4105          90 ALAYIDRFIRLYPTHPNADYAYYLKGLSYFFQIDDVTRDQSAARAAFAAFKELVQRYPNSRYAPDA  155 (254)
T ss_pred             HHHHHHHHHHhCCCCCChhHHHHHHHHHHhccCCccccCHHHHHHHHHHHHHHHHHCCCCcchhhH
Confidence            9999999999998765   478888888754        445567888999999999987744333

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

Probab=97.52  E-value=0.0003  Score=62.96  Aligned_cols=70  Identities=23%  Similarity=0.371  Sum_probs=64.5

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (494)
                      --|..+|..+.+.+.++.||...++||+++|.+-.++..||.+|-++..|                       ++|+.||
T Consensus       135 Ily~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~ek~-----------------------eealeDy  191 (271)
T KOG4234|consen  135 ILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEKMEKY-----------------------EEALEDY  191 (271)
T ss_pred             HHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhhhhH-----------------------HHHHHHH
Confidence            34668899999999999999999999999999999999999999999999                       9999999


Q ss_pred             HHHhhccccchHH
Q 011050          128 EKLLNLQSNSMKS  140 (494)
Q Consensus       128 ~~al~l~p~~~~a  140 (494)
                      .+.++++|...+|
T Consensus       192 Kki~E~dPs~~ea  204 (271)
T KOG4234|consen  192 KKILESDPSRREA  204 (271)
T ss_pred             HHHHHhCcchHHH
Confidence            9999999987443

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=97.52  E-value=0.00048  Score=70.85  Aligned_cols=108  Identities=13%  Similarity=0.083  Sum_probs=53.4

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccCh-hHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNR-SSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~-a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (494)
                      ++...+.+|...+..|||++|.....++-+..+. +.+++.. |.+....|++                       +.|.
T Consensus        83 ~~~~~~~~gl~a~~eGd~~~A~k~l~~~~~~~~~-p~l~~llaA~aA~~~g~~-----------------------~~A~  138 (398)
T PRK10747         83 RARKQTEQALLKLAEGDYQQVEKLMTRNADHAEQ-PVVNYLLAAEAAQQRGDE-----------------------ARAN  138 (398)
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcccc-hHHHHHHHHHHHHHCCCH-----------------------HHHH
Confidence            3444555555555556666555444443333222 2333322 2333555555                       5555


Q ss_pred             HHHHHHhhccccchHHH-HHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHH
Q 011050          125 KDAEKLLNLQSNSMKSH-LLKANALILLERYDMARDAILSGLQVDPFSNPLQAS  177 (494)
Q Consensus       125 ~~~~~al~l~p~~~~a~-~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~  177 (494)
                      ..+.++.+.+|++..+. ...+..+...|++++|...+++..+.+|+++.+...
T Consensus       139 ~~l~~A~~~~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~P~~~~al~l  192 (398)
T PRK10747        139 QHLERAAELADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVAPRHPEVLRL  192 (398)
T ss_pred             HHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            55555555555543222 223555555555555555555555555555544433

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.51  E-value=0.00075  Score=64.31  Aligned_cols=129  Identities=19%  Similarity=0.172  Sum_probs=96.3

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc---ccccChhHHHHHHHhhhccCCCCCccccccCCCCC----chhH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDP----TTHA  120 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~  120 (494)
                      ......|..+++.++|++|+..|++.++..|+++   .+++.+|.+++.++.-         -.+..+.+|.    ++.+
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            4567889999999999999999999999999876   5677777776555420         0111222222    2335


Q ss_pred             HHHHHHHHHHhhccccchHH-----------------HHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHh
Q 011050          121 ELALKDAEKLLNLQSNSMKS-----------------HLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  183 (494)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~a-----------------~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~  183 (494)
                      .+|+..++..++.-|++..+                 -+..|.-|...|.|..|+..++.+++--|+.+...+++-.+.+
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            78999999999999876432                 2345666888999999999999999999999988877766654


Q ss_pred             hh
Q 011050          184 TT  185 (494)
Q Consensus       184 ~~  185 (494)
                      .-
T Consensus       221 ay  222 (243)
T PRK10866        221 AY  222 (243)
T ss_pred             HH
Confidence            43

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

Probab=97.48  E-value=0.001  Score=57.99  Aligned_cols=97  Identities=15%  Similarity=0.117  Sum_probs=84.4

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC---cccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhH
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA  120 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (494)
                      ...+...+......+..++..++...+.+.+.-.|+.   ..+...+|.+++..|+|                       
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            3456777888888889999999999999999999988   46677788999999999                       


Q ss_pred             HHHHHHHHHHhhccccc---hHHHHHHHHHHHHHHHHHHHHHHHHc
Q 011050          121 ELALKDAEKLLNLQSNS---MKSHLLKANALILLERYDMARDAILS  163 (494)
Q Consensus       121 ~~a~~~~~~al~l~p~~---~~a~~~~g~~~~~~~~~~~A~~~~~~  163 (494)
                      ++|...++.++...|+.   ..+.+++|.++...|+|++|+..+..
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            99999999999987654   45889999999999999999999976

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=97.48  E-value=0.00072  Score=69.57  Aligned_cols=101  Identities=15%  Similarity=0.114  Sum_probs=87.8

Q ss_pred             HHHHHHHHHHhcChHHHHHHHHHHhccCCCCccccc-ChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHH
Q 011050           50 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLG-NRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (494)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (494)
                      +...+..+...|+++.|..+|.+|.+.+|++..+.. ..+..+...|++                       ++|+..++
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            455567779999999999999999999998764433 348889999999                       99999999


Q ss_pred             HHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCch
Q 011050          129 KLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (494)
Q Consensus       129 ~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~  173 (494)
                      ++.+.+|+++.++..++.+|...|++++|+..+.+..+..+.+++
T Consensus       178 ~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~  222 (398)
T PRK10747        178 KLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEE  222 (398)
T ss_pred             HHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHH
Confidence            999999999999999999999999999999888888777766544

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

Probab=97.47  E-value=0.00041  Score=66.32  Aligned_cols=96  Identities=23%  Similarity=0.197  Sum_probs=83.8

Q ss_pred             hcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchH
Q 011050           60 ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMK  139 (494)
Q Consensus        60 ~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~  139 (494)
                      ..+.++.+......+..+|+|..-|..+|.+|+.++++                       ..|...|++|+++.|+++.
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            34466778888888999999999999999999999999                       9999999999999999999


Q ss_pred             HHHHHHHHHHHHH---HHHHHHHHHHccccCCCCCchhHHHH
Q 011050          140 SHLLKANALILLE---RYDMARDAILSGLQVDPFSNPLQASL  178 (494)
Q Consensus       140 a~~~~g~~~~~~~---~~~~A~~~~~~al~l~p~~~~~~~~~  178 (494)
                      .+..+|.+++...   .-.++...+++++++||+|..+...+
T Consensus       192 ~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~lL  233 (287)
T COG4235         192 ILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALSLL  233 (287)
T ss_pred             HHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHHHH
Confidence            9999999986543   34578999999999999998765544

>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.47  E-value=3.8e-05  Score=81.79  Aligned_cols=48  Identities=44%  Similarity=0.917  Sum_probs=43.3

Q ss_pred             CcccccccccccccC-----cEEcCCCCcccHhhHHHhccCCCCCCCCCcccc
Q 011050          200 TDDFDCTLCLKLLYE-----PITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (494)
Q Consensus       200 ~~~~~C~iC~~~~~~-----Pv~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~  247 (494)
                      ..+..|+||.+.+..     |..++|||.||..|+..|+.....||.||..+.
T Consensus       289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~  341 (543)
T KOG0802|consen  289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLY  341 (543)
T ss_pred             hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhh
Confidence            347789999999999     788999999999999999999999999999553

>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.44  E-value=6.4e-05  Score=70.71  Aligned_cols=47  Identities=28%  Similarity=0.643  Sum_probs=42.0

Q ss_pred             cccccccccccccCcEEcCCCCcccHhhHHHhccCCCC-CCCCCcccc
Q 011050          201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNK-CPLCRAVLF  247 (494)
Q Consensus       201 ~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~~~~-CP~Cr~~~~  247 (494)
                      ...+|+||+.....|+.++|+|-||.-||.+...++.. |++||.++.
T Consensus         6 ~~~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pid   53 (324)
T KOG0824|consen    6 KKKECLICYNTGNCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPID   53 (324)
T ss_pred             cCCcceeeeccCCcCccccccchhhhhhhcchhhcCCCCCceecCCCC
Confidence            45689999999999999999999999999998877665 999999874

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.44  E-value=0.0011  Score=61.65  Aligned_cols=112  Identities=19%  Similarity=0.066  Sum_probs=91.2

Q ss_pred             HHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHh
Q 011050           52 QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLL  131 (494)
Q Consensus        52 ~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al  131 (494)
                      .+--..-.+|+--.||......++.-++|+.+|..+|..|+..|+|                       .+|.-=++..+
T Consensus       125 RKlAilka~GK~l~aIk~ln~YL~~F~~D~EAW~eLaeiY~~~~~f-----------------------~kA~fClEE~l  181 (289)
T KOG3060|consen  125 RKLAILKAQGKNLEAIKELNEYLDKFMNDQEAWHELAEIYLSEGDF-----------------------EKAAFCLEELL  181 (289)
T ss_pred             HHHHHHHHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhHH-----------------------HHHHHHHHHHH
Confidence            3333444557777999999999999999999999999999999999                       99999999999


Q ss_pred             hccccchHHHHHHHHHHHHH---HHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhh
Q 011050          132 NLQSNSMKSHLLKANALILL---ERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  186 (494)
Q Consensus       132 ~l~p~~~~a~~~~g~~~~~~---~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~  186 (494)
                      =++|-++..+.++|.+++-.   .++.-|.++|.++++++|.+......+-..-.++.
T Consensus       182 l~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~~~~ral~GI~lc~~~la  239 (289)
T KOG3060|consen  182 LIQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNPKNLRALFGIYLCGSALA  239 (289)
T ss_pred             HcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhChHhHHHHHHHHHHHHHHH
Confidence            99999999999999997654   56777999999999999977666555444434443

>TIGR00540 hemY_coli hemY protein

Probab=97.43  E-value=0.00074  Score=69.74  Aligned_cols=103  Identities=17%  Similarity=0.202  Sum_probs=91.1

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc-ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP-IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      ..+...|..+..+|+++.|..+|.++.+..|++. .+...++..++..|++                       +.|+..
T Consensus       119 ~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~-----------------------~~Al~~  175 (409)
T TIGR00540       119 LNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNEL-----------------------HAARHG  175 (409)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCH-----------------------HHHHHH
Confidence            4466788999999999999999999999998876 3555568999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCch
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~  173 (494)
                      +++.++..|+++.++..++.+|...|++++|.+.+.+..+....++.
T Consensus       176 l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~  222 (409)
T TIGR00540       176 VDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDE  222 (409)
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHH
Confidence            99999999999999999999999999999999999999987554433

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.

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=97.42  E-value=0.00011  Score=49.83  Aligned_cols=43  Identities=23%  Similarity=0.148  Sum_probs=39.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHH
Q 011050          138 MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (494)
Q Consensus       138 ~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~  180 (494)
                      +.+++.+|.+|..+|++++|++.|+++++.+|+|..++..+..
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            4678999999999999999999999999999999998877653

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=97.41  E-value=0.00041  Score=68.40  Aligned_cols=105  Identities=17%  Similarity=0.055  Sum_probs=61.2

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (494)
                      ...-.-|..+-.+|++++--..-...+..+.....-|+--+...+.-++|                       ..|+...
T Consensus       267 ~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~~~ta~~wfV~~~~l~~~K~~-----------------------~rAL~~~  323 (564)
T KOG1174|consen  267 EAMDLYAVLLGQEGGCEQDSALMDYLFAKVKYTASHWFVHAQLLYDEKKF-----------------------ERALNFV  323 (564)
T ss_pred             hhHHHHHHHHHhccCHhhHHHHHHHHHhhhhcchhhhhhhhhhhhhhhhH-----------------------HHHHHHH
Confidence            33344455555666666544444444444433333344444445555666                       6666666


Q ss_pred             HHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhH
Q 011050          128 EKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  175 (494)
Q Consensus       128 ~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~  175 (494)
                      .|+|+.+|.+..+|...|.++..+|+.++|+-+|+.|..+.|..-++.
T Consensus       324 eK~I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap~rL~~Y  371 (564)
T KOG1174|consen  324 EKCIDSEPRNHEALILKGRLLIALERHTQAVIAFRTAQMLAPYRLEIY  371 (564)
T ss_pred             HHHhccCcccchHHHhccHHHHhccchHHHHHHHHHHHhcchhhHHHH
Confidence            777777777777777777777777777777777777766666555443

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.40  E-value=0.00057  Score=60.54  Aligned_cols=104  Identities=24%  Similarity=0.266  Sum_probs=92.7

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhc-cCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANN-IKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~-~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      .......|+.+...|++.+|..+|.+++. +--.++..+.++|++.+.++++                       .+|..
T Consensus        89 vqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~-----------------------A~a~~  145 (251)
T COG4700          89 VQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEF-----------------------AAAQQ  145 (251)
T ss_pred             HHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccH-----------------------HHHHH
Confidence            34556789999999999999999999985 4667889999999999999999                       99999


Q ss_pred             HHHHHhhcccc--chHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCch
Q 011050          126 DAEKLLNLQSN--SMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (494)
Q Consensus       126 ~~~~al~l~p~--~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~  173 (494)
                      .+++..+.+|.  .+..+...|.+|..+|++++|...|+.++.-.|+...
T Consensus       146 tLe~l~e~~pa~r~pd~~Ll~aR~laa~g~~a~Aesafe~a~~~ypg~~a  195 (251)
T COG4700         146 TLEDLMEYNPAFRSPDGHLLFARTLAAQGKYADAESAFEVAISYYPGPQA  195 (251)
T ss_pred             HHHHHhhcCCccCCCCchHHHHHHHHhcCCchhHHHHHHHHHHhCCCHHH
Confidence            99999999984  5788999999999999999999999999998887653

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

Probab=97.40  E-value=0.00056  Score=65.59  Aligned_cols=129  Identities=13%  Similarity=0.104  Sum_probs=82.2

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCC-------ccccc------
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSA-------SEYRP------  110 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~~------  110 (494)
                      ..+..++.+.|.+|+..|-++.|-..|....+..--...++..+..+|-...+|.|+-..+.       ..|+.      
T Consensus       104 ~qr~lAl~qL~~Dym~aGl~DRAE~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfy  183 (389)
T COG2956         104 EQRLLALQQLGRDYMAAGLLDRAEDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFY  183 (389)
T ss_pred             HHHHHHHHHHHHHHHHhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHH
Confidence            34466677777777777777777777776665444444444445555544444422111000       00000      


Q ss_pred             ---cCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCc
Q 011050          111 ---LNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (494)
Q Consensus       111 ---~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~  172 (494)
                         .-+.-..++.+.|.....+|++-||+.+.|-..+|.++...|+|++|++.++.+++-||+.-
T Consensus       184 CELAq~~~~~~~~d~A~~~l~kAlqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl  248 (389)
T COG2956         184 CELAQQALASSDVDRARELLKKALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYL  248 (389)
T ss_pred             HHHHHHHhhhhhHHHHHHHHHHHHhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHH
Confidence               00001222237788888999999999999999999999999999999999999998888753

>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.39  E-value=0.00023  Score=66.17  Aligned_cols=56  Identities=27%  Similarity=0.553  Sum_probs=44.8

Q ss_pred             ccCCCCCCCcccccccccccccCcEEc-CCCCcccHhhHHHhcc--CCCCCCCCCcccc
Q 011050          192 RIHGTPERTDDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMD--RGNKCPLCRAVLF  247 (494)
Q Consensus       192 ~~~~~~~~~~~~~C~iC~~~~~~Pv~~-~cgh~fc~~Cl~~~~~--~~~~CP~Cr~~~~  247 (494)
                      ............+|++|.+.-..|.+. +|||.||..|+.....  ....||.|..+..
T Consensus       229 p~~sss~~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  229 PKFSSSTGTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             CCcccccccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            334445566788999999999999776 6999999999987654  4568999998763

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=97.38  E-value=0.00023  Score=67.72  Aligned_cols=156  Identities=14%  Similarity=0.137  Sum_probs=115.4

Q ss_pred             ccccccccCCCCceeeccCCCccceeccCCCCCchhh-----HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc
Q 011050            7 SQMSAEATSSGFPLVGIDDVDDYIWANEGEGSLPWDR-----YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP   81 (494)
Q Consensus         7 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~   81 (494)
                      .|..-.+.+.+..+..+.+++.|+.+.+.+..  ...     ......-+.+|......|++..|...|..++...|.+.
T Consensus        91 aqfgiqsIPtV~af~dGqpVdgF~G~qPesql--r~~ld~~~~~~~e~~~~~~~~~~~~e~~~~a~~~~~~al~~~~~~~  168 (304)
T COG3118          91 AQFGVQSIPTVYAFKDGQPVDGFQGAQPESQL--RQFLDKVLPAEEEEALAEAKELIEAEDFGEAAPLLKQALQAAPENS  168 (304)
T ss_pred             HHhCcCcCCeEEEeeCCcCccccCCCCcHHHH--HHHHHHhcChHHHHHHHHhhhhhhccchhhHHHHHHHHHHhCcccc
Confidence            34455567777788889999999988766431  111     11234567788899999999999999999999999999


Q ss_pred             ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH-------------------HHHHHHHhhccccchHHHH
Q 011050           82 IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA-------------------LKDAEKLLNLQSNSMKSHL  142 (494)
Q Consensus        82 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a-------------------~~~~~~al~l~p~~~~a~~  142 (494)
                      .+...+|.||...|+..        +++-+...-|.+..+++                   ..++...+..||++..+-+
T Consensus       169 ~~~~~la~~~l~~g~~e--------~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~~~~l~~~~aadPdd~~aa~  240 (304)
T COG3118         169 EAKLLLAECLLAAGDVE--------AAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPEIQDLQRRLAADPDDVEAAL  240 (304)
T ss_pred             hHHHHHHHHHHHcCChH--------HHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHhCCCCHHHHH
Confidence            99999999999999861        22222222222211111                   1344455567899999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHccccCCCCCc
Q 011050          143 LKANALILLERYDMARDAILSGLQVDPFSN  172 (494)
Q Consensus       143 ~~g~~~~~~~~~~~A~~~~~~al~l~p~~~  172 (494)
                      .+|..|...|++++|.+.+...++.|-.+.
T Consensus       241 ~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~  270 (304)
T COG3118         241 ALADQLHLVGRNEAALEHLLALLRRDRGFE  270 (304)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhccccc
Confidence            999999999999999999999999877543

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

Probab=97.37  E-value=0.00097  Score=61.78  Aligned_cols=127  Identities=18%  Similarity=0.181  Sum_probs=94.8

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc---ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      ....+..|..+++.|+|+.|+..|.+.+...|+++   .+++.+|.+++....-.-           ++. .-++.+.+|
T Consensus        42 ~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~~~~~~~~-----------~~~-~D~~~~~~A  109 (203)
T PF13525_consen   42 PQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSYYKQIPGIL-----------RSD-RDQTSTRKA  109 (203)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHHHHHHHHHH------------TT----HHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHhCccch-----------hcc-cChHHHHHH
Confidence            35678899999999999999999999999999876   588888988887654300           001 112444789


Q ss_pred             HHHHHHHhhccccchHH-----------------HHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhh
Q 011050          124 LKDAEKLLNLQSNSMKS-----------------HLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (494)
Q Consensus       124 ~~~~~~al~l~p~~~~a-----------------~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~  185 (494)
                      +..++..++.-|++..+                 -+..|.-|...|.|..|+..++.+++--|+.+...+++..+.+.-
T Consensus       110 ~~~~~~li~~yP~S~y~~~A~~~l~~l~~~la~~e~~ia~~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y  188 (203)
T PF13525_consen  110 IEEFEELIKRYPNSEYAEEAKKRLAELRNRLAEHELYIARFYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAY  188 (203)
T ss_dssp             HHHHHHHHHH-TTSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHH
Confidence            99999999999986543                 345677888899999999999999999999998877776665543

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

Probab=97.37  E-value=0.0004  Score=66.58  Aligned_cols=106  Identities=18%  Similarity=-0.002  Sum_probs=78.2

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      ...+.-....|.+-.....|+..|.+.++.-|.+...+...|.++-.++++                       ++|++.
T Consensus       256 ~dTfllLskvY~ridQP~~AL~~~~~gld~fP~~VT~l~g~ARi~eam~~~-----------------------~~a~~l  312 (478)
T KOG1129|consen  256 PDTFLLLSKVYQRIDQPERALLVIGEGLDSFPFDVTYLLGQARIHEAMEQQ-----------------------EDALQL  312 (478)
T ss_pred             hhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCchhhhhhhhHHHHHHHHhH-----------------------HHHHHH
Confidence            444555566666667777777777777777777777777777777777777                       777777


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhH
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  175 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~  175 (494)
                      |+.+++++|.++++.--.|.-|+..++.+-|+.+|++.|++.-.+++.-
T Consensus       313 Yk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~speLf  361 (478)
T KOG1129|consen  313 YKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQSPELF  361 (478)
T ss_pred             HHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCCChHHH
Confidence            7777777777777777777777777777777777777777766666543

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=97.33  E-value=0.00047  Score=72.50  Aligned_cols=102  Identities=16%  Similarity=0.144  Sum_probs=94.2

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (494)
                      ..|+..|-.+.+-++++.|+.+|.+++.++|++..+|.|++.+|+++++-                       .+|....
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            45788999999999999999999999999999999999999999999999                       9999999


Q ss_pred             HHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCc
Q 011050          128 EKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (494)
Q Consensus       128 ~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~  172 (494)
                      .+|++.+-.+++.|-+...+....|.+++|+.+|.+.+.+.-...
T Consensus       577 ~EAlKcn~~~w~iWENymlvsvdvge~eda~~A~~rll~~~~~~~  621 (777)
T KOG1128|consen  577 KEALKCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLRKKYK  621 (777)
T ss_pred             HHHhhcCCCCCeeeechhhhhhhcccHHHHHHHHHHHHHhhhhcc
Confidence            999999988899988888899999999999999999988755433

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=97.30  E-value=0.0003  Score=73.27  Aligned_cols=100  Identities=13%  Similarity=0.053  Sum_probs=85.6

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhcc--------CCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCc
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNI--------KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPT  117 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~--------~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (494)
                      ........|..++.+|+|++|+..+.+|++.        .|.-.....+.|..|..+++|                    
T Consensus       198 ~~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~--------------------  257 (508)
T KOG1840|consen  198 RLRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKY--------------------  257 (508)
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccH--------------------
Confidence            3455566899999999999999999999998        444445555689999999999                    


Q ss_pred             hhHHHHHHHHHHHhhc--------cccchHHHHHHHHHHHHHHHHHHHHHHHHccccCC
Q 011050          118 THAELALKDAEKLLNL--------QSNSMKSHLLKANALILLERYDMARDAILSGLQVD  168 (494)
Q Consensus       118 ~~~~~a~~~~~~al~l--------~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~  168 (494)
                         .+|+..|++|+.+        +|.-+..+.++|.+|+..|+|++|..++++|+.+-
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               9999999999975        46667789999999999999999999999998863

>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=97.28  E-value=0.0013  Score=53.70  Aligned_cols=98  Identities=17%  Similarity=0.235  Sum_probs=78.2

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCC------------CcccccChhHHHHHHHhhhccCCCCCccccccCC
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPG------------DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNG  113 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~------------~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  113 (494)
                      .+...+..|...+..|-|++|..-|.+|++....            |+-+|..++.++..+|+|                
T Consensus         8 ~aY~aLs~ae~ql~~g~~~eAa~s~r~AM~~srtiP~eEaFDh~GFDA~chA~Ls~A~~~Lgry----------------   71 (144)
T PF12968_consen    8 MAYMALSDAERQLQDGAYEEAAASCRKAMEVSRTIPAEEAFDHDGFDAFCHAGLSGALAGLGRY----------------   71 (144)
T ss_dssp             HHHHHHHHHHHHHHHT-HHHHHHHHHHHHHHHTTS-TTS---HHHHHHHHHHHHHHHHHHTT-H----------------
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhccCChHhhcccccHHHHHHHHHHHHHHhhccH----------------
Confidence            3555678899999999999999999999987432            236778889999999999                


Q ss_pred             CCCchhHHHHHHHHHHHhhc-------cc----cchHHHHHHHHHHHHHHHHHHHHHHHHcccc
Q 011050          114 LDPTTHAELALKDAEKLLNL-------QS----NSMKSHLLKANALILLERYDMARDAILSGLQ  166 (494)
Q Consensus       114 ~~~~~~~~~a~~~~~~al~l-------~p----~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~  166 (494)
                             ++++..+++++..       +.    .|..+.|.+|.++..+|+.++|+..|+.+-+
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                   8888888888854       32    4677899999999999999999999987643

The structure of Q8KAL8 is known and belongs to the SCOP all alpha class, TPR-like superfamily, CT2138-like family.; PDB: 2HR2_D.

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=97.28  E-value=0.00059  Score=75.35  Aligned_cols=99  Identities=9%  Similarity=-0.024  Sum_probs=77.7

Q ss_pred             HHHHHHHHHHhcChHHHHHH-----------------HHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccC
Q 011050           50 LVQKGNRAFRESNFEEAISN-----------------YSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLN  112 (494)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~-----------------y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  112 (494)
                      +.-.|-.++.++++.+|...                 |...+...+.+..+++.+|.||-++|++               
T Consensus        68 yy~~G~l~~q~~~~~~~~lv~~l~~~~~~~~~~~ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~---------------  132 (906)
T PRK14720         68 LYISGILSLSRRPLNDSNLLNLIDSFSQNLKWAIVEHICDKILLYGENKLALRTLAEAYAKLNEN---------------  132 (906)
T ss_pred             HHHHHHHHHhhcchhhhhhhhhhhhcccccchhHHHHHHHHHHhhhhhhHHHHHHHHHHHHcCCh---------------
Confidence            44455555555555554444                 4444444444448999999999999999               


Q ss_pred             CCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCc
Q 011050          113 GLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (494)
Q Consensus       113 ~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~  172 (494)
                              ++|...+++++++||+++.++.++|..|... ++++|+..+.+|++..=+++
T Consensus       133 --------~ka~~~yer~L~~D~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~~i~~k  183 (906)
T PRK14720        133 --------KKLKGVWERLVKADRDNPEIVKKLATSYEEE-DKEKAITYLKKAIYRFIKKK  183 (906)
T ss_pred             --------HHHHHHHHHHHhcCcccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHHHHhhh
Confidence                    9999999999999999999999999999988 99999999999988744433

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=97.27  E-value=0.00032  Score=44.46  Aligned_cols=34  Identities=29%  Similarity=0.509  Sum_probs=30.3

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD   80 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~   80 (494)
                      +..+..+|..++..|+|++|+.+|++|++++|++
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 ....

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.24  E-value=0.00066  Score=65.74  Aligned_cols=124  Identities=16%  Similarity=0.155  Sum_probs=90.0

Q ss_pred             HHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccc------cC--------------
Q 011050           53 KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRP------LN--------------  112 (494)
Q Consensus        53 ~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~------~~--------------  112 (494)
                      -|..+|+-|||++|+..|+-+.+.+.-++.++.|+|-|++.+|.|.++.+-+-+.-..      +|              
T Consensus        63 ia~C~fhLgdY~~Al~~Y~~~~~~~~~~~el~vnLAcc~FyLg~Y~eA~~~~~ka~k~pL~~RLlfhlahklndEk~~~~  142 (557)
T KOG3785|consen   63 IAHCYFHLGDYEEALNVYTFLMNKDDAPAELGVNLACCKFYLGQYIEAKSIAEKAPKTPLCIRLLFHLAHKLNDEKRILT  142 (557)
T ss_pred             HHHHHHhhccHHHHHHHHHHHhccCCCCcccchhHHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCcHHHHHH
Confidence            4778899999999999999999988888999999999999999996655411111100      00              


Q ss_pred             --------CCC---------CchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhH
Q 011050          113 --------GLD---------PTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  175 (494)
Q Consensus       113 --------~~~---------~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~  175 (494)
                              ..|         .+.+.++|++.|.+++.-+|++...-..+|.||+++.-|+.+-+.+.-.|+--|+.+-+.
T Consensus       143 fh~~LqD~~EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q~pdStiA~  222 (557)
T KOG3785|consen  143 FHSSLQDTLEDQLSLASVHYMRMHYQEAIDVYKRVLQDNPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQFPDSTIAK  222 (557)
T ss_pred             HHHHHhhhHHHHHhHHHHHHHHHHHHHHHHHHHHHHhcChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHhCCCcHHHH
Confidence                    001         223337777778887777777776667777788888888877777777777777776554


Q ss_pred             H
Q 011050          176 A  176 (494)
Q Consensus       176 ~  176 (494)
                      .
T Consensus       223 N  223 (557)
T KOG3785|consen  223 N  223 (557)
T ss_pred             H
Confidence            4

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=97.23  E-value=6.4e-05  Score=47.89  Aligned_cols=29  Identities=17%  Similarity=0.449  Sum_probs=27.8

Q ss_pred             HHHHHhccCCCCcccccChhHHHHHHHhh
Q 011050           69 NYSRANNIKPGDPIVLGNRSSAYIRISQF   97 (494)
Q Consensus        69 ~y~~al~~~p~~~~~~~~~a~~~~~~~~~   97 (494)
                      +|++||+++|+++.+|.++|.+|...|++
T Consensus         1 ~y~kAie~~P~n~~a~~nla~~~~~~g~~   29 (34)
T PF13431_consen    1 CYKKAIELNPNNAEAYNNLANLYLNQGDY   29 (34)
T ss_pred             ChHHHHHHCCCCHHHHHHHHHHHHHCcCH
Confidence            48999999999999999999999999999

>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=97.23  E-value=0.00044  Score=48.71  Aligned_cols=49  Identities=18%  Similarity=0.132  Sum_probs=42.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhh
Q 011050          139 KSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  187 (494)
Q Consensus       139 ~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~  187 (494)
                      +.+|.+|.+++.+|+|++|+...+.+|+++|+|..+....+.+++++..
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            3578999999999999999999999999999999999988888887754

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

Probab=97.22  E-value=0.0005  Score=64.33  Aligned_cols=68  Identities=26%  Similarity=0.569  Sum_probs=48.5

Q ss_pred             CcccccccccccccCcEEc-CCCCcccHhhHHHhcc-CCCCCCCCCcccccCCCCCcccccHHHHHHHhCh
Q 011050          200 TDDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMD-RGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFP  268 (494)
Q Consensus       200 ~~~~~C~iC~~~~~~Pv~~-~cgh~fc~~Cl~~~~~-~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~p  268 (494)
                      .-.+.|++|..++.+|+.+ -|||+||..||...+- ..+.||.|...=.. -+.+.++...+.-+++++.
T Consensus       272 ~i~LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvl-ld~l~pD~dk~~EvE~~lk  341 (427)
T COG5222         272 NISLKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVL-LDGLTPDIDKKLEVEKALK  341 (427)
T ss_pred             CccccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCCcccccch-hhccCccHHHHHHHHHHHH
Confidence            3348999999999999987 7999999999987765 45689999763111 1345555555555555443

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=97.18  E-value=0.00064  Score=42.90  Aligned_cols=34  Identities=24%  Similarity=0.414  Sum_probs=30.3

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD   80 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~   80 (494)
                      +..+...|..++..|+|++|+.+|.++++++|++
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            4567889999999999999999999999999985

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 ....

>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=97.17  E-value=0.0031  Score=54.93  Aligned_cols=96  Identities=24%  Similarity=0.154  Sum_probs=74.8

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc----------------------ccccChhHHHHHHHhhhccCCCC
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----------------------IVLGNRSSAYIRISQFLKHRPPS  104 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~----------------------~~~~~~a~~~~~~~~~~~~~~~~  104 (494)
                      ...+...|......++.+.++..+.+|+.+-..+.                      .++..++..+...|++       
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            34556678888888999999999999999843321                      3444455666777788       


Q ss_pred             CccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccc
Q 011050          105 ASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGL  165 (494)
Q Consensus       105 ~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al  165 (494)
                                      .+|+..+++++..+|.+-.+|..+..+|..+|++.+|+..|.++-
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.

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

Probab=97.16  E-value=0.00056  Score=65.61  Aligned_cols=100  Identities=21%  Similarity=0.062  Sum_probs=91.4

Q ss_pred             HHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHH
Q 011050           51 VQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKL  130 (494)
Q Consensus        51 ~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a  130 (494)
                      .+.|..|++-|.+.+|...++.+++..|- ++-|.-++.+|.++.+.                       ..|+..+...
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q~~~-~dTfllLskvY~ridQP-----------------------~~AL~~~~~g  282 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQFPH-PDTFLLLSKVYQRIDQP-----------------------ERALLVIGEG  282 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhcCCc-hhHHHHHHHHHHHhccH-----------------------HHHHHHHhhh
Confidence            46899999999999999999999998774 56677789999999999                       9999999999


Q ss_pred             hhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchh
Q 011050          131 LNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  174 (494)
Q Consensus       131 l~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~  174 (494)
                      ++..|.++..+.-.|.++..++++++|.+.|+.+++++|.|-++
T Consensus       283 ld~fP~~VT~l~g~ARi~eam~~~~~a~~lYk~vlk~~~~nvEa  326 (478)
T KOG1129|consen  283 LDSFPFDVTYLLGQARIHEAMEQQEDALQLYKLVLKLHPINVEA  326 (478)
T ss_pred             hhcCCchhhhhhhhHHHHHHHHhHHHHHHHHHHHHhcCCcccee
Confidence            99999999999999999999999999999999999999987654

>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]

Probab=97.15  E-value=0.00026  Score=72.04  Aligned_cols=49  Identities=39%  Similarity=1.060  Sum_probs=44.6

Q ss_pred             CCcccccccccccccCcEE-cCCCCcccHhhHHHhccCCCCCCCCCcccc
Q 011050          199 RTDDFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (494)
Q Consensus       199 ~~~~~~C~iC~~~~~~Pv~-~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~  247 (494)
                      ...++.|++|..++.+|+. +.|||.||..|+..|......||.|+..+.
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            5677999999999999998 599999999999999998888999998764

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=97.13  E-value=0.0012  Score=67.73  Aligned_cols=100  Identities=23%  Similarity=0.149  Sum_probs=89.9

Q ss_pred             HhcChHHHHHHHHHHhccCCCCc-ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccc
Q 011050           59 RESNFEEAISNYSRANNIKPGDP-IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNS  137 (494)
Q Consensus        59 ~~~~~~~Ai~~y~~al~~~p~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~  137 (494)
                      -.|+...|+.+...|+...|... ....++|+..++.+-.                       ..|-..+.+++.++...
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            46888999999999999999754 5677899998888866                       78889999999999888


Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          138 MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       138 ~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      +-.++..|.+|..+++.+.|+++|+.|++++|++..+++.+..+
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            99999999999999999999999999999999999998887766

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.12  E-value=0.00073  Score=65.03  Aligned_cols=59  Identities=12%  Similarity=-0.016  Sum_probs=53.4

Q ss_pred             HHHHHHHHHHhhccccc---hHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHH
Q 011050          121 ELALKDAEKLLNLQSNS---MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQ  179 (494)
Q Consensus       121 ~~a~~~~~~al~l~p~~---~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~  179 (494)
                      ++|+..+++.++..|++   +.++|++|.+|+..|++++|+..|.++++..|+++....++-
T Consensus       160 ~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~  221 (263)
T PRK10803        160 DDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMF  221 (263)
T ss_pred             HHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHH
Confidence            99999999999999988   579999999999999999999999999999999876555543

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=97.12  E-value=0.00035  Score=47.34  Aligned_cols=42  Identities=19%  Similarity=0.117  Sum_probs=39.0

Q ss_pred             ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHH
Q 011050           82 IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKAN  146 (494)
Q Consensus        82 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~  146 (494)
                      .++..+|.+|...|++                       ++|++.++++++.+|+++.+++.+|.
T Consensus         2 ~~~~~la~~~~~~G~~-----------------------~~A~~~~~~~l~~~P~~~~a~~~La~   43 (44)
T PF13428_consen    2 AAWLALARAYRRLGQP-----------------------DEAERLLRRALALDPDDPEAWRALAQ   43 (44)
T ss_pred             HHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHHHHCcCCHHHHHHhhh
Confidence            4677899999999999                       99999999999999999999998875

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

Probab=97.11  E-value=0.00029  Score=55.21  Aligned_cols=61  Identities=21%  Similarity=0.333  Sum_probs=53.8

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      +...+...|..+|+.|+|++|+..+++ ...+|.+...++..|.|++++|+|                       ++|++
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            345667799999999999999999999 888998888888899999999999                       99999


Q ss_pred             HHHHH
Q 011050          126 DAEKL  130 (494)
Q Consensus       126 ~~~~a  130 (494)
                      .+.++
T Consensus        80 ~l~~~   84 (84)
T PF12895_consen   80 ALEKA   84 (84)
T ss_dssp             HHHHH
T ss_pred             HHhcC
Confidence            88875

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

Probab=97.11  E-value=0.0028  Score=63.23  Aligned_cols=105  Identities=17%  Similarity=0.079  Sum_probs=61.3

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      .+.-+.+.++.|-...+..+||..|.++..+-|+++.+++.+|..|-+-|+-                       .+|..
T Consensus       557 n~evl~qianiye~led~aqaie~~~q~~slip~dp~ilskl~dlydqegdk-----------------------sqafq  613 (840)
T KOG2003|consen  557 NAEVLVQIANIYELLEDPAQAIELLMQANSLIPNDPAILSKLADLYDQEGDK-----------------------SQAFQ  613 (840)
T ss_pred             hHHHHHHHHHHHHHhhCHHHHHHHHHHhcccCCCCHHHHHHHHHHhhcccch-----------------------hhhhh
Confidence            3455666677777777777777777777777777777777777777666554                       34444


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCch
Q 011050          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~  173 (494)
                      -+-...+.-|.+.+..-|+|.-|....-+++|+.+|++|--+.|+...
T Consensus       614 ~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~k  661 (840)
T KOG2003|consen  614 CHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSK  661 (840)
T ss_pred             hhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHH
Confidence            344444444444444444444444444444444444444444444433

>PF04781 DUF627: Protein of unknown function (DUF627); InterPro: IPR006866 This domain represents the N-terminal region of several plant proteins of unknown function

Probab=97.11  E-value=0.0023  Score=52.07  Aligned_cols=103  Identities=17%  Similarity=0.156  Sum_probs=85.5

Q ss_pred             HHHHHHHhcChHHHHHHHHHHhccCCCCcc---cccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHH
Q 011050           53 KGNRAFRESNFEEAISNYSRANNIKPGDPI---VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  129 (494)
Q Consensus        53 ~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  129 (494)
                      +|..+|.+||+-+|+......+...+++..   ++..-|..++++..-   +.+.|..+.++         -.+++-+.+
T Consensus         2 ~A~~~~~rGnhiKAL~iied~i~~h~~~~~~~~lh~~QG~if~~lA~~---ten~d~k~~yL---------l~sve~~s~   69 (111)
T PF04781_consen    2 KAKDYFARGNHIKALEIIEDLISRHGEDESSWLLHRLQGTIFYKLAKK---TENPDVKFRYL---------LGSVECFSR   69 (111)
T ss_pred             hHHHHHHccCHHHHHHHHHHHHHHccCCCchHHHHHHHhHHHHHHHHh---ccCchHHHHHH---------HHhHHHHHH
Confidence            578899999999999999999999988774   445556666666654   23555566665         788999999


Q ss_pred             HhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccC
Q 011050          130 LLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQV  167 (494)
Q Consensus       130 al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l  167 (494)
                      +..+.|..+..+|.+|.-+.....|++++.-.+++|.+
T Consensus        70 a~~Lsp~~A~~L~~la~~l~s~~~Ykk~v~kak~~Lsv  107 (111)
T PF04781_consen   70 AVELSPDSAHSLFELASQLGSVKYYKKAVKKAKRGLSV  107 (111)
T ss_pred             HhccChhHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcc
Confidence            99999999999999999998899999999998888875

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=97.10  E-value=0.00083  Score=70.07  Aligned_cols=104  Identities=20%  Similarity=0.181  Sum_probs=87.0

Q ss_pred             hhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccC--------CCCcccccChhHHHHHHHhhhccCCCCCccccccCC
Q 011050           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIK--------PGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNG  113 (494)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~--------p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  113 (494)
                      +-+.-+..+.+.|..|.+.|+|++|..++.+|+++-        |.-+..+.+.+..+..++++                
T Consensus       278 ~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~----------------  341 (508)
T KOG1840|consen  278 DHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEY----------------  341 (508)
T ss_pred             CCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcch----------------
Confidence            334557788899999999999999999999999872        23347788889999999999                


Q ss_pred             CCCchhHHHHHHHHHHHhhcc--------ccchHHHHHHHHHHHHHHHHHHHHHHHHccccCC
Q 011050          114 LDPTTHAELALKDAEKLLNLQ--------SNSMKSHLLKANALILLERYDMARDAILSGLQVD  168 (494)
Q Consensus       114 ~~~~~~~~~a~~~~~~al~l~--------p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~  168 (494)
                             ++|+..+.+++++-        +.-++.+-++|..|..+|+|.+|...|++|+++.
T Consensus       342 -------Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~  397 (508)
T KOG1840|consen  342 -------EEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQIL  397 (508)
T ss_pred             -------hHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHH
Confidence                   88988888887652        3446678899999999999999999999999875

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=97.05  E-value=0.0027  Score=66.17  Aligned_cols=107  Identities=13%  Similarity=-0.026  Sum_probs=68.1

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      ...+..+|..+...|+-++|..+-..++..++.++.+|.-+|..+-.-++|                       ++|++-
T Consensus        41 geslAmkGL~L~~lg~~~ea~~~vr~glr~d~~S~vCwHv~gl~~R~dK~Y-----------------------~eaiKc   97 (700)
T KOG1156|consen   41 GESLAMKGLTLNCLGKKEEAYELVRLGLRNDLKSHVCWHVLGLLQRSDKKY-----------------------DEAIKC   97 (700)
T ss_pred             chhHHhccchhhcccchHHHHHHHHHHhccCcccchhHHHHHHHHhhhhhH-----------------------HHHHHH
Confidence            344555666666666666666666666666666666666666666666666                       666666


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHH
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQA  176 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~  176 (494)
                      |+.|+.++|+|.+.++.++....++|+|+-..+.-.+.|++.|.+...+-
T Consensus        98 y~nAl~~~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~~~ra~w~  147 (700)
T KOG1156|consen   98 YRNALKIEKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLRPSQRASWI  147 (700)
T ss_pred             HHHHHhcCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhHHHHH
Confidence            66666666666666666666666666666666666666666666554443

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=96.99  E-value=0.00035  Score=69.25  Aligned_cols=49  Identities=35%  Similarity=0.689  Sum_probs=40.4

Q ss_pred             CCCCCcccccccccccccCcE----EcCCCCcccHhhHHHhccCCCCCCCCCccc
Q 011050          196 TPERTDDFDCTLCLKLLYEPI----TTPCGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (494)
Q Consensus       196 ~~~~~~~~~C~iC~~~~~~Pv----~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~  246 (494)
                      .....+.-+||+|++-+..-+    ++.|.|+|+.+|+..|+.  .+||+||.-.
T Consensus       169 ~~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~--~scpvcR~~q  221 (493)
T KOG0804|consen  169 PTGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD--SSCPVCRYCQ  221 (493)
T ss_pred             CCCcccCCCcchhHhhcCccccceeeeecccccchHHHhhccc--CcChhhhhhc
Confidence            344556779999999998775    579999999999999986  4799999753

>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=96.98  E-value=0.0033  Score=66.18  Aligned_cols=54  Identities=19%  Similarity=0.126  Sum_probs=50.1

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchh
Q 011050          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  174 (494)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~  174 (494)
                      ++|+...++||+..|+.++.|+.+|.+|-..|++.+|.+.++.|-.+|+.+.-+
T Consensus       211 ~~Al~~Id~aI~htPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~DRyi  264 (517)
T PF12569_consen  211 EKALEYIDKAIEHTPTLVELYMTKARILKHAGDLKEAAEAMDEARELDLADRYI  264 (517)
T ss_pred             HHHHHHHHHHHhcCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChhhHHH
Confidence            889999999999999999999999999999999999999999999999987754

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 [], [].

>PF15015 NYD-SP12_N: Spermatogenesis-associated, N-terminal

Probab=96.93  E-value=0.0069  Score=60.13  Aligned_cols=96  Identities=19%  Similarity=0.352  Sum_probs=80.1

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCC--------Cc----------ccccChhHHHHHHHhhhccCCCCCcc
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPG--------DP----------IVLGNRSSAYIRISQFLKHRPPSASE  107 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~--------~~----------~~~~~~a~~~~~~~~~~~~~~~~~~~  107 (494)
                      -....+..|...|++++|..|+..|..||++..+        .+          -+-..+..||.++++.          
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            3455566788889999999999999999887332        22          2234678899999999          


Q ss_pred             ccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHcc
Q 011050          108 YRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSG  164 (494)
Q Consensus       108 ~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~a  164 (494)
                                   +.|+....+.|-++|.++.-|++.|.++..+.+|.+|...+.-|
T Consensus       245 -------------dlALnh~hrsI~lnP~~frnHLrqAavfR~LeRy~eAarSamia  288 (569)
T PF15015_consen  245 -------------DLALNHSHRSINLNPSYFRNHLRQAAVFRRLERYSEAARSAMIA  288 (569)
T ss_pred             -------------chHHHHHhhhhhcCcchhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                         99999999999999999999999999999999999998776655

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

Probab=96.92  E-value=0.0014  Score=59.57  Aligned_cols=51  Identities=16%  Similarity=0.101  Sum_probs=45.4

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhh
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF   97 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~   97 (494)
                      +..+.-.|.-+...|+|+.|...|+..+++||.+-.++.|||.+++..|+|
T Consensus        99 ~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~~YY~gR~  149 (297)
T COG4785          99 PEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRY  149 (297)
T ss_pred             HHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccceeeeecCch
Confidence            445556788888999999999999999999999999999999998888887

>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=96.86  E-value=0.00052  Score=43.43  Aligned_cols=33  Identities=15%  Similarity=0.162  Sum_probs=30.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHccccCCCCC
Q 011050          139 KSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (494)
Q Consensus       139 ~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~  171 (494)
                      ++|+.+|.+|..+|++++|++.|+++++++|+|
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            689999999999999999999999999999953

...

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.85  E-value=0.0017  Score=69.34  Aligned_cols=46  Identities=35%  Similarity=0.702  Sum_probs=37.9

Q ss_pred             CCCcccccccccccccCcE-EcCCCCcccHhhHHHhccCCCCCCCCCccc
Q 011050          198 ERTDDFDCTLCLKLLYEPI-TTPCGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (494)
Q Consensus       198 ~~~~~~~C~iC~~~~~~Pv-~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~  246 (494)
                      ...+.-.|..|.-.+.-|+ .+.|||+|+.+|++   +....||.|+..+
T Consensus       836 ~i~q~skCs~C~~~LdlP~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~  882 (933)
T KOG2114|consen  836 QIFQVSKCSACEGTLDLPFVHFLCGHSYHQHCLE---DKEDKCPKCLPEL  882 (933)
T ss_pred             ceeeeeeecccCCccccceeeeecccHHHHHhhc---cCcccCCccchhh
Confidence            3445578999999999995 58999999999998   4556899998754

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

Probab=96.85  E-value=0.0014  Score=54.77  Aligned_cols=52  Identities=21%  Similarity=0.094  Sum_probs=49.3

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCc
Q 011050          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (494)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~  172 (494)
                      +.|++.+.+++.+.|..+.+|.+++++|...|+.++|++++++|+.+.....
T Consensus        60 d~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~t  111 (175)
T KOG4555|consen   60 DGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQT  111 (175)
T ss_pred             HHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccc
Confidence            9999999999999999999999999999999999999999999999876543

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.81  E-value=0.0041  Score=53.32  Aligned_cols=84  Identities=23%  Similarity=0.298  Sum_probs=64.3

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc---ccccChhHHHHHHHhhhccCCCCCccccccCCCC-CchhHHHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLD-PTTHAELA  123 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~a  123 (494)
                      .+.+..|..+|+.++|..|+..|.+-++++|+++   .+++.+|.+++....-         .++.++..| -++.+..|
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            5667889999999999999999999999999876   6788889998887651         011111111 23445899


Q ss_pred             HHHHHHHhhccccchHH
Q 011050          124 LKDAEKLLNLQSNSMKS  140 (494)
Q Consensus       124 ~~~~~~al~l~p~~~~a  140 (494)
                      +.+++.+++.-|++..+
T Consensus       119 ~~~f~~lv~~yP~S~ya  135 (142)
T PF13512_consen  119 FRDFEQLVRRYPNSEYA  135 (142)
T ss_pred             HHHHHHHHHHCcCChhH
Confidence            99999999999988554

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.75  E-value=0.0034  Score=52.69  Aligned_cols=72  Identities=21%  Similarity=0.099  Sum_probs=62.0

Q ss_pred             ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhcccc---chHHHHHHHHHHHHHHHHHHHH
Q 011050           82 IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSN---SMKSHLLKANALILLERYDMAR  158 (494)
Q Consensus        82 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~---~~~a~~~~g~~~~~~~~~~~A~  158 (494)
                      .+++++|.++-.+|+.                       .+|+..|++++....+   -..++..+|.+|..+|++++|+
T Consensus         2 ~~~~~~A~a~d~~G~~-----------------------~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~   58 (120)
T PF12688_consen    2 RALYELAWAHDSLGRE-----------------------EEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEAL   58 (120)
T ss_pred             chHHHHHHHHHhcCCH-----------------------HHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHH
Confidence            4677889999999999                       9999999999997543   3679999999999999999999


Q ss_pred             HHHHccccCCCC---CchhHH
Q 011050          159 DAILSGLQVDPF---SNPLQA  176 (494)
Q Consensus       159 ~~~~~al~l~p~---~~~~~~  176 (494)
                      ..+++++.-.|+   +..++.
T Consensus        59 ~~L~~~~~~~p~~~~~~~l~~   79 (120)
T PF12688_consen   59 ALLEEALEEFPDDELNAALRV   79 (120)
T ss_pred             HHHHHHHHHCCCccccHHHHH
Confidence            999999998887   555443

>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=96.75  E-value=0.001  Score=58.85  Aligned_cols=65  Identities=25%  Similarity=0.263  Sum_probs=47.0

Q ss_pred             cChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccc
Q 011050           61 SNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNS  137 (494)
Q Consensus        61 ~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~  137 (494)
                      .-+++|+..|.+||.++|+.+.+++++|++|...+.+.   +.....-         .+-++|...+.+|.+.+|++
T Consensus        49 ~miedAisK~eeAL~I~P~~hdAlw~lGnA~ts~A~l~---~d~~~A~---------~~F~kA~~~FqkAv~~~P~n  113 (186)
T PF06552_consen   49 KMIEDAISKFEEALKINPNKHDALWCLGNAYTSLAFLT---PDTAEAE---------EYFEKATEYFQKAVDEDPNN  113 (186)
T ss_dssp             HHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHHHH------HHHHH---------HHHHHHHHHHHHHHHH-TT-
T ss_pred             HHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHhhc---CChHHHH---------HHHHHHHHHHHHHHhcCCCc
Confidence            45678999999999999999999999999999999861   1110111         11278888999999999988

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.

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.72  E-value=0.00088  Score=66.10  Aligned_cols=95  Identities=22%  Similarity=0.203  Sum_probs=77.9

Q ss_pred             HHHHHHHHHHhcChHHHHHHHHHHhccCCC------CcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           50 LVQKGNRAFRESNFEEAISNYSRANNIKPG------DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~------~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      +=..||.||--|+|+.||.+-..-+.+.-.      .-.+++|+|+|++-+|++                       +.|
T Consensus       198 ~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~f-----------------------e~A  254 (639)
T KOG1130|consen  198 YGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNF-----------------------ELA  254 (639)
T ss_pred             hcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhccc-----------------------HhH
Confidence            445677888999999999988877776432      237899999999999999                       999


Q ss_pred             HHHHHHHhhcc------ccchHHHHHHHHHHHHHHHHHHHHHHHHccccC
Q 011050          124 LKDAEKLLNLQ------SNSMKSHLLKANALILLERYDMARDAILSGLQV  167 (494)
Q Consensus       124 ~~~~~~al~l~------p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l  167 (494)
                      ++.|.+.+.+.      ...++.-|.+|+.|..++++.+|+.++.+-|++
T Consensus       255 ~ehYK~tl~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaI  304 (639)
T KOG1130|consen  255 IEHYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAI  304 (639)
T ss_pred             HHHHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence            99998866543      234567899999999999999999999887765

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=96.68  E-value=0.0045  Score=60.46  Aligned_cols=109  Identities=20%  Similarity=0.209  Sum_probs=81.8

Q ss_pred             HHHHHHHHHHHHHHHh-cChHHHHHHHHHHhccCC--CC----cccccChhHHHHHHHhhhccCCCCCccccccCCCCCc
Q 011050           45 THVFDLVQKGNRAFRE-SNFEEAISNYSRANNIKP--GD----PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPT  117 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~-~~~~~Ai~~y~~al~~~p--~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (494)
                      ..+..+...|..+... |++++|+.+|.+|+++-.  +.    ..++.+.|.++..+++|                    
T Consensus       112 ~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y--------------------  171 (282)
T PF14938_consen  112 QAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRY--------------------  171 (282)
T ss_dssp             HHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-H--------------------
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCH--------------------
Confidence            3456677788888888 999999999999998722  11    26777889999999999                    


Q ss_pred             hhHHHHHHHHHHHhhcc---c---cchHH-HHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHH
Q 011050          118 THAELALKDAEKLLNLQ---S---NSMKS-HLLKANALILLERYDMARDAILSGLQVDPFSNPLQA  176 (494)
Q Consensus       118 ~~~~~a~~~~~~al~l~---p---~~~~a-~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~  176 (494)
                         .+|++.++++....   +   -+++. ++..+.++...|++-.|...+++....+|.+....+
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               99999999988642   1   12333 455667888999999999999999999998765433

>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]

Probab=96.67  E-value=0.0007  Score=65.88  Aligned_cols=44  Identities=36%  Similarity=0.852  Sum_probs=38.2

Q ss_pred             ccccccccccCcEEcCCCCcccHhhHHHhcc--CCCCCCCCCcccc
Q 011050          204 DCTLCLKLLYEPITTPCGHSFCRSCLFQSMD--RGNKCPLCRAVLF  247 (494)
Q Consensus       204 ~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~--~~~~CP~Cr~~~~  247 (494)
                      .|.||-+-=++-.+-||||..|..||..|..  .+..||-||.++.
T Consensus       371 LCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIK  416 (563)
T KOG1785|consen  371 LCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIK  416 (563)
T ss_pred             HHHHhhccCCCcccccccchHHHHHHHhhcccCCCCCCCceeeEec
Confidence            5889999888877789999999999999875  3567999999874

>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=96.66  E-value=0.0067  Score=64.82  Aligned_cols=121  Identities=21%  Similarity=0.343  Sum_probs=106.5

Q ss_pred             hhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc----ccccChhHHHHHHH--hhhccCCCCCccccccCCCC
Q 011050           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----IVLGNRSSAYIRIS--QFLKHRPPSASEYRPLNGLD  115 (494)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~----~~~~~~a~~~~~~~--~~~~~~~~~~~~~~~~~~~~  115 (494)
                      .....+.....+|+..|.+++|..|...|..++.+.|.++    ....+.+.||+.++  +|                  
T Consensus        48 v~l~ra~~~~~E~n~~~~K~d~~~~~~~~~~~~~llp~~~~~~a~~~~~~~s~~m~~~l~~~------------------  109 (748)
T KOG4151|consen   48 VFLSRALELKEEGNKLFQKRDYEGAMFRYDCAIKLLPKDHHVVATLRSNQASCYMQLGLGEY------------------  109 (748)
T ss_pred             HHHHHHHHHHhhhhHHhhhhhhhccchhhhhhheeccccchhhhhHHHHHHHHHhhcCccch------------------
Confidence            3455678889999999999999999999999999988654    77888888888765  67                  


Q ss_pred             CchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhh
Q 011050          116 PTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (494)
Q Consensus       116 ~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~  185 (494)
                           ..++.++.-|+...|...++++.++.+|..+++++-|+.++.-....+|.+..+..-..+++..+
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                 89999999999999999999999999999999999999999999999999987777666666666

>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=96.64  E-value=0.0056  Score=59.94  Aligned_cols=106  Identities=17%  Similarity=0.103  Sum_probs=71.0

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHH--HHH--hhhccCCCCCccccccCCCCCchhHHHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYI--RIS--QFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~--~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      +.....-..+++.++++-|...+..+-+.+.+..  ..++|.+++  ..|  .+                       .+|
T Consensus       132 E~~al~Vqi~L~~~R~dlA~k~l~~~~~~~eD~~--l~qLa~awv~l~~g~e~~-----------------------~~A  186 (290)
T PF04733_consen  132 ELLALAVQILLKMNRPDLAEKELKNMQQIDEDSI--LTQLAEAWVNLATGGEKY-----------------------QDA  186 (290)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHCCSCCHH--HHHHHHHHHHHHHTTTCC-----------------------CHH
T ss_pred             cHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcHH--HHHHHHHHHHHHhCchhH-----------------------HHH
Confidence            3334455567788888888888888877765533  344444443  344  25                       788


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHH
Q 011050          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASL  178 (494)
Q Consensus       124 ~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~  178 (494)
                      .-.|+...+..+.++..+..+|.++..+|+|++|.+.+.+++..+|.+++....+
T Consensus       187 ~y~f~El~~~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNl  241 (290)
T PF04733_consen  187 FYIFEELSDKFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLANL  241 (290)
T ss_dssp             HHHHHHHHCCS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHH
T ss_pred             HHHHHHHHhccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHH
Confidence            8888887777777778888888888888888888888888888888877654444

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.

>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.63  E-value=0.00037  Score=47.87  Aligned_cols=44  Identities=30%  Similarity=0.785  Sum_probs=36.4

Q ss_pred             cccccccccccCcEEcCCCCc-ccHhhHHHhcc-CCCCCCCCCccc
Q 011050          203 FDCTLCLKLLYEPITTPCGHS-FCRSCLFQSMD-RGNKCPLCRAVL  246 (494)
Q Consensus       203 ~~C~iC~~~~~~Pv~~~cgh~-fc~~Cl~~~~~-~~~~CP~Cr~~~  246 (494)
                      .+|.||.+.-.+-|..-|||- +|..|-.+.+. .+..||+||.++
T Consensus         8 dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi   53 (62)
T KOG4172|consen    8 DECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPI   53 (62)
T ss_pred             cceeeeccCcchHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHH
Confidence            679999988888788899995 68889877766 456799999875

>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.57  E-value=0.0017  Score=62.28  Aligned_cols=53  Identities=21%  Similarity=0.596  Sum_probs=45.9

Q ss_pred             CCCCCCCcccccccccccccCcEEcCCCCcccHhhHHHhccCCCCCCCCCccc
Q 011050          194 HGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (494)
Q Consensus       194 ~~~~~~~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~  246 (494)
                      ......+++-.|+||.---.+.+..||||.-|..||.+++.+.+.|--|+..+
T Consensus       414 ~~~lp~sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv  466 (489)
T KOG4692|consen  414 NKDLPDSEDNLCPICYAGPINAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTV  466 (489)
T ss_pred             cCCCCCcccccCcceecccchhhccCCCCchHHHHHHHHHhcCCeeeEeccee
Confidence            34555678889999998777778889999999999999999999999998765

>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=96.56  E-value=0.012  Score=57.54  Aligned_cols=92  Identities=13%  Similarity=0.131  Sum_probs=74.0

Q ss_pred             ChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHH
Q 011050           62 NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSH  141 (494)
Q Consensus        62 ~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~  141 (494)
                      ++++|.-.|.+..+..+.++..+...|.|++.+|+|                       ++|.+.+..|+..+|+++.++
T Consensus       182 ~~~~A~y~f~El~~~~~~t~~~lng~A~~~l~~~~~-----------------------~eAe~~L~~al~~~~~~~d~L  238 (290)
T PF04733_consen  182 KYQDAFYIFEELSDKFGSTPKLLNGLAVCHLQLGHY-----------------------EEAEELLEEALEKDPNDPDTL  238 (290)
T ss_dssp             CCCHHHHHHHHHHCCS--SHHHHHHHHHHHHHCT-H-----------------------HHHHHHHHHHCCC-CCHHHHH
T ss_pred             hHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCH-----------------------HHHHHHHHHHHHhccCCHHHH
Confidence            689999999998888788888999999999999999                       999999999999999999999


Q ss_pred             HHHHHHHHHHHHH-HHHHHHHHccccCCCCCchhHH
Q 011050          142 LLKANALILLERY-DMARDAILSGLQVDPFSNPLQA  176 (494)
Q Consensus       142 ~~~g~~~~~~~~~-~~A~~~~~~al~l~p~~~~~~~  176 (494)
                      .+++-+...+|+. +.+...+.+.-..+|+++-+..
T Consensus       239 aNliv~~~~~gk~~~~~~~~l~qL~~~~p~h~~~~~  274 (290)
T PF04733_consen  239 ANLIVCSLHLGKPTEAAERYLSQLKQSNPNHPLVKD  274 (290)
T ss_dssp             HHHHHHHHHTT-TCHHHHHHHHHCHHHTTTSHHHHH
T ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHhCCCChHHHH
Confidence            9999888888888 4555677777778888775543

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.

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

Probab=96.51  E-value=0.005  Score=62.34  Aligned_cols=86  Identities=19%  Similarity=0.223  Sum_probs=73.9

Q ss_pred             HHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHH
Q 011050           50 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  129 (494)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  129 (494)
                      +-.++..+++.++|..|+....+|++++|....+|+.+|.+.+.++++                       .+|+.++++
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            445778889999999999999999999999999999999999999999                       999999999


Q ss_pred             HhhccccchHHHHHHHHHHH--HHHHHHHHH
Q 011050          130 LLNLQSNSMKSHLLKANALI--LLERYDMAR  158 (494)
Q Consensus       130 al~l~p~~~~a~~~~g~~~~--~~~~~~~A~  158 (494)
                      ...+.|+.+++......+-.  .+..|+.|+
T Consensus        98 ~~~l~Pnd~~~~r~~~Ec~~~vs~~~fe~ai  128 (476)
T KOG0376|consen   98 VKKLAPNDPDATRKIDECNKIVSEEKFEKAI  128 (476)
T ss_pred             hhhcCcCcHHHHHHHHHHHHHHHHHhhhhcc
Confidence            99999999998877766643  233444443

>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.51  E-value=0.0013  Score=63.92  Aligned_cols=45  Identities=29%  Similarity=0.796  Sum_probs=39.4

Q ss_pred             ccccccccccccCcEEcCCCCc-ccHhhHHHhccCCCCCCCCCccc
Q 011050          202 DFDCTLCLKLLYEPITTPCGHS-FCRSCLFQSMDRGNKCPLCRAVL  246 (494)
Q Consensus       202 ~~~C~iC~~~~~~Pv~~~cgh~-fc~~Cl~~~~~~~~~CP~Cr~~~  246 (494)
                      -.+|.||+.-.++-+.+||.|. .|..|.....-+.+.||+||+++
T Consensus       290 gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi  335 (349)
T KOG4265|consen  290 GKECVICLSESRDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPI  335 (349)
T ss_pred             CCeeEEEecCCcceEEecchhhehhHhHHHHHHHhhcCCCccccch
Confidence            5689999999999999999997 59999876655677899999986

>PRK15331 chaperone protein SicA; Provisional

Probab=96.51  E-value=0.017  Score=50.79  Aligned_cols=75  Identities=13%  Similarity=-0.002  Sum_probs=62.0

Q ss_pred             HHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHH
Q 011050           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (494)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (494)
                      -+...|..+...++|++|+..|..|..++++|+..++..|.||+.+|+.                       .+|..-+.
T Consensus        73 Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~agqC~l~l~~~-----------------------~~A~~~f~  129 (165)
T PRK15331         73 YTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKA-----------------------AKARQCFE  129 (165)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCH-----------------------HHHHHHHH
Confidence            3566777888899999999999999999999999999999999999999                       99999899


Q ss_pred             HHhhccccchHHHHHHHHHH
Q 011050          129 KLLNLQSNSMKSHLLKANAL  148 (494)
Q Consensus       129 ~al~l~p~~~~a~~~~g~~~  148 (494)
                      .++. .|.+ ..+..+|.++
T Consensus       130 ~a~~-~~~~-~~l~~~A~~~  147 (165)
T PRK15331        130 LVNE-RTED-ESLRAKALVY  147 (165)
T ss_pred             HHHh-Ccch-HHHHHHHHHH
Confidence            8888 4553 3333444443

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

Probab=96.47  E-value=0.00051  Score=66.21  Aligned_cols=113  Identities=7%  Similarity=0.018  Sum_probs=101.9

Q ss_pred             HHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHH
Q 011050           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (494)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (494)
                      ..+..|+.+++.|.|..|+.+|.+.+..+..+..+-.+ +..|.+..+|                       ..|+.++.
T Consensus       236 ~~K~~G~~Fsk~~~~~~~i~~~~~~~A~~~~~~~L~~~-~~~~~KI~~~-----------------------~~~~~~~~  291 (536)
T KOG4648|consen  236 PIKKPGYKFSKKAMRSVPVVDVVSPRATIDDSNQLRIS-DEDIDKIFNS-----------------------NCGIIEEV  291 (536)
T ss_pred             cccCcchhhhhhhccccceeEeeccccccCccccCccc-HHHHHHHhhc-----------------------chhHHHHH
Confidence            45789999999999999999999999998888877777 9999999999                       99999999


Q ss_pred             HHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhh
Q 011050          129 KLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (494)
Q Consensus       129 ~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~  185 (494)
                      +++.++|.+..+.-+.|.+--.+|...++..+++.++.+.|.+......+....+.+
T Consensus       292 ~~~~~~~s~~~~~s~~~~A~T~~~~~~E~K~~~~T~~~~~P~~~~~~~~~sr~~~~i  348 (536)
T KOG4648|consen  292 KKTNPKPTPMPDTSGPPKAETIAKTSKEVKPTKQTAVKVAPAVETPKETETRKDTKI  348 (536)
T ss_pred             HhcCCCCCcCcccCCCchhHHHHhhhhhcCcchhheeeeccccccchhhhhhhcccc
Confidence            999999999999999999999999999999999999999999988766665554433

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

Probab=96.46  E-value=0.015  Score=60.90  Aligned_cols=105  Identities=17%  Similarity=-0.019  Sum_probs=94.8

Q ss_pred             HHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhc
Q 011050           54 GNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNL  133 (494)
Q Consensus        54 g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l  133 (494)
                      ++..--.++.++|+....++++.-|..+.+|..+|+++-++++.                       +.|.+.|..-++.
T Consensus       658 ~~~er~ld~~eeA~rllEe~lk~fp~f~Kl~lmlGQi~e~~~~i-----------------------e~aR~aY~~G~k~  714 (913)
T KOG0495|consen  658 ANLERYLDNVEEALRLLEEALKSFPDFHKLWLMLGQIEEQMENI-----------------------EMAREAYLQGTKK  714 (913)
T ss_pred             hHHHHHhhhHHHHHHHHHHHHHhCCchHHHHHHHhHHHHHHHHH-----------------------HHHHHHHHhcccc
Confidence            33344568889999999999999999999999999999999999                       9999999999999


Q ss_pred             cccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          134 QSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       134 ~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      .|.....|..++..-...|+.-.|...++++.-.||.+..++...=++
T Consensus       715 cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk~~~lwle~Ir~  762 (913)
T KOG0495|consen  715 CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPKNALLWLESIRM  762 (913)
T ss_pred             CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCCcchhHHHHHHH
Confidence            999999999999999999999999999999999999999877654433

>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=96.42  E-value=0.012  Score=59.68  Aligned_cols=103  Identities=15%  Similarity=0.152  Sum_probs=88.8

Q ss_pred             HhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccch
Q 011050           59 RESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSM  138 (494)
Q Consensus        59 ~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~  138 (494)
                      ..++++.|+..+.+..+.+|.   +...+|.+++..++.                       .+|++.+.+++..+|.+.
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   445578888887777                       899999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhh
Q 011050          139 KSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  187 (494)
Q Consensus       139 ~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~  187 (494)
                      ..+...|..+...++++.|+...++|..+.|++-..|..+..+--.++.
T Consensus       235 ~LL~~Qa~fLl~k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d  283 (395)
T PF09295_consen  235 ELLNLQAEFLLSKKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGD  283 (395)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCC
Confidence            9999999999999999999999999999999999888877665444433

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=96.42  E-value=0.0053  Score=64.94  Aligned_cols=70  Identities=13%  Similarity=0.000  Sum_probs=62.1

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (494)
                      ..+...|..+...|++++|...|++|+.++| +..+|..+|.++...|++                       ++|++.+
T Consensus       421 ~~~~ala~~~~~~g~~~~A~~~l~rAl~L~p-s~~a~~~lG~~~~~~G~~-----------------------~eA~~~~  476 (517)
T PRK10153        421 RIYEILAVQALVKGKTDEAYQAINKAIDLEM-SWLNYVLLGKVYELKGDN-----------------------RLAADAY  476 (517)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHcCCH-----------------------HHHHHHH
Confidence            3455567777889999999999999999999 478999999999999999                       9999999


Q ss_pred             HHHhhccccchHHH
Q 011050          128 EKLLNLQSNSMKSH  141 (494)
Q Consensus       128 ~~al~l~p~~~~a~  141 (494)
                      ++|++++|.++..|
T Consensus       477 ~~A~~L~P~~pt~~  490 (517)
T PRK10153        477 STAFNLRPGENTLY  490 (517)
T ss_pred             HHHHhcCCCCchHH
Confidence            99999999987633

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.41  E-value=0.0058  Score=57.85  Aligned_cols=79  Identities=15%  Similarity=0.081  Sum_probs=67.8

Q ss_pred             ccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccc---hHHHHHHHHHHHHHHHHHHHHHH
Q 011050           84 LGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNS---MKSHLLKANALILLERYDMARDA  160 (494)
Q Consensus        84 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~---~~a~~~~g~~~~~~~~~~~A~~~  160 (494)
                      +++-|.-+++.|+|                       ..|...+..-++.-|+.   +.|+||+|.+++.+|+|++|...
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            57788889999999                       99999999999988765   56999999999999999999999


Q ss_pred             HHccccCCCCCchhHHHHHHHHhhh
Q 011050          161 ILSGLQVDPFSNPLQASLQNLERTT  185 (494)
Q Consensus       161 ~~~al~l~p~~~~~~~~~~~~~~~~  185 (494)
                      |..+.+-.|.++.+-+++-++-..+
T Consensus       201 f~~~~k~~P~s~KApdallKlg~~~  225 (262)
T COG1729         201 FARVVKDYPKSPKAPDALLKLGVSL  225 (262)
T ss_pred             HHHHHHhCCCCCCChHHHHHHHHHH
Confidence            9999999999988766665544433

>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.36  E-value=0.0028  Score=58.72  Aligned_cols=49  Identities=22%  Similarity=0.564  Sum_probs=39.2

Q ss_pred             CCCcccccccccccccCcE----------EcCCCCcccHhhHHHhccCCC--CCCCCCccc
Q 011050          198 ERTDDFDCTLCLKLLYEPI----------TTPCGHSFCRSCLFQSMDRGN--KCPLCRAVL  246 (494)
Q Consensus       198 ~~~~~~~C~iC~~~~~~Pv----------~~~cgh~fc~~Cl~~~~~~~~--~CP~Cr~~~  246 (494)
                      .-.++--|.+|...+..-+          .++|+|.|+..||.+|..-|+  .||-|+..+
T Consensus       220 khl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekV  280 (328)
T KOG1734|consen  220 KHLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKV  280 (328)
T ss_pred             CCCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHh
Confidence            3446678999988766443          689999999999999987554  699999876

>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.33  E-value=0.0023  Score=63.13  Aligned_cols=49  Identities=27%  Similarity=0.806  Sum_probs=39.9

Q ss_pred             CCCcccccccccccccCcE-----E---cCCCCcccHhhHHHhcc--C-----CCCCCCCCccc
Q 011050          198 ERTDDFDCTLCLKLLYEPI-----T---TPCGHSFCRSCLFQSMD--R-----GNKCPLCRAVL  246 (494)
Q Consensus       198 ~~~~~~~C~iC~~~~~~Pv-----~---~~cgh~fc~~Cl~~~~~--~-----~~~CP~Cr~~~  246 (494)
                      ....+..|-||++...++.     .   .+|.|+||..|+..|-.  +     ...||.||...
T Consensus       157 ~~s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s  220 (344)
T KOG1039|consen  157 QKSSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS  220 (344)
T ss_pred             CccccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence            3467889999999888776     3   57999999999999973  3     36799999865

>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=96.33  E-value=0.015  Score=61.28  Aligned_cols=99  Identities=12%  Similarity=0.036  Sum_probs=88.4

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      ...+.-.|.-+-..|++++|+.+.++||+..|..+.+|...|.++-..|++                       .+|.+.
T Consensus       194 lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt~~ely~~KarilKh~G~~-----------------------~~Aa~~  250 (517)
T PF12569_consen  194 LWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPTLVELYMTKARILKHAGDL-----------------------KEAAEA  250 (517)
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHCCCH-----------------------HHHHHH
Confidence            445566777788899999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCC
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVD  168 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~  168 (494)
                      ++.|-.+|+.+-..-...+..+...|+.++|.+.+....+-+
T Consensus       251 ~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~  292 (517)
T PF12569_consen  251 MDEARELDLADRYINSKCAKYLLRAGRIEEAEKTASLFTRED  292 (517)
T ss_pred             HHHHHhCChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCC
Confidence            999999999887777777888889999999999888776654

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 [], [].

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

Probab=96.32  E-value=0.025  Score=58.67  Aligned_cols=114  Identities=24%  Similarity=0.230  Sum_probs=70.8

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCc----------
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPT----------  117 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------  117 (494)
                      ..++..-+.+...|+|++|+....+.+...|++..++.-.-.|.+++++|-.+.        .++...+.          
T Consensus        13 ~~l~t~ln~~~~~~e~e~a~k~~~Kil~~~pdd~~a~~cKvValIq~~ky~~AL--------k~ikk~~~~~~~~~~~fE   84 (652)
T KOG2376|consen   13 EALLTDLNRHGKNGEYEEAVKTANKILSIVPDDEDAIRCKVVALIQLDKYEDAL--------KLIKKNGALLVINSFFFE   84 (652)
T ss_pred             HHHHHHHHHhccchHHHHHHHHHHHHHhcCCCcHhhHhhhHhhhhhhhHHHHHH--------HHHHhcchhhhcchhhHH
Confidence            566777777788888888888888888887777765555555555555550000        00000000          


Q ss_pred             --------hhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCc
Q 011050          118 --------THAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (494)
Q Consensus       118 --------~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~  172 (494)
                              ...++|+..++   .+++......-..|++++.+|+|++|.+.|+...+-+.++-
T Consensus        85 KAYc~Yrlnk~Dealk~~~---~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~  144 (652)
T KOG2376|consen   85 KAYCEYRLNKLDEALKTLK---GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQ  144 (652)
T ss_pred             HHHHHHHcccHHHHHHHHh---cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchH
Confidence                    00055555555   45566666777788888888888888888888766555443

>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]

Probab=96.23  E-value=0.0018  Score=65.34  Aligned_cols=50  Identities=30%  Similarity=0.763  Sum_probs=41.5

Q ss_pred             CCCcccccccccccccCcEEcCCCCcccHhhHHHhcc-----CCCCCCCCCcccc
Q 011050          198 ERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD-----RGNKCPLCRAVLF  247 (494)
Q Consensus       198 ~~~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~-----~~~~CP~Cr~~~~  247 (494)
                      .......|.+|.+.-.+++..+|.|.||+-|+.....     .+-.||.|-..+.
T Consensus       532 enk~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls  586 (791)
T KOG1002|consen  532 ENKGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS  586 (791)
T ss_pred             cccCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence            3456778999999999999999999999999977553     2346999988774

>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]

Probab=96.09  E-value=0.0045  Score=46.26  Aligned_cols=29  Identities=31%  Similarity=0.789  Sum_probs=26.8

Q ss_pred             CCCCcccHhhHHHhccCCCCCCCCCcccc
Q 011050          219 PCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (494)
Q Consensus       219 ~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~  247 (494)
                      -|.|.|+..||.+|+.....||++|++..
T Consensus        53 ~CnHaFH~HCI~rWL~Tk~~CPld~q~w~   81 (88)
T COG5194          53 VCNHAFHDHCIYRWLDTKGVCPLDRQTWV   81 (88)
T ss_pred             ecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence            69999999999999999999999999753

>smart00028 TPR Tetratricopeptide repeats

Probab=96.08  E-value=0.0087  Score=36.08  Aligned_cols=33  Identities=27%  Similarity=0.320  Sum_probs=30.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHccccCCCCC
Q 011050          139 KSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (494)
Q Consensus       139 ~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~  171 (494)
                      .+++.+|.++..++++++|...|.++++++|.+
T Consensus         2 ~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~~   34 (34)
T smart00028        2 EALYNLGNAYLKLGDYDEALEYYEKALELDPNN   34 (34)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCC
Confidence            578999999999999999999999999998863

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.

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=96.03  E-value=0.0064  Score=37.84  Aligned_cols=33  Identities=21%  Similarity=0.096  Sum_probs=30.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHccccCCCCC
Q 011050          139 KSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (494)
Q Consensus       139 ~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~  171 (494)
                      +|++++|.+|..+|++++|+..|++.++..|++
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            478999999999999999999999999988874

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

Probab=95.99  E-value=0.031  Score=51.92  Aligned_cols=76  Identities=17%  Similarity=0.153  Sum_probs=66.0

Q ss_pred             HHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHH
Q 011050           50 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  129 (494)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  129 (494)
                      +.+....++..|+|-+++.+.+..+..+|.+..+|+.||.+....=+.                       .+|.+|+.+
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            456677788999999999999999999999999999999999887777                       999999999


Q ss_pred             HhhccccchHHHHHHHHHH
Q 011050          130 LLNLQSNSMKSHLLKANAL  148 (494)
Q Consensus       130 al~l~p~~~~a~~~~g~~~  148 (494)
                      +++++|.-..+..+--.++
T Consensus       290 vL~ldpslasvVsrElr~l  308 (329)
T KOG0545|consen  290 VLELDPSLASVVSRELRLL  308 (329)
T ss_pred             HHhcChhhHHHHHHHHHHH
Confidence            9999998777665554444

>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=95.98  E-value=0.0041  Score=66.94  Aligned_cols=51  Identities=25%  Similarity=0.715  Sum_probs=39.9

Q ss_pred             CCCCccccccccccccc-C----c--EEcCCCCcccHhhHHHhccCC--CCCCCCCcccc
Q 011050          197 PERTDDFDCTLCLKLLY-E----P--ITTPCGHSFCRSCLFQSMDRG--NKCPLCRAVLF  247 (494)
Q Consensus       197 ~~~~~~~~C~iC~~~~~-~----P--v~~~cgh~fc~~Cl~~~~~~~--~~CP~Cr~~~~  247 (494)
                      .......+|+||..+++ .    |  ..-.|.|.|+.+|+.+|+..+  +.||+||..++
T Consensus      1464 ~~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1464 EKFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             hhcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            34567789999999887 1    2  234699999999999999854  57999998763

>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=95.95  E-value=0.0096  Score=37.43  Aligned_cols=33  Identities=18%  Similarity=0.300  Sum_probs=29.8

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCC
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPG   79 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~   79 (494)
                      +..+...|..+...|++++|+..|.++++++|+
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            356888999999999999999999999999984

...

