Citrus Sinensis ID: 012162

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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-------47
Protein Sequence
MSFEMQANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAERKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAEEQGCRLQ
Secondary Structure (PSIPRED)
ccccccccccccccccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHcccccccccccccccccccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHcHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHHHccccccccccccHHHHHHHccccccccccccccccccccccccHHHHHHHHHHcccHHHHHHHHccccccccccccccccccccccccccccccccHHHHHHHHHHHHcccEEEEEEEcccccccccEEEEEEEccccccccccEEEEEEcccEEEEEEEEEccccEEEEEEEEccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccHHHHHHHHHccccHHHHHHHHccccHHHHHHHHHHHHHHHHcccccc
Secondary Structure Prediction (SSPRO)
ccccEEEcccccccccccHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHcccccccEEEccHHHHHHHHHHHHHHccHHHcccccccccccccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHccHHccccccccccccccccHHHHHHHHccccccccccHHHHHHHHHHccccccccccccccccccccccccHHHHHHHHHHcHHHHHHHHHHHHHHHHHccccccEEEEEEcccccccccEEcccHHHHHHHEHccccccEEEEEccccccccccccEEEEEEEEEEcccccEEEEEccccEEEEEEccccccccEEEEEEEEccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccHHHHHHHHHccccHHHHHHHHccccHHHHHHHHHHHHHHHHcccccc
Coil and Loop (DISEMBL)
msfemqanegegslpwdrytHVFDLVQKGNRAFRESNFEEAISNYsrannikpgdpivlgnrssaYIRISQFlkhrppsaseyrplngldpttHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSglqvdpfsnplqASLQNLERTTASLIgrrihgtpertddfdCTLCLKllyepittpcghsfcrsclfqsmdrgnkcplcravlfitprtcAVSVTLNSIIQKNFPEEYAERKSEHDslinfgvdlmplfvmdvvipcqrfplhifepRYRLMVRRIMEgnhrmgmviidpttgsvadfaceveiteceplpdgrfvlEIESRRRFRILRSwdqdgyrvaeiewvqdihpegvedradlQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVevmmppsqdperFSFWLAtlsdrrpserLELLRIRDTRERIRRGLIFLRAEEQGCRLQ
Flexible Loop (DISEMBL)
msfemqanegegslpwdryTHVFDLVQKGNRAFRESNFEEAISNysrannikpgdpiVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLigrrihgtpertddFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAERKSEHDSLINFGVDLMPLFVMDVVIPCQRfplhifeprYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEIteceplpdgrfvleIESRRRFRilrswdqdgyrVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLrrekesarqdrrRLEKllnvevmmppsqdperFSFWLatlsdrrpserlellrirdtrerirrgliflraeeqgcrlq
Low Complexity Region (SEG)
MSFEMQANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHaelalkdaekllnlQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAERKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSerlellrirdtrerirrgliFLRAEEQGCRLQ
Disordered region (IsUnstruct)
*************LPWDRYTHVFDLVQKGNRAFRESNFEEAISNY*****IK*GDPIVLGNRSSAYIRISQFL*****************************************SHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAE***EHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLR*******************************FSFWLATLS*******LELLRIRDTRERIRRGLIFLR*********
Disordered Region (DISOPRED)
************************LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFL*************************LKD**************HLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNF*****************GVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEG********DLTNNAAEYARLWLRREKESARQ***************PPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAEEQGC***
Disordered Region (DISEMBL)
***********GSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAERKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAEEQGCRLQ
Disordered Region (DISPRO)
**F**QA***EGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT*************RTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAERKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAEEQGC***
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSFEMQANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAERKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWxxxxxxxxxxxxxxxxxxxxxEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAEEQGCRLQ
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	469	2.2.26 [Sep-21-2011]
Q8HXH0	718	LON peptidase N-terminal	N/A	no	0.904	0.590	0.298	2e-46
Q9D4H7	753	LON peptidase N-terminal	yes	no	0.588	0.366	0.360	7e-44
Q496Y0	759	LON peptidase N-terminal	no	no	0.588	0.363	0.360	1e-43
Q17RB8	773	LON peptidase N-terminal	no	no	0.594	0.360	0.334	2e-43
Q1L5Z9	754	LON peptidase N-terminal	no	no	0.582	0.362	0.342	3e-40
O60106	486	LON peptidase N-terminal	yes	no	0.349	0.337	0.279	2e-15
Q03605	160	Uncharacterized RING fing	yes	no	0.162	0.475	0.389	2e-08
Q8NHY2	731	E3 ubiquitin-protein liga	no	no	0.130	0.083	0.377	5e-08
Q8IYW5	571	E3 ubiquitin-protein liga	no	no	0.162	0.133	0.353	5e-08
Q9D9R0	233	E3 ubiquitin-protein liga	no	no	0.093	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 =  187 bits (474), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 143/479 (29%), Positives = 223/479 (46%), Gaps = 55/479 (11%)

Query: 25  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLK--HRPPSASE 82
           L  +GNR +RE   E A+  Y+ A  + P D ++  NRS  Y  +       H    A +
Sbjct: 246 LRHEGNRLYRERQVEAALLKYNEAVKLAPNDHLLYSNRSQIYFTLESHENALHDAEIACK 305

Query: 83  YRPLNGLDP------TTHAELALK-DAEKLLN---LQSNSMKSHLLKANALILLERYDMA 132
            RP+   D       ++  E A + D   L++   ++ +  + H+         E++D  
Sbjct: 306 LRPMGFKDNLELPHCSSQEEAAARGDGSSLMDPAKVKGDGQQHHMKDQEEEE--EKWDAT 363

Query: 133 RDAILSG------------LQVDPFSN---PLQASLQNLERTTASLIGRRIHGTPERTDD 177
                S              Q++   +   P +AS Q+            +        D
Sbjct: 364 SPKAASSKTGKCQEKKRKHCQIESQEDTGMPNKASKQDPPTDQGDKPALSLPLASFDASD 423

Query: 178 FDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL--FITPRTCAVSVTLN 235
            +C LC++L YEP+TTPCGH+FC  CL + +D   KCPLC+  L   +  R  + +V + 
Sbjct: 424 LECALCMRLFYEPVTTPCGHTFCLKCLERCLDHNAKCPLCKDGLSQCLASRKYSKNVIME 483

Query: 236 SIIQKNFPEEYAERKS----EHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMV 291
            +I K  PEE  ER+     E + L N   ++ P+FV  +  P    PLHIFEP YRLM+
Sbjct: 484 ELIAKFLPEELKERRKLYEEEMEELSNLNKNV-PIFVCTMAYPTVPCPLHIFEPCYRLMI 542

Query: 292 RRIME-GNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWD 350
           RR +E G  + GM + DP  G  A++ C +EI   +   DGR V++   +RRFR+L    
Sbjct: 543 RRCIETGTRQFGMCLGDPVKG-FAEYGCILEIRNVQFFADGRSVVDSIGKRRFRVLHQSQ 601

Query: 351 QDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLN 410
           +DGY  A+IE+++D   +G ED A+L  L N   + A LW    K S +       ++LN
Sbjct: 602 RDGYNTADIEYIEDQKVQG-EDCAELMGLHNCVYQQASLWFHSLKSSLKN------RILN 654

Query: 411 VEVMMP-----PSQDPE--RFSFWLATLSDRRPSERLELLRIRDTRER---IRRGLIFL 459
               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 (452), Expect = 7e-44,   Method: Compositional matrix adjust.
 Identities = 109/302 (36%), Positives = 162/302 (53%), Gaps = 26/302 (8%)

Query: 175 TDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF--ITPRTCAVSV 232
             D +C+LC++L YEP+TTPCGH+FC  CL + +D   KCPLC+ VL   +  R  + +V
Sbjct: 456 ASDLECSLCMRLFYEPVTTPCGHTFCLKCLERCLDHNAKCPLCKDVLLQCLPSRKYSKNV 515

Query: 233 TLNSIIQKNFPEEYAERK----SEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYR 288
            L  +I    PEE+ ERK     E + L N   ++ P+FV  +  P    PLHIFEP YR
Sbjct: 516 ILEELIATFLPEEFKERKRLYEEEMEELSNLNKNV-PIFVCTMAYPTVPCPLHIFEPCYR 574

Query: 289 LMVRRIME-GNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILR 347
           LM+RR +E G  + GM + DP  G V ++ C +EI   +   DGR V++   +RRF++L 
Sbjct: 575 LMIRRCIETGTRQFGMCLGDPVKGFV-EYGCILEIRNVQFFSDGRSVVDSIGKRRFKVLH 633

Query: 348 SWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEK 407
              +DGY  A+IE+++D   +G +D A+L  L N   E A  W    K S +       +
Sbjct: 634 QGQRDGYNTADIEYIEDQKVQG-DDCAELMGLHNCVYEQASSWFHSLKASLKN------R 686

Query: 408 LLNVEVMMP-PSQDPE------RFSFWLATLSDRRPSERLELLRIRDTRER---IRRGLI 457
           +LN    MP   +DP+       + +W   +       +L  L +R  ++R   IRR L 
Sbjct: 687 ILNHFGPMPEKDEDPQVNPNGPAWCWWTLAVLPLESRAQLPFLAMRSLKDRLNGIRRILA 746

Query: 458 FL 459
           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 (450), Expect = 1e-43,   Method: Compositional matrix adjust.
 Identities = 109/302 (36%), Positives = 161/302 (53%), Gaps = 26/302 (8%)

Query: 175 TDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL--FITPRTCAVSV 232
             D +C LC++L YEP+TTPCGH+FC  CL + +D   KCPLC+  L   +  R  + +V
Sbjct: 462 ASDLECALCMRLFYEPVTTPCGHTFCLKCLERCLDHNAKCPLCKDGLSQCLASRKYSKNV 521

Query: 233 TLNSIIQKNFPEEYAERKS----EHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYR 288
            +  +I K  PEE  ER+     E + L N   ++ P+FV  +  P    PLHIFEP YR
Sbjct: 522 IMEELIAKFLPEELKERRKLYEEEMEELSNLNKNV-PIFVCTMAYPTVPCPLHIFEPCYR 580

Query: 289 LMVRRIME-GNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILR 347
           LM+RR +E G  + GM + DP  G  A++ C +EI   +   DGR V++   +RRFR+L 
Sbjct: 581 LMIRRCIETGTRQFGMCLGDPVKG-FAEYGCILEIRNVQFFADGRSVVDSIGKRRFRVLH 639

Query: 348 SWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEK 407
              +DGY  A+IE+++D   +G ED A+L  L N   + A LW    K S +       +
Sbjct: 640 QSQRDGYNTADIEYIEDQKVQG-EDCAELMGLHNCVYQQASLWFHSLKLSLKN------R 692

Query: 408 LLNVEVMMP-----PSQDPE--RFSFWLATLSDRRPSERLELLRIRDTRER---IRRGLI 457
           +LN    MP     P  +P    + +W+  +       +L  L +R  ++R   IRR L 
Sbjct: 693 ILNHFGPMPEKDADPQMNPNGPAWCWWMLAVLPLESRAQLPFLAMRSLKDRLNGIRRVLA 752

Query: 458 FL 459
           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 =  177 bits (448), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 96/287 (33%), Positives = 162/287 (56%), Gaps = 8/287 (2%)

Query: 175 TDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL--FITPRTCAVSV 232
             DF+C+LC++L +EP+TTPCGHSFC++CL + +D    CPLC+  L  ++  R   V+ 
Sbjct: 474 VSDFECSLCMRLFFEPVTTPCGHSFCKNCLERCLDHAPYCPLCKESLKEYLADRRYCVTQ 533

Query: 233 TLNSIIQKNFPEEYAERKSEHD---SLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRL 289
            L  +I K  P+E +ERK  +D   + ++     +P+FV  +  P    PLH+FEPRYRL
Sbjct: 534 LLEELIVKYLPDELSERKKIYDEETAELSHLTKNVPIFVCTMAYPTVPCPLHVFEPRYRL 593

Query: 290 MVRR-IMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRS 348
           M+RR I  G  + GM + D T  S AD+ C ++I     LPDGR V++    +RFR+L+ 
Sbjct: 594 MIRRSIQTGTKQFGMCVSD-TQNSFADYGCMLQIRNVHFLPDGRSVVDTVGGKRFRVLKR 652

Query: 349 WDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESAR-QDRRRLEK 407
             +DGY  A+IE+++D+  E  ++  +L++L +     A  W +  ++  R Q  +    
Sbjct: 653 GMKDGYCTADIEYLEDVKVENEDEIKNLRELHDLVYSQACSWFQNLRDRFRSQILQHFGS 712

Query: 408 LLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRR 454
           +   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 (421), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 103/301 (34%), Positives = 163/301 (54%), Gaps = 28/301 (9%)

Query: 177 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL--FITPRTCAVSVTL 234
           DF+C LC++LL+EP+TTPCGH+FC  CL + +D    CPLC+  L   +  R   ++V  
Sbjct: 446 DFECALCMRLLFEPVTTPCGHTFCLKCLERCLDHAPHCPLCKDKLSELLASRNFNITVLA 505

Query: 235 NSIIQKNFPEEYAERKSEHDS----LINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLM 290
             +I +  P+E ++RK  +D     L N   D+ P+FV  +  P    PLH+FEPRYRLM
Sbjct: 506 EELIFRYLPDELSDRKRIYDEEMSELSNLTRDV-PIFVCAMAFPTVPCPLHVFEPRYRLM 564

Query: 291 VRRIME-GNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSW 349
           +RR ME G  R GM +     G ++++ C +EI +    PDG  V++     RFR+L   
Sbjct: 565 IRRCMETGTKRFGMCLSAEHAG-LSEYGCMLEIKDVRTFPDGSSVVDAIGISRFRVLSHR 623

Query: 350 DQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLL 409
            +DGY  A+IE+++D   EG E   +L  L ++  + +  W      ++ QDR + + L 
Sbjct: 624 HRDGYNTADIEYLEDEKVEGPE-YEELAALHDSVHQQSVSWF-----ASLQDRMKEQILS 677

Query: 410 NVEVMMPPSQDPE--------RFSFWLATLSDRRPSERLELLRIRDTRER---IRRGLIF 458
           +  VM  P ++PE         +S+W+  +       +L +L +   +ER   IRR L+ 
Sbjct: 678 HFGVM--PDREPEPQSNPSGPAWSWWILAVLPLERKAQLAILGMTSLKERLLAIRRILVI 735

Query: 459 L 459
           +
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: 177 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTC----AVSV 232
           + +C +C  +LY+P+ +PCGH+FC  CL Q++ +  +CP CR   F  P       A S 
Sbjct: 166 ELECQICFGMLYDPVVSPCGHTFCGPCLMQALTQSPQCPTCR---FGLPSPVVLEHAKSH 222

Query: 233 TLNSIIQKNFPEEYAERKSEHDSLINFGVDLMPLFVMDVVIPCQRFP--LHIFEPRYRLM 290
           ++ + ++  +P+ + ER+   +         +PLF+  +  P  R P  LHIFE RY +M
Sbjct: 223 SITTFLRDFYPDNWLERQKSWEEEKE-QESWLPLFISMLAYP--RMPTFLHIFELRYHIM 279

Query: 291 VRRIMEGNHR--MGMVIIDPTTGS---------------VADFACEVEITECEPLPDGRF 333
           +++ +E + R  + M +   + G                 +++   +EI + EPL DGR 
Sbjct: 280 IKKCLETSKRFCIAMPLRARSDGHNEHRELRNARGQRLFCSEYGTILEIIQVEPLIDGRS 339

Query: 334 VLEIESRRRFRIL 346
           ++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 = 2e-08,   Method: Compositional matrix adjust.
 Identities = 30/77 (38%), Positives = 42/77 (54%), Gaps = 1/77 (1%)

Query: 174 RTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAV-SV 232
           R +DF C +CL    EP    CGHS+CR C+   ++   KCPLCRA      R   + S+
Sbjct: 2   RDEDFCCAVCLDFFVEPCIIECGHSYCRFCIESHLNINEKCPLCRAHTGNPIRNRQLESL 61

Query: 233 TLNSIIQKNFPEEYAER 249
           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 = 5e-08,   Method: Compositional matrix adjust.
 Identities = 23/61 (37%), Positives = 36/61 (59%)

Query: 161 ASLIGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAV 220
           A L    I+   ++++DF C +C  ++ E   T CGHSFC  C+ QS++  N+CP C  V
Sbjct: 117 APLCNGLINSYEDKSNDFVCPICFDMIEEAYMTKCGHSFCYKCIHQSLEDNNRCPKCNYV 176

Query: 221 L 221
           +
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 = 5e-08,   Method: Compositional matrix adjust.
 Identities = 29/82 (35%), Positives = 48/82 (58%), Gaps = 6/82 (7%)

Query: 180 CTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGN-KCPLCRAVL-----FITPRTCAVSVT 233
           C +C+++L EP+T PC H+ C+ C   ++++ +  CP CR  +     + T R   V+V 
Sbjct: 16  CGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRRNSLVNVE 75

Query: 234 LNSIIQKNFPEEYAERKSEHDS 255
           L +IIQK++P E   R S  +S
Sbjct: 76  LWTIIQKHYPRECKLRASGQES 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: 178 FDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNK--CPLCRAVL 221
           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	469
449440816	487	PREDICTED: LON peptidase N-terminal doma	0.987	0.950	0.773	0.0
356508525	486	PREDICTED: LON peptidase N-terminal doma	0.978	0.944	0.754	0.0
224119058	444	predicted protein [Populus trichocarpa]	0.921	0.972	0.775	0.0
359491313	1383	PREDICTED: probable receptor-like protei	0.974	0.330	0.713	0.0
297733938	486	unnamed protein product [Vitis vinifera]	0.985	0.950	0.711	0.0
18394639	486	zinc finger (C3HC4-type RING finger) fam	0.985	0.950	0.704	0.0
21554128	486	unknown [Arabidopsis thaliana]	0.985	0.950	0.702	0.0
297844822	476	zinc finger family protein [Arabidopsis	0.944	0.930	0.714	0.0
356516824	486	PREDICTED: LON peptidase N-terminal doma	0.978	0.944	0.748	0.0
42571537	491	zinc finger (C3HC4-type RING finger) fam	0.959	0.916	0.696	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 =  751 bits (1940), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 359/464 (77%), Positives = 418/464 (90%), Gaps = 1/464 (0%)

Query: 7   ANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAY 66
           ANEGEGSLPWD +  VF+ VQ GN+AF+ ++FEEAI  YSRANNIKPGDP++L NRS+AY
Sbjct: 24  ANEGEGSLPWDMFRDVFEFVQNGNQAFKNNHFEEAIKYYSRANNIKPGDPVILNNRSAAY 83

Query: 67  IRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILL 126
           IRISQFLK RPP+ASEYRPLNGLDPT HAELALKDAEKL++L+  S+K ++LKANAL+LL
Sbjct: 84  IRISQFLKDRPPAASEYRPLNGLDPTVHAELALKDAEKLMDLRGKSVKPYILKANALMLL 143

Query: 127 ERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCLKL 186
           E+Y +A+D ILSGLQ+DP SNPLQASLQ LER  A+++G   HG P+R+DDFDCTLCLKL
Sbjct: 144 EKYAIAKDIILSGLQIDPLSNPLQASLQRLERIAATMMGNGRHGLPDRSDDFDCTLCLKL 203

Query: 187 LYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEY 246
           LYEPITTPCGHSFCRSCLFQSMDRGNKCPLCR VLFI+ RTC++SVTL++IIQKNFPEEY
Sbjct: 204 LYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRTVLFISSRTCSISVTLSNIIQKNFPEEY 263

Query: 247 AERKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVII 306
           AERKSE++ L NFGVDLMPLFVMDVVIPCQ+FPLHIFEPRYRLMVRR+MEGNHRMGMVI+
Sbjct: 264 AERKSENEGLTNFGVDLMPLFVMDVVIPCQKFPLHIFEPRYRLMVRRVMEGNHRMGMVIV 323

Query: 307 DPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIH 366
           D TTGS+ADFACEVEITECEPL DGRF LEIESRRRFRI+RSWDQDGYRVAEIEWV DI 
Sbjct: 324 DSTTGSIADFACEVEITECEPLADGRFYLEIESRRRFRIIRSWDQDGYRVAEIEWVNDIT 383

Query: 367 -PEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVMMPPSQDPERFS 425
            PEG  +R +LQ++T NAAEYA+ W+RR KE++R+D+ + ++LLNVE MMP S+DPERFS
Sbjct: 384 PPEGTIERTELQEMTTNAAEYAQSWIRRAKEASRRDQIKRDRLLNVEAMMPSSRDPERFS 443

Query: 426 FWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAEEQGCRLQ 469
           FWLATLS+RRP ERLELLR+ DTRERIRRGL++L+AEEQGC++Q
Sbjct: 444 FWLATLSNRRPLERLELLRMTDTRERIRRGLVYLKAEEQGCQMQ 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 =  717 bits (1851), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 348/461 (75%), Positives = 395/461 (85%), Gaps = 2/461 (0%)

Query: 10  GEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRI 69
           G   L  D   +V++LV+ GN AFRE+  EEAI+ YSRANNIK GDPI+L NRS+AYIRI
Sbjct: 27  GSEGLSRDTLHYVYELVKNGNVAFRENRMEEAINFYSRANNIKSGDPIILSNRSAAYIRI 86

Query: 70  SQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERY 129
           SQ+  HR PS+SE RPL+GL+PTT AEL LKDAEKL+ LQSNS KS+LLKANA +LLE+Y
Sbjct: 87  SQYFMHRTPSSSERRPLSGLEPTTLAELGLKDAEKLVELQSNSAKSYLLKANAFLLLEKY 146

Query: 130 DMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCLKLLYE 189
           + ARD ILSGLQVDPFSN L+ASLQNLE  ++S  G   HG PER DDFDCTLCLKLLYE
Sbjct: 147 EKARDVILSGLQVDPFSNSLRASLQNLESVSSSSRGMSTHGHPERNDDFDCTLCLKLLYE 206

Query: 190 PITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAER 249
           P+TTPCGHSFC SCLFQSMDRGNKCPLCR VLFI+PRTC++SVTL +IIQKNFPEEYAER
Sbjct: 207 PVTTPCGHSFCCSCLFQSMDRGNKCPLCRTVLFISPRTCSISVTLKNIIQKNFPEEYAER 266

Query: 250 KSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPT 309
           K EHDSLI  GVDL+PLFVMDVVIPCQRFPL+IFEPRYRLMVRRIMEGNHRMGM I+D +
Sbjct: 267 KQEHDSLIKAGVDLLPLFVMDVVIPCQRFPLNIFEPRYRLMVRRIMEGNHRMGMAILD-S 325

Query: 310 TGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIH-PE 368
           TGS+A+FACEVEITECEPLPDGRF +EIESRRRFRI+ SWDQDGYRVAE+EW+QDI  PE
Sbjct: 326 TGSLAEFACEVEITECEPLPDGRFYIEIESRRRFRIIHSWDQDGYRVAEVEWIQDIMPPE 385

Query: 369 GVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVMMPPSQDPERFSFWL 428
           G  +R  LQ  T NA E AR W+ R KE+AR D+R+LE+L +VEVMMP  +DPERFSFWL
Sbjct: 386 GTSERDTLQQQTYNAVEDARSWIARAKEAARHDQRKLERLASVEVMMPSPKDPERFSFWL 445

Query: 429 ATLSDRRPSERLELLRIRDTRERIRRGLIFLRAEEQGCRLQ 469
           ATLS+RRP+ERL+LLRIRDT ERIRRGLIFLR EEQGCR+Q
Sbjct: 446 ATLSNRRPAERLDLLRIRDTAERIRRGLIFLRQEEQGCRIQ 486

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  717 bits (1850), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 336/433 (77%), Positives = 385/433 (88%), Gaps = 1/433 (0%)

Query: 37  NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE 96
           +  +AI+ YSRANNIKPGDPI+LGNRS+AY R+S  LK RP S SE  PLNGLDPT HAE
Sbjct: 13  SLAQAINYYSRANNIKPGDPIILGNRSAAYSRVSHLLKQRPASTSEDTPLNGLDPTIHAE 72

Query: 97  LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL 156
           LALKDAEK++NL++NS+  ++LKANALILLE+Y++A+D +LSGLQVDPFSNPL+ SL+NL
Sbjct: 73  LALKDAEKVINLRNNSVNPYILKANALILLEKYELAQDVVLSGLQVDPFSNPLRVSLRNL 132

Query: 157 ERTTASLIGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPL 216
           ER   S++ + + G PER+D+FDCTLCLKLL+EPITTPCGHSFCRSCLFQSMDRGNKCPL
Sbjct: 133 ERMLGSMMSKSL-GKPERSDEFDCTLCLKLLFEPITTPCGHSFCRSCLFQSMDRGNKCPL 191

Query: 217 CRAVLFITPRTCAVSVTLNSIIQKNFPEEYAERKSEHDSLINFGVDLMPLFVMDVVIPCQ 276
           CR VLFI+PRTC++SVTLN+IIQKNFPEEYAERKSEHD L NFGVDL+PLFVMD VIPCQ
Sbjct: 192 CRTVLFISPRTCSISVTLNNIIQKNFPEEYAERKSEHDCLTNFGVDLIPLFVMDAVIPCQ 251

Query: 277 RFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLE 336
           +FPLHIFEPRYRLMVRRIMEGNHRMGMVIID  +GS+AD ACEVEITECEPLPDGRF LE
Sbjct: 252 KFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDSASGSIADLACEVEITECEPLPDGRFYLE 311

Query: 337 IESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKE 396
           +ESRRRFRIL+SWDQDGYRVAEIEWVQD  PEG+E R ++Q+LTN+AAEYA+ WLRR KE
Sbjct: 312 VESRRRFRILQSWDQDGYRVAEIEWVQDNSPEGLEQRTEMQELTNSAAEYAQSWLRRAKE 371

Query: 397 SARQDRRRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGL 456
           +ARQDRRRLEK LNVE MMP   DPERFSFWLATL+DRRPSERLELLR RDT +RIR+GL
Sbjct: 372 AARQDRRRLEKFLNVEAMMPMPLDPERFSFWLATLTDRRPSERLELLRTRDTTKRIRQGL 431

Query: 457 IFLRAEEQGCRLQ 469
            +L   EQGCR+Q
Sbjct: 432 DYLGKAEQGCRMQ 444

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  696 bits (1797), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 329/461 (71%), Positives = 387/461 (83%), Gaps = 4/461 (0%)

Query: 7   ANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAY 66
            NEGEG    DRY  + DLV+KGNRAFRE+  EEAI+ Y++A+NI+P D ++L NR +AY
Sbjct: 24  VNEGEGLSKRDRYPELLDLVKKGNRAFRENRMEEAINCYTKASNIQPNDAVILSNRCAAY 83

Query: 67  IRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILL 126
           IRIS FLK R P+ SEYRPLNGLDPT HAELALKDA +L++L+SNS+K ++ KANALILL
Sbjct: 84  IRISDFLKQRTPTDSEYRPLNGLDPTIHAELALKDATRLVDLRSNSVKPYIFKANALILL 143

Query: 127 ERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCLKL 186
           E+YD+AR+AILSGLQVDP SN LQ SLQ LE+ TASL   R  G PER+DDFDCTLCLKL
Sbjct: 144 EKYDLAREAILSGLQVDPLSNALQVSLQKLEKATASL-NHRGRGKPERSDDFDCTLCLKL 202

Query: 187 LYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEY 246
           L+EP+TT CGHSFCRSCLFQ+MD  NKCPLCR VLFI P+TC++SVTLN+IIQ+NFPEEY
Sbjct: 203 LFEPVTTACGHSFCRSCLFQAMDCSNKCPLCRMVLFINPKTCSISVTLNNIIQRNFPEEY 262

Query: 247 AERKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVII 306
           AERKSEH+SL NFG DL+PLFVMDVV+PCQ+  L+IFEPRYRLMVRRIMEGNHRMGMVII
Sbjct: 263 AERKSEHESLTNFGFDLLPLFVMDVVLPCQKVLLNIFEPRYRLMVRRIMEGNHRMGMVII 322

Query: 307 DPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIH 366
           D TTG  A+F CEVEITEC+PLPDGRF LE+E RRRFRI+  WDQDGYRVA +EWVQDI 
Sbjct: 323 DSTTGVPAEFGCEVEITECDPLPDGRFYLEVEGRRRFRIINCWDQDGYRVAAVEWVQDIL 382

Query: 367 PEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVMMPPSQDPERFSF 426
           P    DR   Q++++NAA+YARLW++R KE+A QDRRRL +L + E MMP  QDPE FSF
Sbjct: 383 P---PDRTKEQEMSSNAAKYARLWIKRAKEAAWQDRRRLAELCHAEAMMPTPQDPELFSF 439

Query: 427 WLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAEEQGCR 467
           WLA LS+RRP ERL+LL IRDT+ERIRRGLI++R  EQGC+
Sbjct: 440 WLAGLSNRRPPERLDLLYIRDTKERIRRGLIYMRDAEQGCQ 480

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  695 bits (1794), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 330/464 (71%), Positives = 393/464 (84%), Gaps = 2/464 (0%)

Query: 7   ANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAY 66
            NEGEG    DRY  + DLV+KGNRAFRE+  EEAI+ Y++A+NI+P D ++L NR +AY
Sbjct: 24  VNEGEGLSKRDRYPELLDLVKKGNRAFRENRMEEAINCYTKASNIQPNDAVILSNRCAAY 83

Query: 67  IRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILL 126
           IRIS FLK R P+ SEYRPLNGLDPT HAELALKDA +L++L+SNS+K ++ KANALILL
Sbjct: 84  IRISDFLKQRTPTDSEYRPLNGLDPTIHAELALKDATRLVDLRSNSVKPYIFKANALILL 143

Query: 127 ERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCLKL 186
           E+YD+AR+AILSGLQVDP SN LQ SLQ LE+ TASL   R  G PER+DDFDCTLCLKL
Sbjct: 144 EKYDLAREAILSGLQVDPLSNALQVSLQKLEKATASL-NHRGRGKPERSDDFDCTLCLKL 202

Query: 187 LYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEY 246
           L+EP+TT CGHSFCRSCLFQ+MD  NKCPLCR VLFI P+TC++SVTLN+IIQ+NFPEEY
Sbjct: 203 LFEPVTTACGHSFCRSCLFQAMDCSNKCPLCRMVLFINPKTCSISVTLNNIIQRNFPEEY 262

Query: 247 AERKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVII 306
           AERKSEH+SL NFG DL+PLFVMDVV+PCQ+  L+IFEPRYRLMVRRIMEGNHRMGMVII
Sbjct: 263 AERKSEHESLTNFGFDLLPLFVMDVVLPCQKVLLNIFEPRYRLMVRRIMEGNHRMGMVII 322

Query: 307 DPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDI- 365
           D TTG  A+F CEVEITEC+PLPDGRF LE+E RRRFRI+  WDQDGYRVA +EWVQDI 
Sbjct: 323 DSTTGVPAEFGCEVEITECDPLPDGRFYLEVEGRRRFRIINCWDQDGYRVAAVEWVQDIL 382

Query: 366 HPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVMMPPSQDPERFS 425
            P+  +++ DLQ++++NAA+YARLW++R KE+A QDRRRL +L + E MMP  QDPE FS
Sbjct: 383 PPDRTKEQVDLQEMSSNAAKYARLWIKRAKEAAWQDRRRLAELCHAEAMMPTPQDPELFS 442

Query: 426 FWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAEEQGCRLQ 469
           FWLA LS+RRP ERL+LL IRDT+ERIRRGLI++R  EQGC++Q
Sbjct: 443 FWLAGLSNRRPPERLDLLYIRDTKERIRRGLIYMRDAEQGCQVQ 486

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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 =  694 bits (1790), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 327/464 (70%), Positives = 396/464 (85%), Gaps = 2/464 (0%)

Query: 7   ANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAY 66
             E + SLP D +  VF LV+KGN++F+ES FEEAIS+YS+AN+IKP DPIVLGNRS+AY
Sbjct: 24  VTEADNSLPLDIHNQVFQLVEKGNQSFKESRFEEAISSYSKANSIKPLDPIVLGNRSAAY 83

Query: 67  IRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILL 126
           IR  Q+LK R  S SEY+PLNG D +   ELALKDA+KL++LQS+ +KS++ KA AL+LL
Sbjct: 84  IRFGQYLKQRSASISEYKPLNGFDMSMLGELALKDADKLMSLQSSLVKSYITKACALMLL 143

Query: 127 ERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCLKL 186
           ERY++ARD ILSGLQ+DPFS PL+++LQ LE+   + + R+ HG  ER+DDFDCT+CLKL
Sbjct: 144 ERYEVARDTILSGLQIDPFSGPLRSNLQELEKVMPNSM-RKTHGMAERSDDFDCTVCLKL 202

Query: 187 LYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEY 246
           LYEP TTPCGH+FCRSCLFQSMDRGNKCPLCR V+F+TPRTCAVSVTLN+II+KNFPEEY
Sbjct: 203 LYEPATTPCGHTFCRSCLFQSMDRGNKCPLCRTVIFMTPRTCAVSVTLNNIIEKNFPEEY 262

Query: 247 AERKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVII 306
           AERKSE D+L++ G + MPLFVMDV+IPCQ+  LHIFEPRYRLMVRRIMEGNHRMGMV +
Sbjct: 263 AERKSEQDTLVHLGNESMPLFVMDVIIPCQKLSLHIFEPRYRLMVRRIMEGNHRMGMVAL 322

Query: 307 DPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIH 366
           D  TGS  D ACEVEITEC+PLPDGRFVLE+ES RR RI+++WDQDGYRVAE+EWV+DI 
Sbjct: 323 DSATGSPVDVACEVEITECDPLPDGRFVLELESHRRCRIVKAWDQDGYRVAEVEWVKDIP 382

Query: 367 PEGVEDRADLQDLTNNAAEYARLWLRREKESARQ-DRRRLEKLLNVEVMMPPSQDPERFS 425
           P+  + +ADL++LT +AA +AR WL R KE+ARQ DRRRLE LLNVE M+P  QDPERFS
Sbjct: 383 PQSEQGKADLRELTTSAASFARSWLDRAKEAARQGDRRRLEILLNVESMIPTPQDPERFS 442

Query: 426 FWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAEEQGCRLQ 469
           FWLATL+DRRPSERLELLR++DT ERI+RGLI+LR+ E+GCR+Q
Sbjct: 443 FWLATLTDRRPSERLELLRLQDTGERIKRGLIYLRSVERGCRMQ 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 =  692 bits (1785), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 326/464 (70%), Positives = 396/464 (85%), Gaps = 2/464 (0%)

Query: 7   ANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAY 66
             E + SLP D +  VF LV+KGN++F+ES FEEAIS+YS+AN+IKP DPIVLGNRS+AY
Sbjct: 24  VTEADNSLPLDIHNQVFQLVEKGNQSFKESRFEEAISSYSKANSIKPLDPIVLGNRSAAY 83

Query: 67  IRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILL 126
           IR  Q+LK R  S SEY+PLNG D +   ELALKDA+KL++LQS+ +KS++ KA AL+LL
Sbjct: 84  IRFGQYLKQRSASISEYKPLNGFDMSMLGELALKDADKLMSLQSSLVKSYITKACALMLL 143

Query: 127 ERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCLKL 186
           ERY++ARD ILSGLQ+DPFS PL+++LQ LE+   + + R+ HG  ER+DDFDCT+CLKL
Sbjct: 144 ERYEVARDTILSGLQIDPFSGPLRSNLQELEKVMPNSM-RKTHGMAERSDDFDCTVCLKL 202

Query: 187 LYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEY 246
           LYEP TTPCGH+FCRSCLFQSMDRGNKCPLCR V+F+TPRTCAV+VTLN+II+KNFPEEY
Sbjct: 203 LYEPATTPCGHTFCRSCLFQSMDRGNKCPLCRTVIFMTPRTCAVNVTLNNIIEKNFPEEY 262

Query: 247 AERKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVII 306
           AERKSE D+L++ G + MPLFVMDV+IPCQ+  LHIFEPRYRLMVRRIMEGNHRMGMV +
Sbjct: 263 AERKSEQDTLVHLGNESMPLFVMDVIIPCQKLSLHIFEPRYRLMVRRIMEGNHRMGMVAL 322

Query: 307 DPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIH 366
           D  TGS  D ACEVEITEC+PLPDGRFVLE+ES RR RI+++WDQDGYRVAE+EWV+DI 
Sbjct: 323 DSATGSPVDVACEVEITECDPLPDGRFVLELESHRRCRIVKAWDQDGYRVAEVEWVKDIP 382

Query: 367 PEGVEDRADLQDLTNNAAEYARLWLRREKESARQ-DRRRLEKLLNVEVMMPPSQDPERFS 425
           P+  + +ADL++LT +AA +AR WL R KE+ARQ DRRRLE LLNVE M+P  QDPERFS
Sbjct: 383 PQSEQGKADLRELTTSAASFARSWLDRAKEAARQGDRRRLEILLNVESMIPTPQDPERFS 442

Query: 426 FWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAEEQGCRLQ 469
           FWLATL+DRRPSERLELLR++DT ERI+RGLI+LR+ E+GCR+Q
Sbjct: 443 FWLATLTDRRPSERLELLRLQDTGERIKRGLIYLRSVERGCRMQ 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 =  670 bits (1729), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 318/445 (71%), Positives = 378/445 (84%), Gaps = 2/445 (0%)

Query: 7   ANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAY 66
             E + SLP D +  VF LV+KGN++F+ES FEEAIS+YS+AN+IKP DPIVLGNRS+AY
Sbjct: 24  VTEADNSLPLDIHNQVFQLVEKGNQSFKESRFEEAISSYSKANSIKPLDPIVLGNRSAAY 83

Query: 67  IRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILL 126
           IR  Q+LK R  S SEY+PLNG D +   ELALKDA+KL+NLQS+S+KS+  KA AL+LL
Sbjct: 84  IRFGQYLKQRSASISEYKPLNGFDMSMLGELALKDADKLMNLQSSSVKSYNTKACALMLL 143

Query: 127 ERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCLKL 186
           ERY++ARD ILSGLQ+DPFS+PL+++LQ LE+   + + R+ HG  ER+DDFDCT+CLKL
Sbjct: 144 ERYEVARDTILSGLQIDPFSDPLRSNLQELEKVMPNSM-RKTHGKAERSDDFDCTVCLKL 202

Query: 187 LYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEY 246
           LYEP TTPCGH+FCRSCLFQSMDRGNKCPLCR V+F+TPRTCAVSVTLN+IIQKNFPEEY
Sbjct: 203 LYEPATTPCGHTFCRSCLFQSMDRGNKCPLCRTVIFMTPRTCAVSVTLNNIIQKNFPEEY 262

Query: 247 AERKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVII 306
           AERKSE D+L++ G + MPLFVMDV+IPCQ+  LHIFEPRYRLMVRRIMEGNHRMGMV +
Sbjct: 263 AERKSEQDTLVHLGNESMPLFVMDVIIPCQKLSLHIFEPRYRLMVRRIMEGNHRMGMVAL 322

Query: 307 DPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIH 366
           D  TGS  D ACEVEITEC+PLPDGRFVLE+ES RR RI+++WDQDGYRVAE+EWV DI 
Sbjct: 323 DSATGSPVDVACEVEITECDPLPDGRFVLELESHRRCRIVKAWDQDGYRVAEVEWVTDIP 382

Query: 367 PEGVEDRADLQDLTNNAAEYARLWLRREKESARQ-DRRRLEKLLNVEVMMPPSQDPERFS 425
           P+  + +ADL+DLT +AA +AR WL R KE+ARQ DRRRLE LLNVE M+P  QDPERFS
Sbjct: 383 PQSEQGKADLRDLTTSAASFARSWLDRAKEAARQGDRRRLEILLNVESMIPTPQDPERFS 442

Query: 426 FWLATLSDRRPSERLELLRIRDTRE 450
           FWLATL+DRRPSERLELLR++DT E
Sbjct: 443 FWLATLTDRRPSERLELLRLQDTGE 467

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356516824|ref|XP_003527093.1| PREDICTED: LON peptidase N-terminal domain and RING finger protein 1-like [Glycine max]

 Score =  666 bits (1718), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 345/461 (74%), Positives = 396/461 (85%), Gaps = 2/461 (0%)

Query: 10  GEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRI 69
           G   L WD   +V++LV+ GN AFRE+  +EAI+ YSRANNIK GDPI+L NRS+AYIRI
Sbjct: 27  GSEDLSWDTLHYVYELVKNGNAAFRENRMQEAINLYSRANNIKSGDPIILSNRSAAYIRI 86

Query: 70  SQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERY 129
           S++   R  S+SE RPL+GL+PTT AEL LKDAEKL+ LQSNS KS+LLKA+AL+LLE+Y
Sbjct: 87  SEYFMRRTSSSSERRPLSGLEPTTIAELGLKDAEKLVELQSNSAKSYLLKASALLLLEKY 146

Query: 130 DMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCLKLLYE 189
           + ARD ILSGLQVDPFSN L+ASLQNLER ++S  G   HG PER DDFDCTLCLKLLYE
Sbjct: 147 EKARDVILSGLQVDPFSNSLRASLQNLERVSSSSTGMSTHGHPERNDDFDCTLCLKLLYE 206

Query: 190 PITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAER 249
           P+TTPCGHSFCRSCLFQSMDRGN+CPLCR VLFI+PRTC++SVTL +IIQKNFPEEYAER
Sbjct: 207 PVTTPCGHSFCRSCLFQSMDRGNRCPLCRTVLFISPRTCSISVTLKNIIQKNFPEEYAER 266

Query: 250 KSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPT 309
           K EHD LIN GVDL+PLFVMDVVIPCQRF L+IFEPRYRLMVRRIMEGNHRMGM I+D +
Sbjct: 267 KQEHDGLINAGVDLLPLFVMDVVIPCQRFALNIFEPRYRLMVRRIMEGNHRMGMAILD-S 325

Query: 310 TGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIH-PE 368
           TGS+A+FACEVEITECEPLPDGRF +EIESRRRFRI+RS DQDGYRVAE+EW+QDI  PE
Sbjct: 326 TGSLAEFACEVEITECEPLPDGRFYIEIESRRRFRIIRSRDQDGYRVAEVEWIQDIMPPE 385

Query: 369 GVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVMMPPSQDPERFSFWL 428
           G  +R  LQ  T NAAE AR W+ R KE+A+ D R+LE+L +VEVMMP  +DPERFSFWL
Sbjct: 386 GTSERETLQQQTYNAAEDARSWIARAKEAAKHDPRKLERLASVEVMMPSPKDPERFSFWL 445

Query: 429 ATLSDRRPSERLELLRIRDTRERIRRGLIFLRAEEQGCRLQ 469
           ATLS+RRP+ERL+LLRIRDT ERIRRGLIFLR EEQGCR+Q
Sbjct: 446 ATLSNRRPAERLDLLRIRDTAERIRRGLIFLRQEEQGCRIQ 486

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

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 =  665 bits (1716), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 315/452 (69%), Positives = 381/452 (84%), Gaps = 2/452 (0%)

Query: 7   ANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAY 66
             E + SLP D +  VF LV+KGN++F+ES FEEAIS+YS+AN+IKP DPIVLGNRS+AY
Sbjct: 24  VTEADNSLPLDIHNQVFQLVEKGNQSFKESRFEEAISSYSKANSIKPLDPIVLGNRSAAY 83

Query: 67  IRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILL 126
           IR  Q+LK R  S SEY+PLNG D +   ELALKDA+KL++LQS+ +KS++ KA AL+LL
Sbjct: 84  IRFGQYLKQRSASISEYKPLNGFDMSMLGELALKDADKLMSLQSSLVKSYITKACALMLL 143

Query: 127 ERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCLKL 186
           ERY++ARD ILSGLQ+DPFS PL+++LQ LE+   + + R+ HG  ER+DDFDCT+CLKL
Sbjct: 144 ERYEVARDTILSGLQIDPFSGPLRSNLQELEKVMPNSM-RKTHGMAERSDDFDCTVCLKL 202

Query: 187 LYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEY 246
           LYEP TTPCGH+FCRSCLFQSMDRGNKCPLCR V+F+TPRTCAVSVTLN+II+KNFPEEY
Sbjct: 203 LYEPATTPCGHTFCRSCLFQSMDRGNKCPLCRTVIFMTPRTCAVSVTLNNIIEKNFPEEY 262

Query: 247 AERKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVII 306
           AERKSE D+L++ G + MPLFVMDV+IPCQ+  LHIFEPRYRLMVRRIMEGNHRMGMV +
Sbjct: 263 AERKSEQDTLVHLGNESMPLFVMDVIIPCQKLSLHIFEPRYRLMVRRIMEGNHRMGMVAL 322

Query: 307 DPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIH 366
           D  TGS  D ACEVEITEC+PLPDGRFVLE+ES RR RI+++WDQDGYRVAE+EWV+DI 
Sbjct: 323 DSATGSPVDVACEVEITECDPLPDGRFVLELESHRRCRIVKAWDQDGYRVAEVEWVKDIP 382

Query: 367 PEGVEDRADLQDLTNNAAEYARLWLRREKESARQ-DRRRLEKLLNVEVMMPPSQDPERFS 425
           P+  + +ADL++LT +AA +AR WL R KE+ARQ DRRRLE LLNVE M+P  QDPERFS
Sbjct: 383 PQSEQGKADLRELTTSAASFARSWLDRAKEAARQGDRRRLEILLNVESMIPTPQDPERFS 442

Query: 426 FWLATLSDRRPSERLELLRIRDTRERIRRGLI 457
           FWLATL+DRRPSERLELLR++DT E +   L+
Sbjct: 443 FWLATLTDRRPSERLELLRLQDTGEVLDYRLV 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	469
TAIR|locus:2035025	491	AT1G18660 [Arabidopsis thalian	0.912	0.871	0.683	3.1e-161
MGI|MGI:1921615	753	Lonrf3 "LON peptidase N-termin	0.505	0.314	0.389	1.3e-50
UNIPROTKB|Q496Y0	759	LONRF3 "LON peptidase N-termin	0.505	0.312	0.389	1.9e-49
UNIPROTKB|K7GLC4	752	LONRF3 "Uncharacterized protei	0.505	0.315	0.385	2.2e-49
UNIPROTKB|F1RU80	788	LONRF3 "Uncharacterized protei	0.505	0.300	0.385	4e-49
UNIPROTKB|H0Y7Q8	525	LONRF3 "LON peptidase N-termin	0.505	0.451	0.389	8.7e-49
UNIPROTKB|G3X6C1	759	LONRF3 "Uncharacterized protei	0.469	0.289	0.395	1.2e-48
UNIPROTKB|K7GKX2	711	LONRF3 "Uncharacterized protei	0.505	0.333	0.385	1.7e-47
UNIPROTKB|F1PSB6	765	LONRF3 "Uncharacterized protei	0.469	0.287	0.404	2.8e-47
UNIPROTKB|F1NNQ7	632	Gga.54568 "Uncharacterized pro	0.481	0.357	0.395	1.5e-46

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

 Score = 1570 (557.7 bits), Expect = 3.1e-161, P = 3.1e-161
 Identities = 294/430 (68%), Positives = 353/430 (82%)

Query:     9 EGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIR 68
             E + SLP D +  VF LV+KGN++F+ES FEEAIS+YS+AN+IKP DPIVLGNRS+AYIR
Sbjct:    26 EADNSLPLDIHNQVFQLVEKGNQSFKESRFEEAISSYSKANSIKPLDPIVLGNRSAAYIR 85

Query:    69 ISQFLKHRPPSASEYRPLNGLDPTTHXXXXXXXXXXXXXXQSNSMKSHLLKANALILLER 128
               Q+LK R  S SEY+PLNG D +                QS+ +KS++ KA AL+LLER
Sbjct:    86 FGQYLKQRSASISEYKPLNGFDMSMLGELALKDADKLMSLQSSLVKSYITKACALMLLER 145

Query:   129 YDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCLKLLY 188
             Y++ARD ILSGLQ+DPFS PL+++LQ LE+   + + R+ HG  ER+DDFDCT+CLKLLY
Sbjct:   146 YEVARDTILSGLQIDPFSGPLRSNLQELEKVMPNSM-RKTHGMAERSDDFDCTVCLKLLY 204

Query:   189 EPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAE 248
             EP TTPCGH+FCRSCLFQSMDRGNKCPLCR V+F+TPRTCAVSVTLN+II+KNFPEEYAE
Sbjct:   205 EPATTPCGHTFCRSCLFQSMDRGNKCPLCRTVIFMTPRTCAVSVTLNNIIEKNFPEEYAE 264

Query:   249 RKSEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDP 308
             RKSE D+L++ G + MPLFVMDV+IPCQ+  LHIFEPRYRLMVRRIMEGNHRMGMV +D 
Sbjct:   265 RKSEQDTLVHLGNESMPLFVMDVIIPCQKLSLHIFEPRYRLMVRRIMEGNHRMGMVALDS 324

Query:   309 TTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPE 368
              TGS  D ACEVEITEC+PLPDGRFVLE+ES RR RI+++WDQDGYRVAE+EWV+DI P+
Sbjct:   325 ATGSPVDVACEVEITECDPLPDGRFVLELESHRRCRIVKAWDQDGYRVAEVEWVKDIPPQ 384

Query:   369 GVEDRADLQDLTNNAAEYARLWLRREKESARQ-DRRRLEKLLNVEVMMPPSQDPERFSFW 427
               + +ADL++LT +AA +AR WL R KE+ARQ DRRRLE LLNVE M+P  QDPERFSFW
Sbjct:   385 SEQGKADLRELTTSAASFARSWLDRAKEAARQGDRRRLEILLNVESMIPTPQDPERFSFW 444

Query:   428 LATLSDRRPS 437
             LATL+DRRPS
Sbjct:   445 LATLTDRRPS 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:   177 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF--ITPRTCAVSVTL 234
             D +C+LC++L YEP+TTPCGH+FC  CL + +D   KCPLC+ VL   +  R  + +V L
Sbjct:   458 DLECSLCMRLFYEPVTTPCGHTFCLKCLERCLDHNAKCPLCKDVLLQCLPSRKYSKNVIL 517

Query:   235 NSIIQKNFPEEYAERK----SEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLM 290
               +I    PEE+ ERK     E + L N   ++ P+FV  +  P    PLHIFEP YRLM
Sbjct:   518 EELIATFLPEEFKERKRLYEEEMEELSNLNKNV-PIFVCTMAYPTVPCPLHIFEPCYRLM 576

Query:   291 VRRIME-GNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSW 349
             +RR +E G  + GM + DP  G V ++ C +EI   +   DGR V++   +RRF++L   
Sbjct:   577 IRRCIETGTRQFGMCLGDPVKGFV-EYGCILEIRNVQFFSDGRSVVDSIGKRRFKVLHQG 635

Query:   350 DQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLL 409
              +DGY  A+IE+++D   +G +D A+L  L N   E A  W    K S +       ++L
Sbjct:   636 QRDGYNTADIEYIEDQKVQG-DDCAELMGLHNCVYEQASSWFHSLKASLKN------RIL 688

Query:   410 NVEVMMPPS-QDPE 422
             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:   177 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF--ITPRTCAVSVTL 234
             D +C LC++L YEP+TTPCGH+FC  CL + +D   KCPLC+  L   +  R  + +V +
Sbjct:   464 DLECALCMRLFYEPVTTPCGHTFCLKCLERCLDHNAKCPLCKDGLSQCLASRKYSKNVIM 523

Query:   235 NSIIQKNFPEEYAERKS----EHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLM 290
               +I K  PEE  ER+     E + L N   ++ P+FV  +  P    PLHIFEP YRLM
Sbjct:   524 EELIAKFLPEELKERRKLYEEEMEELSNLNKNV-PIFVCTMAYPTVPCPLHIFEPCYRLM 582

Query:   291 VRRIME-GNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSW 349
             +RR +E G  + GM + DP  G  A++ C +EI   +   DGR V++   +RRFR+L   
Sbjct:   583 IRRCIETGTRQFGMCLGDPVKG-FAEYGCILEIRNVQFFADGRSVVDSIGKRRFRVLHQS 641

Query:   350 DQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLL 409
              +DGY  A+IE+++D   +G ED A+L  L N   + A LW    K S +       ++L
Sbjct:   642 QRDGYNTADIEYIEDQKVQG-EDCAELMGLHNCVYQQASLWFHSLKLSLKN------RIL 694

Query:   410 NVEVMMPPSQ-DPE 422
             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:   177 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF--ITPRTCAVSVTL 234
             D +C+LC++L YEP+TTPCGH+FC  CL + +D   KCPLC+  L   +  R  + +V +
Sbjct:   457 DLECSLCMRLFYEPVTTPCGHTFCLKCLERCLDHNAKCPLCKDGLSQCLASRKYSKNVIM 516

Query:   235 NSIIQKNFPEEYAERK----SEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLM 290
               +I K  PEE  ER+     E + L N   ++ P+FV  +  P    PLHIFEP YRLM
Sbjct:   517 EELIAKFLPEELKERRRLYEEEMEELSNLNKNV-PIFVCTMAYPTVPCPLHIFEPCYRLM 575

Query:   291 VRRIME-GNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSW 349
             +RR +E G  + GM + DP  G  A++ C +EI   +   DGR V++   +RRF++L   
Sbjct:   576 IRRCIETGTRQFGMCLGDPVKG-FAEYGCILEIRNVQFFADGRSVVDSIGKRRFKVLHQG 634

Query:   350 DQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLL 409
              +DGY  A+IE+++D   +G ED A+L  L N   E A  W    K S +       ++L
Sbjct:   635 QRDGYNTADIEYIEDQKVQG-EDCAELMGLHNCVYEQASSWFHSLKSSLKN------RIL 687

Query:   410 NVEVMMPPSQ-DPE 422
             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:   177 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF--ITPRTCAVSVTL 234
             D +C+LC++L YEP+TTPCGH+FC  CL + +D   KCPLC+  L   +  R  + +V +
Sbjct:   457 DLECSLCMRLFYEPVTTPCGHTFCLKCLERCLDHNAKCPLCKDGLSQCLASRKYSKNVIM 516