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.94  E-value=0.011  Score=56.26  Aligned_cols=95  Identities=20%  Similarity=0.297  Sum_probs=80.2

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      ++......|-..|+.|+|+.|+..|+.|++....++.+-+|.|.|+++.++|                       ..|++
T Consensus       143 ~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyqpllAYniALaHy~~~qy-----------------------asALk  199 (459)
T KOG4340|consen  143 EADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQPLLAYNLALAHYSSRQY-----------------------ASALK  199 (459)
T ss_pred             ccchhccchheeeccccHHHHHHHHHHHHhhcCCCchhHHHHHHHHHhhhhH-----------------------HHHHH
Confidence            4566777888999999999999999999999999999999999999999999                       88988


Q ss_pred             HHHHHhhc----ccc-------------------------chHHHHHHHHHHHHHHHHHHHHHHHHc
Q 011050          126 DAEKLLNL----QSN-------------------------SMKSHLLKANALILLERYDMARDAILS  163 (494)
Q Consensus       126 ~~~~al~l----~p~-------------------------~~~a~~~~g~~~~~~~~~~~A~~~~~~  163 (494)
                      .....++.    .|.                         -.+|+...+.++++.|+++.|.+.+.-
T Consensus       200 ~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtD  266 (459)
T KOG4340|consen  200 HISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTD  266 (459)
T ss_pred             HHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhc
Confidence            88777653    121                         234677788889999999999988754

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.87  E-value=0.061  Score=51.40  Aligned_cols=105  Identities=19%  Similarity=0.171  Sum_probs=90.7

Q ss_pred             HHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhcccc
Q 011050           57 AFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSN  136 (494)
Q Consensus        57 ~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~  136 (494)
                      +.+..+|+.||.+.+.-.+.+|.+...++-+|-||+...+|                       ..|..-|++..++.|.
T Consensus        20 lI~d~ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~Q~f-----------------------~~AA~CYeQL~ql~P~   76 (459)
T KOG4340|consen   20 LIRDARYADAIQLLGSELERSPRSRAGLSLLGYCYYRLQEF-----------------------ALAAECYEQLGQLHPE   76 (459)
T ss_pred             HHHHhhHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHhhChH
Confidence            46788999999999999999999999999999999999999                       8999999999999999


Q ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhhh
Q 011050          137 SMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  188 (494)
Q Consensus       137 ~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~  188 (494)
                      ..+--+.-|+.++..+.+.+|+......    .++...++..-+++.++...
T Consensus        77 ~~qYrlY~AQSLY~A~i~ADALrV~~~~----~D~~~L~~~~lqLqaAIkYs  124 (459)
T KOG4340|consen   77 LEQYRLYQAQSLYKACIYADALRVAFLL----LDNPALHSRVLQLQAAIKYS  124 (459)
T ss_pred             HHHHHHHHHHHHHHhcccHHHHHHHHHh----cCCHHHHHHHHHHHHHHhcc
Confidence            9999999999999999999999876654    34566666666676666543

>PRK10941 hypothetical protein; Provisional

Probab=95.85  E-value=0.015  Score=56.08  Aligned_cols=75  Identities=17%  Similarity=0.111  Sum_probs=66.0

Q ss_pred             ccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHc
Q 011050           84 LGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILS  163 (494)
Q Consensus        84 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~  163 (494)
                      +.|+=.+|.+.+++                       ..|++..+..+.++|+++.-+..+|.+|.++|.+..|+.+++.
T Consensus       184 l~nLK~~~~~~~~~-----------------------~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~~~A~~DL~~  240 (269)
T PRK10941        184 LDTLKAALMEEKQM-----------------------ELALRASEALLQFDPEDPYEIRDRGLIYAQLDCEHVALSDLSY  240 (269)
T ss_pred             HHHHHHHHHHcCcH-----------------------HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHH
Confidence            34555778888889                       9999999999999999999999999999999999999999999


Q ss_pred             cccCCCCCchhHHHHHHH
Q 011050          164 GLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       164 al~l~p~~~~~~~~~~~~  181 (494)
                      .++..|+++.+......+
T Consensus       241 fl~~~P~dp~a~~ik~ql  258 (269)
T PRK10941        241 FVEQCPEDPISEMIRAQI  258 (269)
T ss_pred             HHHhCCCchhHHHHHHHH
Confidence            999999998875544444

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

Probab=95.85  E-value=0.066  Score=55.61  Aligned_cols=110  Identities=16%  Similarity=0.201  Sum_probs=74.1

Q ss_pred             HHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH-------
Q 011050           51 VQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA-------  123 (494)
Q Consensus        51 ~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a-------  123 (494)
                      +++|..+|+.+..++|+..++   .+++.+..++.-+|+.++++++|    +.+-.-|+++..-+.-+.-.+-       
T Consensus        83 fEKAYc~Yrlnk~Dealk~~~---~~~~~~~~ll~L~AQvlYrl~~y----dealdiY~~L~kn~~dd~d~~~r~nl~a~  155 (652)
T KOG2376|consen   83 FEKAYCEYRLNKLDEALKTLK---GLDRLDDKLLELRAQVLYRLERY----DEALDIYQHLAKNNSDDQDEERRANLLAV  155 (652)
T ss_pred             HHHHHHHHHcccHHHHHHHHh---cccccchHHHHHHHHHHHHHhhH----HHHHHHHHHHHhcCCchHHHHHHHHHHHH
Confidence            688999999999999999998   66777777888899999999999    2233333333222211110000       


Q ss_pred             --HHH--HHHHhhcccc-chHHHHHHHHHHHHHHHHHHHHHHHHccccC
Q 011050          124 --LKD--AEKLLNLQSN-SMKSHLLKANALILLERYDMARDAILSGLQV  167 (494)
Q Consensus       124 --~~~--~~~al~l~p~-~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l  167 (494)
                        ...  ..+++...|. ..+.+|+.|.++...|+|.+|++.+++|+++
T Consensus       156 ~a~l~~~~~q~v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~  204 (652)
T KOG2376|consen  156 AAALQVQLLQSVPEVPEDSYELLYNTACILIENGKYNQAIELLEKALRI  204 (652)
T ss_pred             HHhhhHHHHHhccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence              000  1111122232 5667999999999999999999999999543

>KOG4367 consensus Predicted Zn-finger protein [Function unknown]

Probab=95.70  E-value=0.0055  Score=60.42  Aligned_cols=35  Identities=29%  Similarity=0.875  Sum_probs=31.4

Q ss_pred             cccccccccccccCcEEcCCCCcccHhhHHHhccC
Q 011050          201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR  235 (494)
Q Consensus       201 ~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~  235 (494)
                      +++.|++|...|.+|++++|||+.|+.|....+..
T Consensus         3 eelkc~vc~~f~~epiil~c~h~lc~~ca~~~~~~   37 (699)
T KOG4367|consen    3 EELKCPVCGSFYREPIILPCSHNLCQACARNILVQ   37 (699)
T ss_pred             ccccCceehhhccCceEeecccHHHHHHHHhhccc
Confidence            57899999999999999999999999998866543

>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=95.64  E-value=0.0071  Score=58.89  Aligned_cols=48  Identities=31%  Similarity=0.694  Sum_probs=37.2

Q ss_pred             CCCCCcccccccccccccCcEEcCCCCcccHhhHHHhccCCCCCCCCCccc
Q 011050          196 TPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (494)
Q Consensus       196 ~~~~~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~  246 (494)
                      .........|.+|.+-.++.+.+||||..|  |...... -..||+||+.+
T Consensus       299 ~~~~~~p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs~~-l~~CPvCR~rI  346 (355)
T KOG1571|consen  299 FRELPQPDLCVVCLDEPKSAVFVPCGHVCC--CTLCSKH-LPQCPVCRQRI  346 (355)
T ss_pred             ccccCCCCceEEecCCccceeeecCCcEEE--chHHHhh-CCCCchhHHHH
Confidence            334556678999999999999999999988  8765433 23599999865

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.64  E-value=0.062  Score=52.49  Aligned_cols=89  Identities=16%  Similarity=0.103  Sum_probs=76.7

Q ss_pred             HHHHHHhcChHHHHHHHHHHhccCCCCc-ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhh
Q 011050           54 GNRAFRESNFEEAISNYSRANNIKPGDP-IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLN  132 (494)
Q Consensus        54 g~~~~~~~~~~~Ai~~y~~al~~~p~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~  132 (494)
                      -.++..+.||..|+....-.+.++...- .+-...|-||+.+|+|                       ++|+..|.-+.+
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            4667888999999999988887765433 5555678999999999                       999999999999


Q ss_pred             ccccchHHHHHHHHHHHHHHHHHHHHHHHHccc
Q 011050          133 LQSNSMKSHLLKANALILLERYDMARDAILSGL  165 (494)
Q Consensus       133 l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al  165 (494)
                      .+.-..+.+.++|-+++.+|.|.+|.....+|-
T Consensus        86 ~~~~~~el~vnLAcc~FyLg~Y~eA~~~~~ka~  118 (557)
T KOG3785|consen   86 KDDAPAELGVNLACCKFYLGQYIEAKSIAEKAP  118 (557)
T ss_pred             cCCCCcccchhHHHHHHHHHHHHHHHHHHhhCC
Confidence            887788899999999999999999999887763

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=95.61  E-value=0.0061  Score=42.52  Aligned_cols=45  Identities=29%  Similarity=0.687  Sum_probs=36.1

Q ss_pred             cccccccccccccCcEEcCCCCcccHhhHHHhccCCCCCCCCCcccc
Q 011050          201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (494)
Q Consensus       201 ~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~  247 (494)
                      ....|-+|...-...+.+||||..|..|...+  .-+-||.|..++.
T Consensus         6 ~~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~   50 (55)
T PF14447_consen    6 PEQPCVFCGFVGTKGTVLPCGHLICDNCFPGE--RYNGCPFCGTPFE   50 (55)
T ss_pred             cceeEEEccccccccccccccceeeccccChh--hccCCCCCCCccc
Confidence            45678888888888899999999999996543  3356999998874

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=95.58  E-value=0.014  Score=57.09  Aligned_cols=104  Identities=14%  Similarity=0.060  Sum_probs=74.0

Q ss_pred             hhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCC--C----cccccChhHHHHHHHhhhccCCCCCccccccCCCC
Q 011050           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPG--D----PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLD  115 (494)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~--~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (494)
                      +....+..+...|+.|-..|+|++|..+|.+|....-+  +    ...|.+-+.+|.+. ++                  
T Consensus        30 ~~e~Aa~~y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~-~~------------------   90 (282)
T PF14938_consen   30 DYEEAADLYEKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKG-DP------------------   90 (282)
T ss_dssp             HHHHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT-TH------------------
T ss_pred             CHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhh-CH------------------
Confidence            44444556667777777889999999999999776322  1    24455555554443 66                  


Q ss_pred             CchhHHHHHHHHHHHhhcc-----c-cchHHHHHHHHHHHHH-HHHHHHHHHHHccccCCC
Q 011050          116 PTTHAELALKDAEKLLNLQ-----S-NSMKSHLLKANALILL-ERYDMARDAILSGLQVDP  169 (494)
Q Consensus       116 ~~~~~~~a~~~~~~al~l~-----p-~~~~a~~~~g~~~~~~-~~~~~A~~~~~~al~l~p  169 (494)
                           .+|+..+++|+++-     + .-...+..+|.+|... |++++|++.|.+|+.+-.
T Consensus        91 -----~~Ai~~~~~A~~~y~~~G~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~  146 (282)
T PF14938_consen   91 -----DEAIECYEKAIEIYREAGRFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYE  146 (282)
T ss_dssp             -----HHHHHHHHHHHHHHHHCT-HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHH
T ss_pred             -----HHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence                 89999999999862     2 2356788999999888 999999999999998744

>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=95.56  E-value=0.0051  Score=61.76  Aligned_cols=49  Identities=39%  Similarity=0.763  Sum_probs=36.9

Q ss_pred             CCcccccccccccccC-----------------cEEcCCCCcccHhhHHHhccCCC-CCCCCCcccc
Q 011050          199 RTDDFDCTLCLKLLYE-----------------PITTPCGHSFCRSCLFQSMDRGN-KCPLCRAVLF  247 (494)
Q Consensus       199 ~~~~~~C~iC~~~~~~-----------------Pv~~~cgh~fc~~Cl~~~~~~~~-~CP~Cr~~~~  247 (494)
                      ......|+||+....-                 -..+||.|.|++.||..|-..-+ .||.||++++
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            4455689999865431                 12349999999999999987444 7999999874

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.54  E-value=0.071  Score=47.98  Aligned_cols=101  Identities=14%  Similarity=0.147  Sum_probs=78.0

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC---cccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      +......|..++..+++++|+.....++...-+.   +.+-.++|.+.+..+.+                       ++|
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            4566788999999999999999999999653332   25556788889999999                       888


Q ss_pred             HHHHHHHhhccccchH-HHHHHHHHHHHHHHHHHHHHHHHccccCCCCCc
Q 011050          124 LKDAEKLLNLQSNSMK-SHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (494)
Q Consensus       124 ~~~~~~al~l~p~~~~-a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~  172 (494)
                      +..++....  +.+.. .--.+|.++...|+-.+|+..|.+++..++++.
T Consensus       146 L~~L~t~~~--~~w~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~~s~~  193 (207)
T COG2976         146 LKTLDTIKE--ESWAAIVAELRGDILLAKGDKQEARAAYEKALESDASPA  193 (207)
T ss_pred             HHHHhcccc--ccHHHHHHHHhhhHHHHcCchHHHHHHHHHHHHccCChH
Confidence            876665433  23322 234679999999999999999999999885443

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.53  E-value=0.13  Score=46.34  Aligned_cols=99  Identities=23%  Similarity=0.264  Sum_probs=55.2

Q ss_pred             HHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhH-HHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHH
Q 011050           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSS-AYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (494)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (494)
                      .+...|......+++..|+..+.+++...+.+.......+. ++...+++                       ..|...+
T Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------------~~a~~~~  153 (291)
T COG0457          97 ALLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLALGALYELGDY-----------------------EEALELY  153 (291)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcchHHHHHHHHHHHHcCCH-----------------------HHHHHHH
Confidence            34445555555555666666666666655555333333334 55555666                       6666666


Q ss_pred             HHHhhccc---cchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCC
Q 011050          128 EKLLNLQS---NSMKSHLLKANALILLERYDMARDAILSGLQVDPF  170 (494)
Q Consensus       128 ~~al~l~p---~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~  170 (494)
                      .+++..+|   .....++..+..+...+++++|+..+.+++...+.
T Consensus       154 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~  199 (291)
T COG0457         154 EKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPD  199 (291)
T ss_pred             HHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcc
Confidence            66655554   34444445555555556666666666666666555

>PRK10941 hypothetical protein; Provisional

Probab=95.52  E-value=0.052  Score=52.28  Aligned_cols=76  Identities=18%  Similarity=0.233  Sum_probs=68.1

Q ss_pred             HHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHH
Q 011050           50 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  129 (494)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  129 (494)
                      +...-..+.+.++|+.|+.+....+.++|+++.-+.-||.+|.+++.+                       ..|..|++.
T Consensus       184 l~nLK~~~~~~~~~~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~-----------------------~~A~~DL~~  240 (269)
T PRK10941        184 LDTLKAALMEEKQMELALRASEALLQFDPEDPYEIRDRGLIYAQLDCE-----------------------HVALSDLSY  240 (269)
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCc-----------------------HHHHHHHHH
Confidence            345566678999999999999999999999999999999999999999                       999999999


Q ss_pred             HhhccccchHHHHHHHHHH
Q 011050          130 LLNLQSNSMKSHLLKANAL  148 (494)
Q Consensus       130 al~l~p~~~~a~~~~g~~~  148 (494)
                      .++..|+.+.+..-+.++.
T Consensus       241 fl~~~P~dp~a~~ik~ql~  259 (269)
T PRK10941        241 FVEQCPEDPISEMIRAQIH  259 (269)
T ss_pred             HHHhCCCchhHHHHHHHHH
Confidence            9999999998876665554

>KOG3824 consensus Huntingtin interacting protein HYPE [General function prediction only]

Probab=95.39  E-value=0.046  Score=52.34  Aligned_cols=82  Identities=13%  Similarity=0.169  Sum_probs=56.7

Q ss_pred             hHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHH
Q 011050           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (494)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (494)
                      ..+.|......|....+.|+.++|...|..|+.++|.++.++...|...-.-++.                       -+
T Consensus       112 ~~kEA~~Al~~A~~~~~~Gk~ekA~~lfeHAlalaP~~p~~L~e~G~f~E~~~~i-----------------------v~  168 (472)
T KOG3824|consen  112 KVKEAILALKAAGRSRKDGKLEKAMTLFEHALALAPTNPQILIEMGQFREMHNEI-----------------------VE  168 (472)
T ss_pred             hhHHHHHHHHHHHHHHhccchHHHHHHHHHHHhcCCCCHHHHHHHhHHHHhhhhh-----------------------Hh
Confidence            3344555556667777778888888888888888888877766555554444444                       66


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHH
Q 011050          123 ALKDAEKLLNLQSNSMKSHLLKANA  147 (494)
Q Consensus       123 a~~~~~~al~l~p~~~~a~~~~g~~  147 (494)
                      |-..|-+|+.++|.+.+|+.+++..
T Consensus       169 ADq~Y~~ALtisP~nseALvnR~RT  193 (472)
T KOG3824|consen  169 ADQCYVKALTISPGNSEALVNRART  193 (472)
T ss_pred             hhhhhheeeeeCCCchHHHhhhhcc
Confidence            7677777888888887777777654

>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=95.34  E-value=0.0086  Score=55.34  Aligned_cols=60  Identities=30%  Similarity=0.750  Sum_probs=37.5

Q ss_pred             cccccccc-ccCcEE-cCCCCcccHhhHHHhccCCCCCCCCCcccccCCCCCcccccHHHHHHHhChH
Q 011050          204 DCTLCLKL-LYEPIT-TPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPE  269 (494)
Q Consensus       204 ~C~iC~~~-~~~Pv~-~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~p~  269 (494)
                      .|.-|... -.+|.. +.|+|.||..|..-.  ....||+|+..+.    ....+..|..-+..+|.+
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            57766642 245543 599999999997543  2348999999863    223333455555555543

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=95.33  E-value=0.0051  Score=39.58  Aligned_cols=28  Identities=11%  Similarity=-0.035  Sum_probs=24.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHccccC
Q 011050          140 SHLLKANALILLERYDMARDAILSGLQV  167 (494)
Q Consensus       140 a~~~~g~~~~~~~~~~~A~~~~~~al~l  167 (494)
                      +|..+|.+|..+|+|++|++.|+++|.+
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~l   28 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALAL   28 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            5789999999999999999999996654

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.29  E-value=0.092  Score=47.30  Aligned_cols=101  Identities=25%  Similarity=0.197  Sum_probs=84.6

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhc--cCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANN--IKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~--~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (494)
                      .......+..+...+++..++..+..++.  ..+.....+...+..+...+++                       ..++
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------------~~~~  115 (291)
T COG0457          59 AGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKY-----------------------EEAL  115 (291)
T ss_pred             hHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhH-----------------------HHHH
Confidence            34556677788888999999999999887  6788888888888888888888                       8999


Q ss_pred             HHHHHHhhccccchHHHHHHHH-HHHHHHHHHHHHHHHHccccCCCC
Q 011050          125 KDAEKLLNLQSNSMKSHLLKAN-ALILLERYDMARDAILSGLQVDPF  170 (494)
Q Consensus       125 ~~~~~al~l~p~~~~a~~~~g~-~~~~~~~~~~A~~~~~~al~l~p~  170 (494)
                      ..+.+++..++.........+. ++...|+++.|+..|.+++..+|.
T Consensus       116 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~  162 (291)
T COG0457         116 ELLEKALALDPDPDLAEALLALGALYELGDYEEALELYEKALELDPE  162 (291)
T ss_pred             HHHHHHHcCCCCcchHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Confidence            9999999988877666666777 889999999999999999887763

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=95.25  E-value=0.063  Score=45.26  Aligned_cols=71  Identities=13%  Similarity=0.090  Sum_probs=59.4

Q ss_pred             hhHHHHHHHHHHHhh-cccc-chHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhhh
Q 011050          118 THAELALKDAEKLLN-LQSN-SMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  188 (494)
Q Consensus       118 ~~~~~a~~~~~~al~-l~p~-~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~  188 (494)
                      .++.+.+..++..+. -.|. .-...|++|..++.+++|++|+.+.+..|+.+|+|.++....+.+++++.+.
T Consensus        49 ~dv~~GI~iLe~l~~~~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~~e~~n~Qa~~Lk~~ied~itke  121 (149)
T KOG3364|consen   49 EDVQEGIVILEDLLKSAHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLETEPNNRQALELKETIEDKITKE  121 (149)
T ss_pred             HHHHHhHHHHHHHhhhcCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhc
Confidence            344888888888886 4443 3567889999999999999999999999999999999998888888877553

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

Probab=95.23  E-value=0.089  Score=51.07  Aligned_cols=68  Identities=15%  Similarity=0.220  Sum_probs=60.1

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      +.-|.++|...+.-|+|..|+...++|+.++|.+..+|+.-|.|++.+.++                       .+|+..
T Consensus       119 avLY~NRAAa~~~l~NyRs~l~Dcs~al~~~P~h~Ka~~R~Akc~~eLe~~-----------------------~~a~nw  175 (390)
T KOG0551|consen  119 AVLYTNRAAAQLYLGNYRSALNDCSAALKLKPTHLKAYIRGAKCLLELERF-----------------------AEAVNW  175 (390)
T ss_pred             HHHHhhHHHHHHHHHHHHHHHHHHHHHHhcCcchhhhhhhhhHHHHHHHHH-----------------------HHHHHH
Confidence            444667888888889999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccc
Q 011050          127 AEKLLNLQSNS  137 (494)
Q Consensus       127 ~~~al~l~p~~  137 (494)
                      ++..++.+-..
T Consensus       176 ~ee~~~~d~e~  186 (390)
T KOG0551|consen  176 CEEGLQIDDEA  186 (390)
T ss_pred             HhhhhhhhHHH
Confidence            99887776433

>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins

Probab=95.10  E-value=0.015  Score=40.23  Aligned_cols=40  Identities=23%  Similarity=0.714  Sum_probs=31.2

Q ss_pred             ccccccc--cccCcEEcCCC-----CcccHhhHHHhccCC--CCCCCCC
Q 011050          204 DCTLCLK--LLYEPITTPCG-----HSFCRSCLFQSMDRG--NKCPLCR  243 (494)
Q Consensus       204 ~C~iC~~--~~~~Pv~~~cg-----h~fc~~Cl~~~~~~~--~~CP~Cr  243 (494)
                      .|.||++  .-.+|...||.     |.++..||..|+..+  ..||+|+
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  44566777985     789999999999744  4799995

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

>KOG0825 consensus PHD Zn-finger protein [General function prediction only]

Probab=95.09  E-value=0.0048  Score=65.18  Aligned_cols=47  Identities=23%  Similarity=0.514  Sum_probs=38.7

Q ss_pred             CcccccccccccccCcEE---cCCCCcccHhhHHHhccCCCCCCCCCccc
Q 011050          200 TDDFDCTLCLKLLYEPIT---TPCGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (494)
Q Consensus       200 ~~~~~C~iC~~~~~~Pv~---~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~  246 (494)
                      ...-.|++|+.-+.+-..   .+|+|.||..||..|......||+||..+
T Consensus       121 ~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF  170 (1134)
T KOG0825|consen  121 HVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEF  170 (1134)
T ss_pred             hhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhh
Confidence            455678888876666532   48999999999999998888999999986

>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A

Probab=95.04  E-value=0.0045  Score=46.54  Aligned_cols=46  Identities=24%  Similarity=0.706  Sum_probs=22.4

Q ss_pred             cccccccccccc-C---cEE----cCCCCcccHhhHHHhccC---C--------CCCCCCCcccc
Q 011050          202 DFDCTLCLKLLY-E---PIT----TPCGHSFCRSCLFQSMDR---G--------NKCPLCRAVLF  247 (494)
Q Consensus       202 ~~~C~iC~~~~~-~---Pv~----~~cgh~fc~~Cl~~~~~~---~--------~~CP~Cr~~~~  247 (494)
                      ...|.||...+. +   |..    ..|++.|+..||..|+..   +        ..||.|+.++.
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            467999998654 2   322    279999999999999762   1        14999998763

>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B

Probab=95.04  E-value=0.089  Score=41.69  Aligned_cols=61  Identities=18%  Similarity=0.235  Sum_probs=48.3

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCC--chhHHHHHHH
Q 011050          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS--NPLQASLQNL  181 (494)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~--~~~~~~~~~~  181 (494)
                      ...+..+++++..+|++..+.|.+|..+...|++++|++.+...++.++++  ..+++.+-.+
T Consensus         5 ~~~~~al~~~~a~~P~D~~ar~~lA~~~~~~g~~e~Al~~Ll~~v~~dr~~~~~~ar~~ll~~   67 (90)
T PF14561_consen    5 APDIAALEAALAANPDDLDARYALADALLAAGDYEEALDQLLELVRRDRDYEDDAARKRLLDI   67 (90)
T ss_dssp             -HHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHCC-TTCCCCHHHHHHHHH
T ss_pred             cccHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccccccHHHHHHHHH
Confidence            345678899999999999999999999999999999999999999999976  4454444333

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.00  E-value=0.2  Score=47.27  Aligned_cols=125  Identities=14%  Similarity=0.118  Sum_probs=93.1

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc---ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (494)
                      ...+..+..+++.++|+.|+...++-+.+.|+++   .+++.+|.+++..-..      .+.         -++.+.+|+
T Consensus        72 qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs~~~~i~~------~~r---------Dq~~~~~A~  136 (254)
T COG4105          72 QAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLSYFFQIDD------VTR---------DQSAARAAF  136 (254)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhccCCc------ccc---------CHHHHHHHH
Confidence            4567789999999999999999999999999876   4455555554332221      111         234458899


Q ss_pred             HHHHHHhhccccchH---------------HHH--HHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhh
Q 011050          125 KDAEKLLNLQSNSMK---------------SHL--LKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  187 (494)
Q Consensus       125 ~~~~~al~l~p~~~~---------------a~~--~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~  187 (494)
                      ..+...++.-|++..               |.+  ..|.-|...|.+..|+..++..++--|+-+...+++..+.++...
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            999999999887543               222  335667888999999999999999988888888888777665543

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

Probab=94.95  E-value=0.068  Score=53.00  Aligned_cols=98  Identities=17%  Similarity=0.108  Sum_probs=60.5

Q ss_pred             HHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHH
Q 011050           50 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  129 (494)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  129 (494)
                      ....+..+..-|++++|.....++++..-+.- +..-  .-....+++                       ..=++.+++
T Consensus       266 ~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~-L~~~--~~~l~~~d~-----------------------~~l~k~~e~  319 (400)
T COG3071         266 VVAYAERLIRLGDHDEAQEIIEDALKRQWDPR-LCRL--IPRLRPGDP-----------------------EPLIKAAEK  319 (400)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHhccChh-HHHH--HhhcCCCCc-----------------------hHHHHHHHH
Confidence            34456666777888888887777776532211 1000  001112233                       445566677


Q ss_pred             HhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCch
Q 011050          130 LLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (494)
Q Consensus       130 al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~  173 (494)
                      .+...|+++..++.+|..++..+.|.+|..+|+.|++..|+...
T Consensus       320 ~l~~h~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~  363 (400)
T COG3071         320 WLKQHPEDPLLLSTLGRLALKNKLWGKASEALEAALKLRPSASD  363 (400)
T ss_pred             HHHhCCCChhHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhh
Confidence            77777777777777777777777777777777777777776544

>COG4976 Predicted methyltransferase (contains TPR repeat) [General function prediction only]

Probab=94.87  E-value=0.023  Score=52.28  Aligned_cols=53  Identities=19%  Similarity=0.107  Sum_probs=50.6

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCch
Q 011050          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (494)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~  173 (494)
                      +.|.+.+.+++.+-|.+...||++|....+.|+++.|.+.|.+.++++|++..
T Consensus        12 ~aaaely~qal~lap~w~~gwfR~g~~~ekag~~daAa~a~~~~L~ldp~D~~   64 (287)
T COG4976          12 EAAAELYNQALELAPEWAAGWFRLGEYTEKAGEFDAAAAAYEEVLELDPEDHG   64 (287)
T ss_pred             HHHHHHHHHHhhcCchhhhhhhhcchhhhhcccHHHHHHHHHHHHcCCccccc
Confidence            78889999999999999999999999999999999999999999999998764

>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]

Probab=94.85  E-value=0.019  Score=55.08  Aligned_cols=49  Identities=27%  Similarity=0.513  Sum_probs=42.2

Q ss_pred             CCCcccccccccccccCcEEc-CCCCcccHhhHHHhccCCCCCCCCCccc
Q 011050          198 ERTDDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (494)
Q Consensus       198 ~~~~~~~C~iC~~~~~~Pv~~-~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~  246 (494)
                      ...+.-.|++|+....+|..+ -.|..||..|+.....+...||++..++
T Consensus       296 l~~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~  345 (357)
T KOG0826|consen  296 LPPDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA  345 (357)
T ss_pred             CCCccccChhHHhccCCCceEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence            345667899999999999665 6799999999999999888999998765

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=94.84  E-value=0.055  Score=53.86  Aligned_cols=97  Identities=18%  Similarity=0.107  Sum_probs=76.0

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccC----CCC--cccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIK----PGD--PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~----p~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (494)
                      .++...||.+.-.|+|+.|+++|.+++.+.    ...  +..-+.+|+.|.-+.++                       +
T Consensus       236 RA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQscYSLgNtytll~e~-----------------------~  292 (639)
T KOG1130|consen  236 RAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEV-----------------------Q  292 (639)
T ss_pred             HhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHH-----------------------H
Confidence            355677888888999999999999887652    221  22334578889889999                       9


Q ss_pred             HHHHHHHHHhhcc------ccchHHHHHHHHHHHHHHHHHHHHHHHHccccC
Q 011050          122 LALKDAEKLLNLQ------SNSMKSHLLKANALILLERYDMARDAILSGLQV  167 (494)
Q Consensus       122 ~a~~~~~~al~l~------p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l  167 (494)
                      +|+....+.+.+.      -....++|.+|.+|-.+|..++|+......+++
T Consensus       293 kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~~  344 (639)
T KOG1130|consen  293 KAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLRS  344 (639)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            9999888876653      235679999999999999999999988877765

>KOG3824 consensus Huntingtin interacting protein HYPE [General function prediction only]

Probab=94.79  E-value=0.11  Score=49.83  Aligned_cols=56  Identities=14%  Similarity=0.069  Sum_probs=53.0

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHH
Q 011050          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQA  176 (494)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~  176 (494)
                      ++|...+..|+.++|++++++...|......++.-+|-..|-+||.++|.|.++..
T Consensus       133 ekA~~lfeHAlalaP~~p~~L~e~G~f~E~~~~iv~ADq~Y~~ALtisP~nseALv  188 (472)
T KOG3824|consen  133 EKAMTLFEHALALAPTNPQILIEMGQFREMHNEIVEADQCYVKALTISPGNSEALV  188 (472)
T ss_pred             HHHHHHHHHHHhcCCCCHHHHHHHhHHHHhhhhhHhhhhhhheeeeeCCCchHHHh
Confidence            99999999999999999999999999999889999999999999999999987644

>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=94.78  E-value=0.015  Score=57.25  Aligned_cols=45  Identities=27%  Similarity=0.733  Sum_probs=36.7

Q ss_pred             ccccccccccccCc-----EEcCCCCcccHhhHHHhccCC--CCCCCCCccc
Q 011050          202 DFDCTLCLKLLYEP-----ITTPCGHSFCRSCLFQSMDRG--NKCPLCRAVL  246 (494)
Q Consensus       202 ~~~C~iC~~~~~~P-----v~~~cgh~fc~~Cl~~~~~~~--~~CP~Cr~~~  246 (494)
                      -.+||+|++-+.-|     +.+.|||-|-.+|+++|+.+.  ..||.|..+.
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            35899999877766     467999999999999999633  3599998764

>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=94.74  E-value=0.0098  Score=44.11  Aligned_cols=44  Identities=23%  Similarity=0.521  Sum_probs=30.5

Q ss_pred             cccccccccccCc-EEc-CCCCcccHhhHHHhccCC---CCCCCCCccc
Q 011050          203 FDCTLCLKLLYEP-ITT-PCGHSFCRSCLFQSMDRG---NKCPLCRAVL  246 (494)
Q Consensus       203 ~~C~iC~~~~~~P-v~~-~cgh~fc~~Cl~~~~~~~---~~CP~Cr~~~  246 (494)
                      ..||-|.-.-.+- ... -|.|.|...||.+|+...   ..||.||+..
T Consensus        32 g~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~   80 (84)
T KOG1493|consen   32 GCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTW   80 (84)
T ss_pred             CcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchhee
Confidence            3455555444332 222 699999999999998743   3599999875

>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=94.69  E-value=0.2  Score=51.00  Aligned_cols=186  Identities=19%  Similarity=0.214  Sum_probs=83.4

Q ss_pred             HHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc--------cc--ccChhHHHHH---HHhhhccCCCCCcccccc
Q 011050           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP--------IV--LGNRSSAYIR---ISQFLKHRPPSASEYRPL  111 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~--------~~--~~~~a~~~~~---~~~~~~~~~~~~~~~~~~  111 (494)
                      ......+..|..++..|+|++|+..|...|..-|--.        .+  +...+.-|+-   +..-++..+.        
T Consensus       202 ~~L~~~Lk~gyk~~t~gKF~eA~~~Fr~iL~~i~l~vv~~~~E~~e~~eli~icrEYilgl~iEl~Rr~l~~--------  273 (422)
T PF06957_consen  202 SSLEERLKEGYKLFTAGKFEEAIEIFRSILHSIPLLVVESREEEDEAKELIEICREYILGLSIELERRELPK--------  273 (422)
T ss_dssp             HHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHC--BSSCHHHHHHHHHHHHHHHHHHHHHHHHHHCTS-T--------
T ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhheeeecCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc--------
Confidence            3455667789999999999999999999988644321        01  0111111111   1111111100        


Q ss_pred             CCCCCchhHHHHHH--HHHHHhhccccchHHHHHHHHH-HHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhhh
Q 011050          112 NGLDPTTHAELALK--DAEKLLNLQSNSMKSHLLKANA-LILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  188 (494)
Q Consensus       112 ~~~~~~~~~~~a~~--~~~~al~l~p~~~~a~~~~g~~-~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~  188 (494)
                         ++.+.....++  .|=...+|.|.+...-++.|.. .++.++|.-|....++.|+++|..+.+..+.+.+...-++.
T Consensus       274 ---~~~~~~kR~lELAAYFThc~LQp~H~~LaLr~AM~~~~K~KNf~tAa~FArRLLel~p~~~~a~qArKil~~~e~~~  350 (422)
T PF06957_consen  274 ---DPVEDQKRNLELAAYFTHCKLQPSHLILALRSAMSQAFKLKNFITAASFARRLLELNPSPEVAEQARKILQACERNP  350 (422)
T ss_dssp             ---TTHHHHHHHHHHHHHHCCS---HHHHHHHHHHHHHHCCCTTBHHHHHHHHHHHHCT--SCHHHHHHHHHHHHHCCS-
T ss_pred             ---cchhhHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhcCC
Confidence               00000011111  1222334556555444455544 46899999999999999999998766554444443322222


Q ss_pred             hccccCCCCCCCcccccccccccccCcEEcCCCCcccHhhHHHhcc--CCCCCCCCCcc
Q 011050          189 IGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD--RGNKCPLCRAV  245 (494)
Q Consensus       189 ~~~~~~~~~~~~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~--~~~~CP~Cr~~  245 (494)
                      ............+-..|...+.    |+.-.-.+.-|..|-.....  .|..||+|...
T Consensus       351 tDa~~i~yD~~npF~ICa~s~t----PIY~G~~~v~CP~cgA~y~~~~kG~lC~vC~l~  405 (422)
T PF06957_consen  351 TDAHEIDYDERNPFDICAASYT----PIYRGSPSVKCPYCGAKYHPEYKGQLCPVCELS  405 (422)
T ss_dssp             -BSS--S--TTS-EEEBTTT------EEETTS-EEE-TTT--EEEGGGTTSB-TTTTTB
T ss_pred             CCceecCCCCCCCceeeecccc----cccCCCCCeeCCCCCCccChhhCCCCCCCCcce
Confidence            1111111111222224444443    33322222233333333222  46789999864

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.

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.57  E-value=0.098  Score=49.21  Aligned_cols=99  Identities=17%  Similarity=0.185  Sum_probs=80.6

Q ss_pred             HHHHHHHHHhcChHHHHHHHHHHhc----cCC--CCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHH
Q 011050           51 VQKGNRAFRESNFEEAISNYSRANN----IKP--GDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (494)
Q Consensus        51 ~~~g~~~~~~~~~~~Ai~~y~~al~----~~p--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (494)
                      ...|...++.||-+.|-..|+++-+    ++-  ++-.++.|.|.+|.-.++|                       .+|.
T Consensus       216 s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~-----------------------a~a~  272 (366)
T KOG2796|consen  216 SGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNF-----------------------AEAH  272 (366)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhheecccch-----------------------HHHH
Confidence            4568888899999888888884432    222  2335566666667777788                       8999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCc
Q 011050          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (494)
Q Consensus       125 ~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~  172 (494)
                      ..+.+.+..||.++.+....|.|+..+|+..+|++..+.++..+|...
T Consensus       273 r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~~~  320 (366)
T KOG2796|consen  273 RFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDPRHY  320 (366)
T ss_pred             HHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCCccc
Confidence            999999999999999999999999999999999999999999999654

>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=94.57  E-value=0.027  Score=53.19  Aligned_cols=44  Identities=32%  Similarity=0.810  Sum_probs=34.4

Q ss_pred             ccccccc-cccCcE----EcCCCCcccHhhHHHhccCC-CCCCCCCcccc
Q 011050          204 DCTLCLK-LLYEPI----TTPCGHSFCRSCLFQSMDRG-NKCPLCRAVLF  247 (494)
Q Consensus       204 ~C~iC~~-~~~~Pv----~~~cgh~fc~~Cl~~~~~~~-~~CP~Cr~~~~  247 (494)
                      .||.|.. .+.+|-    +-+|||+.|.+|....+..| ..||.|...+.
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLR   51 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILR   51 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhh
Confidence            4888884 566772    23999999999999988755 46999998774

>smart00028 TPR Tetratricopeptide repeats

Probab=94.54  E-value=0.066  Score=31.90  Aligned_cols=32  Identities=25%  Similarity=0.492  Sum_probs=28.7

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCC
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPG   79 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~   79 (494)
                      ..+...|..++..+++++|+..|.++++.+|.
T Consensus         2 ~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~   33 (34)
T smart00028        2 EALYNLGNAYLKLGDYDEALEYYEKALELDPN   33 (34)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHHccCCC
Confidence            35678899999999999999999999999885

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.

>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=94.51  E-value=0.069  Score=37.59  Aligned_cols=42  Identities=17%  Similarity=0.245  Sum_probs=33.5

Q ss_pred             cccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHH
Q 011050           83 VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANA  147 (494)
Q Consensus        83 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~  147 (494)
                      .++.+|.+++++|+|                       .+|.+.++.+++.+|++.+|......+
T Consensus         3 ~lY~lAig~ykl~~Y-----------------------~~A~~~~~~lL~~eP~N~Qa~~L~~~i   44 (53)
T PF14853_consen    3 CLYYLAIGHYKLGEY-----------------------EKARRYCDALLEIEPDNRQAQSLKELI   44 (53)
T ss_dssp             HHHHHHHHHHHTT-H-----------------------HHHHHHHHHHHHHTTS-HHHHHHHHHH
T ss_pred             hHHHHHHHHHHhhhH-----------------------HHHHHHHHHHHhhCCCcHHHHHHHHHH
Confidence            356688999999999                       999999999999999998876544433

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

Probab=94.51  E-value=0.036  Score=51.33  Aligned_cols=59  Identities=14%  Similarity=0.106  Sum_probs=53.7

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHH
Q 011050          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQ  179 (494)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~  179 (494)
                      +.|+.-|.+||-++|..+..|.+++.+|.++.+++.+..+..+|++++|+....+-++.
T Consensus        27 ~~ai~~y~raI~~nP~~~~Y~tnralchlk~~~~~~v~~dcrralql~~N~vk~h~flg   85 (284)
T KOG4642|consen   27 DDAIDCYSRAICINPTVASYYTNRALCHLKLKHWEPVEEDCRRALQLDPNLVKAHYFLG   85 (284)
T ss_pred             chHHHHHHHHHhcCCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHhcChHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999998765554443

>KOG4814 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.44  E-value=0.15  Score=53.44  Aligned_cols=96  Identities=13%  Similarity=0.136  Sum_probs=82.2

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC------cccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGD------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (494)
                      .-++..|...|+..+|..|+..|...+..-|.|      .....+++.||..+.+.                       +
T Consensus       355 ~iLWn~A~~~F~~~~Y~~s~~~y~~Sl~~i~~D~~~~~FaK~qR~l~~CYL~L~QL-----------------------D  411 (872)
T KOG4814|consen  355 TLLWNTAKKLFKMEKYVVSIRFYKLSLKDIISDNYSDRFAKIQRALQVCYLKLEQL-----------------------D  411 (872)
T ss_pred             HHHHHhhHHHHHHHHHHHHHHHHHHHHHhccchhhhhHHHHHHHHHHHHHhhHHHH-----------------------H
Confidence            356789999999999999999999999887654      47778899999999999                       9


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHcccc
Q 011050          122 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQ  166 (494)
Q Consensus       122 ~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~  166 (494)
                      .|++.+..|-+.||.++-.-+..-.+...-+.-++|+....+...
T Consensus       412 ~A~E~~~EAE~~d~~~~l~q~~~~~~~~~E~~Se~AL~~~~~~~s  456 (872)
T KOG4814|consen  412 NAVEVYQEAEEVDRQSPLCQLLMLQSFLAEDKSEEALTCLQKIKS  456 (872)
T ss_pred             HHHHHHHHHHhhccccHHHHHHHHHHHHHhcchHHHHHHHHHHHh
Confidence            999999999999999988877777777777888888877666544

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.44  E-value=0.2  Score=48.73  Aligned_cols=107  Identities=16%  Similarity=0.077  Sum_probs=86.4

Q ss_pred             HHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHh
Q 011050           52 QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLL  131 (494)
Q Consensus        52 ~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al  131 (494)
                      .++...+.+|++-+|.....+.++-.|.|..++-.--.+++.+|+.                       ......+++.+
T Consensus       108 ~~aai~~~~g~~h~a~~~wdklL~d~PtDlla~kfsh~a~fy~G~~-----------------------~~~k~ai~kIi  164 (491)
T KOG2610|consen  108 AKAAILWGRGKHHEAAIEWDKLLDDYPTDLLAVKFSHDAHFYNGNQ-----------------------IGKKNAIEKII  164 (491)
T ss_pred             hhHHHhhccccccHHHHHHHHHHHhCchhhhhhhhhhhHHHhccch-----------------------hhhhhHHHHhc
Confidence            3555678889999999999999999999998887777888889988                       67777788888


Q ss_pred             hc-cccch---HHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          132 NL-QSNSM---KSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       132 ~l-~p~~~---~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      .. +++.|   ..+=..+..+...|-|++|-+..++|+++||++.-+..+..-+
T Consensus       165 p~wn~dlp~~sYv~GmyaFgL~E~g~y~dAEk~A~ralqiN~~D~Wa~Ha~aHV  218 (491)
T KOG2610|consen  165 PKWNADLPCYSYVHGMYAFGLEECGIYDDAEKQADRALQINRFDCWASHAKAHV  218 (491)
T ss_pred             cccCCCCcHHHHHHHHHHhhHHHhccchhHHHHHHhhccCCCcchHHHHHHHHH
Confidence            77 66653   3444456678899999999999999999999988766655444

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

Probab=94.44  E-value=0.32  Score=48.37  Aligned_cols=116  Identities=14%  Similarity=0.103  Sum_probs=97.4

Q ss_pred             hhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHH
Q 011050           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (494)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (494)
                      .+.+.+.....+|..-+..|+|.+|.....++-+..+.....|..-|.+--++|++                       +
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            34556777888898889999999999999998888888778888778888889999                       9


Q ss_pred             HHHHHHHHHhhccc-cchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHH
Q 011050          122 LALKDAEKLLNLQS-NSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (494)
Q Consensus       122 ~a~~~~~~al~l~p-~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~  180 (494)
                      .|-....++-++.+ +.-..+..++..+...|+++.|.....+++++.|.++.+......
T Consensus       136 ~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v~~ll~~~pr~~~vlrLa~r  195 (400)
T COG3071         136 RANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENVDQLLEMTPRHPEVLRLALR  195 (400)
T ss_pred             HHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHHHHHHHhCcCChHHHHHHHH
Confidence            99999999999833 345677788899999999999999999999999999987655443

>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]

Probab=94.27  E-value=0.021  Score=44.99  Aligned_cols=28  Identities=29%  Similarity=0.603  Sum_probs=25.7

Q ss_pred             CCCCcccHhhHHHhccCCCCCCCCCccc
Q 011050          219 PCGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (494)
Q Consensus       219 ~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~  246 (494)
                      .|.|.|+..||.+|+.....||+|.++-
T Consensus        80 ~CNHaFH~hCisrWlktr~vCPLdn~eW  107 (114)
T KOG2930|consen   80 VCNHAFHFHCISRWLKTRNVCPLDNKEW  107 (114)
T ss_pred             ecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence            5999999999999999999999998763

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.24  E-value=0.052  Score=34.79  Aligned_cols=27  Identities=26%  Similarity=0.394  Sum_probs=23.1

Q ss_pred             HHHHHHHHHHhcChHHHHHHHHHHhcc
Q 011050           50 LVQKGNRAFRESNFEEAISNYSRANNI   76 (494)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~   76 (494)
                      +...|+.+.+.|+|++|+.+|.+++.+
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            567899999999999999999997654

>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=94.22  E-value=0.022  Score=55.77  Aligned_cols=45  Identities=29%  Similarity=0.704  Sum_probs=33.3

Q ss_pred             ccccccccccccCcE---Ec-CCCCcccHhhHHHhccCC---CCCCCCCccc
Q 011050          202 DFDCTLCLKLLYEPI---TT-PCGHSFCRSCLFQSMDRG---NKCPLCRAVL  246 (494)
Q Consensus       202 ~~~C~iC~~~~~~Pv---~~-~cgh~fc~~Cl~~~~~~~---~~CP~Cr~~~  246 (494)
                      ...|.||.+.+.+--   .+ .|||+|+-.|+..|+...   ..||.|+..+
T Consensus         4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~   55 (465)
T KOG0827|consen    4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKL   55 (465)
T ss_pred             cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecc
Confidence            457999976655432   23 499999999999999743   3699999443

>KOG2471 consensus TPR repeat-containing protein [General function prediction only]

Probab=94.18  E-value=0.11  Score=52.91  Aligned_cols=111  Identities=15%  Similarity=0.052  Sum_probs=89.8

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHH-hccCCC--------CcccccChhHHHHHHHhhhccCCCCCccccccCCCCCc
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRA-NNIKPG--------DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPT  117 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~a-l~~~p~--------~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (494)
                      +..++.+.+.+|-.|+|.+|....... +...|.        .-.++.|+|-++++++.|                    
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            456778889999999999998876553 333443        236789999999999999                    


Q ss_pred             hhHHHHHHHHHHHhh-c-----------------cccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHH
Q 011050          118 THAELALKDAEKLLN-L-----------------QSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQ  179 (494)
Q Consensus       118 ~~~~~a~~~~~~al~-l-----------------~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~  179 (494)
                         ..+...+.+|++ .                 .......+|+.|..|...|++..|.+.|.++.+..-.|+.+|..+.
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               888888888885 1                 1235668999999999999999999999999998888998887665


Q ss_pred             H
Q 011050          180 N  180 (494)
Q Consensus       180 ~  180 (494)
                      +
T Consensus       377 E  377 (696)
T KOG2471|consen  377 E  377 (696)
T ss_pred             H
Confidence            4

>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]

Probab=94.08  E-value=0.061  Score=58.42  Aligned_cols=43  Identities=44%  Similarity=0.982  Sum_probs=37.5

Q ss_pred             cccccccccccCcEEcCCCCcccHhhHHHhccCC--CCCCCCCccc
Q 011050          203 FDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRG--NKCPLCRAVL  246 (494)
Q Consensus       203 ~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~~--~~CP~Cr~~~  246 (494)
                      +.|.+|.+ ...++.++|||.||..|+...+...  ..||.||..+
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            88999999 8888999999999999999987643  3699999865

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=94.07  E-value=0.15  Score=53.56  Aligned_cols=97  Identities=21%  Similarity=0.173  Sum_probs=75.1

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCC----CcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPG----DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (494)
                      +--++.+|..+..+|+.++|+..|++++.....    .+..++.+|.+++.+.+|                       .+
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            344677899999999999999999999864332    357888899999999999                       99


Q ss_pred             HHHHHHHHhhccccchHHHH--HHHHHHHHHHHH-------HHHHHHHHccccC
Q 011050          123 ALKDAEKLLNLQSNSMKSHL--LKANALILLERY-------DMARDAILSGLQV  167 (494)
Q Consensus       123 a~~~~~~al~l~p~~~~a~~--~~g~~~~~~~~~-------~~A~~~~~~al~l  167 (494)
                      |...+.+.++.+ ++.+++|  ..|.+|..+++.       ++|.+.+.++-.+
T Consensus       324 A~~~f~~L~~~s-~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~l  376 (468)
T PF10300_consen  324 AAEYFLRLLKES-KWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPKL  376 (468)
T ss_pred             HHHHHHHHHhcc-ccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHHH
Confidence            999999999864 4555544  446678888888       6777777666443

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.

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.00  E-value=0.43  Score=44.26  Aligned_cols=116  Identities=18%  Similarity=0.167  Sum_probs=77.5

Q ss_pred             HHHHHHHHHHHHh-cChHHHHHHHHHHhccCCCC-c-----ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhH
Q 011050           48 FDLVQKGNRAFRE-SNFEEAISNYSRANNIKPGD-P-----IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA  120 (494)
Q Consensus        48 ~~~~~~g~~~~~~-~~~~~Ai~~y~~al~~~p~~-~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (494)
                      +..++-|..|-.. .++++||.+|.+|-+.-..+ +     .++...|..-..+++|                       
T Consensus       114 k~~~~iaEiyEsdl~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY-----------------------  170 (288)
T KOG1586|consen  114 KHHIEIAEIYESDLQDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQY-----------------------  170 (288)
T ss_pred             hhhhhHHHHHhhhHHHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHH-----------------------
Confidence            3445566666555 78999999999997763322 2     3444445555667778                       


Q ss_pred             HHHHHHHHHHhhcccc------chHHHHHH-HHHHHHHHHHHHHHHHHHccccCCCCCchhHH--HHHHHHhhhh
Q 011050          121 ELALKDAEKLLNLQSN------SMKSHLLK-ANALILLERYDMARDAILSGLQVDPFSNPLQA--SLQNLERTTA  186 (494)
Q Consensus       121 ~~a~~~~~~al~l~p~------~~~a~~~~-g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~--~~~~~~~~~~  186 (494)
                      .+|++.|+++....-+      .++.||.. |.|+....+.-.+...+++...++|.+...++  .++.+..++.
T Consensus       171 ~~Ai~iyeqva~~s~~n~LLKys~KdyflkAgLChl~~~D~v~a~~ALeky~~~dP~F~dsREckflk~L~~aie  245 (288)
T KOG1586|consen  171 SKAIDIYEQVARSSLDNNLLKYSAKDYFLKAGLCHLCKADEVNAQRALEKYQELDPAFTDSRECKFLKDLLDAIE  245 (288)
T ss_pred             HHHHHHHHHHHHHhccchHHHhHHHHHHHHHHHHhHhcccHHHHHHHHHHHHhcCCcccccHHHHHHHHHHHHHh
Confidence            8888888887654322      34566655 55676768888888999999999998877654  3444444443

>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B

Probab=93.99  E-value=0.044  Score=37.39  Aligned_cols=41  Identities=37%  Similarity=0.915  Sum_probs=21.4

Q ss_pred             cccccccccCc----EEcCCCCcccHhhHHHhcc-CCCCCCCCCcc
Q 011050          205 CTLCLKLLYEP----ITTPCGHSFCRSCLFQSMD-RGNKCPLCRAV  245 (494)
Q Consensus       205 C~iC~~~~~~P----v~~~cgh~fc~~Cl~~~~~-~~~~CP~Cr~~  245 (494)
                      |++|.+.+..-    ..=+||+.+|+.|...... .+..||-||.+
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            67888777322    1127999999999998886 46789999975

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

Probab=93.97  E-value=0.13  Score=56.97  Aligned_cols=42  Identities=21%  Similarity=0.169  Sum_probs=20.8

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHH
Q 011050          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAIL  162 (494)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~  162 (494)
                      +.|...++++++++|++...|..++++|...|++++|.+.++
T Consensus       511 ~~a~~~~~~l~~~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~  552 (697)
T PLN03081        511 ELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVE  552 (697)
T ss_pred             HHHHHHHHHHhCCCCCCCcchHHHHHHHHhCCCHHHHHHHHH
Confidence            444444444555555444445555555555555555544443

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=93.79  E-value=0.15  Score=55.40  Aligned_cols=91  Identities=19%  Similarity=0.136  Sum_probs=48.2

Q ss_pred             HHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhcccc
Q 011050           57 AFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSN  136 (494)
Q Consensus        57 ~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~  136 (494)
                      ....++|.+|++...+.++..|+...+..--|..++++|++                       ++|..-.+..-..-++
T Consensus        19 ~ld~~qfkkal~~~~kllkk~Pn~~~a~vLkaLsl~r~gk~-----------------------~ea~~~Le~~~~~~~~   75 (932)
T KOG2053|consen   19 LLDSSQFKKALAKLGKLLKKHPNALYAKVLKALSLFRLGKG-----------------------DEALKLLEALYGLKGT   75 (932)
T ss_pred             HhhhHHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHhcCc-----------------------hhHHHHHhhhccCCCC
Confidence            34445555555555555555555555555555555555555                       5555333333333344


Q ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHccccCCCC
Q 011050          137 SMKSHLLKANALILLERYDMARDAILSGLQVDPF  170 (494)
Q Consensus       137 ~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~  170 (494)
                      +...+-.+-.+|..++++++|...|+++.+.+|.
T Consensus        76 D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~~P~  109 (932)
T KOG2053|consen   76 DDLTLQFLQNVYRDLGKLDEAVHLYERANQKYPS  109 (932)
T ss_pred             chHHHHHHHHHHHHHhhhhHHHHHHHHHHhhCCc
Confidence            4444445555555555555555555555555555

>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=93.54  E-value=0.13  Score=44.54  Aligned_cols=62  Identities=19%  Similarity=0.129  Sum_probs=51.8

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (494)
                      ..+...+..+...|++++|+..+.+++..+|.+-.+|..+-.+|...|+.                       .+|++.|
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            34556677788899999999999999999999999999999999999999                       8998888


Q ss_pred             HHHhh
Q 011050          128 EKLLN  132 (494)
Q Consensus       128 ~~al~  132 (494)
                      ++..+
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.

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.54  E-value=0.55  Score=44.37  Aligned_cols=67  Identities=16%  Similarity=0.287  Sum_probs=61.2

Q ss_pred             HHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHH
Q 011050           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (494)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (494)
                      -...++..+..+.||.+|...|++.+..||.++.+-.|.|.|.+.+|+.                       ..|++..+
T Consensus       254 V~~n~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l-----------------------~DAiK~~e  310 (366)
T KOG2796|consen  254 VLMNSAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKL-----------------------KDALKQLE  310 (366)
T ss_pred             HHhhhhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHH-----------------------HHHHHHHH
Confidence            3456677778899999999999999999999999999999999999999                       99999999


Q ss_pred             HHhhccccch
Q 011050          129 KLLNLQSNSM  138 (494)
Q Consensus       129 ~al~l~p~~~  138 (494)
                      .+++.+|...
T Consensus       311 ~~~~~~P~~~  320 (366)
T KOG2796|consen  311 AMVQQDPRHY  320 (366)
T ss_pred             HHhccCCccc
Confidence            9999999653

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=93.49  E-value=0.29  Score=50.11  Aligned_cols=91  Identities=20%  Similarity=0.144  Sum_probs=75.8

Q ss_pred             HHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHH
Q 011050           65 EAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLK  144 (494)
Q Consensus        65 ~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~  144 (494)
                      +-+..|.+|+..-+.|..+|.+...--.+.+.+                       .+.-..+.+++..+|+++..|..-
T Consensus        89 rIv~lyr~at~rf~~D~~lW~~yi~f~kk~~~~-----------------------~~v~ki~~~~l~~Hp~~~dLWI~a  145 (568)
T KOG2396|consen   89 RIVFLYRRATNRFNGDVKLWLSYIAFCKKKKTY-----------------------GEVKKIFAAMLAKHPNNPDLWIYA  145 (568)
T ss_pred             HHHHHHHHHHHhcCCCHHHHHHHHHHHHHhcch-----------------------hHHHHHHHHHHHhCCCCchhHHhh
Confidence            456679999999999999999876555555557                       788889999999999999999888


Q ss_pred             HHHHHHHHH-HHHHHHHHHccccCCCCCchhHHHH
Q 011050          145 ANALILLER-YDMARDAILSGLQVDPFSNPLQASL  178 (494)
Q Consensus       145 g~~~~~~~~-~~~A~~~~~~al~l~p~~~~~~~~~  178 (494)
                      |.=.+.-+. .+.|.+.+.++|+++|+++.++...
T Consensus       146 A~wefe~n~ni~saRalflrgLR~npdsp~Lw~ey  180 (568)
T KOG2396|consen  146 AKWEFEINLNIESARALFLRGLRFNPDSPKLWKEY  180 (568)
T ss_pred             hhhHHhhccchHHHHHHHHHHhhcCCCChHHHHHH
Confidence            876555444 9999999999999999999887654

>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=93.42  E-value=0.062  Score=52.89  Aligned_cols=64  Identities=23%  Similarity=0.551  Sum_probs=45.2

Q ss_pred             cccccccccccc------CcEEcCCCCcccHhhHHHhccCCC-CCCCCCcccccC---CCCCcccccHHHHHHH
Q 011050          202 DFDCTLCLKLLY------EPITTPCGHSFCRSCLFQSMDRGN-KCPLCRAVLFIT---PRTCAVSVTLNSIIQK  265 (494)
Q Consensus       202 ~~~C~iC~~~~~------~Pv~~~cgh~fc~~Cl~~~~~~~~-~CP~Cr~~~~~~---~~~~~~~~~l~~~~~~  265 (494)
                      ...|.+|.+.++      .|..+.|||++|..|+.....++. .||.||.+....   .+.+..|..+..+++.
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~~~~~~~~~~l~kNf~ll~~~~~   76 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETTEIPDGDVKSLQKNFALLQAIEH   76 (296)
T ss_pred             CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcccCCchhHhhhhhhHHHHHHHHH
Confidence            356888887655      456678999999999999887654 699999984211   1345566666665554

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=93.42  E-value=0.12  Score=31.83  Aligned_cols=32  Identities=19%  Similarity=0.346  Sum_probs=29.1

Q ss_pred             HHHHHHHHHHHhcChHHHHHHHHHHhccCCCC
Q 011050           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGD   80 (494)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~   80 (494)
                      .++..|..+++.|++++|+..|++.+...|++
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            56789999999999999999999999998863

>PLN03077 Protein ECB2; Provisional

Probab=93.08  E-value=0.37  Score=54.88  Aligned_cols=88  Identities=20%  Similarity=0.178  Sum_probs=54.5

Q ss_pred             HHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHH
Q 011050           51 VQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKL  130 (494)
Q Consensus        51 ~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a  130 (494)
                      ......+.+.|++++|...+.+. ...|+ +..|..+-.++..-++.                       +.+...++++
T Consensus       629 ~~lv~~l~r~G~~~eA~~~~~~m-~~~pd-~~~~~aLl~ac~~~~~~-----------------------e~~e~~a~~l  683 (857)
T PLN03077        629 ACVVDLLGRAGKLTEAYNFINKM-PITPD-PAVWGALLNACRIHRHV-----------------------ELGELAAQHI  683 (857)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHC-CCCCC-HHHHHHHHHHHHHcCCh-----------------------HHHHHHHHHH
Confidence            33444455556666666665553 23343 33333333333333344                       6666777788


Q ss_pred             hhccccchHHHHHHHHHHHHHHHHHHHHHHHHc
Q 011050          131 LNLQSNSMKSHLLKANALILLERYDMARDAILS  163 (494)
Q Consensus       131 l~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~  163 (494)
                      ++++|++...|..++++|...|++++|....+.
T Consensus       684 ~~l~p~~~~~y~ll~n~ya~~g~~~~a~~vr~~  716 (857)
T PLN03077        684 FELDPNSVGYYILLCNLYADAGKWDEVARVRKT  716 (857)
T ss_pred             HhhCCCCcchHHHHHHHHHHCCChHHHHHHHHH
Confidence            888888888888888888888888888776543

>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=93.01  E-value=0.043  Score=57.07  Aligned_cols=39  Identities=33%  Similarity=0.891  Sum_probs=30.7

Q ss_pred             Cccccccccccccc----CcEEcCCCCcccHhhHHHhccCCCCCC
Q 011050          200 TDDFDCTLCLKLLY----EPITTPCGHSFCRSCLFQSMDRGNKCP  240 (494)
Q Consensus       200 ~~~~~C~iC~~~~~----~Pv~~~cgh~fc~~Cl~~~~~~~~~CP  240 (494)
                      .+-+.|+||+..|.    .|+.+-|||+.|+.|+......  .||
T Consensus         9 ~~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn~--scp   51 (861)
T KOG3161|consen    9 VLLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYNA--SCP   51 (861)
T ss_pred             HHHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhhc--cCC
Confidence            34568999977654    6899999999999999877655  455

>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=92.87  E-value=0.43  Score=36.35  Aligned_cols=53  Identities=15%  Similarity=0.277  Sum_probs=45.3

Q ss_pred             HHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc---ccccChhHHHHHHHhh
Q 011050           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQF   97 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~   97 (494)
                      +.++...++|..+|.+.+.++|+....+|++..++..   .++..++.+|...|+|
T Consensus         4 ~~ak~~ie~GlkLY~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gky   59 (80)
T PF10579_consen    4 DQAKQQIEKGLKLYHQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKY   59 (80)
T ss_pred             HHHHHHHHHHHHHhccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHH
Confidence            3467889999999999999999999999999988766   4455567889999999

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

>PF04641 Rtf2: Rtf2 RING-finger

Probab=92.78  E-value=0.096  Score=50.42  Aligned_cols=49  Identities=24%  Similarity=0.539  Sum_probs=38.6

Q ss_pred             CCCcccccccccccccCc---EE-cCCCCcccHhhHHHhccCCCCCCCCCcccc
Q 011050          198 ERTDDFDCTLCLKLLYEP---IT-TPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (494)
Q Consensus       198 ~~~~~~~C~iC~~~~~~P---v~-~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~  247 (494)
                      .....|.||++...|..-   |. .+|||.|+..||...- .+..||+|..++.
T Consensus       109 ~~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~  161 (260)
T PF04641_consen  109 NSEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFT  161 (260)
T ss_pred             cCCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccc
Confidence            345789999999888432   23 3999999999998874 4567999999874

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.75  E-value=0.42  Score=46.60  Aligned_cols=100  Identities=14%  Similarity=0.076  Sum_probs=80.9

Q ss_pred             hhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhcc-CCCC---cccccChhHHHHHHHhhhccCCCCCccccccCCCCCc
Q 011050           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNI-KPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPT  117 (494)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~-~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (494)
                      +.+.+.-+++-.-..+|-.|+...-...+.+.+-. +|+-   +.+.-.+|-++...|-|                    
T Consensus       132 d~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y--------------------  191 (491)
T KOG2610|consen  132 DYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIY--------------------  191 (491)
T ss_pred             hCchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccc--------------------
Confidence            33445556666667788889888888888888876 6654   35555677788888889                    


Q ss_pred             hhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHcc
Q 011050          118 THAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSG  164 (494)
Q Consensus       118 ~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~a  164 (494)
                         ++|.+.+++++++|+.+..|...++.++...|++.++++...+-
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               99999999999999999999999999999999999999876543

>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=92.70  E-value=2.4  Score=42.31  Aligned_cols=48  Identities=25%  Similarity=0.519  Sum_probs=37.5

Q ss_pred             CCccccccccccccc--C-cEEcCCCCcccHhhHHHhccCCC---CCCCCCccc
Q 011050          199 RTDDFDCTLCLKLLY--E-PITTPCGHSFCRSCLFQSMDRGN---KCPLCRAVL  246 (494)
Q Consensus       199 ~~~~~~C~iC~~~~~--~-Pv~~~cgh~fc~~Cl~~~~~~~~---~CP~Cr~~~  246 (494)
                      ....|.||+-.+.-.  + |+.+.|||..|+..+.+...+|.   +||.|-...
T Consensus       331 fHSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~  384 (394)
T KOG2817|consen  331 FHSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQ  384 (394)
T ss_pred             ccceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCccc
Confidence            446689999887544  3 57899999999999998777664   699996543

>COG5191 Uncharacterized conserved protein, contains HAT (Half-A-TPR) repeat [General function prediction only]

Probab=92.63  E-value=0.14  Score=49.35  Aligned_cols=91  Identities=15%  Similarity=0.131  Sum_probs=76.2

Q ss_pred             HHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHH-H
Q 011050           66 AISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLL-K  144 (494)
Q Consensus        66 Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~-~  144 (494)
                      -+..|.++...-|+|+.+|...+.--.+.+-|                       .+.-..+..+++++|.+++.|.. -
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            33456677777889999999888777778888                       88888999999999999998877 4


Q ss_pred             HHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHH
Q 011050          145 ANALILLERYDMARDAILSGLQVDPFSNPLQASLQ  179 (494)
Q Consensus       145 g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~  179 (494)
                      +.-|...++++.|.+.+.+++++||+++.+|-..=
T Consensus       149 ~~e~~~~ani~s~Ra~f~~glR~N~~~p~iw~eyf  183 (435)
T COG5191         149 AFELFEIANIESSRAMFLKGLRMNSRSPRIWIEYF  183 (435)
T ss_pred             cchhhhhccHHHHHHHHHhhhccCCCCchHHHHHH
Confidence            45578899999999999999999999998876543

>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]

Probab=92.47  E-value=0.076  Score=50.28  Aligned_cols=49  Identities=27%  Similarity=0.655  Sum_probs=36.3

Q ss_pred             CCCccccccccccccc-Cc--EEcCCCCcccHhhHHHhccC-----------------------CCCCCCCCccc
Q 011050          198 ERTDDFDCTLCLKLLY-EP--ITTPCGHSFCRSCLFQSMDR-----------------------GNKCPLCRAVL  246 (494)
Q Consensus       198 ~~~~~~~C~iC~~~~~-~P--v~~~cgh~fc~~Cl~~~~~~-----------------------~~~CP~Cr~~~  246 (494)
                      ...+...|.||+.-|. .|  +.++|-|.|+..||.+++..                       ...||+||..+
T Consensus       111 nn~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i  185 (368)
T KOG4445|consen  111 NNHPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERI  185 (368)
T ss_pred             CCCCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhc
Confidence            3447889999997554 44  35799999999999865431                       13599999876

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.44  E-value=0.11  Score=47.81  Aligned_cols=48  Identities=17%  Similarity=0.355  Sum_probs=41.8

Q ss_pred             CcccccccccccccCcEE----cCCCCcccHhhHHHhccCCCCCCCCCcccc
Q 011050          200 TDDFDCTLCLKLLYEPIT----TPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (494)
Q Consensus       200 ~~~~~C~iC~~~~~~Pv~----~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~  247 (494)
                      ...+.||+|...+.+.+.    -||||.+|..|.+........||+|..++.
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            367899999999998743    499999999999998888889999999874

>COG4976 Predicted methyltransferase (contains TPR repeat) [General function prediction only]

Probab=92.36  E-value=0.14  Score=47.17  Aligned_cols=61  Identities=16%  Similarity=0.118  Sum_probs=55.6

Q ss_pred             HHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhcc
Q 011050           55 NRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQ  134 (494)
Q Consensus        55 ~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~  134 (494)
                      ...++.+|.+.|.+.|.+|+++.|....-|+..+....+.|++                       +.|.+.+++.+++|
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            3456789999999999999999999999999999999999999                       99999999999999


Q ss_pred             ccch
Q 011050          135 SNSM  138 (494)
Q Consensus       135 p~~~  138 (494)
                      |...
T Consensus        60 p~D~   63 (287)
T COG4976          60 PEDH   63 (287)
T ss_pred             cccc
Confidence            9763

>COG2912 Uncharacterized conserved protein [Function unknown]

Probab=92.26  E-value=0.22  Score=47.39  Aligned_cols=61  Identities=23%  Similarity=0.161  Sum_probs=55.0

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      ..|+....+.+.++|+++..+..+|.+|.++|.+..|+.++...++.-|+.+.+.-....+
T Consensus       198 ~~al~~~~r~l~l~P~dp~eirDrGliY~ql~c~~vAl~dl~~~~~~~P~~~~a~~ir~~l  258 (269)
T COG2912         198 ELALRVAERLLDLNPEDPYEIRDRGLIYAQLGCYHVALEDLSYFVEHCPDDPIAEMIRAQL  258 (269)
T ss_pred             HHHHHHHHHHHhhCCCChhhccCcHHHHHhcCCchhhHHHHHHHHHhCCCchHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999988764443333

>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=92.12  E-value=0.085  Score=49.82  Aligned_cols=41  Identities=29%  Similarity=0.782  Sum_probs=32.8

Q ss_pred             ccccccccccccCcEEcCCCCcc-cHhhHHHhccCCCCCCCCCccc
Q 011050          202 DFDCTLCLKLLYEPITTPCGHSF-CRSCLFQSMDRGNKCPLCRAVL  246 (494)
Q Consensus       202 ~~~C~iC~~~~~~Pv~~~cgh~f-c~~Cl~~~~~~~~~CP~Cr~~~  246 (494)
                      ...|.||++.-.+.+.++|||.. |-.|-..    -..||+||+.+
T Consensus       300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkr----m~eCPICRqyi  341 (350)
T KOG4275|consen  300 RRLCAICMDAPRDCVFLECGHMVTCTKCGKR----MNECPICRQYI  341 (350)
T ss_pred             HHHHHHHhcCCcceEEeecCcEEeehhhccc----cccCchHHHHH
Confidence            67899999999999999999964 6666322    23799999865

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=91.93  E-value=0.87  Score=44.35  Aligned_cols=100  Identities=19%  Similarity=0.011  Sum_probs=75.9

Q ss_pred             HHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHH-hhhccCCCCCccccccCCCCCchhHHHHHHHHH
Q 011050           50 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRIS-QFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (494)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (494)
                      |....+..-+.+..+.|-..|.+|.+..+-...+|...|..-+..+ +.                       ..|...++
T Consensus         4 ~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~~~~d~-----------------------~~A~~Ife   60 (280)
T PF05843_consen    4 WIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEYYCNKDP-----------------------KRARKIFE   60 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHHTCS-H-----------------------HHHHHHHH
T ss_pred             HHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCCH-----------------------HHHHHHHH
Confidence            3344444555566788999999999776667788887777766643 44                       55999999


Q ss_pred             HHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCc
Q 011050          129 KLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (494)
Q Consensus       129 ~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~  172 (494)
                      .+++.-|.+...|.....-+...++.+.|...|++++..-|...
T Consensus        61 ~glk~f~~~~~~~~~Y~~~l~~~~d~~~aR~lfer~i~~l~~~~  104 (280)
T PF05843_consen   61 RGLKKFPSDPDFWLEYLDFLIKLNDINNARALFERAISSLPKEK  104 (280)
T ss_dssp             HHHHHHTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHCCTSSCHH
T ss_pred             HHHHHCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHhcCchh
Confidence            99999999988888888888899999999999999999877655

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.

>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=91.80  E-value=0.12  Score=49.79  Aligned_cols=47  Identities=28%  Similarity=0.781  Sum_probs=38.6

Q ss_pred             CCcccccccccccccCcEEcCCCCcccHhhHHHhcc--CCCCCCCCCcc
Q 011050          199 RTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD--RGNKCPLCRAV  245 (494)
Q Consensus       199 ~~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~--~~~~CP~Cr~~  245 (494)
                      ..+.-.|.||-+-+.--..+||||..|.-|......  ....||.||.+
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            445678999998877777899999999999877544  56789999986

>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=91.71  E-value=0.22  Score=45.23  Aligned_cols=48  Identities=29%  Similarity=0.587  Sum_probs=38.9

Q ss_pred             cccccccccccccCc--EEcCCCCcccHhhHHHhcc--------CCCCCCCCCccccc
Q 011050          201 DDFDCTLCLKLLYEP--ITTPCGHSFCRSCLFQSMD--------RGNKCPLCRAVLFI  248 (494)
Q Consensus       201 ~~~~C~iC~~~~~~P--v~~~cgh~fc~~Cl~~~~~--------~~~~CP~Cr~~~~~  248 (494)
                      .+-.|.+|.-.+.+-  +.+.|-|.|++.|+..+-.        .|..||.|..+++.
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            456799999877654  6689999999999988754        25789999999864

>COG2912 Uncharacterized conserved protein [Function unknown]

Probab=91.71  E-value=0.6  Score=44.52  Aligned_cols=73  Identities=21%  Similarity=0.359  Sum_probs=65.3

Q ss_pred             HHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhh
Q 011050           53 KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLN  132 (494)
Q Consensus        53 ~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~  132 (494)
                      .-..+...++++.|...-.+.+.++|.++.-+.-||.+|.++|-+                       .-|+.|+...++
T Consensus       187 lk~~~~~e~~~~~al~~~~r~l~l~P~dp~eirDrGliY~ql~c~-----------------------~vAl~dl~~~~~  243 (269)
T COG2912         187 LKAALLRELQWELALRVAERLLDLNPEDPYEIRDRGLIYAQLGCY-----------------------HVALEDLSYFVE  243 (269)
T ss_pred             HHHHHHHhhchHHHHHHHHHHHhhCCCChhhccCcHHHHHhcCCc-----------------------hhhHHHHHHHHH
Confidence            345567889999999999999999999999999999999999999                       999999999999


Q ss_pred             ccccchHHHHHHHHHH
Q 011050          133 LQSNSMKSHLLKANAL  148 (494)
Q Consensus       133 l~p~~~~a~~~~g~~~  148 (494)
                      ..|+.+.+-..++...
T Consensus       244 ~~P~~~~a~~ir~~l~  259 (269)
T COG2912         244 HCPDDPIAEMIRAQLL  259 (269)
T ss_pred             hCCCchHHHHHHHHHH
Confidence            9999988876666554

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=91.70  E-value=0.99  Score=49.44  Aligned_cols=141  Identities=15%  Similarity=0.044  Sum_probs=98.6

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      ..+..-+|..+++.|++++|..+....-...++|-..+.-+..||..++++                       ++|...
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            345567899999999999999877777777788888888888999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCch-hHHHHHHHHhhhhhhhccccCCCCCCCccccc
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP-LQASLQNLERTTASLIGRRIHGTPERTDDFDC  205 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C  205 (494)
                      |+++++.+|. .+..+.+-.+|..-+.|.+=-+.-.+..+.-|.++- .|..+..+-..+........    ...-.+.|
T Consensus       100 Ye~~~~~~P~-eell~~lFmayvR~~~yk~qQkaa~~LyK~~pk~~yyfWsV~Slilqs~~~~~~~~~----~i~l~LA~  174 (932)
T KOG2053|consen  100 YERANQKYPS-EELLYHLFMAYVREKSYKKQQKAALQLYKNFPKRAYYFWSVISLILQSIFSENELLD----PILLALAE  174 (932)
T ss_pred             HHHHHhhCCc-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccchHHHHHHHHHHhccCCccccc----chhHHHHH
Confidence            9999999998 777777777777777776644444444446677663 45555544433333222111    23334455


Q ss_pred             ccccccccCc
Q 011050          206 TLCLKLLYEP  215 (494)
Q Consensus       206 ~iC~~~~~~P  215 (494)
                      ..|...+..+
T Consensus       175 ~m~~~~l~~~  184 (932)
T KOG2053|consen  175 KMVQKLLEKK  184 (932)
T ss_pred             HHHHHHhccC
Confidence            5566555555

>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=91.62  E-value=0.34  Score=39.58  Aligned_cols=32  Identities=34%  Similarity=0.703  Sum_probs=25.9

Q ss_pred             CCcccccccccccccCcE--EcCCCCcccHhhHH
Q 011050          199 RTDDFDCTLCLKLLYEPI--TTPCGHSFCRSCLF  230 (494)
Q Consensus       199 ~~~~~~C~iC~~~~~~Pv--~~~cgh~fc~~Cl~  230 (494)
                      ..+.-.|++|...+.+.+  .+||||.|+..|+.
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            445667999999888764  47999999999974

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 [].

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.60  E-value=1.1  Score=41.92  Aligned_cols=110  Identities=15%  Similarity=-0.001  Sum_probs=73.4

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc------ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchh
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP------IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH  119 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (494)
                      .+..+...++.|-..++|++|..+..+|.+..-++.      .+|..-|+..-.+..+                      
T Consensus        30 aas~yekAAvafRnAk~feKakdcLlkA~~~yEnnrslfhAAKayEqaamLake~~kl----------------------   87 (308)
T KOG1585|consen   30 AASLYEKAAVAFRNAKKFEKAKDCLLKASKGYENNRSLFHAAKAYEQAAMLAKELSKL----------------------   87 (308)
T ss_pred             hHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHHHh----------------------
Confidence            355566667777778999999999999996544443      3444445555556667                      


Q ss_pred             HHHHHHHHHHHhhcc-----ccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHH
Q 011050          120 AELALKDAEKLLNLQ-----SNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASL  178 (494)
Q Consensus       120 ~~~a~~~~~~al~l~-----p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~  178 (494)
                       .++...+++|..+-     |+-...-..+|.-.....++++|+..|++++.+--.+...+.+.
T Consensus        88 -sEvvdl~eKAs~lY~E~GspdtAAmaleKAak~lenv~Pd~AlqlYqralavve~~dr~~ma~  150 (308)
T KOG1585|consen   88 -SEVVDLYEKASELYVECGSPDTAAMALEKAAKALENVKPDDALQLYQRALAVVEEDDRDQMAF  150 (308)
T ss_pred             -HHHHHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHhccchHHHHH
Confidence             88999999988762     43333333333334567788999999999988766555444333

>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0

Probab=91.51  E-value=0.21  Score=41.69  Aligned_cols=47  Identities=23%  Similarity=0.576  Sum_probs=39.4

Q ss_pred             cccccccccccccCcEEc----CCCCcccHhhHHHhccC---CCCCCCCCcccc
Q 011050          201 DDFDCTLCLKLLYEPITT----PCGHSFCRSCLFQSMDR---GNKCPLCRAVLF  247 (494)
Q Consensus       201 ~~~~C~iC~~~~~~Pv~~----~cgh~fc~~Cl~~~~~~---~~~CP~Cr~~~~  247 (494)
                      ..++|.||.+...+.-.+    =||.+.|..|-...|..   ...||.|+..+.
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            678999999998888655    29999999999887764   357999998864

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

Probab=91.39  E-value=1.1  Score=45.78  Aligned_cols=100  Identities=10%  Similarity=0.023  Sum_probs=87.1

Q ss_pred             HHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHH
Q 011050           50 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  129 (494)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  129 (494)
                      |..-|.=--.+++++.|-+.|.+||..+-.+..+|...|.+-++....                       ..|-...++
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            444444455778999999999999999999999999999999999998                       999999999


Q ss_pred             HhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCc
Q 011050          130 LLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (494)
Q Consensus       130 al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~  172 (494)
                      |+.+-|.-.+.||..-..=..+|+..-|...|++=+...|+..
T Consensus       133 Avt~lPRVdqlWyKY~ymEE~LgNi~gaRqiferW~~w~P~eq  175 (677)
T KOG1915|consen  133 AVTILPRVDQLWYKYIYMEEMLGNIAGARQIFERWMEWEPDEQ  175 (677)
T ss_pred             HHHhcchHHHHHHHHHHHHHHhcccHHHHHHHHHHHcCCCcHH
Confidence            9999998888888776666788999999999999999999755

>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=91.39  E-value=1.5  Score=39.48  Aligned_cols=96  Identities=19%  Similarity=0.160  Sum_probs=68.8

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC---cccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      ...+...|+-|.+.||+++|+..|.++.+.....   ...+.+...+.+..++|                       ..+
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            4677889999999999999999999998875432   25556666677777788                       666


Q ss_pred             HHHHHHHhhcccc----chH--HHHHHHHHHHHHHHHHHHHHHHHccc
Q 011050          124 LKDAEKLLNLQSN----SMK--SHLLKANALILLERYDMARDAILSGL  165 (494)
Q Consensus       124 ~~~~~~al~l~p~----~~~--a~~~~g~~~~~~~~~~~A~~~~~~al  165 (494)
                      .....+|-.+-..    ..+  .....|.++...++|.+|-..|..+.
T Consensus        93 ~~~i~ka~~~~~~~~d~~~~nrlk~~~gL~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen   93 EKYIEKAESLIEKGGDWERRNRLKVYEGLANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHhchHHHHHHHHHccC
Confidence            6666665554321    122  22334666778999999999988775

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.

>KOG0292 consensus Vesicle coat complex COPI, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.36  E-value=2.2  Score=46.79  Aligned_cols=192  Identities=18%  Similarity=0.204  Sum_probs=103.5

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC---cccccChhHHHHHHH-hhhccCCCCCccccccCCCCCchh
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRIS-QFLKHRPPSASEYRPLNGLDPTTH  119 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~---~~~~~~~a~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~  119 (494)
                      .....+-.++|..+...|+|.+|+.+|..+|-.-|--   ...=...+...+... +|+-+..-+- +.+.+    +.+.
T Consensus       988 l~~l~~kl~~gy~ltt~gKf~eAie~Frsii~~i~l~vvd~~~e~aea~~li~i~~eYi~gL~~E~-~Rr~l----~~~~ 1062 (1202)
T KOG0292|consen  988 LSQLNKKLQKGYKLTTEGKFGEAIEKFRSIIYSIPLLVVDSKEEEAEADELIKICREYIVGLSVEL-ERRKL----KKPN 1062 (1202)
T ss_pred             HHHHHHHHHHHHhhhccCcHHHHHHHHHHHHhheeEEEecchhhHHHHHHHHHHHHHHHhhheeee-eeccc----CCch
Confidence            4456677889999999999999999999998765521   111111122223333 2321111000 00000    1222


Q ss_pred             HHHH--HHHHHHHhhccccchHHHHHH-HHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhhhhccccCCC
Q 011050          120 AELA--LKDAEKLLNLQSNSMKSHLLK-ANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGT  196 (494)
Q Consensus       120 ~~~a--~~~~~~al~l~p~~~~a~~~~-g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~~~~~~~  196 (494)
                      ...+  +..|=.-..+.|-+.-.-.+. -.++++++++..|.....+.+++.|..+.+....+.+...-.+.-.+   ..
T Consensus      1063 ~~~~~ElAaYFt~~~Lqp~H~ilalrtA~n~ffK~kN~ktAs~fa~rLlel~~~~~~A~q~rki~~a~eknp~Da---~~ 1139 (1202)
T KOG0292|consen 1063 LEQQLELAAYFTHCKLQPMHRILALRTAMNVFFKLKNLKTAAEFARRLLELAPSPPVAEQARKIKQAAEKNPTDA---YE 1139 (1202)
T ss_pred             HHHHHHHHHHhhcCCCCcHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhCCCChHHHHHHHHHHHhhcCcccc---cc
Confidence            2333  333334456667654433333 45678999999999999999999998877655444333222211111   11


Q ss_pred             CCCCcccccccccccccCcEE---cCCCCcccHhhHHHhccCCCCCCCCCcc
Q 011050          197 PERTDDFDCTLCLKLLYEPIT---TPCGHSFCRSCLFQSMDRGNKCPLCRAV  245 (494)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~Pv~---~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~  245 (494)
                      ..-..+..-.||...+ .|+.   -.|...+|..|..... .+..|-+|...
T Consensus      1140 l~yd~~n~f~iC~~t~-~Piy~g~p~~~cp~cga~y~~~~-~g~iCtvc~V~ 1189 (1202)
T KOG0292|consen 1140 LNYDPHNPFVICGATY-VPIYRGRPDVSCPYCGACFVPSS-KGNICTVCDVG 1189 (1202)
T ss_pred             cCcccCCCeeEecccc-eeeecCCCCcCCCcccceecccc-CCceeeeeeee
Confidence            1111222334555322 2332   2466677888866543 45678888654

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=91.13  E-value=1.4  Score=43.46  Aligned_cols=103  Identities=16%  Similarity=0.123  Sum_probs=69.3

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCC---CcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPG---DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~---~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (494)
                      ......++|..++...++++|+...++.+..-.+   .-..|--++.+...+|+|                       .+
T Consensus         5 q~k~q~~~g~~Ly~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y-----------------------~~   61 (518)
T KOG1941|consen    5 QTKKQIEKGLQLYQSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRY-----------------------KE   61 (518)
T ss_pred             hhHHHHHHHHhHhcCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHH-----------------------HH
Confidence            3566778999999999999999999999876433   234555566777777777                       55


Q ss_pred             HHHHHH----HHhhcccc--chHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCC
Q 011050          123 ALKDAE----KLLNLQSN--SMKSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (494)
Q Consensus       123 a~~~~~----~al~l~p~--~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~  171 (494)
                      ++..+-    -+.+++..  ...||.+++..+..+.++.+++.+-+..+.+....
T Consensus        62 mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~  116 (518)
T KOG1941|consen   62 MLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKLCEFHKTISYCKTCLGLPGTR  116 (518)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHhcCCCCC
Confidence            544333    33333322  24577777777777777777777777766664433

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=91.11  E-value=1.6  Score=43.95  Aligned_cols=146  Identities=19%  Similarity=0.165  Sum_probs=90.6

Q ss_pred             eccCCCccceeccCCCC---C-chhhHHHHHHHHHHHHHHHH---hcChHHHHHHHHHH-hccCCCCcccccChhHHHHH
Q 011050           22 GIDDVDDYIWANEGEGS---L-PWDRYTHVFDLVQKGNRAFR---ESNFEEAISNYSRA-NNIKPGDPIVLGNRSSAYIR   93 (494)
Q Consensus        22 ~~~~~~~~~~~~~~~~~---~-~~~~~~~~~~~~~~g~~~~~---~~~~~~Ai~~y~~a-l~~~p~~~~~~~~~a~~~~~   93 (494)
                      +.++++||..+..-...   . .-+......--+..|..+-+   .|+.++|+..+..+ ....+.+++.|.-.|.+|-.
T Consensus       150 SyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GRIyKD  229 (374)
T PF13281_consen  150 SYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGRIYKD  229 (374)
T ss_pred             HhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHHHHHH
Confidence            56677777765321111   1 11133334445567777777   89999999999994 45567788999988888865


Q ss_pred             HHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchH----------------------------------
Q 011050           94 ISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMK----------------------------------  139 (494)
Q Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~----------------------------------  139 (494)
                      +  |+++.. .|.++           -++|+..|.++.+++|+...                                  
T Consensus       230 ~--~~~s~~-~d~~~-----------ldkAi~~Y~kgFe~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~  295 (374)
T PF13281_consen  230 L--FLESNF-TDRES-----------LDKAIEWYRKGFEIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGR  295 (374)
T ss_pred             H--HHHcCc-cchHH-----------HHHHHHHHHHHHcCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHh
Confidence            4  432211 12111           26777777777777665332                                  


Q ss_pred             -----------HHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          140 -----------SHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       140 -----------a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                                 .+-.++.+....|++++|+.+++++++++|..=.....++++
T Consensus       296 kg~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~~W~l~St~~ni  348 (374)
T PF13281_consen  296 KGSLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPPAWELESTLENI  348 (374)
T ss_pred             hccccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCcchhHHHHHHHH
Confidence                       122334445568999999999999999877544444444444

>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B

Probab=90.98  E-value=0.56  Score=37.10  Aligned_cols=65  Identities=17%  Similarity=0.110  Sum_probs=49.3

Q ss_pred             HHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccc--hHHHHH
Q 011050           66 AISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNS--MKSHLL  143 (494)
Q Consensus        66 Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~--~~a~~~  143 (494)
                      .+..+.+++..+|+|..+.+.+|..++..|++                       ++|++.+-.+++.++++  -.+.-.
T Consensus         7 ~~~al~~~~a~~P~D~~ar~~lA~~~~~~g~~-----------------------e~Al~~Ll~~v~~dr~~~~~~ar~~   63 (90)
T PF14561_consen    7 DIAALEAALAANPDDLDARYALADALLAAGDY-----------------------EEALDQLLELVRRDRDYEDDAARKR   63 (90)
T ss_dssp             HHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-H-----------------------HHHHHHHHHHHCC-TTCCCCHHHHH
T ss_pred             cHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCH-----------------------HHHHHHHHHHHHhCccccccHHHHH
Confidence            46678899999999999999999999999999                       99999999999999877  334444


Q ss_pred             HHHHHHHHHH
Q 011050          144 KANALILLER  153 (494)
Q Consensus       144 ~g~~~~~~~~  153 (494)
                      +-.++..+|.
T Consensus        64 ll~~f~~lg~   73 (90)
T PF14561_consen   64 LLDIFELLGP   73 (90)
T ss_dssp             HHHHHHHH-T
T ss_pred             HHHHHHHcCC
Confidence            4444444444

>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function

Probab=90.97  E-value=0.68  Score=43.12  Aligned_cols=101  Identities=17%  Similarity=0.025  Sum_probs=67.2

Q ss_pred             HHHHhcChHHHHHHHHHHhccCC----CC---cccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHH
Q 011050           56 RAFRESNFEEAISNYSRANNIKP----GD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (494)
Q Consensus        56 ~~~~~~~~~~Ai~~y~~al~~~p----~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (494)
                      .+-....++.|+..|.-|+-..-    +.   +.++.++|.+|-.+++-       .         ........|++.+.
T Consensus        86 ~~~~~Rt~~~ai~~YkLAll~~~~~~~~~s~~A~l~LrlAWlyR~~~~~-------~---------~E~~fl~~Al~~y~  149 (214)
T PF09986_consen   86 DFSGERTLEEAIESYKLALLCAQIKKEKPSKKAGLCLRLAWLYRDLGDE-------E---------NEKRFLRKALEFYE  149 (214)
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhccCCH-------H---------HHHHHHHHHHHHHH
Confidence            45556788899999998876421    11   23333444444443331       0         01122278888899


Q ss_pred             HHhhcccc------chHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCc
Q 011050          129 KLLNLQSN------SMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (494)
Q Consensus       129 ~al~l~p~------~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~  172 (494)
                      +|++....      .....|.+|.....+|++++|+.+|.+.+...-.+.
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      356888999999999999999999999988544444

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=90.96  E-value=1.1  Score=46.32  Aligned_cols=92  Identities=20%  Similarity=0.052  Sum_probs=66.0

Q ss_pred             HHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHH-----HHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHH
Q 011050           56 RAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYI-----RISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKL  130 (494)
Q Consensus        56 ~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a  130 (494)
                      .+-++.+.++-|..-.+|++++|+.+.+|.-+|.-..     ...-|                       .+|++..+.+
T Consensus       177 ~AWRERnp~aRIkaA~eALei~pdCAdAYILLAEEeA~Ti~Eae~l~-----------------------rqAvkAgE~~  233 (539)
T PF04184_consen  177 KAWRERNPQARIKAAKEALEINPDCADAYILLAEEEASTIVEAEELL-----------------------RQAVKAGEAS  233 (539)
T ss_pred             HHHhcCCHHHHHHHHHHHHHhhhhhhHHHhhcccccccCHHHHHHHH-----------------------HHHHHHHHHh
Confidence            3457789999999999999999999988877654211     11112                       4455555444


Q ss_pred             hhccc----------------c--chHHHHHHHHHHHHHHHHHHHHHHHHccccCCCC
Q 011050          131 LNLQS----------------N--SMKSHLLKANALILLERYDMARDAILSGLQVDPF  170 (494)
Q Consensus       131 l~l~p----------------~--~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~  170 (494)
                      ++.+.                .  .+.+.+++|.+...+|+.++|++.++..++.+|.
T Consensus       234 lg~s~~~~~~g~~~e~~~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~  291 (539)
T PF04184_consen  234 LGKSQFLQHHGHFWEAWHRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPN  291 (539)
T ss_pred             hchhhhhhcccchhhhhhccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCc
Confidence            44321                0  1345677899999999999999999999998885

The molecular function of this protein is uncertain.

>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=90.94  E-value=0.16  Score=49.68  Aligned_cols=67  Identities=16%  Similarity=0.086  Sum_probs=61.8

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      .+.-+..+|..+.+.++...|+..|..|++++|+...-|--|+.+...+|+|                       .+|-+
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            3556778999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccc
Q 011050          126 DAEKLLNLQS  135 (494)
Q Consensus       126 ~~~~al~l~p  135 (494)
                      +++.|++++-
T Consensus       204 dl~~a~kld~  213 (377)
T KOG1308|consen  204 DLALACKLDY  213 (377)
T ss_pred             HHHHHHhccc
Confidence            9999999874

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=90.93  E-value=0.12  Score=49.78  Aligned_cols=45  Identities=29%  Similarity=0.861  Sum_probs=33.0

Q ss_pred             cccccccccccccCc----EEcCCCCcccHhhHHHhccC-CCCCCCCCccc
Q 011050          201 DDFDCTLCLKLLYEP----ITTPCGHSFCRSCLFQSMDR-GNKCPLCRAVL  246 (494)
Q Consensus       201 ~~~~C~iC~~~~~~P----v~~~cgh~fc~~Cl~~~~~~-~~~CP~Cr~~~  246 (494)
                      +++ ||+|.+.+..-    ..-+||...|+.|......+ ...||-||...
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            444 99999987643    12389999999998654432 45899999864

>PRK04841 transcriptional regulator MalT; Provisional

Probab=90.27  E-value=0.69  Score=52.88  Aligned_cols=95  Identities=14%  Similarity=0.010  Sum_probs=76.0

Q ss_pred             HHHHHHHHHHhcChHHHHHHHHHHhccCCCCc-----ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHH
Q 011050           50 LVQKGNRAFRESNFEEAISNYSRANNIKPGDP-----IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (494)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (494)
                      ....|..++..|++++|...+.+++...+...     .++..+|.++...|++                       ++|.
T Consensus       455 ~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~-----------------------~~A~  511 (903)
T PRK04841        455 NALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGEL-----------------------ARAL  511 (903)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCH-----------------------HHHH
Confidence            34467888899999999999999998655432     3456778888889999                       9999


Q ss_pred             HHHHHHhhcccc------chHHHHHHHHHHHHHHHHHHHHHHHHccccC
Q 011050          125 KDAEKLLNLQSN------SMKSHLLKANALILLERYDMARDAILSGLQV  167 (494)
Q Consensus       125 ~~~~~al~l~p~------~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l  167 (494)
                      ..+.+++.....      ...++..+|.++...|++++|...+.+++.+
T Consensus       512 ~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~  560 (903)
T PRK04841        512 AMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQL  560 (903)
T ss_pred             HHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            999998865321      2346778899999999999999999998876

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=90.24  E-value=1.3  Score=37.52  Aligned_cols=64  Identities=17%  Similarity=0.206  Sum_probs=52.0

Q ss_pred             cChHHHHHHHHHHhc-cCCC-CcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccch
Q 011050           61 SNFEEAISNYSRANN-IKPG-DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSM  138 (494)
Q Consensus        61 ~~~~~Ai~~y~~al~-~~p~-~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~  138 (494)
                      .|-++.|..+...++ -+|. +-...+-+|..++++++|                       .++++..+..++.+|+|.
T Consensus        49 ~dv~~GI~iLe~l~~~~~~~~rRe~lyYLAvg~yRlkeY-----------------------~~s~~yvd~ll~~e~~n~  105 (149)
T KOG3364|consen   49 EDVQEGIVILEDLLKSAHPERRRECLYYLAVGHYRLKEY-----------------------SKSLRYVDALLETEPNNR  105 (149)
T ss_pred             HHHHHhHHHHHHHhhhcCcccchhhhhhhHHHHHHHhhH-----------------------HHHHHHHHHHHhhCCCcH
Confidence            455678999999996 5554 347778899999999999                       999999999999999998


Q ss_pred             HHHHHHHHH
Q 011050          139 KSHLLKANA  147 (494)
Q Consensus       139 ~a~~~~g~~  147 (494)
                      +|.-..-.+
T Consensus       106 Qa~~Lk~~i  114 (149)
T KOG3364|consen  106 QALELKETI  114 (149)
T ss_pred             HHHHHHHHH
Confidence            886444333

>cd02682 MIT_AAA_Arch MIT: domain contained within Microtubule Interacting and Trafficking molecules

Probab=90.18  E-value=3.7  Score=31.12  Aligned_cols=31  Identities=29%  Similarity=0.343  Sum_probs=22.7

Q ss_pred             HHHHHHHHHHHHHHHhcChHHHHHHHHHHhc
Q 011050           45 THVFDLVQKGNRAFRESNFEEAISNYSRANN   75 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~   75 (494)
                      ..|..+..+|..+=+.|+|++|+.+|++|++
T Consensus         4 ~~A~~~a~~AVe~D~~gr~~eAi~~Y~~aIe   34 (75)
T cd02682           4 EMARKYAINAVKAEKEGNAEDAITNYKKAIE   34 (75)
T ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            4466777778888888888888877755554

This sub-family of MIT domains is found in mostly archaebacterial AAA-ATPases. The molecular function of the MIT domain is unclear.

>KOG3002 consensus Zn finger protein [General function prediction only]

Probab=90.16  E-value=0.23  Score=48.47  Aligned_cols=61  Identities=30%  Similarity=0.544  Sum_probs=45.2

Q ss_pred             CCCCcccccccccccccCcEEc-CCCCcccHhhHHHhccCCCCCCCCCcccccCCCCCcccccHHHHHHH
Q 011050          197 PERTDDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQK  265 (494)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~Pv~~-~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~  265 (494)
                      ....+.++||+|.+.+.-|+.- +=||.-|.+|-..   ....||.||.++..     .-++.+..+++.
T Consensus        43 ~~~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~---~~~~CP~Cr~~~g~-----~R~~amEkV~e~  104 (299)
T KOG3002|consen   43 LLDLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTK---VSNKCPTCRLPIGN-----IRCRAMEKVAEA  104 (299)
T ss_pred             ccchhhccCchhhccCcccceecCCCcEehhhhhhh---hcccCCcccccccc-----HHHHHHHHHHHh
Confidence            4566778999999999999653 6699999999643   34689999998741     234566666665

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

Probab=89.95  E-value=0.87  Score=50.54  Aligned_cols=94  Identities=13%  Similarity=0.039  Sum_probs=54.7

Q ss_pred             HHHHHHHHHHHhcChHHHHHHHHHHhcc--CCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           49 DLVQKGNRAFRESNFEEAISNYSRANNI--KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      .|......|.+.|++++|+..|.+..+.  .| +...|..+..++.+.|++                       ++|.+.
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            3444555566666666666666665442  23 233455555666666666                       666666


Q ss_pred             HHHHhhcc-ccchHHHHHHHHHHHHHHHHHHHHHHHHcccc
Q 011050          127 AEKLLNLQ-SNSMKSHLLKANALILLERYDMARDAILSGLQ  166 (494)
Q Consensus       127 ~~~al~l~-p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~  166 (494)
                      +...++.. +.+...+..+...|.+.|++++|...|++..+
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            66655544 33445555666666666666666666666543

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.67  E-value=2.3  Score=39.96  Aligned_cols=104  Identities=18%  Similarity=0.218  Sum_probs=73.9

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC------cccccChhHHHHHHHhhhccCCCCCccccccCCCCCchh
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH  119 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (494)
                      .+..-++++-.....-+.+.|+..|++++.+--.+      ..++...+..+.++..|                      
T Consensus       109 tAAmaleKAak~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf----------------------  166 (308)
T KOG1585|consen  109 TAAMALEKAAKALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKF----------------------  166 (308)
T ss_pred             hHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHh----------------------
Confidence            35666778888888899999999999998773221      37777888889999999                      


Q ss_pred             HHHH----HHHHHHHhhccc--cchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCc
Q 011050          120 AELA----LKDAEKLLNLQS--NSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (494)
Q Consensus       120 ~~~a----~~~~~~al~l~p--~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~  172 (494)
                       .+|    ++...-+++.+.  +..+++...-.+|...++|..|...|+...++.-.+.
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             444    334444555553  3444555444556677899999999999888755443

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.59  E-value=1.9  Score=40.91  Aligned_cols=98  Identities=15%  Similarity=0.117  Sum_probs=49.2

Q ss_pred             HHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccc
Q 011050           56 RAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQS  135 (494)
Q Consensus        56 ~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p  135 (494)
                      .+.+..+++-|.....++.+.+.+  ..+..+|.++.++-.=                   ...+..|.-.|+..-+.-|
T Consensus       146 I~lk~~r~d~A~~~lk~mq~ided--~tLtQLA~awv~la~g-------------------gek~qdAfyifeE~s~k~~  204 (299)
T KOG3081|consen  146 ILLKMHRFDLAEKELKKMQQIDED--ATLTQLAQAWVKLATG-------------------GEKIQDAFYIFEELSEKTP  204 (299)
T ss_pred             HHHHHHHHHHHHHHHHHHHccchH--HHHHHHHHHHHHHhcc-------------------chhhhhHHHHHHHHhcccC
Confidence            344555556666655555555432  2333344444443211                   0001555555555555444


Q ss_pred             cchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchh
Q 011050          136 NSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  174 (494)
Q Consensus       136 ~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~  174 (494)
                      -.+......|.++..+|+|++|...++.+|..++.+++.
T Consensus       205 ~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpet  243 (299)
T KOG3081|consen  205 PTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPET  243 (299)
T ss_pred             CChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHH
Confidence            444555555555556666666666666666655555543

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=89.51  E-value=3.1  Score=37.46  Aligned_cols=94  Identities=13%  Similarity=0.044  Sum_probs=76.4

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC--cccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD--PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      ++..+...++..|.-+++..|........+.+|..  +.-..-.|..|...|.+                       ..|
T Consensus       123 d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll~aR~laa~g~~-----------------------a~A  179 (251)
T COG4700         123 DAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLLFARTLAAQGKY-----------------------ADA  179 (251)
T ss_pred             CHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHHHHHHHHhcCCc-----------------------hhH
Confidence            34567889999999999999999999999999864  45555567888899999                       889


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHc
Q 011050          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILS  163 (494)
Q Consensus       124 ~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~  163 (494)
                      ...++.++..-|. +.+-.+.|.-+..+|+.++|..-|..
T Consensus       180 esafe~a~~~ypg-~~ar~~Y~e~La~qgr~~ea~aq~~~  218 (251)
T COG4700         180 ESAFEVAISYYPG-PQARIYYAEMLAKQGRLREANAQYVA  218 (251)
T ss_pred             HHHHHHHHHhCCC-HHHHHHHHHHHHHhcchhHHHHHHHH
Confidence            9999999999885 46667777888888988887665543

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=89.47  E-value=0.83  Score=47.99  Aligned_cols=87  Identities=16%  Similarity=0.085  Sum_probs=74.4

Q ss_pred             hcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchH
Q 011050           60 ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMK  139 (494)
Q Consensus        60 ~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~  139 (494)
                      ..+.+.|........+.-|+.+..+...|..+...|+.                       ++|++.+++++.....+.+
T Consensus       246 ~~~~~~a~~lL~~~~~~yP~s~lfl~~~gR~~~~~g~~-----------------------~~Ai~~~~~a~~~q~~~~Q  302 (468)
T PF10300_consen  246 DVPLEEAEELLEEMLKRYPNSALFLFFEGRLERLKGNL-----------------------EEAIESFERAIESQSEWKQ  302 (468)
T ss_pred             CCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCH-----------------------HHHHHHHHHhccchhhHHh
Confidence            45667788889999999999999999999999999999                       9999999999865544433


Q ss_pred             ----HHHHHHHHHHHHHHHHHHHHHHHccccCCC
Q 011050          140 ----SHLLKANALILLERYDMARDAILSGLQVDP  169 (494)
Q Consensus       140 ----a~~~~g~~~~~~~~~~~A~~~~~~al~l~p  169 (494)
                          .+|.+|.++..+++|++|..++.+..+.+.
T Consensus       303 l~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~  336 (468)
T PF10300_consen  303 LHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESK  336 (468)
T ss_pred             HHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccc
Confidence                688999999999999999999999887443

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.

>PRK04841 transcriptional regulator MalT; Provisional

Probab=89.33  E-value=0.8  Score=52.39  Aligned_cols=99  Identities=16%  Similarity=0.126  Sum_probs=77.2

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC------cccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGD------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (494)
                      ..+...|..+...|++++|...|.+++......      ..++.++|.+++..|++                       .
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            345567788889999999999999999764321      23556778888999999                       9


Q ss_pred             HHHHHHHHHhhcccc--------chHHHHHHHHHHHHHHHHHHHHHHHHccccCCC
Q 011050          122 LALKDAEKLLNLQSN--------SMKSHLLKANALILLERYDMARDAILSGLQVDP  169 (494)
Q Consensus       122 ~a~~~~~~al~l~p~--------~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p  169 (494)
                      +|...+++++.+-..        ....+..+|.++...|++++|...+.+++.+..
T Consensus       549 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~  604 (903)
T PRK04841        549 AAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLS  604 (903)
T ss_pred             HHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhh
Confidence            999999988876321        223456778899999999999999999988644

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

Probab=89.17  E-value=2.1  Score=43.88  Aligned_cols=107  Identities=15%  Similarity=0.097  Sum_probs=87.9

Q ss_pred             HHhcChHHHHHHHHHHhccCCCC----cccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhc
Q 011050           58 FRESNFEEAISNYSRANNIKPGD----PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNL  133 (494)
Q Consensus        58 ~~~~~~~~Ai~~y~~al~~~p~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l  133 (494)
                      ....|.+.+-..|+.+|++-|..    +.+|...|...+...+.                       ..|-+.+..|+.+
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            45688999999999999999964    46777777777777777                       8999999999999


Q ss_pred             cccchHHHHHHHHH--HHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhhhhc
Q 011050          134 QSNSMKSHLLKANA--LILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIG  190 (494)
Q Consensus       134 ~p~~~~a~~~~g~~--~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~  190 (494)
                      .|..   -..+|.+  =.++++++.+...|++.|...|.|-.++.....++..++..-.
T Consensus       434 cPK~---KlFk~YIelElqL~efDRcRkLYEkfle~~Pe~c~~W~kyaElE~~LgdtdR  489 (677)
T KOG1915|consen  434 CPKD---KLFKGYIELELQLREFDRCRKLYEKFLEFSPENCYAWSKYAELETSLGDTDR  489 (677)
T ss_pred             CCch---hHHHHHHHHHHHHhhHHHHHHHHHHHHhcChHhhHHHHHHHHHHHHhhhHHH
Confidence            9865   2233333  4678999999999999999999999999999999888876554

>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]

Probab=89.01  E-value=0.11  Score=58.69  Aligned_cols=48  Identities=27%  Similarity=0.715  Sum_probs=42.1

Q ss_pred             CCccccccccccccc-CcEEcCCCCcccHhhHHHhccCCCCCCCCCccc
Q 011050          199 RTDDFDCTLCLKLLY-EPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (494)
Q Consensus       199 ~~~~~~C~iC~~~~~-~Pv~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~  246 (494)
                      ....+.|++|.+++. ......|||.+|..|...|+.....||.|....
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            346679999999999 567789999999999999999999999998643

>COG3914 Spy Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]

Probab=88.83  E-value=1.9  Score=45.33  Aligned_cols=101  Identities=13%  Similarity=-0.085  Sum_probs=82.8

Q ss_pred             HHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhh
Q 011050           53 KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLN  132 (494)
Q Consensus        53 ~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~  132 (494)
                      .......-++...|+.....++..+|.+..++.+++.+....|...                      ..+......+..
T Consensus        73 lsi~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~L~~ale~~~~~~----------------------~~~~~~~~~a~~  130 (620)
T COG3914          73 LSILLAPLADSTLAFLAKRIPLSVNPENCPAVQNLAAALELDGLQF----------------------LALADISEIAEW  130 (620)
T ss_pred             HHhhccccccchhHHHHHhhhHhcCcccchHHHHHHHHHHHhhhHH----------------------HHHHHHHHHHHh
Confidence            4445556688888999999999999999999999999988877650                      444555566999


Q ss_pred             ccccchHHHHHH------HHHHHHHHHHHHHHHHHHccccCCCCCchhH
Q 011050          133 LQSNSMKSHLLK------ANALILLERYDMARDAILSGLQVDPFSNPLQ  175 (494)
Q Consensus       133 l~p~~~~a~~~~------g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~  175 (494)
                      ..|++......+      |..+..+|+..++..++.++..+.|.++.+.
T Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~l~~~~d~~p~~~~~~  179 (620)
T COG3914         131 LSPDNAEFLGHLIRFYQLGRYLKLLGRTAEAELALERAVDLLPKYPRVL  179 (620)
T ss_pred             cCcchHHHHhhHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhhhhhhH
Confidence            999998877666      8888899999999999999999999986543

>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=88.79  E-value=2.4  Score=37.23  Aligned_cols=100  Identities=17%  Similarity=0.008  Sum_probs=83.9

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      .+..+.+........++.+++...+...--+.|+.+.+-..-|..++..|+|                       .+|+.
T Consensus         9 iv~gLie~~~~al~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w-----------------------~dA~r   65 (160)
T PF09613_consen    9 IVGGLIEVLSVALRLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDW-----------------------DDALR   65 (160)
T ss_pred             HHHHHHHHHHHHHccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCH-----------------------HHHHH
Confidence            3567788888888999999999999988899999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCC
Q 011050          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP  169 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p  169 (494)
                      .++.+.+-.|..+.+--.++.|+..+|+.+ ...+..+++.-.+
T Consensus        66 lLr~l~~~~~~~p~~kALlA~CL~~~~D~~-Wr~~A~evle~~~  108 (160)
T PF09613_consen   66 LLRELEERAPGFPYAKALLALCLYALGDPS-WRRYADEVLESGA  108 (160)
T ss_pred             HHHHHhccCCCChHHHHHHHHHHHHcCChH-HHHHHHHHHhcCC
Confidence            999999999999888888899998877653 4444555555444

>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=88.76  E-value=0.23  Score=49.38  Aligned_cols=47  Identities=34%  Similarity=0.696  Sum_probs=33.9

Q ss_pred             CCcccccccccccccC--c-EEcCCCCcccHhhHHHhccC----C----CCCCCCCcc
Q 011050          199 RTDDFDCTLCLKLLYE--P-ITTPCGHSFCRSCLFQSMDR----G----NKCPLCRAV  245 (494)
Q Consensus       199 ~~~~~~C~iC~~~~~~--P-v~~~cgh~fc~~Cl~~~~~~----~----~~CP~Cr~~  245 (494)
                      ....+.|.||++...-  . +.+||+|.||++|+...+..    +    -.||.+..+
T Consensus       181 ~~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~  238 (445)
T KOG1814|consen  181 VNSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCG  238 (445)
T ss_pred             HhhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCc
Confidence            3467899999985443  3 34699999999999887641    1    248877654

>PLN03218 maturation of RBCL 1; Provisional

Probab=88.42  E-value=1.6  Score=50.51  Aligned_cols=41  Identities=12%  Similarity=0.178  Sum_probs=18.3

Q ss_pred             HHHhcChHHHHHHHHHHhccC-CCCcccccChhHHHHHHHhh
Q 011050           57 AFRESNFEEAISNYSRANNIK-PGDPIVLGNRSSAYIRISQF   97 (494)
Q Consensus        57 ~~~~~~~~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~   97 (494)
                      +.+.|++++|...|.+..+.+ +.+...|..+..+|.+.|++
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 22333444444444444444

>PLN03218 maturation of RBCL 1; Provisional

Probab=88.36  E-value=1.6  Score=50.45  Aligned_cols=91  Identities=12%  Similarity=0.061  Sum_probs=51.4

Q ss_pred             HHHHHHHhcChHHHHHHHHHHhc----cCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHH
Q 011050           53 KGNRAFRESNFEEAISNYSRANN----IKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (494)
Q Consensus        53 ~g~~~~~~~~~~~Ai~~y~~al~----~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (494)
                      ....+.+.|++++|...|.+...    +.|+ ...|..+..+|.+.|++                       ++|.+.++
T Consensus       548 LI~a~~k~G~~deA~~lf~eM~~~~~gi~PD-~vTynaLI~ay~k~G~l-----------------------deA~elf~  603 (1060)
T PLN03218        548 LISACGQSGAVDRAFDVLAEMKAETHPIDPD-HITVGALMKACANAGQV-----------------------DRAKEVYQ  603 (1060)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhcCCCCCc-HHHHHHHHHHHHHCCCH-----------------------HHHHHHHH
Confidence            33444555555556555555543    2232 33444455555566665                       66666666


Q ss_pred             HHhhcc-ccchHHHHHHHHHHHHHHHHHHHHHHHHccccC
Q 011050          129 KLLNLQ-SNSMKSHLLKANALILLERYDMARDAILSGLQV  167 (494)
Q Consensus       129 ~al~l~-p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l  167 (494)
                      ...+.+ +.+...|..+..+|...|++++|++.|.+..+.
T Consensus       604 ~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~  643 (1060)
T PLN03218        604 MIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKK  643 (1060)
T ss_pred             HHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Confidence            666654 334455666666666677777777766665543

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=88.27  E-value=2.8  Score=41.79  Aligned_cols=113  Identities=14%  Similarity=0.075  Sum_probs=76.4

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccC-CC--------------------------CcccccChhHHHHHHHhhhcc
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIK-PG--------------------------DPIVLGNRSSAYIRISQFLKH  100 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~-p~--------------------------~~~~~~~~a~~~~~~~~~~~~  100 (494)
                      .-..+.+..+..+|+..+|+......+... ..                          ...-....|.++..+++|+..
T Consensus       185 ~v~~e~akllw~~g~~~~Ai~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~~a~w~~~  264 (352)
T PF02259_consen  185 RVFLEYAKLLWAQGEQEEAIQKLRELLKCRLSKNIDSISNAELKSGLLESLEVISSTNLDKESKELKAKAFLLLAKWLDE  264 (352)
T ss_pred             chHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhccccccHHHHhhccccccccccccchhhhhHHHHHHHHHHHHHHHHh
Confidence            445567777778888888888887777721 11                          112223467888999998443


Q ss_pred             CCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHH-----------------HHHHHHHHHc
Q 011050          101 RPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLER-----------------YDMARDAILS  163 (494)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~-----------------~~~A~~~~~~  163 (494)
                      ...         . ......++++..+.++++++|++.++|+..|..+...=+                 ...|+..|-+
T Consensus       265 ~~~---------~-~~~~~~~~~~~~~~~a~~~~~~~~k~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~ai~~y~~  334 (352)
T PF02259_consen  265 LYS---------K-LSSESSDEILKYYKEATKLDPSWEKAWHSWALFNDKLLESDPREKEESSQEDRSEYLEQAIEGYLK  334 (352)
T ss_pred             hcc---------c-cccccHHHHHHHHHHHHHhChhHHHHHHHHHHHHHHHHHhhhhcccccchhHHHHHHHHHHHHHHH
Confidence            300         0 112333889999999999999999999999988755322                 1247778888


Q ss_pred             cccCCCC
Q 011050          164 GLQVDPF  170 (494)
Q Consensus       164 al~l~p~  170 (494)
                      ++.+.+.
T Consensus       335 al~~~~~  341 (352)
T PF02259_consen  335 ALSLGSK  341 (352)
T ss_pred             HHhhCCC
Confidence            8877776

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>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=87.74  E-value=0.39  Score=31.22  Aligned_cols=29  Identities=14%  Similarity=0.114  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHccccC
Q 011050          139 KSHLLKANALILLERYDMARDAILSGLQV  167 (494)
Q Consensus       139 ~a~~~~g~~~~~~~~~~~A~~~~~~al~l  167 (494)
                      +.|..+|.+-...++|++|+.+|.++|.+
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            46889999999999999999999999865

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 [].

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=87.72  E-value=1.5  Score=42.78  Aligned_cols=109  Identities=14%  Similarity=0.041  Sum_probs=79.3

Q ss_pred             HHHHHHHHHHHH-hcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           48 FDLVQKGNRAFR-ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        48 ~~~~~~g~~~~~-~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      .-|...|..-+. .++.+.|...|..+++.-|.+..+|.....-++.+++.                       +.|-..
T Consensus        36 ~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f~~~~~~~~~Y~~~l~~~~d~-----------------------~~aR~l   92 (280)
T PF05843_consen   36 HVYVAYALMEYYCNKDPKRARKIFERGLKKFPSDPDFWLEYLDFLIKLNDI-----------------------NNARAL   92 (280)
T ss_dssp             HHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhCcH-----------------------HHHHHH
Confidence            335556666566 57777799999999999999999999988888888888                       999999


Q ss_pred             HHHHhhccccch--HHHHHH-HHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHH
Q 011050          127 AEKLLNLQSNSM--KSHLLK-ANALILLERYDMARDAILSGLQVDPFSNPLQASLQ  179 (494)
Q Consensus       127 ~~~al~l~p~~~--~a~~~~-g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~  179 (494)
                      +++++..-|...  +..+.. ..-=...|+.+...+.+.++.++.|++..+.....
T Consensus        93 fer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~~~~~~~f~~  148 (280)
T PF05843_consen   93 FERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPEDNSLELFSD  148 (280)
T ss_dssp             HHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTTS-HHHHHHC
T ss_pred             HHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhhhHHHHHHH
Confidence            999999876554  333333 22235678899999999999988888666544443

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.

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=87.60  E-value=6.6  Score=40.18  Aligned_cols=137  Identities=16%  Similarity=0.114  Sum_probs=80.8

Q ss_pred             hhHHHHHHHHHHHHHHHHhcC-hHHHHHHHHHHhccCCCCcc---------------cccChhHH-HHHHHhhhccCC--
Q 011050           42 DRYTHVFDLVQKGNRAFRESN-FEEAISNYSRANNIKPGDPI---------------VLGNRSSA-YIRISQFLKHRP--  102 (494)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~-~~~Ai~~y~~al~~~p~~~~---------------~~~~~a~~-~~~~~~~~~~~~--  102 (494)
                      +...-+..+..-|..+-+.|. -++|+.....+++..|.|..               ++..++.. ++++++++...-  
T Consensus       374 DrqQLvh~L~~~Ak~lW~~g~~dekalnLLk~il~ft~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~  453 (549)
T PF07079_consen  374 DRQQLVHYLVFGAKHLWEIGQCDEKALNLLKLILQFTNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLT  453 (549)
T ss_pred             cHHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCC
Confidence            344445666677777778877 77899999999998887751               11111111 223344322110  


Q ss_pred             ------------CCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCC
Q 011050          103 ------------PSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF  170 (494)
Q Consensus       103 ------------~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~  170 (494)
                                  -+|.+|-+.     +....++.-...=..+++| ++.+|..+|.+++..++|++|-..+...   -|+
T Consensus       454 ~i~i~e~eian~LaDAEyLys-----qgey~kc~~ys~WL~~iaP-S~~~~RLlGl~l~e~k~Y~eA~~~l~~L---P~n  524 (549)
T PF07079_consen  454 PITISEEEIANFLADAEYLYS-----QGEYHKCYLYSSWLTKIAP-SPQAYRLLGLCLMENKRYQEAWEYLQKL---PPN  524 (549)
T ss_pred             cccccHHHHHHHHHHHHHHHh-----cccHHHHHHHHHHHHHhCC-cHHHHHHHHHHHHHHhhHHHHHHHHHhC---CCc
Confidence                        011111000     0011444444444557789 9999999999999999999999998764   332


Q ss_pred             ----CchhHHHHHHHHhhhhh
Q 011050          171 ----SNPLQASLQNLERTTAS  187 (494)
Q Consensus       171 ----~~~~~~~~~~~~~~~~~  187 (494)
                          +..+++++..+++.+.+
T Consensus       525 ~~~~dskvqKAl~lCqKh~~k  545 (549)
T PF07079_consen  525 ERMRDSKVQKALALCQKHLPK  545 (549)
T ss_pred             hhhHHHHHHHHHHHHHHhhhh
Confidence                23455566666665543

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=87.39  E-value=0.43  Score=31.03  Aligned_cols=29  Identities=24%  Similarity=0.211  Sum_probs=25.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHccccC
Q 011050          139 KSHLLKANALILLERYDMARDAILSGLQV  167 (494)
Q Consensus       139 ~a~~~~g~~~~~~~~~~~A~~~~~~al~l  167 (494)
                      .++..+|.+|..+|++++|...+++++.+
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            57789999999999999999999998764

>KOG0530 consensus Protein farnesyltransferase, alpha subunit/protein geranylgeranyltransferase type I, alpha subunit [Posttranslational modification, protein turnover, chaperones]

Probab=87.07  E-value=4.3  Score=38.54  Aligned_cols=94  Identities=12%  Similarity=0.038  Sum_probs=68.1

Q ss_pred             HHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccc
Q 011050           58 FRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNS  137 (494)
Q Consensus        58 ~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~  137 (494)
                      ++...-.+|+..-..+|.++|.+.++|.-|-.+.-.++..+                      .+-++.+...++-+|++
T Consensus        54 ~~~E~S~RAl~LT~d~i~lNpAnYTVW~yRr~iL~~l~~dL----------------------~~El~~l~eI~e~npKN  111 (318)
T KOG0530|consen   54 AKNEKSPRALQLTEDAIRLNPANYTVWQYRRVILRHLMSDL----------------------NKELEYLDEIIEDNPKN  111 (318)
T ss_pred             hccccCHHHHHHHHHHHHhCcccchHHHHHHHHHHHhHHHH----------------------HHHHHHHHHHHHhCccc
Confidence            45567789999999999999999999999988887777542                      56667777777777777


Q ss_pred             hHHHHHHHHHHHHHHHHH-HHHHHHHccccCCCCCch
Q 011050          138 MKSHLLKANALILLERYD-MARDAILSGLQVDPFSNP  173 (494)
Q Consensus       138 ~~a~~~~g~~~~~~~~~~-~A~~~~~~al~l~p~~~~  173 (494)
                      .+.|..+-.+...+|++. .-+.....++..|..|-.
T Consensus       112 YQvWHHRr~ive~l~d~s~rELef~~~~l~~DaKNYH  148 (318)
T KOG0530|consen  112 YQVWHHRRVIVELLGDPSFRELEFTKLMLDDDAKNYH  148 (318)
T ss_pred             hhHHHHHHHHHHHhcCcccchHHHHHHHHhccccchh
Confidence            777766666666666555 555555555555544433

>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=86.53  E-value=0.36  Score=32.52  Aligned_cols=42  Identities=29%  Similarity=0.726  Sum_probs=24.8

Q ss_pred             ccccccccccCcEEcCC-CCcccHhhHHHhccCCCCCCCCCcccc
Q 011050          204 DCTLCLKLLYEPITTPC-GHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (494)
Q Consensus       204 ~C~iC~~~~~~Pv~~~c-gh~fc~~Cl~~~~~~~~~CP~Cr~~~~  247 (494)
                      .|.-|.-..+.  .+.| -|..|..|+...+..+..||.|..+++
T Consensus         4 nCKsCWf~~k~--Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LP   46 (50)
T PF03854_consen    4 NCKSCWFANKG--LIKCSDHYLCLNCLTLMLSRSDRCPICGKPLP   46 (50)
T ss_dssp             ---SS-S--SS--EEE-SS-EEEHHHHHHT-SSSSEETTTTEE--
T ss_pred             cChhhhhcCCC--eeeecchhHHHHHHHHHhccccCCCcccCcCc
Confidence            45555533332  3444 588899999999999999999999874

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.

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=86.40  E-value=4.6  Score=38.43  Aligned_cols=89  Identities=11%  Similarity=0.144  Sum_probs=49.7

Q ss_pred             cChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHH
Q 011050           61 SNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKS  140 (494)
Q Consensus        61 ~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a  140 (494)
                      ++++.|.-.|.+.-+.-|-.+..+.+.|.|.+.+++|                       ++|....+.|+..+++++..
T Consensus       187 ek~qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~~-----------------------eeAe~lL~eaL~kd~~dpet  243 (299)
T KOG3081|consen  187 EKIQDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGRY-----------------------EEAESLLEEALDKDAKDPET  243 (299)
T ss_pred             hhhhhHHHHHHHHhcccCCChHHHccHHHHHHHhcCH-----------------------HHHHHHHHHHHhccCCCHHH
Confidence            3455555555555554445556666666666666666                       66666666666666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHH-HHccccCCCCCc
Q 011050          141 HLLKANALILLERYDMARDA-ILSGLQVDPFSN  172 (494)
Q Consensus       141 ~~~~g~~~~~~~~~~~A~~~-~~~al~l~p~~~  172 (494)
                      +.++--+-..+|...++... +.+.....|+++
T Consensus       244 L~Nliv~a~~~Gkd~~~~~r~l~QLk~~~p~h~  276 (299)
T KOG3081|consen  244 LANLIVLALHLGKDAEVTERNLSQLKLSHPEHP  276 (299)
T ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHhcCCcch
Confidence            66655555555555554443 333333444444

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=85.77  E-value=6.1  Score=39.35  Aligned_cols=120  Identities=20%  Similarity=0.123  Sum_probs=86.3

Q ss_pred             HHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCC----CcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhH
Q 011050           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPG----DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA  120 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (494)
                      ..+..+...+..+.+.|.++-|.....++...++.    .+.+..-.|......|+-                       
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~-----------------------  200 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQ-----------------------  200 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCH-----------------------
Confidence            44567888999999999999999999999987643    345555555666666665                       


Q ss_pred             HHHHHHHHHHhhc-c---------------------------------ccchHHHHHHHHHHHHH------HHHHHHHHH
Q 011050          121 ELALKDAEKLLNL-Q---------------------------------SNSMKSHLLKANALILL------ERYDMARDA  160 (494)
Q Consensus       121 ~~a~~~~~~al~l-~---------------------------------p~~~~a~~~~g~~~~~~------~~~~~A~~~  160 (494)
                      .+|+..++..+.. .                                 ....++++.+|.-...+      +.+++++..
T Consensus       201 ~~Ai~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~~a~w~~~~~~~~~~~~~~~~~~~  280 (352)
T PF02259_consen  201 EEAIQKLRELLKCRLSKNIDSISNAELKSGLLESLEVISSTNLDKESKELKAKAFLLLAKWLDELYSKLSSESSDEILKY  280 (352)
T ss_pred             HHHHHHHHHHHHHHhhhccccccHHHHhhccccccccccccchhhhhHHHHHHHHHHHHHHHHhhccccccccHHHHHHH
Confidence            6666666555551 0                                 12345677777777667      888899999


Q ss_pred             HHccccCCCCCchhHHHHHHHHhhhhh
Q 011050          161 ILSGLQVDPFSNPLQASLQNLERTTAS  187 (494)
Q Consensus       161 ~~~al~l~p~~~~~~~~~~~~~~~~~~  187 (494)
                      |.++.+++|.+..++.........+-.
T Consensus       281 ~~~a~~~~~~~~k~~~~~a~~~~~~~~  307 (352)
T PF02259_consen  281 YKEATKLDPSWEKAWHSWALFNDKLLE  307 (352)
T ss_pred             HHHHHHhChhHHHHHHHHHHHHHHHHH
Confidence            999999999988877776666555533

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PRK13184 pknD serine/threonine-protein kinase; Reviewed

Probab=85.58  E-value=4.6  Score=45.82  Aligned_cols=115  Identities=17%  Similarity=0.109  Sum_probs=83.2

Q ss_pred             HHHHHHHHHHhcChHHHHHHHHHHhccCCCCccccc---ChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           50 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLG---NRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      .....+++...+.|++|+..|.+.-.--|....-|.   ..|.......+-               ..|+ ....+|+..
T Consensus       478 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~-~~~~~~~~~  541 (932)
T PRK13184        478 CLAVPDAFLAEKLYDQALIFYRRIRESFPGRKEGYEAQFRLGITLLEKASE---------------QGDP-RDFTQALSE  541 (932)
T ss_pred             cccCcHHHHhhHHHHHHHHHHHHHhhcCCCcccchHHHHHhhHHHHHHHHh---------------cCCh-HHHHHHHHH
Confidence            344667888899999999999999999998775443   334443332221               0111 223777777


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      +++.-. .|.-+--|.-.|.+|..+|+|.+-++.|.-|++..|..+.+....+.+
T Consensus       542 ~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  595 (932)
T PRK13184        542 FSYLHG-GVGAPLEYLGKALVYQRLGEYNEEIKSLLLALKRYSQHPEISRLRDHL  595 (932)
T ss_pred             HHHhcC-CCCCchHHHhHHHHHHHhhhHHHHHHHHHHHHHhcCCCCccHHHHHHH
Confidence            777654 356677788889999999999999999999999999999876554433

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=85.29  E-value=0.46  Score=43.87  Aligned_cols=33  Identities=27%  Similarity=0.423  Sum_probs=28.9

Q ss_pred             cccccccccccccCcEEcCCCCcccHhhHHHhc
Q 011050          201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSM  233 (494)
Q Consensus       201 ~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~  233 (494)
                      +---|++|+..+.+||+.+-||.||+.||.+.+
T Consensus        42 ~FdcCsLtLqPc~dPvit~~GylfdrEaILe~i   74 (303)
T KOG3039|consen   42 PFDCCSLTLQPCRDPVITPDGYLFDREAILEYI   74 (303)
T ss_pred             CcceeeeecccccCCccCCCCeeeeHHHHHHHH
Confidence            344679999999999999999999999998754

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=84.81  E-value=6.5  Score=36.74  Aligned_cols=53  Identities=25%  Similarity=0.103  Sum_probs=33.8

Q ss_pred             HHHHHHHHHHhhcc------ccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCch
Q 011050          121 ELALKDAEKLLNLQ------SNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (494)
Q Consensus       121 ~~a~~~~~~al~l~------p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~  173 (494)
                      .+|+..|+.|-+.-      ..--+.+...|.--..+++|.+|++.|++..+-.-+|+-
T Consensus       131 ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~~s~~n~L  189 (288)
T KOG1586|consen  131 EKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQVARSSLDNNL  189 (288)
T ss_pred             HHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchH
Confidence            56666666665432      222245556666667889999999999887654444443

>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=84.80  E-value=1.2  Score=26.08  Aligned_cols=25  Identities=24%  Similarity=0.194  Sum_probs=22.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHc
Q 011050          139 KSHLLKANALILLERYDMARDAILS  163 (494)
Q Consensus       139 ~a~~~~g~~~~~~~~~~~A~~~~~~  163 (494)
                      .+++.+|.++...|++++|...+++
T Consensus         2 ~a~~~la~~~~~~G~~~eA~~~l~~   26 (26)
T PF07721_consen    2 RARLALARALLAQGDPDEAERLLRR   26 (26)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHhC
Confidence            5788999999999999999988753

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

>KOG2042 consensus Ubiquitin fusion degradation protein-2 [Posttranslational modification, protein turnover, chaperones]

Probab=84.68  E-value=1.9  Score=48.11  Aligned_cols=72  Identities=19%  Similarity=0.202  Sum_probs=61.3

Q ss_pred             CCCCcccccccccccccCcEEcC-CCCcccHhhHHHhccCCCCCCCCCcccccCCCCCcccccHHHHHHHhChHH
Q 011050          197 PERTDDFDCTLCLKLLYEPITTP-CGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEE  270 (494)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~Pv~~~-cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~p~~  270 (494)
                      ....+.+.=|+...++.+||.+| .|++.|++=+..++..+...|.||.+|..  ....+|..++.-++.|..+.
T Consensus       865 ~dvpdef~DPlm~Tlm~dPV~LP~Srv~vDRsti~rhlLs~~tdPFNR~pLt~--d~v~pn~eLK~kI~~~~~ek  937 (943)
T KOG2042|consen  865 GDVPDEFLDPLMSTLMSDPVVLPSSRVTVDRSTIERHLLSDCTDPFNREPLTE--DMVSPNEELKAKIRCWIKEK  937 (943)
T ss_pred             ccCchhhhCccccccCCCCccCCcccccccHHHHHHHHhcCCCCccccccCch--hhcCCCHHHHHHHHHHHHHh
Confidence            34677888899999999999998 99999999999999999999999999854  56778888888887665443

>PF07720 TPR_3: Tetratricopeptide repeat; InterPro: IPR011716 This entry includes tetratricopeptide-like repeats found in the LcrH/SycD-like chaperones []

Probab=84.56  E-value=1  Score=28.85  Aligned_cols=33  Identities=15%  Similarity=0.010  Sum_probs=25.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH--HHccccCCCCC
Q 011050          139 KSHLLKANALILLERYDMARDA--ILSGLQVDPFS  171 (494)
Q Consensus       139 ~a~~~~g~~~~~~~~~~~A~~~--~~~al~l~p~~  171 (494)
                      +.++.+|..+...|++++|++.  |.-+..+++.|
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            4677789999999999999999  54777776654

; PDB: 3KS2_O 3GZ2_A 3GZ1_A 3GYZ_A 4AM9_A 2VGX_A 2VGY_A.

>PLN03077 Protein ECB2; Provisional

Probab=84.21  E-value=3.9  Score=46.57  Aligned_cols=97  Identities=11%  Similarity=-0.010  Sum_probs=63.6

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhcc--CCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNI--KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      ..|......+.+.|+.++|+..|++..+.  .|+.. .|..+-.++.+.|.+                       ++|.+
T Consensus       555 ~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~-T~~~ll~a~~~~g~v-----------------------~ea~~  610 (857)
T PLN03077        555 VSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEV-TFISLLCACSRSGMV-----------------------TQGLE  610 (857)
T ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcc-cHHHHHHHHhhcChH-----------------------HHHHH
Confidence            34555566677778888888888877653  45433 344444556667777                       77777


Q ss_pred             HHHHHhhc---cccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCC
Q 011050          126 DAEKLLNL---QSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF  170 (494)
Q Consensus       126 ~~~~al~l---~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~  170 (494)
                      .++...+.   .| +...|.-+..+|...|++++|.+.+++. .+.|+
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            77776632   34 3356777777888888888888877765 24454

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=84.17  E-value=1.3  Score=46.27  Aligned_cols=91  Identities=15%  Similarity=0.001  Sum_probs=76.8

Q ss_pred             HhcChHHHHHHHHHHhccCCCC--cccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhcccc
Q 011050           59 RESNFEEAISNYSRANNIKPGD--PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSN  136 (494)
Q Consensus        59 ~~~~~~~Ai~~y~~al~~~p~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~  136 (494)
                      -+|+.-+|+.||..|+...|..  ..++..+|.++.+.|..                       .+|--.+..|++-.|.
T Consensus       225 ~~G~~~~A~~Ca~~a~hf~~~h~kdi~lLSlaTiL~RaG~s-----------------------adA~iILhAA~~dA~~  281 (886)
T KOG4507|consen  225 IKGEPYQAVECAMRALHFSSRHNKDIALLSLATVLHRAGFS-----------------------ADAAVILHAALDDADF  281 (886)
T ss_pred             HcCChhhhhHHHHHHhhhCCcccccchhhhHHHHHHHcccc-----------------------cchhheeehhccCCcc
Confidence            4599999999999999997753  47778889999999987                       5555556777777777


Q ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCc
Q 011050          137 SMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (494)
Q Consensus       137 ~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~  172 (494)
                      ...-||.+|++|..+|.|-...-.|..+.+.+|...
T Consensus       282 ~t~n~y~l~~i~aml~~~N~S~~~ydha~k~~p~f~  317 (886)
T KOG4507|consen  282 FTSNYYTLGNIYAMLGEYNHSVLCYDHALQARPGFE  317 (886)
T ss_pred             ccccceeHHHHHHHHhhhhhhhhhhhhhhccCcchh
Confidence            777799999999999999999999999999999654

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=84.09  E-value=1.6  Score=28.10  Aligned_cols=30  Identities=23%  Similarity=0.192  Sum_probs=25.7

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhcc
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNI   76 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~   76 (494)
                      +..+...|..+...|+|++|...+.+++.+
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            456778899999999999999999999875

>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]

Probab=83.77  E-value=0.52  Score=45.00  Aligned_cols=41  Identities=29%  Similarity=0.643  Sum_probs=29.2

Q ss_pred             cccccccccc-CcEEcCCCCcccHhhHHHhccCCCCCCCCCccc
Q 011050          204 DCTLCLKLLY-EPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (494)
Q Consensus       204 ~C~iC~~~~~-~Pv~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~  246 (494)
                      .|.-|...+. .-.+++|.|.||..|....  ..+.||.|--.+
T Consensus        92 fCd~Cd~PI~IYGRmIPCkHvFCl~CAr~~--~dK~Cp~C~d~V  133 (389)
T KOG2932|consen   92 FCDRCDFPIAIYGRMIPCKHVFCLECARSD--SDKICPLCDDRV  133 (389)
T ss_pred             eecccCCcceeeecccccchhhhhhhhhcC--ccccCcCcccHH
Confidence            4777775433 3346899999999997543  346899997654

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=83.64  E-value=1.6  Score=42.20  Aligned_cols=63  Identities=17%  Similarity=0.134  Sum_probs=56.7

Q ss_pred             ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHH
Q 011050           82 IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAI  161 (494)
Q Consensus        82 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~  161 (494)
                      .++..++..+...+++                       +.+....+..+.++|.+-.+|.++-.+|+..|+...|+..|
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            5666777788888888                       99999999999999999999999999999999999999999


Q ss_pred             HccccC
Q 011050          162 LSGLQV  167 (494)
Q Consensus       162 ~~al~l  167 (494)
                      .+.-++
T Consensus       211 ~~l~~~  216 (280)
T COG3629         211 RQLKKT  216 (280)
T ss_pred             HHHHHH
Confidence            988664

>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=83.51  E-value=1.5  Score=28.50  Aligned_cols=28  Identities=32%  Similarity=0.478  Sum_probs=25.1

Q ss_pred             HHHHHHHHHHHhcChHHHHHHHHHHhcc
Q 011050           49 DLVQKGNRAFRESNFEEAISNYSRANNI   76 (494)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~   76 (494)
                      -+...|...+..++|.+|+..|.+++++
T Consensus         3 v~~~Lgeisle~e~f~qA~~D~~~aL~i   30 (38)
T PF10516_consen    3 VYDLLGEISLENENFEQAIEDYEKALEI   30 (38)
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            4567899999999999999999999986

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 [].

>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]

Probab=83.41  E-value=0.52  Score=50.46  Aligned_cols=46  Identities=28%  Similarity=0.763  Sum_probs=39.0

Q ss_pred             cccccccccccccCcEEcCCCCcccHhhHHHhccC---CCCCCCCCccc
Q 011050          201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR---GNKCPLCRAVL  246 (494)
Q Consensus       201 ~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~---~~~CP~Cr~~~  246 (494)
                      ..++|++|...++.|+.+.|-|.||..|+...+..   ...||+|+...
T Consensus        20 k~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~   68 (684)
T KOG4362|consen   20 KILECPICLEHVKEPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDI   68 (684)
T ss_pred             hhccCCceeEEeeccchhhhhHHHHhhhhhceeeccCccccchhhhhhh
Confidence            47789999999999999999999999999876542   34699999765

>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO)

Probab=83.24  E-value=1.4  Score=29.43  Aligned_cols=38  Identities=21%  Similarity=0.643  Sum_probs=22.9

Q ss_pred             cccccccccCcEEc---CCCCcccHhhHHHhccCCC--CCCCC
Q 011050          205 CTLCLKLLYEPITT---PCGHSFCRSCLFQSMDRGN--KCPLC  242 (494)
Q Consensus       205 C~iC~~~~~~Pv~~---~cgh~fc~~Cl~~~~~~~~--~CP~C  242 (494)
                      |.+|.++....+.=   .|+-.++..|+...+....  .||.|
T Consensus         1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            67788887777653   5999999999999887544  69987

; PDB: 3NW0_A 2CT0_A.

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=82.49  E-value=2.7  Score=40.48  Aligned_cols=72  Identities=17%  Similarity=0.083  Sum_probs=53.2

Q ss_pred             ccCCCccceeccCCCCCchhhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhh
Q 011050           23 IDDVDDYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF   97 (494)
Q Consensus        23 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~   97 (494)
                      ..+-++|+|+.....-+..   -..+-+...+..+...|.|.+|+..-++++.++|-+...+..+-+.+..+|+-
T Consensus       258 yl~e~~y~Waedererle~---ly~kllgkva~~yle~g~~neAi~l~qr~ltldpL~e~~nk~lm~~la~~gD~  329 (361)
T COG3947         258 YLPEADYPWAEDERERLEQ---LYMKLLGKVARAYLEAGKPNEAIQLHQRALTLDPLSEQDNKGLMASLATLGDE  329 (361)
T ss_pred             cCCccccccccchHHHHHH---HHHHHHHHHHHHHHHcCChHHHHHHHHHHhhcChhhhHHHHHHHHHHHHhccc
Confidence            3455677787654331111   11223445677788899999999999999999999999999888889998885

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=80.87  E-value=15  Score=31.91  Aligned_cols=97  Identities=13%  Similarity=-0.033  Sum_probs=76.8

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      +..+.+........++..++-......--+.|+.+.+-.--+..++..|+|                       .+|++.
T Consensus        10 v~gLi~~~~~aL~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l~i~rg~w-----------------------~eA~rv   66 (153)
T TIGR02561        10 LGGLIEVLMYALRSADPYDAQAMLDALRVLRPNLKELDMFDGWLLIARGNY-----------------------DEAARI   66 (153)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCccccchhHHHHHHHcCCH-----------------------HHHHHH
Confidence            445555666666688999988888888888999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccC
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQV  167 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l  167 (494)
                      ++...+-.+..+.+--.++.|+..+|+.+ ...+..+++.-
T Consensus        67 lr~l~~~~~~~p~~kAL~A~CL~al~Dp~-Wr~~A~~~le~  106 (153)
T TIGR02561        67 LRELLSSAGAPPYGKALLALCLNAKGDAE-WHVHADEVLAR  106 (153)
T ss_pred             HHhhhccCCCchHHHHHHHHHHHhcCChH-HHHHHHHHHHh
Confidence            99999988888888888889998888653 33334444443

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=80.46  E-value=4.5  Score=41.25  Aligned_cols=36  Identities=25%  Similarity=0.704  Sum_probs=26.3

Q ss_pred             CCccccccccc-ccccCcE---EcCCCCcccHhhHHHhcc
Q 011050          199 RTDDFDCTLCL-KLLYEPI---TTPCGHSFCRSCLFQSMD  234 (494)
Q Consensus       199 ~~~~~~C~iC~-~~~~~Pv---~~~cgh~fc~~Cl~~~~~  234 (494)
                      .....+|.+|. +.....-   ...|||.||..|+.++..
T Consensus       143 ~~~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~ie  182 (384)
T KOG1812|consen  143 KLPKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIE  182 (384)
T ss_pred             ccccccCccCccccccHhhhHHHhcccchhhhHHhHHHhh
Confidence            34577899999 4433323   346999999999998765

>KOG0546 consensus HSP90 co-chaperone CPR7/Cyclophilin [Posttranslational modification, protein turnover, chaperones]

Probab=80.23  E-value=1.7  Score=42.88  Aligned_cols=71  Identities=15%  Similarity=0.058  Sum_probs=57.2

Q ss_pred             HHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhc
Q 011050           54 GNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNL  133 (494)
Q Consensus        54 g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l  133 (494)
                      +...++.+++..|+..-..+++.++....+|+.|++++..+.++                       ++|+++...+.+.
T Consensus       282 ~~~~lk~~~~~~a~~~~~~~~~~~~s~tka~~Rr~~~~~~~~~~-----------------------~~a~~~~~~a~~~  338 (372)
T KOG0546|consen  282 AAVGLKVKGRGGARFRTNEALRDERSKTKAHYRRGQAYKLLKNY-----------------------DEALEDLKKAKQK  338 (372)
T ss_pred             HHhcccccCCCcceeccccccccChhhCcHHHHHHhHHHhhhch-----------------------hhhHHHHHHhhcc
Confidence            34445666777777777777888888999999999999999999                       9999999999999


Q ss_pred             cccchHHHHHHHHH
Q 011050          134 QSNSMKSHLLKANA  147 (494)
Q Consensus       134 ~p~~~~a~~~~g~~  147 (494)
                      .|++....-.+..+
T Consensus       339 ~p~d~~i~~~~~~~  352 (372)
T KOG0546|consen  339 APNDKAIEEELENV  352 (372)
T ss_pred             CcchHHHHHHHHHh
Confidence            99886654444333

>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=80.23  E-value=1.1  Score=31.06  Aligned_cols=41  Identities=24%  Similarity=0.615  Sum_probs=21.4

Q ss_pred             cccccccccccCcEE-cCCCCcccHhhHHHhcc-----CCCCCCCCCc
Q 011050          203 FDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMD-----RGNKCPLCRA  244 (494)
Q Consensus       203 ~~C~iC~~~~~~Pv~-~~cgh~fc~~Cl~~~~~-----~~~~CP~Cr~  244 (494)
                      +.|++....+..|+. ..|.|.-|-+= ..++.     ....||.|++
T Consensus         3 L~CPls~~~i~~P~Rg~~C~H~~CFDl-~~fl~~~~~~~~W~CPiC~~   49 (50)
T PF02891_consen    3 LRCPLSFQRIRIPVRGKNCKHLQCFDL-ESFLESNQRTPKWKCPICNK   49 (50)
T ss_dssp             SB-TTTSSB-SSEEEETT--SS--EEH-HHHHHHHHHS---B-TTT--
T ss_pred             eeCCCCCCEEEeCccCCcCcccceECH-HHHHHHhhccCCeECcCCcC
Confidence            679999999999986 59999977442 22222     3457999986

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 entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.

>PF04212 MIT: MIT (microtubule interacting and transport) domain; InterPro: IPR007330 The MIT domain is found in vacuolar sorting proteins, spastin (probable ATPase involved in the assembly or function of nuclear protein complexes), and a sorting nexin, which may play a role in intracellular trafficking

Probab=80.20  E-value=3.2  Score=30.82  Aligned_cols=32  Identities=28%  Similarity=0.420  Sum_probs=28.7

Q ss_pred             HHHHHHHHHHHHHHHhcChHHHHHHHHHHhcc
Q 011050           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNI   76 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~   76 (494)
                      ..+..+..+|..+=+.|+|++|+.+|.+|++.
T Consensus         3 ~~A~~~~~~Av~~D~~g~~~~A~~~Y~~ai~~   34 (69)
T PF04212_consen    3 DKAIELIKKAVEADEAGNYEEALELYKEAIEY   34 (69)
T ss_dssp             HHHHHHHHHHHHHHHTTSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            46778889999999999999999999999884

; PDB: 2DL1_A 2JQK_A 1WR0_A 2CPT_A 2JQH_A 2V6Y_A 2JQ9_A 2K3W_A 1YXR_A 3EAB_E ....

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=80.13  E-value=7.3  Score=40.42  Aligned_cols=59  Identities=15%  Similarity=0.107  Sum_probs=50.9

Q ss_pred             cccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhcccc--chHHHHHHHHHHHHHHHHHHHHHH
Q 011050           83 VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSN--SMKSHLLKANALILLERYDMARDA  160 (494)
Q Consensus        83 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~--~~~a~~~~g~~~~~~~~~~~A~~~  160 (494)
                      +-.++|+|.-++|+.                       ++|++.++..++.+|.  +...++++-.+|..++.|.++...
T Consensus       261 ~KrRLAmCarklGr~-----------------------~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~l  317 (539)
T PF04184_consen  261 AKRRLAMCARKLGRL-----------------------REAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQAL  317 (539)
T ss_pred             hHHHHHHHHHHhCCh-----------------------HHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHH
Confidence            344578999999999                       9999999999988774  566899999999999999999988


Q ss_pred             HHcc
Q 011050          161 ILSG  164 (494)
Q Consensus       161 ~~~a  164 (494)
                      +.+.
T Consensus       318 L~kY  321 (539)
T PF04184_consen  318 LAKY  321 (539)
T ss_pred             HHHh
Confidence            8875

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=80.06  E-value=8.4  Score=39.44  Aligned_cols=81  Identities=15%  Similarity=0.174  Sum_probs=64.4

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      .......|.-+|..|+|.++..+-.-..+++| .+.+|.-+|.|.+...+|                       .+|...
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            55677889999999999999999999999999 899999999999999999                       899765


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHH
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLE  152 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~  152 (494)
                      +.+. -.+.+-..+....|.+++...
T Consensus       518 l~~L-P~n~~~~dskvqKAl~lCqKh  542 (549)
T PF07079_consen  518 LQKL-PPNERMRDSKVQKALALCQKH  542 (549)
T ss_pred             HHhC-CCchhhHHHHHHHHHHHHHHh
Confidence            5543 224444556666676666543

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	494
3l11_A	115	Crystal Structure Of The Ring Domain Of Rnf168 Leng		2e-08
3hct_A	118	Crystal Structure Of Traf6 In Complex With Ubc13 In		2e-07
2jmd_A	63	Solution Structure Of The Ring Domain Of Human Traf		2e-07
2eci_A	86	Solution Structure Of The Ring Domain Of The Human		7e-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		4e-06
2ecv_A	85	Solution Structure Of The Zinc Finger, C3hc4 Type (		5e-06
2ecw_A	85	Solution Structure Of The Zinc Finger, C3hc4 Type (		6e-06
4epo_C	149	Crystal Structure Of Rnf8 Bound To The Ubc13MMS2 HE		7e-06
2egp_A	79	Solution Structure Of The Ring-Finger Domain From H		8e-06
4ayc_B	138	Rnf8 Ring Domain Structure Length = 138		8e-06
4ayc_A	138	Rnf8 Ring Domain Structure Length = 138		8e-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		2e-05
2ysl_A	73	Solution Structure Of The Ring Domain (1-66) From T		4e-05
3rpg_C	121	Bmi1RING1B-Ubch5c Complex Structure Length = 121		6e-05
2ysj_A	63	Solution Structure Of The Ring Domain (1-56) From T		6e-05
1rmd_A	116	Rag1 Dimerization Domain Length = 116		1e-04
1z6u_A	150	Np95-Like Ring Finger Protein Isoform B [homo Sapie		2e-04
3fl2_A	124	Crystal Structure Of The Ring Domain Of The E3 Ubiq		3e-04
1elw_A	118	Crystal Structure Of The Tpr1 Domain Of Hop In Comp		4e-04
2d8t_A	71	Solution Structure Of The Ring Domain Of The Human		4e-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|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|2JMD|A Chain A, Solution Structure Of The Ring Domain Of Human Traf6 Length = 63

Iteration: 1
 Score = 53.5 bits (127), 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|2ECI|A Chain A, Solution Structure Of The Ring Domain Of The Human Tnf Receptor-Associated Factor 6 Protein Length = 86

Iteration: 1
 Score = 52.4 bits (124), Expect = 7e-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 = 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|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain Heterodimer Length = 112

Iteration: 1
 Score = 49.7 bits (117), Expect = 4e-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 = 49.3 bits (116), Expect = 5e-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 = 6e-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|4EPO|C Chain C, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2 HETERODIMER Length = 149

Iteration: 1
 Score = 48.5 bits (114), Expect = 7e-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|2EGP|A Chain A, Solution Structure Of The Ring-Finger Domain From Human Tripartite Motif Protein 34 Length = 79

Iteration: 1
 Score = 48.5 bits (114), Expect = 8e-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|4AYC|B Chain B, 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 NXINKMVNNLSSEVKERR 125

>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|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 = 2e-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 = 46.2 bits (108), Expect = 4e-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|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|2YSJ|A Chain A, Solution Structure Of The Ring Domain (1-56) From Tripartite Motif-containing Protein 31 Length = 63

Iteration: 1
 Score = 45.4 bits (106), Expect = 6e-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|1RMD|A Chain A, Rag1 Dimerization Domain Length = 116

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-04,   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 = 43.9 bits (102), Expect = 2e-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|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 = 3e-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|2D8T|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring Finger Protein 146 Length = 71

Iteration: 1
 Score = 43.1 bits (100), Expect = 4e-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

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	494
1zbo_A	210	Hypothetical protein BPP1347; alpha-beta protein,	2e-34
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	1e-25
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	3e-23
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	1e-22
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	3e-22
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	4e-22
1z6u_A	150	NP95-like ring finger protein isoform B; structura	7e-22
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	7e-21
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	9e-21
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	2e-20
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	5e-20
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	1e-19
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	2e-19
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	7e-19
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	2e-18
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	5e-18
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	1e-17
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	2e-17
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	5e-17
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	8e-17
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	1e-16
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	3e-16
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	7e-16
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	1e-15
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	2e-14
2l6j_A	111	TPR repeat-containing protein associated with HSP;	2e-14
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	3e-14
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	5e-14
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	5e-14
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	5e-14
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	8e-14
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	1e-13
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	3e-13
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	3e-13
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	3e-13
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	4e-13
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	6e-13
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	6e-13
2gw1_A	514	Mitochondrial precursor proteins import receptor;	9e-13
2gw1_A	514	Mitochondrial precursor proteins import receptor;	4e-08
2gw1_A	514	Mitochondrial precursor proteins import receptor;	1e-05
2gw1_A	514	Mitochondrial precursor proteins import receptor;	4e-05
2gw1_A	514	Mitochondrial precursor proteins import receptor;	4e-04
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	9e-13
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	9e-13
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	1e-12
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	2e-12
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	1e-09
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	3e-09
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	4e-08
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	3e-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
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	3e-12
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	7e-09
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	1e-08
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	3e-05
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	4e-12
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	7e-12
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	2e-11
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	4e-11
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	5e-11
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	4e-06
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	1e-10
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	1e-10
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	4e-10
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	5e-10
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	1e-09
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	1e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-04
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	9e-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	2e-04
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	2e-04
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	2e-07
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	1e-06
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	6e-06
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	6e-05
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	4e-04
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	5e-04
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	3e-07
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	2e-06
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	4e-07
2kat_A	115	Uncharacterized protein; NESG, structure, structur	6e-07
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
4g1t_A	472	Interferon-induced protein with tetratricopeptide	2e-06
4g1t_A	472	Interferon-induced protein with tetratricopeptide	5e-04
3u4t_A	272	TPR repeat-containing protein; structural genomics	5e-06
3u4t_A	272	TPR repeat-containing protein; structural genomics	6e-06
3u4t_A	272	TPR repeat-containing protein; structural genomics	1e-05
3ugm_A	1047	TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xan	5e-06
3ugm_A	1047	TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xan	5e-05
3ugm_A	1047	TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xan	3e-04
3ugm_A	1047	TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xan	6e-04
3ugm_A	1047	TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xan	7e-04
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	7e-06
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	1e-05
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	2e-05
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	2e-05
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	2e-05
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	2e-05
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	3e-05
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	4e-05
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	6e-05
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	9e-05
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	6e-04
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
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	5e-05
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	5e-05
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	5e-05
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	7e-05
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
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	8e-05
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	6e-04
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	9e-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
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	2e-04
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	2e-04
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	3e-04
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	4e-04
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	3e-04
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	3e-04
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	3e-04
3tax_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	3e-04
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	4e-04
2ea5_A	68	Cell growth regulator with ring finger domain prot	5e-04
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	5e-04
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	7e-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 =  127 bits (320), Expect = 2e-34
 Identities = 43/209 (20%), Positives = 72/209 (34%), Gaps = 23/209 (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 RRPSERLELLRIRDTRERIRRGLIFLRAE 487
             P+++  LL +    +R+R     L A+
Sbjct: 172 LPPADKARLLLL-PPLDRLREIDAVLAAD 199

>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 =  100 bits (250), Expect = 1e-25
 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 = 93.9 bits (233), Expect = 3e-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 = 1e-22
 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 = 92.0 bits (228), Expect = 3e-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 = 4e-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 = 90.8 bits (225), Expect = 7e-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 = 87.3 bits (217), Expect = 7e-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 = 9e-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 = 86.6 bits (215), Expect = 2e-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 = 1e-19
 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 = 2e-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 = 2e-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 = 80.4 bits (198), Expect = 5e-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 = 77.2 bits (190), Expect = 1e-17
 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 = 74.4 bits (183), Expect = 5e-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 = 74.0 bits (182), Expect = 8e-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 = 1e-16
 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 = 73.6 bits (181), Expect = 3e-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 = 73.1 bits (180), Expect = 7e-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 = 72.7 bits (179), 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 = 67.4 bits (165), Expect = 2e-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 = 68.3 bits (167), Expect = 3e-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

>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 = 5e-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

>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 = 66.0 bits (161), Expect = 5e-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

>2ea6_A Ring finger protein 4; RNF4, RES4-26, ring domain, zinc- binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 69

 Score = 65.7 bits (160), Expect = 5e-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 = 66.9 bits (163), Expect = 8e-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 = 65.0 bits (159), Expect = 1e-13
 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 = 63.6 bits (155), Expect = 3e-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 = 64.3 bits (157), Expect = 3e-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

>2ecv_A Tripartite motif-containing protein 5; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 85

 Score = 64.2 bits (157), Expect = 3e-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

>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 = 66.6 bits (162), Expect = 4e-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

>2ecj_A Tripartite motif-containing protein 39; TRIM39, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 58

 Score = 62.3 bits (152), Expect = 6e-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

>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 = 65.1 bits (158), Expect = 6e-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

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae} Length = 514

 Score = 69.4 bits (170), Expect = 9e-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 = 4e-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 = 4e-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 = 4e-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

>3ztg_A E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mRNA processing, mRNA splicing; NMR {Homo sapiens} Length = 92

 Score = 63.2 bits (154), Expect = 9e-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 = 62.5 bits (152), Expect = 9e-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

>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 = 65.6 bits (160), 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 = 68.2 bits (167), Expect = 2e-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 = 1e-09
 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 = 57.8 bits (140), 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 = 54.3 bits (131), Expect = 4e-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

>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 = 3e-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

>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 = 66.9 bits (164), Expect = 3e-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 = 7e-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 = 55.7 bits (135), Expect = 1e-08
 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 = 55.0 bits (133), 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 = 3e-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

>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 = 61.4 bits (149), Expect = 4e-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 = 60.5 bits (147), Expect = 7e-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 = 57.8 bits (140), 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 = 59.2 bits (143), Expect = 4e-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 = 59.4 bits (143), Expect = 5e-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 = 45.5 bits (107), Expect = 4e-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 = 1e-10
 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 = 1e-10
 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 = 55.5 bits (134), 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 = 57.4 bits (139), Expect = 4e-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 = 54.3 bits (131), Expect = 5e-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 = 58.8 bits (142), Expect = 1e-09
 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 = 50.3 bits (120), 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

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 56.4 bits (135), Expect = 2e-08
 Identities = 86/541 (15%), Positives = 159/541 (29%), Gaps = 136/541 (25%)

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--HPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLE-KLL 434
            Y      +   I  H + +E   +   L      +  ++L         D R LE K+ 
Sbjct: 471 QY------FYSHIGHHLKNIE-HPERMTL------FRMVFL---------DFRFLEQKIR 508

Query: 435 NVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRD---TRERIRRGLI-FLRAEEQG 490
           +       S         L TL   +  +      I D     ER+   ++ FL   E+ 
Sbjct: 509 HDSTAWNASGSI------LNTLQQLKFYKP----YICDNDPKYERLVNAILDFLPKIEEN 558

Query: 491 C 491
            
Sbjct: 559 L 559

>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 = 41.4 bits (96), Expect = 7e-04
 Identities = 38/244 (15%), Positives = 74/244 (30%), Gaps = 93/244 (38%)

Query: 338 VADFAC-EVE------IT--ECEPL---PDGRFVLEIESRRRFRILRSWDQDGYR--VAE 383
           V +F C +V+      ++  E + +    D        + R F  L S  ++  +  V E
Sbjct: 30  VDNFDCKDVQDMPKSILSKEEIDHIIMSKDA----VSGTLRLFWTLLSKQEEMVQKFVEE 85

Query: 384 I-----EWV------QDIHPEGVEDR--ADLQDLTNNAAEYARLWLRREKESARQDRRRL 430
           +     +++      +   P  +          L N+   +A+  + R +    + R+ L
Sbjct: 86  VLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQP-YLKLRQAL 144

Query: 431 EKL---LNVEVM-MPPS----------QDPE---RFS---FWLATLSDRRPSERLELL-- 468
            +L    NV +  +  S             +   +     FWL   +   P   LE+L  
Sbjct: 145 LELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQK 204

Query: 469 ---------------------RIRDTRERIRR---------GLIFLR---------AEEQ 489
                                RI   +  +RR          L+ L          A   
Sbjct: 205 LLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNL 264

Query: 490 GCRL 493
            C++
Sbjct: 265 SCKI 268

>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 = 9e-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 = 2e-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 = 52.2 bits (126), Expect = 2e-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 = 6e-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 = 4e-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 = 5e-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

>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

>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 = 48.6 bits (116), Expect = 4e-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

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis} Length = 115

 Score = 46.9 bits (112), Expect = 6e-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

>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

>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 = 41.5 bits (97), Expect = 5e-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

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii} Length = 272

 Score = 47.3 bits (113), 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 = 46.9 bits (112), Expect = 6e-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

>3ugm_A TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xanthomonas oryzae} Length = 1047

 Score = 48.1 bits (114), Expect = 5e-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 = 45.0 bits (106), Expect = 5e-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 = 42.7 bits (100), Expect = 3e-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 = 41.6 bits (97), Expect = 6e-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 = 41.2 bits (96), Expect = 7e-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

>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 = 7e-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 = 1e-05
 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

>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

>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 = 44.5 bits (105), Expect = 2e-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

>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

>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

>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 = 45.1 bits (107), Expect = 4e-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 = 44.4 bits (105), Expect = 6e-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 = 44.0 bits (104), Expect = 9e-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 = 41.3 bits (97), Expect = 6e-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

>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

>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 = 44.8 bits (106), Expect = 5e-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

>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 = 44.4 bits (105), Expect = 5e-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

>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 = 40.2 bits (94), Expect = 5e-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

>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 = 7e-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

>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

>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 = 8e-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

>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 = 39.9 bits (93), Expect = 9e-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

>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

>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 = 38.5 bits (90), 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

>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 = 38.3 bits (89), 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

>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 = 3e-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 = 3e-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

>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

>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

>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 = 42.1 bits (98), 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 = 38.7 bits (89), Expect = 4e-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 = 37.5 bits (87), Expect = 5e-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 = 7e-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	494
3m65_A	209	ATP-dependent protease LA 1; coiled-coil, ATP-bind	100.0
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,	99.83
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.78
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	99.72
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	99.68
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	99.65
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	99.64
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	99.6
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.6
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	99.58
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	99.56
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	99.56
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.53
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.51
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	99.5
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	99.48
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.48
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.47
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	99.46
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	99.46
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.46
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	99.46
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	99.46
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	99.45
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.44
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	99.43
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.42
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	99.42
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.41
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.4
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	99.39
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.39
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.39
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.38
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	99.38
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	99.37
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.37
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.37
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	99.36
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.35
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.35
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	99.34
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.33
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.33
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.33
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.32
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.29
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.29
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.28
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.27
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.27
3k9i_A	117	BH0479 protein; putative protein binding protein,	99.26
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.26
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.25
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	99.25
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.25
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	99.24
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.24
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	99.22
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	99.22
2l6j_A	111	TPR repeat-containing protein associated with HSP;	99.2
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.2
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	99.19
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.18
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.17
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.17
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.16
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.15
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.15
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.15
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.14
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.14
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.14
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.14
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.13
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.12
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.11
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.11
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.1
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.1
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.09
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.09
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.09
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.09
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.09
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.07
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.07
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.06
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	99.05
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.05
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.05
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.04
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.04
2kat_A	115	Uncharacterized protein; NESG, structure, structur	99.04
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.03
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.03
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.03
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.02
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.02
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.02
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.01
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.01
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.01
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.01
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	99.0
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.0
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	98.99
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	98.99
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	98.99
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.98
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	98.97
3u4t_A	272	TPR repeat-containing protein; structural genomics	98.97
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	98.97
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	98.96
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	98.96
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	98.96
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.96
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	98.96
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	98.95
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	98.95
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	98.95
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	98.95
2ect_A	78	Ring finger protein 126; metal binding protein, st	98.94
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	98.94
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.94
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.94
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	98.94
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	98.93
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	98.93
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	98.92
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	98.92
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.92
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	98.92
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	98.91
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	98.91
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	98.91
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.91
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	98.9
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	98.89
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	98.89
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.88
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.88
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	98.88
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.87
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	98.87
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.86
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	98.85
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	98.84
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	98.84
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.83
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.83
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	98.82
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.81
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.8
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	98.79
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.77
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.76
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	98.76
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.75
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.74
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.73
4g1t_A	472	Interferon-induced protein with tetratricopeptide	98.72
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	98.72
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	98.71
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.7
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	98.7
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.7
2gw1_A	514	Mitochondrial precursor proteins import receptor;	98.68
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.68
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.68
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.67
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	98.66
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	98.66
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.66
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.65
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.65
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.64
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.64
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.63
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.62
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.62
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.62
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.62
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.62
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	98.62
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.61
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.61
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	98.61
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.61
1pc2_A	152	Mitochondria fission protein; unknown function; NM	98.61
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.59
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.59
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	98.58
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.57
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.56
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.56
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	98.56
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.55
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.55
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	98.54
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.54
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.51
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.51
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.5
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	98.5
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.5
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.5
4g1t_A	472	Interferon-induced protein with tetratricopeptide	98.49
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.49
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.49
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.48
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.47
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.47
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.45
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.45
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.45
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.45
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	98.44
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.43
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.43
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.42
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	98.42
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	98.41
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.4
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.4
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.39
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.38
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	98.38
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.37
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.37
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.36
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	98.35
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.35
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.34
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.31
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.31
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.29
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	98.28
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	98.27
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.27
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.26
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	98.26
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.24
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	98.23
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	98.23
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	98.21
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	98.21
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	98.2
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	98.19
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.18
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	98.17
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	98.15
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.13
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	98.13
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	98.13
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.12
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.08
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	98.07
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	97.97
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	97.94
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.93
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	97.9
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	97.82
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.72
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	97.7
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.68
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.67
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.53
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	97.53
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	97.47
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	97.41
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	97.41
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	97.38
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	97.36
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.35
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	97.29
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	97.27
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	97.25
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.18
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.16
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	97.16
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	97.09
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.06
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	97.05
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	97.05
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.93
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	96.92
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	96.73
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	96.65
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.25
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.03
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	95.85
3mv2_A	325	Coatomer subunit alpha; vesicular membrane coat CO	95.63
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.45
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	95.35
3mkr_B	320	Coatomer subunit alpha; tetratricopeptide repeats	95.22
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	94.68
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	94.45
3nw0_A	238	Non-structural maintenance of chromosomes element	94.08
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	94.05
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	93.47
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	93.36
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	93.32
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	93.03
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	91.67
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	90.19
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	88.59
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	86.16
2w2u_A	83	Hypothetical P60 katanin; hydrolase transport comp	84.21
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	84.13
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	83.95
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	82.19
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	80.84

>3m65_A ATP-dependent protease LA 1; coiled-coil, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; 2.60A {Bacillus subtilis}

Probab=100.00  E-value=4.8e-33  Score=258.33  Aligned_cols=193  Identities=13%  Similarity=0.268  Sum_probs=167.6

Q ss_pred             ccccceee--eccCCCccCccccchhHHHHHHHHHhCCceEEEEEeCCC------CCccccccceEEEEEeeecCCceEE
Q 011050          288 LMPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPT------TGSVADFACEVEITECEPLPDGRFV  359 (494)
Q Consensus       288 ~lPl~~l~--v~fP~~~~pl~i~~~~~~~~~~~~~~~~~~~~v~~~~~~------~~~~~~iG~~~~I~~~~~~~dg~~~  359 (494)
                      .+|+||++  |+|||+++||+||+++|+.|+++++++++.||++++.+.      .+++|.|||+|+|.++.+++||++.
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            49999995  999999999999999999999999999999999998532      2478999999999999999999999


Q ss_pred             EEEEeccceEEeeeecCCCeeEEEEEEecCCCCCCcccHHhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHhhhhcC
Q 011050          360 LEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVM  439 (494)
Q Consensus       360 v~~~g~~R~~i~~~~~~~~~~~a~ve~l~d~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  439 (494)
                      |.++|.+||+|.++.+.+||+.|+|+++++...+    ..+.+++.+.+.+.+.+|.......+.       ++...   
T Consensus        88 v~v~G~~R~ri~~~~~~~~~~~a~v~~~~~~~~~----~~e~~al~~~l~~~~~~~~~~~~~~~~-------e~~~~---  153 (209)
T 3m65_A           88 VLVEGLKRAHIVKYNEHEDYTSVDIQLIHEDDSK----DTEDEALMRTLLDHFDQYIKISKKISA-------ETYAA---  153 (209)
T ss_dssp             EEEEEEEEEEEEEEEECSSSEEEEEEECCCC--C----CSHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHH---
T ss_pred             EEEEEEEEEEEEEEEcCCCcEEEEEEEecCCCCC----CHHHHHHHHHHHHHHHHHHHhCCCCCH-------HHHHH---
Confidence            9999999999999999999999999999885432    235678888899988888876655543       22222   


Q ss_pred             CCCCCCcchhHHHHHhcCCCChHHHhhhccCCCHHHHHHHHHHHHHhhhccccCC
Q 011050          440 MPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAEEQGCRLQ  494 (494)
Q Consensus       440 ~~~~~~~~~l~~~ia~~l~l~~~~kq~LLe~~d~~~Rl~~l~~~L~~~~~~~~~~  494 (494)
                      +.+.+||++|+|++|++++++.++||+|||+.|+.+|+++++.+|++|++...+|
T Consensus       154 ~~~~~dp~~lad~ia~~l~l~~~ekQ~lLe~~d~~~Rl~~l~~~L~~E~e~~~l~  208 (209)
T 3m65_A          154 VTDIEEPGRMADIVASHLPLKLKDKQDILETADVKDRLNKVIDFINNEKEVLEIE  208 (209)
T ss_dssp             HHTCCCHHHHHHHHHHHSCCCHHHHHHHHTCCSHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHccCCHHHHHHHHHHhCCCCHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhhc
Confidence            2357999999999999999999999999999999999999999999999876654

>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=7.8e-32  Score=257.13  Aligned_cols=192  Identities=17%  Similarity=0.242  Sum_probs=166.3

Q ss_pred             ccccceee--eccCCCccCccccchhHHHHHHHHHhCCceEEEEEeCC------CCCccccccceEEEEEeeecCCceEE
Q 011050          288 LMPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDP------TTGSVADFACEVEITECEPLPDGRFV  359 (494)
Q Consensus       288 ~lPl~~l~--v~fP~~~~pl~i~~~~~~~~~~~~~~~~~~~~v~~~~~------~~~~~~~iG~~~~I~~~~~~~dg~~~  359 (494)
                      .+|+||++  |+|||+++||+||+++|+.|+++|+++++.||++++.+      ..+++|.|||+|+|.++.+++||++.
T Consensus        17 ~lPl~PLr~~VlfPg~~~pL~I~~~r~~~~v~~a~~~~~~~~lv~q~~~~~~~p~~~~l~~vGt~a~I~~~~~lpdG~~~   96 (252)
T 3ljc_A           17 EIPVLPLRDVVVYPHMVIPLFVGREKSIRCLEAAMDHDKKIMLVAQKEASTDEPGVNDLFTVGTVASILQMLKLPDGTVK   96 (252)
T ss_dssp             CCEEEEESSCCCCBTCEEEEEECCTTTHHHHHHHHTTTTEEEEEEBCSSCCSSCCSSSBCSEEEEEEECCCBCCTTSCEE
T ss_pred             ceeEEEeCCccccCCcceEEEECCHHHHHHHHHHHhcCCEEEEEEecCCCcCCCCccchhheeEEEEEEEEEECCCCeEE
Confidence            59999997  99999999999999999999999999999999999853      23579999999999999999999999


Q ss_pred             EEEEeccceEEeeeecCCCeeEEEEEEecCCCCCCcccHHhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHhhhhcC
Q 011050          360 LEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVM  439 (494)
Q Consensus       360 v~~~g~~R~~i~~~~~~~~~~~a~ve~l~d~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  439 (494)
                      |.++|.+||+|.++.+.+||+.|+|+++++.+.+    ..+.+++.+.+.+.+.+|.......+.       ++...   
T Consensus        97 v~v~G~~R~rI~~~~~~~~~~~a~ve~l~d~~~~----~~e~~al~~~l~~~~~~~~~l~~~~~~-------e~~~~---  162 (252)
T 3ljc_A           97 VLVEGLQRARISALSDNGEHFSAKAEYLESPTID----EREQEVLVRTAISQFEGYIKLNKKIPP-------EVLTS---  162 (252)
T ss_dssp             EEEEEEEEEECSEEEEETTEEEEECCCCCCCCSC----HHHHHHHHHHHHHHHHHHHHHHCSSCH-------HHHHH---
T ss_pred             EEEEEEEEEEEEEEEcCCCcEEEEEEeecCCCCC----ChHHHHHHHHHHHHHHHHHHhcccCCH-------HHHHH---
Confidence            9999999999999998999999999999875432    246778888888888888765444332       22222   