Query:   235 NSIIQKNFPEEYAERK----SEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLM 290
               +I K  PEE  ER+     E + L N   ++ P+FV  +  P    PLHIFEP YRLM
Sbjct:   517 EELIAKFLPEELKERRRLYEEEMEELSNLNKNV-PIFVCTMAYPTVPCPLHIFEPCYRLM 575

Query:   291 VRRIME-GNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSW 349
             +RR +E G  + GM + DP  G  A++ C +EI   +   DGR V++   +RRF++L   
Sbjct:   576 IRRCIETGTRQFGMCLGDPVKG-FAEYGCILEIRNVQFFADGRSVVDSIGKRRFKVLHQG 634

Query:   350 DQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLL 409
              +DGY  A+IE+++D   +G ED A+L  L N   E A  W    K S +       ++L
Sbjct:   635 QRDGYNTADIEYIEDQKVQG-EDCAELMGLHNCVYEQASSWFHSLKSSLKN------RIL 687

Query:   410 NVEVMMPPSQ-DPE 422
             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:   177 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF--ITPRTCAVSVTL 234
             D +C LC++L YEP+TTPCGH+FC  CL + +D   KCPLC+  L   +  R  + +V +
Sbjct:   230 DLECALCMRLFYEPVTTPCGHTFCLKCLERCLDHNAKCPLCKDGLSQCLASRKYSKNVIM 289

Query:   235 NSIIQKNFPEEYAERKS----EHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLM 290
               +I K  PEE  ER+     E + L N   ++ P+FV  +  P    PLHIFEP YRLM
Sbjct:   290 EELIAKFLPEELKERRKLYEEEMEELSNLNKNV-PIFVCTMAYPTVPCPLHIFEPCYRLM 348

Query:   291 VRRIME-GNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSW 349
             +RR +E G  + GM + DP  G  A++ C +EI   +   DGR V++   +RRFR+L   
Sbjct:   349 IRRCIETGTRQFGMCLGDPVKG-FAEYGCILEIRNVQFFADGRSVVDSIGKRRFRVLHQS 407

Query:   350 DQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLL 409
              +DGY  A+IE+++D   +G ED A+L  L N   + A LW    K S +       ++L
Sbjct:   408 QRDGYNTADIEYIEDQKVQG-EDCAELMGLHNCVYQQASLWFHSLKLSLKN------RIL 460

Query:   410 NVEVMMPPSQ-DPE 422
             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:   177 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF--ITPRTCAVSVTL 234
             D +C+LC++L YEP+TTPCGH+FC  CL + +D   KCPLC+  L   +  R  + +V +
Sbjct:   464 DLECSLCMRLFYEPVTTPCGHTFCLKCLERCLDHNAKCPLCKDGLSQCLASRKYSKNVIM 523

Query:   235 NSIIQKNFPEEYAERK----SEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLM 290
               +I K  PEE  ER+     E + L N   ++ P+FV  +  P    PLHIFEP YRLM
Sbjct:   524 EELIAKFLPEELKERRRLYEEEMEELSNLNKNV-PIFVCTMAYPTVPCPLHIFEPCYRLM 582

Query:   291 VRRIME-GNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSW 349
             +RR +E G  + GM + DP  G  A++ C +EI   +   DGR V++   +RRF++L   
Sbjct:   583 IRRCIETGTRQFGMCLGDPVKG-FAEYGCILEIRNVQFFADGRSVVDSIGKRRFKVLHQG 641

Query:   350 DQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESAR 399
              +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:   177 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF--ITPRTCAVSVTL 234
             D +C+LC++L YEP+TTPCGH+FC  CL + +D   KCPLC+  L   +  R  + +V +
Sbjct:   416 DLECSLCMRLFYEPVTTPCGHTFCLKCLERCLDHNAKCPLCKDGLSQCLASRKYSKNVIM 475

Query:   235 NSIIQKNFPEEYAERK----SEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLM 290
               +I K  PEE  ER+     E + L N   ++ P+FV  +  P    PLHIFEP YRLM
Sbjct:   476 EELIAKFLPEELKERRRLYEEEMEELSNLNKNV-PIFVCTMAYPTVPCPLHIFEPCYRLM 534

Query:   291 VRRIME-GNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSW 349
             +RR +E G  + GM + DP  G  A++ C +EI   +   DGR V++   +RRF++L   
Sbjct:   535 IRRCIETGTRQFGMCLGDPVKG-FAEYGCILEIRNVQFFADGRSVVDSIGKRRFKVLHQG 593

Query:   350 DQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLL 409
              +DGY  A+IE+++D   +G ED A+L  L N   E A  W    K S +       ++L
Sbjct:   594 QRDGYNTADIEYIEDQKVQG-EDCAELMGLHNCVYEQASSWFHSLKSSLKN------RIL 646

Query:   410 NVEVMMPPSQ-DPE 422
             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:   177 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF--ITPRTCAVSVTL 234
             D +C LC++L YEP+TTPCGH+FC  CL + +D   KCPLC+  L   +  R  + +V +
Sbjct:   470 DLECALCMRLFYEPVTTPCGHTFCLKCLERCLDHNAKCPLCKDGLSQCLASRKYSKNVIM 529

Query:   235 NSIIQKNFPEEYAERK----SEHDSLINFGVDLMPLFVMDVVIPCQRFPLHIFEPRYRLM 290
               +I K  PEE  ER+     E + L N   ++ P+FV  +  P    PLHIFEP YRLM
Sbjct:   530 EELIAKFLPEELKERRRLYEEEMEELSNLNKNV-PIFVCTMAYPTVPCPLHIFEPCYRLM 588

Query:   291 VRRIME-GNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIESRRRFRILRSW 349
             +RR +E G  + GM + DP  G  A++ C +EI   +   DGR V++   +RRFR+L   
Sbjct:   589 IRRCIETGTRQFGMCLGDPVKG-FAEYGCILEIRNVQFFADGRSVVDSIGKRRFRVLHQG 647

Query:   350 DQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESAR 399
              +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:   171 TP-ERTD--DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF---IT 224
             TP E  D  D DC+LC++L YEP+TTPCGH+FC  CL + +D   KCPLC+  L    + 
Sbjct:   326 TPFESVDPSDLDCSLCMRLFYEPVTTPCGHTFCLKCLERCLDHNPKCPLCKEGLSEQCLA 385

Query:   225 PRTCAVSVTLNSIIQKNFPEEYAERKSEHDS----LINFGVDLMPLFVMDVVIPCQRFPL 280
              R    +V +  +I K  PEE  ER+  ++     L N   ++ P+FV  +  P    PL
Sbjct:   386 MRKYCKTVLMEELIAKYLPEELTERRKIYEEEIAELSNLNKNV-PIFVCTMAYPTVPCPL 444

Query:   281 HIFEPRYRLMVRRIME-GNHRMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIES 339
             HIFEP YRLM+RR ME G  + GM I DP  G  AD+ C +EI   E   DGR V++   
Sbjct:   445 HIFEPCYRLMIRRCMETGTKQFGMCISDPVKG-FADYGCILEIRNVEFFADGRSVVDSIG 503

Query:   340 RRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESAR 399
             +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	469
pfam02190	191	pfam02190, LON, ATP-dependent protease La (LON) do	5e-30
COG2802	221	COG2802, COG2802, Uncharacterized protein, similar	2e-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	9e-11
cd00189	100	cd00189, TPR, Tetratricopeptide repeat domain; typ	4e-10
smart00184	40	smart00184, RING, Ring finger	5e-10
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	7e-09
COG0466	782	COG0466, Lon, ATP-dependent Lon protease, bacteria	2e-07
COG5574	271	COG5574, PEX10, RING-finger-containing E3 ubiquiti	2e-07
COG5152	259	COG5152, COG5152, Uncharacterized conserved protei	8e-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	9e-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	8e-04
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	0.002
COG5222	427	COG5222, COG5222, Uncharacterized conserved protei	0.002

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

 Score =  115 bits (289), Expect = 5e-30
 Identities = 57/202 (28%), Positives = 90/202 (44%), Gaps = 20/202 (9%)

Query: 264 MPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVII----DPTTGSVADFA 317
           +PL  +   V+ P    PLH+FEPRY   +   +E +   G+V++     P+   + +  
Sbjct: 2   LPLLPLRNVVLFPGMVLPLHVFEPRYIAAIEEALESDRPFGLVLVSQKDPPSIDDLYEVG 61

Query: 318 CEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQ 377
               I +   LPDGR  + +E   RFRIL    ++ Y VAE+E + +   E  E    L+
Sbjct: 62  TLARIIQIVKLPDGRLKILVEGLERFRILELEQEEPYLVAEVEDLPEEELE--ELLEALE 119

Query: 378 DLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPS 437
            L     E       +E          L K+ ++E       DP R +  +A+L    P 
Sbjct: 120 ALVKELIE-----KIKELLPLLLPLELLLKIDDIE-------DPGRLADLIASLLPLSPE 167

Query: 438 ERLELLRIRDTRERIRRGLIFL 459
           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 =  100 bits (251), Expect = 2e-24
 Identities = 59/211 (27%), Positives = 83/211 (39%), Gaps = 25/211 (11%)

Query: 255 SLINFGVDLMPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPTTGS 312
           S  +     +PLF +   V++P    PL+IFEPRY  MVR  +    R G+V+ID     
Sbjct: 3   SSPDDLPLELPLFPLPGAVLLPGGLLPLNIFEPRYLAMVRTCLAEGRRFGVVLIDRGREV 62

Query: 313 V-------ADFACEVEITECEPLPDGRFVLEIESRRRFRILRSW--DQDGYRVAEIEWVQ 363
                   +D  C   ITE E L DGR+++ +   +RFR+      D D YR A + +  
Sbjct: 63  GGGLPPELSDVGCLARITEFEELGDGRYLILVRGGQRFRV-LEELADDDPYRRARVPF-- 119

Query: 364 DIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVMMPPSQDPER 423
                   D     D            L R   +AR   +RLE  L  +           
Sbjct: 120 ------WPDLPSDPDGAEEVDRRLDALLMR---AARAYLQRLE--LLADWESYERASNAD 168

Query: 424 FSFWLATLSDRRPSERLELLRIRDTRERIRR 454
            +  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 = 61.0 bits (148), Expect = 3e-12
 Identities = 20/45 (44%), Positives = 32/45 (71%), Gaps = 1/45 (2%)

Query: 176 DDFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRGNKCPLCRA 219
           ++ +C +CL LL +P+  TPCGH FCR C+ + + + +KCP+CR 
Sbjct: 1   EELECPICLDLLRDPVVLTPCGHVFCRECILRYLKKKSKCPICRT 45

Length = 45

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

 Score = 58.2 bits (141), Expect = 3e-11
 Identities = 21/45 (46%), Positives = 29/45 (64%), Gaps = 2/45 (4%)

Query: 179 DCTLCLKLLYEPI-TTPCGHSFCRSCLFQSMDRG-NKCPLCRAVL 221
           +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 = 9e-11
 Identities = 18/45 (40%), Positives = 24/45 (53%), Gaps = 3/45 (6%)

Query: 178 FDCTLCLKLLY---EPITTPCGHSFCRSCLFQSMDRGNKCPLCRA 219
            +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 = 56.2 bits (136), Expect = 4e-10
 Identities = 28/121 (23%), Positives = 54/121 (44%), Gaps = 23/121 (19%)

Query: 24  DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEY 83
            L+  GN  ++  +++EA+  Y +A  + P +     N ++AY ++ ++           
Sbjct: 2   ALLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKY----------- 50

Query: 84  RPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVD 143
                       E AL+D EK L L  ++ K++     A   L +Y+ A +A    L++D
Sbjct: 51  ------------EEALEDYEKALELDPDNAKAYYNLGLAYYKLGKYEEALEAYEKALELD 98

Query: 144 P 144
           P
Sbjct: 99  P 99

Length = 100

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

 Score = 54.1 bits (130), Expect = 5e-10
 Identities = 19/40 (47%), Positives = 29/40 (72%), Gaps = 2/40 (5%)

Query: 180 CTLCL-KLLYEPITTPCGHSFCRSCLFQSMDRGN-KCPLC 217
           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 = 7e-09
 Identities = 17/40 (42%), Positives = 23/40 (57%), Gaps = 2/40 (5%)

Query: 180 CTLCLKLLYEP-ITTPCGHSFCRSCLFQSMDRGN-KCPLC 217
           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|223542 COG0466, Lon, ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

 Score = 53.7 bits (130), Expect = 2e-07
 Identities = 48/209 (22%), Positives = 93/209 (44%), Gaps = 25/209 (11%)

Query: 263 LMPLFVMDVVI-PCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVII-------DPTTGSVA 314
           ++PL   DVV+ P    PL +   +    +   M+ + +  +++        +PT   + 
Sbjct: 12  VLPLR--DVVVFPGMVIPLFVGREKSIKALEEAMKNDQKYILLVTQKDASTDEPTEDDLY 69

Query: 315 DFACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDI-HPEGVEDR 373
           +     +I +   LPDG   + +E  +R RI +  D++ +  AEIE + D    E  E  
Sbjct: 70  EVGTLAKILQILKLPDGTVKVLVEGLQRVRISKLSDEEEFFEAEIELLPDEPIDEEREIE 129

Query: 374 ADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVMMPPSQDPERFSFWLATLSD 433
           A ++ + +   EYA+L    +K    +    L+ L +++       DP + +  +A    
Sbjct: 130 ALVRSILSEFEEYAKL---NKKIPPEE----LQSLNSID-------DPGKLADTIAAHLP 175

Query: 434 RRPSERLELLRIRDTRERIRRGLIFLRAE 462
            +  E+ E+L   D +ER+ + L  L  E
Sbjct: 176 LKLEEKQEILETLDVKERLEKLLDLLEKE 204

Length = 782

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

 Score = 52.2 bits (125), Expect = 2e-07
 Identities = 46/184 (25%), Positives = 61/184 (33%), Gaps = 33/184 (17%)

Query: 44  NYSRANNIKPGDPIVLGNRS----SAYIRISQFLKHRPPSASEYRPLNGL--DPTTHAEL 97
            YSR  NI     ++               S  LK    +  E  P   L   PT     
Sbjct: 101 EYSRETNIDKEGEVLYPCGIFFCIGCDYIWSIDLKQ-TANTHEASPSQLLKFLPTIR--- 156

Query: 98  ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE 157
                     L  N  +     ++   +    D +R        +   SN L    Q + 
Sbjct: 157 ----------LAMNIPEVI---SDLTAVALSLDESR-----LQPILQPSNNLHTLFQVIT 198

Query: 158 RTTASLIGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSM--DRGNKCP 215
           +   S     +   P    D+ C LCL+    P  TPCGH FC SCL  S    +   CP
Sbjct: 199 KENLSKK-NGLPFIPLA--DYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCP 255

Query: 216 LCRA 219
           LCRA
Sbjct: 256 LCRA 259

Length = 271

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

 Score = 50.1 bits (119), Expect = 8e-07
 Identities = 16/42 (38%), Positives = 23/42 (54%)

Query: 178 FDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRA 219
           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: 24  DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEY 83
           DL  K   AF + +F  A+  Y++A ++ P +  +  +R+ A I++  F +         
Sbjct: 4   DLEDKAKEAFVDDDFALAVDLYTQAIDLDPNNAELYADRAQANIKLGNFTE--------- 54

Query: 84  RPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVD 143
                         A+ DA K + L  +  K++L K  A + LE Y  A+ A+  G  + 
Sbjct: 55  --------------AVADANKAIELDPSLAKAYLRKGTACMKLEEYQTAKAALEKGASLA 100

Query: 144 P 144
           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: 176 DDFDCTLCLKLLYEPITTPCGH-SFCRSCLFQSMDRGNKCPLCRA 219
           +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: 178 FDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRA 219
             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 = 44.6 bits (105), Expect = 9e-05
 Identities = 37/142 (26%), Positives = 62/142 (43%), Gaps = 26/142 (18%)

Query: 17  DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHR 76
           +R  +   L +KGN+A+R  +F +AI  YS+A   KP DP+   NR++ +  +  +    
Sbjct: 122 ERKKYAAKLKEKGNKAYRNKDFNKAIKLYSKAIECKP-DPVYYSNRAACHNALGDW---- 176

Query: 77  PPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAI 136
                              E  ++D    L L  +  K+   +ANA   L +Y  A   +
Sbjct: 177 -------------------EKVVEDTTAALELDPDYSKALNRRANAYDGLGKYADALLDL 217

Query: 137 LSGLQVDPFSNPLQASLQNLER 158
            +   +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 = 39.6 bits (93), Expect = 1e-04
 Identities = 13/44 (29%), Positives = 23/44 (52%)

Query: 25 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIR 68
          L   GN  F+  +++EAI  Y +A  + P +     N + AY++
Sbjct: 6  LKNLGNALFKLGDYDEAIEAYEKALELDPDNAEAYYNLALAYLK 49

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: 177 DFDCTLCLKLLYEPITTPCGHSFCRSCLF----------QSMDRGN------KCPLCRA 219
           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: 178 FDCTLCLKLLYE----PITTPCGHSFCRSCLFQSMDRGN--KCP 215
           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 = 41.2 bits (96), Expect = 8e-04
 Identities = 14/40 (35%), Positives = 21/40 (52%)

Query: 180 CTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRA 219
           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: 173 ERTDDFDCTLCLKLLYEP--------ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF 222
            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 = 39.7 bits (92), Expect = 0.002
 Identities = 23/74 (31%), Positives = 36/74 (48%), Gaps = 4/74 (5%)

Query: 148 PLQASLQNLERTTASL--IGRRIHGTPERTDDFDCTLCLKLLYEPITTP-CGHSFCRSCL 204
           P   S +  ++ T ++  I  +++          C LC  LL  P+ TP CGH+FC  C+
Sbjct: 243 PDVQSWEKYQQRTKAVAEIPDQVYKMQPPNISLKCPLCHCLLRNPMKTPCCGHTFCDECI 302

Query: 205 FQSM-DRGNKCPLC 217
             ++ D   KCP C
Sbjct: 303 GTALLDSDFKCPNC 316

Length = 427

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	469
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	99.95
PF02190	205	LON: ATP-dependent protease La (LON) domain; Inter	99.94
COG2802	221	Uncharacterized protein, similar to the N-terminal	99.93
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	99.93
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	99.92
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	99.91
KOG0553	304	consensus TPR repeat-containing protein [General f	99.84
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	99.72
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.62
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.62
PRK15359	144	type III secretion system chaperone protein SscB;	99.58
KOG4234	271	consensus TPR repeat-containing protein [General f	99.57
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	99.56
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	99.55
KOG4648	536	consensus Uncharacterized conserved protein, conta	99.53
TIGR02552	135	LcrH_SycD type III secretion low calcium response	99.45
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	99.42
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.4
PRK10370	198	formate-dependent nitrite reductase complex subuni	99.38
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.33
PRK11189	296	lipoprotein NlpI; Provisional	99.33
KOG0376	476	consensus Serine-threonine phosphatase 2A, catalyt	99.33
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	99.32
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	99.3
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	99.3
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.26
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.23
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.21
KOG1126	638	consensus DNA-binding cell division cycle control	99.2
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	99.19
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	99.15
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.15
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	99.13
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.12
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	99.11
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.09
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.08
KOG0551	390	consensus Hsp90 co-chaperone CNS1 (contains TPR re	99.08
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	99.06
smart00464	92	LON Found in ATP-dependent protease La (LON). N-te	99.06
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.06
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	99.05
KOG0545	329	consensus Aryl-hydrocarbon receptor-interacting pr	99.04
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	99.03
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	99.03
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.02
PRK15359	144	type III secretion system chaperone protein SscB;	99.02
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.01
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.01
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	99.01
PRK12370	553	invasion protein regulator; Provisional	99.01
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	99.0
PRK12370	553	invasion protein regulator; Provisional	99.0
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	99.0
PRK11189	296	lipoprotein NlpI; Provisional	98.99
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.99
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.99
PRK15331	165	chaperone protein SicA; Provisional	98.99
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.98
KOG0547	606	consensus Translocase of outer mitochondrial membr	98.97
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.97
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.96
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.95
KOG1126	638	consensus DNA-binding cell division cycle control	98.94
KOG4555	175	consensus TPR repeat-containing protein [Function	98.94
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.93
PRK10803	263	tol-pal system protein YbgF; Provisional	98.93
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.92
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	98.91
KOG1125	579	consensus TPR repeat-containing protein [General f	98.91
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.87
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	98.87
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.87
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.86
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	98.86
PLN02789	320	farnesyltranstransferase	98.85
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	98.85
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.85
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.85
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.85
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	98.84
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.84
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	98.82
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	98.81
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	98.81
KOG1308	377	consensus Hsp70-interacting protein Hip/Transient	98.8
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.79
PHA02929	238	N1R/p28-like protein; Provisional	98.78
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	98.77
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.77
PRK11788	389	tetratricopeptide repeat protein; Provisional	98.75
PF13512	142	TPR_18: Tetratricopeptide repeat	98.74
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.73
KOG2076	895	consensus RNA polymerase III transcription factor	98.72
PLN02789	320	farnesyltranstransferase	98.69
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	98.69
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.67
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	98.67
PF13371	73	TPR_9: Tetratricopeptide repeat	98.65
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.65
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.64
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	98.63
PF13371	73	TPR_9: Tetratricopeptide repeat	98.63
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	98.62
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	98.62
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.62
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	98.61
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.6
PRK11906	458	transcriptional regulator; Provisional	98.58
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	98.57
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.57
KOG2003	840	consensus TPR repeat-containing protein [General f	98.56
PRK11788	389	tetratricopeptide repeat protein; Provisional	98.54
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	98.54
PF14634	44	zf-RING_5: zinc-RING finger domain	98.54
KOG2660	331	consensus Locus-specific chromosome binding protei	98.53
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	98.52
PHA02926	242	zinc finger-like protein; Provisional	98.5
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.49
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	98.49
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.49
COG5152	259	Uncharacterized conserved protein, contains RING a	98.49
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	98.48
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.46
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	98.46
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.46
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.46
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	98.45
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	98.45
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	98.45
KOG1125	579	consensus TPR repeat-containing protein [General f	98.45
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.44
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.44
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.42
KOG0553	304	consensus TPR repeat-containing protein [General f	98.42
PRK14574	822	hmsH outer membrane protein; Provisional	98.4
PF12688	120	TPR_5: Tetratrico peptide repeat	98.4
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.38
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.36
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.35
KOG1400	371	consensus Predicted ATP-dependent protease PIL, co	98.34
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	98.34
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	98.34
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	98.34
PRK11906	458	transcriptional regulator; Provisional	98.33
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	98.31
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	98.31
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.3
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	98.3
PRK14574	822	hmsH outer membrane protein; Provisional	98.3
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.28
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.24
KOG1310	758	consensus WD40 repeat protein [General function pr	98.21
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.19
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.18
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.18
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	98.15
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.13
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.12
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.11
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.11
KOG2076	895	consensus RNA polymerase III transcription factor	98.1
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	98.08
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	98.08
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.07
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	98.06
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	98.04
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	98.04
KOG1941	518	consensus Acetylcholine receptor-associated protei	98.01
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.99
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.98
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.96
PF13431	34	TPR_17: Tetratricopeptide repeat	97.96
KOG1129	478	consensus TPR repeat-containing protein [General f	97.95
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.94
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.93
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.91
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.9
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.89
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	97.89
KOG1129	478	consensus TPR repeat-containing protein [General f	97.89
KOG1128	777	consensus Uncharacterized conserved protein, conta	97.88
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	97.85
COG4105	254	ComL DNA uptake lipoprotein [General function pred	97.85
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.85
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	97.85
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	97.84
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	97.82
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	97.76
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	97.76
PF13428	44	TPR_14: Tetratricopeptide repeat	97.75
KOG2003	840	consensus TPR repeat-containing protein [General f	97.74
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	97.73
KOG0495	913	consensus HAT repeat protein [RNA processing and m	97.72
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	97.7
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	97.69
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	97.68
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	97.68
KOG4234	271	consensus TPR repeat-containing protein [General f	97.67
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	97.67
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	97.63
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	97.61
PRK14720	906	transcript cleavage factor/unknown domain fusion p	97.6
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.59
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	97.59
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.57
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.57
KOG0546	372	consensus HSP90 co-chaperone CPR7/Cyclophilin [Pos	97.56
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	97.56
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.53
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.53
PF13431	34	TPR_17: Tetratricopeptide repeat	97.52
PF13428	44	TPR_14: Tetratricopeptide repeat	97.51
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.51
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	97.5
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.49
PF12688	120	TPR_5: Tetratrico peptide repeat	97.46
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	97.45
COG5222	427	Uncharacterized conserved protein, contains RING Z	97.42
KOG1002	791	consensus Nucleotide excision repair protein RAD16	97.41
PRK10803	263	tol-pal system protein YbgF; Provisional	97.41
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.36
PF12968	144	DUF3856: Domain of Unknown Function (DUF3856); Int	97.36
PF04781	111	DUF627: Protein of unknown function (DUF627); Inte	97.3
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	97.29
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	97.29
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	97.27
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	97.25
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	97.25
PRK15331	165	chaperone protein SicA; Provisional	97.25
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	97.24
PF13512	142	TPR_18: Tetratricopeptide repeat	97.23
KOG3785	557	consensus Uncharacterized conserved protein [Funct	97.21
KOG0495	913	consensus HAT repeat protein [RNA processing and m	97.19
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	97.19
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	97.16
KOG4507	886	consensus Uncharacterized conserved protein, conta	97.15
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.11
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.08
KOG2376	652	consensus Signal recognition particle, subunit Srp	97.07
PF15015	569	NYD-SP12_N: Spermatogenesis-associated, N-terminal	97.06
KOG4555	175	consensus TPR repeat-containing protein [Function	96.98
KOG4648	536	consensus Uncharacterized conserved protein, conta	96.89
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.89
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.86
KOG3785	557	consensus Uncharacterized conserved protein [Funct	96.85
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.84
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	96.82
KOG0376	476	consensus Serine-threonine phosphatase 2A, catalyt	96.77
KOG3364	149	consensus Membrane protein involved in organellar	96.75
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	96.72
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	96.71
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	96.69
KOG4340	459	consensus Uncharacterized conserved protein [Funct	96.68
KOG3824	472	consensus Huntingtin interacting protein HYPE [Gen	96.66
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	96.65
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	96.59
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.54
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	96.5
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.49
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	96.47
KOG4340	459	consensus Uncharacterized conserved protein [Funct	96.47
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	96.47
KOG2471	696	consensus TPR repeat-containing protein [General f	96.4
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	96.38
KOG2376	652	consensus Signal recognition particle, subunit Srp	96.36
KOG0551	390	consensus Hsp90 co-chaperone CNS1 (contains TPR re	96.35
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.3
PRK10941	269	hypothetical protein; Provisional	96.25
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.21
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	96.21
KOG4367	699	consensus Predicted Zn-finger protein [Function un	96.16
KOG4151	748	consensus Myosin assembly protein/sexual cycle pro	96.13
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	96.1
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	96.09
PRK10941	269	hypothetical protein; Provisional	96.07
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.02
COG4976	287	Predicted methyltransferase (contains TPR repeat)	96.02
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.97
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	95.93
KOG0825	1134	consensus PHD Zn-finger protein [General function	95.93
KOG3824	472	consensus Huntingtin interacting protein HYPE [Gen	95.93
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	95.9
PF14561	90	TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S	95.79
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	95.79
KOG0545	329	consensus Aryl-hydrocarbon receptor-interacting pr	95.78
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.75
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	95.73
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	95.68
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	95.63
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	95.59
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	95.56
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	95.53
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	95.51
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	95.48
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	95.45
PLN03077	857	Protein ECB2; Provisional	95.41
COG5219	1525	Uncharacterized conserved protein, contains RING Z	95.4
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	95.4
KOG1915	677	consensus Cell cycle control protein (crooked neck	95.39
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.35
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	95.32
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	95.32
KOG4739	233	consensus Uncharacterized protein involved in syna	95.24
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	95.15
KOG4814	872	consensus Uncharacterized conserved protein [Funct	95.1
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	95.1
PF03704	146	BTAD: Bacterial transcriptional activator domain;	95.1
COG4700	251	Uncharacterized protein conserved in bacteria cont	95.04
KOG1001	674	consensus Helicase-like transcription factor HLTF/	95.01
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	94.98
COG4976	287	Predicted methyltransferase (contains TPR repeat)	94.97
KOG3039	303	consensus Uncharacterized conserved protein [Funct	94.96
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	94.94
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	94.81
KOG4507	886	consensus Uncharacterized conserved protein, conta	94.69
KOG1308	377	consensus Hsp70-interacting protein Hip/Transient	94.67
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	94.66
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	94.59
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	94.39
PF14561	90	TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S	94.36
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	94.36
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	94.25
KOG1586	288	consensus Protein required for fusion of vesicles	94.21
PF06957	422	COPI_C: Coatomer (COPI) alpha subunit C-terminus;	94.19
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.18
KOG2796	366	consensus Uncharacterized conserved protein [Funct	94.06
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.01
PRK04841	903	transcriptional regulator MalT; Provisional	94.0
PLN03218	1060	maturation of RBCL 1; Provisional	93.97
PLN03218	1060	maturation of RBCL 1; Provisional	93.97
PF04641	260	Rtf2: Rtf2 RING-finger	93.94
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	93.9
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	93.8
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	93.67
KOG4445	368	consensus Uncharacterized conserved protein, conta	93.63
KOG3039	303	consensus Uncharacterized conserved protein [Funct	93.61
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	93.44
COG5236	493	Uncharacterized conserved protein, contains RING Z	93.41
COG2912	269	Uncharacterized conserved protein [Function unknow	93.36
PF09986	214	DUF2225: Uncharacterized protein conserved in bact	93.31
PRK04841	903	transcriptional regulator MalT; Provisional	93.19
KOG1586	288	consensus Protein required for fusion of vesicles	93.17
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	93.12
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	93.1
KOG1585	308	consensus Protein required for fusion of vesicles	93.0
KOG1915	677	consensus Cell cycle control protein (crooked neck	92.94
KOG2610	491	consensus Uncharacterized conserved protein [Funct	92.91
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	92.9
PLN03077	857	Protein ECB2; Provisional	92.87
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	92.81
KOG2042	943	consensus Ubiquitin fusion degradation protein-2 [	92.75
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	92.67
COG2912	269	Uncharacterized conserved protein [Function unknow	92.6
KOG1941	518	consensus Acetylcholine receptor-associated protei	92.54
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	92.54
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	92.53
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	92.43
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	92.39
COG5175	480	MOT2 Transcriptional repressor [Transcription]	91.71
KOG3364	149	consensus Membrane protein involved in organellar	91.68
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	91.46
COG5191	435	Uncharacterized conserved protein, contains HAT (H	91.45
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	91.41
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	91.38
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	91.35
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	91.33
KOG0530	318	consensus Protein farnesyltransferase, alpha subun	91.32
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	90.94
PF10516	38	SHNi-TPR: SHNi-TPR; InterPro: IPR019544 The tetrat	90.93
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	90.91
PF07720	36	TPR_3: Tetratricopeptide repeat; InterPro: IPR0117	90.51
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	90.43
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	90.22
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	90.19
COG3914	620	Spy Predicted O-linked N-acetylglucosamine transfe	90.04
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	89.9
PHA02537	230	M terminase endonuclease subunit; Provisional	89.52
PRK13184	932	pknD serine/threonine-protein kinase; Reviewed	89.49
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	89.12
KOG0298	1394	consensus DEAD box-containing helicase-like transc	88.67
KOG2471	696	consensus TPR repeat-containing protein [General f	88.43
COG3629	280	DnrI DNA-binding transcriptional activator of the	88.1
KOG0292	1202	consensus Vesicle coat complex COPI, alpha subunit	87.84
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	87.64
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	87.62
COG3898	531	Uncharacterized membrane-bound protein [Function u	87.53
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	87.45
KOG1585	308	consensus Protein required for fusion of vesicles	87.27
cd02682	75	MIT_AAA_Arch MIT: domain contained within Microtub	86.79
KOG3002	299	consensus Zn finger protein [General function pred	86.68
PF10516	38	SHNi-TPR: SHNi-TPR; InterPro: IPR019544 The tetrat	86.56
PF12862	94	Apc5: Anaphase-promoting complex subunit 5	86.13
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	86.12
COG4941	415	Predicted RNA polymerase sigma factor containing a	85.81
PF14863	141	Alkyl_sulf_dimr: Alkyl sulfatase dimerisation; PDB	84.37
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	84.23
COG3914	620	Spy Predicted O-linked N-acetylglucosamine transfe	84.14
PF10373	278	EST1_DNA_bind: Est1 DNA/RNA binding domain; InterP	84.0
PF12862	94	Apc5: Anaphase-promoting complex subunit 5	83.49
PHA03096	284	p28-like protein; Provisional	83.44
KOG0546	372	consensus HSP90 co-chaperone CPR7/Cyclophilin [Pos	83.29
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	83.12
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	83.11
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	83.09
PF10373	278	EST1_DNA_bind: Est1 DNA/RNA binding domain; InterP	83.01
PF07720	36	TPR_3: Tetratricopeptide repeat; InterPro: IPR0117	82.95
COG5191	435	Uncharacterized conserved protein, contains HAT (H	82.84
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	82.77
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	82.6
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	82.52
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	82.23
KOG2979	262	consensus Protein involved in DNA repair [General	81.69
COG3629	280	DnrI DNA-binding transcriptional activator of the	81.23
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	80.67
PF14863	141	Alkyl_sulf_dimr: Alkyl sulfatase dimerisation; PDB	80.08
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	80.07

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

Probab=99.95  E-value=3.9e-27  Score=251.74  Aligned_cols=192  Identities=17%  Similarity=0.241  Sum_probs=162.3

Q ss_pred             Cccceeee--ccCCCCccCcccCchHHHHHHHHHHhCCceeEEEEeCC------CCCccccccceEEEEEeeecCCceEE
Q 012162          263 LMPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDP------TTGSVADFACEVEITECEPLPDGRFV  334 (469)
Q Consensus       263 ~lPl~~l~--v~fP~~~~~l~i~~~~~~~~~~~~~~~~~~~~l~~~~~------~~~~~~~~G~~~~I~~~~~~~dg~~~  334 (469)
                      .+|+||++  |+|||+.+||+||+++|+.|++.++.+++.||++++..      ...++|++||+|+|.++.+++||++.
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  99999999999999999999999999999999999842      22478999999999999999999999


Q ss_pred             EEEEeccceEEeeeeccCCeeEEEEEEecCCCCCCcchhhhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhcC
Q 012162          335 LEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVM  414 (469)
Q Consensus       335 v~~~g~~R~~i~~~~~~~~~~~a~ve~~~d~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  414 (469)
                      |.++|.+||+|.++.+.+||+.|+|+++++...+    ..+..++.+.+.+.+.++.......+.       +...   .
T Consensus        90 Ilv~Gl~RfrI~~~~~~~py~~A~Ve~l~~~~~~----~~e~~al~~~ll~~~~~~~~l~~~~~~-------e~~~---~  155 (784)
T PRK10787         90 VLVEGLQRARISALSDNGEHFSAKAEYLESPTID----EREQEVLVRTAISQFEGYIKLNKKIPP-------EVLT---S  155 (784)
T ss_pred             EEEEEEEEEEEEEEEcCCCCEEEEEEEecCCCCC----chHHHHHHHHHHHHHHHHHHhcccCCH-------HHHh---h
Confidence            9999999999999988999999999999874321    134456677777777777765543332       1111   1


Q ss_pred             CCCCCCcchhHHHHHhcCCCChhHhhhhccCCCHHHHHHHHHHHHHhhhccccC
Q 012162          415 MPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAEEQGCRL  468 (469)
Q Consensus       415 ~~~~~~p~~l~~~ia~~l~l~~~~kq~lLe~~~~~eRl~~l~~~l~~~~~~~~~  468 (469)
                      +...+||++++|++|++++++.++||+|||+.|+.+|+++++.+|.++++.-.+
T Consensus       156 ~~~~ddp~~Lad~iA~~Lpl~~~eKQ~LLE~~d~~eRLe~Ll~lL~~Eleil~l  209 (784)
T PRK10787        156 LNSIDDPARLADTIAAHMPLKLADKQSVLEMSDVNERLEYLMAMMESEIDLLQV  209 (784)
T ss_pred             hhccccHHHHHHHHHHHCCCCHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            345789999999999999999999999999999999999999999998876543

>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=99.94  E-value=1.5e-26  Score=212.28  Aligned_cols=189  Identities=28%  Similarity=0.515  Sum_probs=131.8

Q ss_pred             ccceeee--ccCCCCccCcccCchHHHHHHHHHHhCCce-eEEEEe---C-----CCCCccccccceEEEEEeeecCCce
Q 012162          264 MPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGNHR-MGMVII---D-----PTTGSVADFACEVEITECEPLPDGR  332 (469)
Q Consensus       264 lPl~~l~--v~fP~~~~~l~i~~~~~~~~~~~~~~~~~~-~~l~~~---~-----~~~~~~~~~G~~~~I~~~~~~~dg~  332 (469)
                      +|+||++  |+|||+.+|+++++++++.|+++++.+++. ||+++.   .     +...++|.+||+|+|.++...+||+
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  999999999999999999999999998775 888877   1     2345789999999999999999999


Q ss_pred             EEEEEEeccceEEeee---eccCCeeEEEEEEecCC-CCCCcchhhhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHh
Q 012162          333 FVLEIESRRRFRILRS---WDQDGYRVAEIEWVQDI-HPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKL  408 (469)
Q Consensus       333 ~~v~~~g~~R~~i~~~---~~~~~~~~a~ve~~~d~-~~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~~l~~~  408 (469)
                      +.|.++|.+||+|.++   ...+||++|+|++++|. +....+...++.++...+.+.+.++.........   .   . 
T Consensus        82 ~~v~~~g~~R~ki~~~~~~~~~~~~~~a~v~~l~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~---~-  154 (205)
T PF02190_consen   82 YKVLVQGLQRFKILKINNETQEDPYLVAEVEPLEDVEPPESDELDEEIKALLRELIKKIKEAYENLKELLP---W---D-  154 (205)
T ss_dssp             EEEEEEEEEEEEEEEEEE--ECSSCEEEEEEEE-----GCGHHHHHHHHHHHHHHHHHHH---HHHCCC-C---H---H-
T ss_pred             EEEEEEEEEEEEEEEEecccccCCceEEEEEEecccCccchhhhHHHHHHHHHHHHHHHHHHHHhhhcccc---h---h-
Confidence            9999999999999999   56899999999999873 3322222334444444444443321111111100   0   0 


Q ss_pred             hhhhcCCCCCCCcchhHHHHHhcCCCChhHhhhhccCCCHHHHHHHHHHHHHh
Q 012162          409 LNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRA  461 (469)
Q Consensus       409 ~~~~~~~~~~~~p~~l~~~ia~~l~l~~~~kq~lLe~~~~~eRl~~l~~~l~~  461 (469)
                        ....+...++|..|+||+|++++++.++||+||++.|+.+|++.++++|++
T Consensus       155 --~~~~~~~~~~~~~l~~~~~~~l~~~~~ek~~lL~~~~~~~Rl~~l~~~L~~  205 (205)
T PF02190_consen  155 --LLLKINNPDNPPELADFVASLLPLSPEEKQELLETDDLKERLKLLIELLKK  205 (205)
T ss_dssp             --HHHHTTTHHHHHHHHHHHHHHS---HHHHHHHHC--SHHHHHHHHHHHHH-
T ss_pred             --hhhhhhccCCHHHHHHHHHHhCCCCHHHHHHHHcCCCHHHHHHHHHHHhcC
Confidence              011134567788899999999999999999999999999999999999975

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=3.3e-25  Score=194.68  Aligned_cols=188  Identities=29%  Similarity=0.453  Sum_probs=148.0

Q ss_pred             CCccceeee--ccCCCCccCcccCchHHHHHHHHHHhCCceeEEEEeCCC---CC----ccccccceEEEEEeeecCCce
Q 012162          262 DLMPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPT---TG----SVADFACEVEITECEPLPDGR  332 (469)
Q Consensus       262 ~~lPl~~l~--v~fP~~~~~l~i~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~----~~~~~G~~~~I~~~~~~~dg~  332 (469)
                      ..+|+||++  |+|||..+|++||++||..|++.|+++++.||++..++.   .+    .+..|||+++|+++...+||+
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            459999995  999999999999999999999999999999999999762   22    678999999999999999999


Q ss_pred             EEEEEEeccceEEeeeec-cCCeeEEEEEEecCCCCCCcchhhhHHHHHH-HHHHHHHHHHHHHHHHHHHhHHHHHHhhh
Q 012162          333 FVLEIESRRRFRILRSWD-QDGYRVAEIEWVQDIHPEGVEDRADLQDLTN-NAAEYARLWLRREKESARQDRRRLEKLLN  410 (469)
Q Consensus       333 ~~v~~~g~~R~~i~~~~~-~~~~~~a~ve~~~d~~~~~~~~~~~l~~l~~-~l~~~~~~~~~~~~~~~~~~~~~l~~~~~  410 (469)
                      +.|.++|.+||||.++.. .+||..+++++++|.+..... ..+++.... .+...++.|.+...-.        .+|..
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 899999999999986543221 122222111 1222233333221110        12222


Q ss_pred             hhcCCCCCCCcchhHHHHHhcCCCChhHhhhhccCCCHHHHHHHHHHHHHhhh
Q 012162          411 VEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAEE  463 (469)
Q Consensus       411 ~~~~~~~~~~p~~l~~~ia~~l~l~~~~kq~lLe~~~~~eRl~~l~~~l~~~~  463 (469)
                           -...++.++++.++..+|+++.+||.+|+..|+..|+..++.+++.-.
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                 235778999999999999999999999999999999999999987644

>TIGR00763 lon ATP-dependent protease La

Probab=99.93  E-value=2.2e-25  Score=240.81  Aligned_cols=192  Identities=19%  Similarity=0.304  Sum_probs=159.5

Q ss_pred             cceeee--ccCCCCccCcccCchHHHHHHHHHHhCCceeE-EEEeCC------CCCccccccceEEEEEeeecCC---ce
Q 012162          265 PLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMG-MVIIDP------TTGSVADFACEVEITECEPLPD---GR  332 (469)
Q Consensus       265 Pl~~l~--v~fP~~~~~l~i~~~~~~~~~~~~~~~~~~~~-l~~~~~------~~~~~~~~G~~~~I~~~~~~~d---g~  332 (469)
                      |+||++  |+|||+.+||+||+++|+.|+++++.+++.|+ ++++..      ...++|.+||+|+|+++.+++|   |+
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 666632      2347999999999999999555   99


Q ss_pred             EEEEEEeccceEEeeeeccCCeeEEEEEEecCCCCCCcchhhhHHHHHHHHHHHHHHHHHHHH--HHHHHhHHHHHHhhh
Q 012162          333 FVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREK--ESARQDRRRLEKLLN  410 (469)
Q Consensus       333 ~~v~~~g~~R~~i~~~~~~~~~~~a~ve~~~d~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~~--~~~~~~~~~l~~~~~  410 (469)
                      +.|.++|.+||+|.++.+++||+.|+|+++++.+..  .+..++.++.+.+.+.+.++.....  ..+..      .+..
T Consensus        81 ~~Ilv~G~~R~rI~~~~~~~p~~~A~V~~l~~~~~~--~~~~e~~al~~~l~~~~~el~~l~~l~~~~~e------~~~~  152 (775)
T TIGR00763        81 YKVVVEGLRRIRIKELSDKGGYLVVRVDNLKEEPFD--KDDEEIKALTREIKETFRELISLSKLFREQPA------LLSA  152 (775)
T ss_pred             EEEEEEEEEEEEEEEEecCCCcEEEEEEEecCcCCC--CCcHHHHHHHHHHHHHHHHHHHhCccccCCHH------HHHH
Confidence            999999999999999999999999999999875321  1224577888888888888876554  22220      1111


Q ss_pred             hhcCCCCCCCcchhHHHHHhcCCCC-hhHhhhhccCCCHHHHHHHHHHHHHhhhccccC
Q 012162          411 VEVMMPPSQDPERFSFWLATLSDRR-PSERLELLRIRDTRERIRRGLIFLRAEEQGCRL  468 (469)
Q Consensus       411 ~~~~~~~~~~p~~l~~~ia~~l~l~-~~~kq~lLe~~~~~eRl~~l~~~l~~~~~~~~~  468 (469)
                          +...++|++++|++|++|+++ .++||+|||+.|+.+|+++++.+|.++++.-.+
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                344689999999999999999 999999999999999999999999998865443

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.

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

Probab=99.92  E-value=2.6e-24  Score=217.20  Aligned_cols=193  Identities=21%  Similarity=0.291  Sum_probs=168.3

Q ss_pred             Cccceeee--ccCCCCccCcccCchHHHHHHHHHHhCC-ceeEEEEeC------CCCCccccccceEEEEEeeecCCceE
Q 012162          263 LMPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGN-HRMGMVIID------PTTGSVADFACEVEITECEPLPDGRF  333 (469)
Q Consensus       263 ~lPl~~l~--v~fP~~~~~l~i~~~~~~~~~~~~~~~~-~~~~l~~~~------~~~~~~~~~G~~~~I~~~~~~~dg~~  333 (469)
                      .+|++|++  |+||++.+|+.++++++..+++.+|.++ +.+++++|.      |..+++|.+||+|+|.++.++|||++
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 889999984      23358999999999999999999999


Q ss_pred             EEEEEeccceEEeeeeccCCeeEEEEEEecCCCCCCcchhhhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhc
Q 012162          334 VLEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEV  413 (469)
Q Consensus       334 ~v~~~g~~R~~i~~~~~~~~~~~a~ve~~~d~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  413 (469)
                      +|+++|.+|++|.++...++++.|.++.+++.+.++   ..+++++.+.+...+.+++......+.       +.+..  
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            999999999999999999999999999998854331   356789999999999999988765443       22222  


Q ss_pred             CCCCCCCcchhHHHHHhcCCCChhHhhhhccCCCHHHHHHHHHHHHHhhhccccC
Q 012162          414 MMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAEEQGCRL  468 (469)
Q Consensus       414 ~~~~~~~p~~l~~~ia~~l~l~~~~kq~lLe~~~~~eRl~~l~~~l~~~~~~~~~  468 (469)
                       +...++|+.++|.+|++++++.+++|++||+.|+.+||+.++.+|.+++..-++
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             235789999999999999999999999999999999999999999998865443

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

Probab=99.91  E-value=2.4e-24  Score=209.17  Aligned_cols=288  Identities=31%  Similarity=0.575  Sum_probs=214.1

Q ss_pred             CCCCCCCccccccccccccccccEEccCCCcccHHHHHHHcccCCCccccccccccCC---CcccCcccHHHHHHHhchH
Q 012162          168 IHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITP---RTCAVSVTLNSIIQKNFPE  244 (469)
Q Consensus       168 ~~~~~~~~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~~~~---~~~~~~~~l~~~~~~~~~~  244 (469)
                      ..+..+...++.|.+|...+..||++||||+||..||.+.++....||.||.++...+   ....+|..+..++.+|+++
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            3344455789999999999999999999999999999999988889999999884211   1122366677888888888


Q ss_pred             HHHHhhhhccc---cccccCCCccceeee-ccCCCCccCcccCchHHHHHHHHHHhC-CceeEEEEeCCCCCc--ccccc
Q 012162          245 EYAERKSEHDS---LINFGVDLMPLFVMD-VVIPCQRFPLHIFEPRYRLMVRRIMEG-NHRMGMVIIDPTTGS--VADFA  317 (469)
Q Consensus       245 ~~~~~~~~~~~---~~~~~~~~lPl~~l~-v~fP~~~~~l~i~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~--~~~~G  317 (469)
                      ....+...++.   .-.......|+|++. +.||....|+++|+++|..|++++++. +.+|++++.+...+.  .+.+|
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            77633222211   111233458999876 899999999999999999999999986 679999998766554  78999


Q ss_pred             ceEEEEEeeecCCceEEEEEEeccceEEeeeeccCCeeEEEEEEecCCC---CCCcchhhhHHHHHHHHHHHHHHHHHHH
Q 012162          318 CEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWVQDIH---PEGVEDRADLQDLTNNAAEYARLWLRRE  394 (469)
Q Consensus       318 ~~~~I~~~~~~~dg~~~v~~~g~~R~~i~~~~~~~~~~~a~ve~~~d~~---~~~~~~~~~l~~l~~~l~~~~~~~~~~~  394 (469)
                      |+.+|..+..+.||+..+...|..||++......++|.+|+|++++|.+   ....+..+.+..++..+......|.+..
T Consensus       235 ~i~ei~~v~~l~dgrsv~~~~gk~r~r~~~~~~~d~y~~~~ve~l~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v  314 (398)
T KOG4159|consen  235 CILEIRKVESLGDGRSVVDSIGKSRFRVLLFSQTDGYPVADVEYLEDRPAVKVEGHDEPETLVELMKEVVKKECLWFESV  314 (398)
T ss_pred             chhhhcccccccccchhhhhhcCcceeeeeecCCCcceeeeeeeeeCcHHhhhccchhchhHHHHHHHHHHhhhhhhhcc
Confidence            9999999999999999999999999999999999999999999999843   1111112223334444444444444433


Q ss_pred             HHHHHHhHHHHHHhhhhhcCC-------CCCCCcchhHHHHHhcCCCChhHhhhhccCCCHHHHHHHHHHHHHh
Q 012162          395 KESARQDRRRLEKLLNVEVMM-------PPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRA  461 (469)
Q Consensus       395 ~~~~~~~~~~l~~~~~~~~~~-------~~~~~p~~l~~~ia~~l~l~~~~kq~lLe~~~~~eRl~~l~~~l~~  461 (469)
                      ......      .+...++.+       ....+-..+++|....++++...+-.++.+.++.+|+.....++..
T Consensus       315 ~~~~~~------~~~~~~~~~p~le~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~sl~~~l~~~~~~~t~  382 (398)
T KOG4159|consen  315 ADPMKG------RLLVHFGCMPFLEINFECLESGPAWCWWKTALLPSEARLKSEFLAMRSLKNRLTAIDRELTL  382 (398)
T ss_pred             chhhhh------hhhhcccccccchhchhhhccchHHHHHHHhcCCcHHHHHHHHHhccchhhhhcccchhhhh
Confidence            222221      111121111       1234677889999999999999999999999999998877766653

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

Probab=99.84  E-value=9.7e-21  Score=173.67  Aligned_cols=125  Identities=23%  Similarity=0.392  Sum_probs=121.5

Q ss_pred             hhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHH
Q 012162           17 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE   96 (469)
Q Consensus        17 ~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (469)
                      +....++.++.+|+.+++.++|.+|+..|++||+++|+|+.+|.|||.+|.++|.|                       +
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            57788999999999999999999999999999999999999999999999999999                       9


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhhh
Q 012162           97 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLI  164 (469)
Q Consensus        97 ~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~  164 (469)
                      .|+++++.||.+||.+.++|-++|.+|..+|+|++|++.|++||+++|+|..+++.++.++.++....
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            99999999999999999999999999999999999999999999999999999999999999888766

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

Probab=99.72  E-value=2.4e-17  Score=145.85  Aligned_cols=204  Identities=22%  Similarity=0.311  Sum_probs=165.9

Q ss_pred             hhhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhH
Q 012162           16 WDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA   95 (469)
Q Consensus        16 ~~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (469)
                      +.++..+..+...|+.+|....|..||.+|.+||.++|..+..|.|+|.||+++++|                       
T Consensus         4 ~~~s~~a~qlkE~gnk~f~~k~y~~ai~~y~raI~~nP~~~~Y~tnralchlk~~~~-----------------------   60 (284)
T KOG4642|consen    4 PEMSESAEQLKEQGNKCFIPKRYDDAIDCYSRAICINPTVASYYTNRALCHLKLKHW-----------------------   60 (284)
T ss_pred             cccchHHHHHHhccccccchhhhchHHHHHHHHHhcCCCcchhhhhHHHHHHHhhhh-----------------------
Confidence            445666889999999999999999999999999999999999999999999999999                       


Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCC-----CchhHHHHHHHHH------------
Q 012162           96 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF-----SNPLQASLQNLER------------  158 (469)
Q Consensus        96 ~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~-----~~~~~~~~~~~~~------------  158 (469)
                      +.+..++.+|++++|+..+++|.+|.++.....|++|+..+.+|+.+.-.     -.++.+.+..+++            
T Consensus        61 ~~v~~dcrralql~~N~vk~h~flg~~~l~s~~~~eaI~~Lqra~sl~r~~~~~~~~di~~~L~~ak~~~w~v~e~~Ri~  140 (284)
T KOG4642|consen   61 EPVEEDCRRALQLDPNLVKAHYFLGQWLLQSKGYDEAIKVLQRAYSLLREQPFTFGDDIPKALRDAKKKRWEVSEEKRIR  140 (284)
T ss_pred             hhhhhhHHHHHhcChHHHHHHHHHHHHHHhhccccHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHhCccchhHHHHHH
Confidence            99999999999999999999999999999999999999999999654211     1122222222111            


Q ss_pred             -----------h--------hhhhhcc---------------------------------cCCCCCCCcccccccccccc
Q 012162          159 -----------T--------TASLIGR---------------------------------RIHGTPERTDDFDCTLCLKL  186 (469)
Q Consensus       159 -----------~--------~~~~~~~---------------------------------~~~~~~~~~~~~~C~ic~~~  186 (469)
                                 .        +.....+                                 ...+.....+.+.|.|.+++
T Consensus       141 Q~~El~~yl~slie~~~~~~~s~~~~N~~sde~~k~~q~~~~~~~d~~~kel~elf~~v~e~rk~rEvpd~lcgkIt~el  220 (284)
T KOG4642|consen  141 QELELHSYLESLIEGDRERELSEWQENGESDEHLKTMQVPIEQDHDHTTKELSELFSKVDEKRKKREVPDYLCGKITLEL  220 (284)
T ss_pred             HHhhHHHHHHHHhccchhhHHHHHHHcCCChHHHhhhcchhHHHHHHHHHHHHHHHHHHHHHhccccccchhhhhhhHHh
Confidence                       0        0100000                                 12244555666777999999