Q ss_pred             CCCCCCcchhHHHHHhcCCCChHHHhhhccCCCHHHHHHHHHHHHHhhhccccC
Q 011050          440 MPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAEEQGCRL  493 (494)
Q Consensus       440 ~~~~~~~~~l~~~ia~~l~l~~~~kq~LLe~~d~~~Rl~~l~~~L~~~~~~~~~  493 (494)
                      +...+||++|+|++|+++|++.++||+|||+.|+.+|+++++.+|.++++.-.+
T Consensus       163 ~~~~~dp~~Lad~ia~~l~l~~~eKQ~LLe~~d~~~Rl~~l~~lL~~e~e~~~l  216 (252)
T 3ljc_A          163 LNSIDDPARLADTIAAHMPLKLADKQSVLEMSDVNERLEYLMAMMESEIDLLQV  216 (252)
T ss_dssp             TTSCCCHHHHHHHHHHTSCCCHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHccCCHHHHHHHHHHhCCCCHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHH
Confidence            456899999999999999999999999999999999999999999999876543

>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=1.4e-31  Score=248.59  Aligned_cols=190  Identities=20%  Similarity=0.253  Sum_probs=155.2

Q ss_pred             ccccceee-eccCCCccCccccchhHHHHHHHHHhCCceEEEEEeCCC--------CCccccccceEEEEEeeecCCceE
Q 011050          288 LMPLFVMD-VVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPT--------TGSVADFACEVEITECEPLPDGRF  358 (494)
Q Consensus       288 ~lPl~~l~-v~fP~~~~pl~i~~~~~~~~~~~~~~~~~~~~v~~~~~~--------~~~~~~iG~~~~I~~~~~~~dg~~  358 (494)
                      .+|+||+. |+|||+++||+||+++|+.|+++++++++.||++++++.        .+++|.|||+|+|.++.+++||++
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 999999999999999999999999999999999999642        145899999999999999999999


Q ss_pred             EEEEEeccceEEee-eecCCCeeEEEEEEecCCCCCCcccHHhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHhhhh
Q 011050          359 VLEIESRRRFRILR-SWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVE  437 (494)
Q Consensus       359 ~v~~~g~~R~~i~~-~~~~~~~~~a~ve~l~d~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  437 (494)
                      .|.++|.+||+|.+ +.+.+||+.|+|++++|.+...  ...+.+++.+.+++.+.++..... .+        ....+.
T Consensus        83 ~v~v~G~~R~rI~~~~~~~~~y~~a~ve~l~~~~~~~--~~~e~~al~~~l~~~~~~~~~~~~-~~--------~~~~l~  151 (210)
T 1zbo_A           83 ELACTGTGRFRLHACTQGKYGLWTGQAEPVPDDAPLE--VPPELARSASALGRLIARLQREGV-PP--------HIMPMA  151 (210)
T ss_dssp             EEEEEEEEEEEEEEEEECGGGCEEEEEEEECCCCCCC--CCGGGHHHHHHHHHHHHHHHHTTC-CT--------TTCSBC
T ss_pred             EEEEEEEEEEEEEEEeecCCCcEEEEEEEcCCCCCCC--CcHHHHHHHHHHHHHHHHHHHhcc-cc--------ccccCC
Confidence            99999999999965 6678999999999998853211  124567788888887777665430 00        000111


Q ss_pred             cCCCCCCCcchhHHHHHhcCCCChHHHhhhccCCCHHHHHHHHHHHHHhhhcc
Q 011050          438 VMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAEEQG  490 (494)
Q Consensus       438 ~~~~~~~~~~~l~~~ia~~l~l~~~~kq~LLe~~d~~~Rl~~l~~~L~~~~~~  490 (494)
                       .+.+.+||++|+|++|++++++.++||+|||+ |+.+||++++.+|++++++
T Consensus       152 -~~~~~~dp~~lad~ia~~l~l~~~ekQ~lLe~-d~~~Rl~~l~~~L~~e~~~  202 (210)
T 1zbo_A          152 -APFRLDDCGWVADRWAEMLSLPPADKARLLLL-PPLDRLREIDAVLAADGHA  202 (210)
T ss_dssp             -SCCCTTCHHHHHHHHHHHSCCCHHHHHHHHHS-CHHHHHHHHHHHHHC----
T ss_pred             -CcCCCCCHHHHHHHHHHhCCCCHHHHHHHHhC-CHHHHHHHHHHHHHHHhhh
Confidence             13467899999999999999999999999999 9999999999999998865

>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=1e-28  Score=240.35  Aligned_cols=198  Identities=22%  Similarity=0.334  Sum_probs=164.5

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      .+..+...|+.++..|+|++|+..|++|+..+|+++.+|.++|.+|..+|+|                       ++|+.
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            3678899999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCch-----hHHHHH---------------------
Q 011050          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP-----LQASLQ---------------------  179 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~-----~~~~~~---------------------  179 (494)
                      +++++++++|+++.+++.+|.+|..+|++++|+..|.++++++|+++.     ++..+.                     
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            999999999999999999999999999999999999999999997631     111110                     


Q ss_pred             ----------HHHhhhhhh-----------------------------------hc-cccCCCCCCCccccccccccccc
Q 011050          180 ----------NLERTTASL-----------------------------------IG-RRIHGTPERTDDFDCTLCLKLLY  213 (494)
Q Consensus       180 ----------~~~~~~~~~-----------------------------------~~-~~~~~~~~~~~~~~C~iC~~~~~  213 (494)
                                ..++++...                                   .+ ............+.|+||+++|.
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                                   00 01123345667899999999999


Q ss_pred             CcEEcCCCCcccHhhHHHhccCC-CCCCCCCcccccCCCCCcccccHHHHHHHhCh
Q 011050          214 EPITTPCGHSFCRSCLFQSMDRG-NKCPLCRAVLFITPRTCAVSVTLNSIIQKNFP  268 (494)
Q Consensus       214 ~Pv~~~cgh~fc~~Cl~~~~~~~-~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~p  268 (494)
                      +||+++|||+||+.||..|+..+ ..||.||.++.  ...+.+|..+.++|+.|..
T Consensus       220 dPv~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~--~~~l~~n~~l~~~i~~~~~  273 (281)
T 2c2l_A          220 EPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLT--QEQLIPNLAMKEVIDAFIS  273 (281)
T ss_dssp             SEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCC--GGGCEECHHHHHHHHHHHT
T ss_pred             CCeECCCCCEECHHHHHHHHHHCCCCCcCCCCCCc--hhcCcccHHHHHHHHHHHH
Confidence            99999999999999999999854 45999999884  3578899999999988754

>2ane_A ATP-dependent protease LA; LONN119, LON protease, hydrolase; 2.03A {Escherichia coli} SCOP: b.122.1.10

Probab=99.83  E-value=2.1e-20  Score=157.61  Aligned_cols=101  Identities=20%  Similarity=0.269  Sum_probs=92.9

Q ss_pred             ccccceee--eccCCCccCccccchhHHHHHHHHHhCCceEEEEEeCC------CCCccccccceEEEEEeeecCCceEE
Q 011050          288 LMPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDP------TTGSVADFACEVEITECEPLPDGRFV  359 (494)
Q Consensus       288 ~lPl~~l~--v~fP~~~~pl~i~~~~~~~~~~~~~~~~~~~~v~~~~~------~~~~~~~iG~~~~I~~~~~~~dg~~~  359 (494)
                      .+|+||++  |+|||+.+||+|++++|++|+++++++++.|+++++.+      ..+++|.+||+|+|.++.+++||++.
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            49999996  99999999999999999999999999888999998854      22478999999999999999999999


Q ss_pred             EEEEeccceEEeeeecCCCeeEEEEEEec
Q 011050          360 LEIESRRRFRILRSWDQDGYRVAEIEWVQ  388 (494)
Q Consensus       360 v~~~g~~R~~i~~~~~~~~~~~a~ve~l~  388 (494)
                      |.++|.+||+|.++.+.+||+.|+|++++
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            99999999999999889999999999874

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.78  E-value=3.7e-19  Score=151.11  Aligned_cols=115  Identities=25%  Similarity=0.433  Sum_probs=110.6

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      +..+..+..+|+.+++.|+|++|+..|++|++++|.++.+|.++|.+|..+|++                       ++|
T Consensus        10 P~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~-----------------------~~A   66 (126)
T 4gco_A           10 PELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEF-----------------------QRA   66 (126)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccH-----------------------HHH
Confidence            456889999999999999999999999999999999999999999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       124 ~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      +.+++++++++|+++.+|+.+|.+|..+|++++|+..|+++++++|++..++..+..+
T Consensus        67 ~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~l~P~~~~a~~~l~~~  124 (126)
T 4gco_A           67 LDDCDTCIRLDSKFIKGYIRKAACLVAMREWSKAQRAYEDALQVDPSNEEAREGVRNC  124 (126)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhhhHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcCCHHHHHHHHHh
Confidence            9999999999999999999999999999999999999999999999999998877765

>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=99.72  E-value=4.1e-18  Score=148.70  Aligned_cols=124  Identities=19%  Similarity=0.153  Sum_probs=115.4

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCC-------Ccc-----cccChhHHHHHHHhhhccCCCCCcccccc
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPG-------DPI-----VLGNRSSAYIRISQFLKHRPPSASEYRPL  111 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~-------~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  111 (494)
                      ...+..++..|+.+++.|+|++|+..|++||+++|+       ++.     +|+|+|.++.++|+|              
T Consensus         8 ~~~a~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~--------------   73 (159)
T 2hr2_A            8 VVGAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSF--------------   73 (159)
T ss_dssp             HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCH--------------
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCH--------------
Confidence            456889999999999999999999999999999999       444     999999999999999              


Q ss_pred             CCCCCchhHHHHHHHHHHHhhc-------cccchHHH----HHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHH
Q 011050          112 NGLDPTTHAELALKDAEKLLNL-------QSNSMKSH----LLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (494)
Q Consensus       112 ~~~~~~~~~~~a~~~~~~al~l-------~p~~~~a~----~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~  180 (494)
                               ++|+..+++||++       +|++.++|    +++|.+|..+|++++|+.+|+++++++|+++.+...+..
T Consensus        74 ---------~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~~~~~~~  144 (159)
T 2hr2_A           74 ---------DEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKER  144 (159)
T ss_dssp             ---------HHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTTHHH
T ss_pred             ---------HHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHH
Confidence                     9999999999999       99999999    999999999999999999999999999999999888888


Q ss_pred             HHhhhhhhhc
Q 011050          181 LERTTASLIG  190 (494)
Q Consensus       181 ~~~~~~~~~~  190 (494)
                      +++.+.....
T Consensus       145 ~~~~~~~~~~  154 (159)
T 2hr2_A          145 MMEVAIDRIA  154 (159)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            8887766543

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=99.68  E-value=3.2e-17  Score=144.77  Aligned_cols=127  Identities=22%  Similarity=0.260  Sum_probs=116.9

Q ss_pred             hhhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhcc------------------CCCCcccccChhHHHHHHHhhhccCC
Q 011050           41 WDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNI------------------KPGDPIVLGNRSSAYIRISQFLKHRP  102 (494)
Q Consensus        41 ~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~------------------~p~~~~~~~~~a~~~~~~~~~~~~~~  102 (494)
                      .+....+..++..|+.+++.|+|++|+..|++|+.+                  +|.+..+|.++|.||+.+|+|     
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            355667899999999999999999999999999999                  777789999999999999999     


Q ss_pred             CCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCc-hhHHHHHHH
Q 011050          103 PSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN-PLQASLQNL  181 (494)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~-~~~~~~~~~  181 (494)
                                        .+|+.+++++++++|+++++|+++|.+|..+|++++|+.+|+++++++|++. .+...+..+
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 011050          182 ERTTASLIG  190 (494)
Q Consensus       182 ~~~~~~~~~  190 (494)
                      .+.+....+
T Consensus       142 ~~~~~~~~~  150 (162)
T 3rkv_A          142 TERRAEKKA  150 (162)
T ss_dssp             HHHHHHHTT
T ss_pred             HHHHHHHHH
Confidence            888776654

>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=99.65  E-value=1.8e-16  Score=134.46  Aligned_cols=115  Identities=18%  Similarity=0.243  Sum_probs=103.1

Q ss_pred             hHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHH
Q 011050           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (494)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (494)
                      ....+..+...|+.+++.|+|++|+.+|++|++++|+++.+|.++|.+|+.+|+|                       ++
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            4556788999999999999999999999999999999999999999999999999                       99


Q ss_pred             HHHHHHHHhhccccch-------HHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          123 ALKDAEKLLNLQSNSM-------KSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       123 a~~~~~~al~l~p~~~-------~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      |+.+++++++++|++.       .+|+++|.+|..+|++++|+..|+++++.+|+ ++....+..+
T Consensus        61 A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~kal~~~~~-~~~~~~l~~l  125 (127)
T 4gcn_A           61 CVQFCEKAVEVGRETRADYKLIAKAMSRAGNAFQKQNDLSLAVQWFHRSLSEFRD-PELVKKVKEL  125 (127)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCC-HHHHHHHHHH
T ss_pred             HHHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcC-HHHHHHHHHh
Confidence            9999999999998764       58999999999999999999999999999885 4444444444

>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=99.64  E-value=3e-16  Score=132.15  Aligned_cols=118  Identities=19%  Similarity=0.277  Sum_probs=111.7

Q ss_pred             HHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHH
Q 011050           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (494)
                      ..+..+...|..++..|+|++|+..|.++++++|+++.+|.++|.+|..+|+|                       ++|+
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            35788999999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCC------CCCchhHHHHHHHHhhh
Q 011050          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVD------PFSNPLQASLQNLERTT  185 (494)
Q Consensus       125 ~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~------p~~~~~~~~~~~~~~~~  185 (494)
                      ..++++++++|+++.+|+.+|.+|..+|++++|+..|+++++++      |++..+...+..+...+
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      88888888887776554

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=99.60  E-value=2.2e-15  Score=133.09  Aligned_cols=126  Identities=25%  Similarity=0.306  Sum_probs=116.8

Q ss_pred             hhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHH
Q 011050           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (494)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (494)
                      +....+..+...|..++..|+|++|+..|.++++++|+++.+|.++|.+|+.+|+|                       +
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            34456889999999999999999999999999999999999999999999999999                       9


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCch--hHHHHHHHHhhhhhhhc
Q 011050          122 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP--LQASLQNLERTTASLIG  190 (494)
Q Consensus       122 ~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~--~~~~~~~~~~~~~~~~~  190 (494)
                      +|+..++++++++|+++.+|+.+|.+|..+|++++|+..|+++++++|++..  +...+..+.+.+.....
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            9999999999999999999999999999999999999999999999999988  66777777777766554

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.60  E-value=1.4e-15  Score=133.10  Aligned_cols=107  Identities=12%  Similarity=-0.011  Sum_probs=103.1

Q ss_pred             hHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHH
Q 011050           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (494)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (494)
                      .+..+..+...|..+++.|+|++|+..|.+++.++|+++.+|.++|.+|..+|+|                       ++
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 011050          123 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (494)
Q Consensus       123 a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~  172 (494)
                      |+..++++++++|+++.+|+.+|.+|..+|++++|+..|+++++++|+.+
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            99999999999999999999999999999999999999999999999876

>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=99.58  E-value=4.1e-15  Score=129.62  Aligned_cols=124  Identities=8%  Similarity=0.052  Sum_probs=114.0

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      +.....+...|..++..|+|++|+..|.+++.++|+++.+|.++|.++..+|+|                       ++|
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 011050          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIG  190 (494)
Q Consensus       124 ~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~  190 (494)
                      +..+++++.++|+++.+++.+|.+|..+|++++|+..|+++++++|+++........+...+....+
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            9999999999999999999999999999999999999999999999999887777777776665554

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=99.56  E-value=5.2e-15  Score=127.61  Aligned_cols=124  Identities=11%  Similarity=0.064  Sum_probs=115.2

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      +.....+...|..++..|+|++|+..|.+++..+|+++.+|.++|.+|..+|+|                       ++|
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            345678889999999999999999999999999999999999999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhhhhc
Q 011050          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIG  190 (494)
Q Consensus       124 ~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~  190 (494)
                      +..+++++.++|+++.+++.+|.+|..+|++++|+..|+++++++|+++........+...+....+
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            9999999999999999999999999999999999999999999999999888877777777665543

>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=99.56  E-value=1.3e-14  Score=132.27  Aligned_cols=146  Identities=16%  Similarity=0.175  Sum_probs=124.3

Q ss_pred             eccCCCccceeccCCCCCchhhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc----------------cccc
Q 011050           22 GIDDVDDYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----------------IVLG   85 (494)
Q Consensus        22 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~----------------~~~~   85 (494)
                      ......+|............+....+..+...|..++..|+|++|+..|.+++.+.|.++                .+|.
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (198)
T 2fbn_A           13 GRENLYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNL   92 (198)
T ss_dssp             ---------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHH
Confidence            334445555555444444556777889999999999999999999999999999999988                8999


Q ss_pred             ChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccc
Q 011050           86 NRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGL  165 (494)
Q Consensus        86 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al  165 (494)
                      ++|.+|..+|+|                       ++|+..++++++++|++..+++.+|.+|..+|++++|+..|++++
T Consensus        93 ~la~~~~~~~~~-----------------------~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al  149 (198)
T 2fbn_A           93 NLATCYNKNKDY-----------------------PKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAA  149 (198)
T ss_dssp             HHHHHHHHTTCH-----------------------HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCH-----------------------HHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            999999999999                       999999999999999999999999999999999999999999999


Q ss_pred             cCCCCCchhHHHHHHHHhhhhhhhc
Q 011050          166 QVDPFSNPLQASLQNLERTTASLIG  190 (494)
Q Consensus       166 ~l~p~~~~~~~~~~~~~~~~~~~~~  190 (494)
                      +++|++..++..+..+...+....+
T Consensus       150 ~~~p~~~~~~~~l~~~~~~~~~~~~  174 (198)
T 2fbn_A          150 SLNPNNLDIRNSYELCVNKLKEARK  174 (198)
T ss_dssp             HHSTTCHHHHHHHHHHHHHHHHHHC
T ss_pred             HHCCCcHHHHHHHHHHHHHHHHHHH
Confidence            9999999999888888777765554

>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=99.53  E-value=6.2e-15  Score=128.72  Aligned_cols=115  Identities=12%  Similarity=0.007  Sum_probs=105.6

Q ss_pred             HHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHH
Q 011050           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (494)
                      .....++..|..+++.|+|++|+.+|.++++++|+++.+|.++|.+|..+|++                       ++|+
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            34566788999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHH-HHccccCCCCCchhHHHHHHHH
Q 011050          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDA-ILSGLQVDPFSNPLQASLQNLE  182 (494)
Q Consensus       125 ~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~-~~~al~l~p~~~~~~~~~~~~~  182 (494)
                      ..++++++++|+++.+|+.+|.+|..+|++++|... +++|++++|+++.+......+-
T Consensus        86 ~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l~~~ll  144 (150)
T 4ga2_A           86 ECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKLKEQLL  144 (150)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHHHHHHH
Confidence            999999999999999999999999999999887765 5899999999998877665553

>2kr4_A Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ring, E3 ligase, UBL conjugation pathway; NMR {Mus musculus}

Probab=99.51  E-value=1.1e-14  Score=113.92  Aligned_cols=74  Identities=22%  Similarity=0.295  Sum_probs=64.4

Q ss_pred             CCCCcccccccccccccCcEEcCCCCcccHhhHHHhccCCCCCCCCCcccccCCCCCcccccHHHHHHHhChHHHh
Q 011050          197 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYA  272 (494)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~p~~~~  272 (494)
                      ......+.|+||+++|.+||+++|||+||+.||..|+.....||.||.++..  ..+.+|..|+++++.|......
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            3456789999999999999999999999999999999877889999998843  5788999999999988655443

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=99.50  E-value=4.6e-14  Score=118.48  Aligned_cols=103  Identities=13%  Similarity=0.057  Sum_probs=93.6

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (494)
                      ..++..|..+++.|++++|+..|.++++.+|+++.+|.++|.++...|++                       ++|+..+
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            45688999999999999999999999999999999999999999999999                       9999999


Q ss_pred             HHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCch
Q 011050          128 EKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (494)
Q Consensus       128 ~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~  173 (494)
                      +++++++|+++.+++.+|.+|..+|++++|+..|+++++++|++..
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            9999999999999999999999999999999999999999998764

>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=99.48  E-value=6e-14  Score=145.45  Aligned_cols=126  Identities=15%  Similarity=0.269  Sum_probs=113.0

Q ss_pred             hhhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC---------------cccccChhHHHHHHHhhhccCCCCC
Q 011050           41 WDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---------------PIVLGNRSSAYIRISQFLKHRPPSA  105 (494)
Q Consensus        41 ~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~---------------~~~~~~~a~~~~~~~~~~~~~~~~~  105 (494)
                      ......+..+..+|+.+++.|+|++|+..|.+|++++|.+               ..+|.|+|.||+++++|        
T Consensus       262 ~~~~~~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~--------  333 (457)
T 1kt0_A          262 KEKLEQAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREY--------  333 (457)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCH--------
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCH--------
Confidence            3456678899999999999999999999999999999998               58999999999999999        


Q ss_pred             ccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhh
Q 011050          106 SEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (494)
Q Consensus       106 ~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~  185 (494)
                                     ++|+..+++|++++|+++++|+++|.+|..+|++++|+.+|+++++++|++..++..+..+...+
T Consensus       334 ---------------~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~  398 (457)
T 1kt0_A          334 ---------------TKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQKKA  398 (457)
T ss_dssp             ---------------HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHHHH
T ss_pred             ---------------HHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence                           99999999999999999999999999999999999999999999999999999988888777666


Q ss_pred             hhhh
Q 011050          186 ASLI  189 (494)
Q Consensus       186 ~~~~  189 (494)
                      ....
T Consensus       399 ~~~~  402 (457)
T 1kt0_A          399 KEHN  402 (457)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5544

>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=99.48  E-value=1.4e-14  Score=116.64  Aligned_cols=71  Identities=23%  Similarity=0.303  Sum_probs=62.8

Q ss_pred             CCCCcccccccccccccCcEEcCCCCcccHhhHHHhccCCCCCCCCCcccccCCCCCcccccHHHHHHHhChH
Q 011050          197 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPE  269 (494)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~p~  269 (494)
                      ....+.+.|+||+++|.+||+++|||+||+.||..|+.....||.||.++.  ..++.+|..|+++++.|...
T Consensus        24 ~~~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~--~~~L~pn~~Lk~~I~~~~~~   94 (100)
T 2kre_A           24 SDAPDEFRDPLMDTLMTDPVRLPSGTIMDRSIILRHLLNSPTDPFNRQTLT--ESMLEPVPELKEQIQAWMRE   94 (100)
T ss_dssp             SSCSTTTBCTTTCSBCSSEEEETTTEEEEHHHHHHHTTSCSBCSSSCCBCC--TTSSEECHHHHHHHHHHHHT
T ss_pred             ccCcHhhCCcCccCcccCCeECCCCCEEchHHHHHHHHcCCCCCCCCCCCC--hhhceECHHHHHHHHHHHHH
Confidence            345678999999999999999999999999999999987788999999984  36889999999999887543

>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=99.47  E-value=2.3e-14  Score=120.88  Aligned_cols=72  Identities=32%  Similarity=0.669  Sum_probs=62.9

Q ss_pred             cccccccccccccCcEEcCCCCcccHhhHHHhccCC-CCCCCCCcccccCCCCCcccccHHHHHHHhChHHHhh
Q 011050          201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRG-NKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAE  273 (494)
Q Consensus       201 ~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~~-~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~p~~~~~  273 (494)
                      +.+.|+||++.+.+|++++|||+||..||..|+..+ ..||.||..+.. ...+.+|..+.+++++++|+...+
T Consensus        51 ~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~-~~~~~~n~~l~~~i~~~~p~~~~~  123 (124)
T 3fl2_A           51 ETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR-SYAMQVNQPLQTVLNQLFPGYGNG  123 (124)
T ss_dssp             HHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT-TCCCCCCHHHHHHHHHHSTTTTTT
T ss_pred             cCCCCCcCChHHcCcEEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCC-CCCCCCCHHHHHHHHHHccccccc
Confidence            568899999999999999999999999999999754 489999999853 257889999999999999986554

>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=99.46  E-value=7.1e-14  Score=118.69  Aligned_cols=119  Identities=24%  Similarity=0.380  Sum_probs=110.3

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      .+..+...|..++..|+|++|+..|.+++.++|+++.+|.++|.++..+|++                       ++|+.
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~-----------------------~~A~~   64 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQP-----------------------EQALA   64 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCH-----------------------HHHHH
Confidence            4678899999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCC-----CchhHHHHHHHHhhhhh
Q 011050          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF-----SNPLQASLQNLERTTAS  187 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~-----~~~~~~~~~~~~~~~~~  187 (494)
                      .++++++++|+++.+++.+|.+|..+|++++|+..|.++++++|+     +..+...+..+......
T Consensus        65 ~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~l~~~~~~~~~  131 (137)
T 3q49_B           65 DCRRALELDGQSVKAHFFLGQCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRIAKKKRWN  131 (137)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCchhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHChhHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999998     66777777666655433

>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=99.46  E-value=7.9e-14  Score=121.34  Aligned_cols=117  Identities=17%  Similarity=0.150  Sum_probs=99.4

Q ss_pred             HHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccc
Q 011050           58 FRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNS  137 (494)
Q Consensus        58 ~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~  137 (494)
                      -+.+.|++|+..|.+|++++|+++.+|.++|.++..++++..             +.+-...+++|+..+++|++++|++
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~P~~aea~~n~G~~l~~l~~~~~-------------g~~al~~~~eAi~~le~AL~ldP~~   79 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHS-------------ISDAKQMIQEAITKFEEALLIDPKK   79 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSC-------------HHHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHhHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccch-------------hhhhHhHHHHHHHHHHHHHHhCcCc
Confidence            345778999999999999999999999999999999988700             0000011269999999999999999


Q ss_pred             hHHHHHHHHHHHHHH-----------HHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhh
Q 011050          138 MKSHLLKANALILLE-----------RYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  187 (494)
Q Consensus       138 ~~a~~~~g~~~~~~~-----------~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~  187 (494)
                      ..+|+.+|.+|..+|           ++++|+..|++|++++|++...+.+++...++-+-
T Consensus        80 ~~A~~~LG~ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~~~y~~al~~~~ka~el  140 (158)
T 1zu2_A           80 DEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSLEMTAKAPQL  140 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHTHHHH
T ss_pred             HHHHHHHHHHHHHhcccCcchhhhhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHhCHhc
Confidence            999999999999875           89999999999999999999999888887776543

>1t1h_A Gspef-atpub14, armadillo repeat containing protein; ubiquitin ligase, E3 ligase, U-BOX,; NMR {Arabidopsis thaliana} SCOP: g.44.1.2

Probab=99.46  E-value=4.9e-14  Score=108.57  Aligned_cols=70  Identities=24%  Similarity=0.474  Sum_probs=60.7

Q ss_pred             CCCCcccccccccccccCcEEcCCCCcccHhhHHHhccC-CCCCCCCCcccccCCCCCcccccHHHHHHHhCh
Q 011050          197 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR-GNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFP  268 (494)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~-~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~p  268 (494)
                      ....+.+.|+||++.+.+|+.++|||+||+.||..|+.. ...||.||..+..  .++.+|..+.++++.|..
T Consensus         3 ~~~~~~~~C~IC~~~~~~Pv~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~--~~l~~n~~l~~~i~~~~~   73 (78)
T 1t1h_A            3 PEFPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLH--AGLTPNYVLKSLIALWCE   73 (78)
T ss_dssp             CCCSSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSS--CCCEECTTTHHHHHHHHH
T ss_pred             cCCcccCCCCCccccccCCEEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCCh--hhCccCHHHHHHHHHHHH
Confidence            345678999999999999999999999999999999986 5679999998743  577889999999987643

>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=99.46  E-value=1e-13  Score=137.69  Aligned_cols=124  Identities=17%  Similarity=0.256  Sum_probs=114.1

Q ss_pred             hhhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC---------------cccccChhHHHHHHHhhhccCCCCC
Q 011050           41 WDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---------------PIVLGNRSSAYIRISQFLKHRPPSA  105 (494)
Q Consensus        41 ~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~---------------~~~~~~~a~~~~~~~~~~~~~~~~~  105 (494)
                      ......+..+...|+.++..|+|++|+..|.+|++++|++               ..+|.++|.+|.++|+|        
T Consensus       141 ~~~p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~--------  212 (336)
T 1p5q_A          141 EEKLEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAF--------  212 (336)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCH--------
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCH--------
Confidence            3456678899999999999999999999999999999999               59999999999999999        


Q ss_pred             ccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhh
Q 011050          106 SEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (494)
Q Consensus       106 ~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~  185 (494)
                                     ++|+..++++++++|+++.+|+++|.+|..+|++++|+.+|+++++++|++..+...+..+...+
T Consensus       213 ---------------~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~  277 (336)
T 1p5q_A          213 ---------------SAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRI  277 (336)
T ss_dssp             ---------------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHH
T ss_pred             ---------------HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHH
Confidence                           99999999999999999999999999999999999999999999999999998877776665554


Q ss_pred             hh
Q 011050          186 AS  187 (494)
Q Consensus       186 ~~  187 (494)
                      ..
T Consensus       278 ~~  279 (336)
T 1p5q_A          278 RR  279 (336)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=99.46  E-value=2.6e-13  Score=111.09  Aligned_cols=115  Identities=31%  Similarity=0.482  Sum_probs=108.9

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      .+..+...|..++..|+|++|+..|.+++..+|.++.++.++|.++...|++                       ++|+.
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 011050          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  183 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~  183 (494)
                      .++++++++|+++.+++.+|.++..+|++++|+..|.++++++|++..+...+..+.+
T Consensus        60 ~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  117 (118)
T 1elw_A           60 DGCKTVDLKPDWGKGYSRKAAALEFLNRFEEAKRTYEEGLKHEANNPQLKEGLQNMEA  117 (118)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHhhc
Confidence            9999999999999999999999999999999999999999999999988877766643

>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=99.45  E-value=1.1e-13  Score=139.30  Aligned_cols=127  Identities=20%  Similarity=0.264  Sum_probs=117.8

Q ss_pred             hhhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhc----------------cCCCCcccccChhHHHHHHHhhhccCCCC
Q 011050           41 WDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANN----------------IKPGDPIVLGNRSSAYIRISQFLKHRPPS  104 (494)
Q Consensus        41 ~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~----------------~~p~~~~~~~~~a~~~~~~~~~~~~~~~~  104 (494)
                      ......+..+...|+.+++.|+|++|+..|++|++                ++|.+..+|.++|.+|+++++|       
T Consensus       217 ~~~~~~a~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~-------  289 (370)
T 1ihg_A          217 DKILLISEDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDW-------  289 (370)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCH-------
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCH-------
Confidence            45566788899999999999999999999999999                7888899999999999999999       


Q ss_pred             CccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhh
Q 011050          105 ASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERT  184 (494)
Q Consensus       105 ~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~  184 (494)
                                      ++|+..+++|++++|+++++|+++|.+|..+|++++|+.+|++|++++|++..++..+..+...
T Consensus       290 ----------------~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~~~  353 (370)
T 1ihg_A          290 ----------------QGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQK  353 (370)
T ss_dssp             ----------------HHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             ----------------HHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence                            9999999999999999999999999999999999999999999999999999999888888777


Q ss_pred             hhhhhc
Q 011050          185 TASLIG  190 (494)
Q Consensus       185 ~~~~~~  190 (494)
                      +....+
T Consensus       354 ~~~~~~  359 (370)
T 1ihg_A          354 IKAQKD  359 (370)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            765543

>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=99.44  E-value=1.1e-13  Score=110.96  Aligned_cols=71  Identities=20%  Similarity=0.280  Sum_probs=62.7

Q ss_pred             CCCCcccccccccccccCcEEcCCC-CcccHhhHHHhccCCCCCCCCCcccccCCCCCcccccHHHHHHHhChH
Q 011050          197 PERTDDFDCTLCLKLLYEPITTPCG-HSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPE  269 (494)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~Pv~~~cg-h~fc~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~p~  269 (494)
                      ....+++.|+||+++|.+||+++|| |+||+.||..|+.....||.||.++.  ...+.+|..|+++|+.|...
T Consensus        17 ~~~p~~~~CpI~~~~m~dPV~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~--~~~L~pn~~Lk~~I~~~~~~   88 (98)
T 1wgm_A           17 ADACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLT--MDQIRPNTELKEKIQRWLAE   88 (98)
T ss_dssp             CSCCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCC--TTTSEECHHHHHHHHHHHHH
T ss_pred             hcCcHhcCCcCccccccCCeECCCCCeEECHHHHHHHHHhCCCCCCCCCCCC--hhhceEcHHHHHHHHHHHHH
Confidence            3456789999999999999999999 99999999999988788999999885  35888999999999887543

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=99.43  E-value=2.2e-13  Score=114.32  Aligned_cols=119  Identities=26%  Similarity=0.397  Sum_probs=110.6

Q ss_pred             hhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHH
Q 011050           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (494)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (494)
                      ........+...|..++..|+|++|+..|.++++.+|.+..++.++|.++...+++                       +
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~-----------------------~   67 (133)
T 2lni_A           11 MNPDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEF-----------------------Q   67 (133)
T ss_dssp             SSSCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCH-----------------------H
T ss_pred             cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccH-----------------------H
Confidence            34555789999999999999999999999999999999999999999999999999                       9


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHh
Q 011050          122 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  183 (494)
Q Consensus       122 ~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~  183 (494)
                      +|+..++++++++|++..+++.+|.+|..+|++++|+..|+++++++|++..+...+..+..
T Consensus        68 ~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  129 (133)
T 2lni_A           68 LALKDCEECIQLEPTFIKGYTRKAAALEAMKDYTKAMDVYQKALDLDSSCKEAADGYQRCMM  129 (133)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCchHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCCCchHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999887776665543

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.42  E-value=1.5e-13  Score=126.57  Aligned_cols=112  Identities=16%  Similarity=0.066  Sum_probs=107.2

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccC----------------hhHHHHHHHhhhccCCCCCccccc
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGN----------------RSSAYIRISQFLKHRPPSASEYRP  110 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~----------------~a~~~~~~~~~~~~~~~~~~~~~~  110 (494)
                      +..++.+|..++..|+|++|+..|.++++.+|+++.+|+.                +|.+|...|++             
T Consensus         4 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~-------------   70 (208)
T 3urz_A            4 VDEMLQKVSAAIEAGQNGQAVSYFRQTIALNIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNY-------------   70 (208)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCH-------------
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCH-------------
Confidence            5678899999999999999999999999999999999999                99999999999             


Q ss_pred             cCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          111 LNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       111 ~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                                ++|+..++++++++|+++.+++.+|.+|..+|++++|+..|+++++++|++..++..+..+
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                      9999999999999999999999999999999999999999999999999999988777654

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.42  E-value=3.8e-13  Score=115.26  Aligned_cols=116  Identities=21%  Similarity=0.366  Sum_probs=109.6

Q ss_pred             HHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC---cccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHH
Q 011050           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (494)
                      ..+..+...|..++..|+|++|+..|.++++.+|++   ..++.++|.+|...++|                       +
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~-----------------------~   82 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDY-----------------------D   82 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCH-----------------------H
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccH-----------------------H
Confidence            457889999999999999999999999999999998   89999999999999999                       9


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHh
Q 011050          122 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  183 (494)
Q Consensus       122 ~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~  183 (494)
                      +|+..++++++++|+++.+++.+|.+|..+|++++|+..|.++++++|++..++..+..+.+
T Consensus        83 ~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~  144 (148)
T 2dba_A           83 KAETEASKAIEKDGGDVKALYRRSQALEKLGRLDQAVLDLQRCVSLEPKNKVFQEALRNISG  144 (148)
T ss_dssp             HHHHHHHHHHHHTSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhhCccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999998887777643

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.41  E-value=5.2e-13  Score=123.81  Aligned_cols=117  Identities=15%  Similarity=0.215  Sum_probs=108.8

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      .+..+...|..++..|++++|+..|.++++.+|+++.++.++|.++...|++                       ++|+.
T Consensus         4 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~-----------------------~~A~~   60 (217)
T 2pl2_A            4 AEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLV-----------------------NPALE   60 (217)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH-----------------------HHHHH
Confidence            4567889999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHH-----------HHHHHHHHHHHccccCCCCCchhHHHHHHHHhhh
Q 011050          126 DAEKLLNLQSNSMKSHLLKANALILL-----------ERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~~~-----------~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~  185 (494)
                      .++++++++|+++.+++.+|.+|..+           |++++|+..|+++++++|++..++..+..+-..+
T Consensus        61 ~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~lg~~~~~~  131 (217)
T 2pl2_A           61 NGKTLVARTPRYLGGYMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPRYAPLHLQRGLVYALL  131 (217)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHc
Confidence            99999999999999999999999999           9999999999999999999998877665554333

>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=99.40  E-value=9.9e-14  Score=115.39  Aligned_cols=81  Identities=35%  Similarity=0.786  Sum_probs=67.8

Q ss_pred             CCCcccccccccccccCcEEcCCCCcccHhhHHHhccC-CCCCCCCCccccc-----CCCCCcccccHHHHHHHhChHHH
Q 011050          198 ERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR-GNKCPLCRAVLFI-----TPRTCAVSVTLNSIIQKNFPEEY  271 (494)
Q Consensus       198 ~~~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~-~~~CP~Cr~~~~~-----~~~~~~~~~~l~~~~~~~~p~~~  271 (494)
                      ...+++.|+||++.+.+|+.++|||+||..||..|+.. ...||.||..+..     ...+..+|..+.+++++++|.+.
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            44567899999999999999999999999999999976 5579999998742     11456788999999999999998


Q ss_pred             hhhhhcc
Q 011050          272 AERKSEH  278 (494)
Q Consensus       272 ~~r~~~~  278 (494)
                      ..++.+.
T Consensus        91 ~~r~~~~   97 (115)
T 3l11_A           91 KLRASGQ   97 (115)
T ss_dssp             HHHHHC-
T ss_pred             HHHHhhh
Confidence            8776543

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=99.39  E-value=1.7e-13  Score=136.38  Aligned_cols=122  Identities=20%  Similarity=0.249  Sum_probs=98.4

Q ss_pred             hhhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc-----------------ccccChhHHHHHHHhhhccCCC
Q 011050           41 WDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP-----------------IVLGNRSSAYIRISQFLKHRPP  103 (494)
Q Consensus        41 ~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~-----------------~~~~~~a~~~~~~~~~~~~~~~  103 (494)
                      ......+..++..|+.+++.|+|++|+..|.+|+.+.|++.                 .+|.++|.+|.++++|      
T Consensus       173 ~~~~~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~------  246 (338)
T 2if4_A          173 EERIGAADRRKMDGNSLFKEEKLEEAMQQYEMAIAYMGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRY------  246 (338)
T ss_dssp             HHHHHHHHHHHHHHHHTCSSSCCHHHHHHHHHHHHHSCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCC------
T ss_pred             HHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCH------
Confidence            45677788999999999999999999999999999999877                 4899999999999999      


Q ss_pred             CCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHh
Q 011050          104 SASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  183 (494)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~  183 (494)
                                       ++|+..++++++++|++.++|+++|.+|..+|++++|+.+|+++++++|++..++..+..+..
T Consensus       247 -----------------~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~  309 (338)
T 2if4_A          247 -----------------DEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAE  309 (338)
T ss_dssp             -----------------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-----------------
T ss_pred             -----------------HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
Confidence                             999999999999999999999999999999999999999999999999999998888777754


Q ss_pred             hh
Q 011050          184 TT  185 (494)
Q Consensus       184 ~~  185 (494)
                      ..
T Consensus       310 ~~  311 (338)
T 2if4_A          310 QE  311 (338)
T ss_dssp             --
T ss_pred             HH
Confidence            43

>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=99.39  E-value=4.4e-13  Score=146.05  Aligned_cols=113  Identities=19%  Similarity=0.169  Sum_probs=86.0

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      +..+..+...|+.+.+.|+|++|+..|.+|++++|+++.+|.++|.+|.++|++                       ++|
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            445677777888888888888888888888888888888888888888888887                       777


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHH
Q 011050          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQ  179 (494)
Q Consensus       124 ~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~  179 (494)
                      +..+++|++++|+++.+|+.+|.+|..+|++++|++.|++|++++|++..++..+.
T Consensus        63 ~~~~~~Al~l~P~~~~a~~nLg~~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg  118 (723)
T 4gyw_A           63 LMHYKEAIRISPTFADAYSNMGNTLKEMQDVQGALQCYTRAIQINPAFADAHSNLA  118 (723)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            77777777777777777777777777777777777777777777777776554443

>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=99.39  E-value=1.5e-13  Score=119.41  Aligned_cols=73  Identities=32%  Similarity=0.642  Sum_probs=63.6

Q ss_pred             cccccccccccccCcEEcCCCCcccHhhHHHhccCCC-CCCCCCcccccCCCCCcccccHHHHHHHhChHHHhhh
Q 011050          201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGN-KCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAER  274 (494)
Q Consensus       201 ~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~~~-~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~p~~~~~r  274 (494)
                      +.+.|+||++.+.+|++++|||+||..||..|+..+. .||.||..+... ..+.+|..+.++++.++|+...+|
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            4678999999999999999999999999999998654 799999998532 378899999999999999866543

>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=99.38  E-value=1.2e-13  Score=120.58  Aligned_cols=108  Identities=18%  Similarity=0.152  Sum_probs=98.7

Q ss_pred             HHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhh
Q 011050           53 KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLN  132 (494)
Q Consensus        53 ~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~  132 (494)
                      .|..+..+|++++|+..|.+++..+|+++..++++|.+|+..|+|                       ++|+..++++++
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            467778889999999999999999999999999999999999999                       999999999999


Q ss_pred             ccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHh
Q 011050          133 LQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  183 (494)
Q Consensus       133 l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~  183 (494)
                      ++|+++.+|+.+|.+|..+|++++|+..|+++++++|++..+...+..+-.
T Consensus        60 ~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~  110 (150)
T 4ga2_A           60 VQERDPKAHRFLGLLYELEENTDKAVECYRRSVELNPTQKDLVLKIAELLC  110 (150)
T ss_dssp             HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             hCCCCHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999988776665543

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=99.38  E-value=1e-12  Score=110.24  Aligned_cols=114  Identities=12%  Similarity=0.081  Sum_probs=106.0

Q ss_pred             HHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc---ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      .++..|..++..|+|++|+..|.++++..|+++   .++.++|.+++..|+|                       ++|+.
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            467789999999999999999999999999998   7999999999999999                       99999


Q ss_pred             HHHHHhhccccc---hHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhh
Q 011050          126 DAEKLLNLQSNS---MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (494)
Q Consensus       126 ~~~~al~l~p~~---~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~  185 (494)
                      .++++++.+|++   +.+++.+|.+|..+|++++|+..|+++++.+|++..+......+....
T Consensus        61 ~~~~~~~~~p~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~l~~l~  123 (129)
T 2xev_A           61 QFRDLVSRYPTHDKAAGGLLKLGLSQYGEGKNTEAQQTLQQVATQYPGSDAARVAQERLQSIR  123 (129)
T ss_dssp             HHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHCCCCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHH
Confidence            999999999999   899999999999999999999999999999999998877777665543

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=99.37  E-value=1.9e-12  Score=107.81  Aligned_cols=121  Identities=22%  Similarity=0.318  Sum_probs=112.4

Q ss_pred             hhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHH
Q 011050           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (494)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (494)
                      .....+..+...|..++..|+|++|+..|.+++..+|+++.++.++|.++...|++                       .
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            44566788999999999999999999999999999999999999999999999999                       9


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhh
Q 011050          122 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (494)
Q Consensus       122 ~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~  185 (494)
                      +|+..+++++.++|+++.+++.+|.+|..+|++++|+..|.++++++|++..+...+..+...+
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            9999999999999999999999999999999999999999999999999988877776665544

>3ztg_A E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mRNA processing, mRNA splicing; NMR {Homo sapiens}

Probab=99.37  E-value=4.4e-13  Score=106.72  Aligned_cols=72  Identities=19%  Similarity=0.557  Sum_probs=60.2

Q ss_pred             CCCCCcccccccccccccCcEEcC-CCCcccHhhHHHhccC--CCCCCCCCcccccCCCCCcccccHHHHHHHhCh
Q 011050          196 TPERTDDFDCTLCLKLLYEPITTP-CGHSFCRSCLFQSMDR--GNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFP  268 (494)
Q Consensus       196 ~~~~~~~~~C~iC~~~~~~Pv~~~-cgh~fc~~Cl~~~~~~--~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~p  268 (494)
                      .....+.+.|+||++.+.+|++++ |||+||..||..|+..  ...||.||..+. ....+.+|..+.++++.+..
T Consensus         7 ~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~-~~~~~~~n~~l~~~i~~~~~   81 (92)
T 3ztg_A            7 DDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV-SPDALIANKFLRQAVNNFKN   81 (92)
T ss_dssp             CCCCCTTTEETTTTEECSSCEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC-CTTSCEECHHHHHHHHHHHH
T ss_pred             cccCCcCCCCCCCChhhcCceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC-CccccCcCHHHHHHHHHHHH
Confidence            344567899999999999999999 9999999999999863  358999999863 23578899999999987644

>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=99.37  E-value=1.9e-12  Score=113.04  Aligned_cols=118  Identities=25%  Similarity=0.392  Sum_probs=109.8

Q ss_pred             chhhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchh
Q 011050           40 PWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH  119 (494)
Q Consensus        40 ~~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (494)
                      .......+..+...|..++..|+|++|+..|.+++..+|.++.++.++|.++...|+|                      
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            3455677899999999999999999999999999999999999999999999999999                      


Q ss_pred             HHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHH
Q 011050          120 AELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (494)
Q Consensus       120 ~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~  180 (494)
                       ++|+..++++++++|+++.+++.+|.+|..+|++++|+..|.++++++|++..+...+..
T Consensus        64 -~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~  123 (166)
T 1a17_A           64 -GYALGDATRAIELDKKYIKGYYRRAASNMALGKFRAALRDYETVVKVKPHDKDAKMKYQE  123 (166)
T ss_dssp             -HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             -HHHHHHHHHHHHhCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence             999999999999999999999999999999999999999999999999999877644433

>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=99.36  E-value=1.9e-12  Score=107.98  Aligned_cols=119  Identities=17%  Similarity=0.280  Sum_probs=109.4

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      .+..+...|..++..|+|++|+..|.+++..+|.++.++.++|.++...|++                       ++|+.
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 011050          126 DAEKLLNLQSNS-------MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  188 (494)
Q Consensus       126 ~~~~al~l~p~~-------~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~  188 (494)
                      .+++++.++|.+       ..+++.+|.+|..+|++++|+..|+++++++| +..+...+..+.+.+...
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       89999999999999999999999999999999 577777777776666543

>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=99.35  E-value=5e-13  Score=109.76  Aligned_cols=74  Identities=26%  Similarity=0.597  Sum_probs=63.2

Q ss_pred             CcccccccccccccCcEEc-CCCCcccHhhHHHhccCCCCCCCCCcccccCC--CCCcccccHHHHHHHhChHHHhh
Q 011050          200 TDDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDRGNKCPLCRAVLFITP--RTCAVSVTLNSIIQKNFPEEYAE  273 (494)
Q Consensus       200 ~~~~~C~iC~~~~~~Pv~~-~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~~~~--~~~~~~~~l~~~~~~~~p~~~~~  273 (494)
                      ...+.|+||++.+.+|+.+ +|||+||..||..|+..+..||.||..+....  ..+..|..+.++++++++.....
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            3678999999999999997 99999999999999998889999999875321  25678899999999999875533

>4ayc_A E3 ubiquitin-protein ligase RNF8; DNA damage, K63 chains; HET: CPQ; 1.90A {Homo sapiens} PDB: 4epo_C

Probab=99.35  E-value=2.1e-13  Score=117.21  Aligned_cols=74  Identities=27%  Similarity=0.693  Sum_probs=54.0

Q ss_pred             cccccccccccccCcEEcCCCCcccHhhHHHhccCCCCCCCCCcccccCCCCCcccccHHHHHHHhChHHHhhhh
Q 011050          201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAERK  275 (494)
Q Consensus       201 ~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~p~~~~~r~  275 (494)
                      .++.|+||++.+.+|++++|||+||..||..|+.....||.||.++...+.++..+..+.+++.. ++.+..+++
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            35789999999999999999999999999999998889999999874322222233333334333 455554443

>2f42_A STIP1 homology and U-box containing protein 1; chaperone; 2.50A {Danio rerio} PDB: 2c2v_S 2oxq_C

Probab=99.34  E-value=9.3e-13  Score=116.51  Aligned_cols=69  Identities=22%  Similarity=0.350  Sum_probs=60.8

Q ss_pred             CCCCcccccccccccccCcEEcCCCCcccHhhHHHhccC-CCCCCCCCcccccCCCCCcccccHHHHHHHhC
Q 011050          197 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR-GNKCPLCRAVLFITPRTCAVSVTLNSIIQKNF  267 (494)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~-~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~  267 (494)
                      ......+.||||+++|.+||+++|||+||+.||..|+.. +..||.||.++.  ..++.+|..|.++++.|.
T Consensus       101 ~~ip~~f~CPI~~elm~DPV~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~--~~~L~pN~~Lk~~Ie~~~  170 (179)
T 2f42_A          101 REIPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLT--QDQLIPNLAMKEVIDAFI  170 (179)
T ss_dssp             CCCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCC--GGGCEECHHHHHHHHHHH
T ss_pred             cCCcHhhcccCccccCCCCeECCCCCEECHHHHHHHHHhCCCCCCCCcCCCC--hhhCcchHHHHHHHHHHH
Confidence            455789999999999999999999999999999999975 456999999884  357899999999998874

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.33  E-value=7.8e-12  Score=114.98  Aligned_cols=105  Identities=20%  Similarity=0.250  Sum_probs=92.8

Q ss_pred             HHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhh
Q 011050           53 KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLN  132 (494)
Q Consensus        53 ~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~  132 (494)
                      .|..++..|+|++|+..|.++++++|+++.++.++|.+|...|++                       ++|+..++++++
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             ccccchHHHHHHHHHHHHH-----------------------------------HHHHHHHHHHHccccCCCCCchhHHH
Q 011050          133 LQSNSMKSHLLKANALILL-----------------------------------ERYDMARDAILSGLQVDPFSNPLQAS  177 (494)
Q Consensus       133 l~p~~~~a~~~~g~~~~~~-----------------------------------~~~~~A~~~~~~al~l~p~~~~~~~~  177 (494)
                      ++|+++.+|+.+|.+|+..                                   |+|++|+.+|+++++++|++. +...
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            9999999999988887543                                   457889999999999999743 3444


Q ss_pred             HHHH
Q 011050          178 LQNL  181 (494)
Q Consensus       178 ~~~~  181 (494)
                      +..+
T Consensus       196 l~~i  199 (208)
T 3urz_A          196 LDKI  199 (208)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4444

>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=1e-12  Score=132.79  Aligned_cols=115  Identities=10%  Similarity=-0.050  Sum_probs=85.6

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHh-hhccCCCCCccccccCCCCCchhHHH
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQ-FLKHRPPSASEYRPLNGLDPTTHAEL  122 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (494)
                      ...+..+...|..+...|++++|+..|++|+.++|++..+|.+||.++..+|+ +                       ++
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            34456677777777777777777777777777777777777777777777775 7                       77


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          123 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       123 a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      |+..++++++++|+++.+|+.+|.+|..+|++++|+..|+++++++|++..++..+..+
T Consensus       151 Al~~~~~al~l~P~~~~a~~~~g~~~~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~  209 (382)
T 2h6f_A          151 EMNYITAIIEEQPKNYQVWHHRRVLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWV  209 (382)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCccCHHHHHHHHHH
Confidence            77777777777777777777777777777777777777777777777777665544433

>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=99.33  E-value=1.5e-12  Score=141.81  Aligned_cols=113  Identities=13%  Similarity=0.075  Sum_probs=106.9

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      .+..+...|..+.+.|++++|+.+|.+|++++|+++.+|.++|.+|..+|++                       ++|++
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            3577889999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      .+++|++++|+++.+|+.+|.+|..+|++++|++.|++|++++|++..+...+..+
T Consensus        99 ~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~  154 (723)
T 4gyw_A           99 CYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHC  154 (723)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhH
Confidence            99999999999999999999999999999999999999999999999877665443

>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=99.32  E-value=2e-12  Score=130.63  Aligned_cols=116  Identities=9%  Similarity=-0.019  Sum_probs=109.8

Q ss_pred             HHHHHHHHHHHHHHhcC-hHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHH
Q 011050           46 HVFDLVQKGNRAFRESN-FEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~-~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (494)
                      .+..+..+|..+...|+ +++|+..|.+|++++|+++.+|++||.++..+|++                       ++|+
T Consensus       130 ~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~~~~~g~~-----------------------~eAl  186 (382)
T 2h6f_A          130 NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEWLRDP-----------------------SQEL  186 (382)
T ss_dssp             CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCC-----------------------TTHH
T ss_pred             CHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHccCH-----------------------HHHH
Confidence            45678899999999996 99999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhh
Q 011050          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERT  184 (494)
Q Consensus       125 ~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~  184 (494)
                      ..++++++++|+++.+|+.+|.++..+|++++|+.+|+++++++|++..++..+..+-..
T Consensus       187 ~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~~~~a~~~lg~~l~~  246 (382)
T 2h6f_A          187 EFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISN  246 (382)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999998887776544

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.29  E-value=6.4e-12  Score=116.38  Aligned_cols=112  Identities=17%  Similarity=0.114  Sum_probs=104.1

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHH-----------HhhhccCCCCCccccccCCC
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRI-----------SQFLKHRPPSASEYRPLNGL  114 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~-----------~~~~~~~~~~~~~~~~~~~~  114 (494)
                      .+..+...|..++..|++++|+..|.++++++|+++.++.++|.++...           |++                 
T Consensus        38 ~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~g~~-----------------  100 (217)
T 2pl2_A           38 DPEALYWLARTQLKLGLVNPALENGKTLVARTPRYLGGYMVLSEAYVALYRQAEDRERGKGYL-----------------  100 (217)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHTCSSHHHHHHHH-----------------
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhhhhhhhhcccccCH-----------------
Confidence            3577889999999999999999999999999999999999999999999           999                 


Q ss_pred             CCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          115 DPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       115 ~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                            ++|+..++++++++|+++.+++.+|.+|..+|++++|+..|+++++++ ++..+...+..+
T Consensus       101 ------~~A~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~la~~  160 (217)
T 2pl2_A          101 ------EQALSVLKDAERVNPRYAPLHLQRGLVYALLGERDKAEASLKQALALE-DTPEIRSALAEL  160 (217)
T ss_dssp             ------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCHHHHHHHHHH
T ss_pred             ------HHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc-cchHHHHHHHHH
Confidence                  999999999999999999999999999999999999999999999999 877766555444

>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=6.2e-12  Score=116.74  Aligned_cols=105  Identities=16%  Similarity=0.161  Sum_probs=101.2

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCC-CCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKP-GDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      ...++..|..++..|+|++|+..|.++++++| .+..+++++|.++..+|++                       ++|+.
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            37889999999999999999999999999999 8999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchh
Q 011050          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  174 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~  174 (494)
                      .++++++++|++..+++.+|.+|..+|++++|+..|+++++++|++..+
T Consensus        64 ~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~  112 (228)
T 4i17_A           64 YFDIAIKKNYNLANAYIGKSAAYRDMKNNQEYIATLTEGIKAVPGNATI  112 (228)
T ss_dssp             HHHHHHHTTCSHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHH
T ss_pred             HHHHHHHhCcchHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHH
Confidence            9999999999999999999999999999999999999999999999854

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.28  E-value=7.5e-12  Score=116.14  Aligned_cols=117  Identities=11%  Similarity=0.080  Sum_probs=106.7

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc-------ccccChhHHHHHHHhhhccCCCCCccccccCCCCCch
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP-------IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT  118 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~-------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (494)
                      ....+...|..++..|+|++|+..|.++++++|+++       .+|.++|.++..+|++                     
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            456788899999999999999999999999999988       6688899999999999                     


Q ss_pred             hHHHHHHHHHHHhhcccc--chHHHHHHHHHHHHHHHH---------------------------HHHHHHHHccccCCC
Q 011050          119 HAELALKDAEKLLNLQSN--SMKSHLLKANALILLERY---------------------------DMARDAILSGLQVDP  169 (494)
Q Consensus       119 ~~~~a~~~~~~al~l~p~--~~~a~~~~g~~~~~~~~~---------------------------~~A~~~~~~al~l~p  169 (494)
                        ++|+..++++++++|+  ++.+++.+|.+|...|+.                           ++|+..|+++++++|
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  999999999999999998                           999999999999999


Q ss_pred             CCchhHHHHHHHHhhh
Q 011050          170 FSNPLQASLQNLERTT  185 (494)
Q Consensus       170 ~~~~~~~~~~~~~~~~  185 (494)
                      ++..+...+..++..+
T Consensus       212 ~~~~~~~~l~~i~~~~  227 (228)
T 4i17_A          212 NRTEIKQMQDQVKAMI  227 (228)
T ss_dssp             TCHHHHHHHHHHHTTC
T ss_pred             CCHHHHHHHHHHHHhh
Confidence            9999988888876543

>2y43_A E3 ubiquitin-protein ligase RAD18; DNA repair, metal-binding, translesion synthesis, UB conjugation pathway; 1.80A {Homo sapiens}

Probab=99.27  E-value=1.9e-12  Score=104.49  Aligned_cols=64  Identities=17%  Similarity=0.538  Sum_probs=57.1

Q ss_pred             cccccccccccccCcEEc-CCCCcccHhhHHHhccCCCCCCCCCcccccCCCCCcccccHHHHHHHh
Q 011050          201 DDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKN  266 (494)
Q Consensus       201 ~~~~C~iC~~~~~~Pv~~-~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~  266 (494)
                      ..+.|+||++.+.+|+.+ +|||+||..|+..|+..+..||.||..+..  .++.+|..+.++++.+
T Consensus        21 ~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~--~~l~~n~~l~~~i~~~   85 (99)
T 2y43_A           21 DLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTE--PDLKNNRILDELVKSL   85 (99)
T ss_dssp             HHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCG--GGCEECHHHHHHHHHH
T ss_pred             CCCCcccCChhhCCcCEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCCh--hhCCcCHHHHHHHHHH
Confidence            467899999999999988 999999999999999988899999998743  5678899999998875

>2egp_A Tripartite motif-containing protein 34; ZF-C3HC4 domain, tripartite motif protein 34, interferon- responsive finger protein 1; NMR {Homo sapiens}

Probab=99.27  E-value=7.7e-13  Score=102.09  Aligned_cols=64  Identities=31%  Similarity=0.753  Sum_probs=52.2

Q ss_pred             CCCCcccccccccccccCcEEcCCCCcccHhhHHHhccC-------CCCCCCCCcccccCCCCCcccccHHHH
Q 011050          197 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR-------GNKCPLCRAVLFITPRTCAVSVTLNSI  262 (494)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~-------~~~CP~Cr~~~~~~~~~~~~~~~l~~~  262 (494)
                      ....+.+.|+||++.+.+|+.++|||+||..|+..|+..       ...||.||..+..  .++.+|..+.++
T Consensus         7 ~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~--~~l~~n~~l~~l   77 (79)
T 2egp_A            7 GNVQEEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSF--EHLQANQHLANI   77 (79)
T ss_dssp             CCCCCCCEETTTTEECSSCCCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCS--SGGGTCSSSCCC
T ss_pred             hhcccCCCCcCCCcccCCeeECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCH--hhCCcCHHHHHh
Confidence            344568899999999999999999999999999999876       4579999998743  456666665543

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=99.26  E-value=9.7e-13  Score=109.20  Aligned_cols=98  Identities=14%  Similarity=0.068  Sum_probs=88.2

Q ss_pred             HhcChHHHHHHHHHHhcc---CCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccc
Q 011050           59 RESNFEEAISNYSRANNI---KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQS  135 (494)
Q Consensus        59 ~~~~~~~Ai~~y~~al~~---~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p  135 (494)
                      ..|+|++|+..|.+|+++   +|+++.++.++|.+|..+|+|                       ++|+..++++++++|
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 011050          136 NSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQ  179 (494)
Q Consensus       136 ~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~  179 (494)
                      +++.+++.+|.+|..+|++++|+..|+++++++|+++.+.....
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            99999999999999999999999999999999999987654433

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.26  E-value=1.1e-11  Score=110.87  Aligned_cols=113  Identities=16%  Similarity=0.233  Sum_probs=89.4

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      .+..+...|..++.+|+|++|+..|++|++++|+++.+|.++|.+|..+|++                       ++|+.
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            3567889999999999999999999999999999999999999999999998                       67777


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      .+.+++..+|++..++..+|.++...++++.|...+.++++++|++..+...+..+
T Consensus        61 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~  116 (184)
T 3vtx_A           61 SLKKFVVLDTTSAEAYYILGSANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLV  116 (184)
T ss_dssp             HHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHhcCchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHH
Confidence            77777777777666666666666666666666666666666666666555444433

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.25  E-value=3.1e-12  Score=114.53  Aligned_cols=99  Identities=14%  Similarity=0.051  Sum_probs=49.5

Q ss_pred             HHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHH
Q 011050           50 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  129 (494)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  129 (494)
                      +...|..+...++++.|+..+.+++.++|++..++..+|.+|..+|++                       ++|+..+++
T Consensus        76 ~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~-----------------------~~A~~~~~~  132 (184)
T 3vtx_A           76 YYILGSANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEH-----------------------DKAIEAYEK  132 (184)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCc-----------------------hhHHHHHHH
Confidence            333444444444444444444444444554445555555555555555                       555555555


Q ss_pred             HhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCC
Q 011050          130 LLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (494)
Q Consensus       130 al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~  171 (494)
                      +++++|+++.+|+.+|.+|..+|++++|+..|++|++++|++
T Consensus       133 ~l~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~  174 (184)
T 3vtx_A          133 TISIKPGFIRAYQSIGLAYEGKGLRDEAVKYFKKALEKEEKK  174 (184)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTHHH
T ss_pred             HHHhcchhhhHHHHHHHHHHHCCCHHHHHHHHHHHHhCCccC
Confidence            555555555555555555555555555555555555554443

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=99.25  E-value=1.9e-11  Score=100.64  Aligned_cols=113  Identities=23%  Similarity=0.346  Sum_probs=106.6

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      +..+...|..++..|++++|+..|.+++...|.+..++.++|.++...|++                       ++|+..
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 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~  182 (494)
                      ++++++.+|.+..+++.+|.+|...|++++|+..|+++++++|++..+...+..+.
T Consensus        66 ~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  121 (125)
T 1na0_A           66 YQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAK  121 (125)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999988877666554

>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=99.25  E-value=2.5e-12  Score=103.86  Aligned_cols=63  Identities=25%  Similarity=0.533  Sum_probs=54.2

Q ss_pred             cccccccccccccCcEE-cCCCCcccHhhHHHhccCC-CCCCCCCcccccCCCCCcccccHHHHHHH
Q 011050          201 DDFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRG-NKCPLCRAVLFITPRTCAVSVTLNSIIQK  265 (494)
Q Consensus       201 ~~~~C~iC~~~~~~Pv~-~~cgh~fc~~Cl~~~~~~~-~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~  265 (494)
                      +.+.|+||++.+.+|+. ++|||+||..||..|+... ..||.||..+.  ..++..+..+.++++.
T Consensus        21 ~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~--~~~l~~~~~~~~i~~~   85 (100)
T 3lrq_A           21 EVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQ--LRELVNCRWAEEVTQQ   85 (100)
T ss_dssp             HHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCC--GGGCEECTTHHHHHHH
T ss_pred             CCCCCccCCccccCccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCC--HHHhHhhHHHHHHHHH
Confidence            57889999999999999 9999999999999999876 68999999874  3566777777777654

>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=99.24  E-value=2.2e-12  Score=102.85  Aligned_cols=66  Identities=17%  Similarity=0.484  Sum_probs=56.3

Q ss_pred             CcccccccccccccCcEEcC-CCCcccHhhHHHhccCC------CCCCC--CCcc-cccCCCCCcccccHHHHHHHhC
Q 011050          200 TDDFDCTLCLKLLYEPITTP-CGHSFCRSCLFQSMDRG------NKCPL--CRAV-LFITPRTCAVSVTLNSIIQKNF  267 (494)
Q Consensus       200 ~~~~~C~iC~~~~~~Pv~~~-cgh~fc~~Cl~~~~~~~------~~CP~--Cr~~-~~~~~~~~~~~~~l~~~~~~~~  267 (494)
                      ...+.|+||+++|.+||+++ |||+||+.||..|+..+      ..||+  |+.. +.  ..++.+|..|.++|+.|.
T Consensus         5 ~~~~~CPI~~~~~~dPV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~--~~~L~pn~~L~~~I~~~~   80 (94)
T 2yu4_A            5 SSGFTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIR--KSDLIQDEALRRAIENHN   80 (94)
T ss_dssp             SSCCBCTTTCSBCSSEEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBC--GGGEEECHHHHHHHHHHH
T ss_pred             CcEeECcCcCchhcCCEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccC--HhhCcCCHHHHHHHHHHH
Confidence            46799999999999999996 99999999999999743      47999  7765 53  367889999999998874

>2csy_A Zinc finger protein 183-like 1; ring finger protein 161, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.24  E-value=4.4e-12  Score=98.27  Aligned_cols=60  Identities=25%  Similarity=0.582  Sum_probs=50.2

Q ss_pred             CCCCcccccccccccccCcEEcCCCCcccHhhHHHhccCCCCCCCCCcccccCCCCCcccccH
Q 011050          197 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTL  259 (494)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l  259 (494)
                      ......+.|+||++.+.+|+.++|||+||..||..|+.....||+||..+.   ..+.++..+
T Consensus        10 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~---~~~~~~~~l   69 (81)
T 2csy_A           10 EEEEIPFRCFICRQAFQNPVVTKCRHYFCESCALEHFRATPRCYICDQPTG---GIFNPAKEL   69 (81)
T ss_dssp             SCCCCCSBCSSSCSBCCSEEECTTSCEEEHHHHHHHHHHCSBCSSSCCBCC---SCCEECHHH
T ss_pred             ccCCCCCCCcCCCchhcCeeEccCCCHhHHHHHHHHHHCCCcCCCcCcccc---ccCCcHHHH
Confidence            344567899999999999999999999999999999988889999999873   345555443

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=99.22  E-value=7.7e-12  Score=101.20  Aligned_cols=102  Identities=16%  Similarity=0.172  Sum_probs=97.2

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (494)
                      ..+...|..++..|+|++|+..|.++++.+|.+..++.++|.++...|++                       ++|+..+
T Consensus         7 ~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~-----------------------~~A~~~~   63 (112)
T 2kck_A            7 EEYYLEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERY-----------------------EEAVDCY   63 (112)
T ss_dssp             TGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCH-----------------------HHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCH-----------------------HHHHHHH
Confidence            44567899999999999999999999999999999999999999999999                       9999999


Q ss_pred             HHHhhcccc--chHHHHHHHHHHHHH-HHHHHHHHHHHccccCCCCCc
Q 011050          128 EKLLNLQSN--SMKSHLLKANALILL-ERYDMARDAILSGLQVDPFSN  172 (494)
Q Consensus       128 ~~al~l~p~--~~~a~~~~g~~~~~~-~~~~~A~~~~~~al~l~p~~~  172 (494)
                      +++++++|.  +..+++.+|.++..+ |++++|++.+++++..+|.+.
T Consensus        64 ~~a~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~p~~~  111 (112)
T 2kck_A           64 NYVINVIEDEYNKDVWAAKADALRYIEGKEVEAEIAEARAKLEHHHHH  111 (112)
T ss_dssp             HHHHHTSCCTTCHHHHHHHHHHHTTCSSCSHHHHHHHHHHGGGCCCCC
T ss_pred             HHHHHhCcccchHHHHHHHHHHHHHHhCCHHHHHHHHHHHhhcccCCC
Confidence            999999999  999999999999999 999999999999999999764

>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=99.22  E-value=3.5e-12  Score=132.85  Aligned_cols=115  Identities=26%  Similarity=0.416  Sum_probs=107.8

Q ss_pred             HHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHH
Q 011050           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (494)
                      ..+..+...|..++..|+|++|+..|++|++++|+++.+|.++|.+|..+|+|                       ++|+
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            34566778899999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHH
Q 011050          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (494)
Q Consensus       125 ~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~  182 (494)
                      ..+++|++++|+++.+++.+|.+|..+|++++|++.|+++++++|++..++..+..+.
T Consensus        61 ~~~~~al~l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~l~~~~  118 (477)
T 1wao_1           61 GDATRAIELDKKYIKGYYRRAASNMALGKFRAALRDYETVVKVKPHDKDAKMKYQECN  118 (477)
T ss_dssp             HHHHHHHHSCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCTTHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999998877766653

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=99.20  E-value=7.8e-12  Score=101.61  Aligned_cols=96  Identities=17%  Similarity=0.240  Sum_probs=89.6

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      .+..+...|..++..|+|++|+..|.++++++|+++.++.++|.++..+|+|                       ++|+.
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 011050          126 DAEKLLNLQSNS------MKSHLLKANALILLERYDMARDAILSG  164 (494)
Q Consensus       126 ~~~~al~l~p~~------~~a~~~~g~~~~~~~~~~~A~~~~~~a  164 (494)
                      .++++++++|++      ..+++.+|.++..+|++++|+..+++.
T Consensus        60 ~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  104 (111)
T 2l6j_A           60 MCQQGLRYTSTAEHVAIRSKLQYRLELAQGAVGSVQIPVVEVDEL  104 (111)
T ss_dssp             HHHHHHTSCSSTTSHHHHHHHHHHHHHHHHHHHCCCCCSSSSSSC
T ss_pred             HHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHhHhhhHhHHHHh
Confidence            999999999998      999999999999999888887766554

>2ecw_A Tripartite motif-containing protein 30; metal binding protein, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.20  E-value=3.6e-12  Score=99.67  Aligned_cols=64  Identities=30%  Similarity=0.775  Sum_probs=52.3

Q ss_pred             CCCCcccccccccccccCcEEcCCCCcccHhhHHHhccC------CCCCCCCCcccccCCCCCcccccHHHH
Q 011050          197 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR------GNKCPLCRAVLFITPRTCAVSVTLNSI  262 (494)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~------~~~CP~Cr~~~~~~~~~~~~~~~l~~~  262 (494)
                      ......+.|+||++.+.+|+.++|||+||..|+..|+..      ...||.||..+..  ..+.+|..+.++
T Consensus        14 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~--~~~~~n~~l~~~   83 (85)
T 2ecw_A           14 EMIKEEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPF--GNLKPNLHVANI   83 (85)
T ss_dssp             CCCCTTTSCTTTCSCCSSCEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCT--TCCEECSCCCSS
T ss_pred             HhCccCCCCcCCChhhCcceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCH--HhCCcCHHHHHh
Confidence            345578899999999999999999999999999999876      5679999998743  456666665543

>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=99.19  E-value=3.6e-11  Score=106.95  Aligned_cols=118  Identities=13%  Similarity=0.191  Sum_probs=106.0

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHH-HHHHHhhhccCCCCCccccccCCCCCchhHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSA-YIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (494)
                      ....+...|..++..|+|++|+..|.++++++|+++.++.++|.+ +...|++.                     .++|+
T Consensus        43 ~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~---------------------~~~A~  101 (177)
T 2e2e_A           43 NSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHM---------------------TAQTR  101 (177)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCC---------------------CHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcc---------------------hHHHH
Confidence            356788999999999999999999999999999999999999999 77888851                     17999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhh
Q 011050          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERT  184 (494)
Q Consensus       125 ~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~  184 (494)
                      ..++++++++|++..+++.+|.+|..+|++++|+..|.++++++|++......+..+.+.
T Consensus       102 ~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~i~~~  161 (177)
T 2e2e_A          102 AMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPRINRTQLVESINMA  161 (177)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCCccHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999998776666555543

>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=99.18  E-value=8.4e-12  Score=110.63  Aligned_cols=71  Identities=28%  Similarity=0.734  Sum_probs=59.6

Q ss_pred             CCcccccccccccccCcEEc-CCCCcccHhhHHHhccC-CCCCCCCCcccccCCCCCcccccHHHHHHHhChHH
Q 011050          199 RTDDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDR-GNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEE  270 (494)
Q Consensus       199 ~~~~~~C~iC~~~~~~Pv~~-~cgh~fc~~Cl~~~~~~-~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~p~~  270 (494)
                      ....+.|+||++.+.+|+.+ +|||+||..||..|+.. ...||.||..+.. ...+.+|..+.+++.++++..
T Consensus        51 ~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~-~~~l~~~~~l~~~i~~~~~~~  123 (165)
T 2ckl_B           51 LHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVS-KRSLRPDPNFDALISKIYPSR  123 (165)
T ss_dssp             CHHHHBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCS-GGGEEECHHHHHHHHHHC---
T ss_pred             CCCCCCCcccChHhhCcCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCC-cccCCcCHHHHHHHHHHHcch
Confidence            34678999999999999987 99999999999999986 5679999998743 256788999999999998863

>2ecv_A Tripartite motif-containing protein 5; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.17  E-value=5.4e-12  Score=98.65  Aligned_cols=64  Identities=30%  Similarity=0.768  Sum_probs=52.3

Q ss_pred             CCCCcccccccccccccCcEEcCCCCcccHhhHHHhccC------CCCCCCCCcccccCCCCCcccccHHHH
Q 011050          197 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR------GNKCPLCRAVLFITPRTCAVSVTLNSI  262 (494)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~------~~~CP~Cr~~~~~~~~~~~~~~~l~~~  262 (494)
                      ......+.|+||++.+.+|+.++|||+||..|+..|+..      ...||.||..+..  .++.+|..+.++
T Consensus        14 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~--~~~~~n~~l~~~   83 (85)
T 2ecv_A           14 VNVKEEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQP--ENIRPNRHVANI   83 (85)
T ss_dssp             CCCCCCCCCTTTCSCCSSCBCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCS--SSCCCSCCCCCC
T ss_pred             HHccCCCCCCCCCcccCCceeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCH--HhcCccHHHHHh
Confidence            345567899999999999999999999999999999875      5689999998743  456666665543

>2yur_A Retinoblastoma-binding protein 6; P53-associated cellular protein of testis, proliferation potential-related protein, protein P2P-R; NMR {Homo sapiens}

Probab=99.17  E-value=2.3e-11  Score=92.43  Aligned_cols=52  Identities=23%  Similarity=0.745  Sum_probs=45.3

Q ss_pred             CCCCCcccccccccccccCcEEcC-CCCcccHhhHHHhccCC--CCCCCCCcccc
Q 011050          196 TPERTDDFDCTLCLKLLYEPITTP-CGHSFCRSCLFQSMDRG--NKCPLCRAVLF  247 (494)
Q Consensus       196 ~~~~~~~~~C~iC~~~~~~Pv~~~-cgh~fc~~Cl~~~~~~~--~~CP~Cr~~~~  247 (494)
                      .......+.|+||++.+.+|+.++ |||+||..||..|+...  ..||+||..+.
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 99999999999999744  58999999753

>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=99.16  E-value=1.2e-11  Score=102.86  Aligned_cols=62  Identities=27%  Similarity=0.688  Sum_probs=55.4

Q ss_pred             cccccccccccccCcEEc-CCCCcccHhhHHHhccCCCCCCCCCcccccCCCCCcccccHHHHHHHh
Q 011050          201 DDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKN  266 (494)
Q Consensus       201 ~~~~C~iC~~~~~~Pv~~-~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~  266 (494)
                      +.+.|+||++.+.+|+++ +|||+||..||..|+.  ..||.||..+.  ...+.+|..+.++++.+
T Consensus        21 ~~~~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~--~~~~~~n~~l~~l~~~~   83 (117)
T 1jm7_B           21 KLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAW--IQDLKINRQLDSMIQLC   83 (117)
T ss_dssp             HTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCS--CSSCCCCHHHHHHHHHH
T ss_pred             hCCCCCCCChHhhCccEeCCCCCHHHHHHHHHHhc--CCCcCCCCcCc--cccccccHHHHHHHHHH
Confidence            478899999999999999 9999999999999987  78999999873  35788999999998865

>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=99.15  E-value=2.9e-11  Score=131.56  Aligned_cols=113  Identities=11%  Similarity=-0.033  Sum_probs=69.9

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      ...+..+...|..++..|+|++|+..|+++++.+|++..+|+++|.+|..+|+|                       ++|
T Consensus       430 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~-----------------------~~A  486 (681)
T 2pzi_A          430 SESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLTGDY-----------------------DSA  486 (681)
T ss_dssp             TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTCH-----------------------HHH
T ss_pred             ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHcCCH-----------------------HHH
Confidence            334556666666666666666666666666666666666666666666666666                       666


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHH
Q 011050          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (494)
Q Consensus       124 ~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~  180 (494)
                      +..+++|++++|+++.+|+.+|.+|..+|++++ +..|+++++++|++..++..+..
T Consensus       487 ~~~~~~al~l~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~  542 (681)
T 2pzi_A          487 TKHFTEVLDTFPGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLAR  542 (681)
T ss_dssp             HHHHHHHHHHSTTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHH
Confidence            666666666666666666666666666666666 66666666666655555444433

>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=99.15  E-value=8.5e-11  Score=107.44  Aligned_cols=104  Identities=15%  Similarity=0.090  Sum_probs=98.2

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      +..+...|..++..|+|++|+..|.+++.++|+++.+|.++|.+|..+|++                       ++|+..
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            467889999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccch----------------HHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCch
Q 011050          127 AEKLLNLQSNSM----------------KSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (494)
Q Consensus       127 ~~~al~l~p~~~----------------~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~  173 (494)
                      +++++++.|.+.                .+++.+|.+|..+|++++|+..|+++++++|++..
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            999999777655                99999999999999999999999999999998643

>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.15  E-value=2.5e-11  Score=91.66  Aligned_cols=52  Identities=33%  Similarity=0.759  Sum_probs=46.5

Q ss_pred             CCCCCcccccccccccccCcEEc-CCCCcccHhhHHHhccCCCCCCCCCcccc
Q 011050          196 TPERTDDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (494)
Q Consensus       196 ~~~~~~~~~C~iC~~~~~~Pv~~-~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~  247 (494)
                      .....+.+.|+||++.+.+|+.+ +|||+||..||..|+.....||.||..+.
T Consensus         9 ~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   61 (72)
T 2djb_A            9 LSELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVH   61 (72)
T ss_dssp             CCCCCGGGSCTTTSSCCSSCEECSSSCCEECHHHHHHHHHHCSSCTTTCCCCC
T ss_pred             HhhcCCCCCCCCCChHHHCcCEECCCCCHHHHHHHHHHHHcCCcCCCcCcccC
Confidence            34456789999999999999997 99999999999999988889999999874

>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.14  E-value=2.9e-11  Score=91.06  Aligned_cols=51  Identities=29%  Similarity=0.729  Sum_probs=46.1

Q ss_pred             CCCCcccccccccccccCcEEcCCCCcccHhhHHHhccCCCCCCCCCcccc
Q 011050          197 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (494)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~  247 (494)
                      ......+.|+||++.+.+|+.++|||.||..||..|+..+..||+||..+.
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            345677899999999999999999999999999999988889999999863

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.14  E-value=1.4e-10  Score=109.99  Aligned_cols=113  Identities=11%  Similarity=0.100  Sum_probs=104.1

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC---cccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (494)
                      .+..++..|..+++.|+|++|+..|.++++..|++   +.+++++|.+|+.+|+|                       .+
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~-----------------------~~   70 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEY-----------------------LL   70 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCH-----------------------HH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcH-----------------------HH
Confidence            46788999999999999999999999999999999   88999999999999999                       99


Q ss_pred             HHHHHHHHhhcccc---chHHHHHHHHHHHH--------HHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          123 ALKDAEKLLNLQSN---SMKSHLLKANALIL--------LERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       123 a~~~~~~al~l~p~---~~~a~~~~g~~~~~--------~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      |+..++++++++|+   ...+++.+|.+|..        +|++++|+..|+++++.+|++..+......+
T Consensus        71 A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~  140 (261)
T 3qky_A           71 AASEYERFIQIYQIDPRVPQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPNHELVDDATQKI  140 (261)
T ss_dssp             HHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTTCTTHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCCchhHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcCchhHHHHHHHH
Confidence            99999999999874   46799999999999        9999999999999999999998777665443

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.14  E-value=7.5e-12  Score=109.28  Aligned_cols=97  Identities=9%  Similarity=-0.082  Sum_probs=88.6

Q ss_pred             HHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHH
Q 011050           66 AISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKA  145 (494)
Q Consensus        66 Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g  145 (494)
                      +-..|.+++.++|+++.+++++|.+++..|+|                       ++|+..+++++.++|+++.+|+.+|
T Consensus        21 ~~~~l~~al~l~p~~~~~~~~lg~~~~~~g~~-----------------------~eA~~~~~~al~~~P~~~~~~~~lg   77 (151)
T 3gyz_A           21 SGATLKDINAIPDDMMDDIYSYAYDFYNKGRI-----------------------EEAEVFFRFLCIYDFYNVDYIMGLA   77 (151)
T ss_dssp             TSCCTGGGCCSCHHHHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             CCCCHHHHhCCCHHHHHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            33568888999999999999999999999999                       9999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhh
Q 011050          146 NALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (494)
Q Consensus       146 ~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~  185 (494)
                      .+|..+|+|++|+..|+++++++|++..++..+..+-..+
T Consensus        78 ~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~lg~~~~~l  117 (151)
T 3gyz_A           78 AIYQIKEQFQQAADLYAVAFALGKNDYTPVFHTGQCQLRL  117 (151)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHHHHHHHHHT
T ss_pred             HHHHHHccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHc
Confidence            9999999999999999999999999998877665554444

>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=99.14  E-value=1.8e-11  Score=101.15  Aligned_cols=66  Identities=27%  Similarity=0.816  Sum_probs=55.2

Q ss_pred             cccccccccccccCcEEcCCCCcccHhhHHHhccCC---CCCCCCCcccccCCCCCcccccHHHHHHHhCh
Q 011050          201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRG---NKCPLCRAVLFITPRTCAVSVTLNSIIQKNFP  268 (494)
Q Consensus       201 ~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~~---~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~p  268 (494)
                      ..+.|+||++.+.+|+.++|||+||..||..|+...   ..||.||..+.  ...+..|..+.++++.+..
T Consensus        20 ~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~--~~~~~~~~~l~~~~~~~~~   88 (112)
T 1jm7_A           20 KILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDIT--KRSLQESTRFSQLVEELLK   88 (112)
T ss_dssp             HHTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCC--TTTCBCCCSSSHHHHHHHH
T ss_pred             CCCCCcccChhhcCeEECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCC--HhhcCccHHHHHHHHHHHH
Confidence            467899999999999999999999999999999754   37999999874  3567777778888776543

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.13  E-value=6.8e-11  Score=110.65  Aligned_cols=113  Identities=19%  Similarity=0.289  Sum_probs=104.7

Q ss_pred             HHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHH
Q 011050           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (494)
                      .....+...|..++..|+|++|+..|.++++.+|.++.++.++|.++...|++                       ++|+
T Consensus       137 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~-----------------------~~A~  193 (258)
T 3uq3_A          137 EKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSF-----------------------PEAI  193 (258)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHH
T ss_pred             chHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCH-----------------------HHHH
Confidence            34567888999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCC------CCCchhHHHHHH
Q 011050          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVD------PFSNPLQASLQN  180 (494)
Q Consensus       125 ~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~------p~~~~~~~~~~~  180 (494)
                      ..++++++++|+++.+++.+|.+|..+|++++|+..|+++++++      |++..+...+..
T Consensus       194 ~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~p~~~~~~~~l~~  255 (258)
T 3uq3_A          194 ADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYK  255 (258)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHH
T ss_pred             HHHHHHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhChhhcCCCchHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999      887777666554

>2ecy_A TNF receptor-associated factor 3; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.12  E-value=3.9e-11  Score=88.93  Aligned_cols=51  Identities=31%  Similarity=0.808  Sum_probs=44.6

Q ss_pred             CCCCcccccccccccccCcEEcCCCCcccHhhHHHhcc-CCCCCCCCCcccc
Q 011050          197 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD-RGNKCPLCRAVLF  247 (494)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~-~~~~CP~Cr~~~~  247 (494)
                      ....+.+.|+||++.+.+|+.++|||+||..||..|+. ....||.||..+.
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            34456799999999999999999999999999999995 4567999999874

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.11  E-value=2.5e-10  Score=106.04  Aligned_cols=114  Identities=14%  Similarity=0.149  Sum_probs=102.5

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc---ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      +..+...|..++..|+|++|+..|.+++...|+++   .++.++|.+|+..|+|                       ++|
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------------------HHHHHHHHHHHHccccCCCCCchhHHHHHHHH
Q 011050          124 LKDAEKLLNLQSNSMK---SHLLKANALIL------------------LERYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (494)
Q Consensus       124 ~~~~~~al~l~p~~~~---a~~~~g~~~~~------------------~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~  182 (494)
                      +..++++++.+|++..   +++.+|.+|..                  .|++++|+..|+++++.+|++..+..+...+.
T Consensus        61 ~~~~~~~l~~~P~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~~~~a~~a~~~l~  140 (225)
T 2yhc_A           61 QAAIDRFIRLNPTHPNIDYVMYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGYPNSQYTTDATKRLV  140 (225)
T ss_dssp             HHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTCTTCTTHHHHHHHHH
T ss_pred             HHHHHHHHHHCcCCCcHHHHHHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHCcCChhHHHHHHHHH
Confidence            9999999999999875   89999999876                  57999999999999999999998776655443


Q ss_pred             h
Q 011050          183 R  183 (494)
Q Consensus       183 ~  183 (494)
                      .
T Consensus       141 ~  141 (225)
T 2yhc_A          141 F  141 (225)
T ss_dssp             H
T ss_pred             H
Confidence            3

>2ysl_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.11  E-value=6.2e-11  Score=89.74  Aligned_cols=51  Identities=35%  Similarity=0.858  Sum_probs=44.6

Q ss_pred             CCCCcccccccccccccCcEEcCCCCcccHhhHHHhcc---CCCCCCCCCcccc
Q 011050          197 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD---RGNKCPLCRAVLF  247 (494)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~---~~~~CP~Cr~~~~  247 (494)
                      ......+.|+||++.+.+|+.++|||+||..||..|+.   ....||.||..+.
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            34567889999999999999999999999999999996   3457999999874

>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=2.4e-10  Score=112.15  Aligned_cols=118  Identities=14%  Similarity=0.220  Sum_probs=108.9

Q ss_pred             HHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc----ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHH
Q 011050           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (494)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (494)
                      .....|..++..|++++|+..|.++++..|+++    .++.++|.++...|++                       ++|+
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            345669999999999999999999999999987    4466799999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhhhh
Q 011050          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLI  189 (494)
Q Consensus       125 ~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~  189 (494)
                      ..++++++++|+++.+++.+|.+|..+|++++|+..|+++++++|++..++..+..+...+++..
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            99999999999999999999999999999999999999999999999999999998888776654

>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=99.10  E-value=2.3e-10  Score=104.55  Aligned_cols=102  Identities=16%  Similarity=0.174  Sum_probs=95.6

Q ss_pred             HHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHH
Q 011050           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (494)
                      ..+..+...|..++..|+|++|+..|.+++  +| ++.++.++|.+|...|++                       ++|+
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            346678899999999999999999999996  33 678999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCc
Q 011050          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (494)
Q Consensus       125 ~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~  172 (494)
                      ..++++++++|+++.+++.+|.+|..+|++++|+..|++++++.|.+.
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

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.09  E-value=1.4e-10  Score=120.56  Aligned_cols=118  Identities=16%  Similarity=0.068  Sum_probs=108.9

Q ss_pred             HHHHHHHHHHHHh---------cChHHHHHHHHHHhccCCCCcccccChhHHHHHH--------HhhhccCCCCCccccc
Q 011050           48 FDLVQKGNRAFRE---------SNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRI--------SQFLKHRPPSASEYRP  110 (494)
Q Consensus        48 ~~~~~~g~~~~~~---------~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~--------~~~~~~~~~~~~~~~~  110 (494)
                      ..+...|..++..         |+|++|+..|.+|++++|+++.+|.++|.+|..+        |++             
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            5677788889998         9999999999999999999999999999999999        999             


Q ss_pred             cCCCCCchhHHHHHHHHHHHhhccc---cchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhh
Q 011050          111 LNGLDPTTHAELALKDAEKLLNLQS---NSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  187 (494)
Q Consensus       111 ~~~~~~~~~~~~a~~~~~~al~l~p---~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~  187 (494)
                                ++|+..++++++++|   +++.+|+.+|.+|..+|++++|+..|+++++++|++..++..+..+...+..
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   9999999999999999999999999999999999999887777666555544


Q ss_pred             h
Q 011050          188 L  188 (494)
Q Consensus       188 ~  188 (494)
                      .
T Consensus       308 ~  308 (474)
T 4abn_A          308 L  308 (474)
T ss_dssp             H
T ss_pred             H
Confidence            3

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.09  E-value=2e-10  Score=108.73  Aligned_cols=109  Identities=22%  Similarity=0.173  Sum_probs=103.7

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      ...+..+...|..++..|++++|+..|.++++++|+++.+|.++|.+|...|++                       ++|
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            455778899999999999999999999999999999999999999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhH
Q 011050          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  175 (494)
Q Consensus       124 ~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~  175 (494)
                      +..++++++++|++..+++.+|.+|..+|++++|+..|+++++++|++....
T Consensus        97 ~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~  148 (275)
T 1xnf_A           97 YEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPNDPFRS  148 (275)
T ss_dssp             HHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCChHHH
Confidence            9999999999999999999999999999999999999999999999987543

>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=99.09  E-value=4.1e-11  Score=106.84  Aligned_cols=132  Identities=11%  Similarity=0.062  Sum_probs=101.4

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchh--------
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH--------  119 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------  119 (494)
                      ..++..|..++..|++++|+..|.++++.+|+++.++.++|.++...|++-+    +-..++.+...+| +.        
T Consensus         7 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~----A~~~~~~a~~~~p-~~~~~~~~~~   81 (176)
T 2r5s_A            7 EQLLKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFEL----AQELLATIPLEYQ-DNSYKSLIAK   81 (176)
T ss_dssp             TTHHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHH----HHHHHTTCCGGGC-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHH----HHHHHHHhhhccC-ChHHHHHHHH
Confidence            3466788888888889999999999888888888888888888888887622    2222333333333 10        


Q ss_pred             --------HHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCc--hhHHHHHHHHhh
Q 011050          120 --------AELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN--PLQASLQNLERT  184 (494)
Q Consensus       120 --------~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~--~~~~~~~~~~~~  184 (494)
                              ...|+..++++++++|+++.+++.+|.+|...|++++|+..|+++++++|++.  .++..+..+-..
T Consensus        82 ~~~~~~~~~~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~  156 (176)
T 2r5s_A           82 LELHQQAAESPELKRLEQELAANPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSA  156 (176)
T ss_dssp             HHHHHHHTSCHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHH
T ss_pred             HHHHhhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHH
Confidence                    02368889999999999999999999999999999999999999999999864  366555544433

>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=99.09  E-value=3.9e-11  Score=100.01  Aligned_cols=67  Identities=30%  Similarity=0.725  Sum_probs=54.5

Q ss_pred             CCCCcccccccccccccCcEEcCCCCcccHhhHHHhccCCC-CCCCCCcccccCCCCCcccccHHHHHHH
Q 011050          197 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGN-KCPLCRAVLFITPRTCAVSVTLNSIIQK  265 (494)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~~~-~CP~Cr~~~~~~~~~~~~~~~l~~~~~~  265 (494)
                      ....+.+.|+||++.+.+|+.++|||+||..||..|+..+. .||.||..+..  ..+.++..+.+.+..
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  345566666666654

>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=99.09  E-value=1.7e-10  Score=122.54  Aligned_cols=118  Identities=14%  Similarity=0.061  Sum_probs=108.5

Q ss_pred             HHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHH
Q 011050           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (494)
                      ..+..+...|..++..|+|++|+..|.+|++++|+++.++.++|.+|..+|++                       ++|+
T Consensus        21 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~-----------------------~~A~   77 (568)
T 2vsy_A           21 QDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRH-----------------------AEAA   77 (568)
T ss_dssp             CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCH-----------------------HHHH
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCH-----------------------HHHH
Confidence            34678889999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhh
Q 011050          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (494)
Q Consensus       125 ~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~  185 (494)
                      ..++++++++|++..+++.+|.+|..+|++++|++.|+++++++|++..+...+..+...+
T Consensus        78 ~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~  138 (568)
T 2vsy_A           78 VLLQQASDAAPEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRL  138 (568)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999999999999999987766555444433

>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=99.07  E-value=5.5e-11  Score=129.34  Aligned_cols=111  Identities=6%  Similarity=-0.086  Sum_probs=103.8

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      +..+...|..++..|+|++|+..|.+|++++|+++.+|.++|.+|..+|+|                       ++ +..
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            456788999999999999999999999999999999999999999999999                       88 999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      +++|++++|++..+|+.+|.+|..+|++++|+++|+++++++|++..++..+..+
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            9999999999999999999999999999999999999999999998887666555

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.07  E-value=9.9e-11  Score=113.34  Aligned_cols=136  Identities=12%  Similarity=0.075  Sum_probs=110.6

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhH-----
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA-----  120 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----  120 (494)
                      ....+...|..++..|++++|+..|.++++.+|+++.++.++|.++...|++    +.+-..++.+...+|....     
T Consensus       116 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~----~~A~~~l~~~~~~~p~~~~~~~~~  191 (287)
T 3qou_A          116 EEELXAQQAMQLMQESNYTDALPLLXDAWQLSNQNGEIGLLLAETLIALNRS----EDAEAVLXTIPLQDQDTRYQGLVA  191 (287)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHTTCH----HHHHHHHTTSCGGGCSHHHHHHHH
T ss_pred             chhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCcchhHHHHHHHHHHHCCCH----HHHHHHHHhCchhhcchHHHHHHH
Confidence            3466789999999999999999999999999999999999999999999987    2233334444444442111     


Q ss_pred             ----------HHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCC--chhHHHHHHHHhhh
Q 011050          121 ----------ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS--NPLQASLQNLERTT  185 (494)
Q Consensus       121 ----------~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~--~~~~~~~~~~~~~~  185 (494)
                                .+|+..+++++.++|+++.+++.+|.+|...|++++|++.|.++++++|++  ..++..+..+-..+
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                      346788899999999999999999999999999999999999999999998  66666665554444

>2ysj_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.06  E-value=1.2e-10  Score=85.33  Aligned_cols=46  Identities=39%  Similarity=0.945  Sum_probs=40.6

Q ss_pred             CCCCcccccccccccccCcEEcCCCCcccHhhHHHhcc---CCCCCCCC
Q 011050          197 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD---RGNKCPLC  242 (494)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~---~~~~CP~C  242 (494)
                      ....+.+.|+||++.+.+|+.++|||+||..||..|+.   ....||+|
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            34567889999999999999999999999999999997   34579998

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=99.05  E-value=2.1e-10  Score=91.47  Aligned_cols=93  Identities=10%  Similarity=0.052  Sum_probs=85.8

Q ss_pred             HHHHHHHHHHhcChHHHHHHHHHHhccCCCCcc-cccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHH
Q 011050           50 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPI-VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (494)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (494)
                      .+.+|..++..|+|++|+..|.++++.+|+++. ++.++|.+|..+|++                       ++|+..++
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 011050          129 KLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (494)
Q Consensus       129 ~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~  173 (494)
                      ++++++|++..++++        +.+.+|+..|.++...+|++..
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            999999999988754        7888999999999999988754

>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=99.05  E-value=4.6e-10  Score=93.27  Aligned_cols=110  Identities=25%  Similarity=0.324  Sum_probs=99.8

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (494)
                      ..+...|..++..|++++|+..|.++++.+|.+..++.++|.++...|++                       ++|+..+
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 011050          128 EKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (494)
Q Consensus       128 ~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~  180 (494)
                      ++++..+|.+..+++.+|.++...|++++|+..+.++++.+|.+..+...+..
T Consensus        59 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~  111 (136)
T 2fo7_A           59 QKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGN  111 (136)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHCCCchHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHH
Confidence            99999999999999999999999999999999999999999988766554443

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.05  E-value=4.4e-10  Score=110.26  Aligned_cols=112  Identities=19%  Similarity=0.309  Sum_probs=105.3

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      ++..+...|..++..|+|++|+..|.++++.+|+++.++.++|.++..+|++                       ++|+.
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            3678899999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCC---CCchhHHHHHH
Q 011050          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP---FSNPLQASLQN  180 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p---~~~~~~~~~~~  180 (494)
                      .++++++++|++..+++.+|.+|...|++++|+..|.++++++|   ++..+...+..
T Consensus        59 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~  116 (359)
T 3ieg_A           59 DLTKVIALKMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVK  116 (359)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCcchHHHHHHHHHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999   77776655543

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.04  E-value=7.6e-11  Score=99.39  Aligned_cols=92  Identities=13%  Similarity=0.079  Sum_probs=81.4

Q ss_pred             HHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHH
Q 011050           71 SRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALIL  150 (494)
Q Consensus        71 ~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~  150 (494)
                      .++..++|+.+..+.++|.+|++.|+|                       ++|+..++++++++|.++.+|+.+|.+|..
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            355678999999999999999999999                       999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhh
Q 011050          151 LERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (494)
Q Consensus       151 ~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~  185 (494)
                      +|++++|+.+|+++++++|++..++..+..+-..+
T Consensus        60 ~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~   94 (126)
T 4gco_A           60 LMEFQRALDDCDTCIRLDSKFIKGYIRKAACLVAM   94 (126)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             hccHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHC
Confidence            99999999999999999999998776665554444

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.04  E-value=5.9e-10  Score=105.65  Aligned_cols=116  Identities=18%  Similarity=0.155  Sum_probs=103.5

Q ss_pred             HHHHHHHHHHHHH--------hcChHHHHHHHHHHhccCCCCcccc-----------------cChhHHHHHHHhhhccC
Q 011050           47 VFDLVQKGNRAFR--------ESNFEEAISNYSRANNIKPGDPIVL-----------------GNRSSAYIRISQFLKHR  101 (494)
Q Consensus        47 ~~~~~~~g~~~~~--------~~~~~~Ai~~y~~al~~~p~~~~~~-----------------~~~a~~~~~~~~~~~~~  101 (494)
                      ...+...|..++.        .|++++|+..|.++++..|++..+.                 +++|.+|+..|+|    
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             CCCCccccccCCCCCchhHHHHHHHHHHHhhcccc---chHHHHHHHHHHHHH----------HHHHHHHHHHHccccCC
Q 011050          102 PPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSN---SMKSHLLKANALILL----------ERYDMARDAILSGLQVD  168 (494)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~---~~~a~~~~g~~~~~~----------~~~~~A~~~~~~al~l~  168 (494)
                                         ++|+..++++++..|+   ...+++.+|.+|..+          |++++|+..|+++++.+
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   677999999999977          99999999999999999


Q ss_pred             CCCchhHHHHHHHHhhh
Q 011050          169 PFSNPLQASLQNLERTT  185 (494)
Q Consensus       169 p~~~~~~~~~~~~~~~~  185 (494)
                      |+++.+..+...+....
T Consensus       226 p~~~~~~~a~~~l~~~~  242 (261)
T 3qky_A          226 PDSPLLRTAEELYTRAR  242 (261)
T ss_dssp             TTCTHHHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHH
Confidence            99987666655544433

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=99.04  E-value=1.4e-10  Score=95.35  Aligned_cols=86  Identities=15%  Similarity=0.070  Sum_probs=82.1

Q ss_pred             HHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHH
Q 011050           64 EEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLL  143 (494)
Q Consensus        64 ~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~  143 (494)
                      ++|+..|.++++.+|+++.++.++|.+|...|++                       ++|+..++++++++|++..+|+.
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            3588999999999999999999999999999999                       99999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHccccCCCCCc
Q 011050          144 KANALILLERYDMARDAILSGLQVDPFSN  172 (494)
Q Consensus       144 ~g~~~~~~~~~~~A~~~~~~al~l~p~~~  172 (494)
                      +|.+|..+|++++|+..|+++++++|.+.
T Consensus        59 la~~~~~~g~~~~A~~~~~~al~~~~~~~   87 (115)
T 2kat_A           59 LGKTLQGQGDRAGARQAWESGLAAAQSRG   87 (115)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhccccc
Confidence            99999999999999999999999998644

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.03  E-value=4.8e-10  Score=116.11  Aligned_cols=107  Identities=24%  Similarity=0.333  Sum_probs=101.7

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      .+.+..++..|+.+++.|+|++|+..|++++..+| ++.+|.++|.++..+|++                       ++|
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            45688999999999999999999999999999999 699999999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchh
Q 011050          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  174 (494)
Q Consensus       124 ~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~  174 (494)
                      +..++++++++|++..+++.+|.+|..+|++++|+..|+++++++|.+...
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            999999999999999999999999999999999999999999999966543

>2ct2_A Tripartite motif protein 32; zinc-finger protein HT2A, TAT- interacting protein, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.03  E-value=1e-10  Score=92.01  Aligned_cols=52  Identities=27%  Similarity=0.777  Sum_probs=45.2

Q ss_pred             CCCCCcccccccccccccC----cEEcCCCCcccHhhHHHhccCC---CCCCCCCcccc
Q 011050          196 TPERTDDFDCTLCLKLLYE----PITTPCGHSFCRSCLFQSMDRG---NKCPLCRAVLF  247 (494)
Q Consensus       196 ~~~~~~~~~C~iC~~~~~~----Pv~~~cgh~fc~~Cl~~~~~~~---~~CP~Cr~~~~  247 (494)
                      .......+.|+||++.+.+    |+.++|||+||..|+..|+...   ..||.||..+.
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            3445567899999999999    9999999999999999998754   68999999874

>3ng2_A RNF4, snurf, ring finger protein 4; ring domain, E3 ligase, ubiquitylation, sumoylation, zinc-FI metal binding protein; 1.80A {Rattus norvegicus}

Probab=99.03  E-value=9.8e-11  Score=88.08  Aligned_cols=49  Identities=35%  Similarity=0.873  Sum_probs=44.6

Q ss_pred             CCcccccccccccccCc-------EEcCCCCcccHhhHHHhccCCCCCCCCCcccc
Q 011050          199 RTDDFDCTLCLKLLYEP-------ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (494)
Q Consensus       199 ~~~~~~C~iC~~~~~~P-------v~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~  247 (494)
                      ..+.+.|+||++.+.+|       +.++|||+||..||..|+.....||.||..+.
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            44678999999999998       88999999999999999988889999999874

>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=99.02  E-value=2.3e-10  Score=119.57  Aligned_cols=111  Identities=26%  Similarity=0.353  Sum_probs=97.5

Q ss_pred             chhhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchh
Q 011050           40 PWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH  119 (494)
Q Consensus        40 ~~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (494)
                      ..+....+..+...|..+++.|+|++|+..|++++..+|+++.+|.++|.+|..+|++                      
T Consensus        18 ~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~----------------------   75 (537)
T 3fp2_A           18 PSQRQAYAVQLKNRGNHFFTAKNFNEAIKYYQYAIELDPNEPVFYSNISACYISTGDL----------------------   75 (537)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCCC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH----------------------
T ss_pred             cchhHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCH----------------------
Confidence            3455667899999999999999999999999999999999999999999999999999                      


Q ss_pred             HHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchh
Q 011050          120 AELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  174 (494)
Q Consensus       120 ~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~  174 (494)
                       ++|+..++++++++|+++.+++.+|.+|..+|++++|+..|+ ++.++|+....
T Consensus        76 -~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~-~~~~~~~~~~~  128 (537)
T 3fp2_A           76 -EKVIEFTTKALEIKPDHSKALLRRASANESLGNFTDAMFDLS-VLSLNGDFDGA  128 (537)
T ss_dssp             -HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHH-HHC--------
T ss_pred             -HHHHHHHHHHHhcCCchHHHHHHHHHHHHHcCCHHHHHHHHH-HHhcCCCCChH
Confidence             999999999999999999999999999999999999999996 88999986643

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.02  E-value=4.2e-10  Score=117.00  Aligned_cols=114  Identities=17%  Similarity=0.129  Sum_probs=86.2

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHH---------HhhhccCCCCCccccccCCCCCch
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRI---------SQFLKHRPPSASEYRPLNGLDPTT  118 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~  118 (494)
                      ..+...|..++..|+|++|+.+|.+|++++|+ +.++.++|.+|..+         |++                     
T Consensus       138 ~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~lg~~~~~~~~~~~~~~~g~~---------------------  195 (474)
T 4abn_A          138 EAWNQLGEVYWKKGDVTSAHTCFSGALTHCKN-KVSLQNLSMVLRQLQTDSGDEHSRHV---------------------  195 (474)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHTTCCC-HHHHHHHHHHHTTCCCSCHHHHHHHH---------------------
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-HHHHHHHHHHHHHhccCChhhhhhhH---------------------
Confidence            34455555555555555555555555555555 45555555555555         555                     


Q ss_pred             hHHHHHHHHHHHhhccccchHHHHHHHHHHHHH--------HHHHHHHHHHHccccCCC---CCchhHHHHHHHHhhh
Q 011050          119 HAELALKDAEKLLNLQSNSMKSHLLKANALILL--------ERYDMARDAILSGLQVDP---FSNPLQASLQNLERTT  185 (494)
Q Consensus       119 ~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~--------~~~~~A~~~~~~al~l~p---~~~~~~~~~~~~~~~~  185 (494)
                        ++|+..++++++++|++..+|+.+|.+|..+        |++++|+..|+++++++|   ++..++..+..+...+
T Consensus       196 --~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~  271 (474)
T 4abn_A          196 --MDSVRQAKLAVQMDVLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYE  271 (474)
T ss_dssp             --HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHT
T ss_pred             --HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHc
Confidence              9999999999999999999999999999999        999999999999999999   8888777665554444

>1bor_A Transcription factor PML; proto-oncogene, nuclear bodies (PODS), leukemia, transcription regulation; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=99.02  E-value=1e-10  Score=83.52  Aligned_cols=47  Identities=30%  Similarity=0.683  Sum_probs=40.8

Q ss_pred             CCcccccccccccccCcEEcCCCCcccHhhHHHhccCCCCCCCCCccccc
Q 011050          199 RTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFI  248 (494)
Q Consensus       199 ~~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~~  248 (494)
                      ..+.+.|+||++.+.+|+.++|||+||..|+..   ....||.||..+..
T Consensus         3 e~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~---~~~~CP~Cr~~~~~   49 (56)
T 1bor_A            3 EFQFLRCQQCQAEAKCPKLLPCLHTLCSGCLEA---SGMQCPICQAPWPL   49 (56)
T ss_dssp             SCCCSSCSSSCSSCBCCSCSTTSCCSBTTTCSS---SSSSCSSCCSSSSC
T ss_pred             cccCCCceEeCCccCCeEEcCCCCcccHHHHcc---CCCCCCcCCcEeec
Confidence            346789999999999999999999999999876   24579999998753

>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=99.01  E-value=9.7e-10  Score=96.90  Aligned_cols=111  Identities=16%  Similarity=0.170  Sum_probs=84.9

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      ...+...|..++..|++++|+..|.++++.+|.+..++.++|.++...|++                       ++|+..
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            455667777777778888888888888887777777777788888887887                       788888


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHH
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~  180 (494)
                      ++++++.+|.+..+++.+|.+|...|++++|+..++++++.+|++..+...+..
T Consensus        99 ~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~  152 (186)
T 3as5_A           99 LIKVAEANPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAF  152 (186)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHhcCcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHH
Confidence            888888888777788888888888888888888888888777777655544433

>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=99.01  E-value=6.7e-10  Score=97.97  Aligned_cols=113  Identities=13%  Similarity=0.159  Sum_probs=105.3

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      .+..+...|..++..|++++|+..|.+++..+|.+..++..+|.++...|++                       ++|+.
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            3567888999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      .++++++.+|.+..+++.+|.++...|++++|+..+.++++++|.+..+...+..+
T Consensus        64 ~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~  119 (186)
T 3as5_A           64 LLERSLADAPDNVKVATVLGLTYVQVQKYDLAVPLLIKVAEANPINFNVRFRLGVA  119 (186)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcHhHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999988766555444

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.01  E-value=4.9e-10  Score=106.08  Aligned_cols=114  Identities=16%  Similarity=0.236  Sum_probs=88.6

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (494)
                      ..+...|..++..|+|++|+..|.++++.+|+++.++.++|.+|...|++                       ++|+..+
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            45677888888888888888888888888888888888888888888888                       8888888


Q ss_pred             HHHhhccccc----hHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhh
Q 011050          128 EKLLNLQSNS----MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (494)
Q Consensus       128 ~~al~l~p~~----~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~  185 (494)
                      +++++ .|.+    ..+|+.+|.+|..+|++++|+..|+++++++|++..+...+..+-...
T Consensus        61 ~~a~~-~~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~  121 (272)
T 3u4t_A           61 ETYFS-KVNATKAKSADFEYYGKILMKKGQDSLAIQQYQAAVDRDTTRLDMYGQIGSYFYNK  121 (272)
T ss_dssp             HHHHT-TSCTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHT
T ss_pred             HHHHh-ccCchhHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHc
Confidence            88887 3333    345788888888888888888888888888888777666555544333

>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=99.01  E-value=1.5e-10  Score=96.24  Aligned_cols=48  Identities=35%  Similarity=0.984  Sum_probs=43.7

Q ss_pred             CcccccccccccccCcEEcCCCCcccHhhHHHhccC-CCCCCCCCcccc
Q 011050          200 TDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR-GNKCPLCRAVLF  247 (494)
Q Consensus       200 ~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~-~~~CP~Cr~~~~  247 (494)
                      ...+.|+||++.+.+|+.++|||+||..||..|+.. +..||.||..+.
T Consensus        21 ~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   69 (116)
T 1rmd_A           21 VKSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCF   69 (116)
T ss_dssp             HHHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             cCCCCCCCCCcHhcCcEEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCC
Confidence            357899999999999999999999999999999986 678999999874

>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=99.00  E-value=1.4e-10  Score=107.40  Aligned_cols=67  Identities=18%  Similarity=0.344  Sum_probs=57.9

Q ss_pred             CCCcccccccccccccCcEEc-CCCCcccHhhHHHhccCC--CCCCC--CCcccccCCCCCcccccHHHHHHHh
Q 011050          198 ERTDDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDRG--NKCPL--CRAVLFITPRTCAVSVTLNSIIQKN  266 (494)
Q Consensus       198 ~~~~~~~C~iC~~~~~~Pv~~-~cgh~fc~~Cl~~~~~~~--~~CP~--Cr~~~~~~~~~~~~~~~l~~~~~~~  266 (494)
                      .....+.||||+++|.+||+. .|||+||+.||..|+..+  ..||+  |+..+.  ..++.+|..|.++++.+
T Consensus       177 ~~~~el~CPIcl~~f~DPVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~--~~dL~pN~~L~~lve~~  248 (267)
T 3htk_C          177 GGKIELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVS--MRDFVRDPIMELRCKIA  248 (267)
T ss_dssp             SSBCCSBCTTTSSBCSSEEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEEC--GGGEEECHHHHHHHHHH
T ss_pred             CCceeeECcCccCcccCCeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCc--hhhCCcCHHHHHHHHHH
Confidence            456788999999999999985 999999999999999754  46999  999874  36889999999998764

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.00  E-value=4.8e-10  Score=103.99  Aligned_cols=113  Identities=14%  Similarity=0.064  Sum_probs=90.7

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      ....+...|..++..|++++|+..|.++++..|.+..++.++|.++...|++                       ++|+.
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            3566777888888888888888888888888888888888888888888888                       88888


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      .++++++++|++..+++.+|.++...|++++|+..|+++++.+|++..+...+..+
T Consensus       147 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~  202 (243)
T 2q7f_A          147 YLQRAVELNENDTEARFQFGMCLANEGMLDEALSQFAAVTEQDPGHADAFYNAGVT  202 (243)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHhCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHH
Confidence            88888888888888888888888888888888888888888888777665544433

>2ea6_A Ring finger protein 4; RNF4, RES4-26, ring domain, zinc- binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.99  E-value=1.4e-10  Score=86.63  Aligned_cols=50  Identities=34%  Similarity=0.864  Sum_probs=44.7

Q ss_pred             CCCCcccccccccccccCc-------EEcCCCCcccHhhHHHhccCCCCCCCCCccc
Q 011050          197 PERTDDFDCTLCLKLLYEP-------ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (494)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~P-------v~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~  246 (494)
                      ........|+||++.+.+|       +.++|||.||..||..|+.....||+||..+
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~   66 (69)
T 2ea6_A           10 LRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI   66 (69)
T ss_dssp             CCTTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHCSSCTTTCCCC
T ss_pred             cCCCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcCCCCCCCCCcc
Confidence            3445678999999999988       8899999999999999998888999999976

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=98.99  E-value=5.1e-10  Score=111.16  Aligned_cols=102  Identities=19%  Similarity=0.159  Sum_probs=94.7

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      +..+...|..+...|++++|+..|.++++.+|+++.+|.++|.+|...|++                       ++|+..
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            456778899999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCC
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~  171 (494)
                      ++++++++|+++.+++.+|.+|..+|++++|+..|+++++++|++
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            999999999999999999999999999999999999999998874

>2ecj_A Tripartite motif-containing protein 39; TRIM39, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.99  E-value=3.3e-10  Score=81.46  Aligned_cols=46  Identities=35%  Similarity=0.977  Sum_probs=39.8

Q ss_pred             CCCCcccccccccccccCcEEcCCCCcccHhhHHHhcc---CCCCCCCC
Q 011050          197 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD---RGNKCPLC  242 (494)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~---~~~~CP~C  242 (494)
                      ....+.+.|+||++.+.+|+.++|||+||..||..|+.   ....||+|
T Consensus        10 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           10 ENLQVEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             SCSCCCCBCSSSCCBCSSCCCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             hccccCCCCccCCcccCccEeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            34556789999999999999999999999999999954   44679988

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.98  E-value=1.1e-10  Score=101.36  Aligned_cols=95  Identities=14%  Similarity=0.007  Sum_probs=87.1

Q ss_pred             HHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHH
Q 011050           67 ISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKAN  146 (494)
Q Consensus        67 i~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~  146 (494)
                      -..|.+++.++|++..+++++|.+++..|+|                       ++|+..+++++.++|+++.+|+.+|.
T Consensus         7 ~~~~~~al~~~p~~~~~~~~~g~~~~~~g~~-----------------------~~A~~~~~~al~~~p~~~~~~~~lg~   63 (148)
T 2vgx_A            7 GGTIAMLNEISSDTLEQLYSLAFNQYQSGXY-----------------------EDAHXVFQALCVLDHYDSRFFLGLGA   63 (148)
T ss_dssp             CCSHHHHTTCCHHHHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             hhhHHHHHcCCHhhHHHHHHHHHHHHHcCCh-----------------------HHHHHHHHHHHHcCcccHHHHHHHHH
Confidence            3468899999999999999999999999999                       99999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhh
Q 011050          147 ALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERT  184 (494)
Q Consensus       147 ~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~  184 (494)
                      +|..+|++++|+..|+++++++|++..+...+..+-..
T Consensus        64 ~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~  101 (148)
T 2vgx_A           64 CRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAECLLQ  101 (148)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHHH
Confidence            99999999999999999999999999877665544333

>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=8.4e-10  Score=109.28  Aligned_cols=116  Identities=16%  Similarity=0.129  Sum_probs=103.4

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      +..+...|..++..|++++|+..|.+++.++|+++.+|.++|.++...|++                       ++|+..
T Consensus       217 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~-----------------------~~A~~~  273 (368)
T 1fch_A          217 PDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQS-----------------------EEAVAA  273 (368)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHcCCH-----------------------HHHHHH
Confidence            566778899999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCC-----------chhHHHHHHHHhhh
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS-----------NPLQASLQNLERTT  185 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~-----------~~~~~~~~~~~~~~  185 (494)
                      ++++++++|++..+++.+|.+|..+|++++|+..|+++++++|++           ..++..+..+-..+
T Consensus       274 ~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  343 (368)
T 1fch_A          274 YRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSML  343 (368)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999999987           45555555444444

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=98.97  E-value=2.3e-09  Score=101.42  Aligned_cols=108  Identities=6%  Similarity=0.029  Sum_probs=98.4

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCccc----ccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIV----LGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      ..+...|..++..|+|++|+..|.++++ .|.++..    |.++|.++...|++                       ++|
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 6666655    88999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHH
Q 011050          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQ  179 (494)
Q Consensus       124 ~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~  179 (494)
                      +..++++++++|++..+++.+|.+|..+|++++|+..|+++++++|++..+...+.
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            99999999999999999999999999999999999999999999999987766555

>1g25_A CDK-activating kinase assembly factor MAT1; ring finger (C3HC4), metal binding protein; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=98.97  E-value=2.7e-10  Score=84.06  Aligned_cols=47  Identities=36%  Similarity=0.822  Sum_probs=40.8

Q ss_pred             cccccccccc-cccCc----EEcCCCCcccHhhHHHhccCC-CCCCCCCcccc
Q 011050          201 DDFDCTLCLK-LLYEP----ITTPCGHSFCRSCLFQSMDRG-NKCPLCRAVLF  247 (494)
Q Consensus       201 ~~~~C~iC~~-~~~~P----v~~~cgh~fc~~Cl~~~~~~~-~~CP~Cr~~~~  247 (494)
                      +++.|+||++ .+.+|    +.++|||+||..|+..|+..+ ..||.||..+.
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 99999    468999999999999997654 57999999874

>1iym_A EL5; ring-H2 finger, ubiquitin ligase, DNA binding protein; NMR {Oryza sativa} SCOP: g.44.1.1

Probab=98.96  E-value=4.3e-10  Score=79.94  Aligned_cols=47  Identities=34%  Similarity=0.824  Sum_probs=41.8

Q ss_pred             CcccccccccccccC---cEEcC-CCCcccHhhHHHhccCCCCCCCCCccc
Q 011050          200 TDDFDCTLCLKLLYE---PITTP-CGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (494)
Q Consensus       200 ~~~~~C~iC~~~~~~---Pv~~~-cgh~fc~~Cl~~~~~~~~~CP~Cr~~~  246 (494)
                      .+...|+||++.+.+   ++.++ |||.||..||..|+.....||.||..+
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            356789999999888   77786 999999999999999888999999875

>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=98.96  E-value=1.1e-09  Score=111.79  Aligned_cols=113  Identities=20%  Similarity=0.327  Sum_probs=105.7

Q ss_pred             hHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHH
Q 011050           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (494)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (494)
                      .+..+..+...|..++..|+|++|+..|.++++.+|+++.++.++|.+|...|++                       ++
T Consensus        22 ~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~-----------------------~~   78 (450)
T 2y4t_A           22 SMADVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKS-----------------------KA   78 (450)
T ss_dssp             -CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HH
T ss_pred             cHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCH-----------------------HH
Confidence            3456788999999999999999999999999999999999999999999999999                       99


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCc---hhHHHH
Q 011050          123 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN---PLQASL  178 (494)
Q Consensus       123 a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~---~~~~~~  178 (494)
                      |+..++++++++|++..+++.+|.+|..+|++++|+..|+++++++|++.   .++..+
T Consensus        79 A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l  137 (450)
T 2y4t_A           79 ALPDLTKVIQLKMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQL  137 (450)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHH
Confidence            99999999999999999999999999999999999999999999999987   554443

>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=98.96  E-value=9.9e-10  Score=110.13  Aligned_cols=113  Identities=19%  Similarity=0.075  Sum_probs=100.8

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      ....+...|..++..|++++|+..|.++++++|+++.+|.++|.++...|++                       ++|+.
T Consensus       236 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~-----------------------~~A~~  292 (388)
T 1w3b_A          236 HAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSV-----------------------AEAED  292 (388)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHHSCH-----------------------HHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCH-----------------------HHHHH
Confidence            3567788899999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      .++++++++|+++.++..+|.++...|++++|+..|+++++++|++..+...+..+
T Consensus       293 ~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~  348 (388)
T 1w3b_A          293 CYNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASV  348 (388)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHH
T ss_pred             HHHHHHhhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999888766555443

>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=98.96  E-value=1.2e-10  Score=99.88  Aligned_cols=50  Identities=26%  Similarity=0.721  Sum_probs=44.4

Q ss_pred             CCCcccccccccccccCcEEcCCCCcccHhhHHHhccCCC-CCCCCCcccc
Q 011050          198 ERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGN-KCPLCRAVLF  247 (494)
Q Consensus       198 ~~~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~~~-~CP~Cr~~~~  247 (494)
                      .....+.|+||++++.+|+.++|||+||+.||..|+..+. .||.||.++.
T Consensus        27 ~l~~~~~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~   77 (141)
T 3knv_A           27 KLEAKYLCSACRNVLRRPFQAQCGHRYCSFCLASILSSGPQNCAACVHEGI   77 (141)
T ss_dssp             GCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHGGGSCEECHHHHHTTC
T ss_pred             cCCcCcCCCCCChhhcCcEECCCCCccCHHHHHHHHhcCCCCCCCCCCccc
Confidence            3457899999999999999999999999999999998664 7999999763

>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=98.96  E-value=1.6e-09  Score=105.08  Aligned_cols=112  Identities=15%  Similarity=0.095  Sum_probs=98.1

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccC---------CCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCc
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIK---------PGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPT  117 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~---------p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (494)
                      ...+...|..++..|++++|+..|.+++...         |..+.++.++|.++...|++                    
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            4556677888888888888888888888875         56667888888888888888                    


Q ss_pred             hhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          118 THAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       118 ~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                         ++|+..++++++++|++..+++.+|.+|..+|++++|+..|+++++++|++..+...+..+
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               9999999999999999999999999999999999999999999999999999877776654

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=98.95  E-value=1e-09  Score=102.46  Aligned_cols=114  Identities=14%  Similarity=0.151  Sum_probs=102.9

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhc--------------------------cCCCCcccccChhHHHHHHHhhhcc
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANN--------------------------IKPGDPIVLGNRSSAYIRISQFLKH  100 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~--------------------------~~p~~~~~~~~~a~~~~~~~~~~~~  100 (494)
                      +..+...|..+...|++++|+..|.+++.                          .+|.++.++.++|.++...|++   
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            57788899999999999999999999999                          7777888999999999999999   


Q ss_pred             CCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHH
Q 011050          101 RPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (494)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~  180 (494)
                                          ++|+..++++++++|.++.+++.+|.+|..+|++++|+..|+++++++|++..+...+..
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                                999999999999999999999999999999999999999999999999999877665554


Q ss_pred             HHh
Q 011050          181 LER  183 (494)
Q Consensus       181 ~~~  183 (494)
                      +-.
T Consensus       216 ~~~  218 (258)
T 3uq3_A          216 AQI  218 (258)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            433

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=98.95  E-value=2.4e-10  Score=113.57  Aligned_cols=108  Identities=17%  Similarity=0.119  Sum_probs=101.4

Q ss_pred             HHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHH
Q 011050           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (494)
                      ..+..++..|..++..|+|++|+..|.++++.+|+++.+|.++|.+|...|++                       ++|+
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 011050          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  175 (494)
Q Consensus       125 ~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~  175 (494)
                      ..++++++++|++..+++.+|.+|..+|++++|+..|+++++++|++..+.
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            999999999999999999999999999999999999999999998765543

>2xeu_A Ring finger protein 4; transcription, zinc-finger, metal-binding; HET: SUC; 1.50A {Homo sapiens}

Probab=98.95  E-value=1.7e-10  Score=84.74  Aligned_cols=47  Identities=36%  Similarity=0.882  Sum_probs=42.8

Q ss_pred             cccccccccccccCc-------EEcCCCCcccHhhHHHhccCCCCCCCCCcccc
Q 011050          201 DDFDCTLCLKLLYEP-------ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (494)
Q Consensus       201 ~~~~C~iC~~~~~~P-------v~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~  247 (494)
                      +.+.|+||++.+.+|       +.++|||.||..|+..|+.....||.||..+.
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            467899999999987       78999999999999999988889999999874

>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=98.95  E-value=2e-09  Score=107.97  Aligned_cols=114  Identities=23%  Similarity=0.277  Sum_probs=105.2

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      ....+...|..+...|++++|+..|.+++.++|+++.++.++|.+|...|++                       ++|+.
T Consensus       202 ~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~-----------------------~~A~~  258 (388)
T 1w3b_A          202 FLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLI-----------------------DLAID  258 (388)
T ss_dssp             CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCH-----------------------HHHHH
Confidence            4567888999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHH
Q 011050          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~  182 (494)
                      .++++++++|+++.+++.+|.+|...|++++|+..|+++++++|++..+...+..+.
T Consensus       259 ~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~  315 (388)
T 1w3b_A          259 TYRRAIELQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIK  315 (388)
T ss_dssp             HHHHHHHTCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999987766554443

>2ect_A Ring finger protein 126; metal binding protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=98.94  E-value=6.9e-10  Score=85.07  Aligned_cols=51  Identities=25%  Similarity=0.648  Sum_probs=44.1

Q ss_pred             CCCCcccccccccccccCc---EEcCCCCcccHhhHHHhccCCCCCCCCCcccc
Q 011050          197 PERTDDFDCTLCLKLLYEP---ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (494)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~P---v~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~  247 (494)
                      ........|+||++.+.++   +.++|||.||..||..|+.....||+||..+.
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~   63 (78)
T 2ect_A           10 EHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLT   63 (78)
T ss_dssp             TTSSSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCCC
T ss_pred             ccCCCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCccC
Confidence            3455678999999999876   45699999999999999988889999999874

>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=98.94  E-value=5.3e-10  Score=83.52  Aligned_cols=50  Identities=34%  Similarity=0.721  Sum_probs=42.8

Q ss_pred             CCCccccccccccccc---CcEEcCCCCcccHhhHHHhccCCCCCCCCCcccc
Q 011050          198 ERTDDFDCTLCLKLLY---EPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (494)
Q Consensus       198 ~~~~~~~C~iC~~~~~---~Pv~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~  247 (494)
                      .......|+||++.+.   .++.++|||.||..||..|+.....||+||..+.
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            4456788999999885   4567899999999999999988889999999874

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.94  E-value=3.1e-09  Score=98.62  Aligned_cols=122  Identities=15%  Similarity=0.108  Sum_probs=96.0

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcc---cccChhHHHHHHHhhhccCCCCCccccccCCCC----Cchh
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPI---VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLD----PTTH  119 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~  119 (494)
                      ...+...|..+++.|+|++|+..|.++++..|+++.   +++.+|.++..++..         ....++.+.    ....
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   789999999875421         000000011    1223


Q ss_pred             HHHHHHHHHHHhhccccchHHH-----------------HHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHH
Q 011050          120 AELALKDAEKLLNLQSNSMKSH-----------------LLKANALILLERYDMARDAILSGLQVDPFSNPLQAS  177 (494)
Q Consensus       120 ~~~a~~~~~~al~l~p~~~~a~-----------------~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~  177 (494)
                      .++|+..++++++.+|++..++                 +.+|.+|...|++++|+..|+++++..|+++....+
T Consensus       112 ~~~A~~~~~~~l~~~P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a  186 (225)
T 2yhc_A          112 ARAAFSDFSKLVRGYPNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDA  186 (225)
T ss_dssp             HHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHH
T ss_pred             HHHHHHHHHHHHHHCcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHH
Confidence            3999999999999999987665                 678999999999999999999999999998754333

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=98.94  E-value=1.1e-09  Score=90.92  Aligned_cols=102  Identities=25%  Similarity=0.347  Sum_probs=96.1

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      ...+...|..++..|++++|+..|.+++...|.+..++.++|.++...|++                       ++|+..
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 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~  171 (494)
                      +++++..+|.+..+++.+|.++...|++++|+..+.++++++|++
T Consensus        92 ~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~  136 (136)
T 2fo7_A           92 YQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRS  136 (136)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSTTC
T ss_pred             HHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccCCCC
Confidence            999999999999999999999999999999999999999988863

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=98.94  E-value=1.9e-09  Score=99.95  Aligned_cols=112  Identities=13%  Similarity=0.135  Sum_probs=104.9

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      ....+...|..++..|++++|+..|.++++.+|.+..++.++|.++...|++                       ++|+.
T Consensus        56 ~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~-----------------------~~A~~  112 (243)
T 2q7f_A           56 DAIPYINFANLLSSVNELERALAFYDKALELDSSAATAYYGAGNVYVVKEMY-----------------------KEAKD  112 (243)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHhccH-----------------------HHHHH
Confidence            4678889999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHH
Q 011050          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~  180 (494)
                      .++++++.+|.+..+++.+|.+|...|++++|+..++++++++|++..+...+..
T Consensus       113 ~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  167 (243)
T 2q7f_A          113 MFEKALRAGMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNENDTEARFQFGM  167 (243)
T ss_dssp             HHHHHHHHTCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999998876655443

>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=98.93  E-value=2.1e-09  Score=109.63  Aligned_cols=116  Identities=14%  Similarity=0.229  Sum_probs=107.2

Q ss_pred             HHHHHHHHHHhcChHHHHHHHHHHhccCCCCc----ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           50 LVQKGNRAFRESNFEEAISNYSRANNIKPGDP----IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      ....|..++..|++++|+..|.++++..|+++    .+|.++|.++...|++                       ++|+.
T Consensus       260 ~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~l~~~~~~~g~~-----------------------~~A~~  316 (450)
T 2y4t_A          260 LIESAEELIRDGRYTDATSKYESVMKTEPSIAEYTVRSKERICHCFSKDEKP-----------------------VEAIR  316 (450)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHTTTCH-----------------------HHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHHCCCH-----------------------HHHHH
Confidence            45569999999999999999999999999985    4889999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhhh
Q 011050          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  188 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~  188 (494)
                      .++++++++|+++.+|+.+|.+|...|++++|+..|+++++++|++..+...+..+...+...
T Consensus       317 ~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~  379 (450)
T 2y4t_A          317 VCSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQS  379 (450)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhhcc
Confidence            999999999999999999999999999999999999999999999999988888877666553

>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=98.93  E-value=3.9e-10  Score=80.12  Aligned_cols=46  Identities=30%  Similarity=0.792  Sum_probs=41.4

Q ss_pred             cccccccccccccC----cEEcCCCCcccHhhHHHhccCCCCCCCCCccc
Q 011050          201 DDFDCTLCLKLLYE----PITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (494)
Q Consensus       201 ~~~~C~iC~~~~~~----Pv~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~  246 (494)
                      ....|+||++.+.+    ++.++|||.||..|+..|+.....||+||..+
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            56789999999866    67889999999999999998888999999876

>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid herpesvirus 1} SCOP: g.44.1.1

Probab=98.92  E-value=3.3e-10  Score=84.40  Aligned_cols=47  Identities=28%  Similarity=0.707  Sum_probs=42.3

Q ss_pred             cccccccccccccCc-EEcCCCCcccHhhHHHhccCCCCCCCCCcccc
Q 011050          201 DDFDCTLCLKLLYEP-ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (494)
Q Consensus       201 ~~~~C~iC~~~~~~P-v~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~  247 (494)
                      ....|+||++.+.+| +.++|||.||..|+..|+..+..||.||..+.
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 67899999999999999988889999999873

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=98.92  E-value=2.1e-09  Score=98.09  Aligned_cols=111  Identities=13%  Similarity=0.021  Sum_probs=99.3

Q ss_pred             HHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHH
Q 011050           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (494)
                      ..+..+...|..++..|++++|+..|.++++.+|+++.++..+|.++...|++                       ++|+
T Consensus         6 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----------------------~~A~   62 (225)
T 2vq2_A            6 QVSNIKTQLAMEYMRGQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVN-----------------------DKAQ   62 (225)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHH
T ss_pred             ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCCh-----------------------HHHH
Confidence            45678889999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHH-HHHHHHHHHHHcccc--CCCCCchhHHHH
Q 011050          125 KDAEKLLNLQSNSMKSHLLKANALILL-ERYDMARDAILSGLQ--VDPFSNPLQASL  178 (494)
Q Consensus       125 ~~~~~al~l~p~~~~a~~~~g~~~~~~-~~~~~A~~~~~~al~--l~p~~~~~~~~~  178 (494)
                      ..++++++++|++..+++.+|.+|... |++++|+..|+++++  .+|.+..+...+
T Consensus        63 ~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l  119 (225)
T 2vq2_A           63 ESFRQALSIKPDSAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNK  119 (225)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHH
T ss_pred             HHHHHHHHhCCCChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHH
Confidence            999999999999999999999999999 999999999999999  444444444333

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.92  E-value=2.4e-09  Score=83.34  Aligned_cols=85  Identities=21%  Similarity=0.315  Sum_probs=79.9

Q ss_pred             HHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHH
Q 011050           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (494)
                      ..+..+...|..++..|+|++|+..|.++++.+|+++.++.++|.++...|++                       ++|+
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            34677889999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHH
Q 011050          125 KDAEKLLNLQSNSMKSHLLKANALILLE  152 (494)
Q Consensus       125 ~~~~~al~l~p~~~~a~~~~g~~~~~~~  152 (494)
                      ..++++++++|++..+++.+|.++..+|
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

>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=98.92  E-value=1.9e-09  Score=100.83  Aligned_cols=113  Identities=19%  Similarity=0.119  Sum_probs=103.0

Q ss_pred             HHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHH
Q 011050           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (494)
                      ..+..+...|..++..|++++|+..|.++++.+|.+..++..+|.+|...|++                       ++|+
T Consensus        35 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~-----------------------~~A~   91 (252)
T 2ho1_A           35 EARDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEP-----------------------KLAD   91 (252)
T ss_dssp             HHHHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHH
T ss_pred             HHHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCH-----------------------HHHH
Confidence            34788899999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHcccc--CCCCCchhHHHHHH
Q 011050          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQ--VDPFSNPLQASLQN  180 (494)
Q Consensus       125 ~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~--l~p~~~~~~~~~~~  180 (494)
                      ..++++++++|.+..+++.+|.+|...|++++|+..|+++++  .+|.+..+...+..
T Consensus        92 ~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~  149 (252)
T 2ho1_A           92 EEYRKALASDSRNARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGL  149 (252)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHH
T ss_pred             HHHHHHHHHCcCcHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHH
Confidence            999999999999999999999999999999999999999999  66766655544433

>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=98.91  E-value=3.6e-09  Score=102.65  Aligned_cols=111  Identities=12%  Similarity=0.001  Sum_probs=88.2

Q ss_pred             HHHHHHHHHHHHHhc-ChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           47 VFDLVQKGNRAFRES-NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~-~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      ...+...|..++..| ++++|+..|.++++.+|+++.+|.++|.++...|++                       ++|+.
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            345667777788888 788888888888888888888888888888888888                       88888


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHH
Q 011050          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~  180 (494)
                      .++++++++|++..+++.+|.+|...|++++|+..|+++++++|++..+...+..
T Consensus       147 ~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~  201 (330)
T 3hym_B          147 AYFTAAQLMKGCHLPMLYIGLEYGLTNNSKLAERFFSQALSIAPEDPFVMHEVGV  201 (330)
T ss_dssp             HHHHHHHHTTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHH
T ss_pred             HHHHHHHhccccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCCCChHHHHHHHH
Confidence            8888888888888888888888888888888888888888888887765554443

>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=98.91  E-value=2e-09  Score=106.59  Aligned_cols=107  Identities=15%  Similarity=0.103  Sum_probs=101.2

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      +..+...|..++..|+|++|+..|.++++.+|+++.++.++|.++...|++                       ++|+..
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 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQA  176 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~  176 (494)
                      ++++++++|++..+++.+|.+|..+|++++|+..|.++++++|.+.....
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            99999999999999999999999999999999999999999998876543

>2ecn_A Ring finger protein 141; RNF141, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.91  E-value=5.8e-10  Score=83.55  Aligned_cols=49  Identities=35%  Similarity=0.892  Sum_probs=44.2

Q ss_pred             CCCcccccccccccccCcEEcCCCCcccHhhHHHhccCCCCCCCCCcccc
Q 011050          198 ERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (494)
Q Consensus       198 ~~~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~  247 (494)
                      .......|+||++.+.+ +.++|||.||..|+..|+.....||.||..+.
T Consensus        11 ~~~~~~~C~IC~~~~~~-~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   59 (70)
T 2ecn_A           11 QLTDEEECCICMDGRAD-LILPCAHSFCQKCIDKWSDRHRNCPICRLQMT   59 (70)
T ss_dssp             CCCCCCCCSSSCCSCCS-EEETTTEEECHHHHHHSSCCCSSCHHHHHCTT
T ss_pred             cCCCCCCCeeCCcCccC-cccCCCCcccHHHHHHHHHCcCcCCCcCCccc
Confidence            44567899999999999 88999999999999999998889999999874

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.91  E-value=1.8e-10  Score=102.39  Aligned_cols=108  Identities=12%  Similarity=0.039  Sum_probs=94.1

Q ss_pred             HHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhh
Q 011050           53 KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLN  132 (494)
Q Consensus        53 ~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~  132 (494)
                      .+..++..|+|++|+..|.+++..+|+++.+|..+|.+|...|++                       ++|+..++++++
T Consensus        16 ~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~-----------------------~~A~~~~~~al~   72 (177)
T 2e2e_A           16 PLHQFASQQNPEAQLQALQDKIRANPQNSEQWALLGEYYLWQNDY-----------------------SNSLLAYRQALQ   72 (177)
T ss_dssp             TTCCCC-----CCCCHHHHHHHHHCCSCHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHH
T ss_pred             hhhhhhhccCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHHH
Confidence            445567889999999999999999999999999999999999999                       999999999999


Q ss_pred             ccccchHHHHHHHHH-HHHHHHH--HHHHHHHHccccCCCCCchhHHHHHHHHh
Q 011050          133 LQSNSMKSHLLKANA-LILLERY--DMARDAILSGLQVDPFSNPLQASLQNLER  183 (494)
Q Consensus       133 l~p~~~~a~~~~g~~-~~~~~~~--~~A~~~~~~al~l~p~~~~~~~~~~~~~~  183 (494)
                      ++|+++.+++.+|.+ +...|++  ++|+..|+++++++|++..+...+..+..
T Consensus        73 ~~p~~~~~~~~la~~l~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~  126 (177)
T 2e2e_A           73 LRGENAELYAALATVLYYQASQHMTAQTRAMIDKALALDSNEITALMLLASDAF  126 (177)
T ss_dssp             HHCSCHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             cCCCCHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            999999999999999 7899999  99999999999999999887766555433

>2l0b_A E3 ubiquitin-protein ligase praja-1; zinc finger, NESG, structural genomics, PSI-2, protein struc initiative; NMR {Homo sapiens}

Probab=98.90  E-value=8.5e-10  Score=87.24  Aligned_cols=49  Identities=22%  Similarity=0.678  Sum_probs=43.5

Q ss_pred             CCcccccccccccccC---cEEcCCCCcccHhhHHHhccCCCCCCCCCcccc
Q 011050          199 RTDDFDCTLCLKLLYE---PITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (494)
Q Consensus       199 ~~~~~~C~iC~~~~~~---Pv~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~  247 (494)
                      ......|+||++.+..   ++.++|||.||..||..|+.....||+||..+.
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            4467889999998887   778999999999999999998889999999863

>2ep4_A Ring finger protein 24; zinc binding, ubiquitin, E3 enzyme, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.89  E-value=1.1e-09  Score=82.98  Aligned_cols=52  Identities=29%  Similarity=0.632  Sum_probs=44.2

Q ss_pred             CCCCCcccccccccccccCcEE---cCCCCcccHhhHHHhccCCCCCCCCCcccc
Q 011050          196 TPERTDDFDCTLCLKLLYEPIT---TPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (494)
Q Consensus       196 ~~~~~~~~~C~iC~~~~~~Pv~---~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~  247 (494)
                      .........|+||++.+..+..   ++|||.||..||..|+.....||+||..+.
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            3445567899999999987744   499999999999999988889999999874

>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=98.89  E-value=4.3e-09  Score=98.42  Aligned_cols=112  Identities=11%  Similarity=0.028  Sum_probs=93.3

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      ....+...|..++..|++++|+..|.++++.+|.+..++.++|.+|...|++                       ++|+.
T Consensus        70 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~-----------------------~~A~~  126 (252)
T 2ho1_A           70 SADAHAALAVVFQTEMEPKLADEEYRKALASDSRNARVLNNYGGFLYEQKRY-----------------------EEAYQ  126 (252)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHHhHH-----------------------HHHHH
Confidence            4567788888899999999999999999999998888999999999998888                       88888


Q ss_pred             HHHHHhh--ccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHH
Q 011050          126 DAEKLLN--LQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (494)
Q Consensus       126 ~~~~al~--l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~  180 (494)
                      .+++++.  .+|.+..+++.+|.+|...|++++|+..|.++++++|.+..+...+..
T Consensus       127 ~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~  183 (252)
T 2ho1_A          127 RLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRNQPSVALEMAD  183 (252)
T ss_dssp             HHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHH
T ss_pred             HHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcccHHHHHHHHH
Confidence            8888888  778888888888888888888888888888888888887766554433

>1e4u_A Transcriptional repressor NOT4; gene regulation, transcriptional control; NMR {Homo sapiens} SCOP: g.44.1.1 PDB: 1ur6_B

Probab=98.88  E-value=1.4e-09  Score=82.96  Aligned_cols=49  Identities=31%  Similarity=0.719  Sum_probs=39.8

Q ss_pred             CCccccccccccccc--CcEEcC--CCCcccHhhHHHhccC-CCCCCCCCcccc
Q 011050          199 RTDDFDCTLCLKLLY--EPITTP--CGHSFCRSCLFQSMDR-GNKCPLCRAVLF  247 (494)
Q Consensus       199 ~~~~~~C~iC~~~~~--~Pv~~~--cgh~fc~~Cl~~~~~~-~~~CP~Cr~~~~  247 (494)
                      ..+++.|+||++.+.  +++.++  |||+||..|+..++.. ...||.||..+.
T Consensus         8 ~~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~   61 (78)
T 1e4u_A            8 KEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYP   61 (78)
T ss_dssp             CCCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCS
T ss_pred             cccCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccC
Confidence            457789999999884  445555  9999999999998854 467999999874

>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=98.88  E-value=6.5e-10  Score=98.89  Aligned_cols=67  Identities=30%  Similarity=0.729  Sum_probs=54.0

Q ss_pred             CCCCcccccccccccccCcEEcCCCCcccHhhHHHhccCC-CCCCCCCcccccCCCCCcccccHHHHHHH
Q 011050          197 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRG-NKCPLCRAVLFITPRTCAVSVTLNSIIQK  265 (494)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~~-~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~  265 (494)
                      ....+.+.|+||++++.+|+.++|||+||..||..|+..+ ..||.||..+..  ..+.++..+.+.+.+
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            3456789999999999999999999999999999998754 489999998743  344556566666554

>1x4j_A Ring finger protein 38; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.88  E-value=8.5e-10  Score=83.86  Aligned_cols=49  Identities=24%  Similarity=0.598  Sum_probs=43.6

Q ss_pred             CCcccccccccccccCc---EEcCCCCcccHhhHHHhccCCCCCCCCCcccc
Q 011050          199 RTDDFDCTLCLKLLYEP---ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (494)
Q Consensus       199 ~~~~~~C~iC~~~~~~P---v~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~  247 (494)
                      ......|+||++.+..+   +.++|||.||..||..|+.....||+||..+.
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            44677899999999888   67899999999999999988889999999874

>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=98.87  E-value=3.9e-09  Score=104.56  Aligned_cols=97  Identities=19%  Similarity=0.205  Sum_probs=90.9

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      +..+...|..+++.|+|++|+.+|.+|++++|+++.+|+++|.+|..+|+|                       ++|+..
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            567889999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHHHHH-HHHHHcccc
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMA-RDAILSGLQ  166 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A-~~~~~~al~  166 (494)
                      ++++++++|++..+++.+|.++..+|++++| ...|.+++.
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 556666653

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=98.87  E-value=3.8e-09  Score=96.34  Aligned_cols=113  Identities=13%  Similarity=0.075  Sum_probs=99.9

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHH-HhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRI-SQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      ...+...|..++..|++++|+..|.+++..+|.+..++.++|.++... |++                       ++|+.
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 011050          126 DAEKLLN--LQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (494)
Q Consensus       126 ~~~~al~--l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~  182 (494)
                      .++++++  .+|....+++.+|.++...|++++|+..|.++++.+|++..+...+..+-
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  67777899999999999999999999999999999998877666554443

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.86  E-value=7.8e-10  Score=94.79  Aligned_cols=93  Identities=12%  Similarity=-0.016  Sum_probs=83.1

Q ss_pred             HHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHH
Q 011050           68 SNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANA  147 (494)
Q Consensus        68 ~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~  147 (494)
                      ..|.+++.++|++..+++++|.+++..|+|                       ++|+..+++++.++|+++.+|+.+|.+
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             HHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHh
Q 011050          148 LILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  183 (494)
Q Consensus       148 ~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~  183 (494)
                      |..+|++++|+..|+++++++|++..+...+..+-.
T Consensus        62 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   97 (142)
T 2xcb_A           62 RQSLGLYEQALQSYSYGALMDINEPRFPFHAAECHL   97 (142)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Confidence            999999999999999999999999987665544433

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=98.85  E-value=2.5e-09  Score=103.69  Aligned_cols=55  Identities=13%  Similarity=0.012  Sum_probs=28.5

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhH
Q 011050          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  175 (494)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~  175 (494)
                      ++|+..++++++.+|+++.+++.+|.+|..+|++++|...|+++++++|+++.+.
T Consensus       183 ~eA~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~~~~l  237 (291)
T 3mkr_A          183 QDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETL  237 (291)
T ss_dssp             HHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHH
Confidence            5555555555555555555555555555555555555555555555555554443

>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=98.84  E-value=3.9e-09  Score=102.21  Aligned_cols=101  Identities=15%  Similarity=0.178  Sum_probs=96.7

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      ...+...|..++..|++++|+..|.++++.+|+++.++.++|.++...|++                       ++|+..
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            456777899999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCC
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF  170 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~  170 (494)
                      ++++++++|++..+++.+|.+|..+|++++|+..|+++++++|+
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

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=98.84  E-value=1.1e-08  Score=96.66  Aligned_cols=104  Identities=14%  Similarity=0.062  Sum_probs=87.0

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      ...+...|..++..|+|++|+..|.++++++|+++.++.++|.+|..+|++                       ++|+..
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            456778899999999999999999999999999999999999999999998                       555555


Q ss_pred             HHHHhhccccc---------------------------------------------------------------------
Q 011050          127 AEKLLNLQSNS---------------------------------------------------------------------  137 (494)
Q Consensus       127 ~~~al~l~p~~---------------------------------------------------------------------  137 (494)
                      ++++++++|++                                                                     
T Consensus       134 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  213 (275)
T 1xnf_A          134 LLAFYQDDPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWGWNIVEFYLGNISEQTLMERLKADATDNTSLAEH  213 (275)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCSTHHHHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHH
T ss_pred             HHHHHHhCCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHhcCHHHHHHHHHHHhccccccccc
Confidence            55555555443                                                                     


Q ss_pred             -hHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCch
Q 011050          138 -MKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (494)
Q Consensus       138 -~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~  173 (494)
                       ..+++.+|.+|..+|++++|+..|+++++++|++..
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             467788888888889999999999999998887654

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.83  E-value=3.7e-09  Score=102.31  Aligned_cols=106  Identities=15%  Similarity=0.030  Sum_probs=89.0

Q ss_pred             HHHHHHHHHHHHHh-cChHHHHHHHHHHhccCCCC------cccccChhHHHHHHHhhhccCCCCCccccccCCCCCchh
Q 011050           47 VFDLVQKGNRAFRE-SNFEEAISNYSRANNIKPGD------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH  119 (494)
Q Consensus        47 ~~~~~~~g~~~~~~-~~~~~Ai~~y~~al~~~p~~------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (494)
                      +..+...|..+... |++++|+.+|.+|+++.|.+      ..++.++|.+|..+|+|                      
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            55677889999997 99999999999999998865      46789999999999999                      


Q ss_pred             HHHHHHHHHHHhhccccchH-------HHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhH
Q 011050          120 AELALKDAEKLLNLQSNSMK-------SHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  175 (494)
Q Consensus       120 ~~~a~~~~~~al~l~p~~~~-------a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~  175 (494)
                       ++|+..++++++++|++..       +++.+|.+|..+|++++|+..|+++++++|++....
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             9999999999999987643       688999999999999999999999999999877643

>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=98.83  E-value=3.8e-09  Score=109.82  Aligned_cols=104  Identities=11%  Similarity=0.158  Sum_probs=93.6

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      +..+...|..+++.|+|++|+..|.+|++++|+++.+|.++|.+|..+|++                       ++|+..
T Consensus        40 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~-----------------------~eA~~~   96 (477)
T 1wao_1           40 AIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKF-----------------------RAALRD   96 (477)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH-----------------------HHHHHH
Confidence            567888999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHH--HHHHHHHHHHHHHHH-----------ccccCCCCCch
Q 011050          127 AEKLLNLQSNSMKSHLLKANA--LILLERYDMARDAIL-----------SGLQVDPFSNP  173 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~--~~~~~~~~~A~~~~~-----------~al~l~p~~~~  173 (494)
                      ++++++++|++..++..+|.+  +...|++++|++.++           +++.++|+...
T Consensus        97 ~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~al~~~~~~~~  156 (477)
T 1wao_1           97 YETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRSVVDSLDIESMTIEDEYSG  156 (477)
T ss_dssp             HHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC------CCSTTTCCTTSSCCCCTTCCS
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhccccccchhHhhhhhhhccccccccc
Confidence            999999999999999999998  889999999999999           99999987543

>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=98.82  E-value=5.2e-09  Score=101.34  Aligned_cols=109  Identities=13%  Similarity=0.050  Sum_probs=101.4

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      ....++..|..++..|+|++|+..|.++++.+|++..++..+|.++...|++                       ++|+.
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            4567889999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHH
Q 011050          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQAS  177 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~  177 (494)
                      .++++++++|++..+++.+|.+|...|++++|+..|.++++++|.+..+...
T Consensus        77 ~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  128 (327)
T 3cv0_A           77 ALNHARMLDPKDIAVHAALAVSHTNEHNANAALASLRAWLLSQPQYEQLGSV  128 (327)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTTTC---
T ss_pred             HHHHHHhcCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHH
Confidence            9999999999999999999999999999999999999999999988765443

>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=98.81  E-value=5.6e-09  Score=110.76  Aligned_cols=105  Identities=13%  Similarity=0.001  Sum_probs=100.1

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      ...+...|..++..|++++|+..|.++++++|+++.++.++|.+|..+|++                       ++|+..
T Consensus        57 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~-----------------------~~A~~~  113 (568)
T 2vsy_A           57 PEAVARLGRVRWTQQRHAEAAVLLQQASDAAPEHPGIALWLGHALEDAGQA-----------------------EAAAAA  113 (568)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCH-----------------------HHHHHH
Confidence            567788999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHH---HHHHHHHHHHHccccCCCCCchh
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILL---ERYDMARDAILSGLQVDPFSNPL  174 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~---~~~~~A~~~~~~al~l~p~~~~~  174 (494)
                      ++++++++|++..+++.+|.+|..+   |++++|++.|+++++.+|.+...
T Consensus       114 ~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~  164 (568)
T 2vsy_A          114 YTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQGVGAVEP  164 (568)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHTCCCSCH
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcCCcccCh
Confidence            9999999999999999999999999   99999999999999999986543

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.80  E-value=1.2e-09  Score=87.79  Aligned_cols=76  Identities=18%  Similarity=0.152  Sum_probs=69.7

Q ss_pred             cCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHH
Q 011050           76 IKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYD  155 (494)
Q Consensus        76 ~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~  155 (494)
                      .+|+++.+++++|.+|+..|+|                       ++|+..++++++++|+++.+|+.+|.+|..+|+++
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 011050          156 MARDAILSGLQVDPFSNPL  174 (494)
Q Consensus       156 ~A~~~~~~al~l~p~~~~~  174 (494)
                      +|+..|++++++.|.+...
T Consensus        59 ~A~~~~~~al~l~~~~~~~   77 (100)
T 3ma5_A           59 DAIDTYAQGIEVAREEGTQ   77 (100)
T ss_dssp             HHHHHHHHHHHHHHHHSCH
T ss_pred             HHHHHHHHHHhhhhcCCch
Confidence            9999999999998865544

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=98.79  E-value=1.5e-08  Score=98.14  Aligned_cols=97  Identities=7%  Similarity=-0.009  Sum_probs=85.3

Q ss_pred             HhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccch
Q 011050           59 RESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSM  138 (494)
Q Consensus        59 ~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~  138 (494)
                      ..|++++|+..|+++++..|+++.+|.++|.++..+|++                       ++|+..+++++.++|+++
T Consensus       178 ~~~~~~eA~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~-----------------------~eA~~~l~~al~~~p~~~  234 (291)
T 3mkr_A          178 GGEKLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRW-----------------------EAAEGVLQEALDKDSGHP  234 (291)
T ss_dssp             CTTHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHCTTCH
T ss_pred             CchHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHHHhCCCCH
Confidence            347888899999999988999999999999999999999                       999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHH-HHHHHHccccCCCCCchhHHHH
Q 011050          139 KSHLLKANALILLERYDM-ARDAILSGLQVDPFSNPLQASL  178 (494)
Q Consensus       139 ~a~~~~g~~~~~~~~~~~-A~~~~~~al~l~p~~~~~~~~~  178 (494)
                      .+++++|.++..+|++.+ +...++++++++|+++.+....
T Consensus       235 ~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~~~~d~~  275 (291)
T 3mkr_A          235 ETLINLVVLSQHLGKPPEVTNRYLSQLKDAHRSHPFIKEYR  275 (291)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCCChHHHHHH
Confidence            999999999999999976 4678899999999998776543

>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=98.77  E-value=1.9e-08  Score=87.23  Aligned_cols=97  Identities=11%  Similarity=0.151  Sum_probs=88.0

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      ...+...|..++..|+|++|+..|.+++.++|.++.++.++|.++..+|++                       ++|+..
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            566788999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHH--HHHHHHHHHHHHHHHcccc
Q 011050          127 AEKLLNLQSNSMKSHLLKANA--LILLERYDMARDAILSGLQ  166 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~--~~~~~~~~~A~~~~~~al~  166 (494)
                      ++++++++|.+..++..++.+  +...|++++|+..+.++..
T Consensus       104 ~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A          104 YETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            999999999999888555544  8889999999999887543

>4ic3_A E3 ubiquitin-protein ligase XIAP; ring domain, zinc-finger, E3 ligase; 1.78A {Homo sapiens} PDB: 4ic2_A

Probab=98.76  E-value=2.6e-09  Score=80.87  Aligned_cols=43  Identities=30%  Similarity=0.839  Sum_probs=39.1

Q ss_pred             cccccccccccccCcEEcCCCCc-ccHhhHHHhccCCCCCCCCCcccc
Q 011050          201 DDFDCTLCLKLLYEPITTPCGHS-FCRSCLFQSMDRGNKCPLCRAVLF  247 (494)
Q Consensus       201 ~~~~C~iC~~~~~~Pv~~~cgh~-fc~~Cl~~~~~~~~~CP~Cr~~~~  247 (494)
                      +...|+||++.+.+|+.+||||+ ||..|+..|    ..||.||..+.
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            45789999999999999999999 999999887    68999999863

>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=98.76  E-value=6e-09  Score=86.07  Aligned_cols=47  Identities=28%  Similarity=0.634  Sum_probs=39.7

Q ss_pred             cccccccccccccCcE------------------EcCCCCcccHhhHHHhcc-----CCCCCCCCCcccc
Q 011050          201 DDFDCTLCLKLLYEPI------------------TTPCGHSFCRSCLFQSMD-----RGNKCPLCRAVLF  247 (494)
Q Consensus       201 ~~~~C~iC~~~~~~Pv------------------~~~cgh~fc~~Cl~~~~~-----~~~~CP~Cr~~~~  247 (494)
                      .+..|+||++.|..|.                  .++|||.||..||..|+.     ....||+||..+.
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     4568999999874

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus}

Probab=98.75  E-value=2.5e-09  Score=90.90  Aligned_cols=48  Identities=35%  Similarity=0.897  Sum_probs=44.3

Q ss_pred             CcccccccccccccCc-------EEcCCCCcccHhhHHHhccCCCCCCCCCcccc
Q 011050          200 TDDFDCTLCLKLLYEP-------ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (494)
Q Consensus       200 ~~~~~C~iC~~~~~~P-------v~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~  247 (494)
                      .+.+.|+||++.+.+|       +.++|||+||..||..|+.....||.||..+.
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

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.74  E-value=1.2e-08  Score=98.78  Aligned_cols=106  Identities=12%  Similarity=-0.091  Sum_probs=94.6

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC------cccccChhHHHHHH-HhhhccCCCCCccccccCCCCCch
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD------PIVLGNRSSAYIRI-SQFLKHRPPSASEYRPLNGLDPTT  118 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~------~~~~~~~a~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~  118 (494)
                      .+..+...|..+...|+|++|+.+|.+|+++.|..      ..+|.++|.+|... |++                     
T Consensus        76 ~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~---------------------  134 (292)
T 1qqe_A           76 AGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDY---------------------  134 (292)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCH---------------------
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCH---------------------
Confidence            35678889999999999999999999999997754      46888999999995 999                     


Q ss_pred             hHHHHHHHHHHHhhccccc------hHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchh
Q 011050          119 HAELALKDAEKLLNLQSNS------MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  174 (494)
Q Consensus       119 ~~~~a~~~~~~al~l~p~~------~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~  174 (494)
                        ++|+..+++|+++.|..      ..++..+|.+|..+|+|++|+..|+++++++|++...
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

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.73  E-value=3.7e-09  Score=104.84  Aligned_cols=102  Identities=12%  Similarity=0.044  Sum_probs=59.1

Q ss_pred             HHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHH
Q 011050           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (494)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (494)
                      .+...|..+++.|+|++|+.+|.+|++++|++..+|+++|.+|..+|+|                       ++|+..++
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            5678899999999999999999999999999999999999999999999                       99999999


Q ss_pred             HHhhccccchHHHHHHHHHH-HHHHHHHHHHHHHHccccCCCCCch
Q 011050          129 KLLNLQSNSMKSHLLKANAL-ILLERYDMARDAILSGLQVDPFSNP  173 (494)
Q Consensus       129 ~al~l~p~~~~a~~~~g~~~-~~~~~~~~A~~~~~~al~l~p~~~~  173 (494)
                      ++++++|++..++..++.+. ...+..+++...|.+++.++|+++.
T Consensus       289 ~al~l~p~~~~a~~~L~~l~~~~~~~~~~a~~~~~~~l~~~p~~~~  334 (338)
T 2if4_A          289 KAQKYAPDDKAIRRELRALAEQEKALYQKQKEMYKGIFKGKDEGGA  334 (338)
T ss_dssp             HTTC------------------------------------------
T ss_pred             HHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCC
Confidence            99999999999999999984 5677888999999999999998765

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=98.72  E-value=2.5e-08  Score=102.47  Aligned_cols=116  Identities=10%  Similarity=0.049  Sum_probs=98.4

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhcc---------CCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCc
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNI---------KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPT  117 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~---------~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (494)
                      +..+...|..++..|+|++|+.+|.+|+++         +|.....|.|+|.+|..+|+|                    
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         566778899999999999999                    


Q ss_pred             hhHHHHHHHHHHHhhccc--------cchHHHHHHHHHHHHH--HHHHHHHHHHHccccCCCCCchhHHHHHHHHhhh
Q 011050          118 THAELALKDAEKLLNLQS--------NSMKSHLLKANALILL--ERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (494)
Q Consensus       118 ~~~~~a~~~~~~al~l~p--------~~~~a~~~~g~~~~~~--~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~  185 (494)
                         ++|+..+++++.+.+        ..+.++..+|.++...  ++|++|++.|+++++++|+++.+...+..+...+
T Consensus       111 ---~~A~~~~~ka~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l  185 (472)
T 4g1t_A          111 ---SDVQIYVDKVKHVCEKFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYRL  185 (472)
T ss_dssp             ---HHHHHHHHHHHHHHHHSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH
T ss_pred             ---HHHHHHHHHHHHHhHhcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHh
Confidence               999999999998743        4567888899887654  6899999999999999999998877666554333

>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=98.72  E-value=1.3e-08  Score=106.05  Aligned_cols=107  Identities=14%  Similarity=0.123  Sum_probs=64.9

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      +..+...|..++..|++++|+..|.++++.+|+ ..++..+|.++...|++                       ++|+..
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            445566666666666666666666666666665 55566666666666666                       566666


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHH
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQAS  177 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~  177 (494)
                      ++++++.+|+++.+++.+|.+|...|++++|+..|+++++++|++..+...
T Consensus       299 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~  349 (537)
T 3fp2_A          299 FQKAVDLNPEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPENVYPYIQ  349 (537)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCSHHHHH
T ss_pred             HHHHhccCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCHHHHHH
Confidence            666666666666666666666666666666666666666666655544433

>2ecl_A Ring-box protein 2; RNF7, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.71  E-value=8.1e-09  Score=79.57  Aligned_cols=48  Identities=25%  Similarity=0.647  Sum_probs=40.8

Q ss_pred             CcccccccccccccC--------------cEEc-CCCCcccHhhHHHhccCCCCCCCCCcccc
Q 011050          200 TDDFDCTLCLKLLYE--------------PITT-PCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (494)
Q Consensus       200 ~~~~~C~iC~~~~~~--------------Pv~~-~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~  247 (494)
                      .++..|+||++.+.+              ++.+ +|||.||..||..|+.....||+||.++.
T Consensus        13 ~~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   75 (81)
T 2ecl_A           13 VECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWV   75 (81)
T ss_dssp             CCCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCC
T ss_pred             CCCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcc
Confidence            356779999999876              4455 59999999999999998889999999863

>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=98.70  E-value=2.7e-08  Score=105.44  Aligned_cols=115  Identities=6%  Similarity=-0.096  Sum_probs=105.1

Q ss_pred             HHHHHHHHHHHHHHhcC----------hHHHHHHHHHHhccCCCCcccccChhHHHHHHH--hhhccCCCCCccccccCC
Q 011050           46 HVFDLVQKGNRAFRESN----------FEEAISNYSRANNIKPGDPIVLGNRSSAYIRIS--QFLKHRPPSASEYRPLNG  113 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~----------~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~--~~~~~~~~~~~~~~~~~~  113 (494)
                      .+..|..+|..+...|+          +++|+..|.++++.+|+++.+|++|+.++..++  +|                
T Consensus        62 ~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK~y~aW~hR~w~l~~l~~~~~----------------  125 (567)
T 1dce_A           62 FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNW----------------  125 (567)
T ss_dssp             CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCSSCCH----------------
T ss_pred             hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccccH----------------
Confidence            45678888888888888          999999999999999999999999999999988  67                


Q ss_pred             CCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHH-HHHHHHHHHHccccCCCCCchhHHHHHHHHh
Q 011050          114 LDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLE-RYDMARDAILSGLQVDPFSNPLQASLQNLER  183 (494)
Q Consensus       114 ~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~-~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~  183 (494)
                             +++++.+++++++||.+..||..+|.++..+| .++++++++.++++.+|.|..++.....+-.
T Consensus       126 -------~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~  189 (567)
T 1dce_A          126 -------ARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLP  189 (567)
T ss_dssp             -------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHH
T ss_pred             -------HHHHHHHHHHHhhccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHH
Confidence                   99999999999999999999999999999999 9999999999999999999988776555433

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=98.70  E-value=1.8e-08  Score=106.75  Aligned_cols=112  Identities=19%  Similarity=0.210  Sum_probs=97.5

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhcc------CCCC-cccccChhHHHHHHHhhhccCCCCCccccccCCCCCchh
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNI------KPGD-PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH  119 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~------~p~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (494)
                      ...+...|..+.+.|++++|+..|.++++.      +|++ ..+|.++|.+|...|++                      
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            345667788888888888888888888877      5554 56788888888888888                      


Q ss_pred             HHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          120 AELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       120 ~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                       ++|++.++++++++|+++.+|+.+|.+|...|++++|+..|+++++++|++..+...+..+
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             9999999999999999999999999999999999999999999999999999887766554

>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=98.70  E-value=2.7e-08  Score=102.77  Aligned_cols=97  Identities=13%  Similarity=0.141  Sum_probs=84.9

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      +..+...|..+++.|+|++|+.+|++|++++|+++.+|+++|.+|+.+++|                       ++|+.+
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            467788999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHHHHHHH-HHHcccc
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARD-AILSGLQ  166 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~-~~~~al~  166 (494)
                      +++|++++|++..++..+|.++..++++++|.. .|.+.+.
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            999999999999999999999999999998864 4555543

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=98.68  E-value=1.9e-08  Score=104.02  Aligned_cols=112  Identities=15%  Similarity=0.054  Sum_probs=100.7

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcc------cccChhHHHHH---HHhhhccCCCCCccccccCCCCCch
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPI------VLGNRSSAYIR---ISQFLKHRPPSASEYRPLNGLDPTT  118 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~------~~~~~a~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~  118 (494)
                      ..+...|..++..|++++|+..|.+++...|++..      ++.++|.++..   .|++                     
T Consensus       373 ~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~---------------------  431 (514)
T 2gw1_A          373 EVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENF---------------------  431 (514)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHH---------------------
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCH---------------------
Confidence            45667788888999999999999999998888765      88889999998   8999                     


Q ss_pred             hHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHH
Q 011050          119 HAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (494)
Q Consensus       119 ~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~  182 (494)
                        ++|+..+++++.++|++..+++.+|.+|...|++++|+..|+++++++|++..+...+...+
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              99999999999999999999999999999999999999999999999999998877665443

>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=98.68  E-value=3.9e-08  Score=88.90  Aligned_cols=98  Identities=12%  Similarity=0.020  Sum_probs=83.7

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      ...+...|..++..|+|++|+.+|.++++++|+++.++.++|.+|..+|+|                       ++|+..
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 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMAR-DAILSGLQV  167 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~-~~~~~al~l  167 (494)
                      ++++++++|++..++..++.++..++++.++. ..|.+.+..
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 555555443

>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=98.68  E-value=4.8e-09  Score=75.83  Aligned_cols=46  Identities=20%  Similarity=0.247  Sum_probs=41.9

Q ss_pred             ccccccccccccCcEEc-CCCCcccHhhHHHhccCCCCCCCCCcccc
Q 011050          202 DFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (494)
Q Consensus       202 ~~~C~iC~~~~~~Pv~~-~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~  247 (494)
                      .+.|+||++++.+||.. +|||+||+.||..|+..+..||.++.++.
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 99999999999999986667999999884

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.67  E-value=3.7e-08  Score=86.01  Aligned_cols=89  Identities=12%  Similarity=-0.031  Sum_probs=78.6

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      ...+..+...|..+++.|+|++|+..|.+|++++|+++.+|+++|.+|..+|+|                       ++|
T Consensus        60 ~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~-----------------------~~A  116 (162)
T 3rkv_A           60 RKNIPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKL-----------------------DEA  116 (162)
T ss_dssp             HTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCH-----------------------HHH
T ss_pred             HHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcH-----------------------HHH
Confidence            445677889999999999999999999999999999999999999999999999                       999


Q ss_pred             HHHHHHHhhccccch-HHHHHHHHHHHHHHHHH
Q 011050          124 LKDAEKLLNLQSNSM-KSHLLKANALILLERYD  155 (494)
Q Consensus       124 ~~~~~~al~l~p~~~-~a~~~~g~~~~~~~~~~  155 (494)
                      +.++++++.++|++. .....++.+....+++.
T Consensus       117 ~~~~~~al~l~p~~~~~~~~~l~~~~~~~~~~~  149 (162)
T 3rkv_A          117 EEDLKLLLRNHPAAASVVAREMKIVTERRAEKK  149 (162)
T ss_dssp             HHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHH
Confidence            999999999999998 55666666665555444

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=98.66  E-value=8e-08  Score=93.47  Aligned_cols=109  Identities=9%  Similarity=-0.031  Sum_probs=96.2

Q ss_pred             HHHHHHHHHHHH-------HhcCh-------HHHHHHHHHHhc-cCCCCcccccChhHHHHHHHhhhccCCCCCcccccc
Q 011050           47 VFDLVQKGNRAF-------RESNF-------EEAISNYSRANN-IKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL  111 (494)
Q Consensus        47 ~~~~~~~g~~~~-------~~~~~-------~~Ai~~y~~al~-~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  111 (494)
                      +..|...|..+.       ..|++       ++|+..|.+|++ ++|++..+|.++|.++...|++              
T Consensus        50 ~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~~~~--------------  115 (308)
T 2ond_A           50 PDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKY--------------  115 (308)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCH--------------
T ss_pred             HHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCH--------------
Confidence            455666666665       35886       899999999999 7999999999999999999999              