Q ss_pred             ccccEEccCCCcccHHHHHHHccc-CCCccccccccccCCCcccCcccHHHHHHHhchH
Q 012162          187 LYEPITTPCGHSFCRSCLFQSMDR-GNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPE  244 (469)
Q Consensus       187 ~~~p~~~~cgh~~C~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~~~  244 (469)
                      +.+|+++|.|-+|-+.=|.+++.. +...|+.|.++.  +.++.+|..|+..|..|+.+
T Consensus       221 ~~~pvi~psgIty~ra~I~Ehl~rvghfdpvtr~~Lt--e~q~ipN~alkevIa~fl~~  277 (284)
T KOG4642|consen  221 MREPVITPSGITYDRADIEEHLQRVGHFDPVTRWPLT--EYQLIPNLALKEVIAAFLKE  277 (284)
T ss_pred             hcCCccCccccchhHHHHHHHHHHhccCCchhcccCC--HHhhccchHHHHHHHHHHHh
Confidence            999999999999999999999875 668999999984  46889999999999888654

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

Probab=99.62  E-value=1.8e-15  Score=148.31  Aligned_cols=116  Identities=29%  Similarity=0.480  Sum_probs=112.1

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      +.....+|+.+|+.|||..|+.+|++||+.+|+|+.+|.|||.||.+++.+                       ..|+.+
T Consensus       358 A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~P~Da~lYsNRAac~~kL~~~-----------------------~~aL~D  414 (539)
T KOG0548|consen  358 AEEEREKGNEAFKKGDYPEAVKHYTEAIKRDPEDARLYSNRAACYLKLGEY-----------------------PEALKD  414 (539)
T ss_pred             HHHHHHHHHHHHhccCHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhhH-----------------------HHHHHH
Confidence            677788999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhh
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  160 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~  160 (469)
                      ++.+++++|++.++|++.|.++..+.+|++|++.|.+++++||++.++...+.++-.++
T Consensus       415 a~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eale~dp~~~e~~~~~~rc~~a~  473 (539)
T KOG0548|consen  415 AKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEALELDPSNAEAIDGYRRCVEAQ  473 (539)
T ss_pred             HHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999988887765

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

Probab=99.62  E-value=1.7e-15  Score=148.62  Aligned_cols=113  Identities=35%  Similarity=0.461  Sum_probs=110.4

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      +..++.+|+.+|..|||+.|+.+|+.||.++|.|+.+|.||+.+|..+|+|                       ++|+++
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 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  157 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~  157 (469)
                      ..+.++++|+|+++|.++|.++..+|+|++|+..|.++|+.+|+|+.+..++..++
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            99999999999999999999999999999999999999999999999999999888

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=99.58  E-value=1.2e-14  Score=124.97  Aligned_cols=116  Identities=12%  Similarity=0.165  Sum_probs=109.7

Q ss_pred             HHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHH
Q 012162           24 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  103 (469)
Q Consensus        24 ~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~  103 (469)
                      .+...|..++..|+|++|+..|++++.++|.++.+|.++|.++..+|++                       ++|+..++
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            4667899999999999999999999999999999999999999999999                       99999999


Q ss_pred             HHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhh
Q 012162          104 KLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus       104 ~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                      ++++++|+++.+++++|.++..+|++++|+..|+++++++|+++........++..+..
T Consensus        83 ~Al~l~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~~~~~~~~~~~~l~~  141 (144)
T PRK15359         83 HALMLDASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYADASWSEIRQNAQIMVDT  141 (144)
T ss_pred             HHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999998888777766554

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

Probab=99.57  E-value=1.5e-14  Score=124.96  Aligned_cols=123  Identities=25%  Similarity=0.366  Sum_probs=115.4

Q ss_pred             hhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC-----cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCch
Q 012162           19 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD-----PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT   93 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~-----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (469)
                      ...+..++..|+.+|..|+|++|...|+.||++-|..     +.+|.|+|.|+++++.+                     
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            4568889999999999999999999999999999975     47899999999999999                     


Q ss_pred             hHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhhh
Q 012162           94 HAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLI  164 (469)
Q Consensus        94 ~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~  164 (469)
                        +.|+.++.+||+++|.+.+|+.++|.+|.++.+|++|+.+|++.++++|....++..+.++...+...+
T Consensus       151 --e~aI~dcsKaiel~pty~kAl~RRAeayek~ek~eealeDyKki~E~dPs~~ear~~i~rl~~~i~ern  219 (271)
T KOG4234|consen  151 --ESAIEDCSKAIELNPTYEKALERRAEAYEKMEKYEEALEDYKKILESDPSRREAREAIARLPPKINERN  219 (271)
T ss_pred             --HHHHHHHHhhHhcCchhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCcchHHHHHHHHhcCHHHHHHH
Confidence              999999999999999999999999999999999999999999999999999999999998888776654

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

Probab=99.56  E-value=1.5e-14  Score=138.53  Aligned_cols=126  Identities=25%  Similarity=0.402  Sum_probs=116.2

Q ss_pred             hhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC---------------cccccchhHHHHHHHhhhccCCCCCc
Q 012162           17 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---------------PIVLGNRSSAYIRISQFLKHRPPSAS   81 (469)
Q Consensus        17 ~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~---------------~~~~~~~a~~~~~~~~~~~~~~~~~~   81 (469)
                      +....+......|+.+|+.|+|..|+..|++|++.-+..               ..+|.|+|.||.++++|         
T Consensus       203 e~l~~A~~~ke~Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~---------  273 (397)
T KOG0543|consen  203 ERLEAADRKKERGNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEY---------  273 (397)
T ss_pred             HHHHHHHHHHHhhhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhH---------
Confidence            466778889999999999999999999999998874422               27899999999999999         


Q ss_pred             ccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhh
Q 012162           82 EYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  161 (469)
Q Consensus        82 ~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~  161 (469)
                                    .+|+..+.++|.++|+|.+|+|++|.++..+|+|+.|+.+|+++++++|+|+.+...+..+.++++
T Consensus       274 --------------~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~k~~  339 (397)
T KOG0543|consen  274 --------------KEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLKQKIR  339 (397)
T ss_pred             --------------HHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHH
Confidence                          999999999999999999999999999999999999999999999999999999999999998887


Q ss_pred             hhhc
Q 012162          162 SLIG  165 (469)
Q Consensus       162 ~~~~  165 (469)
                      ....
T Consensus       340 ~~~~  343 (397)
T KOG0543|consen  340 EYEE  343 (397)
T ss_pred             HHHH
Confidence            7654

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

Probab=99.55  E-value=1.4e-14  Score=143.41  Aligned_cols=118  Identities=26%  Similarity=0.421  Sum_probs=113.7

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHH
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  102 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~  102 (469)
                      ..+..+|+.++..|+|++|+.+|++|++++|+++.+|+++|.+|+.+|++                       ++|+.++
T Consensus         3 ~~l~~~a~~a~~~~~~~~Ai~~~~~Al~~~P~~~~a~~~~a~~~~~~g~~-----------------------~eAl~~~   59 (356)
T PLN03088          3 KDLEDKAKEAFVDDDFALAVDLYTQAIDLDPNNAELYADRAQANIKLGNF-----------------------TEAVADA   59 (356)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH-----------------------HHHHHHH
Confidence            45788999999999999999999999999999999999999999999999                       9999999


Q ss_pred             HHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhh
Q 012162          103 EKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  163 (469)
Q Consensus       103 ~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~  163 (469)
                      +++++++|+++.+|+++|.+|..+|+|++|+.+|+++++++|++..+...+..++..+...
T Consensus        60 ~~Al~l~P~~~~a~~~lg~~~~~lg~~~eA~~~~~~al~l~P~~~~~~~~l~~~~~kl~~~  120 (356)
T PLN03088         60 NKAIELDPSLAKAYLRKGTACMKLEEYQTAKAALEKGASLAPGDSRFTKLIKECDEKIAEE  120 (356)
T ss_pred             HHHHHhCcCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhh
Confidence            9999999999999999999999999999999999999999999999999999999888654

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

Probab=99.53  E-value=3.5e-14  Score=131.91  Aligned_cols=119  Identities=25%  Similarity=0.341  Sum_probs=111.4

Q ss_pred             hhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHH
Q 012162           19 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA   98 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A   98 (469)
                      ......++.+|+.||++|.|++||.+|.+++.++|.|+..+.|||.+|+++++|                       ..|
T Consensus        94 L~~~SEiKE~GN~yFKQgKy~EAIDCYs~~ia~~P~NpV~~~NRA~AYlk~K~F-----------------------A~A  150 (536)
T KOG4648|consen   94 LKKASEIKERGNTYFKQGKYEEAIDCYSTAIAVYPHNPVYHINRALAYLKQKSF-----------------------AQA  150 (536)
T ss_pred             HHhhHHHHHhhhhhhhccchhHHHHHhhhhhccCCCCccchhhHHHHHHHHHHH-----------------------HHH
Confidence            445667899999999999999999999999999999999999999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhh
Q 012162           99 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  160 (469)
Q Consensus        99 ~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~  160 (469)
                      ..+|..|+.+|-.+.+||.++|.+-..+|...+|..+++.+|++.|++.+++..++.+....
T Consensus       151 E~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg~~~EAKkD~E~vL~LEP~~~ELkK~~a~i~Sl~  212 (536)
T KOG4648|consen  151 EEDCEAAIALDKLYVKAYSRRMQARESLGNNMEAKKDCETVLALEPKNIELKKSLARINSLR  212 (536)
T ss_pred             HHhHHHHHHhhHHHHHHHHHHHHHHHHHhhHHHHHHhHHHHHhhCcccHHHHHHHHHhcchH
Confidence            99999999999999999999999999999999999999999999999998888777765543

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

Probab=99.45  E-value=7.3e-13  Score=112.71  Aligned_cols=118  Identities=10%  Similarity=0.111  Sum_probs=110.6

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ++......|..++..|++++|+..|++++..+|+++.++.++|.++..+|++                       ++|+.
T Consensus        16 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~-----------------------~~A~~   72 (135)
T TIGR02552        16 QLEQIYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEY-----------------------EEAID   72 (135)
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHH-----------------------HHHHH
Confidence            3566888999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhh
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  161 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~  161 (469)
                      .++++++++|+++..++.+|.++...|++++|+..|+++++++|++.........+.+.+.
T Consensus        73 ~~~~~~~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~  133 (135)
T TIGR02552        73 AYALAAALDPDDPRPYFHAAECLLALGEPESALKALDLAIEICGENPEYSELKERAEAMLE  133 (135)
T ss_pred             HHHHHHhcCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999999999999999998877777766553

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

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=99.42  E-value=1.3e-12  Score=110.99  Aligned_cols=121  Identities=9%  Similarity=-0.021  Sum_probs=109.8

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      ...+.++..|..++..|++++|...|+-...+||.++..|+++|.++..+|+|                       .+|+
T Consensus        33 ~~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~-----------------------~~AI   89 (157)
T PRK15363         33 QPLNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHW-----------------------GEAI   89 (157)
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhH-----------------------HHHH
Confidence            45678889999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhh
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  163 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~  163 (469)
                      ..|.+|+.++|+++.++++.|.++..+|+.+.|++.|+.|+...-.++......++.+..+...
T Consensus        90 ~aY~~A~~L~~ddp~~~~~ag~c~L~lG~~~~A~~aF~~Ai~~~~~~~~~~~l~~~A~~~L~~l  153 (157)
T PRK15363         90 YAYGRAAQIKIDAPQAPWAAAECYLACDNVCYAIKALKAVVRICGEVSEHQILRQRAEKMLQQL  153 (157)
T ss_pred             HHHHHHHhcCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHHhccChhHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999999999998866666655566666655443

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

Probab=99.40  E-value=1e-12  Score=127.48  Aligned_cols=100  Identities=30%  Similarity=0.478  Sum_probs=95.2

Q ss_pred             hhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHH
Q 012162           17 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE   96 (469)
Q Consensus        17 ~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (469)
                      +..+.+..++.+|+.+|+.|+|++||.+|++||++.|+.|..|.|||.||..+|+|                       .
T Consensus       110 ~~~k~A~~lK~~GN~~f~~kkY~eAIkyY~~AI~l~p~epiFYsNraAcY~~lgd~-----------------------~  166 (606)
T KOG0547|consen  110 ERLKYAAALKTKGNKFFRNKKYDEAIKYYTQAIELCPDEPIFYSNRAACYESLGDW-----------------------E  166 (606)
T ss_pred             HHHHHHHHHHhhhhhhhhcccHHHHHHHHHHHHhcCCCCchhhhhHHHHHHHHhhH-----------------------H
Confidence            45667899999999999999999999999999999999999999999999999999                       9


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhcc
Q 012162           97 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSG  139 (469)
Q Consensus        97 ~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~a  139 (469)
                      +.++++.+|++++|++.+++++++.++..+|++++|+.+..-.
T Consensus       167 ~Vied~TkALEl~P~Y~KAl~RRA~A~E~lg~~~eal~D~tv~  209 (606)
T KOG0547|consen  167 KVIEDCTKALELNPDYVKALLRRASAHEQLGKFDEALFDVTVL  209 (606)
T ss_pred             HHHHHHHHHhhcCcHHHHHHHHHHHHHHhhccHHHHHHhhhHH
Confidence            9999999999999999999999999999999999999887643

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

Probab=99.38  E-value=2.2e-12  Score=117.00  Aligned_cols=117  Identities=12%  Similarity=0.148  Sum_probs=105.6

Q ss_pred             hhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHH-HHHHh--hhccCCCCCcccCccCCCCCchhH
Q 012162           19 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAY-IRISQ--FLKHRPPSASEYRPLNGLDPTTHA   95 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~-~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~   95 (469)
                      ..++..|...|..+...|++++|+..|++|++++|+++.++.++|.++ ...|+  +                       
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            345788999999999999999999999999999999999999999985 66676  5                       


Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHH
Q 012162           96 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  158 (469)
Q Consensus        96 ~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~  158 (469)
                      .+|...++++++++|+++.+++.+|.+++..|+|++|+.+|+++++++|.+.+-...+++++.
T Consensus       127 ~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~~~~~~r~~~i~~i~~  189 (198)
T PRK10370        127 PQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKVLDLNSPRVNRTQLVESINM  189 (198)
T ss_pred             HHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCccHHHHHHHHHH
Confidence            899999999999999999999999999999999999999999999999987776666655544

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

Probab=99.33  E-value=1.8e-12  Score=128.91  Aligned_cols=116  Identities=26%  Similarity=0.272  Sum_probs=101.2

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ..+|++.|+.+-..+.|+.|+.+|.+|+.+.|+++.+|-|+|.+|+..|..                       +.|+..
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            567888888888888888888888888888888888888888888888888                       899999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhh
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  160 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~  160 (469)
                      ++++++++|+.+.||.++|.++-..|+..+|.+.|.+||.+.|+.+++...+..+.+..
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            99999999999999999999999999999999999999999999988888877766544

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.33  E-value=3.3e-12  Score=123.65  Aligned_cols=106  Identities=19%  Similarity=0.145  Sum_probs=101.9

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      ..+..+..+|..+...|++++|+..|++|++++|+++.+|+++|.++..+|++                       ++|+
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            34677889999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCch
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  148 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~  148 (469)
                      ..++++++++|++..+|+++|.++...|++++|+..|+++++++|+++.
T Consensus       119 ~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~P~~~~  167 (296)
T PRK11189        119 EAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDDPNDPY  167 (296)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHH
Confidence            9999999999999999999999999999999999999999999999873

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

Probab=99.33  E-value=3.2e-12  Score=124.89  Aligned_cols=121  Identities=21%  Similarity=0.309  Sum_probs=116.2

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      .+..+..+|+.++..++|+.|+..|.+||+++|+.+.++.+||.++++.++|                       ..|+.
T Consensus         3 ~a~e~k~ean~~l~~~~fd~avdlysKaI~ldpnca~~~anRa~a~lK~e~~-----------------------~~Al~   59 (476)
T KOG0376|consen    3 SAEELKNEANEALKDKVFDVAVDLYSKAIELDPNCAIYFANRALAHLKVESF-----------------------GGALH   59 (476)
T ss_pred             hhhhhhhHHhhhcccchHHHHHHHHHHHHhcCCcceeeechhhhhheeechh-----------------------hhHHH
Confidence            4677889999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhhh
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLI  164 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~  164 (469)
                      ++.+|++++|...++|+++|.+...+++|.+|+..|+....+.|+++.+...+..+++.+....
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            9999999999999999999999999999999999999999999999999999999998887644

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

Probab=99.32  E-value=3.9e-12  Score=121.29  Aligned_cols=123  Identities=24%  Similarity=0.378  Sum_probs=113.8

Q ss_pred             hhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC----cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchh
Q 012162           19 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD----PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH   94 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (469)
                      .+....+...|+.+|+.|+|.+|.+.|+.||.++|++    +.+|.|||.+..++|+.                      
T Consensus       246 ~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl----------------------  303 (486)
T KOG0550|consen  246 PKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRL----------------------  303 (486)
T ss_pred             HHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCc----------------------
Confidence            3446778899999999999999999999999999985    47899999999999999                      


Q ss_pred             HHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhhhc
Q 012162           95 AELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIG  165 (469)
Q Consensus        95 ~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~  165 (469)
                       .+|+.+++.|+++||.+.++|.+.|.++..+++|++|.++|++|++..-+ .+.+..+...+..|+...+
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             99999999999999999999999999999999999999999999998876 8888889998888887765

>smart00504 Ubox Modified RING finger domain

Probab=99.30  E-value=1.7e-12  Score=94.77  Aligned_cols=63  Identities=21%  Similarity=0.381  Sum_probs=56.0

Q ss_pred             ccccccccccccccEEccCCCcccHHHHHHHcccCCCccccccccccCCCcccCcccHHHHHHHh
Q 012162          177 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKN  241 (469)
Q Consensus       177 ~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~  241 (469)
                      ++.|+||.+.+.+||.++|||+||+.||.+|+..+..||.|+.++.  ..++.+|..+++.++.|
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            3679999999999999999999999999999988779999999884  35788899999988754

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

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

Probab=99.30  E-value=1.6e-12  Score=97.38  Aligned_cols=68  Identities=26%  Similarity=0.467  Sum_probs=55.7

Q ss_pred             ccccccccccccccccEEccCCCcccHHHHHHHccc-CCCccccccccccCCCcccCcccHHHHHHHhchH
Q 012162          175 TDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR-GNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPE  244 (469)
Q Consensus       175 ~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~~~  244 (469)
                      .+.|.|+|+..+|.+||.++|||+||+.||..|+.. +..||.|+.++..  .++.+|..|++.|++|..+
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 PDEFLCPITGELMRDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSE--SDLIPNRALKSAIEEWCAE   70 (73)
T ss_dssp             SGGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SG--GGSEE-HHHHHHHHHHHHH
T ss_pred             CcccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCc--ccceECHHHHHHHHHHHHH
Confidence            467899999999999999999999999999999988 7789999998853  5899999999999998643

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 ....

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

Probab=99.26  E-value=7.3e-12  Score=124.65  Aligned_cols=121  Identities=16%  Similarity=0.169  Sum_probs=104.0

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      ..++++.+.|+.+..+|.++.|+.+|.+|++..|.-+.++.|+|.+|.+.|++                       ++|+
T Consensus       352 ~hadam~NLgni~~E~~~~e~A~~ly~~al~v~p~~aaa~nNLa~i~kqqgnl-----------------------~~Ai  408 (966)
T KOG4626|consen  352 NHADAMNNLGNIYREQGKIEEATRLYLKALEVFPEFAAAHNNLASIYKQQGNL-----------------------DDAI  408 (966)
T ss_pred             ccHHHHHHHHHHHHHhccchHHHHHHHHHHhhChhhhhhhhhHHHHHHhcccH-----------------------HHHH
Confidence            44677788888888888888888888888888888888888888888888888                       8999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhh
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  163 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~  163 (469)
                      ..++.|++++|..+++|.++|..|-.+|+.+.|++.|.+|+.++|..+++...+..+.+.-++.
T Consensus       409 ~~YkealrI~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni  472 (966)
T KOG4626|consen  409 MCYKEALRIKPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNI  472 (966)
T ss_pred             HHHHHHHhcCchHHHHHHhcchHHHHhhhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCc
Confidence            9999999999999999999999999999999999999999999999888888888887765543

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

Probab=99.23  E-value=5.1e-12  Score=83.13  Aligned_cols=38  Identities=50%  Similarity=1.238  Sum_probs=30.3

Q ss_pred             cccccccccccEEccCCCcccHHHHHHHcccC----CCcccc
Q 012162          180 CTLCLKLLYEPITTPCGHSFCRSCLFQSMDRG----NKCPLC  217 (469)
Q Consensus       180 C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~~----~~CP~C  217 (469)
                      |+||+++|.+||+++|||+||+.||..+++..    ..||.|
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            89999999999999999999999999988643    469987

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

Probab=99.21  E-value=4.9e-11  Score=106.05  Aligned_cols=107  Identities=20%  Similarity=0.137  Sum_probs=100.0

Q ss_pred             hhhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhH
Q 012162           16 WDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA   95 (469)
Q Consensus        16 ~~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (469)
                      .+....+......|..|+..||+..|...+++||+.||++..+|..+|..|.+.|..                       
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            445556788889999999999999999999999999999999999999999999999                       


Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCC
Q 012162           96 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS  146 (469)
Q Consensus        96 ~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~  146 (469)
                      +.|-+.|++|++++|++.+.+.+.|..+...|+|++|...|++|+. +|..
T Consensus        86 ~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~qg~~~eA~q~F~~Al~-~P~Y  135 (250)
T COG3063          86 DLADESYRKALSLAPNNGDVLNNYGAFLCAQGRPEEAMQQFERALA-DPAY  135 (250)
T ss_pred             hhHHHHHHHHHhcCCCccchhhhhhHHHHhCCChHHHHHHHHHHHh-CCCC
Confidence            9999999999999999999999999999999999999999999998 5543

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

Probab=99.20  E-value=3e-11  Score=121.82  Aligned_cols=123  Identities=13%  Similarity=0.155  Sum_probs=113.5

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      ...+.|...|+.+..+++++.||++|.+|+.+||+.+.+|..+|.=+.....|                       +.|.
T Consensus       419 ~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~-----------------------d~a~  475 (638)
T KOG1126|consen  419 NSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEF-----------------------DKAM  475 (638)
T ss_pred             CCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHH-----------------------HhHH
Confidence            34577888999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhhhc
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIG  165 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~  165 (469)
                      ..|+.||..+|++..|||.+|.+|.++++++.|.-.|++|+++||.|..+.-.+..+...++...+
T Consensus       476 ~~fr~Al~~~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~  541 (638)
T KOG1126|consen  476 KSFRKALGVDPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRKDK  541 (638)
T ss_pred             HHHHhhhcCCchhhHHHHhhhhheeccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhhhH
Confidence            999999999999999999999999999999999999999999999999888777777766655433

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=99.19  E-value=8.2e-11  Score=97.29  Aligned_cols=110  Identities=14%  Similarity=0.082  Sum_probs=100.1

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC---cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA   98 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A   98 (469)
                      ...++..|..++..|+|++|+..|.++++.+|++   +.+++.+|.+++..|++                       +.|
T Consensus         2 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----------------------~~A   58 (119)
T TIGR02795         2 EEAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKY-----------------------ADA   58 (119)
T ss_pred             cHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccH-----------------------HHH
Confidence            3567899999999999999999999999999887   46888999999999999                       999


Q ss_pred             HHHHHHHhhccccc---hHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHH
Q 012162           99 LKDAEKLLNLQSNS---MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQ  154 (469)
Q Consensus        99 ~~~~~~al~l~p~~---~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~  154 (469)
                      +..+++++..+|++   +.+++.+|.++..+|++++|+..|+++++..|++..+.....
T Consensus        59 ~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~  117 (119)
T TIGR02795        59 AKAFLAVVKKYPKSPKAPDALLKLGMSLQELGDKEKAKATLQQVIKRYPGSSAAKLAQK  117 (119)
T ss_pred             HHHHHHHHHHCCCCCcccHHHHHHHHHHHHhCChHHHHHHHHHHHHHCcCChhHHHHHh
Confidence            99999999999885   678999999999999999999999999999999887665543

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=99.15  E-value=3.7e-10  Score=115.00  Aligned_cols=197  Identities=16%  Similarity=0.188  Sum_probs=141.5

Q ss_pred             CCccceeee--ccCCCCccCcccCchHHHHHHHHHHhC-CceeEEEEeCCCCC---------------------------
Q 012162          262 DLMPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEG-NHRMGMVIIDPTTG---------------------------  311 (469)
Q Consensus       262 ~~lPl~~l~--v~fP~~~~~l~i~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~---------------------------  311 (469)
                      ..+|++|++  ++|||-..++.+..++...++++.+.. ...+|+++..++.+                           
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            348999997  999999999999999999999988764 56788888743211                           


Q ss_pred             ccccccceE---EEEEeeecCCceEEEEEEeccceEEeeeeccC--CeeEEEEEEecCCCCCCcchhhhHHHHHHHHHHH
Q 012162          312 SVADFACEV---EITECEPLPDGRFVLEIESRRRFRILRSWDQD--GYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEY  386 (469)
Q Consensus       312 ~~~~~G~~~---~I~~~~~~~dg~~~v~~~g~~R~~i~~~~~~~--~~~~a~ve~~~d~~~~~~~~~~~l~~l~~~l~~~  386 (469)
                      ..++.+.++   .|.+......+.+.+.+.|.+|+++.+...+.  +....+++-+.+.+.+.   ++++.++...+...
T Consensus       147 ~~hRr~~~~~~~~~~~g~~~~~~~~~~~~~~~~r~~i~e~~~e~~~~vl~v~v~~v~~e~~~~---~~~~ka~~~ei~~t  223 (906)
T KOG2004|consen  147 YPHRRIRITELAPISEGKEDAEVEYSLLVTGLSRLNITEMKEEKEAEVLSVEVENVKDEPFKK---DEEIKALTSEILKT  223 (906)
T ss_pred             hhhhheeeeeeccccccccccccceeecccccccccchhhhccccCCceeeeeecccCCccCc---chHHHHHHHHHHHH
Confidence            002222222   22222222456788888899999998877653  34556666666544332   23478888888888


Q ss_pred             HHHHHHHHHHHHHHhHHHHHHhhhhhcCCCCCCCcchhHHHHHhcCCCChhHhhhhccCCCHHHHHHHHHHHHHhhhccc
Q 012162          387 ARLWLRREKESARQDRRRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAEEQGC  466 (469)
Q Consensus       387 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~p~~l~~~ia~~l~l~~~~kq~lLe~~~~~eRl~~l~~~l~~~~~~~  466 (469)
                      +.+++..+........    .+..    .....+|..|+|+.|+....+..+.|++|+..|+.+||++.+.+|.++++..
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            8888876554433111    1111    2346889999999999999999999999999999999999999999999877


Q ss_pred             cCC
Q 012162          467 RLQ  469 (469)
Q Consensus       467 ~~~  469 (469)
                      ++|
T Consensus       296 klq  298 (906)
T KOG2004|consen  296 KLQ  298 (906)
T ss_pred             HHH
Confidence            654

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

Probab=99.15  E-value=9.9e-11  Score=109.30  Aligned_cols=114  Identities=17%  Similarity=0.269  Sum_probs=105.2

Q ss_pred             hhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHH
Q 012162           18 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL   97 (469)
Q Consensus        18 ~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (469)
                      ....++..+..|..++..|++..|+.+|..|++.||++..+++.||.+|+.+|+-                       ..
T Consensus        34 ~~advekhlElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGks-----------------------k~   90 (504)
T KOG0624|consen   34 SPADVEKHLELGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKS-----------------------KA   90 (504)
T ss_pred             CHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCC-----------------------cc
Confidence            3456788899999999999999999999999999999999999999999999998                       89


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHH
Q 012162           98 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQ  154 (469)
Q Consensus        98 A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~  154 (469)
                      |+.+++++|++.|+...|...+|.++.++|++++|.++|++.|.-+|++....+...
T Consensus        91 al~Dl~rVlelKpDF~~ARiQRg~vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqs  147 (504)
T KOG0624|consen   91 ALQDLSRVLELKPDFMAARIQRGVVLLKQGELEQAEADFDQVLQHEPSNGLVLEAQS  147 (504)
T ss_pred             chhhHHHHHhcCccHHHHHHHhchhhhhcccHHHHHHHHHHHHhcCCCcchhHHHHH
Confidence            999999999999999999999999999999999999999999999997665444433

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

Probab=99.13  E-value=4.8e-10  Score=87.27  Aligned_cols=99  Identities=28%  Similarity=0.447  Sum_probs=94.0

Q ss_pred             HHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHH
Q 012162           24 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  103 (469)
Q Consensus        24 ~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~  103 (469)
                      .+...|..++..|++++|+..++++++..|.++.++..+|.++...+++                       ++|+..++
T Consensus         2 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------------~~a~~~~~   58 (100)
T cd00189           2 ALLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKY-----------------------EEALEDYE   58 (100)
T ss_pred             HHHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHH-----------------------HHHHHHHH
Confidence            3677899999999999999999999999999999999999999999999                       99999999


Q ss_pred             HHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCC
Q 012162          104 KLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF  145 (469)
Q Consensus       104 ~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~  145 (469)
                      +++++.|.+..+++.+|.++...|++++|...+.++++.+|+
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~  100 (100)
T cd00189          59 KALELDPDNAKAYYNLGLAYYKLGKYEEALEAYEKALELDPN  100 (100)
T ss_pred             HHHhCCCcchhHHHHHHHHHHHHHhHHHHHHHHHHHHccCCC
Confidence            999999999999999999999999999999999999998874

>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=99.12  E-value=2.3e-10  Score=122.45  Aligned_cols=118  Identities=16%  Similarity=0.153  Sum_probs=107.3

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      ..+..+...|..++..|++++|+..|+++++++|+++..|.++|.++..+|++                       ++|+
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            34566788899999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhh
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  160 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~  160 (469)
                      ..++++++++|+++.+|+.+|.++..+|++++|+.+|+++++++|++..+...+..+...+
T Consensus       386 ~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~~~~~~~~la~~~~~~  446 (615)
T TIGR00990       386 EDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDFIFSHIQLGVTQYKE  446 (615)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCccCHHHHHHHHHHHHHC
Confidence            9999999999999999999999999999999999999999999999988776665554433

>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=99.11  E-value=7.3e-11  Score=87.80  Aligned_cols=67  Identities=27%  Similarity=0.461  Sum_probs=64.9

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHH-hhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRIS-QFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      ++..+...|..++..|+|++|+..|++|++++|+++.+|+++|.+|..+| ++                       .+|+
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            47889999999999999999999999999999999999999999999999 89                       9999


Q ss_pred             HHHHHHhhccc
Q 012162          100 KDAEKLLNLQS  110 (469)
Q Consensus       100 ~~~~~al~l~p  110 (469)
                      .+++++++++|
T Consensus        59 ~~~~~al~l~P   69 (69)
T PF13414_consen   59 EDFEKALKLDP   69 (69)
T ss_dssp             HHHHHHHHHST
T ss_pred             HHHHHHHHcCc
Confidence            99999999998

...

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

Probab=99.09  E-value=3.4e-10  Score=121.06  Aligned_cols=117  Identities=13%  Similarity=0.104  Sum_probs=108.3

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ...+...|..++..|+|++|+..|+++++++|+++.+|+++|.+++.+|++                       ++|+.+
T Consensus       365 ~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~-----------------------~~A~~~  421 (615)
T TIGR00990       365 TQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEF-----------------------AQAGKD  421 (615)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH-----------------------HHHHHH
Confidence            567788999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhh
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  161 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~  161 (469)
                      ++++++++|++..+++.+|.++..+|++++|+..|+++++..|+++.+...+..+-...+
T Consensus       422 ~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g  481 (615)
T TIGR00990       422 YQKSIDLDPDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNFPEAPDVYNYYGELLLDQN  481 (615)
T ss_pred             HHHHHHcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcc
Confidence            999999999999999999999999999999999999999999999988777655554433

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

Probab=99.08  E-value=6.1e-10  Score=107.92  Aligned_cols=121  Identities=20%  Similarity=0.156  Sum_probs=99.1

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ..++...|..+...++-..|+..|++|++++|.|..+|+++|++|--++-.                       .=|+-+
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            455666788888888888888888888888888888888888888877776                       678888


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhhhc
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIG  165 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~  165 (469)
                      +++|+++.|+++..|..+|.+|.++++.++|+..|++|+.....+..+...+..+.+.++...+
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            8888888888888888888888888888888888888888877777777777777777765544

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

Probab=99.08  E-value=5.5e-10  Score=104.10  Aligned_cols=109  Identities=25%  Similarity=0.401  Sum_probs=98.7

Q ss_pred             hhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC----cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchh
Q 012162           19 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD----PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH   94 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (469)
                      ...|..++..||.+|+..+|..|+..|+++|+..-.|    +.+|.|||.|.+.+|+|                      
T Consensus        78 ~E~Aen~KeeGN~~fK~Kryk~A~~~Yt~Glk~kc~D~dlnavLY~NRAAa~~~l~Ny----------------------  135 (390)
T KOG0551|consen   78 HEQAENYKEEGNEYFKEKRYKDAVESYTEGLKKKCADPDLNAVLYTNRAAAQLYLGNY----------------------  135 (390)
T ss_pred             HHHHHHHHHHhHHHHHhhhHHHHHHHHHHHHhhcCCCccHHHHHHhhHHHHHHHHHHH----------------------
Confidence            3468899999999999999999999999999986554    47899999999999999                      


Q ss_pred             HHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhH
Q 012162           95 AELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  150 (469)
Q Consensus        95 ~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~  150 (469)
                       ..|+.++.+|+.++|.+.++|++-|.++..+.++++|..+.+..+.++-+.+.+.
T Consensus       136 -Rs~l~Dcs~al~~~P~h~Ka~~R~Akc~~eLe~~~~a~nw~ee~~~~d~e~K~~~  190 (390)
T KOG0551|consen  136 -RSALNDCSAALKLKPTHLKAYIRGAKCLLELERFAEAVNWCEEGLQIDDEAKKAI  190 (390)
T ss_pred             -HHHHHHHHHHHhcCcchhhhhhhhhHHHHHHHHHHHHHHHHhhhhhhhHHHHHHH
Confidence             9999999999999999999999999999999999999999999988766555443

>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=99.06  E-value=1.6e-10  Score=85.99  Aligned_cols=67  Identities=22%  Similarity=0.298  Sum_probs=64.5

Q ss_pred             CcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHh-HHHHHH
Q 012162           55 DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLE-RYDMAR  133 (469)
Q Consensus        55 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~-~~~~A~  133 (469)
                      ++..|..+|.+++..|+|                       ++|+..++++++++|+++.+|+++|.++..+| ++++|+
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            567889999999999999                       99999999999999999999999999999999 899999


Q ss_pred             HHHhccccCCC
Q 012162          134 DAILSGLQVDP  144 (469)
Q Consensus       134 ~~~~~al~~~p  144 (469)
                      .+|+++++++|
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=99.06  E-value=4.4e-10  Score=88.66  Aligned_cols=87  Identities=21%  Similarity=0.374  Sum_probs=73.0

Q ss_pred             ccceeee--ccCCCCccCcccCchHHHHHHHHHHhCCc--eeEEEEeCCCCCccccccceEEEEEeeecCCceEEEEEEe
Q 012162          264 MPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGNH--RMGMVIIDPTTGSVADFACEVEITECEPLPDGRFVLEIES  339 (469)
Q Consensus       264 lPl~~l~--v~fP~~~~~l~i~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~~G~~~~I~~~~~~~dg~~~v~~~g  339 (469)
                      +|++|++  ++|||+..|+.++++++..++++++++++  .++++++++...+                           
T Consensus         2 lpviPl~~~vlfP~~~~pl~v~~~~~i~~i~~~~~~~~~~~i~~~~~~~~~~~---------------------------   54 (92)
T smart00464        2 LPLLPIRRRPLFPGFVLPIPVKRPKSVAAIKEALRRSQPYVIVFLLQDDPTET---------------------------   54 (92)
T ss_pred             ceEEEcCCCccCCCceEEEEeCCHHHHHHHHHHHhcCCCeEEEEEEccCCCCC---------------------------
Confidence            7899997  99999999999999999999999998776  4555554322111                           


Q ss_pred             ccceEEeeeeccCCeeEEEEEEecCCCCCCcchhhhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhcCCCCCC
Q 012162          340 RRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVMMPPSQ  419 (469)
Q Consensus       340 ~~R~~i~~~~~~~~~~~a~ve~~~d~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~  419 (469)
                                                                                                      
T Consensus        55 --------------------------------------------------------------------------------   54 (92)
T smart00464       55 --------------------------------------------------------------------------------   54 (92)
T ss_pred             --------------------------------------------------------------------------------
Confidence                                                                                            


Q ss_pred             CcchhHHHHHhcCCCChhHhhhhccCCCHHHHHHHHHHH
Q 012162          420 DPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIF  458 (469)
Q Consensus       420 ~p~~l~~~ia~~l~l~~~~kq~lLe~~~~~eRl~~l~~~  458 (469)
                       |..++||+|+.++++.++||+|||+.|+.+|++.+++|
T Consensus        55 -~~~~~~~~a~~~~~~~~~~q~lL~~~~~~~Rl~~~~~~   92 (92)
T smart00464       55 -PEPLSDTIAALMPLELHEKQELLELEGTNKRLEKVIKL   92 (92)
T ss_pred             -chhhhHHHhhcccccHHHHHHHHhcccHHHHHHHHhcC
Confidence             23489999999999999999999999999999998764

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

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.06  E-value=5.7e-10  Score=123.00  Aligned_cols=114  Identities=9%  Similarity=-0.049  Sum_probs=104.1

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ...+...|..+.+.|++++|+..|+++++++|+++.++.++|.++...|++                       ++|+..
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            456778899999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHH
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  158 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~  158 (469)
                      ++++++++|+++.+++++|.++..+|++++|+..|+++++++|++..+......+..
T Consensus       666 l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~P~~a~i~~~~g~~~~  722 (987)
T PRK09782        666 LERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDIDNQALITPLTPEQNQ  722 (987)
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCchhhhhhhHHHH
Confidence            999999999999999999999999999999999999999999999877655444433

>TIGR00599 rad18 DNA repair protein rad18

Probab=99.05  E-value=1.1e-10  Score=114.10  Aligned_cols=69  Identities=25%  Similarity=0.555  Sum_probs=60.7

Q ss_pred             CCCccccccccccccccccEEccCCCcccHHHHHHHcccCCCccccccccccCCCcccCcccHHHHHHHhc
Q 012162          172 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNF  242 (469)
Q Consensus       172 ~~~~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~  242 (469)
                      ......+.|+||.+.+.+|++++|||+||..||..|+.....||.|+..+..  ..+..|..|.++|+.|.
T Consensus        21 ~~Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~--~~Lr~N~~L~~iVe~~~   89 (397)
T TIGR00599        21 YPLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQE--SKLRSNWLVSEIVESFK   89 (397)
T ss_pred             cccccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCCCCCCCCCCcccc--ccCccchHHHHHHHHHH
Confidence            3456778999999999999999999999999999999877789999998753  47888999999999764

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

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

Probab=99.04  E-value=1.4e-09  Score=97.34  Aligned_cols=124  Identities=25%  Similarity=0.335  Sum_probs=106.2

Q ss_pred             hhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhc--------CCCCCc----------ccccchhHHHHHHHhhhccCCC
Q 012162           17 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANN--------IKPGDP----------IVLGNRSSAYIRISQFLKHRPP   78 (469)
Q Consensus        17 ~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~--------~~p~~~----------~~~~~~a~~~~~~~~~~~~~~~   78 (469)
                      ++...+..+..+||.+|+.|+|.+|...|..|+.        ..|.++          .++.|.+.|++..|+|      
T Consensus       173 eKmkav~~l~q~GN~lfk~~~ykEA~~~YreAi~~l~~L~lkEkP~e~eW~eLdk~~tpLllNy~QC~L~~~e~------  246 (329)
T KOG0545|consen  173 EKMKAVPVLHQEGNRLFKLGRYKEASSKYREAIICLRNLQLKEKPGEPEWLELDKMITPLLLNYCQCLLKKEEY------  246 (329)
T ss_pred             HhhhhhHHHHHhhhhhhhhccHHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHhhhHHHHhHHHHHhhHHHH------
Confidence            4556678889999999999999999999999963        356554          6789999999999999      


Q ss_pred             CCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCch-hHHHHHHHH
Q 012162           79 SASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP-LQASLQNLE  157 (469)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~-~~~~~~~~~  157 (469)
                                       -++++.+...+..+|.+.+|||++|.+....-+.++|.++|.++|+++|.-+. +...++.++
T Consensus       247 -----------------yevleh~seiL~~~~~nvKA~frRakAhaa~Wn~~eA~~D~~~vL~ldpslasvVsrElr~le  309 (329)
T KOG0545|consen  247 -----------------YEVLEHCSEILRHHPGNVKAYFRRAKAHAAVWNEAEAKADLQKVLELDPSLASVVSRELRLLE  309 (329)
T ss_pred             -----------------HHHHHHHHHHHhcCCchHHHHHHHHHHHHhhcCHHHHHHHHHHHHhcChhhHHHHHHHHHHHH
Confidence                             99999999999999999999999999999999999999999999999997544 445555555


Q ss_pred             Hhhhhh
Q 012162          158 RTTASL  163 (469)
Q Consensus       158 ~~~~~~  163 (469)
                      ..+...
T Consensus       310 ~r~~ek  315 (329)
T KOG0545|consen  310 NRMAEK  315 (329)
T ss_pred             HHHHHh
Confidence            554443

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

Probab=99.03  E-value=2.1e-10  Score=88.98  Aligned_cols=82  Identities=27%  Similarity=0.431  Sum_probs=74.0

Q ss_pred             HhccHHHHHHHHHHHhcCCCC--CcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhcccc
Q 012162           34 RESNFEEAISNYSRANNIKPG--DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSN  111 (469)
Q Consensus        34 ~~~~~~~A~~~y~~al~~~p~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~  111 (469)
                      ..|+|+.|+..|+++++.+|.  +...++++|.||+++|+|                       .+|+..+++ .+.+|.
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  466778899999999999                       999999999 999999


Q ss_pred             chHHHHHHHHHHHHHhHHHHHHHHHhcc
Q 012162          112 SMKSHLLKANALILLERYDMARDAILSG  139 (469)
Q Consensus       112 ~~~~~~~~g~~~~~~~~~~~A~~~~~~a  139 (469)
                      +...++.+|.++..+|+|++|+..|+++
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            9999999999999999999999999875

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

Probab=99.03  E-value=1.2e-10  Score=103.12  Aligned_cols=50  Identities=42%  Similarity=1.031  Sum_probs=44.3

Q ss_pred             CccccccccccccccccEEccCCCcccHHHHHHHccc---CCCcccccccccc
Q 012162          174 RTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR---GNKCPLCRAVLFI  223 (469)
Q Consensus       174 ~~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~---~~~CP~Cr~~~~~  223 (469)
                      ....|+|.||++.-++||++.|||.||+.||.+|+..   ...||+|+..+..
T Consensus        44 ~~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~   96 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSI   96 (230)
T ss_pred             CCCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCcccccccc
Confidence            5678999999999999999999999999999999973   3469999998743

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.02  E-value=1.6e-10  Score=100.67  Aligned_cols=48  Identities=38%  Similarity=0.964  Sum_probs=41.8

Q ss_pred             ccccccccccccccccEEccCCCcccHHHHHHHccc----------------CCCccccccccc
Q 012162          175 TDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR----------------GNKCPLCRAVLF  222 (469)
Q Consensus       175 ~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~----------------~~~CP~Cr~~~~  222 (469)
                      ...+.|+||++.+.+|++++|||.||+.||.+|+..                ...||.||.++.
T Consensus        16 ~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is   79 (193)
T PLN03208         16 GGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVS   79 (193)
T ss_pred             CCccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCC
Confidence            357899999999999999999999999999999642                236999999874

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=99.02  E-value=6.7e-10  Score=95.53  Aligned_cols=96  Identities=15%  Similarity=0.077  Sum_probs=86.8

Q ss_pred             HHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHH
Q 012162           42 ISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKAN  121 (469)
Q Consensus        42 ~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~  121 (469)
                      ...|++|++++|++   ++++|.++...|++                       ++|+..+++++.++|.++.+|+.+|.
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            46799999999986   66789999999999                       99999999999999999999999999


Q ss_pred             HHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhh
Q 012162          122 ALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  163 (469)
Q Consensus       122 ~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~  163 (469)
                      ++..+|++++|+..|+++++++|++..+...+..+-..++..
T Consensus        67 ~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~~~g~~  108 (144)
T PRK15359         67 TWMMLKEYTTAINFYGHALMLDASHPEPVYQTGVCLKMMGEP  108 (144)
T ss_pred             HHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCH
Confidence            999999999999999999999999999888877665555443

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

Probab=99.01  E-value=1e-09  Score=106.37  Aligned_cols=113  Identities=14%  Similarity=0.140  Sum_probs=105.7

Q ss_pred             hHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhh
Q 012162           28 KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLN  107 (469)
Q Consensus        28 ~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~  107 (469)
                      -||-|.-+++.++|+.+|++|++++|....+|..+|.=|+.+++-                       ..|+..+++|++
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            377788889999999999999999999999999999999999998                       999999999999


Q ss_pred             ccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhh
Q 012162          108 LQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  163 (469)
Q Consensus       108 l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~  163 (469)
                      ++|.+..|||.+|++|.-++-..=|+-+|++|+++.|+|+.++..+..+-.++...
T Consensus       393 i~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~  448 (559)
T KOG1155|consen  393 INPRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRL  448 (559)
T ss_pred             cCchhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccH
Confidence            99999999999999999999999999999999999999999998888877766543

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

Probab=99.01  E-value=1.2e-10  Score=106.14  Aligned_cols=52  Identities=37%  Similarity=0.846  Sum_probs=46.2

Q ss_pred             CCCCccccccccccccccccEEccCCCcccHHHHHHHcccCCCccccccccc
Q 012162          171 TPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  222 (469)
Q Consensus       171 ~~~~~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~  222 (469)
                      .........|.+|++...+|.-+||||.||+.||..|......||+||..+.
T Consensus       233 ~~i~~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~  284 (293)
T KOG0317|consen  233 SSIPEATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSEKAECPLCREKFQ  284 (293)
T ss_pred             ccCCCCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHccccCCCcccccCC
Confidence            3344566899999999999999999999999999999998888999999874

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=99.01  E-value=1.1e-09  Score=97.34  Aligned_cols=106  Identities=18%  Similarity=0.211  Sum_probs=96.7

Q ss_pred             hhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC---cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchh
Q 012162           18 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH   94 (469)
Q Consensus        18 ~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (469)
                      ...++..+...|..+...|+|++|+.+|.+++++.|+.   +.++.++|.++..+|++                      
T Consensus        31 ~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~----------------------   88 (172)
T PRK02603         31 KAKEAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEH----------------------   88 (172)
T ss_pred             HhhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCH----------------------
Confidence            44567888999999999999999999999999987764   46899999999999999                      


Q ss_pred             HHHHHHHHHHHhhccccchHHHHHHHHHHHHHhH--------------HHHHHHHHhccccCCCCC
Q 012162           95 AELALKDAEKLLNLQSNSMKSHLLKANALILLER--------------YDMARDAILSGLQVDPFS  146 (469)
Q Consensus        95 ~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~--------------~~~A~~~~~~al~~~p~~  146 (469)
                       ++|+..++++++++|++..++..+|.++...|+              +++|++.+++++.++|++
T Consensus        89 -~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~~~p~~  153 (172)
T PRK02603         89 -DKALEYYHQALELNPKQPSALNNIAVIYHKRGEKAEEAGDQDEAEALFDKAAEYWKQAIRLAPNN  153 (172)
T ss_pred             -HHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChHhHhhCHHHHHHHHHHHHHHHHHHHhhCchh
Confidence             999999999999999999999999999988877              688999999999999987

>PRK12370 invasion protein regulator; Provisional

Probab=99.01  E-value=1.1e-09  Score=115.40  Aligned_cols=92  Identities=15%  Similarity=0.098  Sum_probs=88.1

Q ss_pred             ccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHH
Q 012162           36 SNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKS  115 (469)
Q Consensus        36 ~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~  115 (469)
                      +++++|+..+++|++++|+++.+|..+|.++...|++                       ++|+..++++++++|+++.+
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            4589999999999999999999999999999999999                       99999999999999999999


Q ss_pred             HHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhH
Q 012162          116 HLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  150 (469)
Q Consensus       116 ~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~  150 (469)
                      |+.+|.++...|++++|+..|+++++++|++..+.
T Consensus       375 ~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~~~~~~  409 (553)
T PRK12370        375 KYYYGWNLFMAGQLEEALQTINECLKLDPTRAAAG  409 (553)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhcCCCChhhH
Confidence            99999999999999999999999999999987653

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

Probab=99.00  E-value=1.3e-10  Score=107.21  Aligned_cols=66  Identities=24%  Similarity=0.616  Sum_probs=59.3

Q ss_pred             CccccccccccccccccEEccCCCcccHHHHHHHcccCCCccccccccccCCCcccCcccHHHHHHHh
Q 012162          174 RTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKN  241 (469)
Q Consensus       174 ~~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~  241 (469)
                      ....+.|-||.+.|..|+++||||+||.-||..++.....||.|+.++.-  ..+..|+.+.++|+.|
T Consensus        20 lD~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~E--s~Lr~n~il~Eiv~S~   85 (442)
T KOG0287|consen   20 LDDLLRCGICFEYFNIPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTE--SDLRNNRILDEIVKSL   85 (442)
T ss_pred             hHHHHHHhHHHHHhcCceeccccchHHHHHHHHHhccCCCCCceecccch--hhhhhhhHHHHHHHHH
Confidence            34667999999999999999999999999999999999999999998853  5788999999999875

>PRK12370 invasion protein regulator; Provisional

Probab=99.00  E-value=1e-09  Score=115.59  Aligned_cols=118  Identities=14%  Similarity=-0.061  Sum_probs=104.4

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ++..+...|..+...|++++|+..|++|++++|+++.+++++|.++...|++                       ++|+.
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            3566778899999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCC-CCCchhHHHHHHHHHhhh
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVD-PFSNPLQASLQNLERTTA  161 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~  161 (469)
                      .++++++++|.++.+++.++.+++..|++++|+..++++++.+ |+++.+...+..+...++
T Consensus       394 ~~~~Al~l~P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G  455 (553)
T PRK12370        394 TINECLKLDPTRAAAGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKG  455 (553)
T ss_pred             HHHHHHhcCCCChhhHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCC
Confidence            9999999999999888888888888999999999999999875 777776666655544333

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

Probab=99.00  E-value=3.1e-09  Score=98.96  Aligned_cols=124  Identities=15%  Similarity=0.070  Sum_probs=108.0

Q ss_pred             hhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHH
Q 012162           17 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE   96 (469)
Q Consensus        17 ~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (469)
                      .+..+++.|...|..|+..|++..|...|.+|+++.|+++.++...|.+++...+-                    ....
T Consensus       151 ~nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~--------------------~~ta  210 (287)
T COG4235         151 QNPGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQ--------------------QMTA  210 (287)
T ss_pred             hCCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCC--------------------cccH
Confidence            34456788999999999999999999999999999999999999999998876542                    1127


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhh
Q 012162           97 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  160 (469)
Q Consensus        97 ~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~  160 (469)
                      ++...+++++++||++..+.+.+|..++..|+|.+|...++..++..|.+..-...+++.-...
T Consensus       211 ~a~~ll~~al~~D~~~iral~lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~~rr~~ie~~ia~~  274 (287)
T COG4235         211 KARALLRQALALDPANIRALSLLAFAAFEQGDYAEAAAAWQMLLDLLPADDPRRSLIERSIARA  274 (287)
T ss_pred             HHHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCCCCCchHHHHHHHHHHH
Confidence            8999999999999999999999999999999999999999999999998887766665544433

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.99  E-value=1.7e-09  Score=104.84  Aligned_cols=139  Identities=17%  Similarity=0.094  Sum_probs=96.4

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCC--------CCCcccCccC-----
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRP--------PSASEYRPLN-----   87 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~--------~~~~~~~~~~-----   87 (469)
                      .+..+...|..+...|+|++|+..|++|++++|++..++.++|.+++..|++.+...        .++..++.+|     
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            467888999999999999999999999999999999999999999887766522210        0000011100     


Q ss_pred             -----------------CCCCchh-------------HHHHHH----HHHHHhhccccchHHHHHHHHHHHHHhHHHHHH
Q 012162           88 -----------------GLDPTTH-------------AELALK----DAEKLLNLQSNSMKSHLLKANALILLERYDMAR  133 (469)
Q Consensus        88 -----------------~~~~~~~-------------~~~A~~----~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~  133 (469)
                                       ..++...             ..+++.    .++.+++++|+.+.+|+++|.++..+|++++|+
T Consensus       177 ~~~~~~~A~~~l~~~~~~~~~~~~~~~~~~~~lg~~~~~~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~  256 (296)
T PRK11189        177 SKLDPKQAKENLKQRYEKLDKEQWGWNIVEFYLGKISEETLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAA  256 (296)
T ss_pred             ccCCHHHHHHHHHHHHhhCCccccHHHHHHHHccCCCHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHH
Confidence                             0011000             011121    122233566777889999999999999999999


Q ss_pred             HHHhccccCCC-CCchhHHHHHHHHHh
Q 012162          134 DAILSGLQVDP-FSNPLQASLQNLERT  159 (469)
Q Consensus       134 ~~~~~al~~~p-~~~~~~~~~~~~~~~  159 (469)
                      .+|++|++.+| ++.+.+..+-.+.+.
T Consensus       257 ~~~~~Al~~~~~~~~e~~~~~~e~~~~  283 (296)
T PRK11189        257 ALFKLALANNVYNFVEHRYALLELALL  283 (296)
T ss_pred             HHHHHHHHhCCchHHHHHHHHHHHHHH
Confidence            99999999997 666666666555554