Q ss_pred             CCCCCchhHHHHHHHHHHHhhccccchH-HHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHH
Q 011050          112 NGLDPTTHAELALKDAEKLLNLQSNSMK-SHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASL  178 (494)
Q Consensus       112 ~~~~~~~~~~~a~~~~~~al~l~p~~~~-a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~  178 (494)
                               ++|...++++++++|.++. +|..+|.++...|++++|+..|.+|++++|.+..+....
T Consensus       116 ---------~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~  174 (308)
T 2ond_A          116 ---------EKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTA  174 (308)
T ss_dssp             ---------HHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTCCTHHHHHH
T ss_pred             ---------HHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence                     9999999999999999987 999999999999999999999999999999887665433

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=98.66  E-value=4.9e-08  Score=95.01  Aligned_cols=115  Identities=12%  Similarity=-0.054  Sum_probs=99.9

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcc-cccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPI-VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      ...+...|..+...|++++|...|.++++++|.++. +|.++|.++...|++                       ++|..
T Consensus        99 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~-----------------------~~A~~  155 (308)
T 2ond_A           99 MLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGI-----------------------KSGRM  155 (308)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCH-----------------------HHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCH-----------------------HHHHH
Confidence            456778888999999999999999999999999997 999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHH-HHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhh
Q 011050          126 DAEKLLNLQSNSMKSHLLKANALI-LLERYDMARDAILSGLQVDPFSNPLQASLQNLERT  184 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~-~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~  184 (494)
                      .+++|++.+|.....|...|.... ..|++++|+..|+++++++|++..++..+..+...
T Consensus       156 ~~~~a~~~~p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~  215 (308)
T 2ond_A          156 IFKKAREDARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSH  215 (308)
T ss_dssp             HHHHHHTSTTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHhcCCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHH
Confidence            999999999998888775555533 36999999999999999999998887766655443

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.66  E-value=1.4e-08  Score=97.71  Aligned_cols=108  Identities=8%  Similarity=0.059  Sum_probs=89.8

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      .+..+...|..++..|+|++|+..|.+|++++|+++.+++++|.+|..+|++                       ++|+.
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            3567888999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHH-------HHHHHH----------------------HHHHHHHHHHHHHHHHccccCCCCCchhHH
Q 011050          126 DAEKLLNLQSNSMKS-------HLLKAN----------------------ALILLERYDMARDAILSGLQVDPFSNPLQA  176 (494)
Q Consensus       126 ~~~~al~l~p~~~~a-------~~~~g~----------------------~~~~~~~~~~A~~~~~~al~l~p~~~~~~~  176 (494)
                      .++++++++|++...       .+..+.                      .....|++++|++.|+++++++|++..+..
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            999999999975311       111110                      112378999999999999999998765443

>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=98.65  E-value=9.4e-09  Score=86.42  Aligned_cols=71  Identities=14%  Similarity=0.084  Sum_probs=66.0

Q ss_pred             cccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHH
Q 011050           81 PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDA  160 (494)
Q Consensus        81 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~  160 (494)
                      +.++.++|.++++.|+|                       ++|+..+++|++++|+++.+|+.+|.+|..+|+|++|+.+
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            35567899999999999                       9999999999999999999999999999999999999999


Q ss_pred             HHccccCCCCCchh
Q 011050          161 ILSGLQVDPFSNPL  174 (494)
Q Consensus       161 ~~~al~l~p~~~~~  174 (494)
                      |+++++++|++...
T Consensus        65 ~~~al~~~~~~~~~   78 (127)
T 4gcn_A           65 CEKAVEVGRETRAD   78 (127)
T ss_dssp             HHHHHHHHHHTTCC
T ss_pred             HHHHHHhCcccchh
Confidence            99999999987643

>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=98.65  E-value=4.2e-08  Score=104.03  Aligned_cols=117  Identities=10%  Similarity=-0.039  Sum_probs=106.6

Q ss_pred             HHHHHHHHHHHHHHHhc--ChHHHHHHHHHHhccCCCCcccccChhHHHHHHH-hhhccCCCCCccccccCCCCCchhHH
Q 011050           45 THVFDLVQKGNRAFRES--NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRIS-QFLKHRPPSASEYRPLNGLDPTTHAE  121 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~--~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (494)
                      +....|..+|..+.+.+  +|++|+..|.++++.+|.+..+|.+|+.+...++ .+                       +
T Consensus       105 K~y~aW~hR~w~l~~l~~~~~~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~~~-----------------------~  161 (567)
T 1dce_A          105 KSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAP-----------------------A  161 (567)
T ss_dssp             TCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCH-----------------------H
T ss_pred             CCHHHHHHHHHHHHHcccccHHHHHHHHHHHHhhccccccHHHHHHHHHHHcCCCh-----------------------H
Confidence            34567888888888889  7799999999999999999999999999999998 78                       9


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHHH--------------HHHHHHHHHHHccccCCCCCchhHHHHHHHHhh
Q 011050          122 LALKDAEKLLNLQSNSMKSHLLKANALILL--------------ERYDMARDAILSGLQVDPFSNPLQASLQNLERT  184 (494)
Q Consensus       122 ~a~~~~~~al~l~p~~~~a~~~~g~~~~~~--------------~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~  184 (494)
                      ++++.+.++++.+|.+..||..+|.++..+              +.+++|++++.+|+.++|++..++..+.-+-..
T Consensus       162 ~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~~~~~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~  238 (567)
T 1dce_A          162 EELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGR  238 (567)
T ss_dssp             HHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHHCCCCccHHHHHHHHHHhhcccccccccccccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhc
Confidence            999999999999999999999999999885              889999999999999999999999887766443

>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=98.64  E-value=1.3e-08  Score=84.65  Aligned_cols=82  Identities=13%  Similarity=0.067  Sum_probs=73.2

Q ss_pred             CcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHH
Q 011050           80 DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARD  159 (494)
Q Consensus        80 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~  159 (494)
                      .+..|.++|..++..|+|                       ++|+..++++++++|+++.+|+.+|.+|..+|++++|+.
T Consensus         3 ~a~~~~~~g~~~~~~~~~-----------------------~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~   59 (126)
T 3upv_A            3 KAEEARLEGKEYFTKSDW-----------------------PNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIA   59 (126)
T ss_dssp             HHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHhcCH-----------------------HHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHH
Confidence            445678889999999999                       999999999999999999999999999999999999999


Q ss_pred             HHHccccCCCCCchhHHHHHHHHhh
Q 011050          160 AILSGLQVDPFSNPLQASLQNLERT  184 (494)
Q Consensus       160 ~~~~al~l~p~~~~~~~~~~~~~~~  184 (494)
                      +|+++++++|++..+...+..+...
T Consensus        60 ~~~~al~~~p~~~~~~~~lg~~~~~   84 (126)
T 3upv_A           60 DCNKAIEKDPNFVRAYIRKATAQIA   84 (126)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHH
Confidence            9999999999998776655544433

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.64  E-value=3.2e-08  Score=79.40  Aligned_cols=87  Identities=21%  Similarity=0.154  Sum_probs=79.0

Q ss_pred             cCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHH
Q 011050           76 IKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYD  155 (494)
Q Consensus        76 ~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~  155 (494)
                      ++|+++.++.++|.+++..|++                       .+|+..++++++++|.+..+++.+|.+|..+|+++
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 011050          156 MARDAILSGLQVDPF--SNPLQASLQNLERTT  185 (494)
Q Consensus       156 ~A~~~~~~al~l~p~--~~~~~~~~~~~~~~~  185 (494)
                      +|+..|+++++++|+  +..+...+..+...+
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  877766665554443

>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=98.63  E-value=1.3e-08  Score=100.49  Aligned_cols=46  Identities=33%  Similarity=0.742  Sum_probs=42.1

Q ss_pred             ccccccccccccCcEEcCCCCcccHhhHHHhcc-CCCCCCCCCcccc
Q 011050          202 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD-RGNKCPLCRAVLF  247 (494)
Q Consensus       202 ~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~-~~~~CP~Cr~~~~  247 (494)
                      ...|+||++.+.+|+.++|||.||..|+..|.. ....||.||..+.
T Consensus       332 ~~~C~ICle~~~~pv~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~  378 (389)
T 2y1n_A          332 FQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIK  378 (389)
T ss_dssp             SSBCTTTSSSBCCEEEETTCCEECHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCccCcCCCCeEEeCCCChhhHHHHHHHHhcCCCCCCCCCCccC
Confidence            368999999999999999999999999999988 6778999999874

>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=98.62  E-value=1.3e-08  Score=74.60  Aligned_cols=48  Identities=23%  Similarity=0.482  Sum_probs=43.1

Q ss_pred             CCcccccccccccccCcEEc--CCCCc-ccHhhHHHhccCCCCCCCCCccc
Q 011050          199 RTDDFDCTLCLKLLYEPITT--PCGHS-FCRSCLFQSMDRGNKCPLCRAVL  246 (494)
Q Consensus       199 ~~~~~~C~iC~~~~~~Pv~~--~cgh~-fc~~Cl~~~~~~~~~CP~Cr~~~  246 (494)
                      ..++..|.||++...+++.+  ||||. ||..|+..++..+..||+||.++
T Consensus         5 ~~~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i   55 (64)
T 2vje_A            5 LNAIEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPI   55 (64)
T ss_dssp             CGGGSCCTTTSSSCSCEEEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCC
T ss_pred             CCCcCCCCcCCCCCCCEEEECCCCCChhhHHHHHHHHHHcCCcCCCcCcch
Confidence            34667899999999999977  99999 89999999998888999999976

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.62  E-value=1.9e-08  Score=78.02  Aligned_cols=80  Identities=23%  Similarity=0.268  Sum_probs=73.6

Q ss_pred             CcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHH
Q 011050           80 DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARD  159 (494)
Q Consensus        80 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~  159 (494)
                      ++.++.++|.++...+++                       ++|+..++++++++|++..+++.+|.+|..+|++++|+.
T Consensus         8 ~~~~~~~la~~~~~~~~~-----------------------~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~   64 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDY-----------------------DEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIE   64 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCH-----------------------HHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHH
Confidence            457788899999999999                       999999999999999999999999999999999999999


Q ss_pred             HHHccccCCCCCchhHHHHHHHH
Q 011050          160 AILSGLQVDPFSNPLQASLQNLE  182 (494)
Q Consensus       160 ~~~~al~l~p~~~~~~~~~~~~~  182 (494)
                      .|+++++++|++..+...+..+.
T Consensus        65 ~~~~a~~~~p~~~~~~~~l~~~~   87 (91)
T 1na3_A           65 YYQKALELDPNNAEAKQNLGNAK   87 (91)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHhcCCCCHHHHHHHHHHH
Confidence            99999999999988777666553

>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=98.62  E-value=1.4e-08  Score=95.70  Aligned_cols=101  Identities=14%  Similarity=0.021  Sum_probs=93.0

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhcc--------CCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCC
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNI--------KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLD  115 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~--------~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (494)
                      ...+..+...|..++..|+|++|+..|.+++++        +|....++.++|.+|...|++                  
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            345677888999999999999999999999987        466678999999999999999                  


Q ss_pred             CchhHHHHHHHHHHHhhc--------cccchHHHHHHHHHHHHHHHHHHHHHHHHccccC
Q 011050          116 PTTHAELALKDAEKLLNL--------QSNSMKSHLLKANALILLERYDMARDAILSGLQV  167 (494)
Q Consensus       116 ~~~~~~~a~~~~~~al~l--------~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l  167 (494)
                           ++|+..+++++.+        +|....+++.+|.+|..+|++++|+..|++++++
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        5888999999999999999999999999999998

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.62  E-value=4.5e-08  Score=80.61  Aligned_cols=88  Identities=10%  Similarity=0.019  Sum_probs=78.7

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      +.....+...|..++..|+|++|+..|.++++++|+++.++.++|.++..+|++                       ++|
T Consensus        24 p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~-----------------------~~A   80 (117)
T 3k9i_A           24 KDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRY-----------------------EQG   80 (117)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH-----------------------HHH
T ss_pred             ccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCH-----------------------HHH
Confidence            456788999999999999999999999999999999999999999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccc
Q 011050          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGL  165 (494)
Q Consensus       124 ~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al  165 (494)
                      +..+++++..+|+++...           .+..|+..|...+
T Consensus        81 ~~~~~~al~~~p~~~~~~-----------~~~~ai~~~~~~l  111 (117)
T 3k9i_A           81 VELLLKIIAETSDDETIQ-----------SYKQAILFYADKL  111 (117)
T ss_dssp             HHHHHHHHHHHCCCHHHH-----------HTHHHHHHHTTCT
T ss_pred             HHHHHHHHHhCCCcHHHH-----------HHHHHHHHHHHHH
Confidence            999999999999987654           4666777666654

>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.62  E-value=1.1e-08  Score=77.52  Aligned_cols=43  Identities=30%  Similarity=0.839  Sum_probs=37.9

Q ss_pred             cccccccccccccCcEEcCCCCc-ccHhhHHHhccCCCCCCCCCcccc
Q 011050          201 DDFDCTLCLKLLYEPITTPCGHS-FCRSCLFQSMDRGNKCPLCRAVLF  247 (494)
Q Consensus       201 ~~~~C~iC~~~~~~Pv~~~cgh~-fc~~Cl~~~~~~~~~CP~Cr~~~~  247 (494)
                      +...|+||++.+.+|+.+||||. ||..|+...    ..||.||.++.
T Consensus        24 ~~~~C~IC~~~~~~~~~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~   67 (75)
T 2ecg_A           24 EEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAV----DKCPMCYTVIT   67 (75)
T ss_dssp             HHHSCSSSCSSCCCBCCSSSCCCCBCHHHHHHC----SBCTTTCCBCC
T ss_pred             CCCCCCcCCCCCCCEEEecCCCHHHHHHHhhCC----CCCccCCceec
Confidence            35679999999999999999999 999999643    68999999874

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=98.62  E-value=5.6e-08  Score=76.98  Aligned_cols=85  Identities=13%  Similarity=0.072  Sum_probs=70.8

Q ss_pred             CCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHH
Q 011050           77 KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDM  156 (494)
Q Consensus        77 ~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~  156 (494)
                      +|+++.++..+|.+++..++-                    ....+|...+++++++||+++.+++.+|.+++..|+|++
T Consensus         2 ~p~~~~~~~~~a~al~~~~~~--------------------~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~   61 (93)
T 3bee_A            2 NAVTATQLAAKATTLYYLHKQ--------------------AMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQE   61 (93)
T ss_dssp             CCCCHHHHHHHHHHHHHTTTT--------------------CCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             CCCCHHHHHHHHHHHHHhcCC--------------------CCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHH
Confidence            688999999999998765551                    001899999999999999999999999999999999999


Q ss_pred             HHHHHHccccCCCCCchhHHHHHHH
Q 011050          157 ARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       157 A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      |+..|+++++.+|.+.........+
T Consensus        62 Ai~~w~~~l~~~p~~~~~~~i~~~I   86 (93)
T 3bee_A           62 AIDTWVLLLDSNDPNLDRVTIIESI   86 (93)
T ss_dssp             HHHHHHHHHTCCCTTCCHHHHHHHH
T ss_pred             HHHHHHHHHhhCCCCccHHHHHHHH
Confidence            9999999999999955443333333

>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=98.61  E-value=1.1e-07  Score=95.42  Aligned_cols=91  Identities=14%  Similarity=0.198  Sum_probs=85.6

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      +..+...|..+++.|+|++|+.+|.+|++++|+++.+|+++|.+|..+++|                       ++|+..
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            455678899999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHHHHHHHH
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDA  160 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~  160 (494)
                      +++|++++|++..++..++.++..+++++++...
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            9999999999999999999999999999988654

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.61  E-value=4.5e-08  Score=78.91  Aligned_cols=83  Identities=19%  Similarity=0.157  Sum_probs=71.3

Q ss_pred             cccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHH
Q 011050           81 PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDA  160 (494)
Q Consensus        81 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~  160 (494)
                      +.++.++|.+++..|+|                       ++|+..++++++++|+++.+++.+|.+|..+|++++|+..
T Consensus         4 ~~~~~~~g~~~~~~~~~-----------------------~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~   60 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLY-----------------------REAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQM   60 (111)
T ss_dssp             HHHHHHHHHHHHTTTCH-----------------------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHH
Confidence            45677889999999999                       9999999999999999999999999999999999999999


Q ss_pred             HHccccCCCCC------chhHHHHHHHHhhhh
Q 011050          161 ILSGLQVDPFS------NPLQASLQNLERTTA  186 (494)
Q Consensus       161 ~~~al~l~p~~------~~~~~~~~~~~~~~~  186 (494)
                      |+++++++|++      ..+...+..+...+.
T Consensus        61 ~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~   92 (111)
T 2l6j_A           61 CQQGLRYTSTAEHVAIRSKLQYRLELAQGAVG   92 (111)
T ss_dssp             HHHHHTSCSSTTSHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCccHHHHHHHHHHHHHHHHHHHH
Confidence            99999999998      444444444444443

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=98.61  E-value=7.6e-08  Score=101.84  Aligned_cols=111  Identities=12%  Similarity=0.071  Sum_probs=92.2

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      ...+...|..+.+.|++++|+..|.++++.+|.+..+|..++.+|.+.|++                       ++|++.
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 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~  180 (494)
                      ++++++.+|++..+++.+|.+|...|++++|++.|+++++++|.+..+...+..
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

>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=98.61  E-value=1.4e-08  Score=74.02  Aligned_cols=47  Identities=26%  Similarity=0.506  Sum_probs=42.2

Q ss_pred             CcccccccccccccCcEEc--CCCCc-ccHhhHHHhccCCCCCCCCCccc
Q 011050          200 TDDFDCTLCLKLLYEPITT--PCGHS-FCRSCLFQSMDRGNKCPLCRAVL  246 (494)
Q Consensus       200 ~~~~~C~iC~~~~~~Pv~~--~cgh~-fc~~Cl~~~~~~~~~CP~Cr~~~  246 (494)
                      .....|++|++...+++.+  ||||. ||..|+..++..+..||+||.++
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i   54 (63)
T 2vje_B            5 NLLKPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEI   54 (63)
T ss_dssp             GGGSBCTTTSSSBSCEEEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBC
T ss_pred             CcCCCCcccCCcCCCeEEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchh
Confidence            3567899999999999877  99999 99999999988888999999986

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=98.61  E-value=3.4e-08  Score=84.81  Aligned_cols=104  Identities=12%  Similarity=0.057  Sum_probs=92.8

Q ss_pred             ChHHHHHHHHHHhccCCCCcccccChhHHHHHHH---hhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhcc-c-c
Q 011050           62 NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRIS---QFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQ-S-N  136 (494)
Q Consensus        62 ~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~-p-~  136 (494)
                      ..+.+...|.+++..+|.+..+.+++|.++.+..   ++                       .+++..++.+++.+ | +
T Consensus        13 ~l~~~~~~y~~e~~~~~~~~~~~F~ya~~Lv~S~~~~~~-----------------------~~gI~lLe~ll~~~~p~~   69 (152)
T 1pc2_A           13 DLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRSKYNDDI-----------------------RKGIVLLEELLPKGSKEE   69 (152)
T ss_dssp             HHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHTCSSHHHH-----------------------HHHHHHHHHHHHHSCHHH
T ss_pred             HHHHHHHHHHHHHccCCCcHHHHHHHHHHHHcCCCHHHH-----------------------HHHHHHHHHHHhcCCccc
Confidence            3456777788888888889999999999999866   56                       89999999999999 7 6


Q ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhhh
Q 011050          137 SMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  188 (494)
Q Consensus       137 ~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~  188 (494)
                      ..+++|++|.+|+.+|+|++|+.+++++|+++|+|..+....+.+++++.+.
T Consensus        70 ~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~ieP~n~QA~~Lk~~ie~~~~kd  121 (152)
T 1pc2_A           70 QRDYVFYLAVGNYRLKEYEKALKYVRGLLQTEPQNNQAKELERLIDKAMKKD  121 (152)
T ss_dssp             HHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHh
Confidence            7999999999999999999999999999999999999999998888888653

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.59  E-value=6.9e-08  Score=79.57  Aligned_cols=85  Identities=16%  Similarity=0.132  Sum_probs=80.9

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      ...+...|..++..|++++|+..|.+++..+|+++.++.++|.++..+|++                       ++|+..
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            566788999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHH
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLERY  154 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~  154 (494)
                      ++++++++|++..+++.+|.++..+|++
T Consensus       103 ~~~~~~~~p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A          103 YKKALELDPDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHHHHHSTTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHhcCccchHHHHHHHHHHHHHhcC
Confidence            9999999999999999999999988875

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.59  E-value=5.4e-08  Score=85.14  Aligned_cols=82  Identities=12%  Similarity=0.073  Sum_probs=76.3

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      ....+...|..++..|+|++|+.+|.++++++|+++.+|+++|.+|..+|++                       ++|+.
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            3567889999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHH
Q 011050          126 DAEKLLNLQSNSMKSHLLKANALIL  150 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~~  150 (494)
                      .++++++++|++..+|+.+|.+...
T Consensus       101 ~~~~al~~~p~~~~~~~~~~l~~~~  125 (164)
T 3sz7_A          101 AYEKGIEAEGNGGSDAMKRGLETTK  125 (164)
T ss_dssp             HHHHHHHHHSSSCCHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCchHHHHHHHHHHHH
Confidence            9999999999999998888876543

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=98.58  E-value=8.5e-08  Score=75.98  Aligned_cols=69  Identities=23%  Similarity=0.228  Sum_probs=65.4

Q ss_pred             ccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchH-HHHHHHHHHHHHHHHHHHHHHHH
Q 011050           84 LGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMK-SHLLKANALILLERYDMARDAIL  162 (494)
Q Consensus        84 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~-a~~~~g~~~~~~~~~~~A~~~~~  162 (494)
                      ..++|.+++..|+|                       ++|+..++++++++|+++. +++.+|.+|..+|++++|+..|+
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            35678899999999                       9999999999999999999 99999999999999999999999


Q ss_pred             ccccCCCCCchhH
Q 011050          163 SGLQVDPFSNPLQ  175 (494)
Q Consensus       163 ~al~l~p~~~~~~  175 (494)
                      ++++++|++..+.
T Consensus        60 ~al~~~p~~~~~~   72 (99)
T 2kc7_A           60 SAIELNPDSPALQ   72 (99)
T ss_dssp             HHHHHCTTSTHHH
T ss_pred             HHHhcCCCcHHHH
Confidence            9999999999876

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.57  E-value=7.8e-08  Score=79.80  Aligned_cols=84  Identities=11%  Similarity=0.065  Sum_probs=79.5

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      ...+...|..++..|++++|+..|.++++.+|.++.++.++|.++..+|++                       ++|+..
T Consensus        50 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~-----------------------~~A~~~  106 (133)
T 2lni_A           50 AKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAALEAMKDY-----------------------TKAMDV  106 (133)
T ss_dssp             HHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHHhhH-----------------------HHHHHH
Confidence            567888999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHH
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLER  153 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~  153 (494)
                      ++++++++|.+..+++.+|.++..+|+
T Consensus       107 ~~~~~~~~p~~~~~~~~l~~~~~~~~~  133 (133)
T 2lni_A          107 YQKALDLDSSCKEAADGYQRCMMAQYN  133 (133)
T ss_dssp             HHHHHHHCGGGTHHHHHHHHHHHHHTC
T ss_pred             HHHHHHhCCCchHHHHHHHHHHHHhcC
Confidence            999999999999999999999987763

>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=98.56  E-value=6e-08  Score=94.43  Aligned_cols=105  Identities=14%  Similarity=0.165  Sum_probs=86.4

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC------cccccChhHHHHHHHhhhccCCCCCccccccCCCCCchh
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH  119 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (494)
                      .+..+...|..+.. |+|++|+.+|.+|+++.|..      ..++.++|.+|..+|+|                      
T Consensus       115 ~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~----------------------  171 (307)
T 2ifu_A          115 AAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKF----------------------  171 (307)
T ss_dssp             HHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH----------------------
T ss_pred             HHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCH----------------------
Confidence            35667778888888 99999999999999887654      46788899999999999                      


Q ss_pred             HHHHHHHHHHHhhccccc------hHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhH
Q 011050          120 AELALKDAEKLLNLQSNS------MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  175 (494)
Q Consensus       120 ~~~a~~~~~~al~l~p~~------~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~  175 (494)
                       ++|+..+++++.+.|.+      ..+++.+|.++..+|++++|+..|++++ ++|.+....
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             99999999999887644      3477788888888899999999999999 999776543

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.56  E-value=6.8e-08  Score=80.36  Aligned_cols=81  Identities=11%  Similarity=0.006  Sum_probs=72.5

Q ss_pred             ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHH
Q 011050           82 IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAI  161 (494)
Q Consensus        82 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~  161 (494)
                      ..++.+|.+++..|++                       .+|+..++++++++|+++.+|+.+|.++..+|++++|+..|
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            4567789999999999                       99999999999999999999999999999999999999999


Q ss_pred             HccccCCCCCchhHHHHHHHHhhh
Q 011050          162 LSGLQVDPFSNPLQASLQNLERTT  185 (494)
Q Consensus       162 ~~al~l~p~~~~~~~~~~~~~~~~  185 (494)
                      +++++++|++..++..+..+-...
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            999999999998776665444333

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=98.56  E-value=6.1e-08  Score=97.48  Aligned_cols=102  Identities=18%  Similarity=0.236  Sum_probs=95.7

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc----ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchh
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH  119 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (494)
                      ...+..+...|..++..|+|++|+..|.+++++.|+++    .+|.++|.+|...|++                      
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            55678889999999999999999999999999999987    5899999999999999                      


Q ss_pred             HHHHHHHHHHHhhc------cccchHHHHHHHHHHHHHHHHHHHHHHHHccccCC
Q 011050          120 AELALKDAEKLLNL------QSNSMKSHLLKANALILLERYDMARDAILSGLQVD  168 (494)
Q Consensus       120 ~~~a~~~~~~al~l------~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~  168 (494)
                       ++|+..+++++++      +|....+++.+|.+|..+|++++|+..|.+++++.
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      68889999999999999999999999999999883

>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=98.55  E-value=7.5e-08  Score=90.72  Aligned_cols=101  Identities=17%  Similarity=0.042  Sum_probs=93.7

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhcc--------CCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCC
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNI--------KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLD  115 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~--------~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (494)
                      ...+..+...|..++..|++++|+..|.+++.+        +|....++.++|.+|..+|++                  
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            345667888999999999999999999999998        577789999999999999999                  


Q ss_pred             CchhHHHHHHHHHHHhhc--------cccchHHHHHHHHHHHHHHHHHHHHHHHHccccC
Q 011050          116 PTTHAELALKDAEKLLNL--------QSNSMKSHLLKANALILLERYDMARDAILSGLQV  167 (494)
Q Consensus       116 ~~~~~~~a~~~~~~al~l--------~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l  167 (494)
                           ++|+..+++++++        +|....+++.+|.+|..+|++++|+..|.+++++
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        8888999999999999999999999999999986

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.55  E-value=1.3e-07  Score=75.66  Aligned_cols=83  Identities=10%  Similarity=0.069  Sum_probs=71.0

Q ss_pred             HHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHH
Q 011050           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (494)
                      .....+...|..++..|+|++|+..|.++++++|+++.+|.++|.+|..+|++                       ++|+
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            34677889999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHH--HHHHHHHHHH
Q 011050          125 KDAEKLLNLQSNSMKS--HLLKANALIL  150 (494)
Q Consensus       125 ~~~~~al~l~p~~~~a--~~~~g~~~~~  150 (494)
                      ..+++++++.|.....  ...+...+..
T Consensus        62 ~~~~~al~l~~~~~~~~~~~~l~~~l~~   89 (100)
T 3ma5_A           62 DTYAQGIEVAREEGTQKDLSELQDAKLK   89 (100)
T ss_dssp             HHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhhcCCchhHHHHHHHHHHH
Confidence            9999999998765433  3333444433

>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=98.54  E-value=4.8e-08  Score=79.00  Aligned_cols=46  Identities=20%  Similarity=0.435  Sum_probs=40.3

Q ss_pred             cccccccccccccCc------------------EEcCCCCcccHhhHHHhccCCCCCCCCCccc
Q 011050          201 DDFDCTLCLKLLYEP------------------ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (494)
Q Consensus       201 ~~~~C~iC~~~~~~P------------------v~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~  246 (494)
                      .+..|.||++.|.++                  +.++|||.||..||..|+.....||+||..+
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            456799999998876                  3479999999999999999888999999975

>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=1.1e-07  Score=92.57  Aligned_cols=117  Identities=8%  Similarity=-0.081  Sum_probs=104.1

Q ss_pred             HHHHHHHHHHH----HHh---cChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchh
Q 011050           47 VFDLVQKGNRA----FRE---SNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH  119 (494)
Q Consensus        47 ~~~~~~~g~~~----~~~---~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (494)
                      ...|..++..+    ...   +++++++..+.++++.+|++..+|++|+.+...++.+                      
T Consensus       103 y~aW~~R~~iL~~~~~~l~~~~~~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~----------------------  160 (306)
T 3dra_A          103 YQIWNYRQLIIGQIMELNNNDFDPYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLH----------------------  160 (306)
T ss_dssp             CHHHHHHHHHHHHHHHHTTTCCCTHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCT----------------------
T ss_pred             HHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccc----------------------
Confidence            34566666666    444   7899999999999999999999999999999999988                      


Q ss_pred             HH--HHHHHHHHHhhccccchHHHHHHHHHHHHHHH------HHHHHHHHHccccCCCCCchhHHHHHHHHhhhh
Q 011050          120 AE--LALKDAEKLLNLQSNSMKSHLLKANALILLER------YDMARDAILSGLQVDPFSNPLQASLQNLERTTA  186 (494)
Q Consensus       120 ~~--~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~------~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~  186 (494)
                       +  ++++.++++++.||.+..||..++.++..+++      ++++++.+.+++.++|+|.+++..+.-+-....
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             6  99999999999999999999999999999887      999999999999999999999988777655443

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.51  E-value=1.6e-07  Score=91.39  Aligned_cols=114  Identities=7%  Similarity=-0.139  Sum_probs=97.7

Q ss_pred             HHHHHHHHHHHHHhc--ChHHHHHHHHHHhccCCCCcccccChhHHH----HHH---HhhhccCCCCCccccccCCCCCc
Q 011050           47 VFDLVQKGNRAFRES--NFEEAISNYSRANNIKPGDPIVLGNRSSAY----IRI---SQFLKHRPPSASEYRPLNGLDPT  117 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~--~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~----~~~---~~~~~~~~~~~~~~~~~~~~~~~  117 (494)
                      ...+..+|..+...|  ++++|+..+.+++..+|++..+|.+|+.++    ..+   +++                    
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            455777888888777  888999999999999999999999988888    333   334                    


Q ss_pred             hhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHH--HHHHHHHccccCCCCCchhHHHHHHHHh
Q 011050          118 THAELALKDAEKLLNLQSNSMKSHLLKANALILLERYD--MARDAILSGLQVDPFSNPLQASLQNLER  183 (494)
Q Consensus       118 ~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~--~A~~~~~~al~l~p~~~~~~~~~~~~~~  183 (494)
                         .+++..++++++.+|.+..+|+.++.++..+|.++  ++++.+.++++.||.|..++.....+-.
T Consensus       127 ---~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~N~sAW~~R~~ll~  191 (306)
T 3dra_A          127 ---YREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLKNNSAWSHRFFLLF  191 (306)
T ss_dssp             ---HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             ---HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence               89999999999999999999999999999999998  9999999999999999988876554433

>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=98.51  E-value=1.2e-07  Score=82.23  Aligned_cols=72  Identities=22%  Similarity=0.274  Sum_probs=64.5

Q ss_pred             HHHHHHHHHHHHHHHHhcCh----------HHHHHHHHHHhccCCCCcccccChhHHHHHHH-----------hhhccCC
Q 011050           44 YTHVFDLVQKGNRAFRESNF----------EEAISNYSRANNIKPGDPIVLGNRSSAYIRIS-----------QFLKHRP  102 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~----------~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~-----------~~~~~~~  102 (494)
                      +..+..+...|..+...+++          ++|+..|.+||+++|+++.+|+++|.+|..+|           +|     
T Consensus        33 P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~lg~l~P~~~~a~g~~-----  107 (158)
T 1zu2_A           33 PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNF-----  107 (158)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHH-----
T ss_pred             CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhcccCcchhhhhccH-----
Confidence            33567788899988888775          59999999999999999999999999999986           67     


Q ss_pred             CCCccccccCCCCCchhHHHHHHHHHHHhhccccch
Q 011050          103 PSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSM  138 (494)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~  138 (494)
                                        ++|+..+++|++++|++.
T Consensus       108 ------------------~eA~~~~~kAl~l~P~~~  125 (158)
T 1zu2_A          108 ------------------DLATQFFQQAVDEQPDNT  125 (158)
T ss_dssp             ------------------HHHHHHHHHHHHHCTTCH
T ss_pred             ------------------HHHHHHHHHHHHhCCCCH
Confidence                              999999999999999984

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.50  E-value=7.5e-08  Score=92.34  Aligned_cols=104  Identities=14%  Similarity=0.106  Sum_probs=93.1

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhcc--------CCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCC
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNI--------KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLD  115 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~--------~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (494)
                      ...+..+...|..++..|++++|+..|.+++.+        .|....++.++|.+|...|++                  
T Consensus       150 ~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~------------------  211 (311)
T 3nf1_A          150 PDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKF------------------  211 (311)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCH------------------
T ss_pred             hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCH------------------
Confidence            344567788999999999999999999999998        677778999999999999999                  


Q ss_pred             CchhHHHHHHHHHHHhhc-------------------------------------------------cccchHHHHHHHH
Q 011050          116 PTTHAELALKDAEKLLNL-------------------------------------------------QSNSMKSHLLKAN  146 (494)
Q Consensus       116 ~~~~~~~a~~~~~~al~l-------------------------------------------------~p~~~~a~~~~g~  146 (494)
                           ++|+..+++++++                                                 +|....+++.+|.
T Consensus       212 -----~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~  286 (311)
T 3nf1_A          212 -----KQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGA  286 (311)
T ss_dssp             -----HHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHH
T ss_pred             -----HHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHH
Confidence                 9999999999974                                                 4777889999999


Q ss_pred             HHHHHHHHHHHHHHHHccccCCCC
Q 011050          147 ALILLERYDMARDAILSGLQVDPF  170 (494)
Q Consensus       147 ~~~~~~~~~~A~~~~~~al~l~p~  170 (494)
                      +|..+|++++|+..|++++++.|.
T Consensus       287 ~~~~~g~~~~A~~~~~~al~l~~~  310 (311)
T 3nf1_A          287 LYRRQGKFEAAETLEEAAMRSRKQ  310 (311)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHC-
T ss_pred             HHHHCCCHHHHHHHHHHHHHHhhc
Confidence            999999999999999999988764

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=98.50  E-value=1.2e-07  Score=91.51  Aligned_cols=103  Identities=20%  Similarity=0.252  Sum_probs=94.3

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc----ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (494)
                      ...+...|..++..|+|++|+..|.++++.+|+++    .++.++|.++...|++                       ++
T Consensus         5 ~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~-----------------------~~   61 (338)
T 3ro2_A            5 CLELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDY-----------------------AK   61 (338)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCH-----------------------HH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCH-----------------------HH
Confidence            56788899999999999999999999999999984    7888999999999999                       99


Q ss_pred             HHHHHHHHhhc------cccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCc
Q 011050          123 ALKDAEKLLNL------QSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (494)
Q Consensus       123 a~~~~~~al~l------~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~  172 (494)
                      |+..+++++.+      .|....+++.+|.+|..+|++++|+..+.+++++.+...
T Consensus        62 A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~  117 (338)
T 3ro2_A           62 ALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELN  117 (338)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhc
Confidence            99999999988      567788999999999999999999999999999877543

>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=98.50  E-value=2.8e-07  Score=90.41  Aligned_cols=113  Identities=10%  Similarity=-0.043  Sum_probs=101.8

Q ss_pred             HHHHHHHHHHHHHHHHhc--ChHHHHHHHHHHhccCCCCcccccChhHHHHHHHh-hhccCCCCCccccccCCCCCchhH
Q 011050           44 YTHVFDLVQKGNRAFRES--NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQ-FLKHRPPSASEYRPLNGLDPTTHA  120 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~--~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~  120 (494)
                      ++....|..++..+...+  ++++++.++.++++.+|.|..+|++|+.+...++. +                       
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            344567778888888777  48999999999999999999999999999988887 5                       


Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHH--------------HHHHHHHHHHHccccCCCCCchhHHHHH
Q 011050          121 ELALKDAEKLLNLQSNSMKSHLLKANALILL--------------ERYDMARDAILSGLQVDPFSNPLQASLQ  179 (494)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~--------------~~~~~A~~~~~~al~l~p~~~~~~~~~~  179 (494)
                      +++++.+.++++.+|.+..||..++.++..+              +.++++++.+.+++.++|+|.+++.-+.
T Consensus       162 ~eel~~~~~~I~~~p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r  234 (331)
T 3dss_A          162 AEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHR  234 (331)
T ss_dssp             HHHHHHHHHHHHHCSCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            8999999999999999999999999999887              7899999999999999999999987543

>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=98.50  E-value=9.9e-08  Score=80.13  Aligned_cols=87  Identities=10%  Similarity=-0.004  Sum_probs=76.9

Q ss_pred             ccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHH
Q 011050           75 NIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERY  154 (494)
Q Consensus        75 ~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~  154 (494)
                      ..+|.++..+.++|.+++..|+|                       ++|+..+++++.++|+++.+++.+|.+|..+|++
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            45677889999999999999999                       9999999999999999999999999999999999


Q ss_pred             HHHHHHHHccccCCCCCchhHHHHHHHHhh
Q 011050          155 DMARDAILSGLQVDPFSNPLQASLQNLERT  184 (494)
Q Consensus       155 ~~A~~~~~~al~l~p~~~~~~~~~~~~~~~  184 (494)
                      ++|+..|+++++++|++..++..+..+-..
T Consensus        60 ~~A~~~~~~al~~~p~~~~~~~~l~~~~~~   89 (137)
T 3q49_B           60 EQALADCRRALELDGQSVKAHFFLGQCQLE   89 (137)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCchhHHHHHHHHHHHHH
Confidence            999999999999999998776665554433

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=98.49  E-value=1.7e-07  Score=96.12  Aligned_cols=124  Identities=11%  Similarity=-0.003  Sum_probs=97.8

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      ...+...|..+...|++++|+..|.+|++.+|+++.++.++|.+|...+.........    ............+.|+..
T Consensus       247 ~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~y~~~~~~~~~~~~~----~~~~~~~~~~~~~~A~~~  322 (472)
T 4g1t_A          247 TDVLRSAAKFYRRKDEPDKAIELLKKALEYIPNNAYLHCQIGCCYRAKVFQVMNLREN----GMYGKRKLLELIGHAVAH  322 (472)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHC----------CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHhhhHHHH----HHHHHHHHHhhHHHHHHH
Confidence            4456778999999999999999999999999999999999999987665431111100    000000011222789999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchh
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  174 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~  174 (494)
                      ++++++++|.+..+++.+|.+|..+|++++|+..|+++++++|++...
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            999999999999999999999999999999999999999999876654

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.49  E-value=8.2e-08  Score=82.11  Aligned_cols=104  Identities=26%  Similarity=0.246  Sum_probs=91.8

Q ss_pred             hHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc------ccccChhHHHHHHHhhhccCCCCCccccccCCCCC
Q 011050           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP------IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDP  116 (494)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  116 (494)
                      ....+..+...|..++..|+|++|+..|.+++++.+...      .++.++|.++...|++                   
T Consensus         5 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-------------------   65 (164)
T 3ro3_A            5 RAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEF-------------------   65 (164)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCH-------------------
T ss_pred             HHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCH-------------------
Confidence            345577889999999999999999999999999876543      4889999999999999                   


Q ss_pred             chhHHHHHHHHHHHhhccccc------hHHHHHHHHHHHHHHHHHHHHHHHHccccCCC
Q 011050          117 TTHAELALKDAEKLLNLQSNS------MKSHLLKANALILLERYDMARDAILSGLQVDP  169 (494)
Q Consensus       117 ~~~~~~a~~~~~~al~l~p~~------~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p  169 (494)
                          ++|+..+++++++.+..      ..+++.+|.++..+|++++|+..+++++++.+
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                99999999999987553      67899999999999999999999999998754

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.49  E-value=6.6e-08  Score=93.28  Aligned_cols=101  Identities=15%  Similarity=0.042  Sum_probs=87.9

Q ss_pred             HHHHHHHHHHHHHHHhcChHHHHHHHHHHhcc-------CCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCc
Q 011050           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNI-------KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPT  117 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~-------~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (494)
                      ..+..+...|..++..|+|++|+.+|.+|++.       .+....+|.|+|.+|..+|+|                    
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            34557889999999999999999999999953       233346899999999999999                    


Q ss_pred             hhHHHHHHHHHHHhhccccc------hHHHHHHHHHHHHHHH-HHHHHHHHHccccCC
Q 011050          118 THAELALKDAEKLLNLQSNS------MKSHLLKANALILLER-YDMARDAILSGLQVD  168 (494)
Q Consensus       118 ~~~~~a~~~~~~al~l~p~~------~~a~~~~g~~~~~~~~-~~~A~~~~~~al~l~  168 (494)
                         ++|+..+++++++.+..      ..+|+.+|.+|..+|+ +++|+..|++|+.+.
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      7899999999999995 699999999998754

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus}

Probab=98.48  E-value=3.4e-08  Score=83.72  Aligned_cols=49  Identities=35%  Similarity=0.872  Sum_probs=44.2

Q ss_pred             CCcccccccccccccCc-------EEcCCCCcccHhhHHHhccCCCCCCCCCcccc
Q 011050          199 RTDDFDCTLCLKLLYEP-------ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (494)
Q Consensus       199 ~~~~~~C~iC~~~~~~P-------v~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~  247 (494)
                      ......|+||++.+.+|       +.++|||.||..||..|+.....||+||..+.
T Consensus        69 ~~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~  124 (133)
T 4ap4_A           69 GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN  124 (133)
T ss_dssp             SSSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCC
T ss_pred             CCCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCC
Confidence            34678899999999987       88999999999999999998899999999874

>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=98.47  E-value=5.1e-08  Score=74.56  Aligned_cols=42  Identities=33%  Similarity=0.803  Sum_probs=37.8

Q ss_pred             ccccccccccccCcEEcCCCCc-ccHhhHHHhccCCCCCCCCCcccc
Q 011050          202 DFDCTLCLKLLYEPITTPCGHS-FCRSCLFQSMDRGNKCPLCRAVLF  247 (494)
Q Consensus       202 ~~~C~iC~~~~~~Pv~~~cgh~-fc~~Cl~~~~~~~~~CP~Cr~~~~  247 (494)
                      ...|+||++.+.+|+.+||||. ||..|+..+.    .||.||..+.
T Consensus        18 ~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~~~----~CP~Cr~~i~   60 (79)
T 2yho_A           18 AMLCMVCCEEEINSTFCPCGHTVCCESCAAQLQ----SCPVCRSRVE   60 (79)
T ss_dssp             HTBCTTTSSSBCCEEEETTCBCCBCHHHHTTCS----BCTTTCCBCC
T ss_pred             CCEeEEeCcccCcEEEECCCCHHHHHHHHHhcC----cCCCCCchhh
Confidence            5679999999999999999999 9999998763    8999999873

>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=98.47  E-value=3.5e-07  Score=90.14  Aligned_cols=95  Identities=17%  Similarity=0.046  Sum_probs=83.9

Q ss_pred             hcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHh-hhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccch
Q 011050           60 ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQ-FLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSM  138 (494)
Q Consensus        60 ~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~  138 (494)
                      .+..++|+..++++|.++|++..+|..|+.++..++. +                       ++++..+++++..+|++.
T Consensus        67 ~e~se~AL~lt~~~L~~nP~~ytaWn~R~~iL~~l~~~l-----------------------~eEL~~~~~~L~~nPKny  123 (349)
T 3q7a_A           67 EEKSERALELTEIIVRMNPAHYTVWQYRFSLLTSLNKSL-----------------------EDELRLMNEFAVQNLKSY  123 (349)
T ss_dssp             TCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCH-----------------------HHHHHHHHHHHHTTCCCH
T ss_pred             CCCCHHHHHHHHHHHHhCchhHHHHHHHHHHHHHhhhhH-----------------------HHHHHHHHHHHHhCCCcH
Confidence            3445789999999999999999999999999998884 8                       899999999999999999


Q ss_pred             HHHHHHHHHHHHH-H-HHHHHHHHHHccccCCCCCchhHHH
Q 011050          139 KSHLLKANALILL-E-RYDMARDAILSGLQVDPFSNPLQAS  177 (494)
Q Consensus       139 ~a~~~~g~~~~~~-~-~~~~A~~~~~~al~l~p~~~~~~~~  177 (494)
                      .+|..++.++..+ + +++++++.+.++++++|.|..++.-
T Consensus       124 ~aW~hR~wlL~~l~~~~~~~EL~~~~k~L~~dpkNy~AW~~  164 (349)
T 3q7a_A          124 QVWHHRLLLLDRISPQDPVSEIEYIHGSLLPDPKNYHTWAY  164 (349)
T ss_dssp             HHHHHHHHHHHHHCCSCCHHHHHHHHHHTSSCTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCHHHHHH
Confidence            9999999999887 7 8899999999999999998877643

>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=98.45  E-value=3.1e-07  Score=90.52  Aligned_cols=121  Identities=9%  Similarity=-0.065  Sum_probs=84.1

Q ss_pred             HHHHHHHHHHHh-c-ChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           49 DLVQKGNRAFRE-S-NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        49 ~~~~~g~~~~~~-~-~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      .|..++..+... + ++++++..+.++++.+|++..+|.+|+.+...++.+-    .           .......++++.
T Consensus       125 aW~hR~wlL~~l~~~~~~~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~----~-----------~~~~~~~eELe~  189 (349)
T 3q7a_A          125 VWHHRLLLLDRISPQDPVSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLG----R-----------ISEAQWGSELDW  189 (349)
T ss_dssp             HHHHHHHHHHHHCCSCCHHHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTT----C-----------CCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccc----c-----------cchhhHHHHHHH
Confidence            344444444443 4 5555555555555555555555555555555555550    0           001111389999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHH-------HHHHHHHHHccccCCCCCchhHHHHHHHHhh
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLER-------YDMARDAILSGLQVDPFSNPLQASLQNLERT  184 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~-------~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~  184 (494)
                      ++++++.+|.+..||..++.++..+++       ++++++.+.+++.++|+|..++..+.-+-..
T Consensus       190 ~~k~I~~dp~N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~~~P~n~SaW~Ylr~Ll~~  254 (349)
T 3q7a_A          190 CNEMLRVDGRNNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHLIPHNVSAWNYLRGFLKH  254 (349)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHh
Confidence            999999999999999999999988886       7999999999999999999999876665443

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.45  E-value=2e-07  Score=89.14  Aligned_cols=113  Identities=12%  Similarity=-0.062  Sum_probs=96.6

Q ss_pred             HHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC--cccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHH
Q 011050           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD--PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (494)
                      ... ..+..|..+++.++|++|+..|+++....+..  ..+++++|.++..+|++                       .+
T Consensus       134 ~~~-~~~~~a~l~~~~~r~~dA~~~l~~a~~~~d~~~~~~a~~~LG~al~~LG~~-----------------------~e  189 (282)
T 4f3v_A          134 EHL-VAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAGAAGVAHGVAAANLALF-----------------------TE  189 (282)
T ss_dssp             HHH-HHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHHHHHHHHHHHHHHHHTTCH-----------------------HH
T ss_pred             chH-HHHHHHHHHHHcCCHHHHHHHHHHhhccCCcccHHHHHHHHHHHHHHCCCH-----------------------HH
Confidence            334 77889999999999999999999887764221  35899999999999999                       99


Q ss_pred             HHHHHHHHhhcc--cc-chHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHH
Q 011050          123 ALKDAEKLLNLQ--SN-SMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (494)
Q Consensus       123 a~~~~~~al~l~--p~-~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~  182 (494)
                      |+..+++++.-.  |. ...+++++|.++..+|+.++|...|++++..+|+ ..+..++....
T Consensus       190 Al~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~-~~~~~aL~~~~  251 (282)
T 4f3v_A          190 AERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE-PKVAAALKDPS  251 (282)
T ss_dssp             HHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC-HHHHHHHHCTT
T ss_pred             HHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-HHHHHHHhCCC
Confidence            999999998654  65 7789999999999999999999999999999999 88777776544

>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.45  E-value=1.6e-07  Score=69.53  Aligned_cols=46  Identities=26%  Similarity=0.724  Sum_probs=39.8

Q ss_pred             CCCcccccccccccccCcEEcCCCCc-ccHhhHHHhccCCCCCCCCCcccc
Q 011050          198 ERTDDFDCTLCLKLLYEPITTPCGHS-FCRSCLFQSMDRGNKCPLCRAVLF  247 (494)
Q Consensus       198 ~~~~~~~C~iC~~~~~~Pv~~~cgh~-fc~~Cl~~~~~~~~~CP~Cr~~~~  247 (494)
                      ...+...|.||++...+++.+||||. ||..|+..    ...||+||..+.
T Consensus        11 ~~~~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~----~~~CP~CR~~i~   57 (68)
T 2ea5_A           11 SEENSKDCVVCQNGTVNWVLLPCRHTCLCDGCVKY----FQQCPMCRQFVQ   57 (68)
T ss_dssp             SCCCSSCCSSSSSSCCCCEETTTTBCCSCTTHHHH----CSSCTTTCCCCC
T ss_pred             cCCCCCCCCCcCcCCCCEEEECCCChhhhHHHHhc----CCCCCCCCcchh
Confidence            34457889999999999999999999 99999984    368999999873

>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=98.45  E-value=1e-07  Score=82.93  Aligned_cols=73  Identities=12%  Similarity=0.105  Sum_probs=68.3

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhcc-------CCCCcccc----cChhHHHHHHHhhhccCCCCCccccccCCC
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNI-------KPGDPIVL----GNRSSAYIRISQFLKHRPPSASEYRPLNGL  114 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~-------~p~~~~~~----~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  114 (494)
                      .+..|..+|..+.+.|+|++|+.+|++||++       +|+++.+|    +++|.++..+|+|                 
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            4568999999999999999999999999999       99999999    9999999999999                 


Q ss_pred             CCchhHHHHHHHHHHHhhccccchHHH
Q 011050          115 DPTTHAELALKDAEKLLNLQSNSMKSH  141 (494)
Q Consensus       115 ~~~~~~~~a~~~~~~al~l~p~~~~a~  141 (494)
                            ++|+..|++|++++|++.-.+
T Consensus       119 ------eEAl~~y~kAlel~p~d~~~~  139 (159)
T 2hr2_A          119 ------AEAMPEFKKVVEMIEERKGET  139 (159)
T ss_dssp             ------HHHHHHHHHHHHHHHHCCSCC
T ss_pred             ------HHHHHHHHHHHhcCCCcHHHH
Confidence                  999999999999999875443

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=98.44  E-value=1.5e-07  Score=93.85  Aligned_cols=103  Identities=19%  Similarity=0.239  Sum_probs=94.6

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc----ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (494)
                      .+..+...|..++..|+|++|+..|.++++..|.++    .++.++|.+|+..|++                       .
T Consensus         8 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~-----------------------~   64 (406)
T 3sf4_A            8 SCLELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDY-----------------------A   64 (406)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCH-----------------------H
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCH-----------------------H
Confidence            367788999999999999999999999999999984    6889999999999999                       9


Q ss_pred             HHHHHHHHHhhc------cccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCC
Q 011050          122 LALKDAEKLLNL------QSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (494)
Q Consensus       122 ~a~~~~~~al~l------~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~  171 (494)
                      +|+..+++++.+      .|....+++.+|.+|..+|++++|+..+.+++++.|..
T Consensus        65 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~  120 (406)
T 3sf4_A           65 KALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISREL  120 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhc
Confidence            999999999988      56778899999999999999999999999999987754

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.43  E-value=1.9e-07  Score=90.01  Aligned_cols=100  Identities=14%  Similarity=0.064  Sum_probs=88.0

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHh---ccCCCCc----ccccChhHHHHHHHhhhccCCCCCccccccCCCCCch
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRAN---NIKPGDP----IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT  118 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al---~~~p~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (494)
                      .+..+...|..++..|+|++|+..|.+|+   +..|++.    .++.|+|.+|..+|+|                     
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            46678899999999999999999999999   4455543    6899999999999999                     


Q ss_pred             hHHHHHHHHHHHhhcccc------chHHHHHHHHHHHHHHHHHHH-HHHHHccccCC
Q 011050          119 HAELALKDAEKLLNLQSN------SMKSHLLKANALILLERYDMA-RDAILSGLQVD  168 (494)
Q Consensus       119 ~~~~a~~~~~~al~l~p~------~~~a~~~~g~~~~~~~~~~~A-~~~~~~al~l~  168 (494)
                        ++|+..+++++++.++      ...+|+.+|.+|..+|++++| ..+|++|+.+.
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      378999999999999999999 77899998764

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.43  E-value=2.3e-07  Score=89.46  Aligned_cols=95  Identities=12%  Similarity=-0.002  Sum_probs=83.9

Q ss_pred             HHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHH
Q 011050           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (494)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (494)
                      .....+..+...++++.|+..|.+++..+|+++.++.++|.++...|++                       ++|+..+.
T Consensus       187 ~~~~~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~-----------------------~~A~~~l~  243 (287)
T 3qou_A          187 QGLVAQIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRN-----------------------EEALELLF  243 (287)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHHHH
T ss_pred             HHHHHHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccH-----------------------HHHHHHHH
Confidence            3444455566667777778888888999999999999999999999999                       99999999


Q ss_pred             HHhhccccc--hHHHHHHHHHHHHHHHHHHHHHHHHcccc
Q 011050          129 KLLNLQSNS--MKSHLLKANALILLERYDMARDAILSGLQ  166 (494)
Q Consensus       129 ~al~l~p~~--~~a~~~~g~~~~~~~~~~~A~~~~~~al~  166 (494)
                      ++++.+|++  ..++..+|.+|..+|+.++|+..|++++.
T Consensus       244 ~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~a~~~~r~al~  283 (287)
T 3qou_A          244 GHLRXDLTAADGQTRXTFQEILAALGTGDALASXYRRQLY  283 (287)
T ss_dssp             HHHHHCTTGGGGHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHhcccccccchHHHHHHHHHHHcCCCCcHHHHHHHHHH
Confidence            999999999  89999999999999999999999998864

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.42  E-value=3.3e-07  Score=87.71  Aligned_cols=106  Identities=12%  Similarity=0.042  Sum_probs=96.3

Q ss_pred             chhhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhcc--------CCCCcccccChhHHHHHHHhhhccCCCCCcccccc
Q 011050           40 PWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNI--------KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL  111 (494)
Q Consensus        40 ~~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~--------~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  111 (494)
                      ..+....+..+...|..++..|+|++|+..|.+++++        .|....++.++|.+|...|++              
T Consensus        20 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~--------------   85 (311)
T 3nf1_A           20 GYEIPARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKY--------------   85 (311)
T ss_dssp             CTTSCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCH--------------
T ss_pred             CCcchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCH--------------
Confidence            3455566889999999999999999999999999995        677789999999999999999              


Q ss_pred             CCCCCchhHHHHHHHHHHHhhc--------cccchHHHHHHHHHHHHHHHHHHHHHHHHccccCC
Q 011050          112 NGLDPTTHAELALKDAEKLLNL--------QSNSMKSHLLKANALILLERYDMARDAILSGLQVD  168 (494)
Q Consensus       112 ~~~~~~~~~~~a~~~~~~al~l--------~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~  168 (494)
                               ++|+..+++++.+        +|....+++.+|.+|..+|++++|+..|.+++++.
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        47788899999999999999999999999999874

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=98.42  E-value=2.5e-07  Score=92.57  Aligned_cols=102  Identities=10%  Similarity=0.037  Sum_probs=88.8

Q ss_pred             hHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc-------ccccChhHHHHHHHhhhccCCCCCccccccCCCC
Q 011050           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP-------IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLD  115 (494)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~-------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (494)
                      ....+..+...|..++..|++++|+.+|.+|+++.+...       .++.++|.+|..+|+|                  
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            344577888999999999999999999999999855443       5888999999999999                  


Q ss_pred             CchhHHHHHHHHHHHhhccccc------hHHHHHHHHHHHHHHHHHHHHHHHHccccC
Q 011050          116 PTTHAELALKDAEKLLNLQSNS------MKSHLLKANALILLERYDMARDAILSGLQV  167 (494)
Q Consensus       116 ~~~~~~~a~~~~~~al~l~p~~------~~a~~~~g~~~~~~~~~~~A~~~~~~al~l  167 (494)
                           ++|+..+++|+++.+..      ..+++.+|.+|..+|++++|+..|++++++
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      358999999999999999999999999994

>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=98.41  E-value=4.6e-07  Score=85.93  Aligned_cols=106  Identities=17%  Similarity=0.107  Sum_probs=90.0

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHH----HHhhhccCCCCCccccccCCCCCchhHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIR----ISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (494)
                      .+..+...|..++..|++++|+..|.++++  |+++.++.++|.+|..    .+++                       +
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~--~~~~~a~~~lg~~~~~g~~~~~~~-----------------------~   59 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACD--LKENSGCFNLGVLYYQGQGVEKNL-----------------------K   59 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--TTCHHHHHHHHHHHHHTSSSCCCH-----------------------H
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHH--CCCHHHHHHHHHHHHcCCCcCCCH-----------------------H
Confidence            456788899999999999999999999998  7788899999999998    8888                       9


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHH----HHHHHHHHHHHHccccCCCCCchhHHHHHH
Q 011050          122 LALKDAEKLLNLQSNSMKSHLLKANALIL----LERYDMARDAILSGLQVDPFSNPLQASLQN  180 (494)
Q Consensus       122 ~a~~~~~~al~l~p~~~~a~~~~g~~~~~----~~~~~~A~~~~~~al~l~p~~~~~~~~~~~  180 (494)
                      +|+..++++++++  ++.+++.+|.+|..    .+++++|+..|+++++++  +..+...+..
T Consensus        60 ~A~~~~~~a~~~~--~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~--~~~a~~~lg~  118 (273)
T 1ouv_A           60 KAASFYAKACDLN--YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK--YAEGCASLGG  118 (273)
T ss_dssp             HHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHH
T ss_pred             HHHHHHHHHHHCC--CHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC--CccHHHHHHH
Confidence            9999999999885  78899999999998    999999999999998874  4444444433

>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=98.40  E-value=4e-07  Score=89.25  Aligned_cols=116  Identities=6%  Similarity=-0.100  Sum_probs=101.7

Q ss_pred             HHHHHHHHHHHHHhcC----------hHHHHHHHHHHhccCCCCcccccChhHHHHHHHh--hhccCCCCCccccccCCC
Q 011050           47 VFDLVQKGNRAFRESN----------FEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQ--FLKHRPPSASEYRPLNGL  114 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~----------~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~--~~~~~~~~~~~~~~~~~~  114 (494)
                      ...|.-++..+...+.          +++++..+..++..+|+++.+|++|+.++..++.  +                 
T Consensus        64 ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PKny~aW~hR~wlL~~l~~~~~-----------------  126 (331)
T 3dss_A           64 ATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNW-----------------  126 (331)
T ss_dssp             HHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHCSSCCH-----------------
T ss_pred             HHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHhccCcccH-----------------
Confidence            4556666666655444          7899999999999999999999999999988884  7                 


Q ss_pred             CCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHH-HHHHHHHHHccccCCCCCchhHHHHHHHHhhh
Q 011050          115 DPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLER-YDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (494)
Q Consensus       115 ~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~-~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~  185 (494)
                            .+++..+.++++.||.+..||..++.++...|. ++++++++.+++..+|.|..++.....+-..+
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                  899999999999999999999999999999998 59999999999999999999988777665544

>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=98.40  E-value=1.5e-07  Score=83.34  Aligned_cols=83  Identities=11%  Similarity=0.028  Sum_probs=73.9

Q ss_pred             cChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccc--h
Q 011050           61 SNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNS--M  138 (494)
Q Consensus        61 ~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~--~  138 (494)
                      ++...|+..|.++++.+|+++.++.++|.++...|++                       ++|+..++++++++|++  .
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            3344578888888888999999999999999999999                       99999999999999986  5


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHcccc
Q 011050          139 KSHLLKANALILLERYDMARDAILSGLQ  166 (494)
Q Consensus       139 ~a~~~~g~~~~~~~~~~~A~~~~~~al~  166 (494)
                      .+++.+|.++..+|++++|+..|++++.
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=98.39  E-value=4.3e-07  Score=87.50  Aligned_cols=99  Identities=13%  Similarity=0.110  Sum_probs=85.2

Q ss_pred             HHHHHHHHHHhcChHHHHHHHHHHhccCCCCcc------cccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           50 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPI------VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        50 ~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~------~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      +...|..++..++|++|+.+|.+|+.+.+....      ++.++|.+|..+|+|                       ++|
T Consensus       118 ~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~-----------------------~~A  174 (293)
T 3u3w_A          118 QYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYL-----------------------KKG  174 (293)
T ss_dssp             HHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCH-----------------------HHH
T ss_pred             HHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCH-----------------------HHH
Confidence            345788888889999999999999997655443      689999999999999                       999


Q ss_pred             HHHHHHHhh-------ccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCC
Q 011050          124 LKDAEKLLN-------LQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (494)
Q Consensus       124 ~~~~~~al~-------l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~  171 (494)
                      +..++++++       ..+....+++.+|.+|..+|+|++|+..+++|+++.+..
T Consensus       175 ~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~  229 (293)
T 3u3w_A          175 IDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRI  229 (293)
T ss_dssp             HHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHc
Confidence            999999994       345566799999999999999999999999999987644

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.38  E-value=6e-07  Score=73.11  Aligned_cols=83  Identities=22%  Similarity=0.322  Sum_probs=77.3

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      ...+...|..++..|++++|+..|.+++..+|.++.++.++|.++...|++                       ++|+..
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 011050          127 AEKLLNLQSNSMKSHLLKANALILLE  152 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~  152 (494)
                      ++++++++|++..++..+|.++...|
T Consensus       100 ~~~~~~~~~~~~~~~~~l~~~~~~~g  125 (125)
T 1na0_A          100 YQKALELDPNNAEAKQNLGNAKQKQG  125 (125)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHhcc
Confidence            99999999999999999999987654

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=98.38  E-value=2.8e-07  Score=92.17  Aligned_cols=103  Identities=16%  Similarity=0.108  Sum_probs=93.0

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc------ccccChhHHHHHHHhhhccCCCCCccccccCCCCCc
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP------IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPT  117 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (494)
                      ...+..+...|..+...|+|++|+.+|.+|+++.+...      .++.++|.+|..+|++                    
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            34466788899999999999999999999999866544      5899999999999999                    


Q ss_pred             hhHHHHHHHHHHHhh-----cc-ccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCC
Q 011050          118 THAELALKDAEKLLN-----LQ-SNSMKSHLLKANALILLERYDMARDAILSGLQVDP  169 (494)
Q Consensus       118 ~~~~~a~~~~~~al~-----l~-p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p  169 (494)
                         ++|+..++++++     .+ |....+++.+|.+|..+|++++|+..+++++++.+
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     56 88899999999999999999999999999998754

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.37  E-value=8.1e-07  Score=72.45  Aligned_cols=84  Identities=13%  Similarity=0.003  Sum_probs=72.1

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      ...+...|..++..|+|++|+..|.+++.++|++..+|.++|.+|..+|++                       ++|+..
T Consensus        19 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~-----------------------~~A~~~   75 (115)
T 2kat_A           19 MLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDR-----------------------AGARQA   75 (115)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCH-----------------------HHHHHH
Confidence            567889999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccch--HHHHHHHHHHHHHHH
Q 011050          127 AEKLLNLQSNSM--KSHLLKANALILLER  153 (494)
Q Consensus       127 ~~~al~l~p~~~--~a~~~~g~~~~~~~~  153 (494)
                      ++++++++|...  .++..+...+..+++
T Consensus        76 ~~~al~~~~~~~~~~~~~~l~~~l~~l~~  104 (115)
T 2kat_A           76 WESGLAAAQSRGDQQVVKELQVFLRRLAR  104 (115)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhccccccHHHHHHHHHHHHHhcc
Confidence            999999998653  444444444544443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.37  E-value=2.6e-07  Score=78.88  Aligned_cols=101  Identities=17%  Similarity=0.115  Sum_probs=87.7

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC------cccccChhHHHHHHHhhhccCCCCCccccccCCCCCchh
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH  119 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (494)
                      .+..+...|..++..|+|++|+..|.+++.+.+..      ..++.++|.++...|++                      
T Consensus        48 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----------------------  105 (164)
T 3ro3_A           48 ERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDY----------------------  105 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH----------------------
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhH----------------------
Confidence            34577889999999999999999999999986543      56888999999999999                      


Q ss_pred             HHHHHHHHHHHhhccc------cchHHHHHHHHHHHHHHHHHHHHHHHHccccCCC
Q 011050          120 AELALKDAEKLLNLQS------NSMKSHLLKANALILLERYDMARDAILSGLQVDP  169 (494)
Q Consensus       120 ~~~a~~~~~~al~l~p------~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p  169 (494)
                       ++|+..+++++++.+      ....+++.+|.+|..+|++++|+..+++++++..
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      3467899999999999999999999999987643

>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=98.36  E-value=7.4e-07  Score=71.83  Aligned_cols=79  Identities=14%  Similarity=0.112  Sum_probs=74.4

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      ...+...|..++..|+|++|+..|.++++.+|+++.++.++|.++...|++                       ++|+..
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 011050          127 AEKLLNLQSNSMKSHLLKANAL  148 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~  148 (494)
                      ++++++++|++..++..++.+.
T Consensus        95 ~~~~~~~~~~~~~~~~~l~~~~  116 (118)
T 1elw_A           95 YEEGLKHEANNPQLKEGLQNME  116 (118)
T ss_dssp             HHHHHTTCTTCHHHHHHHHHHH
T ss_pred             HHHHHHcCCCCHHHHHHHHHhh
Confidence            9999999999999998888765

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=98.35  E-value=7.9e-07  Score=88.87  Aligned_cols=103  Identities=16%  Similarity=0.054  Sum_probs=93.2

Q ss_pred             HHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCC------CcccccChhHHHHHHHhhhccCCCCCccccccCCCCCch
Q 011050           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPG------DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT  118 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~------~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (494)
                      ..+..+...|..+...|+|++|+..|.+|+++.+.      ...++.++|.+|..+|++                     
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            45667788999999999999999999999997432      246899999999999999                     


Q ss_pred             hHHHHHHHHHHHhh-----ccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCC
Q 011050          119 HAELALKDAEKLLN-----LQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF  170 (494)
Q Consensus       119 ~~~~a~~~~~~al~-----l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~  170 (494)
                        ++|+..++++++     .+|..+.+++.+|.+|..+|++++|+..+++++++.+.
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     88988999999999999999999999999999998765

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.35  E-value=2.9e-07  Score=82.57  Aligned_cols=102  Identities=12%  Similarity=-0.006  Sum_probs=90.2

Q ss_pred             HHHHHHHHHHHHHHHhcChHHHHHHHHHHhc------cCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCch
Q 011050           45 THVFDLVQKGNRAFRESNFEEAISNYSRANN------IKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT  118 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~------~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (494)
                      ..+..+...|..++..|+|++|+..|.+++.      ..|....++.++|.+|...|++                     
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            3467888999999999999999999999999      4555678899999999999999                     


Q ss_pred             hHHHHHHHHHHHhhc------cc-cchHHHHHHHHHHHHHHHHHHHHHHHHccccCCC
Q 011050          119 HAELALKDAEKLLNL------QS-NSMKSHLLKANALILLERYDMARDAILSGLQVDP  169 (494)
Q Consensus       119 ~~~~a~~~~~~al~l------~p-~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p  169 (494)
                        ++|+..+++++++      ++ ....+++.+|.++..+|++++|+..+.+++++.+
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 4467899999999999999999999999987643

>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=98.34  E-value=1.2e-07  Score=92.31  Aligned_cols=50  Identities=10%  Similarity=0.010  Sum_probs=26.4

Q ss_pred             HHHHHHHHHHhhccccc------hHHHHHHHHHHHHHHHHHHHHHHHHccccCCCC
Q 011050          121 ELALKDAEKLLNLQSNS------MKSHLLKANALILLERYDMARDAILSGLQVDPF  170 (494)
Q Consensus       121 ~~a~~~~~~al~l~p~~------~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~  170 (494)
                      ++|+..+++|+.+.+..      ..++..+|.+|..+|+|++|+..|++++++.|.
T Consensus       132 ~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~  187 (307)
T 2ifu_A          132 SKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKE  187 (307)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            55555555555554432      344555555555555555555555555555443

>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=98.31  E-value=9.9e-08  Score=75.73  Aligned_cols=45  Identities=33%  Similarity=0.636  Sum_probs=37.6

Q ss_pred             cccccccccccccCcEEc---CCCCcccHhhHHHhccC----C----CCCCC--CCcc
Q 011050          201 DDFDCTLCLKLLYEPITT---PCGHSFCRSCLFQSMDR----G----NKCPL--CRAV  245 (494)
Q Consensus       201 ~~~~C~iC~~~~~~Pv~~---~cgh~fc~~Cl~~~~~~----~----~~CP~--Cr~~  245 (494)
                      ..++|+||++.+..|..+   +|||+||..|+..++..    +    ..||.  |+..
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            578899999999988654   79999999999988752    2    36999  9987

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.31  E-value=1.2e-06  Score=84.37  Aligned_cols=98  Identities=13%  Similarity=0.135  Sum_probs=83.3

Q ss_pred             HHHHHHHHHHHhcChHHHHHHHHHHhccCCCC------cccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHH
Q 011050           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGD------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (494)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (494)
                      .+...|..+...|+|++|+..|.+|+...+..      ..+|.++|.+|...|+|                       ++
T Consensus       117 ~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~-----------------------~~  173 (293)
T 2qfc_A          117 WQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYL-----------------------KK  173 (293)
T ss_dssp             HHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHHHHHHHHHHTTCH-----------------------HH
T ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHcCCH-----------------------HH
Confidence            34557777788899999999999999876544      35888999999999999                       99


Q ss_pred             HHHHHHHHhh---ccccc----hHHHHHHHHHHHHHHHHHHHHHHHHccccCCC
Q 011050          123 ALKDAEKLLN---LQSNS----MKSHLLKANALILLERYDMARDAILSGLQVDP  169 (494)
Q Consensus       123 a~~~~~~al~---l~p~~----~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p  169 (494)
                      |+..+++|++   ..|+.    ..+++.+|.+|..+|+|++|+..+++++++.+
T Consensus       174 A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~  227 (293)
T 2qfc_A          174 GIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISC  227 (293)
T ss_dssp             HHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            9999999994   44442    26999999999999999999999999998764

>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=98.29  E-value=1.9e-07  Score=91.74  Aligned_cols=43  Identities=30%  Similarity=0.893  Sum_probs=39.1

Q ss_pred             cccccccccccccCcEEcCCCCc-ccHhhHHHhccCCCCCCCCCcccc
Q 011050          201 DDFDCTLCLKLLYEPITTPCGHS-FCRSCLFQSMDRGNKCPLCRAVLF  247 (494)
Q Consensus       201 ~~~~C~iC~~~~~~Pv~~~cgh~-fc~~Cl~~~~~~~~~CP~Cr~~~~  247 (494)
                      +...|+||++.+.+|+.+||||+ ||..|+..+    ..||.||.++.
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            46789999999999999999999 999999877    68999999863

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=98.28  E-value=1.7e-06  Score=69.75  Aligned_cols=76  Identities=20%  Similarity=0.125  Sum_probs=56.6

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccC-------CCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchh
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIK-------PGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH  119 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~-------p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (494)
                      +.+.+..|..+++.|+|..|+..|.+|++..       +..+.++.++|.+|+++|++                      
T Consensus         5 a~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~----------------------   62 (104)
T 2v5f_A            5 AEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDL----------------------   62 (104)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCH----------------------
T ss_pred             HHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCH----------------------
Confidence            5678899999999999999999999999863       22345566666667776666                      


Q ss_pred             HHHHHHHHHHHhhccccchHHHHHHH
Q 011050          120 AELALKDAEKLLNLQSNSMKSHLLKA  145 (494)
Q Consensus       120 ~~~a~~~~~~al~l~p~~~~a~~~~g  145 (494)
                       ..|+..+++++.++|++..+..+++
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             6677777777777776666655554

>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=1.2e-06  Score=86.28  Aligned_cols=124  Identities=10%  Similarity=0.039  Sum_probs=82.6

Q ss_pred             HHHHHHHHHHHHHHhcC---hHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCc------ccc-----cc
Q 011050           46 HVFDLVQKGNRAFRESN---FEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSAS------EYR-----PL  111 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~---~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~------~~~-----~~  111 (494)
                      .+..++.+|..++..++   +.+|+.+|.+|++++|+++.+|..++.+|.....+.  ......      ...     ..
T Consensus       195 ~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lDP~~a~A~A~la~a~~~~~~~~--~~~~~~~~~l~~a~~a~~a~~~  272 (372)
T 3ly7_A          195 ALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSSPEFTYARAEKALVDIVRHSQH--PLDEKQLAALNTEIDNIVTLPE  272 (372)
T ss_dssp             GGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHS--CCCHHHHHHHHHHHHHHHTCGG
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhccC--CCchhhHHHHHHHHHHHHhccc
Confidence            46788889998887654   578999999999999999999999999987544430  000000      000     00


Q ss_pred             CCCC------------CchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCc
Q 011050          112 NGLD------------PTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  172 (494)
Q Consensus       112 ~~~~------------~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~  172 (494)
                      ...+            .+...++|+..+++|+.++|+ +.+|..+|.++...|++++|++.|.+|+.++|..+
T Consensus       273 ~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s-~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~~~  344 (372)
T 3ly7_A          273 LNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMS-WLNYVLLGKVYEMKGMNREAADAYLTAFNLRPGAN  344 (372)
T ss_dssp             GTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCSHH
T ss_pred             CCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcC
Confidence            0000            012226677777777777764 56677777777777777777777777777777654

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.27  E-value=9.3e-07  Score=91.73  Aligned_cols=112  Identities=11%  Similarity=0.038  Sum_probs=93.4

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhcc-----CCCC---cccccChhHHHHHHHhhhccCCCCCccccccCCCCCc
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNI-----KPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPT  117 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~-----~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (494)
                      .+....+++..+..+|+|++|+..|.+++++     .|++   ...+.|+|.+|..+|+|                    
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            4556677888888999999999999999976     3333   47889999999999999                    


Q ss_pred             hhHHHHHHHHHHHhhc--------cccchHHHHHHHHHHHHHHHHHHHHHHHHccccC-----CCCCchhHHHHHH
Q 011050          118 THAELALKDAEKLLNL--------QSNSMKSHLLKANALILLERYDMARDAILSGLQV-----DPFSNPLQASLQN  180 (494)
Q Consensus       118 ~~~~~a~~~~~~al~l--------~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l-----~p~~~~~~~~~~~  180 (494)
                         ++|+..+++++.+        .|+-..++.++|.+|..+|+|++|...|++|+++     -|+++...+....
T Consensus       368 ---~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~  440 (490)
T 3n71_A          368 ---EEASHYARRMVDGYMKLYHHNNAQLGMAVMRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAM  440 (490)
T ss_dssp             ---HHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHH
T ss_pred             ---HHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHH
Confidence               9999999999975        3555668999999999999999999999999984     6788766654433

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.26  E-value=2.1e-06  Score=72.45  Aligned_cols=79  Identities=16%  Similarity=0.179  Sum_probs=73.8

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      ...+...|..++..|+|++|+..|.++++++|+++.++.++|.++..+|++                       ++|+..
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            567788999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHH
Q 011050          127 AEKLLNLQSNSMKSHLLKANAL  148 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~  148 (494)
                      +++++.++|++..++..++.+.
T Consensus       122 ~~~al~~~p~~~~~~~~l~~~~  143 (148)
T 2dba_A          122 LQRCVSLEPKNKVFQEALRNIS  143 (148)
T ss_dssp             HHHHHHHCSSCHHHHHHHHHHH
T ss_pred             HHHHHHcCCCcHHHHHHHHHHH
Confidence            9999999999998887777664

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=98.26  E-value=5.6e-07  Score=89.70  Aligned_cols=103  Identities=24%  Similarity=0.193  Sum_probs=93.2

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcc------cccChhHHHHHHHhhhccCCCCCccccccCCCCCchh
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPI------VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH  119 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~------~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (494)
                      .+..+...|..++..|+|++|+..|.+++++.+....      ++.++|.+|...|++                      
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            3556778899999999999999999999999777665      999999999999999                      


Q ss_pred             HHHHHHHHHHHhhccccc------hHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCC
Q 011050          120 AELALKDAEKLLNLQSNS------MKSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (494)
Q Consensus       120 ~~~a~~~~~~al~l~p~~------~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~  171 (494)
                       ++|+..+++++++.+..      ..+++.+|.+|...|++++|+..|.+++++.+..
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             99999999999988766      7899999999999999999999999999986654

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.24  E-value=2.1e-06  Score=70.98  Aligned_cols=79  Identities=11%  Similarity=0.006  Sum_probs=71.0

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC---cccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      ...+...|..++..|+|++|+..|.+++..+|++   +.++.++|.+|..+|++                       ++|
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            3677889999999999999999999999999999   78899999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHH
Q 011050          124 LKDAEKLLNLQSNSMKSHLLKANAL  148 (494)
Q Consensus       124 ~~~~~~al~l~p~~~~a~~~~g~~~  148 (494)
                      +..+++++..+|++..+...+..+-
T Consensus        96 ~~~~~~~~~~~p~~~~~~~a~~~l~  120 (129)
T 2xev_A           96 QQTLQQVATQYPGSDAARVAQERLQ  120 (129)
T ss_dssp             HHHHHHHHHHSTTSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCChHHHHHHHHHH
Confidence            9999999999999987765554443

>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=98.23  E-value=9.8e-07  Score=90.07  Aligned_cols=113  Identities=13%  Similarity=0.105  Sum_probs=92.4

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhcc-----CCCCc---ccccChhHHHHHHHhhhccCCCCCccccccCCCCCch
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNI-----KPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT  118 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~-----~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (494)
                      +....+.+....+.|+|++|+..|.+++++     .|+++   ..+.|+|.+|..+|+|                     
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            344555566666778999999999999985     44444   7788999999999999                     


Q ss_pred             hHHHHHHHHHHHhhc--------cccchHHHHHHHHHHHHHHHHHHHHHHHHccccC-----CCCCchhHHHHHHHH
Q 011050          119 HAELALKDAEKLLNL--------QSNSMKSHLLKANALILLERYDMARDAILSGLQV-----DPFSNPLQASLQNLE  182 (494)
Q Consensus       119 ~~~~a~~~~~~al~l--------~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l-----~p~~~~~~~~~~~~~  182 (494)
                        ++|+..+++++.+        .|+-...+.++|.+|..+|+|++|...|++|+++     -|+++...+...+++
T Consensus       357 --~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~l~~~l~  431 (433)
T 3qww_A          357 --EGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYMGLENKAAGEKALKKAIAIMEVAHGKDHPYISEIKQEIE  431 (433)
T ss_dssp             --HHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHH
T ss_pred             --HHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHh
Confidence              9999999999975        3555668999999999999999999999999985     678887766555553

>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=98.23  E-value=1.6e-07  Score=76.91  Aligned_cols=46  Identities=20%  Similarity=0.433  Sum_probs=0.9

Q ss_pred             cccccccccccccCcE------------------EcCCCCcccHhhHHHhccCCCCCCCCCccc
Q 011050          201 DDFDCTLCLKLLYEPI------------------TTPCGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (494)
Q Consensus       201 ~~~~C~iC~~~~~~Pv------------------~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~  246 (494)
                      .+-.|.||++.|.++-                  .++|||.||..||..|+.....||+||.++
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~  110 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREW  110 (117)
T ss_dssp             CC--------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCee
Confidence            3468999999988742                  258999999999999999888999999975

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=98.21  E-value=1.4e-06  Score=87.03  Aligned_cols=114  Identities=15%  Similarity=0.015  Sum_probs=93.0

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC-------cccccChhHHHHHHHhhhccCCCCCccccccCCCCC
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD-------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDP  116 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~-------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  116 (494)
                      ...+..+...|..++..|+++.|+.+|.+|+++.+..       +.++.++|.+|..+|+|                   
T Consensus       138 ~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~-------------------  198 (378)
T 3q15_A          138 IEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHY-------------------  198 (378)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCH-------------------
T ss_pred             HHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCH-------------------
Confidence            4557778889999999999999999999999875532       35778899999999999                   


Q ss_pred             chhHHHHHHHHHHHhhccc------cchHHHHHHHHHHHHHHHHHHHHHHHHcccc-----CCCCCchhHHHHHH
Q 011050          117 TTHAELALKDAEKLLNLQS------NSMKSHLLKANALILLERYDMARDAILSGLQ-----VDPFSNPLQASLQN  180 (494)
Q Consensus       117 ~~~~~~a~~~~~~al~l~p------~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~-----l~p~~~~~~~~~~~  180 (494)
                          ++|+..+.+|+++.+      ....+++.+|.+|..+|++++|+..|+++++     .+|....+...+..
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                999999999998743      3456899999999999999999999999999     66655444444433

>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=98.21  E-value=2.7e-06  Score=86.82  Aligned_cols=119  Identities=12%  Similarity=0.040  Sum_probs=97.9

Q ss_pred             HHHHHHHHHHHHHHHhcChHHHHHHHHHHhcc-----CCCC---cccccChhHHHHHHHhhhccCCCCCccccccCCCCC
Q 011050           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNI-----KPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDP  116 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~-----~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  116 (494)
                      ..+.........+..+|+|++|+..|.++++.     .|++   ...+.|+|.+|..+|+|                   
T Consensus       285 ~~~~~ll~~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~-------------------  345 (429)
T 3qwp_A          285 KEVQESLKKIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLL-------------------  345 (429)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCH-------------------
T ss_pred             HHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccH-------------------
Confidence            34555666677788999999999999999976     3344   37889999999999999                   


Q ss_pred             chhHHHHHHHHHHHhhc--------cccchHHHHHHHHHHHHHHHHHHHHHHHHccccC-----CCCCchhHHHHHHHHh
Q 011050          117 TTHAELALKDAEKLLNL--------QSNSMKSHLLKANALILLERYDMARDAILSGLQV-----DPFSNPLQASLQNLER  183 (494)
Q Consensus       117 ~~~~~~a~~~~~~al~l--------~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l-----~p~~~~~~~~~~~~~~  183 (494)
                          ++|+..+++++.+        .|+-...++++|.+|..+|++++|...|++|+++     -|+++.....+..+..
T Consensus       346 ----~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~nLa~~~~~~g~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~  421 (429)
T 3qwp_A          346 ----EEALFYGTRTMEPYRIFFPGSHPVRGVQVMKVGKLQLHQGMFPQAMKNLRLAFDIMRVTHGREHSLIEDLILLLEE  421 (429)
T ss_dssp             ----HHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHH
T ss_pred             ----HHHHHHHHHHHHhHHHHcCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHH
Confidence                9999999999975        3555668999999999999999999999999985     6888887777666665


Q ss_pred             hhh
Q 011050          184 TTA  186 (494)
Q Consensus       184 ~~~  186 (494)
                      ...
T Consensus       422 ~~~  424 (429)
T 3qwp_A          422 CDA  424 (429)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

>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=98.20  E-value=2.5e-06  Score=80.81  Aligned_cols=95  Identities=14%  Similarity=0.075  Sum_probs=86.5

Q ss_pred             HHHHHHHHHHHHH----hcChHHHHHHHHHHhccCCCCcccccChhHHHHH----HHhhhccCCCCCccccccCCCCCch
Q 011050           47 VFDLVQKGNRAFR----ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIR----ISQFLKHRPPSASEYRPLNGLDPTT  118 (494)
Q Consensus        47 ~~~~~~~g~~~~~----~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~  118 (494)
                      ...+...|..+..    .+++++|+..|.+|++.+  ++.++.++|.+|..    .+++                     
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    999999999999999985  78999999999999    8888                     