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.99  E-value=1.8e-09  Score=100.93  Aligned_cols=120  Identities=15%  Similarity=0.143  Sum_probs=106.7

Q ss_pred             hhhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc---ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCc
Q 012162           16 WDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPT   92 (469)
Q Consensus        16 ~~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (469)
                      +.....+..++..|..++..|+|++|+..|+++++..|+++   .+++.+|.+|+..|++                    
T Consensus        27 ~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~--------------------   86 (235)
T TIGR03302        27 PVEEWPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDY--------------------   86 (235)
T ss_pred             CcccCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCH--------------------
Confidence            34455688899999999999999999999999999999886   5789999999999999                    


Q ss_pred             hhHHHHHHHHHHHhhccccchH---HHHHHHHHHHHH--------hHHHHHHHHHhccccCCCCCchhHHHHHHHHH
Q 012162           93 THAELALKDAEKLLNLQSNSMK---SHLLKANALILL--------ERYDMARDAILSGLQVDPFSNPLQASLQNLER  158 (469)
Q Consensus        93 ~~~~~A~~~~~~al~l~p~~~~---~~~~~g~~~~~~--------~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~  158 (469)
                         ++|+..++++++..|+++.   +++.+|.++...        |++++|+..|++++..+|++......+..+..
T Consensus        87 ---~~A~~~~~~~l~~~p~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~~~~  160 (235)
T TIGR03302        87 ---AEAIAAADRFIRLHPNHPDADYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPNSEYAPDAKKRMDY  160 (235)
T ss_pred             ---HHHHHHHHHHHHHCcCCCchHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCCChhHHHHHHHHHH
Confidence               9999999999999998877   799999999876        99999999999999999999877655554443

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

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

Probab=98.99  E-value=2.9e-09  Score=96.80  Aligned_cols=120  Identities=18%  Similarity=0.177  Sum_probs=110.6

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ...+...|..++..|+|..|+..+.+|..++|+|+.+|..+|.+|.+.|++                       +.|-..
T Consensus       100 ~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~lgaaldq~Gr~-----------------------~~Ar~a  156 (257)
T COG5010         100 RELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLLGAALDQLGRF-----------------------DEARRA  156 (257)
T ss_pred             HHHHHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhHHHHHHHHccCh-----------------------hHHHHH
Confidence            345556899999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhhh
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLI  164 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~  164 (469)
                      +.+++++.|+.+.++.++|..|...|+++.|...+.++....+.+..+...+..+-.......
T Consensus       157 y~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~  219 (257)
T COG5010         157 YRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFR  219 (257)
T ss_pred             HHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChH
Confidence            999999999999999999999999999999999999999988889999888887766665543

>PRK15331 chaperone protein SicA; Provisional

Probab=98.99  E-value=3.4e-09  Score=90.57  Aligned_cols=119  Identities=12%  Similarity=0.047  Sum_probs=105.4

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      ...+.++..|..++..|++++|...|+-....+|.++..+.++|.|+..+++|                       ++|+
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            34677888999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhh
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                      ..|..|..+++++|..++..|.+|..+|+.+.|+..|..++. .|.+..++..-..+-..+..
T Consensus        92 ~~Y~~A~~l~~~dp~p~f~agqC~l~l~~~~~A~~~f~~a~~-~~~~~~l~~~A~~~L~~l~~  153 (165)
T PRK15331         92 DLYAVAFTLLKNDYRPVFFTGQCQLLMRKAAKARQCFELVNE-RTEDESLRAKALVYLEALKT  153 (165)
T ss_pred             HHHHHHHHcccCCCCccchHHHHHHHhCCHHHHHHHHHHHHh-CcchHHHHHHHHHHHHHHHc
Confidence            999999999999999999999999999999999999999999 57766655544444344433

>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=98.98  E-value=2.4e-10  Score=74.33  Aligned_cols=38  Identities=47%  Similarity=1.351  Sum_probs=33.5

Q ss_pred             ccccccccccc-EEccCCCcccHHHHHHHcccCCCcccc
Q 012162          180 CTLCLKLLYEP-ITTPCGHSFCRSCLFQSMDRGNKCPLC  217 (469)
Q Consensus       180 C~ic~~~~~~p-~~~~cgh~~C~~Ci~~~~~~~~~CP~C  217 (469)
                      |+||.+.+.+| +.++|||+||+.|+.+|++.+..||.|
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 578999999999999999888899987

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

Probab=98.97  E-value=3.8e-09  Score=103.11  Aligned_cols=109  Identities=19%  Similarity=0.197  Sum_probs=96.0

Q ss_pred             hhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHH
Q 012162           19 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA   98 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A   98 (469)
                      ...+.++..+|..+|-.|++-.|...|+++|+++|.+...|..+|.+|...++-                       .+.
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            334788888999999999999999999999999999888888999999888887                       888


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhH
Q 012162           99 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  150 (469)
Q Consensus        99 ~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~  150 (469)
                      ..+|.+|.++||.++..||.+|+.++-+++|++|+.+|+++++++|++.-..
T Consensus       380 ~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~pe~~~~~  431 (606)
T KOG0547|consen  380 WKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIADFQKAISLDPENAYAY  431 (606)
T ss_pred             HHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhcChhhhHHH
Confidence            8999999999999999999999999999999999999999999999886543

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

Probab=98.97  E-value=1.5e-10  Score=81.02  Aligned_cols=59  Identities=29%  Similarity=0.830  Sum_probs=33.3

Q ss_pred             cccccccccccccccEE-ccCCCcccHHHHHHHcccCCCccccccccccCCCcccCcccHHHHH
Q 012162          176 DDFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSII  238 (469)
Q Consensus       176 ~~~~C~ic~~~~~~p~~-~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~  238 (469)
                      ..+.|++|.+++++||. ..|.|.||+.||.+.+.  ..||+|+.+..  .+++..|+.|.++|
T Consensus         6 ~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw--~qD~~~NrqLd~~i   65 (65)
T PF14835_consen    6 ELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAW--IQDIQINRQLDSMI   65 (65)
T ss_dssp             HTTS-SSS-S--SS-B---SSS--B-TTTGGGGTT--TB-SSS--B-S---SS----HHHHHHH
T ss_pred             HhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcC--CCCCCcCChHH--HHHHHhhhhhhccC
Confidence            45689999999999986 69999999999987664  45999999874  36889999998875

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.96  E-value=2.5e-09  Score=113.73  Aligned_cols=115  Identities=11%  Similarity=-0.028  Sum_probs=105.3

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      .+..+...|......|.+++|...++.+++++|++..++.++|.++.+.+++                       ++|+.
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            3778888999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHH
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  158 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~  158 (469)
                      .+++++..+|+++.+++.+|.++..+|+|++|++.|+++++.+|++..+.-.+..+-+
T Consensus       142 ~~~~~l~~~p~~~~~~~~~a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~  199 (694)
T PRK15179        142 EIELYFSGGSSSAREILLEAKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLT  199 (694)
T ss_pred             HHHHHhhcCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999988877665544333

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

Probab=98.95  E-value=3.5e-09  Score=94.36  Aligned_cols=116  Identities=16%  Similarity=0.144  Sum_probs=104.9

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ...++..+|..|-+.|+.+.|-+.|++|++++|++.++++|.|..+...|+|                       ++|..
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            3567788899999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhc--cccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHh
Q 012162          101 DAEKLLNL--QSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERT  159 (469)
Q Consensus       101 ~~~~al~l--~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~  159 (469)
                      .|++|+..  -|..+..|-++|.|..+.|+++.|.++|+++|+++|+++.....+...+..
T Consensus       125 ~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~  185 (250)
T COG3063         125 QFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYK  185 (250)
T ss_pred             HHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHh
Confidence            99999984  355678999999999999999999999999999999999887776665543

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

Probab=98.94  E-value=2.4e-09  Score=108.22  Aligned_cols=103  Identities=15%  Similarity=0.224  Sum_probs=58.7

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      +.+|...|..+....+|++|...|+.||..+|.+..+|+++|.+|++.+++                       +.|.-.
T Consensus       455 aYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~rhYnAwYGlG~vy~Kqek~-----------------------e~Ae~~  511 (638)
T KOG1126|consen  455 AYAYTLLGHESIATEEFDKAMKSFRKALGVDPRHYNAWYGLGTVYLKQEKL-----------------------EFAEFH  511 (638)
T ss_pred             chhhhhcCChhhhhHHHHhHHHHHHhhhcCCchhhHHHHhhhhheeccchh-----------------------hHHHHH
Confidence            445555566666666666666666666666666666666666666666666                       555555


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCc
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  147 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~  147 (469)
                      +++|++++|.+.-.....|.++..+|+.|+|++.|++|+.++|.|+
T Consensus       512 fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~  557 (638)
T KOG1126|consen  512 FQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNP  557 (638)
T ss_pred             HHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCc
Confidence            5555555555555555555555555555555555555555555444

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

Probab=98.94  E-value=6.5e-09  Score=84.15  Aligned_cols=107  Identities=20%  Similarity=0.175  Sum_probs=96.1

Q ss_pred             hhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHH
Q 012162           17 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE   96 (469)
Q Consensus        17 ~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (469)
                      ...+....+-.+|..+...|+.+.|++.|.+|+.+.|.++.+|+|||.++.-.|+.                       +
T Consensus        38 ~~~e~S~~LEl~~valaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~-----------------------e   94 (175)
T KOG4555|consen   38 QAIKASRELELKAIALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDD-----------------------E   94 (175)
T ss_pred             HHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCCh-----------------------H
Confidence            34455677888999999999999999999999999999999999999999999999                       9


Q ss_pred             HHHHHHHHHhhccccc----hHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCC
Q 012162           97 LALKDAEKLLNLQSNS----MKSHLLKANALILLERYDMARDAILSGLQVDPFS  146 (469)
Q Consensus        97 ~A~~~~~~al~l~p~~----~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~  146 (469)
                      +|+.++.+|+++....    ..+|..+|.+|..+|+-+.|..+|+.|-++....
T Consensus        95 ~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~dd~AR~DFe~AA~LGS~F  148 (175)
T KOG4555|consen   95 EALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGNDDAARADFEAAAQLGSKF  148 (175)
T ss_pred             HHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCchHHHHHhHHHHHHhCCHH
Confidence            9999999999997654    4488999999999999999999999998886543

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

Probab=98.93  E-value=2.1e-09  Score=97.51  Aligned_cols=104  Identities=14%  Similarity=0.090  Sum_probs=94.3

Q ss_pred             hccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchH
Q 012162           35 ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMK  114 (469)
Q Consensus        35 ~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~  114 (469)
                      .++.++++..|+++++.+|+++.+|..+|.+|..+|++                       ++|+..++++++++|+++.
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            56779999999999999999999999999999999999                       9999999999999999999


Q ss_pred             HHHHHHHHH-HHHhH--HHHHHHHHhccccCCCCCchhHHHHHHHHHhhh
Q 012162          115 SHLLKANAL-ILLER--YDMARDAILSGLQVDPFSNPLQASLQNLERTTA  161 (469)
Q Consensus       115 ~~~~~g~~~-~~~~~--~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~  161 (469)
                      ++..+|.++ ...|+  +++|+..++++++++|++..+...+.......+
T Consensus       109 ~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g  158 (198)
T PRK10370        109 LYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQA  158 (198)
T ss_pred             HHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcC
Confidence            999999985 67787  599999999999999999988877765544443

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=98.93  E-value=4e-09  Score=99.46  Aligned_cols=112  Identities=7%  Similarity=-0.084  Sum_probs=100.5

Q ss_pred             HHHHHHhHHHH-HHhccHHHHHHHHHHHhcCCCCCc---ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHH
Q 012162           22 VFDLVQKGNRA-FRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL   97 (469)
Q Consensus        22 ~~~~~~~g~~~-~~~~~~~~A~~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (469)
                      ....+..|..+ ++.|+|++|+..|++.++..|++.   .+++++|.+|+..|+|                       ++
T Consensus       142 e~~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~-----------------------~~  198 (263)
T PRK10803        142 ANTDYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKK-----------------------DD  198 (263)
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCH-----------------------HH
Confidence            45667777776 667999999999999999999984   7999999999999999                       99


Q ss_pred             HHHHHHHHhhcccc---chHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHH
Q 012162           98 ALKDAEKLLNLQSN---SMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  156 (469)
Q Consensus        98 A~~~~~~al~l~p~---~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~  156 (469)
                      |+..|+++++..|+   .+++++.+|.++..+|++++|+..|+++++..|++..+.....++
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            99999999998877   577999999999999999999999999999999998877666655

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.92  E-value=5.8e-09  Score=92.27  Aligned_cols=107  Identities=16%  Similarity=0.059  Sum_probs=93.3

Q ss_pred             hhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC---cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchh
Q 012162           18 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH   94 (469)
Q Consensus        18 ~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (469)
                      ....+..+...|..+...|+|++|+..|.+|+.+.|+.   +.++.++|.+|...|++                      
T Consensus        31 ~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~----------------------   88 (168)
T CHL00033         31 GEKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEH----------------------   88 (168)
T ss_pred             hhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCH----------------------
Confidence            34467888999999999999999999999999997763   35899999999999999                      


Q ss_pred             HHHHHHHHHHHhhccccchHHHHHHHHHHH-------HHhHHH-------HHHHHHhccccCCCCCc
Q 012162           95 AELALKDAEKLLNLQSNSMKSHLLKANALI-------LLERYD-------MARDAILSGLQVDPFSN  147 (469)
Q Consensus        95 ~~~A~~~~~~al~l~p~~~~~~~~~g~~~~-------~~~~~~-------~A~~~~~~al~~~p~~~  147 (469)
                       ++|+..+++++.++|.+..++..+|.++.       .+|+++       +|+..|++++..+|++.
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             99999999999999999999999999999       566655       67777778888888654

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=98.91  E-value=7.3e-09  Score=95.45  Aligned_cols=104  Identities=18%  Similarity=0.138  Sum_probs=97.7

Q ss_pred             hhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHH
Q 012162           17 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE   96 (469)
Q Consensus        17 ~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (469)
                      +....+..+...|..++..|+|++|+..|+++++.+|++..++..+|.++...|++                       +
T Consensus        26 ~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~-----------------------~   82 (234)
T TIGR02521        26 DRNKAAKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGEL-----------------------E   82 (234)
T ss_pred             cCCcHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCH-----------------------H
Confidence            33445788889999999999999999999999999999999999999999999999                       9


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCC
Q 012162           97 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVD  143 (469)
Q Consensus        97 ~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~  143 (469)
                      +|+..++++++++|++..+++.+|.++...|++++|+..|++++...
T Consensus        83 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  129 (234)
T TIGR02521        83 KAEDSFRRALTLNPNNGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDP  129 (234)
T ss_pred             HHHHHHHHHHhhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHhcc
Confidence            99999999999999999999999999999999999999999999854

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.

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

Probab=98.91  E-value=9.7e-10  Score=109.40  Aligned_cols=101  Identities=17%  Similarity=0.155  Sum_probs=94.5

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      .+...-.|..|+-.|+|++|+.+|+.||..+|+|..+|+.+|.++....+.                       .+|+..
T Consensus       430 pdvQ~~LGVLy~ls~efdraiDcf~~AL~v~Pnd~~lWNRLGAtLAN~~~s-----------------------~EAIsA  486 (579)
T KOG1125|consen  430 PDVQSGLGVLYNLSGEFDRAVDCFEAALQVKPNDYLLWNRLGATLANGNRS-----------------------EEAISA  486 (579)
T ss_pred             hhHHhhhHHHHhcchHHHHHHHHHHHHHhcCCchHHHHHHhhHHhcCCccc-----------------------HHHHHH
Confidence            344556788889999999999999999999999999999999999888888                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCC
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF  145 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~  145 (469)
                      |.+|++|.|.+..+.|++|..++.+|-|.+|..+|-.||.+.+.
T Consensus       487 Y~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq~k  530 (579)
T KOG1125|consen  487 YNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSMQRK  530 (579)
T ss_pred             HHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHhhhc
Confidence            99999999999999999999999999999999999999999776

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

Probab=98.87  E-value=2.2e-09  Score=78.73  Aligned_cols=64  Identities=20%  Similarity=0.236  Sum_probs=59.7

Q ss_pred             chhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccc
Q 012162           61 NRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGL  140 (469)
Q Consensus        61 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al  140 (469)
                      .+|..++..|+|                       ++|+..++++++.+|+++.+++.+|.++...|++++|+..|++++
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            468899999999                       999999999999999999999999999999999999999999999


Q ss_pred             cCCCCCc
Q 012162          141 QVDPFSN  147 (469)
Q Consensus       141 ~~~p~~~  147 (469)
                      +++|+|+
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

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=98.87  E-value=6.5e-09  Score=114.75  Aligned_cols=108  Identities=18%  Similarity=0.170  Sum_probs=91.7

Q ss_pred             HHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccc
Q 012162           31 RAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQS  110 (469)
Q Consensus        31 ~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p  110 (469)
                      .....|++++|+..|++|++++|+ +.++.++|.++.++|++                       ++|+..++++++++|
T Consensus       585 ~l~~~Gr~~eAl~~~~~AL~l~P~-~~a~~~LA~~l~~lG~~-----------------------deA~~~l~~AL~l~P  640 (987)
T PRK09782        585 QRYIPGQPELALNDLTRSLNIAPS-ANAYVARATIYRQRHNV-----------------------PAAVSDLRAALELEP  640 (987)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCCC-HHHHHHHHHHHHHCCCH-----------------------HHHHHHHHHHHHhCC
Confidence            334448999999999999999996 88888999999999998                       899999999999999


Q ss_pred             cchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhh
Q 012162          111 NSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus       111 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                      +++.+++.+|.++...|++++|+..|+++++++|+++.+...+..+...++.
T Consensus       641 d~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd  692 (987)
T PRK09782        641 NNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDD  692 (987)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCC
Confidence            9999999999999999999999999999999999998887777666555444

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

Probab=98.87  E-value=1.2e-09  Score=98.97  Aligned_cols=66  Identities=24%  Similarity=0.495  Sum_probs=55.2

Q ss_pred             CccccccccccccccccEEccCCCcccHHHHHHHcccCCCccccccccccCCCcccCcccHHHHHHHh
Q 012162          174 RTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKN  241 (469)
Q Consensus       174 ~~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~  241 (469)
                      ....+.|-||.+.++.|+.++|||+||.-||..++.....||+||.+...  ..++.+..+.++++.|
T Consensus        22 LDs~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~e--srlr~~s~~~ei~es~   87 (391)
T COG5432          22 LDSMLRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCE--SRLRGSSGSREINESH   87 (391)
T ss_pred             chhHHHhhhhhheeecceecccccchhHHHHHHHhcCCCCCccccccHHh--hhcccchhHHHHHHhh
Confidence            34567899999999999999999999999999999999999999987633  3456666777766654

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

Probab=98.86  E-value=2.8e-09  Score=78.18  Aligned_cols=64  Identities=17%  Similarity=0.309  Sum_probs=60.2

Q ss_pred             HhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHh
Q 012162           27 QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLL  106 (469)
Q Consensus        27 ~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al  106 (469)
                      .+|..++..|+|++|+..|+++++.+|+++.+++.+|.++..+|++                       ++|+..+++++
T Consensus         2 ~~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~-----------------------~~A~~~~~~a~   58 (65)
T PF13432_consen    2 ALARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRY-----------------------DEALAYYERAL   58 (65)
T ss_dssp             HHHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-H-----------------------HHHHHHHHHHH
T ss_pred             hHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHH
Confidence            5789999999999999999999999999999999999999999999                       99999999999


Q ss_pred             hccccch
Q 012162          107 NLQSNSM  113 (469)
Q Consensus       107 ~l~p~~~  113 (469)
                      +++|+++
T Consensus        59 ~~~P~~p   65 (65)
T PF13432_consen   59 ELDPDNP   65 (65)
T ss_dssp             HHSTT-H
T ss_pred             HHCcCCC
Confidence            9999985

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=98.86  E-value=1.3e-08  Score=93.77  Aligned_cols=115  Identities=17%  Similarity=0.183  Sum_probs=100.1

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ...+...|..++..|++++|+..|.++++.+|.++.++.++|.++...|++                       ++|+..
T Consensus        65 ~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~-----------------------~~A~~~  121 (234)
T TIGR02521        65 YLAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVLNNYGTFLCQQGKY-----------------------EQAMQQ  121 (234)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcccH-----------------------HHHHHH
Confidence            566778899999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhcc--ccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHh
Q 012162          102 AEKLLNLQ--SNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERT  159 (469)
Q Consensus       102 ~~~al~l~--p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~  159 (469)
                      ++++++..  +.....++.+|.++...|++++|...|.++++.+|++..+...+..+...
T Consensus       122 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~  181 (234)
T TIGR02521       122 FEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYL  181 (234)
T ss_pred             HHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHH
Confidence            99998854  55677888899999999999999999999999999887766555544433

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.

>PLN02789 farnesyltranstransferase

Probab=98.85  E-value=1.3e-08  Score=98.96  Aligned_cols=124  Identities=13%  Similarity=0.080  Sum_probs=74.7

Q ss_pred             HHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHH-hhhccC-------CCCCcccCccCCC-----CCch-hHHHH
Q 012162           33 FRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRIS-QFLKHR-------PPSASEYRPLNGL-----DPTT-HAELA   98 (469)
Q Consensus        33 ~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~-~~~~~~-------~~~~~~~~~~~~~-----~~~~-~~~~A   98 (469)
                      ...+.+++|+..++++|+++|++..+|..|+.++..++ ++.+..       ...++.|+.+.-+     .... ...++
T Consensus        48 ~~~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~~e  127 (320)
T PLN02789         48 ASDERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAANKE  127 (320)
T ss_pred             HcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhHHH
Confidence            34455566666666666666666666666666555554 220000       0111222221100     0000 01456


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHH
Q 012162           99 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  156 (469)
Q Consensus        99 ~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~  156 (469)
                      +..++++++++|++..+|..+|.++..+|+|++|++.+.++++.||.|..+......+
T Consensus       128 l~~~~kal~~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N~sAW~~R~~v  185 (320)
T PLN02789        128 LEFTRKILSLDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRNNSAWNQRYFV  185 (320)
T ss_pred             HHHHHHHHHhCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCchhHHHHHHHH
Confidence            7777888888888888888888888888888888888888888888887776665544

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

Probab=98.85  E-value=2.6e-09  Score=102.78  Aligned_cols=121  Identities=15%  Similarity=0.161  Sum_probs=100.3

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      .+...+...|..+.+.|++++|+..|++|++++|+++.+...++.++...|++                       +++.
T Consensus       144 ~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~P~~~~~~~~l~~~li~~~~~-----------------------~~~~  200 (280)
T PF13429_consen  144 DSARFWLALAEIYEQLGDPDKALRDYRKALELDPDDPDARNALAWLLIDMGDY-----------------------DEAR  200 (280)
T ss_dssp             T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHCTTCHH-----------------------HHHH
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCh-----------------------HHHH
Confidence            34667788999999999999999999999999999999999999999999999                       8888


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhh
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  163 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~  163 (469)
                      ..+....+..|+++..+..+|.++..+|++++|+.+|+++++.+|+|+.+...+..+-...+..
T Consensus       201 ~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~~~~~~~a~~l~~~g~~  264 (280)
T PF13429_consen  201 EALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDDPLWLLAYADALEQAGRK  264 (280)
T ss_dssp             HHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHT-----
T ss_pred             HHHHHHHHHCcCHHHHHHHHHHHhcccccccccccccccccccccccccccccccccccccccc
Confidence            8888887777888889999999999999999999999999999999999888887766555544

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

Probab=98.85  E-value=1.2e-09  Score=92.44  Aligned_cols=50  Identities=36%  Similarity=1.007  Sum_probs=43.7

Q ss_pred             CCccccccccccccccc--cEEccCCCcccHHHHHHHcccCCCccccccccc
Q 012162          173 ERTDDFDCTLCLKLLYE--PITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  222 (469)
Q Consensus       173 ~~~~~~~C~ic~~~~~~--p~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~  222 (469)
                      ..+..+.|+||++.+.+  ||.+.|||.||+.||...+..+..||+||+++.
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            34566899999998876  567999999999999999999999999998774

>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=98.85  E-value=1.7e-09  Score=74.63  Aligned_cols=46  Identities=35%  Similarity=0.922  Sum_probs=40.9

Q ss_pred             ccccccccccccccEEccCCCc-ccHHHHHHHcccCCCccccccccc
Q 012162          177 DFDCTLCLKLLYEPITTPCGHS-FCRSCLFQSMDRGNKCPLCRAVLF  222 (469)
Q Consensus       177 ~~~C~ic~~~~~~p~~~~cgh~-~C~~Ci~~~~~~~~~CP~Cr~~~~  222 (469)
                      +..|.||++...+++.+||||. ||..|+..++.....||.||+++.
T Consensus         2 ~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    2 DEECPICFENPRDVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE   48 (50)
T ss_dssp             HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred             cCCCccCCccCCceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence            5689999999999999999999 999999999998889999999863

...

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

Probab=98.85  E-value=1.9e-08  Score=94.27  Aligned_cols=126  Identities=15%  Similarity=0.227  Sum_probs=111.9

Q ss_pred             hhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccc----cchhHHHHHHHhhhccCCCCCcccCccCCCCCc
Q 012162           17 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVL----GNRSSAYIRISQFLKHRPPSASEYRPLNGLDPT   92 (469)
Q Consensus        17 ~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~----~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (469)
                      +..+.+......+......++|.++++.+++.++.+|..+.+.    ..+..||...+++                    
T Consensus       264 KklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~--------------------  323 (504)
T KOG0624|consen  264 KKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQF--------------------  323 (504)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCH--------------------
Confidence            4455566777778888999999999999999999999966443    4456788888888                    


Q ss_pred             hhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhhhc
Q 012162           93 THAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIG  165 (469)
Q Consensus        93 ~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~  165 (469)
                         .+|+..+.++++++|++..++..+|.+|..-..|++|+..|++|++.+++|..+++++...++..+...+
T Consensus       324 ---~eAiqqC~evL~~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n~sn~~~reGle~Akrlkkqs~k  393 (504)
T KOG0624|consen  324 ---GEAIQQCKEVLDIDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELNESNTRAREGLERAKRLKKQSGK  393 (504)
T ss_pred             ---HHHHHHHHHHHhcCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHhcc
Confidence               9999999999999999999999999999999999999999999999999999999999999988776655

>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=98.84  E-value=1.1e-09  Score=73.36  Aligned_cols=40  Identities=43%  Similarity=1.113  Sum_probs=34.8

Q ss_pred             cccccccccc---ccEEccCCCcccHHHHHHHcccCCCccccc
Q 012162          179 DCTLCLKLLY---EPITTPCGHSFCRSCLFQSMDRGNKCPLCR  218 (469)
Q Consensus       179 ~C~ic~~~~~---~p~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr  218 (469)
                      .|+||++.+.   .++.++|||.||..||.+|+..+..||.||
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   346789999999999999999888999997

...

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

Probab=98.84  E-value=9.9e-09  Score=87.09  Aligned_cols=97  Identities=13%  Similarity=0.041  Sum_probs=89.2

Q ss_pred             HHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHH
Q 012162           43 SNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANA  122 (469)
Q Consensus        43 ~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~  122 (469)
                      +.|+++++.+|++..+...+|.+++..|++                       ++|+..+++++.++|+++.+++.+|.+
T Consensus         4 ~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~-----------------------~~A~~~~~~~~~~~p~~~~~~~~la~~   60 (135)
T TIGR02552         4 ATLKDLLGLDSEQLEQIYALAYNLYQQGRY-----------------------DEALKLFQLLAAYDPYNSRYWLGLAAC   60 (135)
T ss_pred             hhHHHHHcCChhhHHHHHHHHHHHHHcccH-----------------------HHHHHHHHHHHHhCCCcHHHHHHHHHH
Confidence            578999999999999999999999999999                       999999999999999999999999999


Q ss_pred             HHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhh
Q 012162          123 LILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus       123 ~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                      +..+|++++|...|+++++.+|++......+..+....++
T Consensus        61 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~g~  100 (135)
T TIGR02552        61 CQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLALGE  100 (135)
T ss_pred             HHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHcCC
Confidence            9999999999999999999999998887776665555443

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

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=98.82  E-value=1.2e-08  Score=109.49  Aligned_cols=101  Identities=18%  Similarity=0.113  Sum_probs=60.2

Q ss_pred             HHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHH----HHHHHHH
Q 012162           29 GNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL----ALKDAEK  104 (469)
Q Consensus        29 g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----A~~~~~~  104 (469)
                      |..+...|++++|+..|+++++.+|+++.++.++|.+|...|++                       ++    |+..+++
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            45556666666666666666666666666666666666666666                       32    4555555


Q ss_pred             HhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHH
Q 012162          105 LLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQAS  152 (469)
Q Consensus       105 al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~  152 (469)
                      +++++|+++.++..+|.++...|++++|+..|+++++++|++..+...
T Consensus       276 Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~  323 (656)
T PRK15174        276 ALQFNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAM  323 (656)
T ss_pred             HHhhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHH
Confidence            555555555555555555555555555555555555555555544433

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=98.81  E-value=1.2e-08  Score=109.54  Aligned_cols=106  Identities=16%  Similarity=0.116  Sum_probs=90.7

Q ss_pred             HHHHHHhHHHHHHhccHHH----HHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHH
Q 012162           22 VFDLVQKGNRAFRESNFEE----AISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL   97 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~----A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (469)
                      ...+...|..+...|++++    |+..|+++++++|+++.++.++|.++...|++                       ++
T Consensus       246 ~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~-----------------------~e  302 (656)
T PRK15174        246 AALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFNSDNVRIVTLYADALIRTGQN-----------------------EK  302 (656)
T ss_pred             HHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHCCCH-----------------------HH
Confidence            4555667888888888885    78899999999999888888999999999988                       88


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhH
Q 012162           98 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  150 (469)
Q Consensus        98 A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~  150 (469)
                      |+..++++++++|+++.+++.+|.+|...|++++|+..|+++++.+|++..+.
T Consensus       303 A~~~l~~al~l~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~~~~~~  355 (656)
T PRK15174        303 AIPLLQQSLATHPDLPYVRAMYARALRQVGQYTAASDEFVQLAREKGVTSKWN  355 (656)
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccchHHH
Confidence            99999999999999888888899999899999999999999888888876543

>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=98.81  E-value=7.6e-09  Score=89.17  Aligned_cols=111  Identities=23%  Similarity=0.252  Sum_probs=88.6

Q ss_pred             cHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHH
Q 012162           37 NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSH  116 (469)
Q Consensus        37 ~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~  116 (469)
                      -|+.|.+.|+.+...+|.+++.+++-|.+++.+.++. +            +.+.....++|+.-+++||.++|+..+++
T Consensus         6 ~FE~ark~aea~y~~nP~DadnL~~WG~ALLELAqfk-~------------g~es~~miedAisK~eeAL~I~P~~hdAl   72 (186)
T PF06552_consen    6 FFEHARKKAEAAYAKNPLDADNLTNWGGALLELAQFK-Q------------GPESKKMIEDAISKFEEALKINPNKHDAL   72 (186)
T ss_dssp             HHHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHHHHS--------------HHHHHHHHHHHHHHHHHHHHH-TT-HHHH
T ss_pred             HHHHHHHHHHHHHHhCcHhHHHHHHHHHHHHHHHhcc-C------------cchHHHHHHHHHHHHHHHHhcCCchHHHH
Confidence            3788999999999999999999999999999998870 0            01112334899999999999999999999


Q ss_pred             HHHHHHHHHHhH-----------HHHHHHHHhccccCCCCCchhHHHHHHHHHhh
Q 012162          117 LLKANALILLER-----------YDMARDAILSGLQVDPFSNPLQASLQNLERTT  160 (469)
Q Consensus       117 ~~~g~~~~~~~~-----------~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~  160 (469)
                      +.+|.+|..++.           |++|..+|++|...+|+|...+..+....++-
T Consensus        73 w~lGnA~ts~A~l~~d~~~A~~~F~kA~~~FqkAv~~~P~ne~Y~ksLe~~~kap  127 (186)
T PF06552_consen   73 WCLGNAYTSLAFLTPDTAEAEEYFEKATEYFQKAVDEDPNNELYRKSLEMAAKAP  127 (186)
T ss_dssp             HHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHTHH
T ss_pred             HHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHhhH
Confidence            999999988665           78999999999999999999999888776643

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.

>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=98.80  E-value=2.6e-09  Score=100.20  Aligned_cols=106  Identities=18%  Similarity=0.311  Sum_probs=101.0

Q ss_pred             hhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHH
Q 012162           17 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE   96 (469)
Q Consensus        17 ~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (469)
                      ++..++.....++..++..|+++.||++|+.||.++|..+.+|.+|+.+++++++.                       .
T Consensus       109 e~~eqa~e~k~~A~eAln~G~~~~ai~~~t~ai~lnp~~a~l~~kr~sv~lkl~kp-----------------------~  165 (377)
T KOG1308|consen  109 EMMDQANDKKVQASEALNDGEFDTAIELFTSAIELNPPLAILYAKRASVFLKLKKP-----------------------N  165 (377)
T ss_pred             HHHHHHHHHHHHHHHHhcCcchhhhhcccccccccCCchhhhcccccceeeeccCC-----------------------c
Confidence            56677888889999999999999999999999999999999999999999999999                       9


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCC
Q 012162           97 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF  145 (469)
Q Consensus        97 ~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~  145 (469)
                      .|+.+|..|++++|+..+.|-.+|.+...+|++++|..++..+.+++-+
T Consensus       166 ~airD~d~A~ein~Dsa~~ykfrg~A~rllg~~e~aa~dl~~a~kld~d  214 (377)
T KOG1308|consen  166 AAIRDCDFAIEINPDSAKGYKFRGYAERLLGNWEEAAHDLALACKLDYD  214 (377)
T ss_pred             hhhhhhhhhhccCcccccccchhhHHHHHhhchHHHHHHHHHHHhcccc
Confidence            9999999999999999999999999999999999999999999998753

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

Probab=98.79  E-value=8.3e-09  Score=98.81  Aligned_cols=144  Identities=19%  Similarity=0.148  Sum_probs=115.3

Q ss_pred             hhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCcc---------CC-
Q 012162           19 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL---------NG-   88 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~---------~~-   88 (469)
                      .++...+..+|+.+...|+.++|+.+|+.|..+.|.+...|.++-.+|+..|++.++...|...++.+         +| 
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            45578899999999999999999999999999999999999999999998888766555554444332         32 


Q ss_pred             ----CCCchhHHHHHHHHHHHhhccccchHHH---------------------------------HHHHHHHHHHhHHHH
Q 012162           89 ----LDPTTHAELALKDAEKLLNLQSNSMKSH---------------------------------LLKANALILLERYDM  131 (469)
Q Consensus        89 ----~~~~~~~~~A~~~~~~al~l~p~~~~~~---------------------------------~~~g~~~~~~~~~~~  131 (469)
                          .||.+ -++|.+.++++++++|.+..|-                                 ..+|.++...+.+++
T Consensus       411 ~V~~~dp~~-rEKAKkf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D~~LH~~Lgd~~~A~Ne~Q~  489 (564)
T KOG1174|consen  411 LVLFPDPRM-REKAKKFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFPDVNLHNHLGDIMRAQNEPQK  489 (564)
T ss_pred             eeeccCchh-HHHHHHHHHhhhccCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhccccHHHHHHHHHHHHhhhHHH
Confidence                23333 2678888888888888766544                                 445555666778899


Q ss_pred             HHHHHhccccCCCCCchhHHHHHHHHHhhhhh
Q 012162          132 ARDAILSGLQVDPFSNPLQASLQNLERTTASL  163 (469)
Q Consensus       132 A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~  163 (469)
                      |+++|..||.+||+|..+.++++.++|..+..
T Consensus       490 am~~y~~ALr~dP~~~~sl~Gl~~lEK~~~~~  521 (564)
T KOG1174|consen  490 AMEYYYKALRQDPKSKRTLRGLRLLEKSDDES  521 (564)
T ss_pred             HHHHHHHHHhcCccchHHHHHHHHHHhccCCC
Confidence            99999999999999999999999999987744

>PHA02929 N1R/p28-like protein; Provisional

Probab=98.78  E-value=3.6e-09  Score=96.62  Aligned_cols=48  Identities=31%  Similarity=0.891  Sum_probs=41.2

Q ss_pred             cccccccccccccccc--------EEccCCCcccHHHHHHHcccCCCccccccccc
Q 012162          175 TDDFDCTLCLKLLYEP--------ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  222 (469)
Q Consensus       175 ~~~~~C~ic~~~~~~p--------~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~  222 (469)
                      .....|+||++.+.++        +.++|||.||..||.+|+.....||+||.++.
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            3567999999987653        45689999999999999998889999999874

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

Probab=98.77  E-value=2e-08  Score=99.85  Aligned_cols=111  Identities=22%  Similarity=0.237  Sum_probs=98.5

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCCCC-------CcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhH
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIKPG-------DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA   95 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~-------~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (469)
                      ..+...|..+|+.+.|.+|+.+|+.++..-+.       ....+.|+|.+|.+++.|                       
T Consensus       415 lv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~-----------------------  471 (611)
T KOG1173|consen  415 LVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKY-----------------------  471 (611)
T ss_pred             hhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhH-----------------------
Confidence            45667899999999999999999999943222       235689999999999999                       


Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHH
Q 012162           96 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  156 (469)
Q Consensus        96 ~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~  156 (469)
                      .+|+..++++|.+.|.++.+|..+|.+|..+|+++.|+++|.+||.++|+|.-+...+..+
T Consensus       472 ~eAI~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~~a  532 (611)
T KOG1173|consen  472 EEAIDYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLKLA  532 (611)
T ss_pred             HHHHHHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999998877766643

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.77  E-value=5.5e-08  Score=90.95  Aligned_cols=118  Identities=15%  Similarity=0.087  Sum_probs=99.2

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcc---cccchhHHHHHH--------HhhhccCCCCCcccCccCCCC
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPI---VLGNRSSAYIRI--------SQFLKHRPPSASEYRPLNGLD   90 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~---~~~~~a~~~~~~--------~~~~~~~~~~~~~~~~~~~~~   90 (469)
                      ...+...|..++..|+|++|+..|+++++..|+++.   +++.+|.+++..        |++                  
T Consensus        70 ~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~------------------  131 (235)
T TIGR03302        70 EQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYLRGLSNYNQIDRVDRDQTAA------------------  131 (235)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHHHHHHHHHhcccccCCHHHH------------------
Confidence            356788999999999999999999999999999887   688999999876        677                  


Q ss_pred             CchhHHHHHHHHHHHhhccccchHHH-----------------HHHHHHHHHHhHHHHHHHHHhccccCCCCCc---hhH
Q 012162           91 PTTHAELALKDAEKLLNLQSNSMKSH-----------------LLKANALILLERYDMARDAILSGLQVDPFSN---PLQ  150 (469)
Q Consensus        91 ~~~~~~~A~~~~~~al~l~p~~~~~~-----------------~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~---~~~  150 (469)
                           ++|+..++++++.+|++..++                 +.+|..|...|++++|+..|++++...|+++   .+.
T Consensus       132 -----~~A~~~~~~~~~~~p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~  206 (235)
T TIGR03302       132 -----REAFEAFQELIRRYPNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEAL  206 (235)
T ss_pred             -----HHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHH
Confidence                 999999999999999986543                 4568889999999999999999999988765   455


Q ss_pred             HHHHHHHHhhhh
Q 012162          151 ASLQNLERTTAS  162 (469)
Q Consensus       151 ~~~~~~~~~~~~  162 (469)
                      ..+..+...+++
T Consensus       207 ~~l~~~~~~lg~  218 (235)
T TIGR03302       207 ARLVEAYLKLGL  218 (235)
T ss_pred             HHHHHHHHHcCC
Confidence            555555555444

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).

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=98.75  E-value=2.5e-08  Score=100.51  Aligned_cols=104  Identities=9%  Similarity=-0.000  Sum_probs=86.7

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      +..+...|..++..|++++|+..|+++++.+|++..++..+|.+|.+.|++                       ++|+..
T Consensus       180 ~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~-----------------------~~A~~~  236 (389)
T PRK11788        180 AHFYCELAQQALARGDLDAARALLKKALAADPQCVRASILLGDLALAQGDY-----------------------AAAIEA  236 (389)
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcCCHHHHHHHHHHHHHCCCH-----------------------HHHHHH
Confidence            344667888889999999999999999999999888888999999999998                       888888


Q ss_pred             HHHHhhccccc-hHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCch
Q 012162          102 AEKLLNLQSNS-MKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  148 (469)
Q Consensus       102 ~~~al~l~p~~-~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~  148 (469)
                      ++++++.+|.+ ..++..++.+|...|++++|+..++++++.+|++..
T Consensus       237 ~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~~~  284 (389)
T PRK11788        237 LERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEYPGADL  284 (389)
T ss_pred             HHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchH
Confidence            88888888776 456777888888888888888888888888887644

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=98.74  E-value=6.2e-08  Score=81.10  Aligned_cols=109  Identities=16%  Similarity=0.162  Sum_probs=95.9

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc---ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA   98 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A   98 (469)
                      ...+...|...++.|+|.+|++.|+....--|..+   .+...++.+|++.++|                       .+|
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            57789999999999999999999999998888754   6778899999999999                       999


Q ss_pred             HHHHHHHhhccccchH---HHHHHHHHHHHHhH---------------HHHHHHHHhccccCCCCCchhHHHH
Q 012162           99 LKDAEKLLNLQSNSMK---SHLLKANALILLER---------------YDMARDAILSGLQVDPFSNPLQASL  153 (469)
Q Consensus        99 ~~~~~~al~l~p~~~~---~~~~~g~~~~~~~~---------------~~~A~~~~~~al~~~p~~~~~~~~~  153 (469)
                      +..+++-++++|+++.   ++|.+|.+++....               ..+|...|++.+..-|++.-+....
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            9999999999998854   89999999998877               7888999999998888887665443

>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=98.73  E-value=6.2e-09  Score=68.62  Aligned_cols=38  Identities=50%  Similarity=1.292  Sum_probs=34.5

Q ss_pred             cccccccccccE-EccCCCcccHHHHHHHcc--cCCCcccc
Q 012162          180 CTLCLKLLYEPI-TTPCGHSFCRSCLFQSMD--RGNKCPLC  217 (469)
Q Consensus       180 C~ic~~~~~~p~-~~~cgh~~C~~Ci~~~~~--~~~~CP~C  217 (469)
                      |+||.+.+.+|+ .++|||+||..|+.+|+.  ....||.|
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  44579987

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 ....

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

Probab=98.72  E-value=9.5e-08  Score=99.77  Aligned_cols=127  Identities=16%  Similarity=0.157  Sum_probs=80.3

Q ss_pred             hhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhc-------cCCCCCcccCccC---
Q 012162           18 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLK-------HRPPSASEYRPLN---   87 (469)
Q Consensus        18 ~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~-------~~~~~~~~~~~~~---   87 (469)
                      ....+..+...|+.+|..|++++|...+.++|+.+|.++.+|+.+|.+|-..|+..|       ++-..++.+..|.   
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            344578899999999999999999999999999999999999999999999988711       1111111111110   


Q ss_pred             CCC-CchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCC
Q 012162           88 GLD-PTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP  144 (469)
Q Consensus        88 ~~~-~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p  144 (469)
                      .+. ++.....|.-.|.+||+++|.+.+.++.++..|.++|++..|+..|.+.+.++|
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            000 012234445555555555555555555555555555555555555555555555

>PLN02789 farnesyltranstransferase

Probab=98.69  E-value=5.9e-08  Score=94.34  Aligned_cols=115  Identities=9%  Similarity=0.000  Sum_probs=94.2

Q ss_pred             hHHHHHHhHHHHHHhccH--HHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHH
Q 012162           21 HVFDLVQKGNRAFRESNF--EEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA   98 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~--~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A   98 (469)
                      +...+..+|..+.+.|++  ++++.+++++++.+|+|..+|.+|+.++..+|+|                       ++|
T Consensus       105 nyqaW~~R~~~l~~l~~~~~~~el~~~~kal~~dpkNy~AW~~R~w~l~~l~~~-----------------------~ee  161 (320)
T PLN02789        105 NYQIWHHRRWLAEKLGPDAANKELEFTRKILSLDAKNYHAWSHRQWVLRTLGGW-----------------------EDE  161 (320)
T ss_pred             chHHhHHHHHHHHHcCchhhHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhhhH-----------------------HHH
Confidence            345566666666666653  6677888888888888888888888888888888                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHH---hHH----HHHHHHHhccccCCCCCchhHHHHHHHHH
Q 012162           99 LKDAEKLLNLQSNSMKSHLLKANALILL---ERY----DMARDAILSGLQVDPFSNPLQASLQNLER  158 (469)
Q Consensus        99 ~~~~~~al~l~p~~~~~~~~~g~~~~~~---~~~----~~A~~~~~~al~~~p~~~~~~~~~~~~~~  158 (469)
                      +..++++|+.||++..+|+.+|.++..+   |.+    ++++++..+++.++|+|..+...+..+-.
T Consensus       162 L~~~~~~I~~d~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~P~N~SaW~Yl~~ll~  228 (320)
T PLN02789        162 LEYCHQLLEEDVRNNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILANPRNESPWRYLRGLFK  228 (320)
T ss_pred             HHHHHHHHHHCCCchhHHHHHHHHHHhccccccccccHHHHHHHHHHHHHhCCCCcCHHHHHHHHHh
Confidence            9999999999999999999999998776   333    57888889999999999999988877754

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=98.69  E-value=4.8e-08  Score=106.93  Aligned_cols=113  Identities=12%  Similarity=0.048  Sum_probs=105.3

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      .+..+...|..+.+.|++++|+..|+++++++|.++.++..+|.++...|++                       ++|+.
T Consensus        48 ~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~l~~~g~~-----------------------~eA~~  104 (765)
T PRK10049         48 PARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILTLADAGQY-----------------------DEALV  104 (765)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCH-----------------------HHHHH
Confidence            3556888999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHH
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  157 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~  157 (469)
                      .++++++.+|+++. ++.+|.++...|++++|+..|+++++++|++..+...+..+-
T Consensus       105 ~l~~~l~~~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~l  160 (765)
T PRK10049        105 KAKQLVSGAPDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQAL  160 (765)
T ss_pred             HHHHHHHhCCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            99999999999999 999999999999999999999999999999998876665543

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.67  E-value=9e-08  Score=101.96  Aligned_cols=116  Identities=16%  Similarity=0.011  Sum_probs=103.7

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      ..+.+....|..+.+.+.+++|+..+++++..+|+++.+++.+|.++.++|+|                       ++|+
T Consensus       118 d~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~~~~~~~~~a~~l~~~g~~-----------------------~~A~  174 (694)
T PRK15179        118 DSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSSSAREILLEAKSWDEIGQS-----------------------EQAD  174 (694)
T ss_pred             CcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHhcch-----------------------HHHH
Confidence            34778889999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCC-chhHHHHHHHHH
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS-NPLQASLQNLER  158 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~-~~~~~~~~~~~~  158 (469)
                      ..|++++..+|++++++..+|.++...|+.++|...|++|++...+- +...+.+..+.+
T Consensus       175 ~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~  234 (694)
T PRK15179        175 ACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARKLTRRLVDLNA  234 (694)
T ss_pred             HHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999876543 333444444443

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=98.67  E-value=6.5e-08  Score=110.65  Aligned_cols=126  Identities=19%  Similarity=0.216  Sum_probs=96.4

Q ss_pred             HhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCc--------------
Q 012162           27 QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPT--------------   92 (469)
Q Consensus        27 ~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------   92 (469)
                      .+|..++..|++++|+..|+++++.+|+++.++..+|.+|++.|++    +.|...++.....+|.              
T Consensus       274 ~~G~~~~~~g~~~~A~~~l~~aL~~~P~~~~a~~~Lg~~~~~~g~~----~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~  349 (1157)
T PRK11447        274 AQGLAAVDSGQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDR----ARAVAQFEKALALDPHSSNRDKWESLLKVN  349 (1157)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH----HHHHHHHHHHHHhCCCccchhHHHHHHHhh
Confidence            4577777778888888888888888888777777788777777665    2222233322222221              


Q ss_pred             ---------------hhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHH
Q 012162           93 ---------------THAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  156 (469)
Q Consensus        93 ---------------~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~  156 (469)
                                     ...++|+..++++++++|+++.+++.+|.++...|++++|+..|+++++++|++..+...+..+
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                           1237899999999999999999999999999999999999999999999999998876665544

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=98.65  E-value=7.7e-08  Score=72.17  Aligned_cols=70  Identities=26%  Similarity=0.451  Sum_probs=65.2

Q ss_pred             HHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhc
Q 012162           29 GNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNL  108 (469)
Q Consensus        29 g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l  108 (469)
                      ...+++.++|++|+..+++++.++|+++.++..+|.+++.+|+|                       .+|+.+++++++.
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~-----------------------~~A~~~l~~~l~~   58 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRY-----------------------EEALEDLERALEL   58 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccH-----------------------HHHHHHHHHHHHH
Confidence            46789999999999999999999999999999999999999999                       9999999999999


Q ss_pred             cccchHHHHHHHH
Q 012162          109 QSNSMKSHLLKAN  121 (469)
Q Consensus       109 ~p~~~~~~~~~g~  121 (469)
                      +|+++.+...++.
T Consensus        59 ~p~~~~~~~~~a~   71 (73)
T PF13371_consen   59 SPDDPDARALRAM   71 (73)
T ss_pred             CCCcHHHHHHHHh
Confidence            9999888766554

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

Probab=98.65  E-value=7.3e-08  Score=99.03  Aligned_cols=104  Identities=14%  Similarity=0.091  Sum_probs=94.3

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH-
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK-  100 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~-  100 (469)
                      +..+...|..+..+|++.+|...|..|+.+||+++.....+|.++...|+-                       ..|.. 
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            456778899999999999999999999999999999999999999999976                       44555 


Q ss_pred             -HHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCch
Q 012162          101 -DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  148 (469)
Q Consensus       101 -~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~  148 (469)
                       .+..++++||.++++||.+|.++..+|+.++|.+.|..|+++++.++.
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             889999999999999999999999999999999999999999988875

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

Probab=98.64  E-value=1.3e-07  Score=93.03  Aligned_cols=121  Identities=17%  Similarity=0.099  Sum_probs=107.8

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ....+..+..++..|++++|...++..++..|+|+.++..++.+++..|+.                       .+|++.
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            455667788889999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhhhc
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIG  165 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~  165 (469)
                      +++++.++|+.+...+.+|.+|.+.|++.+|+..+++.+.-+|+|+..+..+......+++..+
T Consensus       363 ~~kal~l~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~  426 (484)
T COG4783         363 LKKALALDPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAE  426 (484)
T ss_pred             HHHHHhcCCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHH
Confidence            9999999999999999999999999999999999999999999999999888887777665443

>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=98.63  E-value=3.9e-08  Score=72.71  Aligned_cols=67  Identities=21%  Similarity=0.318  Sum_probs=61.9

Q ss_pred             HHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhcccc
Q 012162           32 AFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSN  111 (469)
Q Consensus        32 ~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~  111 (469)
                      ++..|+|++|+..|+++++.+|++..++..+|.+|++.|++                       ++|...+++++..+|+
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 012162          112 SMKSHLLKAN  121 (469)
Q Consensus       112 ~~~~~~~~g~  121 (469)
                      ++..+..++.
T Consensus        58 ~~~~~~l~a~   67 (68)
T PF14559_consen   58 NPEYQQLLAQ   67 (68)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhc
Confidence            9888777665

...

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=98.63  E-value=5.2e-08  Score=73.10  Aligned_cols=70  Identities=24%  Similarity=0.340  Sum_probs=64.2

Q ss_pred             hHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccC
Q 012162           63 SSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQV  142 (469)
Q Consensus        63 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~  142 (469)
                      ..+|++.++|                       ++|+..+++++.++|+++.+++.+|.++..+|+|++|+..|+++++.
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            4678888999                       99999999999999999999999999999999999999999999999


Q ss_pred             CCCCchhHHHHHH
Q 012162          143 DPFSNPLQASLQN  155 (469)
Q Consensus       143 ~p~~~~~~~~~~~  155 (469)
                      +|++..+......
T Consensus        59 ~p~~~~~~~~~a~   71 (73)
T PF13371_consen   59 SPDDPDARALRAM   71 (73)
T ss_pred             CCCcHHHHHHHHh
Confidence            9998887655543

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=98.62  E-value=1.2e-07  Score=103.74  Aligned_cols=112  Identities=11%  Similarity=-0.018  Sum_probs=103.8

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ...+..+|..+...|++++|+..+++++...|+++.++..+|.++...|++                       ++|+..
T Consensus       359 ~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~n~~l~~~lA~l~~~~g~~-----------------------~~A~~~  415 (765)
T PRK10049        359 LQGQSLLSQVAKYSNDLPQAEMRARELAYNAPGNQGLRIDYASVLQARGWP-----------------------RAAENE  415 (765)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCH-----------------------HHHHHH
Confidence            345567889999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHH
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  156 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~  156 (469)
                      ++++++++|++..+++.+|.++..+|++++|...++++++..|+++.+...-+..
T Consensus       416 l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~Pd~~~~~~~~~~~  470 (765)
T PRK10049        416 LKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAREPQDPGVQRLARAR  470 (765)
T ss_pred             HHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999775444433

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=98.62  E-value=3.1e-07  Score=84.78  Aligned_cols=112  Identities=13%  Similarity=0.066  Sum_probs=101.4

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC---cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA   98 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A   98 (469)
                      +..+++.|..+++.|+|..|...|..-++.-|+.   +.+++++|.+++.+|+|                       ..|
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            3558899999999999999999999999999986   58999999999999999                       999


Q ss_pred             HHHHHHHhhccccc---hHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHH
Q 012162           99 LKDAEKLLNLQSNS---MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  156 (469)
Q Consensus        99 ~~~~~~al~l~p~~---~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~  156 (469)
                      ...|..+++-.|++   +++++.+|.++..+|+.++|...|+++++.-|+...+......+
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            99999999977665   67899999999999999999999999999999998877665555

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

Probab=98.62  E-value=1.8e-08  Score=66.14  Aligned_cols=35  Identities=40%  Similarity=1.140  Sum_probs=22.2

Q ss_pred             cccccccccc----cEEccCCCcccHHHHHHHcccC----CCcc
Q 012162          180 CTLCLKLLYE----PITTPCGHSFCRSCLFQSMDRG----NKCP  215 (469)
Q Consensus       180 C~ic~~~~~~----p~~~~cgh~~C~~Ci~~~~~~~----~~CP  215 (469)
                      |+||.+ +.+    |+.++|||+||+.|+.+++..+    ..||
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence            899999 888    9999999999999999988743    2576

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

Probab=98.61  E-value=1.6e-07  Score=104.23  Aligned_cols=114  Identities=18%  Similarity=0.177  Sum_probs=104.6

Q ss_pred             hhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHH
Q 012162           19 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA   98 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A   98 (469)
                      ...+..+...|..++..|+|++|+..|+++++.+|+++.++..+|.+++..|++                       ++|
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             HHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHH
Q 012162           99 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  155 (469)
Q Consensus        99 ~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~  155 (469)
                      +..++++++.+|.+..+++.+|.++...|++++|+..|++++..+|++..+...+..
T Consensus       179 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~~~~  235 (899)
T TIGR02917       179 RALIDEVLTADPGNVDALLLKGDLLLSLGNIELALAAYRKAIALRPNNPAVLLALAT  235 (899)
T ss_pred             HHHHHHHHHhCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCCHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999998876554433

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.