Q ss_pred             hHHHHHHHHHHHhhccccchHHHHHHHHHHHH----HHHHHHHHHHHHccccCC
Q 011050          119 HAELALKDAEKLLNLQSNSMKSHLLKANALIL----LERYDMARDAILSGLQVD  168 (494)
Q Consensus       119 ~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~----~~~~~~A~~~~~~al~l~  168 (494)
                        ++|+..++++++.+  ++.+++.+|.+|..    .+++++|+..|+++++++
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=98.19  E-value=8.6e-07  Score=85.32  Aligned_cols=103  Identities=24%  Similarity=0.193  Sum_probs=91.5

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcc------cccChhHHHHHHHhhhccCCCCCccccccCCCCCchh
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPI------VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH  119 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~------~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (494)
                      .+..+...|..++..|++++|+..|.+++++.+....      ++.++|.++...|++                      
T Consensus       182 ~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~----------------------  239 (338)
T 3ro2_A          182 QGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEF----------------------  239 (338)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCH----------------------
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCH----------------------
Confidence            3456778899999999999999999999998765544      899999999999999                      


Q ss_pred             HHHHHHHHHHHhhccccc------hHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCC
Q 011050          120 AELALKDAEKLLNLQSNS------MKSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (494)
Q Consensus       120 ~~~a~~~~~~al~l~p~~------~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~  171 (494)
                       ++|+..+++++.+.+..      ..+++.+|.+|..+|++++|+..+++++++.+..
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             99999999999987765      7789999999999999999999999999886643

>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=98.18  E-value=1.2e-06  Score=80.21  Aligned_cols=108  Identities=16%  Similarity=0.057  Sum_probs=89.5

Q ss_pred             HHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHH----hhhccCCCCCccccccCCCCCchhH
Q 011050           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRIS----QFLKHRPPSASEYRPLNGLDPTTHA  120 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~  120 (494)
                      ..+..+...|..++..+++++|+.+|.+|++.  .++.+++++|.+|.. +    ++                       
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            34677888999999999999999999999875  578888888888877 5    56                       


Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHH----HHHHHHHHHHHHccccCCCC--CchhHHHHHH
Q 011050          121 ELALKDAEKLLNLQSNSMKSHLLKANALIL----LERYDMARDAILSGLQVDPF--SNPLQASLQN  180 (494)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~a~~~~g~~~~~----~~~~~~A~~~~~~al~l~p~--~~~~~~~~~~  180 (494)
                      .+|+..++++.+  +.++.+++.+|.+|..    .+++++|+.+|+++.+..|.  +..+...+..
T Consensus        70 ~~A~~~~~~A~~--~g~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~  133 (212)
T 3rjv_A           70 PQARQLAEKAVE--AGSKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGL  133 (212)
T ss_dssp             HHHHHHHHHHHH--TTCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH--CCCHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHH
Confidence            999999999954  6789999999999987    88999999999999998884  3444444433

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=98.17  E-value=3e-06  Score=88.77  Aligned_cols=114  Identities=12%  Similarity=-0.035  Sum_probs=85.1

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc-ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP-IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      ...+...|..+...|++++|...|.+++++.|.++ .+|.+++.++.+.|++                       ++|..
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            44556667777777888888888888888888775 4788888887788888                       88888


Q ss_pred             HHHHHhhccccchHHHHHHHHH-HHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHh
Q 011050          126 DAEKLLNLQSNSMKSHLLKANA-LILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  183 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~-~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~  183 (494)
                      .+++|++..|.....+...|.. +...|++++|+..|+++++.+|++..++..+..+..
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            8888888877776666665554 345788888888888888888888777666555543

>2d8s_A Cellular modulator of immune recognition; C-MIR, march8, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.15  E-value=1.7e-06  Score=65.96  Aligned_cols=50  Identities=26%  Similarity=0.555  Sum_probs=41.2

Q ss_pred             CCcccccccccccc--cCcEEcCCC-----CcccHhhHHHhccCC--CCCCCCCccccc
Q 011050          199 RTDDFDCTLCLKLL--YEPITTPCG-----HSFCRSCLFQSMDRG--NKCPLCRAVLFI  248 (494)
Q Consensus       199 ~~~~~~C~iC~~~~--~~Pv~~~cg-----h~fc~~Cl~~~~~~~--~~CP~Cr~~~~~  248 (494)
                      ......|.||++.+  .+++.+||+     |.|+..||..|+...  ..||+||..+..
T Consensus        12 ~~~~~~C~IC~~~~~~~~~l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~   70 (80)
T 2d8s_A           12 PSSQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIM   70 (80)
T ss_dssp             CTTSCCCSSSCCCCCSSSCEECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCC
T ss_pred             CCCCCCCeEcCccccCCCeeEeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeec
Confidence            44567899999876  467888996     999999999999854  489999998753

>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=98.13  E-value=1.7e-06  Score=79.27  Aligned_cols=107  Identities=8%  Similarity=-0.052  Sum_probs=81.6

Q ss_pred             HHHHHHHHHHHHHhc----ChHHHHHHHHHHhccCCCCcccccChhHHHHH----HHhhhccCCCCCccccccCCCCCch
Q 011050           47 VFDLVQKGNRAFRES----NFEEAISNYSRANNIKPGDPIVLGNRSSAYIR----ISQFLKHRPPSASEYRPLNGLDPTT  118 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~----~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~  118 (494)
                      +..+...|..+.. +    ++++|+.+|.+|.+  +.++.+++++|.+|..    .+++                     
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            4556667777776 6    88899999998854  5677888888888765    4556                     


Q ss_pred             hHHHHHHHHHHHhhccc--cchHHHHHHHHHHHH----HHHHHHHHHHHHccccCCCCCchhHHHHHH
Q 011050          119 HAELALKDAEKLLNLQS--NSMKSHLLKANALIL----LERYDMARDAILSGLQVDPFSNPLQASLQN  180 (494)
Q Consensus       119 ~~~~a~~~~~~al~l~p--~~~~a~~~~g~~~~~----~~~~~~A~~~~~~al~l~p~~~~~~~~~~~  180 (494)
                        .+|+..++++++.+|  .++.+++.+|.+|..    .+++++|+.+|+++.++ |.+..+...+..
T Consensus       106 --~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~-~~~~~a~~~Lg~  170 (212)
T 3rjv_A          106 --AHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL-SRTGYAEYWAGM  170 (212)
T ss_dssp             --HHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT-SCTTHHHHHHHH
T ss_pred             --HHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc-CCCHHHHHHHHH
Confidence              888889999988887  468888899988887    77888999999988887 555555444433

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=98.13  E-value=1.5e-06  Score=87.17  Aligned_cols=100  Identities=16%  Similarity=0.140  Sum_probs=90.9

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhcc------CCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNI------KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA  120 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~------~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (494)
                      +..+...|..++..|+|++|+..|.+++++      .|....++.++|.+|...|++                       
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            456788999999999999999999999998      577789999999999999999                       


Q ss_pred             HHHHHHHHHHhhc------cccchHHHHHHHHHHHHHHH-----------------HHHHHHHHHccccCCC
Q 011050          121 ELALKDAEKLLNL------QSNSMKSHLLKANALILLER-----------------YDMARDAILSGLQVDP  169 (494)
Q Consensus       121 ~~a~~~~~~al~l------~p~~~~a~~~~g~~~~~~~~-----------------~~~A~~~~~~al~l~p  169 (494)
                      ++|+..+++++++      .+....+++.+|.+|..+|+                 +++|+..|.+++++.+
T Consensus       143 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~  214 (411)
T 4a1s_A          143 DEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMR  214 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHH
Confidence            9999999999999      67788899999999999999                 9999999999887643

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=98.13  E-value=9.5e-06  Score=84.95  Aligned_cols=105  Identities=10%  Similarity=-0.037  Sum_probs=93.8

Q ss_pred             HHHHHHHHHHHHH-------hcChH-------HHHHHHHHHhc-cCCCCcccccChhHHHHHHHhhhccCCCCCcccccc
Q 011050           47 VFDLVQKGNRAFR-------ESNFE-------EAISNYSRANN-IKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL  111 (494)
Q Consensus        47 ~~~~~~~g~~~~~-------~~~~~-------~Ai~~y~~al~-~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  111 (494)
                      ...|...|..+..       .|+++       +|+..|.+|++ +.|++..+|.++|..+...|++              
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            4556667777665       69987       89999999997 8999999999999999999999              


Q ss_pred             CCCCCchhHHHHHHHHHHHhhccccch-HHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchh
Q 011050          112 NGLDPTTHAELALKDAEKLLNLQSNSM-KSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  174 (494)
Q Consensus       112 ~~~~~~~~~~~a~~~~~~al~l~p~~~-~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~  174 (494)
                               ++|...++++++++|.++ .+|...|.++...|++++|++.|.+|++..|.+..+
T Consensus       338 ---------~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~~~~~~  392 (530)
T 2ooe_A          338 ---------EKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHV  392 (530)
T ss_dssp             ---------HHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTCCTHH
T ss_pred             ---------HHHHHHHHHHhCccccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCCchHH
Confidence                     999999999999999885 699999999999999999999999999998876544

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.12  E-value=1.8e-06  Score=77.32  Aligned_cols=104  Identities=12%  Similarity=-0.012  Sum_probs=87.7

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhcc---CCC----CcccccChhHHHHHHHhhhccCCCCCccccccCCCCC
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNI---KPG----DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDP  116 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~---~p~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  116 (494)
                      ...+..+...|..+...|+|++|+..|.+++.+   .++    ...++.++|.++...|++                   
T Consensus        63 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~-------------------  123 (203)
T 3gw4_A           63 TAEHRALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDL-------------------  123 (203)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCH-------------------
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCH-------------------
Confidence            344667888999999999999999999999998   332    346789999999999999                   


Q ss_pred             chhHHHHHHHHHHHhhcccc------chHHHHHHHHHHHHHHHHHHHHHHHHccccCCCC
Q 011050          117 TTHAELALKDAEKLLNLQSN------SMKSHLLKANALILLERYDMARDAILSGLQVDPF  170 (494)
Q Consensus       117 ~~~~~~a~~~~~~al~l~p~------~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~  170 (494)
                          ++|+..+++++.+.+.      ...++..+|.++..+|++++|+..+.+++++...
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                9999999999976432      2345789999999999999999999999887543

>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=98.08  E-value=3.3e-06  Score=69.28  Aligned_cols=84  Identities=10%  Similarity=0.105  Sum_probs=75.2

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC-------cccccChhHHHHHHHhhhccCCCCCccccccCCCCCchh
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD-------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH  119 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~-------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (494)
                      ...+...|..++..|+|++|+..|.+++...|.+       ..++.++|.+|...|++                      
T Consensus        38 ~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~----------------------   95 (131)
T 1elr_A           38 MTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNSYFKEEKY----------------------   95 (131)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHTTCH----------------------
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHHHHHHHHhccH----------------------
Confidence            4567889999999999999999999999998877       88999999999999999                      


Q ss_pred             HHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHH
Q 011050          120 AELALKDAEKLLNLQSNSMKSHLLKANALILLERY  154 (494)
Q Consensus       120 ~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~  154 (494)
                       ++|+..++++++++| +...+..++.++..+++.
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 578888888887766543

>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=98.07  E-value=2.2e-06  Score=93.08  Aligned_cols=75  Identities=17%  Similarity=0.196  Sum_probs=66.2

Q ss_pred             CCCCcccccccccccccCcEEcCCC-CcccHhhHHHhccCCCCCCCCCcccccCCCCCcccccHHHHHHHhChHHHhh
Q 011050          197 PERTDDFDCTLCLKLLYEPITTPCG-HSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAE  273 (494)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~Pv~~~cg-h~fc~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~p~~~~~  273 (494)
                      ....++|.|||..+++.+||++|.| +||.+.+|..|+..+..||..|.++..  ..+.+|..|++.|+.|.....+.
T Consensus       886 ~~iP~~F~cPIs~~lM~DPVilpsG~~TydR~~I~~wl~~~~tdP~Tr~~L~~--~~liPN~~Lk~~I~~w~~~~~~~  961 (968)
T 3m62_A          886 GDVPDEFLDPLMYTIMKDPVILPASKMNIDRSTIKAHLLSDSTDPFNRMPLKL--EDVTPNEELRQKILCFKKQKKEE  961 (968)
T ss_dssp             CCSCGGGBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCG--GGCEECHHHHHHHHHHHHHHHTT
T ss_pred             cCCcHHhCCcchhhHHhCCeEcCCCCEEECHHHHHHHHhcCCCCCCCCCCCCc--ccccccHHHHHHHHHHHHHHHhh
Confidence            4667899999999999999999998 699999999999988899999999853  57889999999999987665543

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=97.97  E-value=6e-06  Score=78.82  Aligned_cols=97  Identities=8%  Similarity=-0.021  Sum_probs=85.8

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (494)
                      .-....|..+...|+|++|...|..++...|.+. +++.+|.++++.++|                       .+|+..+
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            3445678889999999999999999999999988 999999999999999                       9999999


Q ss_pred             HHHhhcc-ccc-hHHHHHHHHHHHHHHHHHHHHHHHHccccCC
Q 011050          128 EKLLNLQ-SNS-MKSHLLKANALILLERYDMARDAILSGLQVD  168 (494)
Q Consensus       128 ~~al~l~-p~~-~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~  168 (494)
                      ++++... |.+ ..+++.+|.++..+|++++|+..|.+++.-.
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            9998864 332 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=97.94  E-value=9.4e-06  Score=67.12  Aligned_cols=107  Identities=11%  Similarity=0.049  Sum_probs=88.4

Q ss_pred             cChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhcc-c-cch
Q 011050           61 SNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQ-S-NSM  138 (494)
Q Consensus        61 ~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~-p-~~~  138 (494)
                      ...+.+...|.+++..++.....-+++|.++.+-.+-                    .+..+++..++..+.-+ | ..-
T Consensus        15 ~~l~~~~~~y~~e~~~~~~s~~~~F~yAw~Lv~S~~~--------------------~d~~~GI~lLe~l~~~~~p~~~R   74 (126)
T 1nzn_A           15 EDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYN--------------------DDIRKGIVLLEELLPKGSKEEQR   74 (126)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSH--------------------HHHHHHHHHHHHHTTTSCHHHHH
T ss_pred             HHHHHHHHHHHHHhccCCCcHHHHHHHHHHHHcCCCH--------------------HHHHHHHHHHHHHHhcCCcchHH
Confidence            3445566778888877777788888888888775443                    22267999999999987 6 678


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhh
Q 011050          139 KSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  187 (494)
Q Consensus       139 ~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~  187 (494)
                      +.+|.+|.+++.+|+|++|+..++..|+++|+|..+......+++++..
T Consensus        75 d~lY~LAvg~yklg~Y~~A~~~~~~lL~~eP~n~QA~~Lk~~i~~~i~k  123 (126)
T 1nzn_A           75 DYVFYLAVGNYRLKEYEKALKYVRGLLQTEPQNNQAKELERLIDKAMKK  123 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHh
Confidence            8999999999999999999999999999999999999888888887754

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.93  E-value=1.2e-05  Score=64.63  Aligned_cols=82  Identities=13%  Similarity=-0.037  Sum_probs=70.6

Q ss_pred             ccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhcc-------ccchHHHHHHHHHHHHHHHHHH
Q 011050           84 LGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQ-------SNSMKSHLLKANALILLERYDM  156 (494)
Q Consensus        84 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~-------p~~~~a~~~~g~~~~~~~~~~~  156 (494)
                      .+.+|..++..++|                       ..|+.-+++|++..       +.....+..+|.+|+.+|++++
T Consensus         8 c~~lG~~~~~~~~y-----------------------~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~   64 (104)
T 2v5f_A            8 CFELGKVAYTEADY-----------------------YHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDK   64 (104)
T ss_dssp             HHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHccch-----------------------HHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHH
Confidence            34678889999999                       99999999999864       3567889999999999999999


Q ss_pred             HHHHHHccccCCCCCchhHHHHHHHHhhhhhh
Q 011050          157 ARDAILSGLQVDPFSNPLQASLQNLERTTASL  188 (494)
Q Consensus       157 A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~  188 (494)
                      |+..++++++++|++..+...+..++..+...
T Consensus        65 A~~~~~~al~l~P~~~~~~~n~~~~~~~~~~~   96 (104)
T 2v5f_A           65 ALLLTKKLLELDPEHQRANGNLKYFEYIMAKE   96 (104)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCCHHHHhhHHHHHHHHHhc
Confidence            99999999999999999877777776665443

>2ct0_A Non-SMC element 1 homolog; ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.90  E-value=2.7e-05  Score=58.03  Aligned_cols=49  Identities=20%  Similarity=0.495  Sum_probs=40.3

Q ss_pred             CCcccccccccccccCcEE-cCCCCcccHhhHHHhccCC--CCCCCCCcccc
Q 011050          199 RTDDFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRG--NKCPLCRAVLF  247 (494)
Q Consensus       199 ~~~~~~C~iC~~~~~~Pv~-~~cgh~fc~~Cl~~~~~~~--~~CP~Cr~~~~  247 (494)
                      ......|.||.+++..-.. ..|+|.|+..||..|+...  ..||+||....
T Consensus        12 ~~~i~~C~IC~~~i~~g~~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~   63 (74)
T 2ct0_A           12 PDAVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP   63 (74)
T ss_dssp             SSSSCBCSSSCCBCSSSEECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCC
T ss_pred             cCCCCcCcchhhHcccCCccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCC
Confidence            3345789999998875543 4899999999999999866  78999998864

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=97.82  E-value=1.5e-05  Score=79.03  Aligned_cols=103  Identities=15%  Similarity=0.108  Sum_probs=88.8

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc------ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchh
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP------IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH  119 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (494)
                      .+..+...|..++..|+|++|+..|.+++.+.|...      .++.++|.++...|++                      
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            355677889999999999999999999999876543      3367889999999999                      


Q ss_pred             HHHHHHHHHHHhhcc--------ccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCC
Q 011050          120 AELALKDAEKLLNLQ--------SNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (494)
Q Consensus       120 ~~~a~~~~~~al~l~--------p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~  171 (494)
                       .+|+..+++++.+.        |....++..+|.+|...|++++|...+.+++.+.+..
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             99999999999876        4456788899999999999999999999999988764

>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=97.72  E-value=2.9e-05  Score=65.82  Aligned_cols=88  Identities=11%  Similarity=-0.003  Sum_probs=77.7

Q ss_pred             HHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHH----HHhhhccCCCCCccccccCCCCCchhHHHHHHHHH
Q 011050           53 KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIR----ISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (494)
Q Consensus        53 ~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (494)
                      .|..+...+.+++|+.+|.+|.+.  .++.+++++|.+|..    .+++                       .+|+..++
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            566777778888999999999987  678999999999887    5667                       99999999


Q ss_pred             HHhhccccchHHHHHHHHHHHH----HHHHHHHHHHHHccccC
Q 011050          129 KLLNLQSNSMKSHLLKANALIL----LERYDMARDAILSGLQV  167 (494)
Q Consensus       129 ~al~l~p~~~~a~~~~g~~~~~----~~~~~~A~~~~~~al~l  167 (494)
                      +|.+.  .++.+++.+|.+|..    .+++++|+.+|++|.+.
T Consensus        86 ~Aa~~--g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~  126 (138)
T 1klx_A           86 KACGL--NDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRL  126 (138)
T ss_dssp             HHHHT--TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT
T ss_pred             HHHcC--CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHC
Confidence            99987  688999999999988    89999999999999876

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=97.70  E-value=6.6e-05  Score=74.24  Aligned_cols=103  Identities=12%  Similarity=-0.039  Sum_probs=88.3

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcc-----cccChhHHHHHHHhhhccCCCCCccccccCCCCCch
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPI-----VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT  118 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (494)
                      .-.+..+...|..++..|++++|+..+.+++...|.+..     ++.++|.++...|++                     
T Consensus        11 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~---------------------   69 (373)
T 1hz4_A           11 TMHAEFNALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGEL---------------------   69 (373)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCH---------------------
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcH---------------------
Confidence            334566788999999999999999999999998876542     678889999999999                     


Q ss_pred             hHHHHHHHHHHHhhccccch------HHHHHHHHHHHHHHHHHHHHHHHHccccCCC
Q 011050          119 HAELALKDAEKLLNLQSNSM------KSHLLKANALILLERYDMARDAILSGLQVDP  169 (494)
Q Consensus       119 ~~~~a~~~~~~al~l~p~~~------~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p  169 (494)
                        ++|+..+++++.+.|...      .+++.+|.++...|++++|+..|.+++++.+
T Consensus        70 --~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~  124 (373)
T 1hz4_A           70 --TRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLIN  124 (373)
T ss_dssp             --HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             --HHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence              999999999999876432      3478899999999999999999999998754

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.68  E-value=4.9e-05  Score=59.78  Aligned_cols=70  Identities=14%  Similarity=0.117  Sum_probs=63.3

Q ss_pred             HHHHHHHHHHHHHHhcC---hHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHH
Q 011050           46 HVFDLVQKGNRAFRESN---FEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~---~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (494)
                      ++..+...|..++..++   ..+|...+.+|++++|+++.++..+|..++..|+|                       .+
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y-----------------------~~   61 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRF-----------------------QE   61 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HH
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCH-----------------------HH
Confidence            35677888998876655   79999999999999999999999999999999999                       99


Q ss_pred             HHHHHHHHhhccccch
Q 011050          123 ALKDAEKLLNLQSNSM  138 (494)
Q Consensus       123 a~~~~~~al~l~p~~~  138 (494)
                      |+..++++++.+|..+
T Consensus        62 Ai~~w~~~l~~~p~~~   77 (93)
T 3bee_A           62 AIDTWVLLLDSNDPNL   77 (93)
T ss_dssp             HHHHHHHHHTCCCTTC
T ss_pred             HHHHHHHHHhhCCCCc
Confidence            9999999999999843

>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=97.67  E-value=2.3e-05  Score=74.30  Aligned_cols=85  Identities=25%  Similarity=0.248  Sum_probs=77.9

Q ss_pred             HHHHHHHHHHhccCCC--CcccccChhHHHHHH-----HhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhcccc
Q 011050           64 EEAISNYSRANNIKPG--DPIVLGNRSSAYIRI-----SQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSN  136 (494)
Q Consensus        64 ~~Ai~~y~~al~~~p~--~~~~~~~~a~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~  136 (494)
                      ..|...+.+|++++|+  +..+|..+|..|.+.     |+.                       ++|...+++|++++|+
T Consensus       180 ~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~-----------------------ekA~~~ferAL~LnP~  236 (301)
T 3u64_A          180 HAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGM-----------------------EKAHTAFEHLTRYCSA  236 (301)
T ss_dssp             HHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCH-----------------------HHHHHHHHHHHHHCCT
T ss_pred             HHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCH-----------------------HHHHHHHHHHHHhCCC
Confidence            5788999999999999  677999999999885     788                       9999999999999997


Q ss_pred             c-hHHHHHHHHHHHH-HHHHHHHHHHHHccccCCCCC
Q 011050          137 S-MKSHLLKANALIL-LERYDMARDAILSGLQVDPFS  171 (494)
Q Consensus       137 ~-~~a~~~~g~~~~~-~~~~~~A~~~~~~al~l~p~~  171 (494)
                      . ...++..|..|+. .|++++|...++++++.+|..
T Consensus       237 ~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~p~~  273 (301)
T 3u64_A          237 HDPDHHITYADALCIPLNNRAGFDEALDRALAIDPES  273 (301)
T ss_dssp             TCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCCGGG
T ss_pred             CCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCCC
Confidence            5 9999999999987 599999999999999998874

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.53  E-value=6.7e-05  Score=77.70  Aligned_cols=103  Identities=8%  Similarity=-0.078  Sum_probs=85.7

Q ss_pred             hhhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhcc-----CCC---CcccccChhHHHHHHHhhhccCCCCCccccccC
Q 011050           41 WDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNI-----KPG---DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLN  112 (494)
Q Consensus        41 ~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~-----~p~---~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  112 (494)
                      .+-+..+..+...|..|..+|+|++|+.+|.+++++     .|+   -...+.|+|.+|...|+|               
T Consensus       345 ~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~~G~~---------------  409 (490)
T 3n71_A          345 DTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRAGLTNWHAGHI---------------  409 (490)
T ss_dssp             TTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHTTCH---------------
T ss_pred             CCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCH---------------
Confidence            344456777888999999999999999999999976     333   348899999999999999               


Q ss_pred             CCCCchhHHHHHHHHHHHhhc-----ccc---chHHHHHHHHHHHHHHHHHHHHHHHHcccc
Q 011050          113 GLDPTTHAELALKDAEKLLNL-----QSN---SMKSHLLKANALILLERYDMARDAILSGLQ  166 (494)
Q Consensus       113 ~~~~~~~~~~a~~~~~~al~l-----~p~---~~~a~~~~g~~~~~~~~~~~A~~~~~~al~  166 (494)
                              ++|+..+++|+.+     .|+   -.+..-.++.++..++.|++|...|.++.+
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                    9999999999975     344   455667889999999999999999988743

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=97.53  E-value=6.1e-05  Score=77.87  Aligned_cols=94  Identities=14%  Similarity=0.030  Sum_probs=61.6

Q ss_pred             HHHHHHHHHHhc---ChHHHHHHHHHHhccCCCCcccccChhHHHHH----HHhhhccCCCCCccccccCCCCCchhHHH
Q 011050           50 LVQKGNRAFRES---NFEEAISNYSRANNIKPGDPIVLGNRSSAYIR----ISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (494)
Q Consensus        50 ~~~~g~~~~~~~---~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (494)
                      +...|..++..|   ++++|+.+|.+|++.  .++.+++++|.+|..    .+++                       ++
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            344555555433   666666666666665  456666666666665    4555                       77


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHH----HHHHHHHHHHHHccccCCCC
Q 011050          123 ALKDAEKLLNLQSNSMKSHLLKANALIL----LERYDMARDAILSGLQVDPF  170 (494)
Q Consensus       123 a~~~~~~al~l~p~~~~a~~~~g~~~~~----~~~~~~A~~~~~~al~l~p~  170 (494)
                      |+..++++++..  ++.+++.+|.+|..    .+++++|+.+|+++++.+|+
T Consensus       386 A~~~~~~A~~~~--~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~  435 (490)
T 2xm6_A          386 AAIWMRKAAEQG--LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTNDMN  435 (490)
T ss_dssp             HHHHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHhCC--CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCC
Confidence            777777777653  56677777777776    67777777777777777743

>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=97.47  E-value=0.00021  Score=81.03  Aligned_cols=103  Identities=15%  Similarity=0.165  Sum_probs=84.5

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (494)
                      ..+...|..++..|+|++|+.+|++|        ..|..+|.+|.++|+|                       ++|++.+
T Consensus      1196 ad~~~iGd~le~eg~YeeA~~~Y~kA--------~ny~rLA~tLvkLge~-----------------------q~AIEaa 1244 (1630)
T 1xi4_A         1196 AHIQQVGDRCYDEKMYDAAKLLYNNV--------SNFGRLASTLVHLGEY-----------------------QAAVDGA 1244 (1630)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHhh--------hHHHHHHHHHHHhCCH-----------------------HHHHHHH
Confidence            46778999999999999999999997        4789999999999999                       9999999


Q ss_pred             HHHhhccc-------------------------cchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          128 EKLLNLQS-------------------------NSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       128 ~~al~l~p-------------------------~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      ++|...++                         .+++.+..++..|...|.|++|+..+++++.++|.+......+..+
T Consensus      1245 rKA~n~~aWkev~~acve~~Ef~LA~~cgl~Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiL 1323 (1630)
T 1xi4_A         1245 RKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAIL 1323 (1630)
T ss_pred             HHhCCHHHHHHHHHHHhhhhHHHHHHHHHHhhhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHH
Confidence            99865543                         1334455667778889999999999999999998887766554443

>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=97.41  E-value=0.00016  Score=73.13  Aligned_cols=101  Identities=15%  Similarity=0.173  Sum_probs=64.7

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (494)
                      ..+...|..++..|+|++|+.+|+++        ..|.++|.|+.++|+|                       ++|++.+
T Consensus       123 ~a~~~IGd~~~~~g~yeeA~~~Y~~a--------~n~~~LA~~L~~Lg~y-----------------------q~AVea~  171 (449)
T 1b89_A          123 AHIQQVGDRCYDEKMYDAAKLLYNNV--------SNFGRLASTLVHLGEY-----------------------QAAVDGA  171 (449)
T ss_dssp             --------------CTTTHHHHHHHT--------TCHHHHHHHHHTTTCH-----------------------HHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHh--------hhHHHHHHHHHHhccH-----------------------HHHHHHH
Confidence            37888899999999999999999987        5788899999999999                       8899999


Q ss_pred             HHHhhcccc---------------------------chHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHH
Q 011050          128 EKLLNLQSN---------------------------SMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (494)
Q Consensus       128 ~~al~l~p~---------------------------~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~  180 (494)
                      +++.  +|.                           +++-...+...|...|++++|+..+++++.+++.+-.+...+..
T Consensus       172 ~KA~--~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~le~ah~~~ftel~i  249 (449)
T 1b89_A          172 RKAN--STRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAI  249 (449)
T ss_dssp             HHHT--CHHHHHHHHHHHHHTTCHHHHHHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHH
T ss_pred             HHcC--CchhHHHHHHHHHHcCcHHHHHHHHHHHHhCHhhHHHHHHHHHHCCCHHHHHHHHHHHhCCcHHHHHHHHHHHH
Confidence            8883  331                           11112223366778888888888888888888877666555544


Q ss_pred             H
Q 011050          181 L  181 (494)
Q Consensus       181 ~  181 (494)
                      +
T Consensus       250 l  250 (449)
T 1b89_A          250 L  250 (449)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=97.41  E-value=0.00015  Score=74.29  Aligned_cols=103  Identities=10%  Similarity=-0.073  Sum_probs=69.6

Q ss_pred             HHHHHHHHHHHhc---ChHHHHHHHHHHhccCCCCcccccChhHHHHHH----HhhhccCCCCCccccccCCCCCchhHH
Q 011050           49 DLVQKGNRAFRES---NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRI----SQFLKHRPPSASEYRPLNGLDPTTHAE  121 (494)
Q Consensus        49 ~~~~~g~~~~~~~---~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (494)
                      .+...|..+...|   ++++|+..|.+|.+..|.++..++++|.+|...    +++                       .
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            4556677777777   778888888888888777777667777776443    244                       6


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHH-H--HHHHHHHHHHHHHHccccCCCCCchhHHHHH
Q 011050          122 LALKDAEKLLNLQSNSMKSHLLKANA-L--ILLERYDMARDAILSGLQVDPFSNPLQASLQ  179 (494)
Q Consensus       122 ~a~~~~~~al~l~p~~~~a~~~~g~~-~--~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~  179 (494)
                      +|+..++++.   |.++.+++.+|.+ |  ...+++++|+.+|+++.+.  .+..+...+.
T Consensus       235 ~A~~~~~~aa---~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~--g~~~A~~~Lg  290 (452)
T 3e4b_A          235 TAQALLEKIA---PGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAA--DQPRAELLLG  290 (452)
T ss_dssp             HHHHHHHHHG---GGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHT--TCHHHHHHHH
T ss_pred             HHHHHHHHHc---CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHC--CCHHHHHHHH
Confidence            7777777776   6777777777777 3  3567777777777777643  3444444333

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=97.38  E-value=0.00038  Score=71.35  Aligned_cols=99  Identities=10%  Similarity=0.015  Sum_probs=82.2

Q ss_pred             HHHHHHHHHh----cChHHHHHHHHHHhccCCCCcccccChhHHHH---HHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           51 VQKGNRAFRE----SNFEEAISNYSRANNIKPGDPIVLGNRSSAYI---RISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        51 ~~~g~~~~~~----~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      ...|..+...    +++++|+..|.++.   |.++.+++++|.+|+   ..+++                       .+|
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            4455555544    79999999999998   999999999999954   45566                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHH-----HHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          124 LKDAEKLLNLQSNSMKSHLLKANALILLE-----RYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       124 ~~~~~~al~l~p~~~~a~~~~g~~~~~~~-----~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      +..++++.+.  .++.+++.+|.+|. .|     ++++|+.+|+++.   |.+..+...+..+
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  48999999999997 66     9999999999999   8888776666544

>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=97.36  E-value=0.00045  Score=57.21  Aligned_cols=68  Identities=12%  Similarity=0.058  Sum_probs=61.7

Q ss_pred             HHHHHHHHHHhhccc-cchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhhh
Q 011050          121 ELALKDAEKLLNLQS-NSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  188 (494)
Q Consensus       121 ~~a~~~~~~al~l~p-~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~  188 (494)
                      ..++..++..++-+| ..-+.+|.+|.+++.+|+|++|+.+.+..|+++|+|..+......+++++.+.
T Consensus        60 ~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~eP~N~QA~~Lk~~Ie~ki~kd  128 (134)
T 3o48_A           60 RLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVGALKSMVEDKIQKE  128 (134)
T ss_dssp             HHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHHHhh
Confidence            789999999998888 45788999999999999999999999999999999999999888888888653

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.35  E-value=0.00017  Score=61.76  Aligned_cols=78  Identities=13%  Similarity=0.033  Sum_probs=67.7

Q ss_pred             HHHHHHHHHHHHHhc---ChHHHHHHHHHHhccC-C-CCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHH
Q 011050           47 VFDLVQKGNRAFRES---NFEEAISNYSRANNIK-P-GDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~---~~~~Ai~~y~~al~~~-p-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (494)
                      ....++.|..+.+.+   ++++||..+...++.+ | ++.++++++|.+|+++++|                       .
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            456677888888877   7789999999999998 7 5689999999999999999                       9


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHH
Q 011050          122 LALKDAEKLLNLQSNSMKSHLLKANA  147 (494)
Q Consensus       122 ~a~~~~~~al~l~p~~~~a~~~~g~~  147 (494)
                      +|.+.++++++++|++.+|...+-.+
T Consensus        89 ~A~~y~~~lL~ieP~n~QA~~Lk~~i  114 (152)
T 1pc2_A           89 KALKYVRGLLQTEPQNNQAKELERLI  114 (152)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            99999999999999998887554333

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=97.29  E-value=0.00042  Score=71.55  Aligned_cols=104  Identities=12%  Similarity=-0.021  Sum_probs=81.0

Q ss_pred             HHHHHHHHHHHHHH----hcChHHHHHHHHHHhccCCCCcccccChhHHHHH----HHhhhccCCCCCccccccCCCCCc
Q 011050           46 HVFDLVQKGNRAFR----ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIR----ISQFLKHRPPSASEYRPLNGLDPT  117 (494)
Q Consensus        46 ~~~~~~~~g~~~~~----~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~  117 (494)
                      ++..+...|..++.    .+++++|+..|.+|++.  +++.+++++|.+|..    .+++                    
T Consensus        38 ~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~--~~~~a~~~Lg~~y~~g~g~~~~~--------------------   95 (490)
T 2xm6_A           38 EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQ--GYTPAEYVLGLRYMNGEGVPQDY--------------------   95 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHTSSSCCCH--------------------
T ss_pred             CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHC--CCHHHHHHHHHHHHcCCCCCCCH--------------------
Confidence            45677778888887    88999999999999876  567888888888877    6677                    


Q ss_pred             hhHHHHHHHHHHHhhccccchHHHHHHHHHHHH----HHHHHHHHHHHHccccCCCCCchhHHHH
Q 011050          118 THAELALKDAEKLLNLQSNSMKSHLLKANALIL----LERYDMARDAILSGLQVDPFSNPLQASL  178 (494)
Q Consensus       118 ~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~----~~~~~~A~~~~~~al~l~p~~~~~~~~~  178 (494)
                         .+|+..++++.+.  .++.+++.+|.+|..    .+++++|+.+|+++.+.  .+..+...+
T Consensus        96 ---~~A~~~~~~a~~~--~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~--~~~~a~~~L  153 (490)
T 2xm6_A           96 ---AQAVIWYKKAALK--GLPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQ--GRDSGQQSM  153 (490)
T ss_dssp             ---HHHHHHHHHHHHT--TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT--TCHHHHHHH
T ss_pred             ---HHHHHHHHHHHHC--CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC--CCHHHHHHH
Confidence               8888888888765  477888888888877    77888888888888764  344443333

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=97.27  E-value=0.00056  Score=57.36  Aligned_cols=68  Identities=12%  Similarity=0.058  Sum_probs=61.4

Q ss_pred             HHHHHHHHHHhhccc-cchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhhh
Q 011050          121 ELALKDAEKLLNLQS-NSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  188 (494)
Q Consensus       121 ~~a~~~~~~al~l~p-~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~  188 (494)
                      .+++..++..+.-+| ..-+.+|.+|.+++.+|+|++|+.+.+..|+++|+|..+......+++++...
T Consensus        59 ~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP~n~QA~~Lk~~Ie~~i~kd  127 (144)
T 1y8m_A           59 RLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVGALKSMVEDKIQKE  127 (144)
T ss_dssp             HHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHh
Confidence            789999999999888 46778999999999999999999999999999999999998888888887553

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=97.25  E-value=0.00068  Score=65.44  Aligned_cols=101  Identities=8%  Similarity=-0.083  Sum_probs=85.7

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCC--CCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKP--GDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      ..+...|..+...|++++|+..+.+++..+|  ++..++...+.++.++|+.                       +.|.+
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            3456789999999999999999999999997  7889999999999999999                       99999


Q ss_pred             HHHHHhhcccc----chHHHHHH--HHHHHHHH--HHHHHHHHHHccccCCCCC
Q 011050          126 DAEKLLNLQSN----SMKSHLLK--ANALILLE--RYDMARDAILSGLQVDPFS  171 (494)
Q Consensus       126 ~~~~al~l~p~----~~~a~~~~--g~~~~~~~--~~~~A~~~~~~al~l~p~~  171 (494)
                      .+++..+.+|+    .......+  |.+....|  ++.+|...|+++.+..|++
T Consensus       158 ~l~~~~~~~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~p~~  211 (310)
T 3mv2_B          158 IFDNYTNAIEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTFPTW  211 (310)
T ss_dssp             HHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTSCSH
T ss_pred             HHHHHHhcCccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhCCCc
Confidence            99999999993    23344444  44466667  9999999999999888873

>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=97.18  E-value=0.00034  Score=59.10  Aligned_cols=89  Identities=12%  Similarity=-0.018  Sum_probs=71.8

Q ss_pred             hcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchH
Q 011050           60 ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMK  139 (494)
Q Consensus        60 ~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~  139 (494)
                      .+|+++|+.+|.+|.+..  ++.+.  +|.+|...+.+                       ++|++.+++|.+.  .++.
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            468899999999999886  34444  77777666666                       7899999999987  6889


Q ss_pred             HHHHHHHHHHH----HHHHHHHHHHHHccccCCCCCchhHHHHH
Q 011050          140 SHLLKANALIL----LERYDMARDAILSGLQVDPFSNPLQASLQ  179 (494)
Q Consensus       140 a~~~~g~~~~~----~~~~~~A~~~~~~al~l~p~~~~~~~~~~  179 (494)
                      +++.+|.+|..    .+++++|+.+|++|.+.  .+..+...+.
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            99999999988    89999999999999876  4454444443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.16  E-value=0.00067  Score=68.19  Aligned_cols=104  Identities=9%  Similarity=0.028  Sum_probs=76.2

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC-------------------------------------------
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD-------------------------------------------   80 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~-------------------------------------------   80 (494)
                      ......+...|..++..|+|++|+..|.+++...+..                                           
T Consensus        52 ~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  131 (434)
T 4b4t_Q           52 NEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRV  131 (434)
T ss_dssp             HHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCC
T ss_pred             hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCcc
Confidence            3344567788888888888888888888876643321                                           


Q ss_pred             ---cccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhc------cccchHHHHHHHHHHHHH
Q 011050           81 ---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNL------QSNSMKSHLLKANALILL  151 (494)
Q Consensus        81 ---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l------~p~~~~a~~~~g~~~~~~  151 (494)
                         +.++.++|.+|...|+|                       .+|+..+.+++..      .+....++...|.+|..+
T Consensus       132 ~~~~~~~~~la~~~~~~g~~-----------------------~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  188 (434)
T 4b4t_Q          132 FLKHSLSIKLATLHYQKKQY-----------------------KDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKL  188 (434)
T ss_dssp             SSHHHHHHHHHHHHHHHTCH-----------------------HHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHccCh-----------------------HHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHh
Confidence               13455677778888888                       8888888877654      345567888888888888


Q ss_pred             HHHHHHHHHHHccccCCCC
Q 011050          152 ERYDMARDAILSGLQVDPF  170 (494)
Q Consensus       152 ~~~~~A~~~~~~al~l~p~  170 (494)
                      |++++|...|++++.+.+.
T Consensus       189 ~~~~~A~~~~~~al~~~~~  207 (434)
T 4b4t_Q          189 RNLAKSKASLTAARTAANS  207 (434)
T ss_dssp             TCHHHHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHHhhc
Confidence            8888888888888876553

>3k1l_B Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A {Drosophila melanogaster}

Probab=97.16  E-value=9.3e-05  Score=70.85  Aligned_cols=49  Identities=22%  Similarity=0.653  Sum_probs=38.3

Q ss_pred             CCcccccccccccccC----cE----EcCCCCcccHhhHHHhccCC-----------CCCCCCCcccc
Q 011050          199 RTDDFDCTLCLKLLYE----PI----TTPCGHSFCRSCLFQSMDRG-----------NKCPLCRAVLF  247 (494)
Q Consensus       199 ~~~~~~C~iC~~~~~~----Pv----~~~cgh~fc~~Cl~~~~~~~-----------~~CP~Cr~~~~  247 (494)
                      ......|.||+..+.+    |.    ...|||.|+..||.+|+...           ..||.||.++.
T Consensus       305 ee~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs  372 (381)
T 3k1l_B          305 DNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLS  372 (381)
T ss_dssp             CCSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEE
T ss_pred             ccCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCC
Confidence            3456789999998776    31    14799999999999998631           35999999874

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=97.09  E-value=0.00077  Score=58.15  Aligned_cols=95  Identities=8%  Similarity=0.028  Sum_probs=78.3

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcc---------cccChhHHHHHHHhhhccCCCCCccccccCCCCCc
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPI---------VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPT  117 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (494)
                      ...+++....++..|.|+.|+..+..++.+..+++.         ++..+|.+++..++|                    
T Consensus        20 ~~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~ey--------------------   79 (167)
T 3ffl_A           20 HMNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEY--------------------   79 (167)
T ss_dssp             -CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCH--------------------
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHH--------------------
Confidence            356788899999999999999999998887655544         678899999999999                    


Q ss_pred             hhHHHHHHHHHHHhhccc---c----------------------chHHHHHHHHHHHHHHHHHHHHHHHHcc
Q 011050          118 THAELALKDAEKLLNLQS---N----------------------SMKSHLLKANALILLERYDMARDAILSG  164 (494)
Q Consensus       118 ~~~~~a~~~~~~al~l~p---~----------------------~~~a~~~~g~~~~~~~~~~~A~~~~~~a  164 (494)
                         ..|...|++|+++..   .                      ..+..|..|.||..++++++|+..++..
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               899999999876431   1                      1257799999999999999999998765

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus}

Probab=97.06  E-value=0.00034  Score=54.26  Aligned_cols=43  Identities=26%  Similarity=0.588  Sum_probs=34.8

Q ss_pred             ccccccccccCc-EEcCCCCcccHhhHHHhccC-CCCCCCCCccc
Q 011050          204 DCTLCLKLLYEP-ITTPCGHSFCRSCLFQSMDR-GNKCPLCRAVL  246 (494)
Q Consensus       204 ~C~iC~~~~~~P-v~~~cgh~fc~~Cl~~~~~~-~~~CP~Cr~~~  246 (494)
                      .|+.|.-++..- .++||+|.||.+|+..|..+ ...||.|+.++
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            478888766654 45799999999999998754 57899999986

>1vyx_A ORF K3, K3RING; zinc-binding protein, ring domain, cross-brace motif; NMR {Human herpesvirus 8} SCOP: g.44.1.3

Probab=97.05  E-value=0.00036  Score=49.74  Aligned_cols=47  Identities=28%  Similarity=0.499  Sum_probs=38.2

Q ss_pred             CcccccccccccccCcEEcCCC--C---cccHhhHHHhccC--CCCCCCCCccc
Q 011050          200 TDDFDCTLCLKLLYEPITTPCG--H---SFCRSCLFQSMDR--GNKCPLCRAVL  246 (494)
Q Consensus       200 ~~~~~C~iC~~~~~~Pv~~~cg--h---~fc~~Cl~~~~~~--~~~CP~Cr~~~  246 (494)
                      .+...|.||++...++...||.  +   .|+..||..|+..  ...||+|+..+
T Consensus         4 ~~~~~CrIC~~~~~~~l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~   57 (60)
T 1vyx_A            4 EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVY   57 (60)
T ss_dssp             CSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             CCCCEeEEeecCCCCceecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCee
Confidence            3556899999887778778865  4   8999999999874  46799999876

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=97.05  E-value=0.00092  Score=64.50  Aligned_cols=98  Identities=11%  Similarity=-0.017  Sum_probs=81.2

Q ss_pred             HHHHHHHhc--ChHHHHHHHHHHhccCCC--CcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHH
Q 011050           53 KGNRAFRES--NFEEAISNYSRANNIKPG--DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (494)
Q Consensus        53 ~g~~~~~~~--~~~~Ai~~y~~al~~~p~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (494)
                      .|...+..|  ++++|...|+++.+..|+  ....+++   ++..+|+|                       ++|.+.++
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            343355555  999999999999988886  3445555   89999999                       99999999


Q ss_pred             HHhhc----------cccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHH
Q 011050          129 KLLNL----------QSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASL  178 (494)
Q Consensus       129 ~al~l----------~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~  178 (494)
                      .++++          +|+++.++.++..+...+|+  +|.+.+.++.+.+|+++-+....
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  89999999999999999765443

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=96.93  E-value=0.0031  Score=59.73  Aligned_cols=87  Identities=10%  Similarity=-0.085  Sum_probs=63.1

Q ss_pred             cCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhcccc--chHHHHHHHHHHHHH--
Q 011050           76 IKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSN--SMKSHLLKANALILL--  151 (494)
Q Consensus        76 ~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~--~~~a~~~~g~~~~~~--  151 (494)
                      .+|+++.+++..|.+....-..            .-..+.--..+..|...+++|+++||+  +..+|..+|..|...  
T Consensus       147 ~~~~dve~L~W~ai~~ss~a~~------------~~gg~~Al~~l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp  214 (301)
T 3u64_A          147 CTRVDVGTLYWVGTGYVAAFAL------------TPLGSALPDTVHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPE  214 (301)
T ss_dssp             CCGGGHHHHHHHHHHHHHHHTT------------SCTTSCCHHHHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCT
T ss_pred             cCccccHHHHHHHHHHHHHHhc------------CCCChHHHHhHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCC
Confidence            3566666666655554332111            001233445568899999999999999  456999999999884  


Q ss_pred             ---HHHHHHHHHHHccccCCCCC-chh
Q 011050          152 ---ERYDMARDAILSGLQVDPFS-NPL  174 (494)
Q Consensus       152 ---~~~~~A~~~~~~al~l~p~~-~~~  174 (494)
                         |+.++|..+|++|++++|+. ...
T Consensus       215 ~~gGd~ekA~~~ferAL~LnP~~~id~  241 (301)
T 3u64_A          215 SFGGGMEKAHTAFEHLTRYCSAHDPDH  241 (301)
T ss_dssp             TTTCCHHHHHHHHHHHHHHCCTTCSHH
T ss_pred             ccCCCHHHHHHHHHHHHHhCCCCCchH
Confidence               99999999999999999975 443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.92  E-value=0.00077  Score=67.72  Aligned_cols=98  Identities=10%  Similarity=0.037  Sum_probs=77.5

Q ss_pred             HHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcc-----------------cccChhHHHHHHHhhhccCCCCCcccccc
Q 011050           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPI-----------------VLGNRSSAYIRISQFLKHRPPSASEYRPL  111 (494)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~-----------------~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  111 (494)
                      ..+++|..+++.|+|++|+..|.++++..|....                 ++.++|.+|...|+|              
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            4567899999999999999999999999988654                 356788999999999              


Q ss_pred             CCCCCchhHHHHHHHHHHHhhccccchHH------HHHHHHHHHHHHHHHHHHHHHHccccCCC
Q 011050          112 NGLDPTTHAELALKDAEKLLNLQSNSMKS------HLLKANALILLERYDMARDAILSGLQVDP  169 (494)
Q Consensus       112 ~~~~~~~~~~~a~~~~~~al~l~p~~~~a------~~~~g~~~~~~~~~~~A~~~~~~al~l~p  169 (494)
                               ++|++.+.+++...+...++      ...+|.++...|++++|+..+.+++...+
T Consensus        72 ---------~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  126 (434)
T 4b4t_Q           72 ---------DKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAK  126 (434)
T ss_dssp             ---------HHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHH
T ss_pred             ---------HHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHH
Confidence                     99999999999876654433      33456666667788888888887776543

>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=96.73  E-value=0.0016  Score=74.04  Aligned_cols=66  Identities=12%  Similarity=0.016  Sum_probs=58.2

Q ss_pred             CCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHH
Q 011050           78 PGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMA  157 (494)
Q Consensus        78 p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A  157 (494)
                      .+.+.+|+++|.++...|++                       .+|+..|.+|     +++.+|+..|.++..+|+|++|
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            45678999999999999999                       9999999887     7888999999999999999999


Q ss_pred             HHHHHccccCCCCC
Q 011050          158 RDAILSGLQVDPFS  171 (494)
Q Consensus       158 ~~~~~~al~l~p~~  171 (494)
                      ++.|..|.+.+++.
T Consensus      1154 IeyL~mArk~~~e~ 1167 (1630)
T 1xi4_A         1154 VKYLQMARKKARES 1167 (1630)
T ss_pred             HHHHHHHHhhcccc
Confidence            99999998887553

>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=96.65  E-value=0.0021  Score=64.99  Aligned_cols=111  Identities=16%  Similarity=0.112  Sum_probs=88.7

Q ss_pred             hHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccC------------------------------hhHHHH
Q 011050           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGN------------------------------RSSAYI   92 (494)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~------------------------------~a~~~~   92 (494)
                      .+..+..+...|..+++.|+|++|+..|.+|.     ++..|..                              ++.+|.
T Consensus       144 ~Y~~a~n~~~LA~~L~~Lg~yq~AVea~~KA~-----~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~~~ad~l~~lv~~Ye  218 (449)
T 1b89_A          144 LYNNVSNFGRLASTLVHLGEYQAAVDGARKAN-----STRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQ  218 (449)
T ss_dssp             HHHHTTCHHHHHHHHHTTTCHHHHHHHHHHHT-----CHHHHHHHHHHHHHTTCHHHHHHTTTTTTTCHHHHHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHhccHHHHHHHHHHcC-----CchhHHHHHHHHHHcCcHHHHHHHHHHHHhCHhhHHHHHHHHH
Confidence            34445566778999999999999999999993     3333322                              234566


Q ss_pred             HHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHH--HHHHHHHHHHHHHHccccCCC-
Q 011050           93 RISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANAL--ILLERYDMARDAILSGLQVDP-  169 (494)
Q Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~--~~~~~~~~A~~~~~~al~l~p-  169 (494)
                      +.|++                       ++|+..+++++.+++.+...+..+|.+|  +..++..++++.|...+.+.| 
T Consensus       219 k~G~~-----------------------eEai~lLe~aL~le~ah~~~ftel~il~~ky~p~k~~ehl~~~~~~ini~k~  275 (449)
T 1b89_A          219 DRGYF-----------------------EELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLELFWSRVNIPKV  275 (449)
T ss_dssp             HTTCH-----------------------HHHHHHHHHHTTSTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTTSCHHHH
T ss_pred             HCCCH-----------------------HHHHHHHHHHhCCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhcCcHH
Confidence            66777                       9999999999999999999999999998  468999999999999999888 


Q ss_pred             ----CCchhHHHHHHH
Q 011050          170 ----FSNPLQASLQNL  181 (494)
Q Consensus       170 ----~~~~~~~~~~~~  181 (494)
                          ++...+..+.-+
T Consensus       276 ~~~~~~~~~w~e~~~l  291 (449)
T 1b89_A          276 LRAAEQAHLWAELVFL  291 (449)
T ss_dssp             HHHHHTTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence                777777665444

>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=96.25  E-value=0.0052  Score=62.39  Aligned_cols=74  Identities=14%  Similarity=0.047  Sum_probs=62.0

Q ss_pred             CCCchhhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhcc-----CCC---CcccccChhHHHHHHHhhhccCCCCCccc
Q 011050           37 GSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNI-----KPG---DPIVLGNRSSAYIRISQFLKHRPPSASEY  108 (494)
Q Consensus        37 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~-----~p~---~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  108 (494)
                      ..+..+-+..+..+...|..+..+|+|++|+.+|.+++..     .|+   -...|+|+|.+|...|+|           
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            3344555566788889999999999999999999999976     233   347899999999999999           


Q ss_pred             cccCCCCCchhHHHHHHHHHHHhhc
Q 011050          109 RPLNGLDPTTHAELALKDAEKLLNL  133 (494)
Q Consensus       109 ~~~~~~~~~~~~~~a~~~~~~al~l  133 (494)
                                  ++|+..+++|+++
T Consensus       388 ------------~eA~~~~~~Al~i  400 (429)
T 3qwp_A          388 ------------PQAMKNLRLAFDI  400 (429)
T ss_dssp             ------------HHHHHHHHHHHHH
T ss_pred             ------------HHHHHHHHHHHHH
Confidence                        9999999999975

>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=96.03  E-value=0.0057  Score=60.18  Aligned_cols=90  Identities=10%  Similarity=-0.052  Sum_probs=68.9

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      +..+...|..++..|++++|+..+++|+.++|+ ..+|..+|.++...|++                       ++|++.
T Consensus       277 a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s-~~a~~llG~~~~~~G~~-----------------------~eA~e~  332 (372)
T 3ly7_A          277 SIIYQIKAVSALVKGKTDESYQAINTGIDLEMS-WLNYVLLGKVYEMKGMN-----------------------REAADA  332 (372)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCC-HHHHHHHHHHHHHCCCH-----------------------HHHHHH
Confidence            344555667777889999999999999999974 66778889999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHH--HHHHHHHHHHHHHH
Q 011050          127 AEKLLNLQSNSMKSHLLKANA--LILLERYDMARDAI  161 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~--~~~~~~~~~A~~~~  161 (494)
                      +.+|+.++|... .|++..+.  |..+....-+++.|
T Consensus       333 ~~~AlrL~P~~~-t~~~~~~l~F~sn~~~i~~~~~~~  368 (372)
T 3ly7_A          333 YLTAFNLRPGAN-TLYWIENGIFQTSVPYVVPYLDKF  368 (372)
T ss_dssp             HHHHHHHSCSHH-HHHHHHHSSSCCCHHHHCHHHHHH
T ss_pred             HHHHHhcCCCcC-hHHHHhCceeecchhhhHHHHHhc
Confidence            999999999775 45544432  23445454555444

>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=95.85  E-value=0.0049  Score=62.59  Aligned_cols=72  Identities=8%  Similarity=-0.013  Sum_probs=61.0

Q ss_pred             chhhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhcc--------CCCCcccccChhHHHHHHHhhhccCCCCCcccccc
Q 011050           40 PWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNI--------KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL  111 (494)
Q Consensus        40 ~~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~--------~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  111 (494)
                      .++-+..+..+...|..|..+|+|++|+.+|.+++++        +|+-...|.|+|.+|...|+|              
T Consensus       333 g~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~--------------  398 (433)
T 3qww_A          333 EDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYMGLENK--------------  398 (433)
T ss_dssp             CTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCH--------------
T ss_pred             ChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhccCH--------------
Confidence            3444556777888999999999999999999999976        333448899999999999999              


Q ss_pred             CCCCCchhHHHHHHHHHHHhhcc
Q 011050          112 NGLDPTTHAELALKDAEKLLNLQ  134 (494)
Q Consensus       112 ~~~~~~~~~~~a~~~~~~al~l~  134 (494)
                               ++|+..+++|+.+-
T Consensus       399 ---------~eA~~~~~~Al~i~  412 (433)
T 3qww_A          399 ---------AAGEKALKKAIAIM  412 (433)
T ss_dssp             ---------HHHHHHHHHHHHHH
T ss_pred             ---------HHHHHHHHHHHHHH
Confidence                     99999999999853

>3mv2_A Coatomer subunit alpha; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_A

Probab=95.63  E-value=0.24  Score=47.32  Aligned_cols=181  Identities=11%  Similarity=-0.012  Sum_probs=90.3

Q ss_pred             HHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc--------cc--ccChhHHHHH---HHhhhccCCCCCcccccc
Q 011050           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP--------IV--LGNRSSAYIR---ISQFLKHRPPSASEYRPL  111 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~--------~~--~~~~a~~~~~---~~~~~~~~~~~~~~~~~~  111 (494)
                      .........|..++..|+|++|+..|..+|..-|-..        .+  +...+.-|+-   +..-++..+.        
T Consensus       112 ~~L~~~Lk~gyk~~t~gKf~eAl~~Fr~iL~~i~l~~v~~~~e~~e~~eli~icrEYilal~iEl~Rr~l~~--------  183 (325)
T 3mv2_A          112 DVVNEKMNEGYKNFKLNKPDIAIECFREAIYRITLLMVDDAEDEKLAHKILETAREYILGLSIELERRSLKE--------  183 (325)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCCBCSSHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCT--------
T ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhheeeeccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCc--------
Confidence            3345567799999999999999999999988644221        11  1111111111   0000000000        


Q ss_pred             CCCCCchhHHHHHHH--HHHHhhccccchHHHHHHHH-HHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhhh
Q 011050          112 NGLDPTTHAELALKD--AEKLLNLQSNSMKSHLLKAN-ALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  188 (494)
Q Consensus       112 ~~~~~~~~~~~a~~~--~~~al~l~p~~~~a~~~~g~-~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~  188 (494)
                            +.....++.  |=...++.|.+...-.+.|. ..++.++|.-|....++.|+++|..+.+..+.+.+...-.+.
T Consensus       184 ------~~~kR~lELAAYFT~c~LQp~H~~LaLr~AM~~a~K~KNy~tAa~fArrLLel~p~~~~a~qArkil~~ce~~~  257 (325)
T 3mv2_A          184 ------GNTVRMLELAAYFTKAKLSPIHRTNALQVAMSQHFKHKNFLQASYFAGEFLKIISSGPRAEQARKIKNKADSMA  257 (325)
T ss_dssp             ------TCHHHHHHHHHHGGGSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSHHHHHHHHHHHHHHTSC
T ss_pred             ------ccHHHHHHHHHHhccCCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhcCC
Confidence                  011111121  11223445555444444444 357899999999999999999997655544333332222211


Q ss_pred             hccccCCCCCCCccccccccccccc--CcEE--cCCCCcccHhhHHHhccCCCCCCCCCcc
Q 011050          189 IGRRIHGTPERTDDFDCTLCLKLLY--EPIT--TPCGHSFCRSCLFQSMDRGNKCPLCRAV  245 (494)
Q Consensus       189 ~~~~~~~~~~~~~~~~C~iC~~~~~--~Pv~--~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~  245 (494)
                      ...-........+-..|...+..+.  .|..  .=||-.|+...      .|..|++|...
T Consensus       258 ~Da~eidyD~~~~F~iCa~s~tPIY~g~~~v~Cp~cgA~y~~~~------kG~lC~vC~l~  312 (325)
T 3mv2_A          258 SDAIPIDFDPYAKFDICAATYKPIYEDTPSVSDPLTGSKYVITE------KDKIDRIAMIS  312 (325)
T ss_dssp             CCSSCCSCCTTSCEEECTTTCCEEESSSCEEECTTTCCEEEGGG------TTSBCSSSSCB
T ss_pred             CCccccCCCCCCCceeecCCcccccCCCCCccCCCCCCeechhh------CCCCCCCCcCc
Confidence            1111111111112224555444332  2321  13444444332      46789999864

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.45  E-value=0.026  Score=46.40  Aligned_cols=77  Identities=13%  Similarity=0.022  Sum_probs=62.1

Q ss_pred             HHHHHHHHHHHHhcChHH---HHHHHHHHhccC-C-CCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHH
Q 011050           48 FDLVQKGNRAFRESNFEE---AISNYSRANNIK-P-GDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~---Ai~~y~~al~~~-p-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (494)
                      ...+..|..+.+..+...   +|..+...+..+ | ..-.+++.+|.+++++|+|                       .+
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            444556666666655554   999999998877 5 5668999999999999999                       99


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHH
Q 011050          123 ALKDAEKLLNLQSNSMKSHLLKANA  147 (494)
Q Consensus       123 a~~~~~~al~l~p~~~~a~~~~g~~  147 (494)
                      |.+.++.+++.+|+|.+|.-....+
T Consensus        93 A~~~~~~lL~~eP~n~QA~~Lk~~i  117 (126)
T 1nzn_A           93 ALKYVRGLLQTEPQNNQAKELERLI  117 (126)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            9999999999999998887555443

>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=95.35  E-value=0.054  Score=54.04  Aligned_cols=99  Identities=17%  Similarity=0.037  Sum_probs=79.3

Q ss_pred             HHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc----------------------ccccChhHHHHHHHhhhccCC
Q 011050           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----------------------IVLGNRSSAYIRISQFLKHRP  102 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~----------------------~~~~~~a~~~~~~~~~~~~~~  102 (494)
                      .....+...|......|+.+.|+..+.+|+.+-....                      .+...++.++...|++     
T Consensus       113 ~~f~~l~~~~~~~~~~~~~~~a~~~l~~Al~L~rG~~L~~~~~~~w~~~~r~~l~~~~~~a~~~~~~~~l~~g~~-----  187 (388)
T 2ff4_A          113 GRFVAEKTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRA-----  187 (388)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCH-----
T ss_pred             HHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHCCCH-----
Confidence            3356677788888888999999999999999842211                      2222345556667777     


Q ss_pred             CCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHcccc
Q 011050          103 PSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQ  166 (494)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~  166 (494)
                                        .+|+..+..++..+|-+-.+|..+..+|+..|+..+|++.|.++-+
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                              8999999999999999999999999999999999999999987643

>3mkr_B Coatomer subunit alpha; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=95.22  E-value=0.35  Score=46.13  Aligned_cols=183  Identities=16%  Similarity=0.124  Sum_probs=90.6

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc--------cc--ccChhHHHHH---HHhhhccCCCCCccccccC
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP--------IV--LGNRSSAYIR---ISQFLKHRPPSASEYRPLN  112 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~--------~~--~~~~a~~~~~---~~~~~~~~~~~~~~~~~~~  112 (494)
                      .....+..|..++..|+|++|+..|..+|..-|-..        .+  +...+.-|+-   +..-++..+..        
T Consensus       101 ~l~~~Lk~gyk~~t~gKf~eAl~~Fr~iL~~i~l~~v~~~~e~~e~~eli~icreYilal~iEl~Rr~l~~~--------  172 (320)
T 3mkr_B          101 DLIQRLQLCYQLTTVGKFEEAVEKFRSILLSVPLLVVDNKQEIAEAQQLITICREYIVGLSMETERKKLPKE--------  172 (320)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHGGGCCCCSHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCCC--------
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhhheeeccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccC--------
Confidence            345567899999999999999999999998755321        01  1111111111   00000000000        


Q ss_pred             CCCCchhHHHHHH--HHHHHhhccccchHHHHHHHH-HHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhhhh
Q 011050          113 GLDPTTHAELALK--DAEKLLNLQSNSMKSHLLKAN-ALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLI  189 (494)
Q Consensus       113 ~~~~~~~~~~a~~--~~~~al~l~p~~~~a~~~~g~-~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~  189 (494)
                        + .+.....++  .|=...++.|.+...-.+.|. ..++.++|.-|....++.|++.|..+.+..+.+.+...-.+..
T Consensus       173 --~-~~~~kR~lELAAYFT~c~Lqp~H~~LaLr~AM~~a~K~KNy~tAa~fArrLLel~p~~~~~~qArkil~~ce~~~~  249 (320)
T 3mkr_B          173 --T-LEQQKRICEMAAYFTHSNLQPVHMILVLRTALNLFFKLKNFRTAAAFARRLLELGPKPEVAQQTRKILSACEKNPT  249 (320)
T ss_dssp             --S-HHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTBHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHHHHSCC
T ss_pred             --C-chhHHHHHHHHHHhccCCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhcCCC
Confidence              0 011111111  122233455655444444444 3578999999999999999998875544433333322222111


Q ss_pred             ccccCCCCCCCccccccccccccc--CcEE--cCCCCcccHhhHHHhccCCCCCCCCCcc
Q 011050          190 GRRIHGTPERTDDFDCTLCLKLLY--EPIT--TPCGHSFCRSCLFQSMDRGNKCPLCRAV  245 (494)
Q Consensus       190 ~~~~~~~~~~~~~~~C~iC~~~~~--~Pv~--~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~  245 (494)
                      ..-........+-..|...+..+.  .|..  .=||-.|+...      .|..|++|...
T Consensus       250 da~eidyD~~~~f~iCa~s~tPIY~g~~~v~Cp~cgA~y~~~~------kG~lC~vC~l~  303 (320)
T 3mkr_B          250 DAYQLNYDMHNPFDICAASYRPIYRGKPVEKCPLSGACYSPEF------KGQICKVTTVT  303 (320)
T ss_dssp             BSSCCSCCTTSCCCBBTTTCCBCCTTSCCEECTTTCCEECGGG------TTSBCTTTSSB
T ss_pred             CccccCCCCCCccceecCCCccccCCCCCccCCCCCCeechhh------CCCCCCCCcCc
Confidence            111111111222234555555433  2211  13444444332      46789999864

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=94.68  E-value=0.012  Score=46.49  Aligned_cols=33  Identities=21%  Similarity=0.586  Sum_probs=27.7

Q ss_pred             ccccccccccc-ccCcEE--cCCCCcccHhhHHH-hc
Q 011050          201 DDFDCTLCLKL-LYEPIT--TPCGHSFCRSCLFQ-SM  233 (494)
Q Consensus       201 ~~~~C~iC~~~-~~~Pv~--~~cgh~fc~~Cl~~-~~  233 (494)
                      ++..|++|.+. +..|+.  +.|||+||..|+.. +.
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~~h~   38 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKATHP   38 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETTTTEEECHHHHHHHSC
T ss_pred             CCCCCcCCCCCCCCCceEECCcCChHHhHHHCHHHhc
Confidence            35789999964 778887  89999999999997 44

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=94.45  E-value=0.04  Score=45.51  Aligned_cols=76  Identities=8%  Similarity=0.052  Sum_probs=60.3

Q ss_pred             HHHHHHHHHHhc---ChHHHHHHHHHHhccCCC-CcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           50 LVQKGNRAFRES---NFEEAISNYSRANNIKPG-DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        50 ~~~~g~~~~~~~---~~~~Ai~~y~~al~~~p~-~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      .+.-|-.+.+..   +..++|..+...+..+|. .-..++.+|.+++++|+|                       .+|.+
T Consensus        43 ~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY-----------------------~~Ar~   99 (134)
T 3o48_A           43 RFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEY-----------------------SMAKR   99 (134)
T ss_dssp             HHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCH-----------------------HHHHH
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhH-----------------------HHHHH
Confidence            344455555443   445799999999988884 568899999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHH
Q 011050          126 DAEKLLNLQSNSMKSHLLKANAL  148 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~  148 (494)
                      .++.+++.+|+|.+|.-....+-
T Consensus       100 y~d~lL~~eP~N~QA~~Lk~~Ie  122 (134)
T 3o48_A          100 YVDTLFEHERNNKQVGALKSMVE  122 (134)
T ss_dssp             HHHHHHTTCTTCHHHHHHHHHHH
T ss_pred             HHHHHHhhCCCCHHHHHHHHHHH
Confidence            99999999999988875554443

>3nw0_A Non-structural maintenance of chromosomes element homolog; E3 ligase, Zn, metal binding protein; 2.92A {Homo sapiens}

Probab=94.08  E-value=0.036  Score=51.16  Aligned_cols=46  Identities=22%  Similarity=0.561  Sum_probs=37.6

Q ss_pred             cccccccccccccCcEE-cCCCCcccHhhHHHhccCC--CCCCCCCccc
Q 011050          201 DDFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRG--NKCPLCRAVL  246 (494)
Q Consensus       201 ~~~~C~iC~~~~~~Pv~-~~cgh~fc~~Cl~~~~~~~--~~CP~Cr~~~  246 (494)
                      ....|.+|.++....+. -.|+|.|+..|+..|+...  ..||.|+...
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            46789999998876543 4599999999999998753  4899999875

>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=94.05  E-value=0.12  Score=55.58  Aligned_cols=112  Identities=13%  Similarity=-0.014  Sum_probs=83.5

Q ss_pred             HHHHHHHHHHHhcChHHHHHHHHHHhcc-CCCCcccccChhHHHHHHHh-hhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           49 DLVQKGNRAFRESNFEEAISNYSRANNI-KPGDPIVLGNRSSAYIRISQ-FLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~-~p~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      .|...++...+.|+.+.|...|.+|++. .+....+|...|......++ +                       +.|...
T Consensus       436 vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~-----------------------e~Ar~i  492 (679)
T 4e6h_A          436 VYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDT-----------------------KTACKV  492 (679)
T ss_dssp             HHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCC-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCH-----------------------HHHHHH
Confidence            4555566666778999999999999988 44445566554444444433 5                       899999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCC---CchhHHHHHHHHh
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF---SNPLQASLQNLER  183 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~---~~~~~~~~~~~~~  183 (494)
                      ++.+++..|+.+..+...+......|+.+.|.+.|++|+...|+   ...++...-.++.
T Consensus       493 fe~~Lk~~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~  552 (679)
T 4e6h_A          493 LELGLKYFATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFES  552 (679)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH
Confidence            99999999999888777787778899999999999999999884   3344444444433

>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=93.47  E-value=0.15  Score=54.77  Aligned_cols=96  Identities=7%  Similarity=-0.037  Sum_probs=79.1

Q ss_pred             HHHHHHHHHHHhcChHHHH-HHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHH
Q 011050           49 DLVQKGNRAFRESNFEEAI-SNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (494)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai-~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (494)
                      -|+..|.-....|+.++|. ..|.+|+...|.+..+|...|......|++                       +.|...+
T Consensus       345 lW~~ya~~~~~~~~~~~a~r~il~rAi~~~P~s~~Lwl~~a~~ee~~~~~-----------------------e~aR~iy  401 (679)
T 4e6h_A          345 IWFNMANYQGEKNTDSTVITKYLKLGQQCIPNSAVLAFSLSEQYELNTKI-----------------------PEIETTI  401 (679)
T ss_dssp             HHHHHHHHHHHHSCCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHHH
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCCH-----------------------HHHHHHH
Confidence            3555666666778888997 999999999999999999999998888998                       8999999


Q ss_pred             HHHhhcc-----------cc-----------chHHHHHHHHHHHHHHHHHHHHHHHHccccC
Q 011050          128 EKLLNLQ-----------SN-----------SMKSHLLKANALILLERYDMARDAILSGLQV  167 (494)
Q Consensus       128 ~~al~l~-----------p~-----------~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l  167 (494)
                      ++++..-           |.           ....|...+......|..+.|.+.|.+|++.
T Consensus       402 ek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~  463 (679)
T 4e6h_A          402 LSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRL  463 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            9998752           42           4456777777777889999999999999887

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=93.36  E-value=0.31  Score=41.15  Aligned_cols=105  Identities=11%  Similarity=-0.036  Sum_probs=75.6

Q ss_pred             HHHHHHHHHHHHHhcCh------HHHHHHHHHHhccCCCCcc-cccChhHH------HHHHHhhhccCCCCCccccccCC
Q 011050           47 VFDLVQKGNRAFRESNF------EEAISNYSRANNIKPGDPI-VLGNRSSA------YIRISQFLKHRPPSASEYRPLNG  113 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~------~~Ai~~y~~al~~~p~~~~-~~~~~a~~------~~~~~~~~~~~~~~~~~~~~~~~  113 (494)
                      ...|+.-....-+.|+.      ++-+..|.+|+..-|-... .+...+..      +..+++.                
T Consensus        13 yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~~Pp~k~~~wrrYI~LWIrYA~~~ei~D~----------------   76 (161)
T 4h7y_A           13 PEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEALPPDKYGQNESFARIQVRFAELKAIQEP----------------   76 (161)
T ss_dssp             HHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHHSCGGGGTTCHHHHHHHHHHHHHHHHHCG----------------
T ss_pred             HHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHcCCccccccHHHHHHHHHHHHHHHHhcCH----------------
Confidence            45555555566666888      8888999999987665431 11111111      2233444                


Q ss_pred             CCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchh
Q 011050          114 LDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  174 (494)
Q Consensus       114 ~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~  174 (494)
                             +.|-+.|+.++.+...+++.|...|+--...|+..+|...+-+|+.+.|...+.
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                   888899999998888887777777776678999999999999999999987663

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=93.32  E-value=0.21  Score=41.73  Aligned_cols=77  Identities=8%  Similarity=0.055  Sum_probs=60.0

Q ss_pred             HHHHHHHHHHHHhcC---hHHHHHHHHHHhccCCC-CcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           48 FDLVQKGNRAFRESN---FEEAISNYSRANNIKPG-DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~---~~~Ai~~y~~al~~~p~-~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      ...++.|..+.+..+   -.++|..+...+..+|. .-..++.+|.+++++|+|                       .+|
T Consensus        40 ~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y-----------------------~~A   96 (144)
T 1y8m_A           40 QSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEY-----------------------SMA   96 (144)
T ss_dssp             HHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCH-----------------------HHH
T ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhH-----------------------HHH
Confidence            334455555555443   34799999999988884 558899999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHH
Q 011050          124 LKDAEKLLNLQSNSMKSHLLKANA  147 (494)
Q Consensus       124 ~~~~~~al~l~p~~~~a~~~~g~~  147 (494)
                      .+.++.+++.+|+|.+|.-....+
T Consensus        97 r~y~d~lL~~eP~n~QA~~Lk~~I  120 (144)
T 1y8m_A           97 KRYVDTLFEHERNNKQVGALKSMV  120 (144)
T ss_dssp             HHHHHHHHHTCCCCHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCcHHHHHHHHHH
Confidence            999999999999998876544333

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=93.03  E-value=0.13  Score=44.34  Aligned_cols=81  Identities=19%  Similarity=0.161  Sum_probs=58.3

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhcc---CCCC----------------------cccccChhHHHHHHHhhh
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNI---KPGD----------------------PIVLGNRSSAYIRISQFL   98 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~---~p~~----------------------~~~~~~~a~~~~~~~~~~   98 (494)
                      ...+..+.-.|+.+|.+++|.+|...|.+||+.   -++.                      .++.+..|.||.+++++ 
T Consensus        60 ~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~~~~~~~~ss~p~s~~~~~e~Elkykia~C~~~l~~~-  138 (167)
T 3ffl_A           60 PQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKVRPSTGNSASTPQSQCLPSEIEVKYKLAECYTVLKQD-  138 (167)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC--------------------CCCCHHHHHHHHHHHHHHTTCH-
T ss_pred             HHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCccccccccCCCcccccccchHHHHHHHHHHHHHHCCH-
Confidence            345677888999999999999999999999765   1211                      14668899999999999 


Q ss_pred             ccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHH
Q 011050           99 KHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANAL  148 (494)
Q Consensus        99 ~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~  148 (494)
                                            .+|+...+..-. .-..++....+|..|
T Consensus       139 ----------------------~~Ai~~Le~Ip~-k~Rt~kvnm~LakLy  165 (167)
T 3ffl_A          139 ----------------------KDAIAILDGIPS-RQRTPKINMLLANLY  165 (167)
T ss_dssp             ----------------------HHHHHHHHTSCG-GGCCHHHHHHHHHHC
T ss_pred             ----------------------HHHHHHHhcCCc-hhcCHHHHHHHHHHh
Confidence                                  999887655322 223455555555544

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=90.19  E-value=0.78  Score=42.70  Aligned_cols=64  Identities=16%  Similarity=0.121  Sum_probs=59.0

Q ss_pred             HHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhc
Q 011050           54 GNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNL  133 (494)
Q Consensus        54 g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l  133 (494)
                      ...+++.|+.++|+......++.+|.|+.....+...+.-.|+|                       +.|...++-+.++
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            45678999999999999999999999999999999999999999                       9999999999999


Q ss_pred             cccchHH
Q 011050          134 QSNSMKS  140 (494)
Q Consensus       134 ~p~~~~a  140 (494)
                      +|.....
T Consensus        61 ~p~~~~~   67 (273)
T 1zbp_A           61 FPEYLPG   67 (273)
T ss_dssp             CGGGHHH
T ss_pred             CchhhHH
Confidence            9987554

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=88.59  E-value=0.43  Score=51.43  Aligned_cols=45  Identities=33%  Similarity=0.183  Sum_probs=43.4

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccc
Q 011050          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGL  165 (494)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al  165 (494)
                      +.|++.+++|+.+.|.....|+.++.+|..+|+|+.|+-.++.+-
T Consensus       354 elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          354 ELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            999999999999999999999999999999999999999998874

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=86.16  E-value=3.4  Score=42.23  Aligned_cols=38  Identities=8%  Similarity=-0.146  Sum_probs=30.3

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccC
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGN   86 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~   86 (494)
                      .-|...+.-....|+.++|...|.+|+.. |.+..++..
T Consensus       214 ~lW~~ya~~~~~~~~~~~ar~i~erAi~~-P~~~~l~~~  251 (493)
T 2uy1_A          214 EVYFFYSEYLIGIGQKEKAKKVVERGIEM-SDGMFLSLY  251 (493)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CCSSHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhC-CCcHHHHHH
Confidence            34566666677889999999999999999 998766553

>2w2u_A Hypothetical P60 katanin; hydrolase transport complex, nucleotide-binding, ESCRT, AAA-ATPase, cytokinesis, ATP-binding; 2.20A {Sulfolobus acidocaldarius}

Probab=84.21  E-value=0.97  Score=34.04  Aligned_cols=37  Identities=27%  Similarity=0.222  Sum_probs=33.1

Q ss_pred             chhhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhcc
Q 011050           40 PWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNI   76 (494)
Q Consensus        40 ~~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~   76 (494)
                      +.+....|..+..+|...=+.|+|++|+.+|.+|++.
T Consensus        12 ~~~~~~~Ai~lv~~Ave~D~~g~y~eAl~lY~~aie~   48 (83)
T 2w2u_A           12 QVMLEEMARKYAINAVKADKEGNAEEAITNYKKAIEV   48 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            4567788999999999999999999999999999884

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=84.13  E-value=0.76  Score=49.53  Aligned_cols=49  Identities=12%  Similarity=0.087  Sum_probs=45.3

Q ss_pred             HHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhh
Q 011050           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF   97 (494)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~   97 (494)
                      -+..++.-+..+|+|+-|+..-.+|....|.+-..|+.+|.+|+.+|+|
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            3455777788999999999999999999999999999999999999999

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=83.95  E-value=5.4  Score=40.70  Aligned_cols=93  Identities=10%  Similarity=-0.135  Sum_probs=69.5

Q ss_pred             HHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHH-hhhccCCCCCccccccCCCCCchhHHHHHHHH
Q 011050           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRIS-QFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (494)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (494)
                      -|..-+....+.++.+.|...|.+| ...+....+|...|..-+..+ +.                       +.|...+
T Consensus       288 lw~~y~~~~~r~~~~~~AR~i~~~A-~~~~~~~~v~i~~A~lE~~~~~d~-----------------------~~ar~if  343 (493)
T 2uy1_A          288 LRINHLNYVLKKRGLELFRKLFIEL-GNEGVGPHVFIYCAFIEYYATGSR-----------------------ATPYNIF  343 (493)
T ss_dssp             HHHHHHHHHHHHHCHHHHHHHHHHH-TTSCCCHHHHHHHHHHHHHHHCCS-----------------------HHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHh-hCCCCChHHHHHHHHHHHHHCCCh-----------------------HHHHHHH
Confidence            3455555555678899999999999 433334455555555555555 36                       8999999


Q ss_pred             HHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccc
Q 011050          128 EKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGL  165 (494)
Q Consensus       128 ~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al  165 (494)
                      +.+++..|+.+..+...+......|+.+.|...|+++.
T Consensus       344 e~al~~~~~~~~~~~~yid~e~~~~~~~~aR~l~er~~  381 (493)
T 2uy1_A          344 SSGLLKHPDSTLLKEEFFLFLLRIGDEENARALFKRLE  381 (493)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC
T ss_pred             HHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            99999889888766666776778899999999999984

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=82.19  E-value=1.3  Score=41.21  Aligned_cols=60  Identities=12%  Similarity=0.126  Sum_probs=54.0

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHH
Q 011050          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (494)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~  180 (494)
                      ++|+......++.+|.+.+.-..+.+.|+..|+++.|...++.+.+++|........+..
T Consensus        14 ~~al~~~~~~VR~~P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~p~~~~~a~~yr~   73 (273)
T 1zbp_A           14 QQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRH   73 (273)
T ss_dssp             HHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhhHHHHHHHH
Confidence            899999999999999999999999999999999999999999999999988765444333

>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication, ring E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus; 2.60A {Saccharomyces cerevisiae}

Probab=80.84  E-value=0.99  Score=43.88  Aligned_cols=63  Identities=21%  Similarity=0.422  Sum_probs=44.2

Q ss_pred             CcccccccccccccCcEE-cCCCCcccHhh--HHHhc--cCCCCCCCCCcccccCCCCCcccccHHHHHH
Q 011050          200 TDDFDCTLCLKLLYEPIT-TPCGHSFCRSC--LFQSM--DRGNKCPLCRAVLFITPRTCAVSVTLNSIIQ  264 (494)
Q Consensus       200 ~~~~~C~iC~~~~~~Pv~-~~cgh~fc~~C--l~~~~--~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~  264 (494)
                      .-.+.||+....+..|+. ..|.|.-|.+-  +....  .....||+|...+.  +.++.++..+.+++.
T Consensus       247 ~vSL~CPlS~~ri~~PvRg~~C~HlQCFDl~sfL~~~~~~~~W~CPIC~k~~~--~~dL~ID~~~~~IL~  314 (371)
T 3i2d_A          247 IMSLQCPISYTRMKYPSKSINCKHLQCFDALWFLHSQLQIPTWQCPVCQIDIA--LENLAISEFVDDILQ  314 (371)
T ss_dssp             EEESBCTTTSSBCSSEEEETTCCSSCCEEHHHHHHHHHHSCCCBCTTTCCBCC--GGGEEEBHHHHHHHT
T ss_pred             EEeecCCCccccccccCcCCcCCCcceECHHHHHHHhhcCCceeCCCCCcccC--HHHeeEcHHHHHHHH
Confidence            456899999999999986 58999966554  22222  23568999998764  356666666665553

---

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	494
d1zboa1	197	b.122.1.10 (A:2-198) Hypothetical protein BPP1347	3e-16
d2anea1	110	b.122.1.10 (A:8-117) ATP-dependent protease La (Lo	1e-15
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	6e-13
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	1e-12
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	3e-12
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	4e-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	6e-10
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	2e-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,	8e-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,	0.004
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	1e-07
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	5e-07
d1elwa_	117	a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9	8e-06
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	1e-05
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	4e-05
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	7e-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	3e-04
d2fbna1	153	a.118.8.1 (A:22-174) Putative 70 kda peptidylproly	0.002
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	0.003
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

>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 = 75.0 bits (183), Expect = 3e-16
 Identities = 39/208 (18%), Positives = 59/208 (28%), Gaps = 23/208 (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 RRPSERLELLRIRDTRERIRRGLIFLRA 486
             P+++  LL +    +R+R     L A
Sbjct: 171 LPPADKARLLLL-PPLDRLREIDAVLAA 197

>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 = 70.5 bits (172), 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

>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 = 6e-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 = 60.3 bits (146), Expect = 1e-12
 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 = 60.9 bits (147), Expect = 3e-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 = 4e-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 = 6e-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 = 2e-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 = 53.9 bits (128), Expect = 2e-08
 Identities = 21/137 (15%), Positives = 41/137 (29%), Gaps = 11/137 (8%)

Query: 44  YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLK--HR 101
             H           + +   + AI  Y RA  ++P  P    N ++A        +    
Sbjct: 234 PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSVAEAEDC 293