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

Probab=98.60  E-value=1.9e-07  Score=91.89  Aligned_cols=118  Identities=17%  Similarity=0.121  Sum_probs=109.9

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      ++...+...|..++..++..+|++.+++++.++|+.+.+..++|.+|++.|++                       .+|+
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            45666777899999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhh
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  160 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~  160 (469)
                      ..+.+.+.-+|+++..|..+|.+|..+|+-.+|..++-.++.++.+...+...+...++..
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            9999999999999999999999999999999999999999999998888888877777665

>PRK11906 transcriptional regulator; Provisional

Probab=98.58  E-value=4e-07  Score=90.03  Aligned_cols=118  Identities=9%  Similarity=-0.015  Sum_probs=100.4

Q ss_pred             HHHHhHHHHHHhcc---HHHHHHHHHHHh---cCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHH
Q 012162           24 DLVQKGNRAFRESN---FEEAISNYSRAN---NIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL   97 (469)
Q Consensus        24 ~~~~~g~~~~~~~~---~~~A~~~y~~al---~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (469)
                      .++.+|...+..+.   .+.|+.+|.+|+   +++|+.+.+|..+|.||+..--.              ...++.....+
T Consensus       257 d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~--------------g~~~~~~~~~~  322 (458)
T PRK11906        257 DEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALH--------------GKSELELAAQK  322 (458)
T ss_pred             HHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHh--------------cCCCchHHHHH
Confidence            66778888766654   467999999999   99999999999999999876432              11225555689


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHH
Q 012162           98 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  155 (469)
Q Consensus        98 A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~  155 (469)
                      |...+++|++++|+++.+++.+|.++...++++.|...|++|+.++|+.+.+.....-
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            9999999999999999999999999999999999999999999999999988766554

>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=98.57  E-value=1.4e-07  Score=69.67  Aligned_cols=60  Identities=25%  Similarity=0.277  Sum_probs=55.5

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHH
Q 012162           96 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  155 (469)
Q Consensus        96 ~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~  155 (469)
                      ++|+..++++++.+|++..+++.+|.+|...|++++|...+++++..+|+++.++..+..
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            999999999999999999999999999999999999999999999999998877766554

...

>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=98.57  E-value=4e-08  Score=65.95  Aligned_cols=42  Identities=45%  Similarity=1.129  Sum_probs=36.5

Q ss_pred             ccccccccccccEEcc-CCCcccHHHHHHHccc-CCCccccccc
Q 012162          179 DCTLCLKLLYEPITTP-CGHSFCRSCLFQSMDR-GNKCPLCRAV  220 (469)
Q Consensus       179 ~C~ic~~~~~~p~~~~-cgh~~C~~Ci~~~~~~-~~~CP~Cr~~  220 (469)
                      .|++|.+.+.+++.++ |||.||..|+..|+.. ...||.|+..
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 9999999999999987 5679999875

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

Probab=98.56  E-value=8.3e-08  Score=92.90  Aligned_cols=115  Identities=23%  Similarity=0.189  Sum_probs=106.8

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ++.++.++|+..|..|++++|.+.|.+|+..+..-..+++|+|..+-.+|+.                       ++|+.
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            4677888999999999999999999999999998999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHH
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  158 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~  158 (469)
                      .|-+.-.+--++...++.+|.+|..+.+...|+++|.++..+-|+++.+...+..+-.
T Consensus       546 ~f~klh~il~nn~evl~qianiye~led~aqaie~~~q~~slip~dp~ilskl~dlyd  603 (840)
T KOG2003|consen  546 CFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQANSLIPNDPAILSKLADLYD  603 (840)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcccCCCCHHHHHHHHHHhh
Confidence            9999888888899999999999999999999999999999999999998877766643

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=98.54  E-value=3.5e-07  Score=92.13  Aligned_cols=111  Identities=18%  Similarity=0.149  Sum_probs=73.8

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHH
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  102 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~  102 (469)
                      ..+...|..++..|+|++|+..|.++++.+|.+..++..++.++...|++                       ++|+..+
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            44556677777777777777777777777777777777777777777777                       6777777


Q ss_pred             HHHhhccccch-----HHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHH
Q 012162          103 EKLLNLQSNSM-----KSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  156 (469)
Q Consensus       103 ~~al~l~p~~~-----~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~  156 (469)
                      +++++.+|.+.     ..+..+|.++...|++++|+..|+++++.+|++..+...+..+
T Consensus       165 ~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~  223 (389)
T PRK11788        165 ERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAADPQCVRASILLGDL  223 (389)
T ss_pred             HHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcCCHHHHHHHHHH
Confidence            77766665542     2345566666677777777777777777666665554444333

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=98.54  E-value=2.3e-07  Score=106.24  Aligned_cols=102  Identities=15%  Similarity=0.050  Sum_probs=89.2

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHH
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  102 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~  102 (469)
                      ..+...|..+.+.|++++|+..|+++++.+|+++.++.++|.+|...|++                       ++|+..+
T Consensus       604 ~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~-----------------------~eA~~~l  660 (1157)
T PRK11447        604 RIDLTLADWAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDL-----------------------AAARAQL  660 (1157)
T ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCH-----------------------HHHHHHH
Confidence            34566788888889999999999999999999999999999999999998                       8999999


Q ss_pred             HHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCc
Q 012162          103 EKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  147 (469)
Q Consensus       103 ~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~  147 (469)
                      +++++.+|+++.++..+|.++...|++++|++.|++++...|+++
T Consensus       661 ~~ll~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~  705 (1157)
T PRK11447        661 AKLPATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQP  705 (1157)
T ss_pred             HHHhccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCC
Confidence            999999999888889999999999999999999999988877654

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.54  E-value=5.5e-08  Score=64.96  Aligned_cols=41  Identities=39%  Similarity=1.028  Sum_probs=34.7

Q ss_pred             ccccccccc---cccEEccCCCcccHHHHHHHcccCCCcccccc
Q 012162          179 DCTLCLKLL---YEPITTPCGHSFCRSCLFQSMDRGNKCPLCRA  219 (469)
Q Consensus       179 ~C~ic~~~~---~~p~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~  219 (469)
                      .|++|...+   ..|+.++|||+||..|+.........||.||+
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            488999888   34678999999999999998866668999984

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

Probab=98.53  E-value=3.4e-08  Score=92.13  Aligned_cols=76  Identities=29%  Similarity=0.578  Sum_probs=64.9

Q ss_pred             CccccccccccccccccEE-ccCCCcccHHHHHHHcccCCCccccccccccCC--CcccCcccHHHHHHHhchHHHHHh
Q 012162          174 RTDDFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITP--RTCAVSVTLNSIIQKNFPEEYAER  249 (469)
Q Consensus       174 ~~~~~~C~ic~~~~~~p~~-~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~~~~--~~~~~~~~l~~~~~~~~~~~~~~~  249 (469)
                      ......|.+|...|.++.+ +-|-||||++||..++....+||.|...+....  ..+..+..|++++.+++|.-+...
T Consensus        12 ~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~pl~ni~~DrtlqdiVyKLVPgl~erE   90 (331)
T KOG2660|consen   12 LNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKTHPLLNIRSDRTLQDIVYKLVPGLQERE   90 (331)
T ss_pred             cccceehhhccceeecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccCccccccCCcchHHHHHHHHHcchHHHHH
Confidence            4567899999999999977 589999999999999999899999998875432  467788999999999999877544

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

Probab=98.52  E-value=1.7e-07  Score=90.17  Aligned_cols=109  Identities=21%  Similarity=0.320  Sum_probs=101.4

Q ss_pred             ecccCCCCCChhhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCc
Q 012162            6 QANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRP   85 (469)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~   85 (469)
                      .+..++.+.+.+....++....+|+.++++.+|..|+..|+.|+++.|+++..|.+++.+++.+++|             
T Consensus        33 ~~~~~~~s~~~~~~~~Ae~~k~~gn~~yk~k~Y~nal~~yt~Ai~~~pd~a~yy~nRAa~~m~~~~~-------------   99 (486)
T KOG0550|consen   33 AATSPEYSFSQEAAQQAEEAKEEGNAFYKQKTYGNALKNYTFAIDMCPDNASYYSNRAATLMMLGRF-------------   99 (486)
T ss_pred             hccCccccccchHHHHHHHHHhhcchHHHHhhHHHHHHHHHHHHHhCccchhhhchhHHHHHHHHhH-------------
Confidence            3455555566677888999999999999999999999999999999999999999999999999999             


Q ss_pred             cCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHh
Q 012162           86 LNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAIL  137 (469)
Q Consensus        86 ~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~  137 (469)
                                ++|+-++++.++++|...+++.+.+.++..+++..+|...|+
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                      999999999999999999999999999999999999998887

>PHA02926 zinc finger-like protein; Provisional

Probab=98.50  E-value=4.8e-08  Score=86.04  Aligned_cols=48  Identities=25%  Similarity=0.814  Sum_probs=38.1

Q ss_pred             ccccccccccccccc---------cEEccCCCcccHHHHHHHcccC------CCccccccccc
Q 012162          175 TDDFDCTLCLKLLYE---------PITTPCGHSFCRSCLFQSMDRG------NKCPLCRAVLF  222 (469)
Q Consensus       175 ~~~~~C~ic~~~~~~---------p~~~~cgh~~C~~Ci~~~~~~~------~~CP~Cr~~~~  222 (469)
                      +.+..|+||++...+         ++..+|+|+||..||..|....      ..||.||..+.
T Consensus       168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~  230 (242)
T PHA02926        168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR  230 (242)
T ss_pred             cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence            456799999987644         2456999999999999998632      35999999873

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.49  E-value=3.2e-07  Score=78.19  Aligned_cols=92  Identities=9%  Similarity=-0.082  Sum_probs=81.2

Q ss_pred             hcCC-CCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHh
Q 012162           49 NNIK-PGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLE  127 (469)
Q Consensus        49 l~~~-p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~  127 (469)
                      ..++ ++.-...+.+|.-++..|++                       ++|...|+-+..+||.++..|+++|.++..+|
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            4566 67777888899999999999                       99999999999999999999999999999999


Q ss_pred             HHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhh
Q 012162          128 RYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  163 (469)
Q Consensus       128 ~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~  163 (469)
                      +|++|++.|.+|+.++|+|+...-....+.-++++.
T Consensus        84 ~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~L~lG~~  119 (157)
T PRK15363         84 HWGEAIYAYGRAAQIKIDAPQAPWAAAECYLACDNV  119 (157)
T ss_pred             hHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHcCCH
Confidence            999999999999999999998877666655555443

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

Probab=98.49  E-value=1.9e-07  Score=82.48  Aligned_cols=120  Identities=23%  Similarity=0.178  Sum_probs=107.4

Q ss_pred             hhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHH
Q 012162           18 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL   97 (469)
Q Consensus        18 ~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (469)
                      +..++..++.+|..|=..|-+.-|...|++++.+.|+-+.+++.+|.-+...|+|                       +.
T Consensus        61 ~eeRA~l~fERGvlYDSlGL~~LAR~DftQaLai~P~m~~vfNyLG~Yl~~a~~f-----------------------da  117 (297)
T COG4785          61 DEERAQLLFERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNF-----------------------DA  117 (297)
T ss_pred             hHHHHHHHHHhcchhhhhhHHHHHhhhhhhhhhcCCCcHHHHHHHHHHHHhcccc-----------------------hH
Confidence            4456888899999999999999999999999999999999999999999999999                       99


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhh
Q 012162           98 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  160 (469)
Q Consensus        98 A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~  160 (469)
                      |.+.++..+++||.+-.++.++|.+++--|+|.-|.+.+.+-.+-||+|+--...+=-.+.++
T Consensus       118 a~eaFds~~ELDp~y~Ya~lNRgi~~YY~gR~~LAq~d~~~fYQ~D~~DPfR~LWLYl~E~k~  180 (297)
T COG4785         118 AYEAFDSVLELDPTYNYAHLNRGIALYYGGRYKLAQDDLLAFYQDDPNDPFRSLWLYLNEQKL  180 (297)
T ss_pred             HHHHhhhHhccCCcchHHHhccceeeeecCchHhhHHHHHHHHhcCCCChHHHHHHHHHHhhC
Confidence            999999999999999999999999999999999999999999999999985444433333333

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

Probab=98.49  E-value=4.6e-07  Score=78.01  Aligned_cols=95  Identities=18%  Similarity=0.254  Sum_probs=75.8

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC---cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA   98 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A   98 (469)
                      ....+..|..++..|+|++|+..|++++...|+.   +.+...+|.+++..|+|                       ++|
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            4566678888888999999999999998877654   35677788888888888                       888


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccc
Q 012162           99 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGL  140 (469)
Q Consensus        99 ~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al  140 (469)
                      +..++. +.-.+-.+.++..+|.+|...|++++|+..|++||
T Consensus       105 l~~L~~-~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~Al  145 (145)
T PF09976_consen  105 LATLQQ-IPDEAFKALAAELLGDIYLAQGDYDEARAAYQKAL  145 (145)
T ss_pred             HHHHHh-ccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHhC
Confidence            888866 34445556778888999999999999999988875

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

Probab=98.49  E-value=4.5e-08  Score=83.89  Aligned_cols=120  Identities=22%  Similarity=0.424  Sum_probs=88.9

Q ss_pred             HHhhccccchHHHHHHHHH-HHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhhhcccCCCCCCCcccccccc
Q 012162          104 KLLNLQSNSMKSHLLKANA-LILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTL  182 (469)
Q Consensus       104 ~al~l~p~~~~~~~~~g~~-~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~i  182 (469)
                      .++...|+-.+-|-.-|.+ |...-+|-...++|+.+++++..+..      .++....      ...+ ...-.|.|.|
T Consensus       135 ~viD~qpdVCKdyk~TGYCGYGDsCKflH~R~D~KtGWkLn~EWnA------~~Ee~~v------~~~~-~e~IPF~C~i  201 (259)
T COG5152         135 EVIDTQPDVCKDYKETGYCGYGDSCKFLHDRSDFKTGWKLNQEWNA------EYEEAPV------ISGP-GEKIPFLCGI  201 (259)
T ss_pred             ceeecCcccccchhhcccccCCchhhhhhhhhhhhcccccchhhcc------hhhhccc------ccCC-CCCCceeehh
Confidence            4566778888877777775 45677788889999999999987762      2222211      1111 2234679999


Q ss_pred             ccccccccEEccCCCcccHHHHHHHcccCCCccccccccccCCCcccCcccHHHHHH
Q 012162          183 CLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQ  239 (469)
Q Consensus       183 c~~~~~~p~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~  239 (469)
                      |...+..||.+.|||.||..|.-.-+..+..|-+|.+....   .+.+...+..++.
T Consensus       202 CKkdy~spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~G---~f~V~~d~~kmL~  255 (259)
T COG5152         202 CKKDYESPVVTECGHSFCSLCAIRKYQKGDECGVCGKATYG---RFWVVSDLQKMLN  255 (259)
T ss_pred             chhhccchhhhhcchhHHHHHHHHHhccCCcceecchhhcc---ceeHHhhHHHHHh
Confidence            99999999999999999999999999999999999988753   3555555555554

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=98.48  E-value=1.1e-07  Score=93.73  Aligned_cols=69  Identities=19%  Similarity=0.060  Sum_probs=66.2

Q ss_pred             CCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHH---HHHHHHHHHHHh
Q 012162           51 IKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKS---HLLKANALILLE  127 (469)
Q Consensus        51 ~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~---~~~~g~~~~~~~  127 (469)
                      .+|+++.+|+|+|.+|+.+|+|                       ++|+..+++|++++|++..+   |+++|.+|..+|
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            5788999999999999999999                       99999999999999999865   999999999999


Q ss_pred             HHHHHHHHHhccccC
Q 012162          128 RYDMARDAILSGLQV  142 (469)
Q Consensus       128 ~~~~A~~~~~~al~~  142 (469)
                      ++++|+++|++|+++
T Consensus       127 r~dEAla~LrrALel  141 (453)
T PLN03098        127 EGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHh
Confidence            999999999999997

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

Probab=98.46  E-value=3.9e-07  Score=83.08  Aligned_cols=107  Identities=20%  Similarity=0.237  Sum_probs=95.9

Q ss_pred             HHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHH
Q 012162           26 VQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKL  105 (469)
Q Consensus        26 ~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a  105 (469)
                      ...+..+...|+-+.+.....++....|.+..++...|...++.|+|                       ..|+..+.++
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            44566777778888888888888888888888887788999999999                       9999999999


Q ss_pred             hhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHH
Q 012162          106 LNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  155 (469)
Q Consensus       106 l~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~  155 (469)
                      ..++|+++++|..+|.+|.++|++++|...|.+++++.|+++.+..++..
T Consensus       127 ~~l~p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgm  176 (257)
T COG5010         127 ARLAPTDWEAWNLLGAALDQLGRFDEARRAYRQALELAPNEPSIANNLGM  176 (257)
T ss_pred             hccCCCChhhhhHHHHHHHHccChhHHHHHHHHHHHhccCCchhhhhHHH
Confidence            99999999999999999999999999999999999999999988777644

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

Probab=98.46  E-value=1e-06  Score=80.45  Aligned_cols=112  Identities=19%  Similarity=0.174  Sum_probs=91.2

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc---ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL   97 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (469)
                      .+..+...|..++..|+|.+|+..|++.+...|..+   .+.+.+|.++++.|+|                       ..
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            467889999999999999999999999999988764   7788999999999999                       99


Q ss_pred             HHHHHHHHhhccccch---HHHHHHHHHHHHHhH-----------HHHHHHHHhccccCCCCCchhHHHHHH
Q 012162           98 ALKDAEKLLNLQSNSM---KSHLLKANALILLER-----------YDMARDAILSGLQVDPFSNPLQASLQN  155 (469)
Q Consensus        98 A~~~~~~al~l~p~~~---~~~~~~g~~~~~~~~-----------~~~A~~~~~~al~~~p~~~~~~~~~~~  155 (469)
                      |+..+++.++..|+++   .+++.+|.+++...+           ..+|+..|+..+..-|++.-+......
T Consensus        61 A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~~~~~~~~~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~  132 (203)
T PF13525_consen   61 AIAAYERFIKLYPNSPKADYALYMLGLSYYKQIPGILRSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKR  132 (203)
T ss_dssp             HHHHHHHHHHH-TT-TTHHHHHHHHHHHHHHHHHHHH-TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHH
T ss_pred             HHHHHHHHHHHCCCCcchhhHHHHHHHHHHHhCccchhcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHH
Confidence            9999999999998875   589999999876543           458999999999999998866544433

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.46  E-value=7.3e-07  Score=83.51  Aligned_cols=112  Identities=13%  Similarity=0.153  Sum_probs=94.7

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccc---cchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVL---GNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE   96 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (469)
                      ..+..+...|..++..|+|++|+..|++++...|..+.+.   +++|.+|+++++|                       .
T Consensus        30 ~~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y-----------------------~   86 (243)
T PRK10866         30 NPPSEIYATAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADL-----------------------P   86 (243)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCH-----------------------H
Confidence            3577788999999999999999999999999999987554   8899999999999                       9


Q ss_pred             HHHHHHHHHhhccccch---HHHHHHHHHHHHHh------------------HHHHHHHHHhccccCCCCCchhHHHHH
Q 012162           97 LALKDAEKLLNLQSNSM---KSHLLKANALILLE------------------RYDMARDAILSGLQVDPFSNPLQASLQ  154 (469)
Q Consensus        97 ~A~~~~~~al~l~p~~~---~~~~~~g~~~~~~~------------------~~~~A~~~~~~al~~~p~~~~~~~~~~  154 (469)
                      +|+..+++.+++.|+++   .++|.+|.++..++                  .-.+|+..|++.++.-|+..-+.....
T Consensus        87 ~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~yP~S~ya~~A~~  165 (243)
T PRK10866         87 LAQAAIDRFIRLNPTHPNIDYVLYMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRGYPNSQYTTDATK  165 (243)
T ss_pred             HHHHHHHHHHHhCcCCCchHHHHHHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHHCcCChhHHHHHH
Confidence            99999999999998774   57899998865443                  235788999999999998875544443

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

Probab=98.46  E-value=8.3e-08  Score=86.72  Aligned_cols=49  Identities=45%  Similarity=0.940  Sum_probs=42.4

Q ss_pred             ccccccccccccccccEEccCCCcccHHHHHH-HcccCC-Ccccccccccc
Q 012162          175 TDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQ-SMDRGN-KCPLCRAVLFI  223 (469)
Q Consensus       175 ~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~-~~~~~~-~CP~Cr~~~~~  223 (469)
                      .-++.|.+|++....|+.++|||.||..||.. |..+.. .||+||+..+.
T Consensus       213 ~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~p  263 (271)
T COG5574         213 LADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYP  263 (271)
T ss_pred             ccccceeeeecccCCcccccccchhhHHHHHHHHHhhccccCchhhhhccc
Confidence            45889999999999999999999999999999 655544 59999998743

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=98.45  E-value=4.2e-07  Score=89.78  Aligned_cols=71  Identities=14%  Similarity=0.089  Sum_probs=66.0

Q ss_pred             hhhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCccc---ccchhHHHHHHHhhhccCCCCCcccCccCCCCCc
Q 012162           16 WDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIV---LGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPT   92 (469)
Q Consensus        16 ~~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (469)
                      ......+..+.+.|..++..|+|++|+..|++||+++|+++.+   |+|+|.+|..+|++                    
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 012162           93 THAELALKDAEKLLNLQ  109 (469)
Q Consensus        93 ~~~~~A~~~~~~al~l~  109 (469)
                         ++|+.++++|+++.
T Consensus       129 ---dEAla~LrrALels  142 (453)
T PLN03098        129 ---KKAADCLRTALRDY  142 (453)
T ss_pred             ---HHHHHHHHHHHHhc
Confidence               99999999999983

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

Probab=98.45  E-value=6.4e-07  Score=99.45  Aligned_cols=108  Identities=21%  Similarity=0.282  Sum_probs=66.1

Q ss_pred             HHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHH
Q 012162           26 VQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKL  105 (469)
Q Consensus        26 ~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a  105 (469)
                      ...|..+...|++++|+..|+++++..|.++.+|..+|.+|...|++                       ++|+..++++
T Consensus       571 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----------------------~~A~~~~~~~  627 (899)
T TIGR02917       571 LALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDL-----------------------NKAVSSFKKL  627 (899)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHH
Confidence            34455555556666666666666666666666666666666666666                       6666666666


Q ss_pred             hhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHH
Q 012162          106 LNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  156 (469)
Q Consensus       106 l~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~  156 (469)
                      ++.+|+++.+++.+|.++...|++++|+..|+++++.+|++..+...+..+
T Consensus       628 ~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  678 (899)
T TIGR02917       628 LALQPDSALALLLLADAYAVMKNYAKAITSLKRALELKPDNTEAQIGLAQL  678 (899)
T ss_pred             HHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            666666666666666666666666666666666666666665554444433

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.

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

Probab=98.45  E-value=8.7e-07  Score=88.43  Aligned_cols=115  Identities=23%  Similarity=0.201  Sum_probs=99.4

Q ss_pred             hHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhh
Q 012162           28 KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLN  107 (469)
Q Consensus        28 ~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~  107 (469)
                      .|..+...+++.-|-.+|.+|+.+.|.+|-.+..+|.+.+..+.|                       .+|+..++.++.
T Consensus       386 lgmey~~t~n~kLAe~Ff~~A~ai~P~Dplv~~Elgvvay~~~~y-----------------------~~A~~~f~~~l~  442 (611)
T KOG1173|consen  386 LGMEYMRTNNLKLAEKFFKQALAIAPSDPLVLHELGVVAYTYEEY-----------------------PEALKYFQKALE  442 (611)
T ss_pred             HHHHHHHhccHHHHHHHHHHHHhcCCCcchhhhhhhheeehHhhh-----------------------HHHHHHHHHHHH
Confidence            577788889999999999999999999999999999999999999                       999999999983


Q ss_pred             c----c---ccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhhhc
Q 012162          108 L----Q---SNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIG  165 (469)
Q Consensus       108 l----~---p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~  165 (469)
                      .    .   +.+...+.++|.++.++++|++|+..|+++|.+.|.+..++..+.-+.-.+++...
T Consensus       443 ~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~k~~~~~asig~iy~llgnld~  507 (611)
T KOG1173|consen  443 VIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSPKDASTHASIGYIYHLLGNLDK  507 (611)
T ss_pred             HhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCCCchhHHHHHHHHHHHhcChHH
Confidence            2    2   23556789999999999999999999999999999999998888777766665543

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

Probab=98.45  E-value=5e-07  Score=90.39  Aligned_cols=135  Identities=16%  Similarity=0.075  Sum_probs=100.8

Q ss_pred             hhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHH----------HhhhccCCCCCcccCcc
Q 012162           17 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRI----------SQFLKHRPPSASEYRPL   86 (469)
Q Consensus        17 ~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~----------~~~~~~~~~~~~~~~~~   86 (469)
                      ++..++++|...|......++=..||..+.++++++|+|..++..+|..|...          .+|+...  ++..|...
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 QDPQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQALKMLDKWIRNK--PKYVHLVS  391 (579)
T ss_pred             hChHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhC--ccchhccc
Confidence            44567899999999999999999999999999999999999999999887643          4453221  11112211


Q ss_pred             C----------CCCCchhHHHHHHHHHHHhhccc--cchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHH
Q 012162           87 N----------GLDPTTHAELALKDAEKLLNLQS--NSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASL  153 (469)
Q Consensus        87 ~----------~~~~~~~~~~A~~~~~~al~l~p--~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~  153 (469)
                      .          +.........-.+.|-.|....|  .+++.+..||..|...|+|++|++.|+.||..+|+|..+++.+
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            1          11223333455566666777777  7888999999999999999999999999999999988777665

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.44  E-value=1.2e-06  Score=90.83  Aligned_cols=129  Identities=13%  Similarity=0.121  Sum_probs=77.7

Q ss_pred             hhhHHHHHHhHHHHHHhcc---HHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCC----CCCcccCcc-----
Q 012162           19 YTHVFDLVQKGNRAFRESN---FEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRP----PSASEYRPL-----   86 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~~---~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~~~~-----   86 (469)
                      ...+..++.+|..++..++   +.+|+.+|++|++++|+++.+|..++.+|.....|.....    .+....+..     
T Consensus       336 ~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ldP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~al~~  415 (517)
T PRK10153        336 QGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSEPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVALPE  415 (517)
T ss_pred             CHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhhccc
Confidence            3467888899998886655   8899999999999999999999999998877655510000    000000000     


Q ss_pred             CCCCC------------chhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCch
Q 012162           87 NGLDP------------TTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  148 (469)
Q Consensus        87 ~~~~~------------~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~  148 (469)
                      ...++            ....++|...+++|++++|+ ..+|..+|.++...|++++|++.|++|+.++|.++.
T Consensus       416 ~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps-~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~pt  488 (517)
T PRK10153        416 LNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMS-WLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGENT  488 (517)
T ss_pred             CcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCch
Confidence            00000            11124555555666666653 455566666666666666666666666666665553

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

Probab=98.44  E-value=1.2e-07  Score=93.41  Aligned_cols=47  Identities=36%  Similarity=0.992  Sum_probs=41.7

Q ss_pred             ccccccccccccccEEccCCCcccHHHHHHHcccC-----CCcccccccccc
Q 012162          177 DFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRG-----NKCPLCRAVLFI  223 (469)
Q Consensus       177 ~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~~-----~~CP~Cr~~~~~  223 (469)
                      ...||||+....-|+.+.|||.||..||.++|..+     ..||.|+..++.
T Consensus       186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~  237 (513)
T KOG2164|consen  186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL  237 (513)
T ss_pred             CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence            67999999999999999999999999999988754     369999998854

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

Probab=98.42  E-value=6.5e-07  Score=88.91  Aligned_cols=84  Identities=14%  Similarity=0.183  Sum_probs=78.5

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ++..+..+|..++..|+|++|+..+++|++++|+++.+|+++|.+|+.+|+|                       ++|+.
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            3677889999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHh
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLE  127 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~  127 (469)
                      .++++++++|+++.++..++.+...+.
T Consensus        92 ~~~~al~l~P~~~~~~~~l~~~~~kl~  118 (356)
T PLN03088         92 ALEKGASLAPGDSRFTKLIKECDEKIA  118 (356)
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHHH
Confidence            999999999999999999888866653

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

Probab=98.42  E-value=3.5e-07  Score=84.92  Aligned_cols=87  Identities=17%  Similarity=0.210  Sum_probs=77.7

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ++-.|-++|.+|.+.|.|+.|++....||.+||....+|..+|.+|+.+|+|                       .+|+.
T Consensus       114 nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~-----------------------~~A~~  170 (304)
T KOG0553|consen  114 NAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKY-----------------------EEAIE  170 (304)
T ss_pred             cchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcH-----------------------HHHHH
Confidence            3566778999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHhHHH
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERYD  130 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~~  130 (469)
                      .|++||+++|+|....-.+..+-..+++..
T Consensus       171 aykKaLeldP~Ne~~K~nL~~Ae~~l~e~~  200 (304)
T KOG0553|consen  171 AYKKALELDPDNESYKSNLKIAEQKLNEPK  200 (304)
T ss_pred             HHHhhhccCCCcHHHHHHHHHHHHHhcCCC
Confidence            999999999999877777766665555544

>PRK14574 hmsH outer membrane protein; Provisional

Probab=98.40  E-value=1e-06  Score=95.70  Aligned_cols=110  Identities=13%  Similarity=-0.004  Sum_probs=77.8

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      .+......|...++.|+|..|+..|.++++.+|+++.+...++.++...|++                       ++|+.
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            4566788899999999999999999999999999864433666777777777                       67777


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHH
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASL  153 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~  153 (469)
                      .+++++.-+|.+..++..+|.++...|+|++|++.|+++++.+|+|+.+...+
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            77777633333333444445566666777777777777777777766655443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=98.40  E-value=1.1e-06  Score=72.30  Aligned_cols=96  Identities=23%  Similarity=0.111  Sum_probs=86.7

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC---cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      ..+++.|..+-..|+.++|+.+|++|+....+.   ..++.++|.++..+|++                       ++|+
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            356788999999999999999999999986554   46888999999999999                       9999


Q ss_pred             HHHHHHhhcccc---chHHHHHHHHHHHHHhHHHHHHHHHhcccc
Q 012162          100 KDAEKLLNLQSN---SMKSHLLKANALILLERYDMARDAILSGLQ  141 (469)
Q Consensus       100 ~~~~~al~l~p~---~~~~~~~~g~~~~~~~~~~~A~~~~~~al~  141 (469)
                      ..+++++.-.|+   +......++.++...|++++|+..+-.++.
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            999999999888   888888999999999999999999998875

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

Probab=98.38  E-value=9e-07  Score=90.75  Aligned_cols=110  Identities=14%  Similarity=0.088  Sum_probs=97.7

Q ss_pred             hHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhh
Q 012162           28 KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLN  107 (469)
Q Consensus        28 ~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~  107 (469)
                      .|...+..++|++|..+++.+++++|-....|+++|.|..+++++                       +.|.++|.+++.
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             ccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhh
Q 012162          108 LQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  160 (469)
Q Consensus       108 l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~  160 (469)
                      ++|++..+|.+++.+|..+|+-.+|...+++|++-+-++-.++++..-+-..+
T Consensus       548 L~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~iWENymlvsvdv  600 (777)
T KOG1128|consen  548 LEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQIWENYMLVSVDV  600 (777)
T ss_pred             cCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCeeeechhhhhhhc
Confidence            99999999999999999999999999999999999987776666554444433

>smart00184 RING Ring finger

Probab=98.36  E-value=2.8e-07  Score=59.55  Aligned_cols=38  Identities=47%  Similarity=1.315  Sum_probs=33.8

Q ss_pred             cccccccccccEEccCCCcccHHHHHHHcc-cCCCcccc
Q 012162          180 CTLCLKLLYEPITTPCGHSFCRSCLFQSMD-RGNKCPLC  217 (469)
Q Consensus       180 C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~-~~~~CP~C  217 (469)
                      |+||.+....++.++|||.||..|+..|+. ....||.|
T Consensus         1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCCCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            789999988999999999999999999987 44579987

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)

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

Probab=98.35  E-value=2.2e-07  Score=91.35  Aligned_cols=65  Identities=32%  Similarity=0.813  Sum_probs=54.3

Q ss_pred             CccccccccccccccccEEccCCCcccHHHHHHHcccCCCccccccccccCCCcccCcccHHHHHHHhc
Q 012162          174 RTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNF  242 (469)
Q Consensus       174 ~~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~  242 (469)
                      ..+.+.|+||++.|.+|++++|||+||+.|+..++.....||.||. .. .  .+..|..+.++++.+-
T Consensus        10 ~~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~-~~-~--~~~~n~~l~~~~~~~~   74 (386)
T KOG2177|consen   10 LQEELTCPICLEYFREPVLLPCGHNFCRACLTRSWEGPLSCPVCRP-PS-R--NLRPNVLLANLVERLR   74 (386)
T ss_pred             ccccccChhhHHHhhcCccccccchHhHHHHHHhcCCCcCCcccCC-ch-h--ccCccHHHHHHHHHHH
Confidence            4477899999999999988999999999999998884458999996 32 1  5668888888888753

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

Probab=98.34  E-value=5.1e-07  Score=84.50  Aligned_cols=211  Identities=16%  Similarity=0.161  Sum_probs=130.4

Q ss_pred             ccCCCccceeee--ccCCCCccCcccCchHHHHHHHHHHhC--CceeEEEEeCCCCCccccccceEEEEEeeecCC--c-
Q 012162          259 FGVDLMPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEG--NHRMGMVIIDPTTGSVADFACEVEITECEPLPD--G-  331 (469)
Q Consensus       259 ~~~~~lPl~~l~--v~fP~~~~~l~i~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~~G~~~~I~~~~~~~d--g-  331 (469)
                      .....+|+++..  |+|||.++|+.+..|+-+.+++.....  ++.|.+.+.....+....-+|.++|.....-.|  | 
T Consensus        61 ~t~~~~p~~~~~~~v~~PgqtLPl~~i~~~~~s~~r~lvs~ar~~~F~vl~r~~v~~re~~r~tt~evd~~R~p~d~Fgn  140 (371)
T KOG1400|consen   61 DTTNWIPICGQVMAVLFPGQTLPLKFIDPQERSIVRRLVSSARDNGFVVLFRSDVPERESLRYTTTEVDAYRVPQDNFGN  140 (371)
T ss_pred             CceeeecccCceeeEecCcccCcchhcCHHHHHHHHHHHHhhcCCceEEEecccchHHhhccccceeccccccchhhhhh
Confidence            444568999965  899999999999999888888877765  566766665433344445566666653211112  3 


Q ss_pred             -eEEEEEEeccceEEeeee-ccCCeeEEEEEEecCCCC----CC---------------------------cchhhhHHH
Q 012162          332 -RFVLEIESRRRFRILRSW-DQDGYRVAEIEWVQDIHP----EG---------------------------VEDRADLQD  378 (469)
Q Consensus       332 -~~~v~~~g~~R~~i~~~~-~~~~~~~a~ve~~~d~~~----~~---------------------------~~~~~~l~~  378 (469)
                       -.++...|..|++++++. +..|--.|+|+.+|+...    +.                           .+.+.-..+
T Consensus       141 ~l~~~~~~G~y~~~vl~lR~qs~g~~e~~~qL~P~~~i~~~~~Sf~~~~avq~~~~n~~~ia~~~n~~p~s~e~dm~sla  220 (371)
T KOG1400|consen  141 ALSMVKAMGRYRCKVLKLRTQSLGRGEAEVQLLPDVEIPCLLPSFIPKSAVQLPAHNKCSIATRINGYPFSAERDMTSLA  220 (371)
T ss_pred             hhhhhhhhcccccceeeecccCCCcccceEEeccccccccccccccchhhheecccCcceeccCCCCCccccccchhhhh
Confidence             345566899999999986 455666778887774210    00                           000000000


Q ss_pred             HHHHHHH----------HHHHHHHHHHH---HHHHhHHHHHHhhhhhcCCCCCCCcchhHHHHHhcCCCChhHhhhhccC
Q 012162          379 LTNNAAE----------YARLWLRREKE---SARQDRRRLEKLLNVEVMMPPSQDPERFSFWLATLSDRRPSERLELLRI  445 (469)
Q Consensus       379 l~~~l~~----------~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~~~~p~~l~~~ia~~l~l~~~~kq~lLe~  445 (469)
                      ..+.+..          ....|.....+   ++.....+...|.+....-..+..|..|++++|+.+++...-++.||.+
T Consensus       221 ~f~~i~sls~~h~~~ll~~~~was~tyqSy~la~rivenarl~yE~lk~ds~~~kpivlSf~~a~kihv~e~~~~hL~~~  300 (371)
T KOG1400|consen  221 VFRQIGSLSGFHGDDLLSWPKWASLTYQSYFLAKRIVENARLWYELLKEDSAPGKPIVLSFKYAWKIHVCERCREHLLWE  300 (371)
T ss_pred             hheehhhhhhhcccccccccccchHHHHHHHHHHHHHHHHHHHHHhccccccCCCceEeehhhhhhhhhhHHHHHHHHhh
Confidence            0000000          01111111111   1111111222344443322356789999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHhhhccccCC
Q 012162          446 RDTRERIRRGLIFLRAEEQGCRLQ  469 (469)
Q Consensus       446 ~~~~eRl~~l~~~l~~~~~~~~~~  469 (469)
                      .++.-|+...+..++++...||++
T Consensus       301 g~v~tRlq~e~~~~~k~ti~fCk~  324 (371)
T KOG1400|consen  301 GSVMTRLQREFFGIQKETITFCKE  324 (371)
T ss_pred             cccccchheeeecccchhhhhhHh
Confidence            999999999999999998777753

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

Probab=98.34  E-value=2.6e-06  Score=89.89  Aligned_cols=114  Identities=16%  Similarity=0.202  Sum_probs=101.9

Q ss_pred             hhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC-cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHH
Q 012162           19 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD-PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL   97 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (469)
                      ..++..++.+|..+|.+|||..|+.+|.+|+.++|.- ++....+|.|+.++++-                       +.
T Consensus       161 p~Nil~LlGkA~i~ynkkdY~~al~yyk~al~inp~~~aD~rIgig~Cf~kl~~~-----------------------~~  217 (1018)
T KOG2002|consen  161 PDNILALLGKARIAYNKKDYRGALKYYKKALRINPACKADVRIGIGHCFWKLGMS-----------------------EK  217 (1018)
T ss_pred             CcchHHHHHHHHHHhccccHHHHHHHHHHHHhcCcccCCCccchhhhHHHhccch-----------------------hh
Confidence            3457889999999999999999999999999999974 57888999999999998                       99


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHH---HhHHHHHHHHHhccccCCCCCchhHHHHHH
Q 012162           98 ALKDAEKLLNLQSNSMKSHLLKANALIL---LERYDMARDAILSGLQVDPFSNPLQASLQN  155 (469)
Q Consensus        98 A~~~~~~al~l~p~~~~~~~~~g~~~~~---~~~~~~A~~~~~~al~~~p~~~~~~~~~~~  155 (469)
                      |+..+++|++++|.+..++..+|.+-..   ...|..|+..+.++...+|+|+.+...++.
T Consensus       218 a~~a~~ralqLdp~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n~~nP~~l~~LAn  278 (1018)
T KOG2002|consen  218 ALLAFERALQLDPTCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKENNENPVALNHLAN  278 (1018)
T ss_pred             HHHHHHHHHhcChhhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhcCCCcHHHHHHHH
Confidence            9999999999999999999999987654   455788999999999999999998777654

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

Probab=98.34  E-value=7.4e-07  Score=85.72  Aligned_cols=116  Identities=21%  Similarity=0.204  Sum_probs=71.9

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCC--CCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIK--PGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~--p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ..+......+...|+++++...+.++....  +.++..|..+|.++.+.|++                       ++|+.
T Consensus       111 ~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~-----------------------~~A~~  167 (280)
T PF13429_consen  111 RYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDP-----------------------DKALR  167 (280)
T ss_dssp             -------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHH-----------------------HHHHH
T ss_pred             chhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCH-----------------------HHHHH
Confidence            334445556667777777777777766544  55667777777777777777                       77788


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhh
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  161 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~  161 (469)
                      .++++++++|+++.+...++.++...|+++++...++...+..|+|+.+...+..+...++
T Consensus       168 ~~~~al~~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg  228 (280)
T PF13429_consen  168 DYRKALELDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLG  228 (280)
T ss_dssp             HHHHHHHH-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT
T ss_pred             HHHHHHHcCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhcccc
Confidence            8888888888777777777777777777777777776666666666666555544444443

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

Probab=98.34  E-value=4.2e-06  Score=88.39  Aligned_cols=113  Identities=17%  Similarity=0.166  Sum_probs=102.3

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC-cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD-PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA   98 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A   98 (469)
                      ..++.++..|..+..+|||++|..+|.++++.+|++ .-.++++|+.|++.|++                       ..|
T Consensus       305 ~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dl-----------------------e~s  361 (1018)
T KOG2002|consen  305 IKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDL-----------------------EES  361 (1018)
T ss_pred             HHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccchhHHHHHhchH-----------------------HHH
Confidence            456778999999999999999999999999999998 67889999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHh----HHHHHHHHHhccccCCCCCchhHHHHHH
Q 012162           99 LKDAEKLLNLQSNSMKSHLLKANALILLE----RYDMARDAILSGLQVDPFSNPLQASLQN  155 (469)
Q Consensus        99 ~~~~~~al~l~p~~~~~~~~~g~~~~~~~----~~~~A~~~~~~al~~~p~~~~~~~~~~~  155 (469)
                      ...|+++++..|++.+....+|..|...+    .-+.|.....++++..|.|.+++-.++.
T Consensus       362 ~~~fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~~~d~~a~l~laq  422 (1018)
T KOG2002|consen  362 KFCFEKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQTPVDSEAWLELAQ  422 (1018)
T ss_pred             HHHHHHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            99999999999999999999999998876    6788999999999999998877655544

>PRK11906 transcriptional regulator; Provisional

Probab=98.33  E-value=1e-06  Score=87.28  Aligned_cols=92  Identities=16%  Similarity=0.031  Sum_probs=86.0

Q ss_pred             hccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchH
Q 012162           35 ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMK  114 (469)
Q Consensus        35 ~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~  114 (469)
                      ..+-.+|..+..+|++++|+|+.++..+|.++...+++                       +.|+..+++|+.++|+++.
T Consensus       317 ~~~~~~a~~~A~rAveld~~Da~a~~~~g~~~~~~~~~-----------------------~~a~~~f~rA~~L~Pn~A~  373 (458)
T PRK11906        317 ELAAQKALELLDYVSDITTVDGKILAIMGLITGLSGQA-----------------------KVSHILFEQAKIHSTDIAS  373 (458)
T ss_pred             hHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHhhcch-----------------------hhHHHHHHHHhhcCCccHH
Confidence            34567899999999999999999999999999999999                       9999999999999999999


Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchh
Q 012162          115 SHLLKANALILLERYDMARDAILSGLQVDPFSNPL  149 (469)
Q Consensus       115 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~  149 (469)
                      +|+..|.+....|+.++|+..+++|++++|.-..+
T Consensus       374 ~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~  408 (458)
T PRK11906        374 LYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKA  408 (458)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHH
Confidence            99999999999999999999999999999976543

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

Probab=98.31  E-value=1.3e-07  Score=88.76  Aligned_cols=70  Identities=33%  Similarity=0.776  Sum_probs=58.6

Q ss_pred             CccccccccccccccccEEc-cCCCcccHHHHHHHcccC-CCccccccccccCCCcccCcccHHHHHHHhchH
Q 012162          174 RTDDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDRG-NKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPE  244 (469)
Q Consensus       174 ~~~~~~C~ic~~~~~~p~~~-~cgh~~C~~Ci~~~~~~~-~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~~~  244 (469)
                      ....+.|+||+.++....++ .|+|.||..||...+..+ +.||.||+.+.. .+.+.++.....++.+.++.
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            34578999999999999876 799999999999988755 589999999853 36788888888888887766

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

Probab=98.31  E-value=2.2e-06  Score=80.15  Aligned_cols=103  Identities=8%  Similarity=0.007  Sum_probs=83.1

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      |.-+-..+..+....++++|+..+.+|++.+|+...+-.-+|.+++..|+|                       ++|++.
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            455567777777788888888888888888888888888888888888888                       888888


Q ss_pred             HHHHhhccccc-hHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCc
Q 012162          102 AEKLLNLQSNS-MKSHLLKANALILLERYDMARDAILSGLQVDPFSN  147 (469)
Q Consensus       102 ~~~al~l~p~~-~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~  147 (469)
                      ++.+++.||++ +.+.-.+..+|..+|+.++.+..+.++.+..++..
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            88888888876 45677778888888888888888888888776654

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.30  E-value=4.4e-06  Score=75.79  Aligned_cols=113  Identities=17%  Similarity=0.120  Sum_probs=99.5

Q ss_pred             HHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHH
Q 012162           25 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  104 (469)
Q Consensus        25 ~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  104 (469)
                      ...+|..+-..|+|++|+++|+..++-||.|..+|-..-.+...+|+-                       -+|++.+..
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            345677888889999999999999999999999888766677777877                       899999999


Q ss_pred             HhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhh
Q 012162          105 LLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  160 (469)
Q Consensus       105 al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~  160 (469)
                      .++.-+++.++|..++.+|...|+|++|.-.|++.+-++|.++.....+..+.=.+
T Consensus       146 YL~~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~~P~n~l~f~rlae~~Yt~  201 (289)
T KOG3060|consen  146 YLDKFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLIQPFNPLYFQRLAEVLYTQ  201 (289)
T ss_pred             HHHHhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999998877776654433

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

Probab=98.30  E-value=4.6e-06  Score=80.78  Aligned_cols=101  Identities=14%  Similarity=0.189  Sum_probs=90.5

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ...+.+.+..+.+.++|.+|+...+++|.++|+|..+++.+|.|+..+++|                       +.|..+
T Consensus       257 ~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~-----------------------~~A~~d  313 (397)
T KOG0543|consen  257 LACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEY-----------------------DLARDD  313 (397)
T ss_pred             HHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccH-----------------------HHHHHH
Confidence            345567888999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHHHH-HHHHhccccCCCC
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMA-RDAILSGLQVDPF  145 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A-~~~~~~al~~~p~  145 (469)
                      +++|++++|+|-.+...+..+.....++.+. .+.|.+.+..-+.
T Consensus       314 f~ka~k~~P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~k~~~  358 (397)
T KOG0543|consen  314 FQKALKLEPSNKAARAELIKLKQKIREYEEKEKKMYANMFAKLAE  358 (397)
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Confidence            9999999999999999999888887777665 7888888876553

>PRK14574 hmsH outer membrane protein; Provisional

Probab=98.30  E-value=2.5e-06  Score=92.72  Aligned_cols=108  Identities=13%  Similarity=0.103  Sum_probs=81.7

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHH
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  102 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~  102 (469)
                      ..+...|..+...|+|++|++.|+++++.+|+++.++..++.+|...+++                       ++|+..+
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            34444567777888888888888888888888888888888888888888                       8888888


Q ss_pred             HHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHH
Q 012162          103 EKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQ  154 (469)
Q Consensus       103 ~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~  154 (469)
                      ++++..+|.+... ..++.++...+++.+|+..|+++++.+|++.++...+-
T Consensus       160 ~~l~~~dp~~~~~-l~layL~~~~~~~~~AL~~~ekll~~~P~n~e~~~~~~  210 (822)
T PRK14574        160 TELAERDPTVQNY-MTLSYLNRATDRNYDALQASSEAVRLAPTSEEVLKNHL  210 (822)
T ss_pred             HHhcccCcchHHH-HHHHHHHHhcchHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            8888888875443 44555555567776688888888888888877654443

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

Probab=98.28  E-value=2.5e-06  Score=84.88  Aligned_cols=101  Identities=12%  Similarity=0.009  Sum_probs=86.0

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ...+...|..+...|++++|+..|+++++++|+++.++..+|.+|+..|++                       ++|+..
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            455557788889999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccch----HHHHHHHHHHHHHhHHHHHHHHHhccccCCCC
Q 012162          102 AEKLLNLQSNSM----KSHLLKANALILLERYDMARDAILSGLQVDPF  145 (469)
Q Consensus       102 ~~~al~l~p~~~----~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~  145 (469)
                      +++++...|..+    ..|..+|.++...|++++|+..|++++...|.
T Consensus       171 l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~  218 (355)
T cd05804         171 MESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAE  218 (355)
T ss_pred             HHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccC
Confidence            999999876433    34667899999999999999999998776663

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.

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

Probab=98.24  E-value=3.3e-06  Score=91.18  Aligned_cols=141  Identities=9%  Similarity=-0.086  Sum_probs=107.4

Q ss_pred             ecccCCCCCChhhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCc
Q 012162            6 QANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRP   85 (469)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~   85 (469)
                      +.....++.++..   ..++...+..+...+++++|+...+.+++..|+...+|+..|..+++.+++   .+++..   .
T Consensus        18 ~~r~~~~~~~p~n---~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~l~~q~~~~---~~~~lv---~   88 (906)
T PRK14720         18 WTRADANNYSLSK---FKELDDLIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGILSLSRRPL---NDSNLL---N   88 (906)
T ss_pred             hhhcccccCCcch---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHHHHHhhcch---hhhhhh---h
Confidence            3333344444443   567777788888999999999999999999999999999999999888876   111111   2


Q ss_pred             cCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHH
Q 012162           86 LNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  155 (469)
Q Consensus        86 ~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~  155 (469)
                      +.+.-+......++.++...+...+++-.|++.+|.+|..+|++++|.+.|+++++++|+|+.+.+.++-
T Consensus        89 ~l~~~~~~~~~~~ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~n~~aLNn~AY  158 (906)
T PRK14720         89 LIDSFSQNLKWAIVEHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKADRDNPEIVKKLAT  158 (906)
T ss_pred             hhhhcccccchhHHHHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcccHHHHHHHHH
Confidence            2222222222466777777777778888999999999999999999999999999999999987666543

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

Probab=98.21  E-value=3.5e-06  Score=83.42  Aligned_cols=128  Identities=27%  Similarity=0.273  Sum_probs=109.7

Q ss_pred             hhhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhH
Q 012162           16 WDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA   95 (469)
Q Consensus        16 ~~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (469)
                      .+....++.++..|+..|-.+....|+.+|.+++...|....+|.++|.++++-+ |.                   .+.
T Consensus       368 ~eL~e~ie~~~~egnd~ly~~~~~~~i~~~s~a~q~~~~~~~~l~nraa~lmkRk-W~-------------------~d~  427 (758)
T KOG1310|consen  368 YELPENIEKFKTEGNDGLYESIVSGAISHYSRAIQYVPDAIYLLENRAAALMKRK-WR-------------------GDS  427 (758)
T ss_pred             hhchHHHHHHHhhccchhhhHHHHHHHHHHHHHhhhccchhHHHHhHHHHHHhhh-cc-------------------ccH
Confidence            3556668888999999999999999999999999999999999999999997653 31                   112


Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhh
Q 012162           96 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  163 (469)
Q Consensus        96 ~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~  163 (469)
                      -.|+.++..|++++|...+||++++.++..++++.+|++....+....|.+.........+.+.++..
T Consensus       428 ~~AlrDch~Alrln~s~~kah~~la~aL~el~r~~eal~~~~alq~~~Ptd~a~~~~v~~l~rDi~aa  495 (758)
T KOG1310|consen  428 YLALRDCHVALRLNPSIQKAHFRLARALNELTRYLEALSCHWALQMSFPTDVARQNFVLCLPRDISAA  495 (758)
T ss_pred             HHHHHhHHhhccCChHHHHHHHHHHHHHHHHhhHHHhhhhHHHHhhcCchhhhhhhhhhccccchHHH
Confidence            68999999999999999999999999999999999999999988888998877777776666665554

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

Probab=98.19  E-value=6e-06  Score=83.80  Aligned_cols=118  Identities=11%  Similarity=0.044  Sum_probs=108.7

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHH
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  102 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~  102 (469)
                      ..++.++...|..++|.+.++..+..++-.|.+++.+...|..+..+|+-                       ++|....
T Consensus         8 ~~lF~~~lk~yE~kQYkkgLK~~~~iL~k~~eHgeslAmkGL~L~~lg~~-----------------------~ea~~~v   64 (700)
T KOG1156|consen    8 NALFRRALKCYETKQYKKGLKLIKQILKKFPEHGESLAMKGLTLNCLGKK-----------------------EEAYELV   64 (700)
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHhCCccchhHHhccchhhcccch-----------------------HHHHHHH
Confidence            45778888999999999999999999999999999999999999999998                       9999999


Q ss_pred             HHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhh
Q 012162          103 EKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  163 (469)
Q Consensus       103 ~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~  163 (469)
                      ..+++.|+.+.-.|..+|.++..-++|++|+.+|+.|+.++|+|..+...++-++..+...
T Consensus        65 r~glr~d~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~~dN~qilrDlslLQ~QmRd~  125 (700)
T KOG1156|consen   65 RLGLRNDLKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIEKDNLQILRDLSLLQIQMRDY  125 (700)
T ss_pred             HHHhccCcccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHhh
Confidence            9999999999999999999999999999999999999999999999988888877766654

>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=98.18  E-value=9.2e-06  Score=62.52  Aligned_cols=80  Identities=23%  Similarity=0.233  Sum_probs=70.6

Q ss_pred             cccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHh
Q 012162           58 VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAIL  137 (469)
Q Consensus        58 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~  137 (469)
                      +++++|.++...|++                       .+|+..++++++..|++..+++.+|.++...|++++|+..|+
T Consensus         2 ~~~~~a~~~~~~~~~-----------------------~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~   58 (100)
T cd00189           2 ALLNLGNLYYKLGDY-----------------------DEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYE   58 (100)
T ss_pred             HHHHHHHHHHHHhcH-----------------------HHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            467889999999999                       999999999999999999999999999999999999999999


Q ss_pred             ccccCCCCCchhHHHHHHHHHhh
Q 012162          138 SGLQVDPFSNPLQASLQNLERTT  160 (469)
Q Consensus       138 ~al~~~p~~~~~~~~~~~~~~~~  160 (469)
                      +++...|.+..+...+..+....
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~   81 (100)
T cd00189          59 KALELDPDNAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHhCCCcchhHHHHHHHHHHHH
Confidence            99999999886665555544433

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.18  E-value=2.4e-06  Score=75.43  Aligned_cols=109  Identities=11%  Similarity=0.055  Sum_probs=90.9

Q ss_pred             HHHHHHhccHHHHHHHHHHHhcCCCCC--cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHh
Q 012162           29 GNRAFRESNFEEAISNYSRANNIKPGD--PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLL  106 (469)
Q Consensus        29 g~~~~~~~~~~~A~~~y~~al~~~p~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al  106 (469)
                      .+.+|-.++|..+...+...++.++.+  ...|+++|.++..+|++                       ++|+..+++++
T Consensus         6 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~g~~~~~~g~~-----------------------~~A~~~~~~al   62 (168)
T CHL00033          6 RNDNFIDKTFTIVADILLRILPTTSGEKEAFTYYRDGMSAQSEGEY-----------------------AEALQNYYEAM   62 (168)
T ss_pred             ccccccccccccchhhhhHhccCCchhHHHHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHH
Confidence            345666677888888887776776665  56779999999999999                       99999999999


Q ss_pred             hccccc---hHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhh
Q 012162          107 NLQSNS---MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  160 (469)
Q Consensus       107 ~l~p~~---~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~  160 (469)
                      .+.|+.   +.+|+++|.++...|++++|+..|+++++++|.+......+..+...+
T Consensus        63 ~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la~i~~~~  119 (168)
T CHL00033         63 RLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMAVICHYR  119 (168)
T ss_pred             hccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHh
Confidence            997763   458999999999999999999999999999999888776666655533

>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=98.15  E-value=1.8e-06  Score=64.50  Aligned_cols=40  Identities=45%  Similarity=1.064  Sum_probs=33.1

Q ss_pred             ccccccccccc------------cE-EccCCCcccHHHHHHHcccCCCccccc
Q 012162          179 DCTLCLKLLYE------------PI-TTPCGHSFCRSCLFQSMDRGNKCPLCR  218 (469)
Q Consensus       179 ~C~ic~~~~~~------------p~-~~~cgh~~C~~Ci~~~~~~~~~CP~Cr  218 (469)
                      .|.||+..+.+            ++ ..+|||.|...||.+|+.....||.||
T Consensus        21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   21 NCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             BETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             cccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            49999998833            23 358999999999999999988999997

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 ....

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.13  E-value=2e-05  Score=71.54  Aligned_cols=120  Identities=18%  Similarity=0.044  Sum_probs=101.9

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ...++.+-.....+|...+||+.....++.-++|+++|..+|.+|+..|+|                       ++|.-.
T Consensus       120 ~v~~KRKlAilka~GK~l~aIk~ln~YL~~F~~D~EAW~eLaeiY~~~~~f-----------------------~kA~fC  176 (289)
T KOG3060|consen  120 TVIRKRKLAILKAQGKNLEAIKELNEYLDKFMNDQEAWHELAEIYLSEGDF-----------------------EKAAFC  176 (289)
T ss_pred             hHHHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhHH-----------------------HHHHHH
Confidence            344555556666778889999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHH---hHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhhh
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILL---ERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLI  164 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~---~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~  164 (469)
                      +++.+=++|-++..+.++|.+++-.   .+++-|..+|.++++++|.+..+..++-..-..+.+..
T Consensus       177 lEE~ll~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~~~~ral~GI~lc~~~la~~s  242 (289)
T KOG3060|consen  177 LEELLLIQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNPKNLRALFGIYLCGSALAQIS  242 (289)
T ss_pred             HHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhChHhHHHHHHHHHHHHHHHHHh
Confidence            9999999999999999999998754   46788999999999999987777666655555555433

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

Probab=98.12  E-value=1.1e-05  Score=80.31  Aligned_cols=90  Identities=22%  Similarity=0.190  Sum_probs=55.6

Q ss_pred             hHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhh
Q 012162           28 KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLN  107 (469)
Q Consensus        28 ~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~  107 (469)
                      .+..++..++-.+|+..+.++++..|.++.++...|..++..+++                       +.|+..+++++.
T Consensus       206 LA~v~l~~~~E~~AI~ll~~aL~~~p~d~~LL~~Qa~fLl~k~~~-----------------------~lAL~iAk~av~  262 (395)
T PF09295_consen  206 LARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFLLSKKKY-----------------------ELALEIAKKAVE  262 (395)
T ss_pred             HHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCH-----------------------HHHHHHHHHHHH
Confidence            344555555556666666666666666666666666666666666                       666666666666


Q ss_pred             ccccchHHHHHHHHHHHHHhHHHHHHHHHhccc
Q 012162          108 LQSNSMKSHLLKANALILLERYDMARDAILSGL  140 (469)
Q Consensus       108 l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al  140 (469)
                      +.|++...|+.+|.+|..+|+|+.|+..+..+-
T Consensus       263 lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  263 LSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             hCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            666666666666666666666666665555443

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

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.11  E-value=2.3e-06  Score=80.63  Aligned_cols=46  Identities=35%  Similarity=0.775  Sum_probs=35.8

Q ss_pred             ccccccccc-cccccE----EccCCCcccHHHHHHHcccC-CCccccccccc
Q 012162          177 DFDCTLCLK-LLYEPI----TTPCGHSFCRSCLFQSMDRG-NKCPLCRAVLF  222 (469)
Q Consensus       177 ~~~C~ic~~-~~~~p~----~~~cgh~~C~~Ci~~~~~~~-~~CP~Cr~~~~  222 (469)
                      +..||+|.. .+.+|-    +.+|||+||..|+...+..+ ..||.|+.++.
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lr   54 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLR   54 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccc
Confidence            457999997 355663    23799999999999977544 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).

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.11  E-value=1e-05  Score=83.81  Aligned_cols=86  Identities=12%  Similarity=-0.038  Sum_probs=69.2

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHH
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  102 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~  102 (469)
                      ..+...|..+...|++++|...|++|++++| +..+|..+|.++...|++                       ++|+..+
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            4455667778889999999999999999999 578999999999999999                       9999999


Q ss_pred             HHHhhccccchHHHHHH-HHHHHHHhHHHHH
Q 012162          103 EKLLNLQSNSMKSHLLK-ANALILLERYDMA  132 (469)
Q Consensus       103 ~~al~l~p~~~~~~~~~-g~~~~~~~~~~~A  132 (469)
                      ++|+.++|.++..|.-. +..|..+....-|
T Consensus       477 ~~A~~L~P~~pt~~~~~~~~f~~~~~~~~~~  507 (517)
T PRK10153        477 STAFNLRPGENTLYWIENLVFQTSVETVVPY  507 (517)
T ss_pred             HHHHhcCCCCchHHHHHhccccccHHHHHHH
Confidence            99999999998644332 2233444544433

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

Probab=98.10  E-value=1.9e-05  Score=82.97  Aligned_cols=97  Identities=21%  Similarity=0.186  Sum_probs=84.8

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ...|+..|....+.|++.+|+-+|++||+.+|.+....+.++..|.++|++                       ..|+.-
T Consensus       207 ~e~W~~ladls~~~~~i~qA~~cy~rAI~~~p~n~~~~~ers~L~~~~G~~-----------------------~~Am~~  263 (895)
T KOG2076|consen  207 YELWKRLADLSEQLGNINQARYCYSRAIQANPSNWELIYERSSLYQKTGDL-----------------------KRAMET  263 (895)
T ss_pred             hHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhChH-----------------------HHHHHH
Confidence            367778888888999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccc----cchHH-HHHHHHHHHHHhHHHHHHHHHhcccc
Q 012162          102 AEKLLNLQS----NSMKS-HLLKANALILLERYDMARDAILSGLQ  141 (469)
Q Consensus       102 ~~~al~l~p----~~~~~-~~~~g~~~~~~~~~~~A~~~~~~al~  141 (469)
                      +.+++.++|    ..... -+..+..+...++-+.|++.++.++.
T Consensus       264 f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s  308 (895)
T KOG2076|consen  264 FLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALS  308 (895)
T ss_pred             HHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            999999999    22223 33447777888888999999999998

>TIGR00540 hemY_coli hemY protein

Probab=98.08  E-value=1.3e-05  Score=81.51  Aligned_cols=118  Identities=10%  Similarity=-0.067  Sum_probs=92.4

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccc--cchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVL--GNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA   98 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A   98 (469)
                      +.......|..+...|++++|+..++++++..|++....  ..+....+..++.                       ..+
T Consensus       262 ~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~-----------------------~~~  318 (409)
T TIGR00540       262 NIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDN-----------------------EKL  318 (409)
T ss_pred             CHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCCh-----------------------HHH
Confidence            566777888999999999999999999999999987532  1111112222333                       788


Q ss_pred             HHHHHHHhhccccch--HHHHHHHHHHHHHhHHHHHHHHHh--ccccCCCCCchhHHHHHHHHHhhhh
Q 012162           99 LKDAEKLLNLQSNSM--KSHLLKANALILLERYDMARDAIL--SGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus        99 ~~~~~~al~l~p~~~--~~~~~~g~~~~~~~~~~~A~~~~~--~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                      ++.++++++.+|+++  ..+..+|.+++..|+|++|.++|+  ++++.+|++.... .+..+-..+++
T Consensus       319 ~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~-~La~ll~~~g~  385 (409)
T TIGR00540       319 EKLIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLA-MAADAFDQAGD  385 (409)
T ss_pred             HHHHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHH-HHHHHHHHcCC
Confidence            999999999999999  888899999999999999999999  6888999877644 55555554444

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.

>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=98.08  E-value=1.3e-06  Score=66.43  Aligned_cols=65  Identities=17%  Similarity=0.245  Sum_probs=56.1

Q ss_pred             CcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhcc-------ccchHHHHHHHHHHHHHh
Q 012162           55 DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQ-------SNSMKSHLLKANALILLE  127 (469)
Q Consensus        55 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~-------p~~~~~~~~~g~~~~~~~  127 (469)
                      -+.++.++|.+|..+|+|                       ++|+..+++++++.       |....+++++|.++..+|
T Consensus         4 ~a~~~~~la~~~~~~~~~-----------------------~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g   60 (78)
T PF13424_consen    4 TANAYNNLARVYRELGRY-----------------------DEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLG   60 (78)
T ss_dssp             HHHHHHHHHHHHHHTT-H-----------------------HHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcC
Confidence            346788999999999999                       99999999999762       334678999999999999


Q ss_pred             HHHHHHHHHhccccC
Q 012162          128 RYDMARDAILSGLQV  142 (469)
Q Consensus       128 ~~~~A~~~~~~al~~  142 (469)
                      ++++|+.+|++++++
T Consensus        61 ~~~~A~~~~~~al~i   75 (78)
T PF13424_consen   61 DYEEALEYYQKALDI   75 (78)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhh
Confidence            999999999999865

...

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

Probab=98.07  E-value=1.2e-05  Score=79.96  Aligned_cols=116  Identities=13%  Similarity=0.044  Sum_probs=80.5

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      .+....+|..++..|++++|+..++++++.+|++..++.. +..+..++++.+..                   ..+...
T Consensus        43 ~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~-~~~~~~~~~~~~~~-------------------~~~~~~  102 (355)
T cd05804          43 RERAHVEALSAWIAGDLPKALALLEQLLDDYPRDLLALKL-HLGAFGLGDFSGMR-------------------DHVARV  102 (355)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHH-hHHHHHhcccccCc-------------------hhHHHH
Confidence            4556678999999999999999999999999999877766 66777777651111                   222222


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHH
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  157 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~  157 (469)
                      +......+|....++..+|.++...|++++|+..++++++++|++..+...+..+-
T Consensus       103 l~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~  158 (355)
T cd05804         103 LPLWAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELNPDDAWAVHAVAHVL  158 (355)
T ss_pred             HhccCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHH
Confidence            22233455666666667777777777777777777777777777766555554443

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.

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

Probab=98.06  E-value=1.5e-06  Score=79.76  Aligned_cols=106  Identities=22%  Similarity=0.382  Sum_probs=76.2

Q ss_pred             HhhccccchHHHHHHHHH-HHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhhhcccCCCCCCCccccccccc
Q 012162          105 LLNLQSNSMKSHLLKANA-LILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLC  183 (469)
Q Consensus       105 al~l~p~~~~~~~~~g~~-~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~ic  183 (469)
                      .+...|+-.+-|-.-|.+ |.....|-.-..+|+.+++++-.+....           .. +..+ ......-.+.|-||
T Consensus       181 ~~d~qpDicKdykeTgycg~gdSckFlh~r~DyK~GWqi~~e~d~~k-----------e~-~~~~-~~D~~~~Pf~c~ic  247 (313)
T KOG1813|consen  181 RIDYQPDICKDYKETGYCGYGDSCKFLHDRSDYKAGWQIEFEWDSAK-----------EK-KRVK-IEDIELLPFKCFIC  247 (313)
T ss_pred             eeecCchhhhhhHhhCcccccchhhhhhhhhhccccceeehhhhccc-----------cc-ccee-cCCcccCCcccccc
Confidence            345567777766666653 3455566667788888888887666554           00 0011 11122245689999


Q ss_pred             cccccccEEccCCCcccHHHHHHHcccCCCcccccccccc
Q 012162          184 LKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFI  223 (469)
Q Consensus       184 ~~~~~~p~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~~  223 (469)
                      ...|.+||.+.|||.||..|....+..+..|++|.+.+..
T Consensus       248 r~~f~~pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g  287 (313)
T KOG1813|consen  248 RKYFYRPVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHG  287 (313)
T ss_pred             ccccccchhhcCCceeehhhhccccccCCcceeccccccc
Confidence            9999999999999999999999999999999999998743

>TIGR00540 hemY_coli hemY protein

Probab=98.04  E-value=2.7e-05  Score=79.09  Aligned_cols=122  Identities=11%  Similarity=0.073  Sum_probs=105.0

Q ss_pred             hhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHH
Q 012162           18 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL   97 (469)
Q Consensus        18 ~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (469)
                      ...++.....+|...+..|||+.|.+...++.+..|+....+...|.++...|++                       +.
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            3446777888999999999999999999999999998877788889999999999                       99


Q ss_pred             HHHHHHHHhhccccch-HHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhh
Q 012162           98 ALKDAEKLLNLQSNSM-KSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus        98 A~~~~~~al~l~p~~~-~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                      |...+.++.+..|++. .+....+.++...|++++|+..+++.++.+|+++.+...+..+....++
T Consensus       137 A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~~P~~~~~l~ll~~~~~~~~d  202 (409)
T TIGR00540       137 ANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARHGVDKLLEMAPRHKEVLKLAEEAYIRSGA  202 (409)
T ss_pred             HHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhh
Confidence            9999999999999885 4555579999999999999999999999999999887776665554444

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.

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

Probab=98.04  E-value=2.2e-06  Score=88.96  Aligned_cols=48  Identities=31%  Similarity=0.816  Sum_probs=42.3

Q ss_pred             ccccccccccccccccEEccCCCcccHHHHHHHcc-cCCCccccccccc
Q 012162          175 TDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD-RGNKCPLCRAVLF  222 (469)
Q Consensus       175 ~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~-~~~~CP~Cr~~~~  222 (469)
                      ...+.|+.|..-.++.|++.|||.||..|+...++ +...||.|+..|.
T Consensus       641 K~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFg  689 (698)
T KOG0978|consen  641 KELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFG  689 (698)
T ss_pred             HhceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCC
Confidence            35679999999999999999999999999999886 5568999999873

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

Probab=98.01  E-value=2.5e-05  Score=74.29  Aligned_cols=97  Identities=22%  Similarity=0.185  Sum_probs=69.1

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc------ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHH
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP------IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE   96 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (469)
                      ..+...|++....+.|+++++.|+.|+++..++.      .++..+|..|-++.++                       +
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            5566789999999999999999999999865543      4566788888889998                       7


Q ss_pred             HHHHHHHHHhhcccc----------chHHHHHHHHHHHHHhHHHHHHHHHhccccC
Q 012162           97 LALKDAEKLLNLQSN----------SMKSHLLKANALILLERYDMARDAILSGLQV  142 (469)
Q Consensus        97 ~A~~~~~~al~l~p~----------~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~  142 (469)
                      +|+-...+|.++-.+          ...++|.++.+|..+|+.-+|+++.++|.++
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            777666666654321          1235566666666666666666666666544

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.99  E-value=8.1e-06  Score=72.41  Aligned_cols=95  Identities=12%  Similarity=0.041  Sum_probs=77.5

Q ss_pred             HHHHHhcCCC--CCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccc---hHHHHH
Q 012162           44 NYSRANNIKP--GDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNS---MKSHLL  118 (469)
Q Consensus        44 ~y~~al~~~p--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~---~~~~~~  118 (469)
                      .+.+.+.+++  ..+.+++++|..+...|++                       ++|+..+++++++.|+.   ..+++.
T Consensus        21 ~~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~-----------------------~~A~~~~~~al~~~~~~~~~~~~~~~   77 (172)
T PRK02603         21 LILKILPINKKAKEAFVYYRDGMSAQADGEY-----------------------AEALENYEEALKLEEDPNDRSYILYN   77 (172)
T ss_pred             HHHHHcccccHhhhHHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHHHHhhccchHHHHHHH
Confidence            3444444443  4567789999999999999                       99999999999987764   468999


Q ss_pred             HHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhh
Q 012162          119 KANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  161 (469)
Q Consensus       119 ~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~  161 (469)
                      +|.++..+|++++|+..|+++++.+|++......+..+...++
T Consensus        78 la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g  120 (172)
T PRK02603         78 MGIIYASNGEHDKALEYYHQALELNPKQPSALNNIAVIYHKRG  120 (172)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcC
Confidence            9999999999999999999999999998877666655554443

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

Probab=97.98  E-value=2.4e-05  Score=73.26  Aligned_cols=97  Identities=22%  Similarity=0.167  Sum_probs=85.7

Q ss_pred             cHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHH
Q 012162           37 NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSH  116 (469)
Q Consensus        37 ~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~  116 (469)
                      +.+..+.-.+.-+..+|+|..-|..+|.+|+.+|++                       ..|...|.+|+++.|+++..+
T Consensus       137 ~~~~l~a~Le~~L~~nP~d~egW~~Lg~~ym~~~~~-----------------------~~A~~AY~~A~rL~g~n~~~~  193 (287)
T COG4235         137 EMEALIARLETHLQQNPGDAEGWDLLGRAYMALGRA-----------------------SDALLAYRNALRLAGDNPEIL  193 (287)
T ss_pred             cHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcch-----------------------hHHHHHHHHHHHhCCCCHHHH
Confidence            456678888889999999999999999999999999                       999999999999999999999


Q ss_pred             HHHHHHHHHHh---HHHHHHHHHhccccCCCCCchhHHHHHHH
Q 012162          117 LLKANALILLE---RYDMARDAILSGLQVDPFSNPLQASLQNL  156 (469)
Q Consensus       117 ~~~g~~~~~~~---~~~~A~~~~~~al~~~p~~~~~~~~~~~~  156 (469)
                      ..+|.+++...   .-.+|...|++++++||+|..+...+...
T Consensus       194 ~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~lLA~~  236 (287)
T COG4235         194 LGLAEALYYQAGQQMTAKARALLRQALALDPANIRALSLLAFA  236 (287)
T ss_pred             HHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHHHHHHH
Confidence            99999886543   34778999999999999999887776543

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

Probab=97.96  E-value=2.7e-06  Score=78.36  Aligned_cols=47  Identities=26%  Similarity=0.621  Sum_probs=41.9

Q ss_pred             cccccccccccccccEEccCCCcccHHHHHHHcccCC-Cccccccccc
Q 012162          176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGN-KCPLCRAVLF  222 (469)
Q Consensus       176 ~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~~~-~CP~Cr~~~~  222 (469)
                      ..-+|.||+.....||.++|+|.||.-||+.....+. .|++||.++.
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            3458999999999999999999999999999877665 5999999984

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=97.96  E-value=5.7e-06  Score=51.74  Aligned_cols=33  Identities=21%  Similarity=0.165  Sum_probs=31.2

Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHHHHHH
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMARD  134 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~  134 (469)
                      +++||+++|+++.+|+++|.+|...|++++|++
T Consensus         2 y~kAie~~P~n~~a~~nla~~~~~~g~~~~A~~   34 (34)
T PF13431_consen    2 YKKAIELNPNNAEAYNNLANLYLNQGDYEEAIA   34 (34)
T ss_pred             hHHHHHHCCCCHHHHHHHHHHHHHCcCHHhhcC
Confidence            689999999999999999999999999999963

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

Probab=97.95  E-value=8e-06  Score=76.58  Aligned_cols=119  Identities=14%  Similarity=0.176  Sum_probs=79.7

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC----------------------------------cccccchhHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD----------------------------------PIVLGNRSSAYI   67 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~----------------------------------~~~~~~~a~~~~   67 (469)
                      +..+...+..+-..+++++|+++|..+++++|.+                                  +.++.|+|.|.+
T Consensus       290 VT~l~g~ARi~eam~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~speLf~NigLCC~  369 (478)
T KOG1129|consen  290 VTYLLGQARIHEAMEQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQSPELFCNIGLCCL  369 (478)
T ss_pred             hhhhhhhHHHHHHHHhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCCChHHHhhHHHHHH
Confidence            3444455556666666666666666666666655                                  456666666666


Q ss_pred             HHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccc---cchHHHHHHHHHHHHHhHHHHHHHHHhccccCCC
Q 012162           68 RISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQS---NSMKSHLLKANALILLERYDMARDAILSGLQVDP  144 (469)
Q Consensus        68 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p---~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p  144 (469)
                      ..+++                       +-++..+++|+...-   .-.+.||++|.+....|++.-|...|+-+|.-||
T Consensus       370 yaqQ~-----------------------D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~  426 (478)
T KOG1129|consen  370 YAQQI-----------------------DLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDA  426 (478)
T ss_pred             hhcch-----------------------hhhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCc
Confidence            66666                       667777777766532   2355677777777777788888888888888788


Q ss_pred             CCchhHHHHHHHHHhhhhh
Q 012162          145 FSNPLQASLQNLERTTASL  163 (469)
Q Consensus       145 ~~~~~~~~~~~~~~~~~~~  163 (469)
                      ++.++..++..++..-++.
T Consensus       427 ~h~ealnNLavL~~r~G~i  445 (478)
T KOG1129|consen  427 QHGEALNNLAVLAARSGDI  445 (478)
T ss_pred             chHHHHHhHHHHHhhcCch
Confidence            8888888877776654443

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

Probab=97.94  E-value=7e-06  Score=86.80  Aligned_cols=109  Identities=21%  Similarity=0.126  Sum_probs=96.2

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      -..+..+|-.+...+++.+|+..|+-|++.+|++..+|..+|.+|...|+|                       ..|++.
T Consensus       562 k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPkD~n~W~gLGeAY~~sGry-----------------------~~AlKv  618 (1238)
T KOG1127|consen  562 KENWVQRGPYYLEAHNLHGAVCEFQSALRTDPKDYNLWLGLGEAYPESGRY-----------------------SHALKV  618 (1238)
T ss_pred             HhhhhhccccccCccchhhHHHHHHHHhcCCchhHHHHHHHHHHHHhcCce-----------------------ehHHHh
Confidence            355667899999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHH
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASL  153 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~  153 (469)
                      +.+|..++|.+..+.|..|.....+|+|.+|++.+...+......-..+.++
T Consensus       619 F~kAs~LrP~s~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gL  670 (1238)
T KOG1127|consen  619 FTKASLLRPLSKYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGL  670 (1238)
T ss_pred             hhhhHhcCcHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhH
Confidence            9999999999999999999999999999999999998877654443333333

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.93  E-value=2.4e-05  Score=64.22  Aligned_cols=69  Identities=16%  Similarity=0.154  Sum_probs=63.2

Q ss_pred             cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccc---hHHHHHHHHHHHHHhHHHHH
Q 012162           56 PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNS---MKSHLLKANALILLERYDMA  132 (469)
Q Consensus        56 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~---~~~~~~~g~~~~~~~~~~~A  132 (469)
                      +..++.+|..+...|++                       ++|+..+.++++.+|++   +.+++.+|.++...|++++|
T Consensus         2 ~~~~~~~~~~~~~~~~~-----------------------~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A   58 (119)
T TIGR02795         2 EEAYYDAALLVLKAGDY-----------------------ADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADA   58 (119)
T ss_pred             cHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHH
Confidence            35678889999999999                       99999999999999887   57899999999999999999


Q ss_pred             HHHHhccccCCCCCc
Q 012162          133 RDAILSGLQVDPFSN  147 (469)
Q Consensus       133 ~~~~~~al~~~p~~~  147 (469)
                      +..|++++..+|++.
T Consensus        59 ~~~~~~~~~~~p~~~   73 (119)
T TIGR02795        59 AKAFLAVVKKYPKSP   73 (119)
T ss_pred             HHHHHHHHHHCCCCC
Confidence            999999999999864

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.

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

Probab=97.91  E-value=6.1e-06  Score=58.00  Aligned_cols=42  Identities=29%  Similarity=0.814  Sum_probs=29.8

Q ss_pred             ccccccccccccccccEE-ccCCCcccHHHHHHHccc--CCCccc
Q 012162          175 TDDFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDR--GNKCPL  216 (469)
Q Consensus       175 ~~~~~C~ic~~~~~~p~~-~~cgh~~C~~Ci~~~~~~--~~~CP~  216 (469)
                      ...+.|||....|.+||. ..|||+|.+..|.+++..  ...||.
T Consensus         9 ~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen    9 TISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             B--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             EeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            456799999999999987 599999999999999943  346998

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

Probab=97.90  E-value=2e-05  Score=83.54  Aligned_cols=140  Identities=13%  Similarity=0.064  Sum_probs=103.3

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhcc-------CCCCCcc-------cCccC
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKH-------RPPSASE-------YRPLN   87 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~-------~~~~~~~-------~~~~~   87 (469)
                      +..+...|..|.+--|...|..+|++|.++|+.++.+....+..|....++...       ...++.+       .+.++
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            556667788887777888899999999999999887777777666554433100       0000100       12222


Q ss_pred             CCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhh
Q 012162           88 GLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus        88 ~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                      -..+..+ ..|+.+++.|++.+|++...|..+|.+|-..|+|..|++.|.+|..++|.+.-.+.....++..+++
T Consensus       572 yLea~n~-h~aV~~fQsALR~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y~~fk~A~~ecd~Gk  645 (1238)
T KOG1127|consen  572 YLEAHNL-HGAVCEFQSALRTDPKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSKYGRFKEAVMECDNGK  645 (1238)
T ss_pred             ccCccch-hhHHHHHHHHhcCCchhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhHHHHHHHHHHHHHhhh
Confidence            3333332 5799999999999999999999999999999999999999999999999988776666666555544

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

Probab=97.89  E-value=0.00011  Score=63.08  Aligned_cols=115  Identities=15%  Similarity=0.104  Sum_probs=91.5

Q ss_pred             hhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC---cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhH
Q 012162           19 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA   95 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (469)
                      ...+...+......+..+++..+...+++.++-.|+.   ..+...+|.+++..|++                       
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            4456777778888888999999999999999999988   46677789999999999                       


Q ss_pred             HHHHHHHHHHhhccccc---hHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHH
Q 012162           96 ELALKDAEKLLNLQSNS---MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  157 (469)
Q Consensus        96 ~~A~~~~~~al~l~p~~---~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~  157 (469)
                      ++|+..++.++...|+.   +.+.+++|.++...|+|++|+..++.. .-.+..+.+...+..+-
T Consensus        65 ~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~-~~~~~~~~~~~~~Gdi~  128 (145)
T PF09976_consen   65 DEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDEALATLQQI-PDEAFKALAAELLGDIY  128 (145)
T ss_pred             HHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhc-cCcchHHHHHHHHHHHH
Confidence            99999999999987665   458899999999999999999999763 22233333444444433

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

Probab=97.89  E-value=4.8e-05  Score=78.82  Aligned_cols=120  Identities=19%  Similarity=0.088  Sum_probs=108.2

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHH
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  102 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~  102 (469)
                      ..+...|..+...++-++|..+..+|-.++|..+..|+.+|.++...|++                       .+|...|
T Consensus       651 ~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~~l~~~~~~~~G~~~~~~~~~-----------------------~EA~~af  707 (799)
T KOG4162|consen  651 KLWLLAADLFLLSGNDDEARSCLLEASKIDPLSASVYYLRGLLLEVKGQL-----------------------EEAKEAF  707 (799)
T ss_pred             HHHHHHHHHHHhcCCchHHHHHHHHHHhcchhhHHHHHHhhHHHHHHHhh-----------------------HHHHHHH
Confidence            33445666666777788899999999999999999999999999999999                       9999999


Q ss_pred             HHHhhccccchHHHHHHHHHHHHHhHHHHHHH--HHhccccCCCCCchhHHHHHHHHHhhhhhhc
Q 012162          103 EKLLNLQSNSMKSHLLKANALILLERYDMARD--AILSGLQVDPFSNPLQASLQNLERTTASLIG  165 (469)
Q Consensus       103 ~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~--~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~  165 (469)
                      ..|+.+||+++.....+|.++...|+..-|.+  .+..++++||.|.+++..+..+-++.+....
T Consensus       708 ~~Al~ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~  772 (799)
T KOG4162|consen  708 LVALALDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQ  772 (799)
T ss_pred             HHHHhcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHH
Confidence            99999999999999999999999998888877  9999999999999999999999888876543

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

Probab=97.89  E-value=3.3e-05  Score=72.50  Aligned_cols=114  Identities=18%  Similarity=0.047  Sum_probs=103.9

Q ss_pred             hhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHH
Q 012162           17 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE   96 (469)
Q Consensus        17 ~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (469)
                      +.....+.+...+.+|-+-.+...|+..|.+.++.-|.+...+...|.++-.++++                       +
T Consensus       251 ~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~fP~~VT~l~g~ARi~eam~~~-----------------------~  307 (478)
T KOG1129|consen  251 TQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSFPFDVTYLLGQARIHEAMEQQ-----------------------E  307 (478)
T ss_pred             hcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCchhhhhhhhHHHHHHHHhH-----------------------H
Confidence            34455677777888999999999999999999999999999999999999999999                       9


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHH
Q 012162           97 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASL  153 (469)
Q Consensus        97 ~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~  153 (469)
                      +|++.++.+++++|.+.++..-.|.-|+--++.+-|+.+|++.|++.-.+++...++
T Consensus       308 ~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~speLf~Ni  364 (478)
T KOG1129|consen  308 DALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQSPELFCNI  364 (478)
T ss_pred             HHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCCChHHHhhH
Confidence            999999999999999999999999999999999999999999999988888776554

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

Probab=97.88  E-value=3.1e-05  Score=79.77  Aligned_cols=101  Identities=16%  Similarity=0.155  Sum_probs=95.1

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ...|+..|..+.+.++++.|...|.+++.++|++..+|+|++.+|+++++-                       .+|...
T Consensus       519 ~~~wf~~G~~ALqlek~q~av~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k-----------------------~ra~~~  575 (777)
T KOG1128|consen  519 LGTWFGLGCAALQLEKEQAAVKAFHRCVTLEPDNAEAWNNLSTAYIRLKKK-----------------------KRAFRK  575 (777)
T ss_pred             hhHHHhccHHHHHHhhhHHHHHHHHHHhhcCCCchhhhhhhhHHHHHHhhh-----------------------HHHHHH
Confidence            466788999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCC
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF  145 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~  145 (469)
                      +.+|++.+-.++..|-+.-.+....|++++|+.+|.+.+.+.-+
T Consensus       576 l~EAlKcn~~~w~iWENymlvsvdvge~eda~~A~~rll~~~~~  619 (777)
T KOG1128|consen  576 LKEALKCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLRKK  619 (777)
T ss_pred             HHHHhhcCCCCCeeeechhhhhhhcccHHHHHHHHHHHHHhhhh
Confidence            99999999999999999999999999999999999999876543

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

Probab=97.85  E-value=9.5e-06  Score=50.75  Aligned_cols=34  Identities=24%  Similarity=0.263  Sum_probs=31.0

Q ss_pred             hHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCC
Q 012162          113 MKSHLLKANALILLERYDMARDAILSGLQVDPFS  146 (469)
Q Consensus       113 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~  146 (469)
                      +++|+++|.+|..+|++++|+..|++|++++|+|
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 ....

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

Probab=97.85  E-value=0.00013  Score=67.00  Aligned_cols=114  Identities=19%  Similarity=0.230  Sum_probs=94.8

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc---ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL   97 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (469)
                      -+..|.++|...++.|+|++|+..|+......|..+   .+...++.++++.++|                       ++
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            578999999999999999999999999999998876   5667788999999999                       99


Q ss_pred             HHHHHHHHhhccccchH---HHHHHHHHHHH--------HhHHHHHHHHHhccccCCCCCchhHHHHHHHH
Q 012162           98 ALKDAEKLLNLQSNSMK---SHLLKANALIL--------LERYDMARDAILSGLQVDPFSNPLQASLQNLE  157 (469)
Q Consensus        98 A~~~~~~al~l~p~~~~---~~~~~g~~~~~--------~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~  157 (469)
                      |+..+++-+.+.|+++.   ++|.+|.+++.        ..--.+|...|+..+..-|+..-+.....++.
T Consensus        90 A~~~~drFi~lyP~~~n~dY~~YlkgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~  160 (254)
T COG4105          90 ALAYIDRFIRLYPTHPNADYAYYLKGLSYFFQIDDVTRDQSAARAAFAAFKELVQRYPNSRYAPDAKARIV  160 (254)
T ss_pred             HHHHHHHHHHhCCCCCChhHHHHHHHHHHhccCCccccCHHHHHHHHHHHHHHHHHCCCCcchhhHHHHHH
Confidence            99999999999987755   67888888754        33446788999999999999875544444433

>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=97.85  E-value=1.2e-05  Score=60.97  Aligned_cols=66  Identities=21%  Similarity=0.274  Sum_probs=56.6

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcC----CCC---CcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCch
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNI----KPG---DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT   93 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~----~p~---~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (469)
                      .+..+...|..++..|+|++|+..|++|+++    .++   -+.++.++|.+|..+|++                     
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    112   257889999999999999                     


Q ss_pred             hHHHHHHHHHHHhhcc
Q 012162           94 HAELALKDAEKLLNLQ  109 (469)
Q Consensus        94 ~~~~A~~~~~~al~l~  109 (469)
                        ++|+..+++++++.
T Consensus        63 --~~A~~~~~~al~i~   76 (78)
T PF13424_consen   63 --EEALEYYQKALDIF   76 (78)
T ss_dssp             --HHHHHHHHHHHHHH
T ss_pred             --HHHHHHHHHHHhhh
Confidence              99999999999864

...

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=97.85  E-value=8.2e-05  Score=75.28  Aligned_cols=112  Identities=13%  Similarity=0.086  Sum_probs=60.7

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccch-hHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNR-SSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~-a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      ++......|...+..|||++|.+...++-+..+ ++.+++.+ +.+..+.|++                       +.|.
T Consensus        83 ~~~~~~~~gl~a~~eGd~~~A~k~l~~~~~~~~-~p~l~~llaA~aA~~~g~~-----------------------~~A~  138 (398)
T PRK10747         83 RARKQTEQALLKLAEGDYQQVEKLMTRNADHAE-QPVVNYLLAAEAAQQRGDE-----------------------ARAN  138 (398)
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHhccc-chHHHHHHHHHHHHHCCCH-----------------------HHHH
Confidence            455555666666666666666655555444322 23333333 3333555666                       6666


Q ss_pred             HHHHHHhhccccchHHH-HHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHH
Q 012162          100 KDAEKLLNLQSNSMKSH-LLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  156 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~-~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~  156 (469)
                      ..+.++.+.+|++..+. ...+.++...|++++|++.+++.++.+|+++.+...+..+
T Consensus       139 ~~l~~A~~~~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~P~~~~al~ll~~~  196 (398)
T PRK10747        139 QHLERAAELADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVAPRHPEVLRLAEQA  196 (398)
T ss_pred             HHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            66666666666653332 2335566666666666666666666666666554444333

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=97.84  E-value=0.00011  Score=74.48  Aligned_cols=101  Identities=15%  Similarity=0.102  Sum_probs=88.1

Q ss_pred             HHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccc-cchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHH
Q 012162           25 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVL-GNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  103 (469)
Q Consensus        25 ~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~  103 (469)
                      +...+..+...|+++.|..+|.+|.+.+|++..+. ...+..+...|++                       ++|+..++
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            44556677999999999999999999999876443 2348899999999                       99999999


Q ss_pred             HHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCch
Q 012162          104 KLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  148 (469)
Q Consensus       104 ~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~  148 (469)
                      ++++.+|+++.++..++.+|...|++++|+..+.+..+..+.++.
T Consensus       178 ~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~  222 (398)
T PRK10747        178 KLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEE  222 (398)
T ss_pred             HHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHH
Confidence            999999999999999999999999999999888888887776544

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

Probab=97.82  E-value=6.9e-05  Score=70.43  Aligned_cols=62  Identities=15%  Similarity=0.143  Sum_probs=51.9

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCC-chhHHHHHHHH
Q 012162           96 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS-NPLQASLQNLE  157 (469)
Q Consensus        96 ~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~-~~~~~~~~~~~  157 (469)
                      +.|...+.+|++-+|+...+-..+|.++...|+|+.|++.++++++.||+. +++...+..+-
T Consensus       197 d~A~~~l~kAlqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y  259 (389)
T COG2956         197 DRARELLKKALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECY  259 (389)
T ss_pred             HHHHHHHHHHHhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHH
Confidence            888999999999999999999999999999999999999999999999875 33444443333

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

Probab=97.76  E-value=1.9e-05  Score=75.73  Aligned_cols=45  Identities=24%  Similarity=0.621  Sum_probs=38.8

Q ss_pred             ccccccccccccc---EEccCCCcccHHHHHHHcccC-CCccccccccc
Q 012162          178 FDCTLCLKLLYEP---ITTPCGHSFCRSCLFQSMDRG-NKCPLCRAVLF  222 (469)
Q Consensus       178 ~~C~ic~~~~~~p---~~~~cgh~~C~~Ci~~~~~~~-~~CP~Cr~~~~  222 (469)
                      ..|.||++.|..-   ..+||+|.|...||..|+... ..||+|++.+.
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            6999999988764   458999999999999999866 56999998763

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

Probab=97.76  E-value=2.3e-05  Score=48.90  Aligned_cols=34  Identities=21%  Similarity=0.285  Sum_probs=31.2

Q ss_pred             hHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCC
Q 012162          113 MKSHLLKANALILLERYDMARDAILSGLQVDPFS  146 (469)
Q Consensus       113 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~  146 (469)
                      +++++.+|.++..+|+|++|+.+|+++++++|+|
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 ....

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=97.75  E-value=2.2e-05  Score=52.37  Aligned_cols=43  Identities=23%  Similarity=0.148  Sum_probs=39.3

Q ss_pred             hHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHH
Q 012162          113 MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  155 (469)
Q Consensus       113 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~  155 (469)
                      |.+++.+|.+|..+|++++|++.|+++++.+|+|..++..+..
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            4689999999999999999999999999999999998877654

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

Probab=97.74  E-value=0.00017  Score=70.54  Aligned_cols=52  Identities=25%  Similarity=0.206  Sum_probs=32.2

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhh
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF   72 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~   72 (469)
                      +++.+.+.++.|-...+..+||+.|.++..+-|++|.++..+|..|-+-|+-
T Consensus       557 n~evl~qianiye~led~aqaie~~~q~~slip~dp~ilskl~dlydqegdk  608 (840)
T KOG2003|consen  557 NAEVLVQIANIYELLEDPAQAIELLMQANSLIPNDPAILSKLADLYDQEGDK  608 (840)
T ss_pred             hHHHHHHHHHHHHHhhCHHHHHHHHHHhcccCCCCHHHHHHHHHHhhcccch
Confidence            3555556666666666666666666666666666666666666666555554

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

Probab=97.73  E-value=1.7e-05  Score=73.06  Aligned_cols=44  Identities=30%  Similarity=0.819  Sum_probs=37.4

Q ss_pred             ccccccccccccc---EEccCCCcccHHHHHHHcc-cCCCcccccccc
Q 012162          178 FDCTLCLKLLYEP---ITTPCGHSFCRSCLFQSMD-RGNKCPLCRAVL  221 (469)
Q Consensus       178 ~~C~ic~~~~~~p---~~~~cgh~~C~~Ci~~~~~-~~~~CP~Cr~~~  221 (469)
                      .+|.||+..+..-   +.+||.|.|...|+.+|+. .+..||+||.++
T Consensus       324 veCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~i  371 (374)
T COG5540         324 VECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAI  371 (374)
T ss_pred             ceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCC
Confidence            5899999866432   5689999999999999986 677999999876

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

Probab=97.72  E-value=0.0004  Score=70.92  Aligned_cols=144  Identities=22%  Similarity=0.147  Sum_probs=100.3

Q ss_pred             HHHHH-HhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHh------h-hccCCCCCcccCcc---CCCC
Q 012162           22 VFDLV-QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQ------F-LKHRPPSASEYRPL---NGLD   90 (469)
Q Consensus        22 ~~~~~-~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~------~-~~~~~~~~~~~~~~---~~~~   90 (469)
                      ++.|+ --+..++..||...|...+.+|++.+|++-.+|..--...+...+      + -++...+.++.-++   ...-
T Consensus       583 ae~lwlM~ake~w~agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~~sgTeRv~mKs~~~er  662 (913)
T KOG0495|consen  583 AEILWLMYAKEKWKAGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARSISGTERVWMKSANLER  662 (913)
T ss_pred             chhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhccCCcchhhHHHhHHHH
Confidence            34444 344667777888888888888888888876665432222111111      1 00111111110000   0000


Q ss_pred             CchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhhhc
Q 012162           91 PTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIG  165 (469)
Q Consensus        91 ~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~  165 (469)
                      -....++|+..++++++.-|+..+.|..+|+++..+++.+.|.+.|..+++..|+...++-.+.+++++..+..+
T Consensus       663 ~ld~~eeA~rllEe~lk~fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~r  737 (913)
T KOG0495|consen  663 YLDNVEEALRLLEEALKSFPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVR  737 (913)
T ss_pred             HhhhHHHHHHHHHHHHHhCCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhh
Confidence            122348999999999999999999999999999999999999999999999999999999999999998875544

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=97.70  E-value=4.7e-05  Score=77.92  Aligned_cols=99  Identities=13%  Similarity=0.051  Sum_probs=86.5

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcC--------CCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCch
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNI--------KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT   93 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~--------~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (469)
                      .......|..|+.+|+|++|+..+.+|+++        .|.-.....++|..|..+++|                     
T Consensus       199 ~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~---------------------  257 (508)
T KOG1840|consen  199 LRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKY---------------------  257 (508)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccH---------------------
Confidence            344455899999999999999999999998        555556666799999999999                     


Q ss_pred             hHHHHHHHHHHHhhc--------cccchHHHHHHHHHHHHHhHHHHHHHHHhccccCC
Q 012162           94 HAELALKDAEKLLNL--------QSNSMKSHLLKANALILLERYDMARDAILSGLQVD  143 (469)
Q Consensus        94 ~~~~A~~~~~~al~l--------~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~  143 (469)
                        .+|+..|++|+++        +|....++.++|.+|...|+|++|..++++|+++-
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              9999999999985        46677799999999999999999999999998873

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

Probab=97.69  E-value=2.4e-05  Score=73.91  Aligned_cols=49  Identities=33%  Similarity=0.890  Sum_probs=41.7

Q ss_pred             cccccccccccccccc-------------EEccCCCcccHHHHHHHcccCCCcccccccccc
Q 012162          175 TDDFDCTLCLKLLYEP-------------ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFI  223 (469)
Q Consensus       175 ~~~~~C~ic~~~~~~p-------------~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~~  223 (469)
                      ..+-.|.||.+-+.+|             ..+||||-+.-.|+..|.++...||.||.++..
T Consensus       285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~if  346 (491)
T COG5243         285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVIF  346 (491)
T ss_pred             CCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcccc
Confidence            4566899999875443             578999999999999999999999999999643

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=97.68  E-value=0.00022  Score=68.63  Aligned_cols=120  Identities=13%  Similarity=0.021  Sum_probs=89.7

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHH--hhhccCCCCCcccCccCCCCCchhHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRIS--QFLKHRPPSASEYRPLNGLDPTTHAELA   98 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~A   98 (469)
                      +.+.....-..++..++++.|.+.+..+-+.+.+......--|++.+..|  ++                       .+|
T Consensus       130 ~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~eD~~l~qLa~awv~l~~g~e~~-----------------------~~A  186 (290)
T PF04733_consen  130 SLELLALAVQILLKMNRPDLAEKELKNMQQIDEDSILTQLAEAWVNLATGGEKY-----------------------QDA  186 (290)
T ss_dssp             CHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHTTTCC-----------------------CHH
T ss_pred             cccHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHhCchhH-----------------------HHH
Confidence            34555556678889999999999999998887665444333344444455  35                       889


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhh
Q 012162           99 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  163 (469)
Q Consensus        99 ~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~  163 (469)
                      ...|++..+..+.++..+..+|.++..+|+|++|...+++|+..+|+++++..++..+...+++.
T Consensus       187 ~y~f~El~~~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~  251 (290)
T PF04733_consen  187 FYIFEELSDKFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKP  251 (290)
T ss_dssp             HHHHHHHHCCS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-T
T ss_pred             HHHHHHHHhccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCC
Confidence            99999988887889999999999999999999999999999999999998877776666655544

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.

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=97.68  E-value=6.2e-05  Score=77.03  Aligned_cols=103  Identities=19%  Similarity=0.168  Sum_probs=88.3

Q ss_pred             hhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCC--------CCCcccccchhHHHHHHHhhhccCCCCCcccCccCCC
Q 012162           18 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIK--------PGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGL   89 (469)
Q Consensus        18 ~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~--------p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (469)
                      ...-+..+.+.|..|.+.|+|++|..++++|+++-        |.-+..+.+.+.++..++++                 
T Consensus       279 h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~-----------------  341 (508)
T KOG1840|consen  279 HPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEY-----------------  341 (508)
T ss_pred             CHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcch-----------------
Confidence            34457888999999999999999999999999873        23346778889999999999                 


Q ss_pred             CCchhHHHHHHHHHHHhhcc--------ccchHHHHHHHHHHHHHhHHHHHHHHHhccccCC
Q 012162           90 DPTTHAELALKDAEKLLNLQ--------SNSMKSHLLKANALILLERYDMARDAILSGLQVD  143 (469)
Q Consensus        90 ~~~~~~~~A~~~~~~al~l~--------p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~  143 (469)
                            ++|...+.+++++-        +.-++.+.++|..|..+|+|++|...|++|+.+.
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                  99999998888752        3557789999999999999999999999999875

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

Probab=97.67  E-value=0.0002  Score=62.92  Aligned_cols=72  Identities=22%  Similarity=0.359  Sum_probs=66.3

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      +.-.|.++|.+..+.+.++.||...++||+++|.+-.++..||.+|-++..|                       ++|+.
T Consensus       133 rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~ek~-----------------------eeale  189 (271)
T KOG4234|consen  133 RSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEKMEKY-----------------------EEALE  189 (271)
T ss_pred             HHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhhhhH-----------------------HHHHH
Confidence            4556678999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHH
Q 012162          101 DAEKLLNLQSNSMKS  115 (469)
Q Consensus       101 ~~~~al~l~p~~~~~  115 (469)
                      +|.+.++++|....+
T Consensus       190 DyKki~E~dPs~~ea  204 (271)
T KOG4234|consen  190 DYKKILESDPSRREA  204 (271)
T ss_pred             HHHHHHHhCcchHHH
Confidence            999999999987543

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

Probab=97.67  E-value=1.6e-05  Score=83.34  Aligned_cols=48  Identities=44%  Similarity=0.917  Sum_probs=43.4

Q ss_pred             ccccccccccccccc-----cEEccCCCcccHHHHHHHcccCCCccccccccc
Q 012162          175 TDDFDCTLCLKLLYE-----PITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  222 (469)
Q Consensus       175 ~~~~~C~ic~~~~~~-----p~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~  222 (469)
                      ..+..|+||.+.+..     |..++|||.||..|+..|+++...||.||..+.
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            346789999999998     788999999999999999999999999999654

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

Probab=97.63  E-value=0.00015  Score=70.18  Aligned_cols=54  Identities=28%  Similarity=0.315  Sum_probs=28.2

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchh
Q 012162           96 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  149 (469)
Q Consensus        96 ~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~  149 (469)
                      ..|+...+++|+.+|++..+|..+|.++..+|+.++|+-+|+.|..+.|-+-+.
T Consensus       317 ~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap~rL~~  370 (564)
T KOG1174|consen  317 ERALNFVEKCIDSEPRNHEALILKGRLLIALERHTQAVIAFRTAQMLAPYRLEI  370 (564)
T ss_pred             HHHHHHHHHHhccCcccchHHHhccHHHHhccchHHHHHHHHHHHhcchhhHHH
Confidence            555555555555555555555555555555555555555555555555544433

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

Probab=97.61  E-value=7.5e-05  Score=68.07  Aligned_cols=51  Identities=29%  Similarity=0.650  Sum_probs=42.2

Q ss_pred             CCCCccccccccccccccccEEc-cCCCcccHHHHHHHcc--cCCCcccccccc
Q 012162          171 TPERTDDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMD--RGNKCPLCRAVL  221 (469)
Q Consensus       171 ~~~~~~~~~C~ic~~~~~~p~~~-~cgh~~C~~Ci~~~~~--~~~~CP~Cr~~~  221 (469)
                      ........+|++|.+.-..|.+. +|||.||+.||.....  .+..||.|+...
T Consensus       233 ss~~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~  286 (298)
T KOG2879|consen  233 SSTGTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENV  286 (298)
T ss_pred             cccccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCC
Confidence            34456777999999999999776 6999999999988754  457899999875

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

Probab=97.60  E-value=0.00013  Score=79.15  Aligned_cols=96  Identities=9%  Similarity=-0.008  Sum_probs=81.0

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc-------------------ccccchhHHHHHHHhhhccCCCCCcc
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP-------------------IVLGNRSSAYIRISQFLKHRPPSASE   82 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~-------------------~~~~~~a~~~~~~~~~~~~~~~~~~~   82 (469)
                      ...++-.|..+++.+++.+|...  +++..-+.+.                   .+++.+|.||-++|++          
T Consensus        65 i~~yy~~G~l~~q~~~~~~~~lv--~~l~~~~~~~~~~~ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~----------  132 (906)
T PRK14720         65 ISALYISGILSLSRRPLNDSNLL--NLIDSFSQNLKWAIVEHICDKILLYGENKLALRTLAEAYAKLNEN----------  132 (906)
T ss_pred             eehHHHHHHHHHhhcchhhhhhh--hhhhhcccccchhHHHHHHHHHHhhhhhhHHHHHHHHHHHHcCCh----------
Confidence            44555667777777777666555  5666655555                   8999999999999999          


Q ss_pred             cCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCC
Q 012162           83 YRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVD  143 (469)
Q Consensus        83 ~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~  143 (469)
                                   ++|...++++++++|+++.++.++|..|... +.++|+.++.+|++..
T Consensus       133 -------------~ka~~~yer~L~~D~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~~  179 (906)
T PRK14720        133 -------------KKLKGVWERLVKADRDNPEIVKKLATSYEEE-DKEKAITYLKKAIYRF  179 (906)
T ss_pred             -------------HHHHHHHHHHHhcCcccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHHH
Confidence                         9999999999999999999999999999998 9999999999998863

>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.59  E-value=1.2e-05  Score=53.95  Aligned_cols=44  Identities=30%  Similarity=0.785  Sum_probs=37.9

Q ss_pred             cccccccccccccEEccCCCc-ccHHHHHHHcc-cCCCcccccccc
Q 012162          178 FDCTLCLKLLYEPITTPCGHS-FCRSCLFQSMD-RGNKCPLCRAVL  221 (469)
Q Consensus       178 ~~C~ic~~~~~~p~~~~cgh~-~C~~Ci~~~~~-~~~~CP~Cr~~~  221 (469)
                      .+|.||.+.-.+.|...|||. .|..|-.+.+. .+..||.||.++
T Consensus         8 dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi   53 (62)
T KOG4172|consen    8 DECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPI   53 (62)
T ss_pred             cceeeeccCcchHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHH
Confidence            589999998888888999998 89999887776 445899999886

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

Probab=97.59  E-value=0.0003  Score=71.81  Aligned_cols=103  Identities=14%  Similarity=-0.010  Sum_probs=52.0

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      .+.+.-+|..+...|+-++|...-..+++.|+..+..|.-+|..+...++|                       ++|++.
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            334444444444455555555555555555555555555555555555555                       555555


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCc
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  147 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~  147 (469)
                      |+.|+.++|+|-..|.-++....++|+|+.....-.+.|++.|.+-
T Consensus        98 y~nAl~~~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~~~r  143 (700)
T KOG1156|consen   98 YRNALKIEKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLRPSQR  143 (700)
T ss_pred             HHHHHhcCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhH
Confidence            5555555555555555555555555555555555445555554443

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

Probab=97.57  E-value=5e-05  Score=58.55  Aligned_cols=61  Identities=21%  Similarity=0.333  Sum_probs=54.4

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      +...+...|..+++.|+|++|+..+++ ++.+|.+...++.+|.|++.+|+|                       ++|+.
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            445667799999999999999999999 899999888888999999999999                       99999


Q ss_pred             HHHHH
Q 012162          101 DAEKL  105 (469)
Q Consensus       101 ~~~~a  105 (469)
                      .++++
T Consensus        80 ~l~~~   84 (84)
T PF12895_consen   80 ALEKA   84 (84)
T ss_dssp             HHHHH
T ss_pred             HHhcC
Confidence            98875

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.57  E-value=0.00072  Score=63.38  Aligned_cols=130  Identities=18%  Similarity=0.166  Sum_probs=93.5

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc---ccccchhHHHHHHHhhhccCCCCCcccCccCCCCC----chh
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDP----TTH   94 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~   94 (469)
                      ..+....|..+++.++|++|+..|++.++..|+++   .+++.+|.++..++.-         ..+...+.+.    +..
T Consensus        69 ~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~~~~~~~---------~~~~~~~~~~~~rD~~~  139 (243)
T PRK10866         69 QQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTNMALDDS---------ALQGFFGVDRSDRDPQH  139 (243)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhhhhcchh---------hhhhccCCCccccCHHH
Confidence            34467889999999999999999999999999986   4566666665554310         0011112222    222


Q ss_pred             HHHHHHHHHHHhhccccchH---H--------------HHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHH
Q 012162           95 AELALKDAEKLLNLQSNSMK---S--------------HLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  157 (469)
Q Consensus        95 ~~~A~~~~~~al~l~p~~~~---~--------------~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~  157 (469)
                      ..+|+..+++.++.-|++..   +              -+..|.-|.+.|+|..|+.-++.+++--|+.+...+.+-.+.
T Consensus       140 ~~~A~~~~~~li~~yP~S~ya~~A~~rl~~l~~~la~~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~  219 (243)
T PRK10866        140 ARAAFRDFSKLVRGYPNSQYTTDATKRLVFLKDRLAKYELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLME  219 (243)
T ss_pred             HHHHHHHHHHHHHHCcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHH
Confidence            46899999999999998643   1              234466688899999999999999999999887777766655


Q ss_pred             Hhh
Q 012162          158 RTT  160 (469)
Q Consensus       158 ~~~  160 (469)
                      +.-
T Consensus       220 ~ay  222 (243)
T PRK10866        220 NAY  222 (243)
T ss_pred             HHH
Confidence            443

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

Probab=97.56  E-value=9.1e-05  Score=70.55  Aligned_cols=121  Identities=18%  Similarity=0.241  Sum_probs=101.0

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCC-----------C--------CcccccchhHHHHHHHhhhccCCCCCcc
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKP-----------G--------DPIVLGNRSSAYIRISQFLKHRPPSASE   82 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p-----------~--------~~~~~~~~a~~~~~~~~~~~~~~~~~~~   82 (469)
                      ++.....|+..++.++|..|...|.+++..--           +        ....+.+.+.+-++.+.+          
T Consensus       222 ~~~~k~~~~~~~kk~~~~~a~~k~~k~~r~~~~~s~~~~~e~~~~~~~~~~~r~~~~~n~~~~~lk~~~~----------  291 (372)
T KOG0546|consen  222 EEKKKNIGNKEFKKQRYREALAKYRKALRYLSEQSRDREKEQENRIPPLRELRFSIRRNLAAVGLKVKGR----------  291 (372)
T ss_pred             hhhhhccchhhhhhccHhHHHHHHHHHhhhhcccccccccccccccccccccccccccchHHhcccccCC----------
Confidence            45566788999999999999999999875421           1        124556667777777887          


Q ss_pred             cCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhh
Q 012162           83 YRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus        83 ~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                                   ..|+.....+++.++...++||++|+++..+.++++|+.+++.+....|++..+.+.+....+.+..
T Consensus       292 -------------~~a~~~~~~~~~~~~s~tka~~Rr~~~~~~~~~~~~a~~~~~~a~~~~p~d~~i~~~~~~~~~~~~~  358 (372)
T KOG0546|consen  292 -------------GGARFRTNEALRDERSKTKAHYRRGQAYKLLKNYDEALEDLKKAKQKAPNDKAIEEELENVRQKKKQ  358 (372)
T ss_pred             -------------CcceeccccccccChhhCcHHHHHHhHHHhhhchhhhHHHHHHhhccCcchHHHHHHHHHhhhHHHH
Confidence                         7888888888889999999999999999999999999999999999999999999888888877766


Q ss_pred             hhc
Q 012162          163 LIG  165 (469)
Q Consensus       163 ~~~  165 (469)
                      ..+
T Consensus       359 ~~~  361 (372)
T KOG0546|consen  359 YNR  361 (372)
T ss_pred             HHH
Confidence            543

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

Probab=97.56  E-value=9.2e-05  Score=46.17  Aligned_cols=34  Identities=29%  Similarity=0.509  Sum_probs=30.4

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD   55 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~   55 (469)
                      +..+..+|..++..|+|++|+..|++|++++|++
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 ....