Query: 102 PPSASEYRPLNGLDPTTHAEL---------ALKDAEKLLNLQSNSMKSHLLKANALILLE 152
             +A    P +       A +         A++   K L +      +H   A+ L    
Sbjct: 294 YNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQG 353

Query: 153 RYDMARDAILSGLQVDP 169
           +   A       +++ P
Sbjct: 354 KLQEALMHYKEAIRISP 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 = 45.4 bits (106), Expect = 8e-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 = 37.0 bits (84), Expect = 0.004
 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 = 51.9 bits (123), 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 = 48.3 bits (114), Expect = 1e-07
 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 = 44.8 bits (105), Expect = 5e-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 = 42.7 bits (99), Expect = 8e-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 = 40.5 bits (94), Expect = 1e-05
 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 = 4e-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 = 40.0 bits (92), Expect = 7e-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 = 40.9 bits (94), 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 = 3e-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 = 36.9 bits (84), Expect = 0.002
 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 = 34.1 bits (77), Expect = 0.003
 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 = 36.6 bits (84), 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	494
d1zboa1	197	Hypothetical protein BPP1347 {Bordetella parapertu	99.96
d2anea1	110	ATP-dependent protease La (Lon), N-terminal domain	99.79
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	99.77
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	99.72
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	99.71
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	99.69
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	99.66
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	99.66
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	99.66
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	99.6
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.5
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.49
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	99.49
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.44
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.41
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	99.4
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.38
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	99.37
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	99.36
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	99.34
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.3
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	99.29
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.27
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.21
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.2
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.2
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.14
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.14
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.14
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.13
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.11
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.08
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	99.06
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.03
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.93
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	98.92
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	98.92
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.9
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.85
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	98.84
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.83
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	98.81
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.78
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.77
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.77
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.77
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.69
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.66
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.62
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	98.53
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	98.51
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.5
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.46
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.44
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.42
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.42
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.4
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	98.17
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.12
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.12
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.11
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.03
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	97.99
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	97.86
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.68
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.59
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	97.56
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	97.52
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	97.47
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	97.41
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.1
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	96.65
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.28
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	95.02
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	93.24
d1wfda_	93	Hypothetical protein 1500032H18Rik {Mouse (Mus mus	81.39
d2crba1	83	Nuclear receptor binding factor 2, NRBF2, N-termin	80.3

>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=7.9e-29  Score=225.90  Aligned_cols=185  Identities=20%  Similarity=0.225  Sum_probs=148.1

Q ss_pred             ccccceee-eccCCCccCccccchhHHHHHHHHHhCCceEEEEEeCC--------CCCccccccceEEEEEeeecCCceE
Q 011050          288 LMPLFVMD-VVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDP--------TTGSVADFACEVEITECEPLPDGRF  358 (494)
Q Consensus       288 ~lPl~~l~-v~fP~~~~pl~i~~~~~~~~~~~~~~~~~~~~v~~~~~--------~~~~~~~iG~~~~I~~~~~~~dg~~  358 (494)
                      .+|+||++ |+|||+.+||+||+|+|+.|+++++++++.|++++...        ..+++|.+||+|+|.++...+||++
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 99999999999999999999999999999988877632        2346899999999999999999999


Q ss_pred             EEEEEeccceEEeeeec-CCCeeEEEEEEecCCCCCCcccHHhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHhhhh
Q 011050          359 VLEIESRRRFRILRSWD-QDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVE  437 (494)
Q Consensus       359 ~v~~~g~~R~~i~~~~~-~~~~~~a~ve~l~d~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  437 (494)
                      .|.++|.+||+|.++.. .++|+.|+++++++.....  ...++.++.+.+.+.+..+........          ....
T Consensus        82 ~i~v~G~~R~~i~~~~~~~~~~~~~~v~~~~~~~~~~--~~~~~~~l~~~l~~~~~~~~~~~~~~~----------~~~~  149 (197)
T d1zboa1          82 ELACTGTGRFRLHACTQGKYGLWTGQAEPVPDDAPLE--VPPELARSASALGRLIARLQREGVPPH----------IMPM  149 (197)
T ss_dssp             EEEEEEEEEEEEEEEEECGGGCEEEEEEEECCCCCCC--CCGGGHHHHHHHHHHHHHHHHTTCCTT----------TCSB
T ss_pred             eEeeeeccceeeeeeeeccCceEEEEEEeccccCCcc--CcHHHHHHHHHHHHHHHHHHHhcCCch----------hhhh
Confidence            99999999999999875 5689999999998754321  223445566666666555544322111          1111


Q ss_pred             cCCCCCCCcchhHHHHHhcCCCChHHHhhhccCCCHHHHHHHHHHHHH
Q 011050          438 VMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLR  485 (494)
Q Consensus       438 ~~~~~~~~~~~l~~~ia~~l~l~~~~kq~LLe~~d~~~Rl~~l~~~L~  485 (494)
                      ......+||++++|++|++++++.++||+|||+ |..+||+++..+|+
T Consensus       150 ~~~~~~~~~~~l~~~la~~l~l~~~~kQ~lLE~-~~~~RL~~l~~~L~  196 (197)
T d1zboa1         150 AAPFRLDDCGWVADRWAEMLSLPPADKARLLLL-PPLDRLREIDAVLA  196 (197)
T ss_dssp             CSCCCTTCHHHHHHHHHHHSCCCHHHHHHHHHS-CHHHHHHHHHHHHH
T ss_pred             hhhhccCCHHHHHHHHHHhCCCCHHHHHHHHCC-CHHHHHHHHHHHHc
Confidence            224567899999999999999999999999997 55699999999985

>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=99.79  E-value=1.8e-19  Score=147.17  Aligned_cols=100  Identities=20%  Similarity=0.266  Sum_probs=92.3

Q ss_pred             ccccceee--eccCCCccCccccchhHHHHHHHHHhCCceEEEEEeCC------CCCccccccceEEEEEeeecCCceEE
Q 011050          288 LMPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDP------TTGSVADFACEVEITECEPLPDGRFV  359 (494)
Q Consensus       288 ~lPl~~l~--v~fP~~~~pl~i~~~~~~~~~~~~~~~~~~~~v~~~~~------~~~~~~~iG~~~~I~~~~~~~dg~~~  359 (494)
                      .+|+||++  |+|||+.+||++++++|++|+++++++++.++++.+..      ..++++.+||+|+|.++...+||++.
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            48999996  99999999999999999999999999999998888743      22378999999999999999999999


Q ss_pred             EEEEeccceEEeeeecCCCeeEEEEEEe
Q 011050          360 LEIESRRRFRILRSWDQDGYRVAEIEWV  387 (494)
Q Consensus       360 v~~~g~~R~~i~~~~~~~~~~~a~ve~l  387 (494)
                      |.++|.+||+|.++.+++||+.|+|+++
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=99.77  E-value=5.8e-19  Score=145.89  Aligned_cols=115  Identities=31%  Similarity=0.482  Sum_probs=111.2

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      ++..++.+|+.+++.|+|++|+..|+++++.+|+++.+|.++|.+|..+|++                       .+|+.
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 011050          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  183 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~  183 (494)
                      .+.+++.++|+++.+|+++|.+|..+|++++|+..|+++++++|+++.+...+.+++.
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            9999999999999999999999999999999999999999999999999998888764

>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=144.64  Aligned_cols=126  Identities=17%  Similarity=0.249  Sum_probs=115.7

Q ss_pred             hhhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc----------------ccccChhHHHHHHHhhhccCCCC
Q 011050           41 WDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----------------IVLGNRSSAYIRISQFLKHRPPS  104 (494)
Q Consensus        41 ~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~----------------~~~~~~a~~~~~~~~~~~~~~~~  104 (494)
                      .+....+..+..+|+.+|+.|+|.+|+..|++|+...+...                .+|.|+|.||+++|+|       
T Consensus        11 ~e~~~~a~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~-------   83 (153)
T d2fbna1          11 EEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDY-------   83 (153)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCH-------
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhccc-------
Confidence            45677788999999999999999999999999998866543                4788999999999999       


Q ss_pred             CccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhh
Q 011050          105 ASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERT  184 (494)
Q Consensus       105 ~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~  184 (494)
                                      .+|+.++++++.++|++.++|+++|.+|..+|++++|+.+|.++++++|+|..+...+..+...
T Consensus        84 ----------------~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~k  147 (153)
T d2fbna1          84 ----------------PKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVNK  147 (153)
T ss_dssp             ----------------HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             ----------------chhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence                            9999999999999999999999999999999999999999999999999999999999888887


Q ss_pred             hhhhh
Q 011050          185 TASLI  189 (494)
Q Consensus       185 ~~~~~  189 (494)
                      +...+
T Consensus       148 l~~~~  152 (153)
T d2fbna1         148 LKEAR  152 (153)
T ss_dssp             HHHHH
T ss_pred             HHHHC
Confidence            76543

>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=99.71  E-value=1.1e-17  Score=145.88  Aligned_cols=121  Identities=25%  Similarity=0.400  Sum_probs=113.6

Q ss_pred             hhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHH
Q 011050           42 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE  121 (494)
Q Consensus        42 ~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (494)
                      .....+..+..+|+.+|+.|+|++|+.+|++|++++|+++.+|.++|.+|+.+|++                       .
T Consensus         5 ~~l~~a~~l~~~gn~~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~-----------------------~   61 (159)
T d1a17a_           5 GALKRAEELKTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECY-----------------------G   61 (159)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCH-----------------------H
T ss_pred             HHHHHHHHHHHHHHHHHHcCCHHHHHHHhhhccccchhhhhhhhhhHHHHHhcccc-----------------------c
Confidence            44577899999999999999999999999999999999999999999999999999                       9


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhh
Q 011050          122 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (494)
Q Consensus       122 ~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~  185 (494)
                      +|+..++++++++|++..+|+.+|.+|..+|++++|+..|+++++++|++..++..+..+...+
T Consensus        62 ~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~~eA~~~~~~a~~~~p~~~~~~~~l~~~~~~~  125 (159)
T d1a17a_          62 YALGDATRAIELDKKYIKGYYRRAASNMALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIV  125 (159)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHcccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999877776655443

>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=2e-17  Score=145.62  Aligned_cols=146  Identities=18%  Similarity=0.205  Sum_probs=128.2

Q ss_pred             eccCCCccceeccCCCCCchhhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhcc----------------CCCCccccc
Q 011050           22 GIDDVDDYIWANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNI----------------KPGDPIVLG   85 (494)
Q Consensus        22 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~----------------~p~~~~~~~   85 (494)
                      ++++..||+................+..+...|+.++..|+|.+|+..|++|+++                +|.+..+|.
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            4677788886655555445566677788899999999999999999999999864                455668899


Q ss_pred             ChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccc
Q 011050           86 NRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGL  165 (494)
Q Consensus        86 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al  165 (494)
                      |+|.+|.++|+|                       ++|+..+++|++++|+++.+|+++|.+|..+|++++|+.+|++++
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             cCCCCCchhHHHHHHHHhhhhhhhc
Q 011050          166 QVDPFSNPLQASLQNLERTTASLIG  190 (494)
Q Consensus       166 ~l~p~~~~~~~~~~~~~~~~~~~~~  190 (494)
                      +++|++..+...+..+.+.+.....
T Consensus       139 ~l~p~n~~~~~~l~~~~~~l~~~~~  163 (169)
T d1ihga1         139 EIAPEDKAIQAELLKVKQKIKAQKD  163 (169)
T ss_dssp             HHCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HhCCCCHHHHHHHHHHHHHHHHHHH
Confidence            9999999999998888877765543

>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=1e-16  Score=140.96  Aligned_cols=127  Identities=15%  Similarity=0.258  Sum_probs=115.1

Q ss_pred             chhhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc---------------ccccChhHHHHHHHhhhccCCCC
Q 011050           40 PWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---------------IVLGNRSSAYIRISQFLKHRPPS  104 (494)
Q Consensus        40 ~~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~---------------~~~~~~a~~~~~~~~~~~~~~~~  104 (494)
                      ..+....+..+.++|+.+|+.|+|.+|+..|++|+.+.|...               .+|.|+|.||+++++|       
T Consensus         8 ~~E~~~~a~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~-------   80 (168)
T d1kt1a1           8 TKEKLEQAAIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREY-------   80 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCH-------
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhc-------
Confidence            345667789999999999999999999999999998765543               5688999999999999       


Q ss_pred             CccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhh
Q 011050          105 ASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERT  184 (494)
Q Consensus       105 ~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~  184 (494)
                                      .+|+.+++++++++|++.++|+++|.+|..+|+|++|+.+|.++++++|+++.+...+..+...
T Consensus        81 ----------------~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~  144 (168)
T d1kt1a1          81 ----------------TKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQKK  144 (168)
T ss_dssp             ----------------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHH
T ss_pred             ----------------ccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence                            9999999999999999999999999999999999999999999999999999999888888777


Q ss_pred             hhhhh
Q 011050          185 TASLI  189 (494)
Q Consensus       185 ~~~~~  189 (494)
                      +....
T Consensus       145 ~~~~~  149 (168)
T d1kt1a1         145 AKEHN  149 (168)
T ss_dssp             HHHHH
T ss_pred             HHhHH
Confidence            65443

>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=99.66  E-value=1.2e-16  Score=140.84  Aligned_cols=126  Identities=17%  Similarity=0.262  Sum_probs=115.1

Q ss_pred             hhhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc---------------ccccChhHHHHHHHhhhccCCCCC
Q 011050           41 WDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---------------IVLGNRSSAYIRISQFLKHRPPSA  105 (494)
Q Consensus        41 ~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~---------------~~~~~~a~~~~~~~~~~~~~~~~~  105 (494)
                      .+....+..+..+|+.+|+.|+|++|+..|++|+.+.|...               .+|.|+|.||+++|+|        
T Consensus         7 ~ek~~~a~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~--------   78 (170)
T d1p5qa1           7 EEKLEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAF--------   78 (170)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCH--------
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhc--------
Confidence            45667788999999999999999999999999999988654               5677899999999999        


Q ss_pred             ccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhh
Q 011050          106 SEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (494)
Q Consensus       106 ~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~  185 (494)
                                     .+|+..+++++.++|+++.+|+++|.+|..+|+|++|+.+|+++++++|+|+.+...+..+...+
T Consensus        79 ---------------~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~  143 (170)
T d1p5qa1          79 ---------------SAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRI  143 (170)
T ss_dssp             ---------------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHH
T ss_pred             ---------------ccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence                           99999999999999999999999999999999999999999999999999999998888887666


Q ss_pred             hhhh
Q 011050          186 ASLI  189 (494)
Q Consensus       186 ~~~~  189 (494)
                      ....
T Consensus       144 ~~~~  147 (170)
T d1p5qa1         144 RRQL  147 (170)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5443

>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=99.66  E-value=2.6e-17  Score=148.15  Aligned_cols=104  Identities=27%  Similarity=0.400  Sum_probs=100.6

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      +..+++.|+.+|+.|+|++|+..|++|++++|+++.+|.++|.||.++|+|                       ++|+..
T Consensus         4 a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~~~~~~~~lg~~y~~~~~~-----------------------~~Ai~~   60 (201)
T d2c2la1           4 AQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQP-----------------------EQALAD   60 (201)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHhhhhhh-----------------------hhhhHH
Confidence            678999999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCch
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~  173 (494)
                      +++|++++|+++.+|+++|.+|..+|+|++|+..|++|++++|++..
T Consensus        61 ~~~al~l~p~~~~a~~~lg~~~~~l~~~~~A~~~~~~al~l~p~~~~  107 (201)
T d2c2la1          61 CRRALELDGQSVKAHFFLGQCQLEMESYDEAIANLQRAYSLAKEQRL  107 (201)
T ss_dssp             HHHHTTSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHH
Confidence            99999999999999999999999999999999999999999986553

>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=99.60  E-value=7.4e-16  Score=128.96  Aligned_cols=118  Identities=16%  Similarity=0.268  Sum_probs=103.9

Q ss_pred             HHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHH
Q 011050           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (494)
                      +.|..+++.|+.+|..|+|++|+.+|++|++++|+++.+|.++|.+|..+|+|                       ++|+
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            35788999999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchH-------HHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhh
Q 011050          125 KDAEKLLNLQSNSMK-------SHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  186 (494)
Q Consensus       125 ~~~~~al~l~p~~~~-------a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~  186 (494)
                      .+++++++++|.+..       +|+++|.++..++++++|+.+|.+++..+++ +++...+..+++.+.
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            999999999998764       6677788888889999999999999998875 455566666655543

>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=99.50  E-value=5.1e-15  Score=112.55  Aligned_cols=68  Identities=19%  Similarity=0.333  Sum_probs=59.9

Q ss_pred             CCCcccccccccccccCcEEcCCCCcccHhhHHHhcc-CCCCCCCCCcccccCCCCCcccccHHHHHHHhC
Q 011050          198 ERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD-RGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNF  267 (494)
Q Consensus       198 ~~~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~-~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~  267 (494)
                      +..+++.|+||+++|.+||+++|||+||+.||..|+. .+..||.||.++.  ..++.+|..|+++|++|.
T Consensus         3 eiP~~l~CpIc~~l~~dPv~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~--~~~l~pN~~L~~~I~~~l   71 (80)
T d2c2la2           3 DIPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLT--QEQLIPNLAMKEVIDAFI   71 (80)
T ss_dssp             CCCSTTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCC--GGGCEECHHHHHHHHHHH
T ss_pred             CCCccccCcCcCchhhhhcccCCcCeecHHHHHHHHhcCCccCCCcccccc--ccccccHHHHHHHHHHHH
Confidence            4568999999999999999999999999999999987 4567999999874  357889999999998864

>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=99.49  E-value=9.9e-15  Score=110.38  Aligned_cols=69  Identities=25%  Similarity=0.489  Sum_probs=60.8

Q ss_pred             CCCCcccccccccccccCcEEcCCCCcccHhhHHHhccC-CCCCCCCCcccccCCCCCcccccHHHHHHHhC
Q 011050          197 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR-GNKCPLCRAVLFITPRTCAVSVTLNSIIQKNF  267 (494)
Q Consensus       197 ~~~~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~-~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~  267 (494)
                      ....+++.|+||+++|.+||+++|||+||+.||..|+.. +..||.|+.++.  ...+.+|..|+++|++|.
T Consensus         3 peiP~~l~CpIc~~~m~dPV~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~--~~~l~pN~~L~~~I~~~~   72 (78)
T d1t1ha_           3 PEFPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLL--HAGLTPNYVLKSLIALWC   72 (78)
T ss_dssp             CCCSSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCS--SCCCEECTTTHHHHHHHH
T ss_pred             CCCCccCCCcCcCchhhCceEccCCCcchHHHHHHHHHHCCCCCCcccccCC--cccccchHHHHHHHHHHH
Confidence            356689999999999999999999999999999999975 457999999874  357889999999998874

>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=1.7e-14  Score=119.28  Aligned_cols=113  Identities=12%  Similarity=0.054  Sum_probs=102.6

Q ss_pred             HHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHH---HHhhhccCCCCCccccccCCCCCchhHHHHHHHHH
Q 011050           52 QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIR---ISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  128 (494)
Q Consensus        52 ~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  128 (494)
                      ..++.+...++|++|...|.+|+.++|.++.+++|+|.++++   .+++                       .+|+..++
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            467888999999999999999999999999999999999986   5667                       89999999


Q ss_pred             HHhhccccc--hHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhh
Q 011050          129 KLLNLQSNS--MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  187 (494)
Q Consensus       129 ~al~l~p~~--~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~  187 (494)
                      +++..+|..  ..+++.+|.+|..+|+|++|+.+|+++++++|++..+......+.+.+.+
T Consensus        61 ~~l~~~~~~~~~~~~~~Lg~~y~~~g~~~~A~~~~~~aL~~~P~~~~A~~l~~~I~~~~~k  121 (122)
T d1nzna_          61 ELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQTEPQNNQAKELERLIDKAMKK  121 (122)
T ss_dssp             HHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHhccCCchHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHHcC
Confidence            999998765  56999999999999999999999999999999999999888888776643

>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=99.44  E-value=9.5e-14  Score=129.27  Aligned_cols=113  Identities=22%  Similarity=0.161  Sum_probs=106.2

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      ...+..+..+|..+++.|+|++|+..|.+|++++|+++.+|.++|.+|..+|++                       ++|
T Consensus        34 ~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~-----------------------~~A   90 (259)
T d1xnfa_          34 DERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNF-----------------------DAA   90 (259)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCH-----------------------HHH
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHH-----------------------HHh
Confidence            446788999999999999999999999999999999999999999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHH
Q 011050          124 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQ  179 (494)
Q Consensus       124 ~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~  179 (494)
                      +..++++++++|+++.+|+.+|.+|..+|++++|++.|+++++++|.+......+.
T Consensus        91 ~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~  146 (259)
T d1xnfa_          91 YEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPNDPFRSLWLY  146 (259)
T ss_dssp             HHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             hhhhhHHHHHHhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhccccHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999876544443

>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=99.41  E-value=2.1e-13  Score=110.89  Aligned_cols=96  Identities=13%  Similarity=0.047  Sum_probs=91.5

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      ....+..|..+++.|++++|+..|++++..+|+++.+|.++|.++..++++                       .+|+..
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            344577899999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccc
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGL  165 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al  165 (494)
                      ++++++++|++..+++.+|.+|...|++++|++.+++.|
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

>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=99.40  E-value=1.4e-13  Score=117.47  Aligned_cols=121  Identities=17%  Similarity=0.141  Sum_probs=100.9

Q ss_pred             HHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhcc
Q 011050           55 NRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQ  134 (494)
Q Consensus        55 ~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~  134 (494)
                      ..+-+.+.|++|+..|.+|++++|+++.++.++|.++..++++..+    .         ......++|+..+++|++++
T Consensus         5 ~~~~r~~~fe~A~~~~e~al~~~P~~~~~~~~~g~~l~~~~~~~~~----~---------e~~~~~~~Ai~~~~kAl~l~   71 (145)
T d1zu2a1           5 TEFDRILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSI----S---------DAKQMIQEAITKFEEALLID   71 (145)
T ss_dssp             CSHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCH----H---------HHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHccHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHhhhhhhh----h---------HHHHHHHHHHHHHHHHHHhc
Confidence            3455678899999999999999999999999999999977665100    0         00112278999999999999


Q ss_pred             ccchHHHHHHHHHHHHHHH-----------HHHHHHHHHccccCCCCCchhHHHHHHHHhhhhhh
Q 011050          135 SNSMKSHLLKANALILLER-----------YDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  188 (494)
Q Consensus       135 p~~~~a~~~~g~~~~~~~~-----------~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~  188 (494)
                      |+++.+|+++|.+|..+|+           |++|++.|+++++++|++..++..+....++....
T Consensus        72 P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l~P~~~~~~~~L~~~~ka~~~~  136 (145)
T d1zu2a1          72 PKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSLEMTAKAPQLH  136 (145)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHTHHHHH
T ss_pred             chhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccccCCCHHHHHHHHHHHHHHHHHH
Confidence            9999999999999987664           79999999999999999999999988887766443

>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=99.38  E-value=8.6e-14  Score=111.12  Aligned_cols=65  Identities=28%  Similarity=0.831  Sum_probs=55.5

Q ss_pred             cccccccccccccCcEEcCCCCcccHhhHHHhccCC---CCCCCCCcccccCCCCCcccccHHHHHHHhC
Q 011050          201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRG---NKCPLCRAVLFITPRTCAVSVTLNSIIQKNF  267 (494)
Q Consensus       201 ~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~~---~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~  267 (494)
                      ..+.|+||++.+.+|++++|||+||..||..|+...   ..||.||.++.  +.++.+|..+.++++++.
T Consensus        20 ~~l~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~--~~~l~~n~~l~~~ve~l~   87 (103)
T d1jm7a_          20 KILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDIT--KRSLQESTRFSQLVEELL   87 (103)
T ss_dssp             HHTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCC--TTTCBCCCSSSHHHHHHH
T ss_pred             cCcCCCccCchhCCeEEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCC--hhhCCcCHHHHHHHHHHH
Confidence            367899999999999999999999999999998643   47999999874  367888888888887663

>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=99.37  E-value=3.1e-13  Score=106.27  Aligned_cols=71  Identities=18%  Similarity=0.248  Sum_probs=62.1

Q ss_pred             CCCCCCcccccccccccccCcEEcCCC-CcccHhhHHHhccCCCCCCCCCcccccCCCCCcccccHHHHHHHhC
Q 011050          195 GTPERTDDFDCTLCLKLLYEPITTPCG-HSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNF  267 (494)
Q Consensus       195 ~~~~~~~~~~C~iC~~~~~~Pv~~~cg-h~fc~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~  267 (494)
                      ......++|.||||..+|.+||+++|| |+||+.||..|+..+..||.||.++.  ..++.+|..|+++|+.|.
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            344567899999999999999999876 58999999999998889999999874  368899999999998764

>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=99.36  E-value=4.6e-13  Score=119.81  Aligned_cols=102  Identities=15%  Similarity=0.135  Sum_probs=94.2

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      .+..++.+|..++.+|+|++|+..|.++   .|.++.+|+|+|.+|+.+|+|                       ++|++
T Consensus         4 ~~~~l~~~g~~~~~~~d~~~Al~~~~~i---~~~~~~~~~nlG~~~~~~g~~-----------------------~~A~~   57 (192)
T d1hh8a_           4 EAISLWNEGVLAADKKDWKGALDAFSAV---QDPHSRICFNIGCMYTILKNM-----------------------TEAEK   57 (192)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHTS---SSCCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHhc---CCCCHHHHHHHHHHHHHcCCc-----------------------hhHHH
Confidence            4667889999999999999999999864   566788999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCch
Q 011050          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~  173 (494)
                      .+++|+++||+++.+|+.+|.+|..+|++++|+++|++|+...+.+..
T Consensus        58 ~~~kAl~ldp~~~~a~~~~g~~~~~~g~~~~A~~~~~kAl~~~~~n~~  105 (192)
T d1hh8a_          58 AFTRSINRDKHLAVAYFQRGMLYYQTEKYDLAIKDLKEALIQLRGNQL  105 (192)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCSE
T ss_pred             HHHHHHHHhhhhhhhHHHHHHHHHhhccHHHHHHHHHHHHHhCccCch
Confidence            999999999999999999999999999999999999999988776653

>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=99.34  E-value=3.2e-13  Score=116.57  Aligned_cols=108  Identities=19%  Similarity=0.160  Sum_probs=94.6

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc------------ccccChhHHHHHHHhhhccCCCCCcccccc
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP------------IVLGNRSSAYIRISQFLKHRPPSASEYRPL  111 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  111 (494)
                      ...+..++..|+.++..|+|++|+..|++|+++.|+.+            .+|.|+|.+|.++|+|              
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            34466777889999999999999999999999988754            5788999999999999              


Q ss_pred             CCCCCchhHHHHHHHHHHHhhcccc-----------chHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchh
Q 011050          112 NGLDPTTHAELALKDAEKLLNLQSN-----------SMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  174 (494)
Q Consensus       112 ~~~~~~~~~~~a~~~~~~al~l~p~-----------~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~  174 (494)
                               ++|+.++++++.+.|.           +..+|+++|.+|..+|++++|+.+|++|+++.|.....
T Consensus        72 ---------~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~~~~~~  136 (156)
T d2hr2a1          72 ---------DEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGE  136 (156)
T ss_dssp             ---------HHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSC
T ss_pred             ---------chhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHhhch
Confidence                     9999999999987643           45689999999999999999999999999998765543

>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=99.30  E-value=6e-13  Score=101.22  Aligned_cols=47  Identities=36%  Similarity=1.008  Sum_probs=42.6

Q ss_pred             cccccccccccccCcEEcCCCCcccHhhHHHhcc-CCCCCCCCCcccc
Q 011050          201 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD-RGNKCPLCRAVLF  247 (494)
Q Consensus       201 ~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~-~~~~CP~Cr~~~~  247 (494)
                      ..+.|+||++.+.+|++++|||+||+.||..|+. .+..||.||.++.
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            4578999999999999999999999999999986 4568999999874

>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=99.29  E-value=3.6e-12  Score=113.88  Aligned_cols=102  Identities=16%  Similarity=0.095  Sum_probs=94.2

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      +..+...|..++..|+|++|+.+|++|++++|+++.+|.++|.+|..+|+|                       ++|+.+
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            356889999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhcccc----------------chHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCC
Q 011050          127 AEKLLNLQSN----------------SMKSHLLKANALILLERYDMARDAILSGLQVDPFS  171 (494)
Q Consensus       127 ~~~al~l~p~----------------~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~  171 (494)
                      +++|+...+.                ..++++.+|.+|..+|++++|++.+.+|+++.|+.
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            9999976543                24789999999999999999999999999998874

>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=99.27  E-value=9.7e-13  Score=103.65  Aligned_cols=62  Identities=27%  Similarity=0.688  Sum_probs=53.2

Q ss_pred             cccccccccccccCcEEc-CCCCcccHhhHHHhccCCCCCCCCCcccccCCCCCcccccHHHHHHHh
Q 011050          201 DDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKN  266 (494)
Q Consensus       201 ~~~~C~iC~~~~~~Pv~~-~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~  266 (494)
                      ..+.|+||++.|.+|+++ +|||+||..||..|+.  ..||.||.++.  ..++.+|..+.++++.+
T Consensus        21 ~~l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~--~~~l~~n~~l~~lv~~~   83 (97)
T d1jm7b_          21 KLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAW--IQDLKINRQLDSMIQLC   83 (97)
T ss_dssp             HTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCS--CSSCCCCHHHHHHHHHH
T ss_pred             hcCCCccCCchhhcCceeCCCCCchhHHHHHHHHh--ccccccCCcCc--hhhCcccHHHHHHHHHH
Confidence            357899999999999985 8999999999999974  46999999874  36788999999998765

>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=99.21  E-value=8e-12  Score=120.56  Aligned_cols=118  Identities=10%  Similarity=-0.052  Sum_probs=106.1

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHh-hhccCCCCCccccccCCCCCchhHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQ-FLKHRPPSASEYRPLNGLDPTTHAELAL  124 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (494)
                      .+..+...|..+.+.+.+++|+..|++||+++|++..+|.+||.++..+++ +                       ++|+
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            345555678889999999999999999999999999999999999999875 8                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhh
Q 011050          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  186 (494)
Q Consensus       125 ~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~  186 (494)
                      ..++++++++|++..+|+.+|.++..+|++++|++.+.++++++|.+..++..+..+-..+.
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            99999999999999999999999999999999999999999999999988877766655543

>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=99.20  E-value=7.1e-12  Score=120.89  Aligned_cols=113  Identities=10%  Similarity=-0.009  Sum_probs=105.3

Q ss_pred             HHHHHHHHHHHHHHhc-ChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHH
Q 011050           46 HVFDLVQKGNRAFRES-NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~-~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (494)
                      .+..|..+|..+...| ++++|+..|.++++.+|++..+|.+||.++..+|++                       ++|+
T Consensus        76 ~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~~~l~~~-----------------------~eAl  132 (315)
T d2h6fa1          76 NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEWLRDP-----------------------SQEL  132 (315)
T ss_dssp             CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCC-----------------------TTHH
T ss_pred             ChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHHHhhccH-----------------------HHHH
Confidence            4567889999988866 699999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          125 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       125 ~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      ..++++++++|++..+|+.+|.++..+|++++|++.|+++++++|.+..++..+..+
T Consensus       133 ~~~~kal~~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~n~~a~~~r~~~  189 (315)
T d2h6fa1         133 EFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFV  189 (315)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHhhhhhhhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCccHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999887655444

>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=99.20  E-value=6.8e-12  Score=120.38  Aligned_cols=105  Identities=17%  Similarity=0.144  Sum_probs=97.4

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (494)
                      ..+...|..++..|++++|+..|.+++..+|+++.+|.++|.+|..+|++                       ++|+..+
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            44667889999999999999999999999999999999999999999999                       9999999


Q ss_pred             HHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhH
Q 011050          128 EKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  175 (494)
Q Consensus       128 ~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~  175 (494)
                      +++++++|+++.+|+.+|.+|..+|++++|+..|++|++++|++..+.
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            999999999999999999999999999999999999999999887643

>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=99.14  E-value=4.1e-12  Score=88.77  Aligned_cols=45  Identities=20%  Similarity=0.249  Sum_probs=41.4

Q ss_pred             cccccccccccCcEEc-CCCCcccHhhHHHhccCCCCCCCCCcccc
Q 011050          203 FDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDRGNKCPLCRAVLF  247 (494)
Q Consensus       203 ~~C~iC~~~~~~Pv~~-~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~  247 (494)
                      +.|+||++.+.+||.+ .|||+||+.||.+|+.....||.||.++.
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            4699999999999987 69999999999999998889999999874

>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=99.14  E-value=5.5e-12  Score=87.66  Aligned_cols=47  Identities=32%  Similarity=0.689  Sum_probs=40.6

Q ss_pred             CcccccccccccccCcEEcCCCCcccHhhHHHhccCCCCCCCCCcccccC
Q 011050          200 TDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFIT  249 (494)
Q Consensus       200 ~~~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~~~~  249 (494)
                      .+.+.|+||++.+.+|+.++|||+||..||..|   ...||.||..+...
T Consensus         4 ~~~l~C~IC~~~~~~p~~lpCgH~fC~~Ci~~~---~~~CP~Cr~~~~~~   50 (56)
T d1bora_           4 FQFLRCQQCQAEAKCPKLLPCLHTLCSGCLEAS---GMQCPICQAPWPLG   50 (56)
T ss_dssp             CCCSSCSSSCSSCBCCSCSTTSCCSBTTTCSSS---SSSCSSCCSSSSCC
T ss_pred             cCCCCCcccCcccCCCEEecCCCHHhHHHHHcC---CCcCcCCCCcccCC
Confidence            356799999999999999999999999998754   45799999988543

>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=99.14  E-value=2.6e-11  Score=117.57  Aligned_cols=131  Identities=16%  Similarity=0.093  Sum_probs=81.6

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCC-----------
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLD-----------  115 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------  115 (494)
                      ...+...|..++..|++++|+..|.++++++|+++.++.++|.++...|++.++..    .+..+....           
T Consensus       237 ~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~----~~~~~~~~~~~~~~~~~~l~  312 (388)
T d1w3ba_         237 AVVHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSVAEAED----CYNTALRLCPTHADSLNNLA  312 (388)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHHSCHHHHHH----HHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHH----HHHhhhccCCccchhhhHHH
Confidence            45566778888888888888888888888888888888888887777776611100    000000000           


Q ss_pred             ----CchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          116 ----PTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       116 ----~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                          .....++|+..++++++++|+++.+++.+|.+|..+|++++|+..|+++++++|++..++..+..+
T Consensus       313 ~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~lg~~  382 (388)
T d1w3ba_         313 NIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNT  382 (388)
T ss_dssp             HHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence                001115666666666666666666666666666666666666666666666666666655554443

>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=99.13  E-value=1.2e-11  Score=92.91  Aligned_cols=46  Identities=33%  Similarity=0.738  Sum_probs=41.4

Q ss_pred             ccccccccccccCcEEcCCCCcccHhhHHHhccC-CCCCCCCCcccc
Q 011050          202 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR-GNKCPLCRAVLF  247 (494)
Q Consensus       202 ~~~C~iC~~~~~~Pv~~~cgh~fc~~Cl~~~~~~-~~~CP~Cr~~~~  247 (494)
                      ...|+||++.+.+|+.++|||.||..||..|+.. +..||+||..+.
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            3469999999999999999999999999999974 567999999884

>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=99.11  E-value=5.3e-11  Score=114.00  Aligned_cols=104  Identities=15%  Similarity=0.115  Sum_probs=98.9

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (494)
                      ...+.+|..+++.|+|++|+..|.++++.+|+++.+|.++|.+|...|++                       ++|+..+
T Consensus        20 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~-----------------------~~A~~~~   76 (323)
T d1fcha_          20 PQPFEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQE-----------------------LLAISAL   76 (323)
T ss_dssp             SSHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCh-----------------------HHHHHHH
Confidence            33568999999999999999999999999999999999999999999999                       9999999


Q ss_pred             HHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchh
Q 011050          128 EKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  174 (494)
Q Consensus       128 ~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~  174 (494)
                      .++++++|++..+|+.+|.+|..+|++++|++.+.+++.++|.+...
T Consensus        77 ~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~  123 (323)
T d1fcha_          77 RRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHL  123 (323)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGG
T ss_pred             HhhhccccccccccccccccccccccccccccchhhHHHhccchHHH
Confidence            99999999999999999999999999999999999999999987654

>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=99.08  E-value=4.8e-11  Score=115.70  Aligned_cols=107  Identities=13%  Similarity=0.048  Sum_probs=100.4

Q ss_pred             HHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHH
Q 011050           51 VQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKL  130 (494)
Q Consensus        51 ~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a  130 (494)
                      ++.|+.+|+.|+|++|+..|.++++.+|+++.++..+|.+|..+|+|                       ++|+..++++
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 011050          131 LNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  180 (494)
Q Consensus       131 l~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~  180 (494)
                      ++++|+++.+++.+|.+|..+|++++|+..+..+++.+|.+.........
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            99999999999999999999999999999999999999988776554433

>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=99.06  E-value=9.3e-11  Score=91.76  Aligned_cols=82  Identities=18%  Similarity=0.114  Sum_probs=67.6

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc-------ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchh
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP-------IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH  119 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~-------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (494)
                      +.+++..|..+++.|+|.+|+..|.+|+++.|.+.       .+|.++|.++.++|++                      
T Consensus         5 addc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~----------------------   62 (95)
T d1tjca_           5 AEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDL----------------------   62 (95)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCH----------------------
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCCh----------------------
Confidence            57788999999999999999999999999876553       4677788888888888                      


Q ss_pred             HHHHHHHHHHHhhccccchHHHHHHHHHHHHH
Q 011050          120 AELALKDAEKLLNLQSNSMKSHLLKANALILL  151 (494)
Q Consensus       120 ~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~  151 (494)
                       ++|+..++++++++|+++.++.+++.....+
T Consensus        63 -~~A~~~y~~aL~l~P~~~~a~~Nl~~~~~~l   93 (95)
T d1tjca_          63 -DKALLLTKKLLELDPEHQRANGNLKYFEYIM   93 (95)
T ss_dssp             -HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             -HHHHHHHHHHHHhCcCCHHHHHHHHHHHHHh
Confidence             8888888888888888888887776665443

>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=99.03  E-value=3.1e-11  Score=88.00  Aligned_cols=44  Identities=30%  Similarity=0.767  Sum_probs=40.0

Q ss_pred             cccccccccccCcEE-cCCCCcccHhhHHHhccCCCCCCCCCccc
Q 011050          203 FDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (494)
Q Consensus       203 ~~C~iC~~~~~~Pv~-~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~  246 (494)
                      -.|+||++.+.+|+. ++|||+||..||..|+..+..||+||.++
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            459999999988855 79999999999999999888999999986

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.93  E-value=1.7e-09  Score=93.72  Aligned_cols=90  Identities=13%  Similarity=0.186  Sum_probs=82.6

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      .+..+..+|..+++.|+|++|+..|++|++++|+++.+|+++|.+|..+|+|                       ++|+.
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            3456677899999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHHHHHHHH
Q 011050          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMAR  158 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~  158 (494)
                      +++++++++|++..++..++.++.....+.++.
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            999999999999999999999987777776654

>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=98.92  E-value=3.1e-10  Score=78.44  Aligned_cols=46  Identities=33%  Similarity=0.767  Sum_probs=39.6

Q ss_pred             cccccccccccccCc---EEc-CCCCcccHhhHHHhccCCCCCCCCCccc
Q 011050          201 DDFDCTLCLKLLYEP---ITT-PCGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (494)
Q Consensus       201 ~~~~C~iC~~~~~~P---v~~-~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~  246 (494)
                      +...|+||++.+.+.   +.+ +|||.||..|+..|+.....||.||..+
T Consensus         4 d~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i   53 (55)
T d1iyma_           4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV   53 (55)
T ss_dssp             CSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCS
T ss_pred             CCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEe
Confidence            456799999988754   444 6999999999999999888999999875

>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=98.92  E-value=1.9e-10  Score=82.78  Aligned_cols=47  Identities=36%  Similarity=0.838  Sum_probs=37.9

Q ss_pred             ccccccccccccc-Cc----EEcCCCCcccHhhHHHhccC-CCCCCCCCcccc
Q 011050          201 DDFDCTLCLKLLY-EP----ITTPCGHSFCRSCLFQSMDR-GNKCPLCRAVLF  247 (494)
Q Consensus       201 ~~~~C~iC~~~~~-~P----v~~~cgh~fc~~Cl~~~~~~-~~~CP~Cr~~~~  247 (494)
                      ++..|+||++.+. .+    +.++|||+||..||..|+.. +..||.||.++.
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            5688999998643 22    45699999999999999865 457999999874

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=98.90  E-value=3e-10  Score=104.89  Aligned_cols=102  Identities=17%  Similarity=0.071  Sum_probs=88.7

Q ss_pred             cChHHHHHHHHHHhccC----CCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhcccc
Q 011050           61 SNFEEAISNYSRANNIK----PGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSN  136 (494)
Q Consensus        61 ~~~~~Ai~~y~~al~~~----p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~  136 (494)
                      .+++.|+..+.+++...    +..+.+|+++|.+|..+|+|                       ++|+..++++++++|+
T Consensus        13 ~~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~-----------------------~~A~~~~~~al~l~p~   69 (259)
T d1xnfa_          13 LQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLR-----------------------ALARNDFSQALAIRPD   69 (259)
T ss_dssp             HHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHCCC
T ss_pred             HHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCH-----------------------HHHHHHHHHhhccCCC
Confidence            45567888888888753    34567999999999999999                       9999999999999999


Q ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhh
Q 011050          137 SMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (494)
Q Consensus       137 ~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~  185 (494)
                      ++.+|+.+|.+|..+|++++|+..|+++++++|++..++..+..+-..+
T Consensus        70 ~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~  118 (259)
T d1xnfa_          70 MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYG  118 (259)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHT
T ss_pred             CHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhhhhhhHHHHHHHHHHH
Confidence            9999999999999999999999999999999999998876665544333

>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=98.85  E-value=1.8e-09  Score=87.71  Aligned_cols=80  Identities=14%  Similarity=0.116  Sum_probs=75.8

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      .+..+...|..++..|+|++|+..|.++++++|+++.+|.++|.++..+|+|                       ++|+.
T Consensus        36 ~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~-----------------------~~A~~   92 (117)
T d1elwa_          36 NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRF-----------------------EEAKR   92 (117)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             chhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCH-----------------------HHHHH
Confidence            3577889999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHH
Q 011050          126 DAEKLLNLQSNSMKSHLLKANAL  148 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~  148 (494)
                      .++++++++|+++.++..++.+.
T Consensus        93 ~~~~a~~~~p~~~~~~~~l~~l~  115 (117)
T d1elwa_          93 TYEEGLKHEANNPQLKEGLQNME  115 (117)
T ss_dssp             HHHHHHTTCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHh
Confidence            99999999999999998887764

>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=98.84  E-value=6.6e-10  Score=75.94  Aligned_cols=44  Identities=30%  Similarity=0.746  Sum_probs=36.4

Q ss_pred             cccccccccccCc----EEcCCCCcccHhhHHHhccCC-CCCCCCCccc
Q 011050          203 FDCTLCLKLLYEP----ITTPCGHSFCRSCLFQSMDRG-NKCPLCRAVL  246 (494)
Q Consensus       203 ~~C~iC~~~~~~P----v~~~cgh~fc~~Cl~~~~~~~-~~CP~Cr~~~  246 (494)
                      ++|+||++.+...    +.++|||.||..|+..|+..+ ..||.||.++
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            4799999987543    345899999999999999854 4699999976

>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=98.83  E-value=5.6e-09  Score=91.44  Aligned_cols=104  Identities=19%  Similarity=0.084  Sum_probs=94.2

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc----------------------ccccChhHHHHHHHhhhccC
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----------------------IVLGNRSSAYIRISQFLKHR  101 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~----------------------~~~~~~a~~~~~~~~~~~~~  101 (494)
                      ......+...|+.++..|++++|+..|++|+.+.+.+.                      .++.+++.++..+|++    
T Consensus         8 ~~~f~~~~~~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~----   83 (179)
T d2ff4a2           8 LGRFVAEKTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRA----   83 (179)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCH----
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCc----
Confidence            34467889999999999999999999999999977653                      4677889999999999    


Q ss_pred             CCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHcc-------ccCCCC
Q 011050          102 PPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSG-------LQVDPF  170 (494)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~a-------l~l~p~  170 (494)
                                         .+|+..++++++++|.+..+|..++.+|..+|++.+|+..|+++       +-++|.
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       556775

>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=98.81  E-value=1.6e-09  Score=84.43  Aligned_cols=80  Identities=14%  Similarity=-0.024  Sum_probs=72.6

Q ss_pred             ccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccc-------hHHHHHHHHHHHHHHHHHH
Q 011050           84 LGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNS-------MKSHLLKANALILLERYDM  156 (494)
Q Consensus        84 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~-------~~a~~~~g~~~~~~~~~~~  156 (494)
                      .+++|.++++.|+|                       .+|+..+++|+++.|.+       ..+|..+|.+|..+|++++
T Consensus         8 c~~lG~~~~~~g~y-----------------------~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~   64 (95)
T d1tjca_           8 SFELGKVAYTEADY-----------------------YHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDK   64 (95)
T ss_dssp             HHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHCCCH-----------------------HHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHH
Confidence            45788999999999                       99999999999987643       6789999999999999999


Q ss_pred             HHHHHHccccCCCCCchhHHHHHHHHhhhh
Q 011050          157 ARDAILSGLQVDPFSNPLQASLQNLERTTA  186 (494)
Q Consensus       157 A~~~~~~al~l~p~~~~~~~~~~~~~~~~~  186 (494)
                      |++.|+++++++|+++.+...+..+++.++
T Consensus        65 A~~~y~~aL~l~P~~~~a~~Nl~~~~~~l~   94 (95)
T d1tjca_          65 ALLLTKKLLELDPEHQRANGNLKYFEYIMA   94 (95)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCcCCHHHHHHHHHHHHHhC
Confidence            999999999999999999999988887765

>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=98.78  E-value=6.9e-09  Score=88.37  Aligned_cols=83  Identities=14%  Similarity=0.065  Sum_probs=77.0

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (494)
                      .-+...|..+++.|+|++|+..|++|++++|.+..+|+++|.+|..+|+|                       ++|+..+
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~-----------------------~~A~~~~  124 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFL-----------------------EEAKENL  124 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCH-----------------------HHHHHHH
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCH-----------------------HHHHHHH
Confidence            45567999999999999999999999999999999999999999999999                       9999999


Q ss_pred             HHHhhccccchHHHHHHHHHHHHHHH
Q 011050          128 EKLLNLQSNSMKSHLLKANALILLER  153 (494)
Q Consensus       128 ~~al~l~p~~~~a~~~~g~~~~~~~~  153 (494)
                      +++++++|++..+...++.+...+++
T Consensus       125 ~~al~l~P~n~~~~~~l~~~~~kl~~  150 (153)
T d2fbna1         125 YKAASLNPNNLDIRNSYELCVNKLKE  150 (153)
T ss_dssp             HHHHHHSTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCCHHHHHHHHHHHHHHHH
Confidence            99999999999999888888766554

>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=98.77  E-value=1e-08  Score=88.70  Aligned_cols=87  Identities=15%  Similarity=0.156  Sum_probs=80.2

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      +..+...|..+++.|+|.+|+.+|++++.++|++..+|+++|.+|..+|+|                       ++|+.+
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            344567899999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHHHH
Q 011050          127 AEKLLNLQSNSMKSHLLKANALILLERYDM  156 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~~~~~~~  156 (494)
                      +.++++++|++..++..++.+....+.+.+
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            999999999999999999999877776654

>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=98.77  E-value=1.1e-08  Score=88.64  Aligned_cols=88  Identities=20%  Similarity=0.215  Sum_probs=81.0

Q ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHH
Q 011050           48 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (494)
Q Consensus        48 ~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (494)
                      ..+...|..+++.|+|++|+..|++||.++|+++.+|+++|.+|..+|+|                       ++|+.++
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            34567899999999999999999999999999999999999999999999                       9999999


Q ss_pred             HHHhhccccchHHHHHHHHHHHHHHHHHHHH
Q 011050          128 EKLLNLQSNSMKSHLLKANALILLERYDMAR  158 (494)
Q Consensus       128 ~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~  158 (494)
                      +++++++|++..+...++.++...+++.+.-
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            9999999999999999999987777666543

>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=98.77  E-value=9.6e-09  Score=87.89  Aligned_cols=92  Identities=12%  Similarity=0.182  Sum_probs=82.4

Q ss_pred             HHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHH
Q 011050           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL  124 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  124 (494)
                      ..+..+...|..++..|++++|+..|.+|++++|++..+|.++|.++..+|+|                       ++|+
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            34678889999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHH--HHHHHHHHHHH
Q 011050          125 KDAEKLLNLQSNSMKSHLLKANAL--ILLERYDMARD  159 (494)
Q Consensus       125 ~~~~~al~l~p~~~~a~~~~g~~~--~~~~~~~~A~~  159 (494)
                      ..+++++.++|++..++..++.+.  ...+.+++|+.
T Consensus        99 ~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~~~a~~  135 (159)
T d1a17a_          99 RDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIA  135 (159)
T ss_dssp             HHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            999999999999999998888775  34455666654

>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=98.69  E-value=8.4e-09  Score=82.86  Aligned_cols=83  Identities=11%  Similarity=0.006  Sum_probs=74.7

Q ss_pred             ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHH
Q 011050           82 IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAI  161 (494)
Q Consensus        82 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~  161 (494)
                      ..++++|.++++.|++                       .+|+..+++++.++|+++.+|+.+|.+|..+|++++|+.+|
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            4556789999999999                       99999999999999999999999999999999999999999


Q ss_pred             HccccCCCCCchhHHHHHHHHhhhhh
Q 011050          162 LSGLQVDPFSNPLQASLQNLERTTAS  187 (494)
Q Consensus       162 ~~al~l~p~~~~~~~~~~~~~~~~~~  187 (494)
                      +++++++|++..++..+..+-...+.
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

>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=98.66  E-value=9.2e-09  Score=90.84  Aligned_cols=97  Identities=6%  Similarity=0.012  Sum_probs=82.7

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      .+..+...|..+++.|+|++|+..|.+|++++|++..+|.++|.+|..+|+|                       ++|+.
T Consensus        37 ~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg~~~~~l~~~-----------------------~~A~~   93 (201)
T d2c2la1          37 VAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQLEMESY-----------------------DEAIA   93 (201)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             CHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHHHHHHHCCCH-----------------------HHHHH
Confidence            4677889999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccc
Q 011050          126 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGL  165 (494)
Q Consensus       126 ~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al  165 (494)
                      .+++|++++|++...+...+..+...++...+........
T Consensus        94 ~~~~al~l~p~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~  133 (201)
T d2c2la1          94 NLQRAYSLAKEQRLNFGDDIPSALRIAKKKRWNSIEERRI  133 (201)
T ss_dssp             HHHHHHHHHHHTTCCCCSHHHHHHHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHhCcccHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence            9999999999877666666666666666666555555443

>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=98.62  E-value=3.9e-08  Score=82.74  Aligned_cols=103  Identities=16%  Similarity=0.106  Sum_probs=78.9

Q ss_pred             HHHHHHHHHHHHHHHH----------hcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCC
Q 011050           44 YTHVFDLVQKGNRAFR----------ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNG  113 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~----------~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  113 (494)
                      +..+..+...|..++.          .+.+++|+..|.+|++++|+++.+|+++|.+|..+|++.    .....      
T Consensus        28 P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~~~g~~~----~~~~~------   97 (145)
T d1zu2a1          28 PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFLT----PDETE------   97 (145)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHC----CCHHH------
T ss_pred             CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcchhhHHHhhHHHHHHHcccch----hhHHH------
Confidence            3446677778887764          456689999999999999999999999999999987640    00000      


Q ss_pred             CCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHH
Q 011050          114 LDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMAR  158 (494)
Q Consensus       114 ~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~  158 (494)
                        -.....+|++.+++|++++|++..++..++.+....+.+.++.
T Consensus        98 --~~~~~~~A~~~~~kal~l~P~~~~~~~~L~~~~ka~~~~~e~~  140 (145)
T d1zu2a1          98 --AKHNFDLATQFFQQAVDEQPDNTHYLKSLEMTAKAPQLHAEAY  140 (145)
T ss_dssp             --HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHTHHHHHHHHH
T ss_pred             --HHHhHHHhhhhhhcccccCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence              0011288999999999999999999988888887777776653

>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=98.53  E-value=2.5e-08  Score=76.15  Aligned_cols=45  Identities=20%  Similarity=0.470  Sum_probs=36.8

Q ss_pred             ccccccccccccC------------------cEEcCCCCcccHhhHHHhccCCCCCCCCCccc
Q 011050          202 DFDCTLCLKLLYE------------------PITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL  246 (494)
Q Consensus       202 ~~~C~iC~~~~~~------------------Pv~~~cgh~fc~~Cl~~~~~~~~~CP~Cr~~~  246 (494)
                      .-.|+||.+.+.+                  ++.++|||.||..||..|+.....||+||++.
T Consensus        21 ~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~   83 (88)
T d3dplr1          21 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREW   83 (88)
T ss_dssp             SCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBC
T ss_pred             CCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCCCCCCcc
Confidence            3458888766654                  24469999999999999999888999999976

>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=98.51  E-value=2.1e-08  Score=80.72  Aligned_cols=46  Identities=30%  Similarity=0.735  Sum_probs=36.9

Q ss_pred             cccccccccccccCc------------------EEcCCCCcccHhhHHHhccCC-----CCCCCCCccc
Q 011050          201 DDFDCTLCLKLLYEP------------------ITTPCGHSFCRSCLFQSMDRG-----NKCPLCRAVL  246 (494)
Q Consensus       201 ~~~~C~iC~~~~~~P------------------v~~~cgh~fc~~Cl~~~~~~~-----~~CP~Cr~~~  246 (494)
                      .+..|+||++.|..+                  ..++|||.||..||..|+...     ..||+||..+
T Consensus        24 ~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~   92 (114)
T d1v87a_          24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIY   92 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBS
T ss_pred             ccccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchh
Confidence            355799999987643                  346999999999999998632     3699999876

>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=98.50  E-value=2.9e-08  Score=81.61  Aligned_cols=73  Identities=15%  Similarity=0.130  Sum_probs=66.7

Q ss_pred             ccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHc
Q 011050           84 LGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILS  163 (494)
Q Consensus        84 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~  163 (494)
                      +-++|.+++..|+|                       ++|+..++++++++|+++.+++.+|.+|..+|+|++|+.++++
T Consensus         7 ~k~~G~~~~~~~~y-----------------------~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~   63 (128)
T d1elra_           7 EKELGNDAYKKKDF-----------------------DTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEK   63 (128)
T ss_dssp             HHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCH-----------------------HHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHHHH
Confidence            44688999999999                       9999999999999999999999999999999999999999999


Q ss_pred             cccCCCCCchhHHHHH
Q 011050          164 GLQVDPFSNPLQASLQ  179 (494)
Q Consensus       164 al~l~p~~~~~~~~~~  179 (494)
                      +++++|.+...+..+.
T Consensus        64 al~l~~~~~~~~~~~a   79 (128)
T d1elra_          64 AIEVGRENREDYRQIA   79 (128)
T ss_dssp             HHHHHHHSTTCHHHHH
T ss_pred             HHHhCcccHHHHHHHH
Confidence            9999998876554433

>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=98.46  E-value=3.1e-08  Score=100.99  Aligned_cols=63  Identities=10%  Similarity=-0.214  Sum_probs=58.3

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHh
Q 011050          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  183 (494)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~  183 (494)
                      ++|+..|.+|++++|++..+|+.+|.++...|++.+|+.+|.+|+.++|.++.+...+..+-+
T Consensus       169 ~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~~~~~a~~nL~~~~~  231 (497)
T d1ya0a1         169 SQAESYYRHAAQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKFPFPAASTNLQKALS  231 (497)
T ss_dssp             HHHHHHHHHHHHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999888777665443

>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=98.44  E-value=7.5e-08  Score=78.42  Aligned_cols=84  Identities=12%  Similarity=0.031  Sum_probs=72.5

Q ss_pred             HHHHHHHHHHHHHH---hcChHHHHHHHHHHhccCCCC--cccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhH
Q 011050           46 HVFDLVQKGNRAFR---ESNFEEAISNYSRANNIKPGD--PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA  120 (494)
Q Consensus        46 ~~~~~~~~g~~~~~---~~~~~~Ai~~y~~al~~~p~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (494)
                      ....++..|..+++   .+++++|+..|.+++..+|++  ..+|+++|.+|+.+|+|                       
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            34667788888876   456778999999999998865  45899999999999999                       


Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHH
Q 011050          121 ELALKDAEKLLNLQSNSMKSHLLKANALILLE  152 (494)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~a~~~~g~~~~~~~  152 (494)
                      ++|++.++++++++|++..|...++.+...++
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            99999999999999999999988888776554

>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=98.42  E-value=1.8e-07  Score=89.55  Aligned_cols=103  Identities=14%  Similarity=-0.037  Sum_probs=94.3

Q ss_pred             HHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhh
Q 011050           53 KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLN  132 (494)
Q Consensus        53 ~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~  132 (494)
                      ....+...+.+..|+..|.+++..+|.+..++.+++.++...+++                       .+|+..+.+++.
T Consensus       214 ~~~~~~~l~~~~~a~~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~-----------------------~~a~~~~~~~~~  270 (334)
T d1dcea1         214 LVQNAFFTDPNDQSAWFYHRWLLGRAEPLFRCELSVEKSTVLQSE-----------------------LESCKELQELEP  270 (334)
T ss_dssp             HHHHHHHHCSSCSHHHHHHHHHHSCCCCSSSCCCCHHHHHHHHHH-----------------------HHHHHHHHHHCT
T ss_pred             HHHHHHHhcchhHHHHHHHHHHHhCcchhhHHHHHHHHHHHHhhH-----------------------HHHHHHHHHHHh
Confidence            344455667777899999999999999999999999999999999                       999999999999


Q ss_pred             ccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHH
Q 011050          133 LQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASL  178 (494)
Q Consensus       133 l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~  178 (494)
                      .+|++..+++.+|.+|..+|++++|+++|++++++||+++..+..+
T Consensus       271 ~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~~y~~~L  316 (334)
T d1dcea1         271 ENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDL  316 (334)
T ss_dssp             TCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHHHH
T ss_pred             hCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcccHHHHHHH
Confidence            9999999999999999999999999999999999999988776655

>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=98.42  E-value=1.2e-07  Score=90.75  Aligned_cols=115  Identities=7%  Similarity=-0.079  Sum_probs=100.2

Q ss_pred             HHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHh--hhccCCCCCccccccCCCCCchhHHHHHHHHHH
Q 011050           52 QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQ--FLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  129 (494)
Q Consensus        52 ~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  129 (494)
                      ..+..+...|.+.+|+..|+++++.+|+++.+|.++|.++..+++  +                       .+|+..+.+
T Consensus        78 ~~~~~~~~~~~~~~al~~~~~~l~~~pk~~~~~~~~~~~~~~~~~~~~-----------------------~~a~~~~~~  134 (334)
T d1dcea1          78 TEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNW-----------------------ARELELCAR  134 (334)
T ss_dssp             TTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCSSCCH-----------------------HHHHHHHHH
T ss_pred             hhcchHHHHHHHHHHHHHHHHHHHhCCCcHHHHHHhhHHHHHhccccH-----------------------HHHHHHHHH
Confidence            345556677789999999999999999999999999999988775  5                       899999999


Q ss_pred             HhhccccchHHH-HHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhhhh
Q 011050          130 LLNLQSNSMKSH-LLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLI  189 (494)
Q Consensus       130 al~l~p~~~~a~-~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~  189 (494)
                      +++++|.+..++ +..|.++...+++++|+..++++++++|++..++..+..+-..+....
T Consensus       135 al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~  195 (334)
T d1dcea1         135 FLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQP  195 (334)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCC
T ss_pred             HHhhCchhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCHH
Confidence            999999998886 467889999999999999999999999999999888877766665443

>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=98.40  E-value=1.3e-07  Score=87.80  Aligned_cols=93  Identities=11%  Similarity=0.031  Sum_probs=85.4

Q ss_pred             HHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhh
Q 011050           53 KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLN  132 (494)
Q Consensus        53 ~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~  132 (494)
                      ++..+++.|++++|+..|.++++.+|+++.++.+++.+|...|++                       ++|+..++++++
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            467889999999999999999999999999999999999999999                       999999999999


Q ss_pred             ccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCC
Q 011050          133 LQSNSMKSHLLKANALILLERYDMARDAILSGLQVD  168 (494)
Q Consensus       133 l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~  168 (494)
                      ++|++..++..++.++...+..+++...+.+...+.
T Consensus        59 l~P~~~~~~~~l~~ll~a~~~~~~a~~~~~~~~~~~   94 (264)
T d1zbpa1          59 LFPEYLPGASQLRHLVKAAQARKDFAQGAATAKVLG   94 (264)
T ss_dssp             HCGGGHHHHHHHHHHHHHHHHHHHHTTSCCCEECCC
T ss_pred             hCCCcHHHHHHHHHHHHhccccHHHHHHhhhhhccc
Confidence            999999999999999999998888877766655443

>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=98.17  E-value=1.7e-06  Score=69.34  Aligned_cols=67  Identities=12%  Similarity=0.076  Sum_probs=61.9

Q ss_pred             HHHHHHHHHHhhccccc-hHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhhhh
Q 011050          121 ELALKDAEKLLNLQSNS-MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  187 (494)
Q Consensus       121 ~~a~~~~~~al~l~p~~-~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~  187 (494)
                      .+|+..++.++..+|.. ..++|.+|.+|+.+|+|++|+.+++++|+++|+|..+....+.+++++..
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            89999999999999876 47999999999999999999999999999999999999988888887754

>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=98.12  E-value=1.3e-06  Score=81.89  Aligned_cols=106  Identities=14%  Similarity=-0.054  Sum_probs=78.2

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC------cccccChhHHHHH-HHhhhccCCCCCccccccCCCCCchh
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD------PIVLGNRSSAYIR-ISQFLKHRPPSASEYRPLNGLDPTTH  119 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~------~~~~~~~a~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (494)
                      +..+...|+.+.+.|++++|+..|.+++++.+..      ..++.++|.+|.. ++++                      
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            4455666777777777777777777777665443      2445555555543 4666                      


Q ss_pred             HHHHHHHHHHHhhcccc------chHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhH
Q 011050          120 AELALKDAEKLLNLQSN------SMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  175 (494)
Q Consensus       120 ~~~a~~~~~~al~l~p~------~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~  175 (494)
                       ++|+..+.+|+++.+.      ...++..+|.+|..+|+|++|+..|.+++...+.+....
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             9999999999987532      356788999999999999999999999999998876543

>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=98.12  E-value=6.8e-07  Score=62.57  Aligned_cols=47  Identities=28%  Similarity=0.484  Sum_probs=38.8

Q ss_pred             CcccccccccccccCcEEcCC-----CCcccHhhHHHhcc--CCCCCCCCCccc
Q 011050          200 TDDFDCTLCLKLLYEPITTPC-----GHSFCRSCLFQSMD--RGNKCPLCRAVL  246 (494)
Q Consensus       200 ~~~~~C~iC~~~~~~Pv~~~c-----gh~fc~~Cl~~~~~--~~~~CP~Cr~~~  246 (494)
                      .+...|.||++.+.++...+|     +|.||..||..|+.  ....||+||++.
T Consensus         4 ed~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~   57 (60)
T d1vyxa_           4 EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVY   57 (60)
T ss_dssp             CSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             CCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCee
Confidence            356789999998888876665     59999999999985  345799999875

>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=98.11  E-value=6.7e-07  Score=83.92  Aligned_cols=105  Identities=10%  Similarity=-0.060  Sum_probs=88.3

Q ss_pred             hHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCC------CCcccccChhHHHHHHHhhhccCCCCCccccccCCCCC
Q 011050           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKP------GDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDP  116 (494)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  116 (494)
                      ....+..+...|+.+...|+|++|+..|.+|+++..      ....+|.+.|.+|.++|++                   
T Consensus        33 ~~~Aa~~y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~-------------------   93 (290)
T d1qqea_          33 FEEAADLCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNS-------------------   93 (290)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH-------------------
T ss_pred             HHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCc-------------------
Confidence            344455677888999999999999999999999732      2347899999999999999                   


Q ss_pred             chhHHHHHHHHHHHhhccccc------hHHHHHHHHHHHH-HHHHHHHHHHHHccccCCCC
Q 011050          117 TTHAELALKDAEKLLNLQSNS------MKSHLLKANALIL-LERYDMARDAILSGLQVDPF  170 (494)
Q Consensus       117 ~~~~~~a~~~~~~al~l~p~~------~~a~~~~g~~~~~-~~~~~~A~~~~~~al~l~p~  170 (494)
                          ++|+..+++++++.+..      ..++..+|.+|.. .|++++|+..|.+|+++.+.
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                99999999999987654      5678899998854 69999999999999988653

>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=98.03  E-value=7.7e-07  Score=90.32  Aligned_cols=105  Identities=7%  Similarity=-0.031  Sum_probs=62.6

Q ss_pred             HHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccc
Q 011050           56 RAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQS  135 (494)
Q Consensus        56 ~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p  135 (494)
                      .....+.|+.|+..|.+++.++|.+...+.++|..+.+.+++                       .+|+..+.++++++|
T Consensus        95 l~~a~~~Y~~ai~~l~~~~~l~~~~~~~~~~lg~~~~~~~~~-----------------------~~A~~~~~~al~~~~  151 (497)
T d1ya0a1          95 LEAASGFYTQLLQELCTVFNVDLPCRVKSSQLGIISNKQTHT-----------------------SAIVKPQSSSCSYIC  151 (497)
T ss_dssp             HHHHHHHHHHHHHHHTC------------------------------------------------------CCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHCCChhhHHHHHHhHHHHHhCCCH-----------------------HHHHHHHHHHhCCCH
Confidence            334567788999999999999999999999999999999999                       999999999998876


Q ss_pred             cchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhHHHHHHHHhhh
Q 011050          136 NSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  185 (494)
Q Consensus       136 ~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~  185 (494)
                      .  .+++.+|.++...++|++|+.+|.+|++++|++...+..+..+-...
T Consensus       152 ~--~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~~  199 (497)
T d1ya0a1         152 Q--HCLVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILASSK  199 (497)
T ss_dssp             H--HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHHHT
T ss_pred             H--HHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHc
Confidence            4  68999999999999999999999999999999998887776654333

>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=97.99  E-value=6e-06  Score=77.53  Aligned_cols=101  Identities=12%  Similarity=-0.002  Sum_probs=88.4

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc-----ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP-----IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA  120 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (494)
                      .+.....+|..++..|++++|+..|++|++..|.+.     .++.++|.+|...|++                       
T Consensus        11 ~ae~~~lrA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~-----------------------   67 (366)
T d1hz4a_          11 HAEFNALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGEL-----------------------   67 (366)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCH-----------------------
T ss_pred             hHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCH-----------------------
Confidence            456666789999999999999999999999999874     5788899999999999                       


Q ss_pred             HHHHHHHHHHhhcccc------chHHHHHHHHHHHHHHHHHHHHHHHHccccCCC
Q 011050          121 ELALKDAEKLLNLQSN------SMKSHLLKANALILLERYDMARDAILSGLQVDP  169 (494)
Q Consensus       121 ~~a~~~~~~al~l~p~------~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p  169 (494)
                      ++|+..+++++++.+.      ...+++.+|.++...|++..|...+.+++.+.+
T Consensus        68 ~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~  122 (366)
T d1hz4a_          68 TRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLIN  122 (366)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence            9999999999987643      346788899999999999999999999987643

>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=97.86  E-value=1.1e-05  Score=75.53  Aligned_cols=101  Identities=17%  Similarity=0.007  Sum_probs=87.8

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCc----ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL  122 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (494)
                      +..+...|..+...|++++|...|.+++...|.+.    ..+.++|.++...|++                       ++
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            44566788889999999999999999999988765    3455689999999999                       99


Q ss_pred             HHHHHHHHh------hccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCC
Q 011050          123 ALKDAEKLL------NLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF  170 (494)
Q Consensus       123 a~~~~~~al------~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~  170 (494)
                      |+..+++++      ...|....+++.+|.+|..+|++++|++.|++|+++.+.
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            999999987      456778899999999999999999999999999987653

>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=97.68  E-value=8.3e-06  Score=75.22  Aligned_cols=109  Identities=9%  Similarity=-0.044  Sum_probs=93.2

Q ss_pred             HHHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           44 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        44 ~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      +.++..+...|..+...|++++|+..|+++++++|++..++.+++.++...+..                       .++
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            445678889999999999999999999999999999999999998888877777                       666


Q ss_pred             HHHHHHH-hhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCchhH
Q 011050          124 LKDAEKL-LNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  175 (494)
Q Consensus       124 ~~~~~~a-l~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~~~  175 (494)
                      .....+. +..+|....+++..+.++...|++++|.+.+.++.++.|+.....
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~~~~  136 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGFLA  136 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCEEE
T ss_pred             HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCCccc
Confidence            5554443 334677888899999999999999999999999999999887653

>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=97.59  E-value=1.1e-05  Score=67.90  Aligned_cols=71  Identities=13%  Similarity=0.062  Sum_probs=61.6

Q ss_pred             HHHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCC-----------cccccChhHHHHHHHhhhccCCCCCccccccCC
Q 011050           45 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD-----------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNG  113 (494)
Q Consensus        45 ~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~-----------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  113 (494)
                      ..+..+...|..+.+.|+|++|+..|++++.+.|..           ..+|+++|.+|..+|++                
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            346678899999999999999999999999875532           24789999999999999                


Q ss_pred             CCCchhHHHHHHHHHHHhhccccch
Q 011050          114 LDPTTHAELALKDAEKLLNLQSNSM  138 (494)
Q Consensus       114 ~~~~~~~~~a~~~~~~al~l~p~~~  138 (494)
                             ++|+..+++|+++.|...
T Consensus       117 -------eeA~~~~~~Al~l~~~~~  134 (156)
T d2hr2a1         117 -------AEAMPEFKKVVEMIEERK  134 (156)
T ss_dssp             -------HHHHHHHHHHHHHHHHCC
T ss_pred             -------HHHHHHHHHHHHhhHHhh
Confidence                   999999999999987553

>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=97.56  E-value=6.4e-05  Score=59.86  Aligned_cols=78  Identities=8%  Similarity=0.040  Sum_probs=64.6

Q ss_pred             HHHHHHHHHHHHh---cChHHHHHHHHHHhccCCCCc-ccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHH
Q 011050           48 FDLVQKGNRAFRE---SNFEEAISNYSRANNIKPGDP-IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA  123 (494)
Q Consensus        48 ~~~~~~g~~~~~~---~~~~~Ai~~y~~al~~~p~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  123 (494)
                      ...++-|-.+.+.   .+.++||..+.+++..+|.+. .+++++|.+|+++|+|                       .+|
T Consensus        36 qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy-----------------------~~A   92 (124)
T d2pqrb1          36 QSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEY-----------------------SMA   92 (124)
T ss_dssp             HHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCH-----------------------HHH
T ss_pred             chHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhH-----------------------HHH
Confidence            4455566666644   556789999999999999775 8999999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHH
Q 011050          124 LKDAEKLLNLQSNSMKSHLLKANAL  148 (494)
Q Consensus       124 ~~~~~~al~l~p~~~~a~~~~g~~~  148 (494)
                      .+.++++++++|++..|...+-.+-
T Consensus        93 ~~~~~~~L~ieP~n~qA~~L~~~Ie  117 (124)
T d2pqrb1          93 KRYVDTLFEHERNNKQVGALKSMVE  117 (124)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHccCCCcHHHHHHHHHHH
Confidence            9999999999999988875554443

>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=97.52  E-value=0.0001  Score=69.08  Aligned_cols=108  Identities=13%  Similarity=-0.046  Sum_probs=70.0

Q ss_pred             HHHHHHHHHhcChHHHHHHHHHHhccCCCCcc-cccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHH
Q 011050           51 VQKGNRAFRESNFEEAISNYSRANNIKPGDPI-VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  129 (494)
Q Consensus        51 ~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  129 (494)
                      ...+......|+++.|...|.+++...|.++. +|...+......+++                       +.|.+.+.+
T Consensus       103 ~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~-----------------------~~ar~i~~~  159 (308)
T d2onda1         103 FAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGI-----------------------KSGRMIFKK  159 (308)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCH-----------------------HHHHHHHHH
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCCh-----------------------HHHHHHHHH
Confidence            34455555667777777777777777776543 556666666666666                       677777777


Q ss_pred             HhhccccchHHHHHHHHHH-HHHHHHHHHHHHHHccccCCCCCchhHHHHHHH
Q 011050          130 LLNLQSNSMKSHLLKANAL-ILLERYDMARDAILSGLQVDPFSNPLQASLQNL  181 (494)
Q Consensus       130 al~l~p~~~~a~~~~g~~~-~~~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~  181 (494)
                      ++...|.....+...|... ...|+.+.|...|+++++.+|++..++.....+
T Consensus       160 al~~~~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~~~~~w~~y~~~  212 (308)
T d2onda1         160 AREDARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDY  212 (308)
T ss_dssp             HHTSTTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHhCCCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence            7777777766666666553 334666777777777777777776655554444

>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=97.47  E-value=0.00015  Score=67.86  Aligned_cols=102  Identities=14%  Similarity=-0.040  Sum_probs=89.0

Q ss_pred             HHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHH-HHhhhccCCCCCccccccCCCCCchhHHHHHHHH
Q 011050           49 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIR-ISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  127 (494)
Q Consensus        49 ~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  127 (494)
                      .+...++...+.|+++.|...|.+|++..|.+...|...|..... .++.                       +.|...+
T Consensus       136 ~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~~~~~~~~~a~~e~~~~~~~-----------------------~~a~~i~  192 (308)
T d2onda1         136 VYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEYYCSKDK-----------------------SVAFKIF  192 (308)
T ss_dssp             HHHHHHHHHHHHHCHHHHHHHHHHHHTSTTCCTHHHHHHHHHHHHTSCCH-----------------------HHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhccCH-----------------------HHHHHHH
Confidence            456677777888999999999999999999999988887765443 3556                       8899999


Q ss_pred             HHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCch
Q 011050          128 EKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  173 (494)
Q Consensus       128 ~~al~l~p~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~p~~~~  173 (494)
                      ++++..+|+++..+...+..+...|+++.|...|++|++..|.++.
T Consensus       193 e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~  238 (308)
T d2onda1         193 ELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPE  238 (308)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGG
T ss_pred             HHHHHhhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChH
Confidence            9999999999999999999999999999999999999998886653

>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=97.41  E-value=2.1e-05  Score=60.14  Aligned_cols=45  Identities=29%  Similarity=0.588  Sum_probs=33.3

Q ss_pred             ccccccccccccc--C-cEEcCCCCcccHhhHHHhccC----C----CCCCCCCcc
Q 011050          201 DDFDCTLCLKLLY--E-PITTPCGHSFCRSCLFQSMDR----G----NKCPLCRAV  245 (494)
Q Consensus       201 ~~~~C~iC~~~~~--~-Pv~~~cgh~fc~~Cl~~~~~~----~----~~CP~Cr~~  245 (494)
                      ....|+||++.+.  + +...+|||.||..|+..|+..    +    -.||.|+.+
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~   59 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACP   59 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCS
T ss_pred             CCCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCCC
Confidence            4568999998764  3 344589999999999998752    1    149987653

>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=97.10  E-value=0.00025  Score=60.85  Aligned_cols=68  Identities=13%  Similarity=0.098  Sum_probs=61.6

Q ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHH
Q 011050           46 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  125 (494)
Q Consensus        46 ~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  125 (494)
                      ....+...|..+...|+|++|+..+.+++.++|.+..+|.+++.++..+|++                       .+|++
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            3456778999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHH-------hhcccc
Q 011050          126 DAEKL-------LNLQSN  136 (494)
Q Consensus       126 ~~~~a-------l~l~p~  136 (494)
                      .|+++       +.++|.
T Consensus       123 ~y~~~~~~L~~eLG~~P~  140 (179)
T d2ff4a2         123 AYRRVKTTLADDLGIDPG  140 (179)
T ss_dssp             HHHHHHHHHHHHHSCCCC
T ss_pred             HHHHHHHHHHHHhCCCcC
Confidence            99987       456664

>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=96.65  E-value=0.0014  Score=59.06  Aligned_cols=102  Identities=15%  Similarity=0.097  Sum_probs=78.6

Q ss_pred             HHHHHHHHHHHHHhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHH
Q 011050           47 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  126 (494)
Q Consensus        47 ~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  126 (494)
                      ++++...|..+++++||++|+.+|.+|.+.  +++.+++++|.+|......                   ..+...|...
T Consensus         2 p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~--g~~~A~~~Lg~~y~~G~~~-------------------~~d~~~a~~~   60 (265)
T d1ouva_           2 PKELVGLGAKSYKEKDFTQAKKYFEKACDL--KENSGCFNLGVLYYQGQGV-------------------EKNLKKAASF   60 (265)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHTSSS-------------------CCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHC--CCHHHHHHHHHHHHcCCCc-------------------chhHHHHHHh
Confidence            567889999999999999999999999875  5788889999888762211                   0111788888


Q ss_pred             HHHHhhccccchHHHHHHHHHHHH----HHHHHHHHHHHHccccCCCCC
Q 011050          127 AEKLLNLQSNSMKSHLLKANALIL----LERYDMARDAILSGLQVDPFS  171 (494)
Q Consensus       127 ~~~al~l~p~~~~a~~~~g~~~~~----~~~~~~A~~~~~~al~l~p~~  171 (494)
                      +.++...+  ++.+...+|..+..    ..+.+.|...++.+....+..
T Consensus        61 ~~~a~~~~--~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~  107 (265)
T d1ouva_          61 YAKACDLN--YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLKYAE  107 (265)
T ss_dssp             HHHHHHTT--CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHH
T ss_pred             hccccccc--ccchhhccccccccccccchhhHHHHHHHhhhhhhhhhh
Confidence            88877654  77888888888754    467788999999887765543

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=95.28  E-value=0.0094  Score=47.63  Aligned_cols=87  Identities=11%  Similarity=0.045  Sum_probs=64.7

Q ss_pred             HhcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccch
Q 011050           59 RESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSM  138 (494)
Q Consensus        59 ~~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~  138 (494)
                      ...++++|+..|.++.+.  +++.+.+++|..|.. |..                  ...+..+|++.++++.+.  .++
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            446788999999999875  467777777777643 221                  112238899999999876  478


Q ss_pred             HHHHHHHHHHHH----HHHHHHHHHHHHccccCC
Q 011050          139 KSHLLKANALIL----LERYDMARDAILSGLQVD  168 (494)
Q Consensus       139 ~a~~~~g~~~~~----~~~~~~A~~~~~~al~l~  168 (494)
                      .+.+.+|.+|..    ..++++|+.+|++|.++.
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            899999999876    468899999999887653

>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=95.02  E-value=0.008  Score=53.81  Aligned_cols=105  Identities=15%  Similarity=0.110  Sum_probs=75.3

Q ss_pred             HHHHHHHHHHH----hcChHHHHHHHHHHhccCCCCcccccChhHHHHH----HHhhhccCCCCCccccccCCCCCchhH
Q 011050           49 DLVQKGNRAFR----ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIR----ISQFLKHRPPSASEYRPLNGLDPTTHA  120 (494)
Q Consensus        49 ~~~~~g~~~~~----~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (494)
                      .+...|..++.    ..+...+...+..+.+  +.++.+++++|.+|..    ..++                       
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            34455666654    4566677777777775  4577888888877765    2234                       


Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHH----HHHHHHHHHHHHccccCCCCCchhHHHHHHHH
Q 011050          121 ELALKDAEKLLNLQSNSMKSHLLKANALIL----LERYDMARDAILSGLQVDPFSNPLQASLQNLE  182 (494)
Q Consensus       121 ~~a~~~~~~al~l~p~~~~a~~~~g~~~~~----~~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~  182 (494)
                      .+|+..++++.+..  ++.+++.+|.+|..    .+++++|+++|++|..+.  +..+...++.++
T Consensus       199 ~~A~~~~~~aa~~g--~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g--~~~A~~~l~~l~  260 (265)
T d1ouva_         199 KEALARYSKACELE--NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLG--AKGACDILKQLK  260 (265)
T ss_dssp             HHHHHHHHHHHHTT--CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHT--CHHHHHHHHTCC
T ss_pred             hhhhhhHhhhhccc--CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCc--CHHHHHHHHHHH
Confidence            89999999998874  78899999999875    348999999999997654  444555555554

>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=93.24  E-value=0.023  Score=45.19  Aligned_cols=88  Identities=11%  Similarity=-0.008  Sum_probs=61.7

Q ss_pred             hcChHHHHHHHHHHhccCCCCcccccChhHHHHHHHhhhccCCCCCccccccCCCCCchhHHHHHHHHHHHhhccccchH
Q 011050           60 ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMK  139 (494)
Q Consensus        60 ~~~~~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~l~p~~~~  139 (494)
                      +.|+++|+.+|.+|.+..  ++.+..++       +...                  ..+.++|+..++++.+.  .++.
T Consensus         6 ~kd~~~A~~~~~kaa~~g--~~~a~~~l-------~~~~------------------~~~~~~a~~~~~~aa~~--g~~~   56 (133)
T d1klxa_           6 KKDLKKAIQYYVKACELN--EMFGCLSL-------VSNS------------------QINKQKLFQYLSKACEL--NSGN   56 (133)
T ss_dssp             HHHHHHHHHHHHHHHHTT--CTTHHHHH-------HTCT------------------TSCHHHHHHHHHHHHHT--TCHH
T ss_pred             ccCHHHHHHHHHHHHHCC--Chhhhhhh-------cccc------------------ccCHHHHHHHHhhhhcc--cchh
Confidence            468899999999998874  33333332       2210                  01127899999999875  5889


Q ss_pred             HHHHHHHHHHH----HHHHHHHHHHHHccccCCCCCchhHHHH
Q 011050          140 SHLLKANALIL----LERYDMARDAILSGLQVDPFSNPLQASL  178 (494)
Q Consensus       140 a~~~~g~~~~~----~~~~~~A~~~~~~al~l~p~~~~~~~~~  178 (494)
                      +.+.+|..|..    ..++++|+.+|+++.+.  .++.+...+
T Consensus        57 a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~--g~~~a~~~L   97 (133)
T d1klxa_          57 GCRFLGDFYENGKYVKKDLRKAAQYYSKACGL--NDQDGCLIL   97 (133)
T ss_dssp             HHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT--TCHHHHHHH
T ss_pred             hhhhHHHhhhhccccchhhHHHHHHHhhhhcc--CcchHHHHH
Confidence            99999999875    46789999999999875  344443333

>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=81.39  E-value=7.4  Score=27.88  Aligned_cols=36  Identities=14%  Similarity=0.212  Sum_probs=29.8

Q ss_pred             hhhHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhcc
Q 011050           41 WDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNI   76 (494)
Q Consensus        41 ~~~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~~   76 (494)
                      ......|..+..+|..+=..|+|++|+.+|.+|+++
T Consensus         9 ~~~~~~A~~l~~~Av~~D~~g~y~eA~~~Y~~aie~   44 (93)
T d1wfda_           9 DSDSTAAVAVLKRAVELDAESRYQQALVCYQEGIDM   44 (93)
T ss_dssp             CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            445566888899999999999999999999888773

>d2crba1 a.7.16.1 (A:8-90) Nuclear receptor binding factor 2, NRBF2, N-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: Spectrin repeat-like
superfamily: MIT domain-like
family: MIT domain
domain: Nuclear receptor binding factor 2, NRBF2, N-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=80.30  E-value=1.1  Score=31.47  Aligned_cols=33  Identities=21%  Similarity=0.323  Sum_probs=28.2

Q ss_pred             hHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhc
Q 011050           43 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANN   75 (494)
Q Consensus        43 ~~~~~~~~~~~g~~~~~~~~~~~Ai~~y~~al~   75 (494)
                      +.+.|..+-.+|+.+.+.|.|++||.++.+|..
T Consensus         4 PLN~AH~~~RrAer~l~~~rydeAIech~kA~~   36 (83)
T d2crba1           4 PLNLAHQQSRRADRLLAAGKYEEAISCHRKATT   36 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            345577778899999999999999999988876