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

Probab=97.53  E-value=0.00055  Score=62.37  Aligned_cols=126  Identities=19%  Similarity=0.196  Sum_probs=92.3

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc---ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA   98 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A   98 (469)
                      ..+.+..|..+++.|+|.+|+..|++.++..|+++   .+++.+|.+++.+..-.-           .+.+|+ ....+|
T Consensus        42 ~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~~~~~~~~-----------~~~~D~-~~~~~A  109 (203)
T PF13525_consen   42 PQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSYYKQIPGIL-----------RSDRDQ-TSTRKA  109 (203)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHHHHHHHHHH------------TT----HHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHhCccch-----------hcccCh-HHHHHH
Confidence            45667889999999999999999999999999976   578888998887754300           011222 334789


Q ss_pred             HHHHHHHhhccccchHH-----------------HHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHh
Q 012162           99 LKDAEKLLNLQSNSMKS-----------------HLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERT  159 (469)
Q Consensus        99 ~~~~~~al~l~p~~~~~-----------------~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~  159 (469)
                      +..++..++.-|++..+                 -+..|..|...|.|..|+..++.+++.-|+.+.....+..+.+.
T Consensus       110 ~~~~~~li~~yP~S~y~~~A~~~l~~l~~~la~~e~~ia~~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~  187 (203)
T PF13525_consen  110 IEEFEELIKRYPNSEYAEEAKKRLAELRNRLAEHELYIARFYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEA  187 (203)
T ss_dssp             HHHHHHHHHH-TTSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHH
Confidence            99999999999987542                 24457778899999999999999999999988776666555443

>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=97.53  E-value=0.00071  Score=58.03  Aligned_cols=97  Identities=24%  Similarity=0.155  Sum_probs=74.4

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc----------------------ccccchhHHHHHHHhhhccCCC
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----------------------IVLGNRSSAYIRISQFLKHRPP   78 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~----------------------~~~~~~a~~~~~~~~~~~~~~~   78 (469)
                      ....+...|......|+...++..+.+|+.+-..+.                      .++..++..+...|++      
T Consensus         5 ~F~~~~~~a~~~~~~~~~~~~~~~~~~al~ly~G~~l~~~~~~~W~~~~r~~l~~~~~~~~~~l~~~~~~~~~~------   78 (146)
T PF03704_consen    5 RFEALVREARAAARAGDPEEAIELLEEALALYRGDFLPDLDDEEWVEPERERLRELYLDALERLAEALLEAGDY------   78 (146)
T ss_dssp             HHHHHHHHHHHHHHTT-HHHHHHHHHHHHTT--SSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTT-H------
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCH------
Confidence            345566778888888999999999999999854321                      2223334456666788      


Q ss_pred             CCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccc
Q 012162           79 SASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGL  140 (469)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al  140 (469)
                                       ++|+..+++++.++|.+-.+|..+-.+|...|++.+|+..|++..
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                             999999999999999999999999999999999999999998864

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=97.52  E-value=2.1e-05  Score=49.17  Aligned_cols=29  Identities=17%  Similarity=0.449  Sum_probs=27.8

Q ss_pred             HHHHHhcCCCCCcccccchhHHHHHHHhh
Q 012162           44 NYSRANNIKPGDPIVLGNRSSAYIRISQF   72 (469)
Q Consensus        44 ~y~~al~~~p~~~~~~~~~a~~~~~~~~~   72 (469)
                      +|++||+++|+++.+|+++|.+|...|++
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

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=97.51  E-value=7.2e-05  Score=49.84  Aligned_cols=43  Identities=21%  Similarity=0.173  Sum_probs=39.8

Q ss_pred             cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHH
Q 012162           56 PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKAN  121 (469)
Q Consensus        56 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~  121 (469)
                      |.++..+|.+|..+|++                       ++|++.++++++.+|+++.++..+|.
T Consensus         1 p~~~~~la~~~~~~G~~-----------------------~~A~~~~~~~l~~~P~~~~a~~~La~   43 (44)
T PF13428_consen    1 PAAWLALARAYRRLGQP-----------------------DEAERLLRRALALDPDDPEAWRALAQ   43 (44)
T ss_pred             CHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHHHHCcCCHHHHHHhhh
Confidence            35678899999999999                       99999999999999999999999885

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

Probab=97.51  E-value=5.7e-05  Score=75.51  Aligned_cols=66  Identities=33%  Similarity=0.818  Sum_probs=51.9

Q ss_pred             CccccccccccccccccEE-ccCCCcccHHHHHHHcccCCCccccccccccCCCcccCcccHHHHHHH
Q 012162          174 RTDDFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQK  240 (469)
Q Consensus       174 ~~~~~~C~ic~~~~~~p~~-~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~  240 (469)
                      .+.++.|++|..++.+|+. +.|||.||..|+..|......||.|+..+... ..+......++.+.+
T Consensus        18 ~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~-~~~~~~~~~~~~~~~   84 (391)
T KOG0297|consen   18 LDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQA-EELPVPRALRRELLK   84 (391)
T ss_pred             CcccccCccccccccCCCCCCCCCCcccccccchhhccCcCCcccccccchh-hccCchHHHHHHHHh
Confidence            6678999999999999999 59999999999999998878999999877433 333333344444443

>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=97.50  E-value=0.00016  Score=49.90  Aligned_cols=49  Identities=18%  Similarity=0.132  Sum_probs=43.0

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhh
Q 012162          114 KSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus       114 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                      +.+|.+|.+++++|+|++|+.+.+.+|+.+|+|..+......+++++..
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            4578999999999999999999999999999999999999888887764

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

Probab=97.49  E-value=0.00041  Score=60.31  Aligned_cols=103  Identities=23%  Similarity=0.240  Sum_probs=91.8

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcC-CCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNI-KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~-~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      +.-.+..|+.+...|++.+|..+|++++.- --+++..+..+|.+.+..+++                       ..|..
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            445567899999999999999999999863 556788899999999999999                       99999


Q ss_pred             HHHHHhhcccc--chHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCc
Q 012162          101 DAEKLLNLQSN--SMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  147 (469)
Q Consensus       101 ~~~~al~l~p~--~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~  147 (469)
                      .+++..+.+|.  .++.+..+|.+|...|++.+|...|+.++..-|+..
T Consensus       146 tLe~l~e~~pa~r~pd~~Ll~aR~laa~g~~a~Aesafe~a~~~ypg~~  194 (251)
T COG4700         146 TLEDLMEYNPAFRSPDGHLLFARTLAAQGKYADAESAFEVAISYYPGPQ  194 (251)
T ss_pred             HHHHHhhcCCccCCCCchHHHHHHHHhcCCchhHHHHHHHHHHhCCCHH
Confidence            99999999885  578899999999999999999999999999988754

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.46  E-value=0.0003  Score=58.00  Aligned_cols=67  Identities=22%  Similarity=0.115  Sum_probs=60.4

Q ss_pred             cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccc---hHHHHHHHHHHHHHhHHHHH
Q 012162           56 PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNS---MKSHLLKANALILLERYDMA  132 (469)
Q Consensus        56 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~---~~~~~~~g~~~~~~~~~~~A  132 (469)
                      +.+++++|.++-.+|+.                       ++|+..|++++....+.   ..++..+|..|..+|++++|
T Consensus         1 ~~~~~~~A~a~d~~G~~-----------------------~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA   57 (120)
T PF12688_consen    1 PRALYELAWAHDSLGRE-----------------------EEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEA   57 (120)
T ss_pred             CchHHHHHHHHHhcCCH-----------------------HHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHH
Confidence            35778899999999999                       99999999999975443   66899999999999999999


Q ss_pred             HHHHhccccCCCC
Q 012162          133 RDAILSGLQVDPF  145 (469)
Q Consensus       133 ~~~~~~al~~~p~  145 (469)
                      +..+++++.-.|+
T Consensus        58 ~~~L~~~~~~~p~   70 (120)
T PF12688_consen   58 LALLEEALEEFPD   70 (120)
T ss_pred             HHHHHHHHHHCCC
Confidence            9999999998888

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

Probab=97.45  E-value=0.00021  Score=44.41  Aligned_cols=34  Identities=24%  Similarity=0.414  Sum_probs=30.3

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD   55 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~   55 (469)
                      +..+...|..++..|+|++|+.+|+++++++|++
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            4567899999999999999999999999999985

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 ....

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

Probab=97.42  E-value=0.00023  Score=65.39  Aligned_cols=67  Identities=28%  Similarity=0.618  Sum_probs=48.8

Q ss_pred             cccccccccccccccEEc-cCCCcccHHHHHHHc-ccCCCccccccccccCCCcccCcccHHHHHHHhch
Q 012162          176 DDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSM-DRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFP  243 (469)
Q Consensus       176 ~~~~C~ic~~~~~~p~~~-~cgh~~C~~Ci~~~~-~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~~  243 (469)
                      -.+.|+.|..++.+|+.+ -|||+||..||...+ +..+.||.|...-.. -..+.++...+.-|++++.
T Consensus       273 i~LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvl-ld~l~pD~dk~~EvE~~lk  341 (427)
T COG5222         273 ISLKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVL-LDGLTPDIDKKLEVEKALK  341 (427)
T ss_pred             ccccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCCcccccch-hhccCccHHHHHHHHHHHH
Confidence            348999999999999988 689999999998765 456689999863211 1345566555555555543

>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]

Probab=97.41  E-value=8.3e-05  Score=73.43  Aligned_cols=52  Identities=31%  Similarity=0.754  Sum_probs=43.1

Q ss_pred             CCCccccccccccccccccEEccCCCcccHHHHHHHcc-----cCCCcccccccccc
Q 012162          172 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD-----RGNKCPLCRAVLFI  223 (469)
Q Consensus       172 ~~~~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~-----~~~~CP~Cr~~~~~  223 (469)
                      ........|.+|.+.-.+++...|.|.||+.|+.++..     .+-.||+|...++.
T Consensus       531 ~enk~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Lsi  587 (791)
T KOG1002|consen  531 DENKGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSI  587 (791)
T ss_pred             ccccCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccc
Confidence            33446679999999999999999999999999988754     23479999998854

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.41  E-value=0.00026  Score=66.99  Aligned_cols=74  Identities=14%  Similarity=-0.041  Sum_probs=62.4

Q ss_pred             ccccchhHHH-HHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccc---hHHHHHHHHHHHHHhHHHHH
Q 012162           57 IVLGNRSSAY-IRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNS---MKSHLLKANALILLERYDMA  132 (469)
Q Consensus        57 ~~~~~~a~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~---~~~~~~~g~~~~~~~~~~~A  132 (469)
                      ...+..|..+ ++.|+|                       ++|+..|+..++..|++   +.++|.+|.+|+..|+|++|
T Consensus       143 ~~~Y~~A~~l~~~~~~y-----------------------~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A  199 (263)
T PRK10803        143 NTDYNAAIALVQDKSRQ-----------------------DDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDA  199 (263)
T ss_pred             HHHHHHHHHHHHhcCCH-----------------------HHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHH
Confidence            4455566665 456888                       99999999999999998   57999999999999999999


Q ss_pred             HHHHhccccCCCCCchhHHHH
Q 012162          133 RDAILSGLQVDPFSNPLQASL  153 (469)
Q Consensus       133 ~~~~~~al~~~p~~~~~~~~~  153 (469)
                      +..|++++...|+++.....+
T Consensus       200 ~~~f~~vv~~yP~s~~~~dAl  220 (263)
T PRK10803        200 AYYFASVVKNYPKSPKAADAM  220 (263)
T ss_pred             HHHHHHHHHHCCCCcchhHHH
Confidence            999999999999876554443

>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=97.36  E-value=0.00074  Score=67.32  Aligned_cols=104  Identities=14%  Similarity=0.157  Sum_probs=92.4

Q ss_pred             HhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccch
Q 012162           34 RESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSM  113 (469)
Q Consensus        34 ~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~  113 (469)
                      ..++++.|+..|++..+.+|+   +...+|.+++.+++.                       .+|+..+.++++.+|.+.
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            457899999999999998875   455588888888887                       899999999999999999


Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhh
Q 012162          114 KSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  163 (469)
Q Consensus       114 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~  163 (469)
                      ..+...|..+...++|+.|+...++|..+.|++...+..+..+--.+++.
T Consensus       235 ~LL~~Qa~fLl~k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~  284 (395)
T PF09295_consen  235 ELLNLQAEFLLSKKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDF  284 (395)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCH
Confidence            99999999999999999999999999999999999988888776666554

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

>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=97.36  E-value=0.0011  Score=53.26  Aligned_cols=98  Identities=18%  Similarity=0.266  Sum_probs=77.0

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCC------------CcccccchhHHHHHHHhhhccCCCCCcccCccCC
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPG------------DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNG   88 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~------------~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~   88 (469)
                      .+...+..|...+..|-|++|...|.+|++..-.            ++-.|..++.++..+|+|                
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            4555667888899999999999999999987443            236677888999999999                


Q ss_pred             CCCchhHHHHHHHHHHHhh-------cccc----chHHHHHHHHHHHHHhHHHHHHHHHhcccc
Q 012162           89 LDPTTHAELALKDAEKLLN-------LQSN----SMKSHLLKANALILLERYDMARDAILSGLQ  141 (469)
Q Consensus        89 ~~~~~~~~~A~~~~~~al~-------l~p~----~~~~~~~~g~~~~~~~~~~~A~~~~~~al~  141 (469)
                             ++++..++++|.       ++.+    |..+.+.+|.++..+|+.++|+..|+.+-+
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                   888888888775       3333    566788999999999999999999988754

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

>PF04781 DUF627: Protein of unknown function (DUF627); InterPro: IPR006866 This domain represents the N-terminal region of several plant proteins of unknown function

Probab=97.30  E-value=0.0013  Score=52.42  Aligned_cols=104  Identities=15%  Similarity=0.153  Sum_probs=83.7

Q ss_pred             hHHHHHHhccHHHHHHHHHHHhcCCCCCc---ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHH
Q 012162           28 KGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  104 (469)
Q Consensus        28 ~g~~~~~~~~~~~A~~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  104 (469)
                      ++..++.+||+.+|++..+..+...+++.   .++..-|.+++++..-   .+.++..+.-         .-.|++.+.+
T Consensus         2 ~A~~~~~rGnhiKAL~iied~i~~h~~~~~~~~lh~~QG~if~~lA~~---ten~d~k~~y---------Ll~sve~~s~   69 (111)
T PF04781_consen    2 KAKDYFARGNHIKALEIIEDLISRHGEDESSWLLHRLQGTIFYKLAKK---TENPDVKFRY---------LLGSVECFSR   69 (111)
T ss_pred             hHHHHHHccCHHHHHHHHHHHHHHccCCCchHHHHHHHhHHHHHHHHh---ccCchHHHHH---------HHHhHHHHHH
Confidence            57789999999999999999999988877   4566677788777654   1122222222         2779999999


Q ss_pred             HhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCC
Q 012162          105 LLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVD  143 (469)
Q Consensus       105 al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~  143 (469)
                      +..+.|+.+..++.+|.-+.....|+++..--+++|.+.
T Consensus        70 a~~Lsp~~A~~L~~la~~l~s~~~Ykk~v~kak~~Lsv~  108 (111)
T PF04781_consen   70 AVELSPDSAHSLFELASQLGSVKYYKKAVKKAKRGLSVT  108 (111)
T ss_pred             HhccChhHHHHHHHHHHHhhhHHHHHHHHHHHHHHhccc
Confidence            999999999999999999888999999999999988763

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=97.29  E-value=0.0014  Score=67.75  Aligned_cols=99  Identities=12%  Similarity=0.036  Sum_probs=84.3

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ...+.-.|..+-..|++++|+.+.++||+.+|..+++|...|.+|-+.|++                       .+|...
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            456667788888889999999999999999999999999999999999999                       899999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCC
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVD  143 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~  143 (469)
                      .+.|-++|+.+-..-...+..+.+.|+.++|...+..-.+-+
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            999999998887666667778888999999988887776654

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 [], [].

>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.29  E-value=0.00013  Score=69.36  Aligned_cols=47  Identities=28%  Similarity=0.738  Sum_probs=41.3

Q ss_pred             cccccccccccccccEEccCCCc-ccHHHHHHHcccCCCccccccccc
Q 012162          176 DDFDCTLCLKLLYEPITTPCGHS-FCRSCLFQSMDRGNKCPLCRAVLF  222 (469)
Q Consensus       176 ~~~~C~ic~~~~~~p~~~~cgh~-~C~~Ci~~~~~~~~~CP~Cr~~~~  222 (469)
                      .-.+|.||+.-.++.+.+||.|. .|.+|.+...-+.+.||+||+++.
T Consensus       289 ~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~  336 (349)
T KOG4265|consen  289 SGKECVICLSESRDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIE  336 (349)
T ss_pred             CCCeeEEEecCCcceEEecchhhehhHhHHHHHHHhhcCCCccccchH
Confidence            35689999999999999999999 999998876656778999999873

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

Probab=97.27  E-value=0.00035  Score=62.24  Aligned_cols=73  Identities=22%  Similarity=0.171  Sum_probs=66.4

Q ss_pred             CcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHH
Q 012162           55 DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARD  134 (469)
Q Consensus        55 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~  134 (469)
                      .+..++.||..|-.+|-+                       ..|.-++.+++.+.|+-+.++..+|.-+...|+|+.|.+
T Consensus        64 RA~l~fERGvlYDSlGL~-----------------------~LAR~DftQaLai~P~m~~vfNyLG~Yl~~a~~fdaa~e  120 (297)
T COG4785          64 RAQLLFERGVLYDSLGLR-----------------------ALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYE  120 (297)
T ss_pred             HHHHHHHhcchhhhhhHH-----------------------HHHhhhhhhhhhcCCCcHHHHHHHHHHHHhcccchHHHH
Confidence            356677788888889988                       999999999999999999999999999999999999999


Q ss_pred             HHhccccCCCCCchhH
Q 012162          135 AILSGLQVDPFSNPLQ  150 (469)
Q Consensus       135 ~~~~al~~~p~~~~~~  150 (469)
                      .|...+++||.+.-+.
T Consensus       121 aFds~~ELDp~y~Ya~  136 (297)
T COG4785         121 AFDSVLELDPTYNYAH  136 (297)
T ss_pred             HhhhHhccCCcchHHH
Confidence            9999999999877653

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

Probab=97.25  E-value=0.00024  Score=53.54  Aligned_cols=46  Identities=26%  Similarity=0.723  Sum_probs=34.1

Q ss_pred             cccccccccccc-----------c-cEE-ccCCCcccHHHHHHHccc---CCCccccccccc
Q 012162          177 DFDCTLCLKLLY-----------E-PIT-TPCGHSFCRSCLFQSMDR---GNKCPLCRAVLF  222 (469)
Q Consensus       177 ~~~C~ic~~~~~-----------~-p~~-~~cgh~~C~~Ci~~~~~~---~~~CP~Cr~~~~  222 (469)
                      +-.|.||...|.           + |+. -.|+|.|...||.+|+..   ...||.||++..
T Consensus        21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK   82 (85)
T ss_pred             CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence            445666666554           2 433 479999999999999974   247999999864

>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=97.25  E-value=0.0011  Score=57.62  Aligned_cols=82  Identities=20%  Similarity=0.185  Sum_probs=56.0

Q ss_pred             hHHHHHHhHHHHHHh----------ccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCC
Q 012162           21 HVFDLVQKGNRAFRE----------SNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLD   90 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~----------~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (469)
                      +++.|.+=|.++...          .-+++|+..|++||.++|+.+.+++++|.+|..++.+..     +.       .+
T Consensus        24 DadnL~~WG~ALLELAqfk~g~es~~miedAisK~eeAL~I~P~~hdAlw~lGnA~ts~A~l~~-----d~-------~~   91 (186)
T PF06552_consen   24 DADNLTNWGGALLELAQFKQGPESKKMIEDAISKFEEALKINPNKHDALWCLGNAYTSLAFLTP-----DT-------AE   91 (186)
T ss_dssp             -HHHHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHHHH--------H-------HH
T ss_pred             hHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHhhcC-----Ch-------HH
Confidence            355555555555433          346889999999999999999999999999999887510     00       01


Q ss_pred             CchhHHHHHHHHHHHhhccccchH
Q 012162           91 PTTHAELALKDAEKLLNLQSNSMK  114 (469)
Q Consensus        91 ~~~~~~~A~~~~~~al~l~p~~~~  114 (469)
                      ...+.++|...|++|...+|++..
T Consensus        92 A~~~F~kA~~~FqkAv~~~P~ne~  115 (186)
T PF06552_consen   92 AEEYFEKATEYFQKAVDEDPNNEL  115 (186)
T ss_dssp             HHHHHHHHHHHHHHHHHH-TT-HH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCcHH
Confidence            122348899999999999999843

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.

>PRK15331 chaperone protein SicA; Provisional

Probab=97.25  E-value=0.00059  Score=58.69  Aligned_cols=92  Identities=9%  Similarity=-0.117  Sum_probs=76.5

Q ss_pred             HhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHh
Q 012162           48 ANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLE  127 (469)
Q Consensus        48 al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~  127 (469)
                      ...+.++.-...+..|.-++..|++                       ++|...|+-..-++|.+++.++.+|.++..+|
T Consensus        29 l~gis~~~le~iY~~Ay~~y~~Gk~-----------------------~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k   85 (165)
T PRK15331         29 VHGIPQDMMDGLYAHAYEFYNQGRL-----------------------DEAETFFRFLCIYDFYNPDYTMGLAAVCQLKK   85 (165)
T ss_pred             HhCCCHHHHHHHHHHHHHHHHCCCH-----------------------HHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHH
Confidence            3445555566777888889999999                       99999999999999999999999999999999


Q ss_pred             HHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhh
Q 012162          128 RYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus       128 ~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                      +|++|++.|..|..++++|+........+.-.+++
T Consensus        86 ~y~~Ai~~Y~~A~~l~~~dp~p~f~agqC~l~l~~  120 (165)
T PRK15331         86 QFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRK  120 (165)
T ss_pred             HHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCC
Confidence            99999999999999999988755444444444433

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=97.24  E-value=0.001  Score=63.92  Aligned_cols=93  Identities=13%  Similarity=0.123  Sum_probs=78.8

Q ss_pred             cHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHH
Q 012162           37 NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSH  116 (469)
Q Consensus        37 ~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~  116 (469)
                      .+.+|...|++..+..+.++.+++.+|.+++.+|+|                       ++|...+.+++..+|+++.++
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            699999999998888788899999999999999999                       999999999999999999999


Q ss_pred             HHHHHHHHHHhHH-HHHHHHHhccccCCCCCchhHHH
Q 012162          117 LLKANALILLERY-DMARDAILSGLQVDPFSNPLQAS  152 (469)
Q Consensus       117 ~~~g~~~~~~~~~-~~A~~~~~~al~~~p~~~~~~~~  152 (469)
                      .+++.+...+|+. +.+...+.+....+|+++-....
T Consensus       239 aNliv~~~~~gk~~~~~~~~l~qL~~~~p~h~~~~~~  275 (290)
T PF04733_consen  239 ANLIVCSLHLGKPTEAAERYLSQLKQSNPNHPLVKDL  275 (290)
T ss_dssp             HHHHHHHHHTT-TCHHHHHHHHHCHHHTTTSHHHHHH
T ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHhCCCChHHHHH
Confidence            9999999999999 56667888888889988765443

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.

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=97.23  E-value=0.0011  Score=55.82  Aligned_cols=83  Identities=24%  Similarity=0.360  Sum_probs=63.9

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc---ccccchhHHHHHHHhhhccCCCCCcccCcc--CCCCCchhHHH
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPL--NGLDPTTHAEL   97 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~   97 (469)
                      .+.+..|..+|+.|+|++|+..|++-|+++|+++   .+++.+|.+++....-         ..+.+  ..+|++. +..
T Consensus        48 qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~~~~~~---------~~~~~~~~drD~~~-~~~  117 (142)
T PF13512_consen   48 QAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYYEQDEG---------SLQSFFRSDRDPTP-ARQ  117 (142)
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHHHHhhh---------HHhhhcccccCcHH-HHH
Confidence            4557789999999999999999999999999987   5678888888887641         01111  2333332 479


Q ss_pred             HHHHHHHHhhccccchHH
Q 012162           98 ALKDAEKLLNLQSNSMKS  115 (469)
Q Consensus        98 A~~~~~~al~l~p~~~~~  115 (469)
                      |+.++++.++.-|++..+
T Consensus       118 A~~~f~~lv~~yP~S~ya  135 (142)
T PF13512_consen  118 AFRDFEQLVRRYPNSEYA  135 (142)
T ss_pred             HHHHHHHHHHHCcCChhH
Confidence            999999999999998654

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.21  E-value=0.0015  Score=62.37  Aligned_cols=125  Identities=17%  Similarity=0.162  Sum_probs=78.2

Q ss_pred             hHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCC----cc--cCccC--------------
Q 012162           28 KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSA----SE--YRPLN--------------   87 (469)
Q Consensus        28 ~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~--~~~~~--------------   87 (469)
                      .|..+|+.|||++|+..|+-+..-+..++.++.++|.|++.+|.|.++...+.    +.  -+.|+              
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            47889999999999999999999888888999999999999999954322111    11  01111              


Q ss_pred             --------CCCC---------chhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhH
Q 012162           88 --------GLDP---------TTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  150 (469)
Q Consensus        88 --------~~~~---------~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~  150 (469)
                              .+|+         .++.++|++.+.+++.-+|+....-..+|.+|+++.-|+-+...+.-.|+..|++.-+.
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                    0000         11125555555555555555555555555556655555555555555555555555444


Q ss_pred             HH
Q 012162          151 AS  152 (469)
Q Consensus       151 ~~  152 (469)
                      +.
T Consensus       223 NL  224 (557)
T KOG3785|consen  223 NL  224 (557)
T ss_pred             HH
Confidence            33

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

Probab=97.19  E-value=0.0019  Score=66.17  Aligned_cols=114  Identities=17%  Similarity=0.001  Sum_probs=101.6

Q ss_pred             HHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHH
Q 012162           26 VQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKL  105 (469)
Q Consensus        26 ~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a  105 (469)
                      ...++...-.++.++|+.+++++++..|+.+.+|..+|+++-++++.                       +.|...|...
T Consensus       655 mKs~~~er~ld~~eeA~rllEe~lk~fp~f~Kl~lmlGQi~e~~~~i-----------------------e~aR~aY~~G  711 (913)
T KOG0495|consen  655 MKSANLERYLDNVEEALRLLEEALKSFPDFHKLWLMLGQIEEQMENI-----------------------EMAREAYLQG  711 (913)
T ss_pred             HHHhHHHHHhhhHHHHHHHHHHHHHhCCchHHHHHHHhHHHHHHHHH-----------------------HHHHHHHHhc
Confidence            33444555678999999999999999999999999999999999999                       9999999999


Q ss_pred             hhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhh
Q 012162          106 LNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus       106 l~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                      ++.-|+.+-.|..++..-...|..-.|...++++.-.||+|...+...-+++-..++
T Consensus       712 ~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk~~~lwle~Ir~ElR~gn  768 (913)
T KOG0495|consen  712 TKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPKNALLWLESIRMELRAGN  768 (913)
T ss_pred             cccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCCcchhHHHHHHHHHHcCC
Confidence            999999999999999999999999999999999999999999887766666655444

>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.19  E-value=0.00031  Score=66.12  Aligned_cols=53  Identities=21%  Similarity=0.596  Sum_probs=46.0

Q ss_pred             CCCCCCccccccccccccccccEEccCCCcccHHHHHHHcccCCCcccccccc
Q 012162          169 HGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL  221 (469)
Q Consensus       169 ~~~~~~~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~  221 (469)
                      ......+++-.|+||..--.+.|..||+|.-|++||.+++.+.+.|-.|+..+
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            34455567889999998888888899999999999999999999999998765

>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=97.16  E-value=0.00022  Score=44.38  Aligned_cols=33  Identities=15%  Similarity=0.162  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHhccccCCCCC
Q 012162          114 KSHLLKANALILLERYDMARDAILSGLQVDPFS  146 (469)
Q Consensus       114 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~  146 (469)
                      .+|+.+|.+|..+|++++|+..|+++++++|+|
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            689999999999999999999999999999954

...

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

Probab=97.15  E-value=0.0011  Score=66.85  Aligned_cols=102  Identities=23%  Similarity=0.137  Sum_probs=90.9

Q ss_pred             HHhccHHHHHHHHHHHhcCCCCCc-ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhcccc
Q 012162           33 FRESNFEEAISNYSRANNIKPGDP-IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSN  111 (469)
Q Consensus        33 ~~~~~~~~A~~~y~~al~~~p~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~  111 (469)
                      .-.|+...|++++.+|+...|... ....++|...++.+-.                       ..|-..+.+++.+...
T Consensus       618 r~~gn~~~a~~cl~~a~~~~p~~~~v~~v~la~~~~~~~~~-----------------------~da~~~l~q~l~~~~s  674 (886)
T KOG4507|consen  618 RAVGNSTFAIACLQRALNLAPLQQDVPLVNLANLLIHYGLH-----------------------LDATKLLLQALAINSS  674 (886)
T ss_pred             eecCCcHHHHHHHHHHhccChhhhcccHHHHHHHHHHhhhh-----------------------ccHHHHHHHHHhhccc
Confidence            456999999999999999999755 4567889998888876                       7899999999999988


Q ss_pred             chHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHH
Q 012162          112 SMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  157 (469)
Q Consensus       112 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~  157 (469)
                      .|-.++.+|.+|..+.+.+.|+++|+.|+.++|++....+.+..+.
T Consensus       675 epl~~~~~g~~~l~l~~i~~a~~~~~~a~~~~~~~~~~~~~l~~i~  720 (886)
T KOG4507|consen  675 EPLTFLSLGNAYLALKNISGALEAFRQALKLTTKCPECENSLKLIR  720 (886)
T ss_pred             CchHHHhcchhHHHHhhhHHHHHHHHHHHhcCCCChhhHHHHHHHH
Confidence            8999999999999999999999999999999999999887776653

>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]

Probab=97.11  E-value=0.00021  Score=68.23  Aligned_cols=47  Identities=36%  Similarity=0.752  Sum_probs=40.5

Q ss_pred             cccccccccccccEEccCCCcccHHHHHHHccc--CCCccccccccccC
Q 012162          178 FDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR--GNKCPLCRAVLFIT  224 (469)
Q Consensus       178 ~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~--~~~CP~Cr~~~~~~  224 (469)
                      ..|.||-+.-++-.+-||||..|..|+..|...  +..||.||..+...
T Consensus       370 eLCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGt  418 (563)
T KOG1785|consen  370 ELCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGT  418 (563)
T ss_pred             HHHHHhhccCCCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccc
Confidence            369999999888888999999999999999853  56899999988543

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.08  E-value=0.0012  Score=63.55  Aligned_cols=108  Identities=19%  Similarity=0.173  Sum_probs=82.3

Q ss_pred             hHHHHHHhHHHHHHh-ccHHHHHHHHHHHhcCCCC--C----cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCch
Q 012162           21 HVFDLVQKGNRAFRE-SNFEEAISNYSRANNIKPG--D----PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT   93 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~-~~~~~A~~~y~~al~~~p~--~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (469)
                      -+..+...|..+... |++++|+.+|.+|+++-..  .    ...+.+.|.++..+|+|                     
T Consensus       113 aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y---------------------  171 (282)
T PF14938_consen  113 AAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRY---------------------  171 (282)
T ss_dssp             HHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-H---------------------
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCH---------------------
Confidence            366777888888888 9999999999999988322  1    25667888999999999                     


Q ss_pred             hHHHHHHHHHHHhhcccc------ch-HHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHH
Q 012162           94 HAELALKDAEKLLNLQSN------SM-KSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQA  151 (469)
Q Consensus        94 ~~~~A~~~~~~al~l~p~------~~-~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~  151 (469)
                        .+|+..++++....-+      +. ..++..+.++...|++-.|...|++....+|......+
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              9999999998764211      23 34566778899999999999999999999998766543

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

Probab=97.07  E-value=0.0035  Score=63.62  Aligned_cols=124  Identities=21%  Similarity=0.186  Sum_probs=75.3

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccC------C--CCCccc--CccCCCCC
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHR------P--PSASEY--RPLNGLDP   91 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~------~--~~~~~~--~~~~~~~~   91 (469)
                      ...++..-+.+.+.|+|++|+....+.+...|++..++.-.-.|+.++++|-+..      .  .....+  ...+..=.
T Consensus        12 ~~~l~t~ln~~~~~~e~e~a~k~~~Kil~~~pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~~~~~~~~fEKAYc~Yr   91 (652)
T KOG2376|consen   12 LEALLTDLNRHGKNGEYEEAVKTANKILSIVPDDEDAIRCKVVALIQLDKYEDALKLIKKNGALLVINSFFFEKAYCEYR   91 (652)
T ss_pred             HHHHHHHHHHhccchHHHHHHHHHHHHHhcCCCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchhhhcchhhHHHHHHHHH
Confidence            3566777778888899999999988888888887655554444444444440000      0  000000  00000000


Q ss_pred             chhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCch
Q 012162           92 TTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  148 (469)
Q Consensus        92 ~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~  148 (469)
                      .+-.++|+..++   .+++.+.......|++++.+|+|++|.+.|+..++-+-++.+
T Consensus        92 lnk~Dealk~~~---~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d  145 (652)
T KOG2376|consen   92 LNKLDEALKTLK---GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQD  145 (652)
T ss_pred             cccHHHHHHHHh---cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHH
Confidence            000066666655   456666778888899999999999999999998876665543

>PF15015 NYD-SP12_N: Spermatogenesis-associated, N-terminal

Probab=97.06  E-value=0.0033  Score=61.25  Aligned_cols=95  Identities=19%  Similarity=0.344  Sum_probs=78.6

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCC--------CCc----------ccccchhHHHHHHHhhhccCCCCCccc
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKP--------GDP----------IVLGNRSSAYIRISQFLKHRPPSASEY   83 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p--------~~~----------~~~~~~a~~~~~~~~~~~~~~~~~~~~   83 (469)
                      .......|...|++++|..|+.-|..||++-.        ..+          .+-..+..||+++++.           
T Consensus       176 l~vAL~das~~yrqk~ya~Aa~rF~taLelcskg~a~~k~~~~~~~di~~vaSfIetklv~CYL~~rkp-----------  244 (569)
T PF15015_consen  176 LQVALKDASSCYRQKKYAVAAGRFRTALELCSKGAALSKPFKASAEDISSVASFIETKLVTCYLRMRKP-----------  244 (569)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhhhhhccCCCCCChhhHHHHHHHHHHHHHHhhhhcCCC-----------
Confidence            44556678889999999999999999998732        222          2334577899999999           


Q ss_pred             CccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhcc
Q 012162           84 RPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSG  139 (469)
Q Consensus        84 ~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~a  139 (469)
                                  +.|+....+.|-++|.++..|.+.|.++..+.+|.+|..-+--|
T Consensus       245 ------------dlALnh~hrsI~lnP~~frnHLrqAavfR~LeRy~eAarSamia  288 (569)
T PF15015_consen  245 ------------DLALNHSHRSINLNPSYFRNHLRQAAVFRRLERYSEAARSAMIA  288 (569)
T ss_pred             ------------chHHHHHhhhhhcCcchhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                        99999999999999999999999999999999999987654443

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

Probab=96.98  E-value=0.00095  Score=54.65  Aligned_cols=62  Identities=19%  Similarity=0.111  Sum_probs=56.8

Q ss_pred             hhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhcccc
Q 012162           62 RSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQ  141 (469)
Q Consensus        62 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~  141 (469)
                      .|.+....|+.                       +.|++.|.+++.+-|..+.+|.++|+++...|+.++|++++.+|++
T Consensus        49 ~~valaE~g~L-----------------------d~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~Ale  105 (175)
T KOG4555|consen   49 KAIALAEAGDL-----------------------DGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALE  105 (175)
T ss_pred             HHHHHHhccch-----------------------HHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHH
Confidence            45667778888                       9999999999999999999999999999999999999999999999


Q ss_pred             CCCCC
Q 012162          142 VDPFS  146 (469)
Q Consensus       142 ~~p~~  146 (469)
                      +..+.
T Consensus       106 Lag~~  110 (175)
T KOG4555|consen  106 LAGDQ  110 (175)
T ss_pred             hcCcc
Confidence            97654

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

Probab=96.89  E-value=0.0009  Score=63.48  Aligned_cols=68  Identities=13%  Similarity=0.209  Sum_probs=61.0

Q ss_pred             cchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhcc
Q 012162           60 GNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSG  139 (469)
Q Consensus        60 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~a  139 (469)
                      -.+|.-|++.|+|                       ++|+..|.+++.++|.|+-.|.++|.+|+.+++|..|..+...|
T Consensus       101 KE~GN~yFKQgKy-----------------------~EAIDCYs~~ia~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~A  157 (536)
T KOG4648|consen  101 KERGNTYFKQGKY-----------------------EEAIDCYSTAIAVYPHNPVYHINRALAYLKQKSFAQAEEDCEAA  157 (536)
T ss_pred             HHhhhhhhhccch-----------------------hHHHHHhhhhhccCCCCccchhhHHHHHHHHHHHHHHHHhHHHH
Confidence            3467789999999                       99999999999999999999999999999999999999999999


Q ss_pred             ccCCCCCchhH
Q 012162          140 LQVDPFSNPLQ  150 (469)
Q Consensus       140 l~~~p~~~~~~  150 (469)
                      +.+|-....++
T Consensus       158 iaLd~~Y~KAY  168 (536)
T KOG4648|consen  158 IALDKLYVKAY  168 (536)
T ss_pred             HHhhHHHHHHH
Confidence            99986554443

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.89  E-value=0.00052  Score=66.53  Aligned_cols=99  Identities=21%  Similarity=0.150  Sum_probs=79.3

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC------cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA   95 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (469)
                      ..++-+.|+.|+-.|||+.||.+-+.-+.+....      -.++.|+|.||.-+|++                       
T Consensus       195 GRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~f-----------------------  251 (639)
T KOG1130|consen  195 GRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNF-----------------------  251 (639)
T ss_pred             cchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhccc-----------------------
Confidence            3455567888889999999999888777764332      36899999999999999                       


Q ss_pred             HHHHHHHHHHhhc----ccc--chHHHHHHHHHHHHHhHHHHHHHHHhccccCC
Q 012162           96 ELALKDAEKLLNL----QSN--SMKSHLLKANALILLERYDMARDAILSGLQVD  143 (469)
Q Consensus        96 ~~A~~~~~~al~l----~p~--~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~  143 (469)
                      +.|+++|++++.+    ...  .+...|.+|+.|..+.+|+.|+.++.+-|++.
T Consensus       252 e~A~ehYK~tl~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIA  305 (639)
T KOG1130|consen  252 ELAIEHYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIA  305 (639)
T ss_pred             HhHHHHHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999886554    333  34567899999999999999999999877663

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

Probab=96.86  E-value=0.0074  Score=56.67  Aligned_cols=129  Identities=15%  Similarity=0.156  Sum_probs=95.9

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHH------
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE------   96 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------   96 (469)
                      +.....|......|++.+|...|..++..+|++..+...+|.||...|+..        +++.++...|...-.      
T Consensus       135 e~~~~~~~~~~~~e~~~~a~~~~~~al~~~~~~~~~~~~la~~~l~~g~~e--------~A~~iL~~lP~~~~~~~~~~l  206 (304)
T COG3118         135 EEALAEAKELIEAEDFGEAAPLLKQALQAAPENSEAKLLLAECLLAAGDVE--------AAQAILAALPLQAQDKAAHGL  206 (304)
T ss_pred             HHHHHHhhhhhhccchhhHHHHHHHHHHhCcccchHHHHHHHHHHHcCChH--------HHHHHHHhCcccchhhHHHHH
Confidence            334566778899999999999999999999999999999999999999871        234443333322111      


Q ss_pred             -HHH------------HHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCC--chhHHHHHHHHHh
Q 012162           97 -LAL------------KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS--NPLQASLQNLERT  159 (469)
Q Consensus        97 -~A~------------~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~--~~~~~~~~~~~~~  159 (469)
                       ..+            .++++.+..||++..+-+.+|..|...|++++|.+.+-..++.|-++  ..+++.+-.+-..
T Consensus       207 ~a~i~ll~qaa~~~~~~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~  284 (304)
T COG3118         207 QAQIELLEQAAATPEIQDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEA  284 (304)
T ss_pred             HHHHHHHHHHhcCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHh
Confidence             112            23455566789999999999999999999999999999999887643  4455544444333

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.85  E-value=0.0055  Score=58.55  Aligned_cols=95  Identities=16%  Similarity=0.115  Sum_probs=79.8

Q ss_pred             HHHHHhccHHHHHHHHHHHhcCCCCCc-ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhc
Q 012162           30 NRAFRESNFEEAISNYSRANNIKPGDP-IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNL  108 (469)
Q Consensus        30 ~~~~~~~~~~~A~~~y~~al~~~p~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l  108 (469)
                      .......||..|+..++-.+..+...- ..-.++|.|++.+|+|                       ++|+..++-+..-
T Consensus        30 edfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY-----------------------~~Al~~Y~~~~~~   86 (557)
T KOG3785|consen   30 EDFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDY-----------------------EEALNVYTFLMNK   86 (557)
T ss_pred             HHHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccH-----------------------HHHHHHHHHHhcc
Confidence            456778999999999998887765543 5667899999999999                       9999999999998


Q ss_pred             cccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHH
Q 012162          109 QSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQA  151 (469)
Q Consensus       109 ~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~  151 (469)
                      +.-+.+.+.++|-+++-+|.|.+|...-.+|    |+++....
T Consensus        87 ~~~~~el~vnLAcc~FyLg~Y~eA~~~~~ka----~k~pL~~R  125 (557)
T KOG3785|consen   87 DDAPAELGVNLACCKFYLGQYIEAKSIAEKA----PKTPLCIR  125 (557)
T ss_pred             CCCCcccchhHHHHHHHHHHHHHHHHHHhhC----CCChHHHH
Confidence            8778899999999999999999999887775    55554333

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.84  E-value=0.0023  Score=59.44  Aligned_cols=76  Identities=16%  Similarity=0.092  Sum_probs=66.7

Q ss_pred             ccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccc---hHHHHHHHHHHHHHhHHHHHHHH
Q 012162           59 LGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNS---MKSHLLKANALILLERYDMARDA  135 (469)
Q Consensus        59 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~---~~~~~~~g~~~~~~~~~~~A~~~  135 (469)
                      .|+-|.-+++.|+|                       ..|...|..-++.-|++   +.|+|++|.+++.+|+|++|...
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            67888999999999                       99999999999998876   67999999999999999999999


Q ss_pred             HhccccCCCCCchhHHHHHHHH
Q 012162          136 ILSGLQVDPFSNPLQASLQNLE  157 (469)
Q Consensus       136 ~~~al~~~p~~~~~~~~~~~~~  157 (469)
                      |..+.+-.|+++.+-..+-++-
T Consensus       201 f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         201 FARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHhCCCCCCChHHHHHHH
Confidence            9999999998887655554433

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=96.82  E-value=0.002  Score=61.96  Aligned_cols=103  Identities=19%  Similarity=0.195  Sum_probs=67.2

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCC--CC----cccccchhHHHHHH-HhhhccCCCCCcccCccCCCCCchh
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKP--GD----PIVLGNRSSAYIRI-SQFLKHRPPSASEYRPLNGLDPTTH   94 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p--~~----~~~~~~~a~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~   94 (469)
                      +..+.. +...++.+++.+|+.+|++|+.+--  ++    +.++.++|.+|... +++                      
T Consensus        75 a~~~~~-Aa~~~k~~~~~~Ai~~~~~A~~~y~~~G~~~~aA~~~~~lA~~ye~~~~d~----------------------  131 (282)
T PF14938_consen   75 AKAYEE-AANCYKKGDPDEAIECYEKAIEIYREAGRFSQAAKCLKELAEIYEEQLGDY----------------------  131 (282)
T ss_dssp             HHHHHH-HHHHHHHTTHHHHHHHHHHHHHHHHHCT-HHHHHHHHHHHHHHHCCTT--H----------------------
T ss_pred             HHHHHH-HHHHHHhhCHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHcCCH----------------------
Confidence            333333 3334455577777777777776521  11    24555556666555 666                      


Q ss_pred             HHHHHHHHHHHhhccc------cchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCch
Q 012162           95 AELALKDAEKLLNLQS------NSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  148 (469)
Q Consensus        95 ~~~A~~~~~~al~l~p------~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~  148 (469)
                       ++|+..|++|+++-.      .....+...|.++..+|+|++|+..|++.....-+++.
T Consensus       132 -e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l  190 (282)
T PF14938_consen  132 -EKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNL  190 (282)
T ss_dssp             -HHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCT
T ss_pred             -HHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccc
Confidence             999999999998632      12346678899999999999999999998875544443

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

Probab=96.77  E-value=0.0027  Score=63.21  Aligned_cols=79  Identities=18%  Similarity=0.202  Sum_probs=71.1

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHH
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  102 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~  102 (469)
                      ..+-+++.++++.++|..|+....+|++++|....+|+.+|.+.++++.+                       .+|+.++
T Consensus        39 ~~~anRa~a~lK~e~~~~Al~Da~kaie~dP~~~K~Y~rrg~a~m~l~~~-----------------------~~A~~~l   95 (476)
T KOG0376|consen   39 IYFANRALAHLKVESFGGALHDALKAIELDPTYIKAYVRRGTAVMALGEF-----------------------KKALLDL   95 (476)
T ss_pred             eeechhhhhheeechhhhHHHHHHhhhhcCchhhheeeeccHHHHhHHHH-----------------------HHHHHHH
Confidence            34446778888999999999999999999999999999999999999999                       9999999


Q ss_pred             HHHhhccccchHHHHHHHHHHH
Q 012162          103 EKLLNLQSNSMKSHLLKANALI  124 (469)
Q Consensus       103 ~~al~l~p~~~~~~~~~g~~~~  124 (469)
                      +....+.|+.+++...+..+-.
T Consensus        96 ~~~~~l~Pnd~~~~r~~~Ec~~  117 (476)
T KOG0376|consen   96 EKVKKLAPNDPDATRKIDECNK  117 (476)
T ss_pred             HHhhhcCcCcHHHHHHHHHHHH
Confidence            9999999999998777766643

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=96.75  E-value=0.0074  Score=49.79  Aligned_cols=70  Identities=13%  Similarity=0.092  Sum_probs=59.7

Q ss_pred             hHHHHHHHHHHHhh-cccc-chHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhh
Q 012162           94 HAELALKDAEKLLN-LQSN-SMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  163 (469)
Q Consensus        94 ~~~~A~~~~~~al~-l~p~-~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~  163 (469)
                      ++.+.+..++..++ -.|. .-+..|.+|..++++|+|+.|+.+.+..|+.+|+|.++....+.+++++.+.
T Consensus        50 dv~~GI~iLe~l~~~~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~~e~~n~Qa~~Lk~~ied~itke  121 (149)
T KOG3364|consen   50 DVQEGIVILEDLLKSAHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLETEPNNRQALELKETIEDKITKE  121 (149)
T ss_pred             HHHHhHHHHHHHhhhcCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhc
Confidence            34889999999986 4443 3456788999999999999999999999999999999999988888887653

>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=96.72  E-value=0.0019  Score=39.96  Aligned_cols=34  Identities=18%  Similarity=0.312  Sum_probs=29.9

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD   55 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~   55 (469)
                      +..+...|..+...|++++|+..|+++++++|++
T Consensus         1 a~~~~~lg~~y~~~~~~~~A~~~~~~a~~~~~~n   34 (34)
T PF13181_consen    1 AEAYYNLGKIYEQLGDYEEALEYFEKALELNPDN   34 (34)
T ss_dssp             -HHHHHHHHHHHHTTSHHHHHHHHHHHHHHHTT-
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCC
Confidence            3568899999999999999999999999999853

...

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=96.71  E-value=0.00083  Score=65.57  Aligned_cols=50  Identities=34%  Similarity=0.664  Sum_probs=40.7

Q ss_pred             CCCCCccccccccccccccccE----EccCCCcccHHHHHHHcccCCCcccccccc
Q 012162          170 GTPERTDDFDCTLCLKLLYEPI----TTPCGHSFCRSCLFQSMDRGNKCPLCRAVL  221 (469)
Q Consensus       170 ~~~~~~~~~~C~ic~~~~~~p~----~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~  221 (469)
                      ......+.-+|++|++-|.+-+    ++.|.|+|...|+..|+.  .+||+||.-.
T Consensus       168 ~~~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~--~scpvcR~~q  221 (493)
T KOG0804|consen  168 PPTGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD--SSCPVCRYCQ  221 (493)
T ss_pred             CCCCcccCCCcchhHhhcCccccceeeeecccccchHHHhhccc--CcChhhhhhc
Confidence            3444556779999999998764    579999999999999974  4799999643

>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.69  E-value=0.00087  Score=64.91  Aligned_cols=47  Identities=28%  Similarity=0.803  Sum_probs=39.3

Q ss_pred             ccccccccccccccccE-----E---ccCCCcccHHHHHHHc--cc-----CCCcccccccc
Q 012162          175 TDDFDCTLCLKLLYEPI-----T---TPCGHSFCRSCLFQSM--DR-----GNKCPLCRAVL  221 (469)
Q Consensus       175 ~~~~~C~ic~~~~~~p~-----~---~~cgh~~C~~Ci~~~~--~~-----~~~CP~Cr~~~  221 (469)
                      ..+..|.||.+...+++     -   .+|.|+||..||..|-  .+     ...||.||...
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s  220 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS  220 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence            56779999999888876     3   5799999999999997  44     46799999865

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.68  E-value=0.0024  Score=59.63  Aligned_cols=97  Identities=20%  Similarity=0.283  Sum_probs=81.4

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      ..+....+.|...|+.|+|++|+..|+.|++...-++.+-+++|.|+++.++|                       +.|+
T Consensus       142 n~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyqpllAYniALaHy~~~qy-----------------------asAL  198 (459)
T KOG4340|consen  142 NEADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQPLLAYNLALAHYSSRQY-----------------------ASAL  198 (459)
T ss_pred             CccchhccchheeeccccHHHHHHHHHHHHhhcCCCchhHHHHHHHHHhhhhH-----------------------HHHH
Confidence            45677888999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhh----cccc-------------------------chHHHHHHHHHHHHHhHHHHHHHHHhcc
Q 012162          100 KDAEKLLN----LQSN-------------------------SMKSHLLKANALILLERYDMARDAILSG  139 (469)
Q Consensus       100 ~~~~~al~----l~p~-------------------------~~~~~~~~g~~~~~~~~~~~A~~~~~~a  139 (469)
                      +...+.++    -.|.                         -..++..++-++++.|+++.|.+.+...
T Consensus       199 k~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDm  267 (459)
T KOG4340|consen  199 KHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDM  267 (459)
T ss_pred             HHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcC
Confidence            88766654    2222                         2347777888899999999998876543

>KOG3824 consensus Huntingtin interacting protein HYPE [General function prediction only]

Probab=96.66  E-value=0.0041  Score=58.28  Aligned_cols=84  Identities=13%  Similarity=0.159  Sum_probs=70.6

Q ss_pred             hhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHH
Q 012162           17 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE   96 (469)
Q Consensus        17 ~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (469)
                      .....+......|....+.|+.++|...|.-|++++|+++.++...|...-..++.                       -
T Consensus       111 a~~kEA~~Al~~A~~~~~~Gk~ekA~~lfeHAlalaP~~p~~L~e~G~f~E~~~~i-----------------------v  167 (472)
T KOG3824|consen  111 AKVKEAILALKAAGRSRKDGKLEKAMTLFEHALALAPTNPQILIEMGQFREMHNEI-----------------------V  167 (472)
T ss_pred             hhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHhcCCCCHHHHHHHhHHHHhhhhh-----------------------H
Confidence            44455666667788888999999999999999999999999987777766666666                       7


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHH
Q 012162           97 LALKDAEKLLNLQSNSMKSHLLKANAL  123 (469)
Q Consensus        97 ~A~~~~~~al~l~p~~~~~~~~~g~~~  123 (469)
                      +|-..|-+|+.++|.+.+|+.+++...
T Consensus       168 ~ADq~Y~~ALtisP~nseALvnR~RT~  194 (472)
T KOG3824|consen  168 EADQCYVKALTISPGNSEALVNRARTT  194 (472)
T ss_pred             hhhhhhheeeeeCCCchHHHhhhhccc
Confidence            899999999999999999998887643

>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=96.65  E-value=0.0027  Score=65.73  Aligned_cols=71  Identities=17%  Similarity=0.122  Sum_probs=66.3

Q ss_pred             ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHH
Q 012162           57 IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAI  136 (469)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~  136 (469)
                      ++++.+|+.|...|++                       ++|+...++||+..|..++.|+.+|.+|...|++.+|..++
T Consensus       195 w~~~~lAqhyd~~g~~-----------------------~~Al~~Id~aI~htPt~~ely~~KarilKh~G~~~~Aa~~~  251 (517)
T PF12569_consen  195 WTLYFLAQHYDYLGDY-----------------------EKALEYIDKAIEHTPTLVELYMTKARILKHAGDLKEAAEAM  251 (517)
T ss_pred             HHHHHHHHHHHHhCCH-----------------------HHHHHHHHHHHhcCCCcHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            5668899999999999                       99999999999999999999999999999999999999999


Q ss_pred             hccccCCCCCchhH
Q 012162          137 LSGLQVDPFSNPLQ  150 (469)
Q Consensus       137 ~~al~~~p~~~~~~  150 (469)
                      +.|-.+|+.|--+.
T Consensus       252 ~~Ar~LD~~DRyiN  265 (517)
T PF12569_consen  252 DEARELDLADRYIN  265 (517)
T ss_pred             HHHHhCChhhHHHH
Confidence            99999999876543

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 [], [].

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=96.59  E-value=0.0023  Score=39.22  Aligned_cols=33  Identities=21%  Similarity=0.096  Sum_probs=30.6

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHhccccCCCCC
Q 012162          114 KSHLLKANALILLERYDMARDAILSGLQVDPFS  146 (469)
Q Consensus       114 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~  146 (469)
                      ++++.+|.++...|++++|+..|++.++..|++
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            478999999999999999999999999998874

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.54  E-value=0.0044  Score=60.30  Aligned_cols=98  Identities=17%  Similarity=0.115  Sum_probs=79.4

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCC----CC--CcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIK----PG--DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA   95 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~----p~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (469)
                      -.++.+.|+.+.-.|+|+.|+++|.+++.+.    ..  .+..-+.+|.+|.-+.++                       
T Consensus       235 RRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQscYSLgNtytll~e~-----------------------  291 (639)
T KOG1130|consen  235 RRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEV-----------------------  291 (639)
T ss_pred             HHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHH-----------------------
Confidence            4566678999999999999999999887552    22  234456789999999999                       


Q ss_pred             HHHHHHHHHHhhccc------cchHHHHHHHHHHHHHhHHHHHHHHHhccccC
Q 012162           96 ELALKDAEKLLNLQS------NSMKSHLLKANALILLERYDMARDAILSGLQV  142 (469)
Q Consensus        96 ~~A~~~~~~al~l~p------~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~  142 (469)
                      ++||.+..+-+.+.-      ....+++.+|.+|..+|..++|+...++.+++
T Consensus       292 ~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~~  344 (639)
T KOG1130|consen  292 QKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLRS  344 (639)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            999999988777642      34668999999999999999999888887665

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

Probab=96.50  E-value=0.007  Score=58.77  Aligned_cols=101  Identities=17%  Similarity=0.071  Sum_probs=68.9

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ..-....+..+..-|++++|.+....+++..-+.. +....  -..+.+++                       ..=++.
T Consensus       263 p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~-L~~~~--~~l~~~d~-----------------------~~l~k~  316 (400)
T COG3071         263 PELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR-LCRLI--PRLRPGDP-----------------------EPLIKA  316 (400)
T ss_pred             hhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh-HHHHH--hhcCCCCc-----------------------hHHHHH
Confidence            44445566777788888888888888887654322 11110  11223444                       556677


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCch
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  148 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~  148 (469)
                      +++.++..|+++..++.+|..+.+.+.|.+|..+|+.|++..|+...
T Consensus       317 ~e~~l~~h~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~  363 (400)
T COG3071         317 AEKWLKQHPEDPLLLSTLGRLALKNKLWGKASEALEAALKLRPSASD  363 (400)
T ss_pred             HHHHHHhCCCChhHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhh
Confidence            77888888888888888888888888888888888888887776543

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.49  E-value=0.026  Score=50.35  Aligned_cols=100  Identities=23%  Similarity=0.248  Sum_probs=57.8

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhH-HHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSS-AYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ..+...|......+++..|+..+.+++..++.+.......+. ++...+++                       +.|+..
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------------~~a~~~  152 (291)
T COG0457          96 EALLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLALGALYELGDY-----------------------EEALEL  152 (291)
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcchHHHHHHHHHHHHcCCH-----------------------HHHHHH
Confidence            344455555555566666666666666665555444444444 55566666                       666666


Q ss_pred             HHHHhhccc---cchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCC
Q 012162          102 AEKLLNLQS---NSMKSHLLKANALILLERYDMARDAILSGLQVDPF  145 (469)
Q Consensus       102 ~~~al~l~p---~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~  145 (469)
                      +.+++..+|   .....+...+..+...+++++|+..+.+++...+.
T Consensus       153 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~  199 (291)
T COG0457         153 YEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPD  199 (291)
T ss_pred             HHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcc
Confidence            666666555   34444555555555666666666666666666665

>smart00028 TPR Tetratricopeptide repeats

Probab=96.47  E-value=0.0042  Score=36.95  Aligned_cols=33  Identities=27%  Similarity=0.320  Sum_probs=30.4

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHhccccCCCCC
Q 012162          114 KSHLLKANALILLERYDMARDAILSGLQVDPFS  146 (469)
Q Consensus       114 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~  146 (469)
                      .+++.+|.++..+|++++|...|+++++++|++
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.

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.47  E-value=0.012  Score=55.03  Aligned_cols=108  Identities=21%  Similarity=0.212  Sum_probs=94.0

Q ss_pred             HHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccc
Q 012162           31 RAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQS  110 (469)
Q Consensus        31 ~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p  110 (469)
                      .+.+..+|..||.+..--.+.+|.+...+..+|.||+...+|                       ..|...+++.-.+.|
T Consensus        19 ~lI~d~ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~Q~f-----------------------~~AA~CYeQL~ql~P   75 (459)
T KOG4340|consen   19 RLIRDARYADAIQLLGSELERSPRSRAGLSLLGYCYYRLQEF-----------------------ALAAECYEQLGQLHP   75 (459)
T ss_pred             HHHHHhhHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHhhCh
Confidence            346778999999999999999999999999999999999999                       999999999999999


Q ss_pred             cchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhhhc
Q 012162          111 NSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIG  165 (469)
Q Consensus       111 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~  165 (469)
                      ...+..+..|+.+++.+.|.+|+.......    +++..++..-.++.+++....
T Consensus        76 ~~~qYrlY~AQSLY~A~i~ADALrV~~~~~----D~~~L~~~~lqLqaAIkYse~  126 (459)
T KOG4340|consen   76 ELEQYRLYQAQSLYKACIYADALRVAFLLL----DNPALHSRVLQLQAAIKYSEG  126 (459)
T ss_pred             HHHHHHHHHHHHHHHhcccHHHHHHHHHhc----CCHHHHHHHHHHHHHHhcccc
Confidence            999999999999999999999998776543    446677777777777766543

>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]

Probab=96.47  E-value=0.002  Score=60.48  Aligned_cols=47  Identities=28%  Similarity=0.569  Sum_probs=40.9

Q ss_pred             ccccccccccccccccEE-ccCCCcccHHHHHHHcccCCCcccccccc
Q 012162          175 TDDFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRGNKCPLCRAVL  221 (469)
Q Consensus       175 ~~~~~C~ic~~~~~~p~~-~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~  221 (469)
                      .+.-.|++|+....+|.. .-.|..||+.|+..+......||++..+.
T Consensus       298 ~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~  345 (357)
T KOG0826|consen  298 PDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA  345 (357)
T ss_pred             CccccChhHHhccCCCceEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence            345589999999999955 57899999999999999888999999876

>KOG2471 consensus TPR repeat-containing protein [General function prediction only]

Probab=96.40  E-value=0.0069  Score=60.22  Aligned_cols=112  Identities=15%  Similarity=0.051  Sum_probs=91.1

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHH-hcCCCC--------CcccccchhHHHHHHHhhhccCCCCCcccCccCCCCC
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRA-NNIKPG--------DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDP   91 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~a-l~~~p~--------~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (469)
                      .+..+..+++.+|-.|||.+|.+.+... +.-.|.        .-.+|+|+|.++++++.|                   
T Consensus       239 s~~~l~LKsq~eY~~gn~~kA~KlL~~sni~~~~g~~~T~q~~~cif~NNlGcIh~~~~~y-------------------  299 (696)
T KOG2471|consen  239 SSMALLLKSQLEYAHGNHPKAMKLLLVSNIHKEAGGTITPQLSSCIFNNNLGCIHYQLGCY-------------------  299 (696)
T ss_pred             CcHHHHHHHHHHHHhcchHHHHHHHHhcccccccCccccchhhhheeecCcceEeeehhhH-------------------
Confidence            3567778899999999999999987654 333333        236679999999999999                   


Q ss_pred             chhHHHHHHHHHHHhh------------------ccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHH
Q 012162           92 TTHAELALKDAEKLLN------------------LQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASL  153 (469)
Q Consensus        92 ~~~~~~A~~~~~~al~------------------l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~  153 (469)
                          ..+...|.+|++                  .........|+.|..|...|+.-.|.+.|.++...--.|+.++..+
T Consensus       300 ----~~~~~~F~kAL~N~c~qL~~g~~~~~~~tls~nks~eilYNcG~~~Lh~grPl~AfqCf~~av~vfh~nPrlWLRl  375 (696)
T KOG2471|consen  300 ----QASSVLFLKALRNSCSQLRNGLKPAKTFTLSQNKSMEILYNCGLLYLHSGRPLLAFQCFQKAVHVFHRNPRLWLRL  375 (696)
T ss_pred             ----HHHHHHHHHHHHHHHHHHhccCCCCcceehhcccchhhHHhhhHHHHhcCCcHHHHHHHHHHHHHHhcCcHHHHHH
Confidence                888888888885                  1234577899999999999999999999999999888888887766


Q ss_pred             HH
Q 012162          154 QN  155 (469)
Q Consensus       154 ~~  155 (469)
                      ..
T Consensus       376 AE  377 (696)
T KOG2471|consen  376 AE  377 (696)
T ss_pred             HH
Confidence            54

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=96.38  E-value=0.0011  Score=41.95  Aligned_cols=29  Identities=10%  Similarity=-0.038  Sum_probs=24.9

Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHhccccCC
Q 012162          115 SHLLKANALILLERYDMARDAILSGLQVD  143 (469)
Q Consensus       115 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~  143 (469)
                      +|..+|.+|...|+|++|+..|+++|.+.
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~l~   29 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALALA   29 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence            57899999999999999999999976553

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

Probab=96.36  E-value=0.016  Score=58.96  Aligned_cols=104  Identities=17%  Similarity=0.194  Sum_probs=82.7

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCCCC-------------------------------CcccccchhHHHHHHHh
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIKPG-------------------------------DPIVLGNRSSAYIRISQ   71 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~-------------------------------~~~~~~~~a~~~~~~~~   71 (469)
                      ..+..+|..+++.|+|++|...|+..++.+-+                               ..+.++|.|.++...|+
T Consensus       111 ~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~v~~v~e~syel~yN~Ac~~i~~gk  190 (652)
T KOG2376|consen  111 KLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQSVPEVPEDSYELLYNTACILIENGK  190 (652)
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHhccCCCcchHHHHHHHHHHHHhccc
Confidence            35667899999999999999999887554332                               23677889999999999


Q ss_pred             hhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhc-------cccc--------hHHHHHHHHHHHHHhHHHHHHHHH
Q 012162           72 FLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNL-------QSNS--------MKSHLLKANALILLERYDMARDAI  136 (469)
Q Consensus        72 ~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l-------~p~~--------~~~~~~~g~~~~~~~~~~~A~~~~  136 (469)
                      |                       .+|++.+++|+++       +..+        .-....++.++..+|+-++|...|
T Consensus       191 y-----------------------~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy  247 (652)
T KOG2376|consen  191 Y-----------------------NQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIY  247 (652)
T ss_pred             H-----------------------HHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHH
Confidence            9                       9999999888432       1111        235678899999999999999999


Q ss_pred             hccccCCCCCchh
Q 012162          137 LSGLQVDPFSNPL  149 (469)
Q Consensus       137 ~~al~~~p~~~~~  149 (469)
                      ...++.+|.|...
T Consensus       248 ~~~i~~~~~D~~~  260 (652)
T KOG2376|consen  248 VDIIKRNPADEPS  260 (652)
T ss_pred             HHHHHhcCCCchH
Confidence            9999999987643

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

Probab=96.35  E-value=0.022  Score=54.23  Aligned_cols=72  Identities=15%  Similarity=0.207  Sum_probs=64.3

Q ss_pred             hhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHH
Q 012162           17 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE   96 (469)
Q Consensus        17 ~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (469)
                      +..-++--|.++|.+.+.-|||..|+...++|+.++|++..+++.-|.|++.++++                       .
T Consensus       114 D~dlnavLY~NRAAa~~~l~NyRs~l~Dcs~al~~~P~h~Ka~~R~Akc~~eLe~~-----------------------~  170 (390)
T KOG0551|consen  114 DPDLNAVLYTNRAAAQLYLGNYRSALNDCSAALKLKPTHLKAYIRGAKCLLELERF-----------------------A  170 (390)
T ss_pred             CccHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhcCcchhhhhhhhhHHHHHHHHH-----------------------H
Confidence            34445777889999999999999999999999999999999999999999999999                       9


Q ss_pred             HHHHHHHHHhhcccc
Q 012162           97 LALKDAEKLLNLQSN  111 (469)
Q Consensus        97 ~A~~~~~~al~l~p~  111 (469)
                      +|...++..+.++-.
T Consensus       171 ~a~nw~ee~~~~d~e  185 (390)
T KOG0551|consen  171 EAVNWCEEGLQIDDE  185 (390)
T ss_pred             HHHHHHhhhhhhhHH
Confidence            999999998766543

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.30  E-value=0.012  Score=62.24  Aligned_cols=43  Identities=37%  Similarity=0.775  Sum_probs=36.2

Q ss_pred             cccccccccccccccEE-ccCCCcccHHHHHHHcccCCCcccccccc
Q 012162          176 DDFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRGNKCPLCRAVL  221 (469)
Q Consensus       176 ~~~~C~ic~~~~~~p~~-~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~  221 (469)
                      ..-.|..|.-.+.-|++ +.|||+|...|++   +....||.|+-..
T Consensus       839 q~skCs~C~~~LdlP~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~  882 (933)
T KOG2114|consen  839 QVSKCSACEGTLDLPFVHFLCGHSYHQHCLE---DKEDKCPKCLPEL  882 (933)
T ss_pred             eeeeecccCCccccceeeeecccHHHHHhhc---cCcccCCccchhh
Confidence            44689999999999955 8999999999998   5556899998643

>PRK10941 hypothetical protein; Provisional

Probab=96.25  E-value=0.0081  Score=56.83  Aligned_cols=76  Identities=17%  Similarity=0.117  Sum_probs=65.9

Q ss_pred             cccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHh
Q 012162           58 VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAIL  137 (469)
Q Consensus        58 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~  137 (469)
                      .+.++=.+|.+.+++                       +.|+...+..+.++|+++.-+.-+|.+|.++|.+..|+.+++
T Consensus       183 ml~nLK~~~~~~~~~-----------------------~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~~~A~~DL~  239 (269)
T PRK10941        183 LLDTLKAALMEEKQM-----------------------ELALRASEALLQFDPEDPYEIRDRGLIYAQLDCEHVALSDLS  239 (269)
T ss_pred             HHHHHHHHHHHcCcH-----------------------HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHH
Confidence            344555678888888                       999999999999999999999999999999999999999999


Q ss_pred             ccccCCCCCchhHHHHHHH
Q 012162          138 SGLQVDPFSNPLQASLQNL  156 (469)
Q Consensus       138 ~al~~~p~~~~~~~~~~~~  156 (469)
                      ..++..|+++.+......+
T Consensus       240 ~fl~~~P~dp~a~~ik~ql  258 (269)
T PRK10941        240 YFVEQCPEDPISEMIRAQI  258 (269)
T ss_pred             HHHHhCCCchhHHHHHHHH
Confidence            9999999998875443333

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.21  E-value=0.022  Score=50.85  Aligned_cols=92  Identities=23%  Similarity=0.296  Sum_probs=75.0

Q ss_pred             HHHHhccHHHHHHHHHHHhcCCC---CCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhh
Q 012162           31 RAFRESNFEEAISNYSRANNIKP---GDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLN  107 (469)
Q Consensus        31 ~~~~~~~~~~A~~~y~~al~~~p---~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~  107 (469)
                      .++..|+++.|+..|.+++..+|   .....+..++..+...+++                       ..|+..+.+++.
T Consensus       139 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------------~~a~~~~~~~~~  195 (291)
T COG0457         139 ALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRY-----------------------EEALELLEKALK  195 (291)
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCH-----------------------HHHHHHHHHHHh
Confidence            78888888888888888888777   3445556666666777788                       888888888888


Q ss_pred             cccc-chHHHHHHHHHHHHHhHHHHHHHHHhccccCCCC
Q 012162          108 LQSN-SMKSHLLKANALILLERYDMARDAILSGLQVDPF  145 (469)
Q Consensus       108 l~p~-~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~  145 (469)
                      ..+. ...++..++..+...++++.|+..+..++...|.
T Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~  234 (291)
T COG0457         196 LNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPD  234 (291)
T ss_pred             hCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcc
Confidence            8888 6888888888888888888888888888888886

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=96.21  E-value=0.031  Score=53.64  Aligned_cols=113  Identities=18%  Similarity=0.019  Sum_probs=85.0

Q ss_pred             HHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHH-HhhhccCCCCCcccCccCCCCCchhHHHHHHHHH
Q 012162           25 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRI-SQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  103 (469)
Q Consensus        25 ~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~  103 (469)
                      |....+...+.+..+.|...|.+|.+-.+....+|...|..-+.. ++.                       ..|...|+
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            445556666667799999999999977666777777777765553 444                       56999999


Q ss_pred             HHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCc---hhHHHHHHHHHhh
Q 012162          104 KLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN---PLQASLQNLERTT  160 (469)
Q Consensus       104 ~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~---~~~~~~~~~~~~~  160 (469)
                      .+++.-|.+...|......+...|+.+.|...|++++..-|...   .++...-..|...
T Consensus        61 ~glk~f~~~~~~~~~Y~~~l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~  120 (280)
T PF05843_consen   61 RGLKKFPSDPDFWLEYLDFLIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKY  120 (280)
T ss_dssp             HHHHHHTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999877655   3444444444433

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.

>KOG4367 consensus Predicted Zn-finger protein [Function unknown]

Probab=96.16  E-value=0.0028  Score=61.47  Aligned_cols=36  Identities=28%  Similarity=0.850  Sum_probs=32.1

Q ss_pred             ccccccccccccccccEEccCCCcccHHHHHHHccc
Q 012162          175 TDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR  210 (469)
Q Consensus       175 ~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~  210 (469)
                      ++++.|++|...|.+|++++|||+.|+.|....+..
T Consensus         2 eeelkc~vc~~f~~epiil~c~h~lc~~ca~~~~~~   37 (699)
T KOG4367|consen    2 EEELKCPVCGSFYREPIILPCSHNLCQACARNILVQ   37 (699)
T ss_pred             cccccCceehhhccCceEeecccHHHHHHHHhhccc
Confidence            467899999999999999999999999999866554

>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=96.13  E-value=0.015  Score=61.36  Aligned_cols=122  Identities=21%  Similarity=0.349  Sum_probs=106.2

Q ss_pred             hhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC----cccccchhHHHHHH--HhhhccCCCCCcccCccCCCCCc
Q 012162           19 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD----PIVLGNRSSAYIRI--SQFLKHRPPSASEYRPLNGLDPT   92 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~----~~~~~~~a~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~   92 (469)
                      ...+..+..+|+..+++++|.+|.--|..++.+-|.+    +..+.+.+.+|+.+  ++|                    
T Consensus        50 l~ra~~~~~E~n~~~~K~d~~~~~~~~~~~~~llp~~~~~~a~~~~~~~s~~m~~~l~~~--------------------  109 (748)
T KOG4151|consen   50 LSRALELKEEGNKLFQKRDYEGAMFRYDCAIKLLPKDHHVVATLRSNQASCYMQLGLGEY--------------------  109 (748)
T ss_pred             HHHHHHHHhhhhHHhhhhhhhccchhhhhhheeccccchhhhhHHHHHHHHHhhcCccch--------------------
Confidence            3457788899999999999999999999999998854    35667777777765  677                    


Q ss_pred             hhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhh
Q 012162           93 THAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  163 (469)
Q Consensus        93 ~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~  163 (469)
                         ..++.++.-|+...|....+++.++..|..+++++-|+....-....+|.+..+..-..+++..+...
T Consensus       110 ---~~~~~E~~la~~~~p~i~~~Ll~r~~~y~al~k~d~a~rdl~i~~~~~p~~~~~~eif~elk~ll~~~  177 (748)
T KOG4151|consen  110 ---PKAIPECELALESQPRISKALLKRARKYEALNKLDLAVRDLRIVEKMDPSNVSASEIFEELKGLLELK  177 (748)
T ss_pred             ---hhhcCchhhhhhccchHHHHHhhhhhHHHHHHHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHHHhhc
Confidence               89999999999999999999999999999999999999999999999999998888777777777443

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.10  E-value=0.031  Score=49.35  Aligned_cols=100  Identities=14%  Similarity=0.144  Sum_probs=77.4

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC---cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA   98 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A   98 (469)
                      +......+..++..|++++|+..+..++....+.   +.+-.++|.+.+..|.+                       ++|
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            4556678889999999999999999999764442   24556788889999999                       888


Q ss_pred             HHHHHHHhhccccch-HHHHHHHHHHHHHhHHHHHHHHHhccccCCCCC
Q 012162           99 LKDAEKLLNLQSNSM-KSHLLKANALILLERYDMARDAILSGLQVDPFS  146 (469)
Q Consensus        99 ~~~~~~al~l~p~~~-~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~  146 (469)
                      +..++....  +++. ...-.+|.++...|+-++|+..|++|++.++++
T Consensus       146 L~~L~t~~~--~~w~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~~s~  192 (207)
T COG2976         146 LKTLDTIKE--ESWAAIVAELRGDILLAKGDKQEARAAYEKALESDASP  192 (207)
T ss_pred             HHHHhcccc--ccHHHHHHHHhhhHHHHcCchHHHHHHHHHHHHccCCh
Confidence            887765432  2222 224568999999999999999999999987443

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

Probab=96.09  E-value=0.045  Score=53.34  Aligned_cols=121  Identities=13%  Similarity=0.080  Sum_probs=100.7

Q ss_pred             hhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHH
Q 012162           18 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL   97 (469)
Q Consensus        18 ~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (469)
                      +..++......|..-+..|+|.+|.....++-+..+....+|..-|.+--++|++                       +.
T Consensus        80 Krrra~~~~~egl~~l~eG~~~qAEkl~~rnae~~e~p~l~~l~aA~AA~qrgd~-----------------------~~  136 (400)
T COG3071          80 KRRRARKALNEGLLKLFEGDFQQAEKLLRRNAEHGEQPVLAYLLAAEAAQQRGDE-----------------------DR  136 (400)
T ss_pred             HHHHHHHHHHHHHHHHhcCcHHHHHHHHHHhhhcCcchHHHHHHHHHHHHhcccH-----------------------HH
Confidence            4456777888899999999999999999998888877777777778888889999                       99


Q ss_pred             HHHHHHHHhhcccc-chHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhh
Q 012162           98 ALKDAEKLLNLQSN-SMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  161 (469)
Q Consensus        98 A~~~~~~al~l~p~-~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~  161 (469)
                      |-.+..++-++.++ .-..+..++..+...|+|+.|..-..++++..|.++........+--.++
T Consensus       137 an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v~~ll~~~pr~~~vlrLa~r~y~~~g  201 (400)
T COG3071         137 ANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENVDQLLEMTPRHPEVLRLALRAYIRLG  201 (400)
T ss_pred             HHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHHHHHHHhCcCChHHHHHHHHHHHHhc
Confidence            99999999999443 34567788999999999999999999999999999987766555444443

>PRK10941 hypothetical protein; Provisional

Probab=96.07  E-value=0.022  Score=53.95  Aligned_cols=75  Identities=17%  Similarity=0.219  Sum_probs=67.7

Q ss_pred             HHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHH
Q 012162           26 VQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKL  105 (469)
Q Consensus        26 ~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a  105 (469)
                      .+.-..+.+.++|+.|+...+..+.++|+++.-+..||.+|.++|.+                       ..|..+++..
T Consensus       185 ~nLK~~~~~~~~~~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~-----------------------~~A~~DL~~f  241 (269)
T PRK10941        185 DTLKAALMEEKQMELALRASEALLQFDPEDPYEIRDRGLIYAQLDCE-----------------------HVALSDLSYF  241 (269)
T ss_pred             HHHHHHHHHcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCc-----------------------HHHHHHHHHH
Confidence            34456778999999999999999999999999999999999999999                       9999999999


Q ss_pred             hhccccchHHHHHHHHHH
Q 012162          106 LNLQSNSMKSHLLKANAL  123 (469)
Q Consensus       106 l~l~p~~~~~~~~~g~~~  123 (469)
                      ++..|+++.+...+.++.
T Consensus       242 l~~~P~dp~a~~ik~ql~  259 (269)
T PRK10941        242 VEQCPEDPISEMIRAQIH  259 (269)
T ss_pred             HHhCCCchhHHHHHHHHH
Confidence            999999999877766554

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.02  E-value=0.03  Score=51.63  Aligned_cols=102  Identities=18%  Similarity=0.172  Sum_probs=85.4

Q ss_pred             HHHHhHHHHHHhccHHHHHHHHHHHh----cCCC--CCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHH
Q 012162           24 DLVQKGNRAFRESNFEEAISNYSRAN----NIKP--GDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL   97 (469)
Q Consensus        24 ~~~~~g~~~~~~~~~~~A~~~y~~al----~~~p--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (469)
                      -....|...++.||-+.|-.+|++.-    +++.  .+-..+.+.+.+|...++|                       ..
T Consensus       214 L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~-----------------------a~  270 (366)
T KOG2796|consen  214 LLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNF-----------------------AE  270 (366)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhheecccch-----------------------HH
Confidence            34467888999999999999999443    3322  2335566777788888899                       99


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCch
Q 012162           98 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  148 (469)
Q Consensus        98 A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~  148 (469)
                      |...+.+.+..||.++.+-.++|.++.-+|+..+|++..+.++...|....
T Consensus       271 a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~~~l  321 (366)
T KOG2796|consen  271 AHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDPRHYL  321 (366)
T ss_pred             HHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCCccch
Confidence            999999999999999999999999999999999999999999999997543

>COG4976 Predicted methyltransferase (contains TPR repeat) [General function prediction only]

Probab=96.02  E-value=0.0055  Score=55.21  Aligned_cols=53  Identities=19%  Similarity=0.107  Sum_probs=50.7

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCch
Q 012162           96 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  148 (469)
Q Consensus        96 ~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~  148 (469)
                      +.|.+.+.+++.+-|.+...|+++|....+.|+++.|.+.|++.++++|.+..
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            88999999999999999999999999999999999999999999999998754

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.97  E-value=0.035  Score=52.92  Aligned_cols=110  Identities=15%  Similarity=0.052  Sum_probs=88.6

Q ss_pred             HHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHH
Q 012162           26 VQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKL  105 (469)
Q Consensus        26 ~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a  105 (469)
                      ...+...+.+|++.+|....++.++-.|.+..++..--.+++.+|+.                       ......+++.
T Consensus       107 h~~aai~~~~g~~h~a~~~wdklL~d~PtDlla~kfsh~a~fy~G~~-----------------------~~~k~ai~kI  163 (491)
T KOG2610|consen  107 HAKAAILWGRGKHHEAAIEWDKLLDDYPTDLLAVKFSHDAHFYNGNQ-----------------------IGKKNAIEKI  163 (491)
T ss_pred             hhhHHHhhccccccHHHHHHHHHHHhCchhhhhhhhhhhHHHhccch-----------------------hhhhhHHHHh
Confidence            34455677889999999999999999999998888777888889988                       7777788888


Q ss_pred             hhc-cccchHHHH---HHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHH
Q 012162          106 LNL-QSNSMKSHL---LKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  158 (469)
Q Consensus       106 l~l-~p~~~~~~~---~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~  158 (469)
                      +-. +|+.|-.-|   ..+..+...|-|++|.+.-++|+++||+|.-+...+..+-+
T Consensus       164 ip~wn~dlp~~sYv~GmyaFgL~E~g~y~dAEk~A~ralqiN~~D~Wa~Ha~aHVle  220 (491)
T KOG2610|consen  164 IPKWNADLPCYSYVHGMYAFGLEECGIYDDAEKQADRALQINRFDCWASHAKAHVLE  220 (491)
T ss_pred             ccccCCCCcHHHHHHHHHHhhHHHhccchhHHHHHHhhccCCCcchHHHHHHHHHHH
Confidence            876 776644333   35566789999999999999999999999887766655544

>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=95.93  E-value=0.0044  Score=60.02  Aligned_cols=65  Identities=23%  Similarity=0.546  Sum_probs=49.0

Q ss_pred             ccccccccccccc------cEEccCCCcccHHHHHHHcccCC-CccccccccccC---CCcccCcccHHHHHHHh
Q 012162          177 DFDCTLCLKLLYE------PITTPCGHSFCRSCLFQSMDRGN-KCPLCRAVLFIT---PRTCAVSVTLNSIIQKN  241 (469)
Q Consensus       177 ~~~C~ic~~~~~~------p~~~~cgh~~C~~Ci~~~~~~~~-~CP~Cr~~~~~~---~~~~~~~~~l~~~~~~~  241 (469)
                      ...|.+|.+.+++      |..+.|||++|..|+.+....+. .||.||.+....   .+.+..|..+..+++..
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~~~~~~~~~~l~kNf~ll~~~~~~   77 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETTEIPDGDVKSLQKNFALLQAIEHM   77 (296)
T ss_pred             CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcccCCchhHhhhhhhHHHHHHHHHH
Confidence            3578888876653      67788999999999999887765 699999985221   24567777777777664

>KOG0825 consensus PHD Zn-finger protein [General function prediction only]

Probab=95.93  E-value=0.0018  Score=67.17  Aligned_cols=46  Identities=24%  Similarity=0.527  Sum_probs=38.0

Q ss_pred             cccccccccccccccEE---ccCCCcccHHHHHHHcccCCCcccccccc
Q 012162          176 DDFDCTLCLKLLYEPIT---TPCGHSFCRSCLFQSMDRGNKCPLCRAVL  221 (469)
Q Consensus       176 ~~~~C~ic~~~~~~p~~---~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~  221 (469)
                      ..-.|++|+..+.+-..   .+|+|-||..||..|......||+||..+
T Consensus       122 ~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF  170 (1134)
T KOG0825|consen  122 VENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEF  170 (1134)
T ss_pred             hhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhh
Confidence            34478888877766532   58999999999999998888999999987

>KOG3824 consensus Huntingtin interacting protein HYPE [General function prediction only]

Probab=95.93  E-value=0.029  Score=52.79  Aligned_cols=58  Identities=14%  Similarity=0.059  Sum_probs=54.4

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHH
Q 012162           96 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASL  153 (469)
Q Consensus        96 ~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~  153 (469)
                      ++|...++.|+.++|+++.++...|......++.-+|=.+|-+||.++|.|.++.-..
T Consensus       133 ekA~~lfeHAlalaP~~p~~L~e~G~f~E~~~~iv~ADq~Y~~ALtisP~nseALvnR  190 (472)
T KOG3824|consen  133 EKAMTLFEHALALAPTNPQILIEMGQFREMHNEIVEADQCYVKALTISPGNSEALVNR  190 (472)
T ss_pred             HHHHHHHHHHHhcCCCCHHHHHHHhHHHHhhhhhHhhhhhhheeeeeCCCchHHHhhh
Confidence            9999999999999999999999999999999999999999999999999998876443

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=95.90  E-value=0.02  Score=61.04  Aligned_cols=93  Identities=18%  Similarity=0.127  Sum_probs=83.0

Q ss_pred             HHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhcc
Q 012162           30 NRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQ  109 (469)
Q Consensus        30 ~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~  109 (469)
                      -.....++|.+|+...++.++-.|+.+.+....|..+.++|++                       ++|...++..-...
T Consensus        17 ~d~ld~~qfkkal~~~~kllkk~Pn~~~a~vLkaLsl~r~gk~-----------------------~ea~~~Le~~~~~~   73 (932)
T KOG2053|consen   17 YDLLDSSQFKKALAKLGKLLKKHPNALYAKVLKALSLFRLGKG-----------------------DEALKLLEALYGLK   73 (932)
T ss_pred             HHHhhhHHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHhcCc-----------------------hhHHHHHhhhccCC
Confidence            3456778999999999999999999998888899999999999                       99997777777777


Q ss_pred             ccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCC
Q 012162          110 SNSMKSHLLKANALILLERYDMARDAILSGLQVDPF  145 (469)
Q Consensus       110 p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~  145 (469)
                      +++...+-.+-.+|..+|++++|...|+++...+|+
T Consensus        74 ~~D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~~P~  109 (932)
T KOG2053|consen   74 GTDDLTLQFLQNVYRDLGKLDEAVHLYERANQKYPS  109 (932)
T ss_pred             CCchHHHHHHHHHHHHHhhhhHHHHHHHHHHhhCCc
Confidence            888888899999999999999999999999999998

>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B

Probab=95.79  E-value=0.04  Score=42.89  Aligned_cols=66  Identities=17%  Similarity=0.189  Sum_probs=51.3

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCC--chhHHHHHHHHHhhh
Q 012162           96 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS--NPLQASLQNLERTTA  161 (469)
Q Consensus        96 ~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~--~~~~~~~~~~~~~~~  161 (469)
                      ...+..+++.++.+|++..+.+.+|..+...|++++|++.+-..++.++++  ..++..+-.+=+.++
T Consensus         5 ~~~~~al~~~~a~~P~D~~ar~~lA~~~~~~g~~e~Al~~Ll~~v~~dr~~~~~~ar~~ll~~f~~lg   72 (90)
T PF14561_consen    5 APDIAALEAALAANPDDLDARYALADALLAAGDYEEALDQLLELVRRDRDYEDDAARKRLLDIFELLG   72 (90)
T ss_dssp             -HHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHCC-TTCCCCHHHHHHHHHHHHH-
T ss_pred             cccHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccccccHHHHHHHHHHHHcC
Confidence            345678899999999999999999999999999999999999999999876  456555555544444

>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=95.79  E-value=0.0036  Score=61.75  Aligned_cols=48  Identities=40%  Similarity=0.788  Sum_probs=36.6

Q ss_pred             Cccccccccccccccc-----------------cEEccCCCcccHHHHHHHcc-cCCCcccccccc
Q 012162          174 RTDDFDCTLCLKLLYE-----------------PITTPCGHSFCRSCLFQSMD-RGNKCPLCRAVL  221 (469)
Q Consensus       174 ~~~~~~C~ic~~~~~~-----------------p~~~~cgh~~C~~Ci~~~~~-~~~~CP~Cr~~~  221 (469)
                      .+....|.||.....-                 =..+||.|.|.+.|+.+|.+ .+-.||+||.++
T Consensus       568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pL  633 (636)
T KOG0828|consen  568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPL  633 (636)
T ss_pred             hhccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCC
Confidence            4455689999864321                 12369999999999999998 444899999986

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

Probab=95.78  E-value=0.048  Score=49.78  Aligned_cols=75  Identities=16%  Similarity=0.112  Sum_probs=66.3

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ...+.+....++..|+|-+++++-+..+..+|+|..+|+.||.++...=+.                       ++|..+
T Consensus       230 tpLllNy~QC~L~~~e~yevleh~seiL~~~~~nvKA~frRakAhaa~Wn~-----------------------~eA~~D  286 (329)
T KOG0545|consen  230 TPLLLNYCQCLLKKEEYYEVLEHCSEILRHHPGNVKAYFRRAKAHAAVWNE-----------------------AEAKAD  286 (329)
T ss_pred             hHHHHhHHHHHhhHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhhcCH-----------------------HHHHHH
Confidence            455678889999999999999999999999999999999999999777676                       999999


Q ss_pred             HHHHhhccccchHHHHHH
Q 012162          102 AEKLLNLQSNSMKSHLLK  119 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~  119 (469)
                      +.++++++|.-..+..+-
T Consensus       287 ~~~vL~ldpslasvVsrE  304 (329)
T KOG0545|consen  287 LQKVLELDPSLASVVSRE  304 (329)
T ss_pred             HHHHHhcChhhHHHHHHH
Confidence            999999999876665443

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

Probab=95.75  E-value=0.091  Score=48.61  Aligned_cols=125  Identities=15%  Similarity=0.126  Sum_probs=92.2

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcc---cccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPI---VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      ......+.++++.++|+.|+...++-+++.|+++.   +++-+|.+++..-+.              ..+|+ ..+..|+
T Consensus        72 qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs~~~~i~~--------------~~rDq-~~~~~A~  136 (254)
T COG4105          72 QAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLSYFFQIDD--------------VTRDQ-SAARAAF  136 (254)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhccCCc--------------cccCH-HHHHHHH
Confidence            45677899999999999999999999999999874   344445553322221              12222 3347899


Q ss_pred             HHHHHHhhccccchH---------------HH--HHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhh
Q 012162          100 KDAEKLLNLQSNSMK---------------SH--LLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus       100 ~~~~~al~l~p~~~~---------------~~--~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                      ..++..++.-|++.-               +.  ...|..|.+.|.|..|+.-++..++--|+-....+.+..+.+....
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            999999999888633               11  2346668889999999999999999988888888888777765443

>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=95.73  E-value=0.0038  Score=57.57  Aligned_cols=41  Identities=29%  Similarity=0.780  Sum_probs=34.9

Q ss_pred             ccccccccccccccEEccCCCc-ccHHHHHHHcccCCCcccccccc
Q 012162          177 DFDCTLCLKLLYEPITTPCGHS-FCRSCLFQSMDRGNKCPLCRAVL  221 (469)
Q Consensus       177 ~~~C~ic~~~~~~p~~~~cgh~-~C~~Ci~~~~~~~~~CP~Cr~~~  221 (469)
                      ...|.||++.-.+-+-++|||. -|..|-...    ..||+||+.+
T Consensus       300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkrm----~eCPICRqyi  341 (350)
T KOG4275|consen  300 RRLCAICMDAPRDCVFLECGHMVTCTKCGKRM----NECPICRQYI  341 (350)
T ss_pred             HHHHHHHhcCCcceEEeecCcEEeehhhcccc----ccCchHHHHH
Confidence            6689999999999999999998 788885433    3899999876

>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=95.68  E-value=0.0085  Score=55.53  Aligned_cols=44  Identities=32%  Similarity=0.805  Sum_probs=35.0

Q ss_pred             ccccccc-cccccE----EccCCCcccHHHHHHHcccCC-Cccccccccc
Q 012162          179 DCTLCLK-LLYEPI----TTPCGHSFCRSCLFQSMDRGN-KCPLCRAVLF  222 (469)
Q Consensus       179 ~C~ic~~-~~~~p~----~~~cgh~~C~~Ci~~~~~~~~-~CP~Cr~~~~  222 (469)
                      .||.|.- .+.+|-    +.+|||+.|.+|....+..+. .||.|...+.
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            4888873 566772    349999999999999887665 7999998874

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=95.63  E-value=0.013  Score=36.93  Aligned_cols=29  Identities=24%  Similarity=0.359  Sum_probs=24.1

Q ss_pred             HHHHhHHHHHHhccHHHHHHHHHHHhcCC
Q 012162           24 DLVQKGNRAFRESNFEEAISNYSRANNIK   52 (469)
Q Consensus        24 ~~~~~g~~~~~~~~~~~A~~~y~~al~~~   52 (469)
                      ++...|..+.+.|+|++|+.+|++++.+.
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~l~   29 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALALA   29 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence            36788999999999999999999976543

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

Probab=95.59  E-value=0.032  Score=60.96  Aligned_cols=100  Identities=7%  Similarity=-0.050  Sum_probs=51.4

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC--cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGD--PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ..+......+.+.|+.++|...|+...+..+-.  ...|..+..+|.+.|++                       ++|.+
T Consensus       427 ~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~-----------------------~eA~~  483 (697)
T PLN03081        427 VTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLL-----------------------DEAYA  483 (697)
T ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCH-----------------------HHHHH
Confidence            334445556666666666666666665432222  23455555566666665                       55555


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCc
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  147 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~  147 (469)
                      .+++. ...|+ ...|..+..++...|+++.|...+++.++++|++.
T Consensus       484 ~~~~~-~~~p~-~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~  528 (697)
T PLN03081        484 MIRRA-PFKPT-VNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKL  528 (697)
T ss_pred             HHHHC-CCCCC-HHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCC
Confidence            44432 12222 23444555555555555555555555555555543

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.56  E-value=0.11  Score=48.08  Aligned_cols=66  Identities=20%  Similarity=0.054  Sum_probs=52.8

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhh
Q 012162           96 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  161 (469)
Q Consensus        96 ~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~  161 (469)
                      ..|.-.|+..-+.-|..+......|.+...+|+|++|...++.||..++++++...++-.+-..++
T Consensus       190 qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~Nliv~a~~~G  255 (299)
T KOG3081|consen  190 QDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLANLIVLALHLG  255 (299)
T ss_pred             hhHHHHHHHHhcccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhC
Confidence            677777777777666677888889999999999999999999999999999887766655444433

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=95.53  E-value=0.0052  Score=42.05  Aligned_cols=45  Identities=29%  Similarity=0.687  Sum_probs=35.1

Q ss_pred             cccccccccccccccEEccCCCcccHHHHHHHcccCCCccccccccc
Q 012162          176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  222 (469)
Q Consensus       176 ~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~  222 (469)
                      ....|-+|...-...+.+||||..|+.|....  +-+-||.|..++.
T Consensus         6 ~~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~   50 (55)
T PF14447_consen    6 PEQPCVFCGFVGTKGTVLPCGHLICDNCFPGE--RYNGCPFCGTPFE   50 (55)
T ss_pred             cceeEEEccccccccccccccceeeccccChh--hccCCCCCCCccc
Confidence            34567788877778889999999999996432  3446999999874

>smart00028 TPR Tetratricopeptide repeats

Probab=95.51  E-value=0.025  Score=33.34  Aligned_cols=33  Identities=24%  Similarity=0.499  Sum_probs=29.3

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGD   55 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~   55 (469)
                      ..+...|..++..|++++|+..|+++++++|++
T Consensus         2 ~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~~   34 (34)
T smart00028        2 EALYNLGNAYLKLGDYDEALEYYEKALELDPNN   34 (34)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCC
Confidence            356788999999999999999999999998863

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.

>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=95.48  E-value=0.015  Score=53.16  Aligned_cols=48  Identities=21%  Similarity=0.485  Sum_probs=38.0

Q ss_pred             cccccccccccccccc----------EEccCCCcccHHHHHHHcc--cCCCccccccccc
Q 012162          175 TDDFDCTLCLKLLYEP----------ITTPCGHSFCRSCLFQSMD--RGNKCPLCRAVLF  222 (469)
Q Consensus       175 ~~~~~C~ic~~~~~~p----------~~~~cgh~~C~~Ci~~~~~--~~~~CP~Cr~~~~  222 (469)
                      -++-.|.+|.+.+...          ..++|+|.|...||..|--  ...+||-|.+.+.
T Consensus       222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVd  281 (328)
T KOG1734|consen  222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD  281 (328)
T ss_pred             CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence            3556799999766543          4689999999999999964  4458999998873

>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=95.45  E-value=0.0093  Score=57.12  Aligned_cols=47  Identities=32%  Similarity=0.709  Sum_probs=35.8

Q ss_pred             CCccccccccccccccccEEccCCCcccHHHHHHHcccCCCccccccccc
Q 012162          173 ERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  222 (469)
Q Consensus       173 ~~~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~  222 (469)
                      .......|.+|++..++.+-+||||.-|  |..-.. +...||+||+.+.
T Consensus       301 ~~~~p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs~-~l~~CPvCR~rI~  347 (355)
T KOG1571|consen  301 ELPQPDLCVVCLDEPKSAVFVPCGHVCC--CTLCSK-HLPQCPVCRQRIR  347 (355)
T ss_pred             ccCCCCceEEecCCccceeeecCCcEEE--chHHHh-hCCCCchhHHHHH
Confidence            3445568999999999988999999977  754332 3345999998763

>PLN03077 Protein ECB2; Provisional

Probab=95.41  E-value=0.064  Score=60.04  Aligned_cols=43  Identities=21%  Similarity=0.217  Sum_probs=32.6

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhc
Q 012162           96 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILS  138 (469)
Q Consensus        96 ~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~  138 (469)
                      +.|...++++++++|+++..|..++++|...|++++|....+.
T Consensus       674 e~~e~~a~~l~~l~p~~~~~y~ll~n~ya~~g~~~~a~~vr~~  716 (857)
T PLN03077        674 ELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKT  716 (857)
T ss_pred             HHHHHHHHHHHhhCCCCcchHHHHHHHHHHCCChHHHHHHHHH
Confidence            5666667777788888888888888888888888887776644

>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=95.40  E-value=0.0097  Score=63.24  Aligned_cols=48  Identities=27%  Similarity=0.769  Sum_probs=37.1

Q ss_pred             Cccccccccccccccc-----c--EEccCCCcccHHHHHHHcccC--CCcccccccc
Q 012162          174 RTDDFDCTLCLKLLYE-----P--ITTPCGHSFCRSCLFQSMDRG--NKCPLCRAVL  221 (469)
Q Consensus       174 ~~~~~~C~ic~~~~~~-----p--~~~~cgh~~C~~Ci~~~~~~~--~~CP~Cr~~~  221 (469)
                      .+...+|+||.-++..     |  ..-.|.|.|...|+.+|+..+  ..||.||..+
T Consensus      1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRsei 1522 (1525)
T COG5219        1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEI 1522 (1525)
T ss_pred             cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccc
Confidence            3455689999987662     2  234699999999999999854  4799999765

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

Probab=95.40  E-value=0.015  Score=52.89  Aligned_cols=59  Identities=14%  Similarity=0.106  Sum_probs=54.5

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHH
Q 012162           96 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQ  154 (469)
Q Consensus        96 ~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~  154 (469)
                      ..|+..|.+||.++|..+..|.+.|.+++++.+++.+.....+|++++|+....+..+.
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            89999999999999999999999999999999999999999999999999876655543

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

Probab=95.39  E-value=0.11  Score=51.88  Aligned_cols=105  Identities=10%  Similarity=-0.002  Sum_probs=92.1

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHH
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  102 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~  102 (469)
                      ..+..-|.--..++++..|...|++||..+-.+..+|...+.+-++.+..                       ..|-..+
T Consensus        74 ~~WikYaqwEesq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~v-----------------------NhARNv~  130 (677)
T KOG1915|consen   74 QVWIKYAQWEESQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQV-----------------------NHARNVW  130 (677)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhH-----------------------hHHHHHH
Confidence            44455566666788999999999999999999999999999999888888                       8999999


Q ss_pred             HHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhH
Q 012162          103 EKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  150 (469)
Q Consensus       103 ~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~  150 (469)
                      ++|+.+-|.-...||..-..-..+|+...|.+.|++-++..|+-....
T Consensus       131 dRAvt~lPRVdqlWyKY~ymEE~LgNi~gaRqiferW~~w~P~eqaW~  178 (677)
T KOG1915|consen  131 DRAVTILPRVDQLWYKYIYMEEMLGNIAGARQIFERWMEWEPDEQAWL  178 (677)
T ss_pred             HHHHHhcchHHHHHHHHHHHHHHhcccHHHHHHHHHHHcCCCcHHHHH
Confidence            999999999999999888888899999999999999999999866543

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.35  E-value=0.051  Score=56.10  Aligned_cols=97  Identities=21%  Similarity=0.171  Sum_probs=74.4

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCC----CcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPG----DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL   97 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (469)
                      +--+..+|..+...|+.++|+..|++++.....    ....++.+|.+++.+.+|                       ++
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            445567888999999999999999999864433    346778899999999999                       99


Q ss_pred             HHHHHHHHhhccccchHHH--HHHHHHHHHHhHH-------HHHHHHHhccccC
Q 012162           98 ALKDAEKLLNLQSNSMKSH--LLKANALILLERY-------DMARDAILSGLQV  142 (469)
Q Consensus        98 A~~~~~~al~l~p~~~~~~--~~~g~~~~~~~~~-------~~A~~~~~~al~~  142 (469)
                      |...+.+..+.+. +.+++  |..|-++..+|+.       ++|...|.++-.+
T Consensus       324 A~~~f~~L~~~s~-WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~l  376 (468)
T PF10300_consen  324 AAEYFLRLLKESK-WSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPKL  376 (468)
T ss_pred             HHHHHHHHHhccc-cHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHHH
Confidence            9999999998654 44443  4457788888888       7777777766443

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.

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=95.32  E-value=0.028  Score=34.14  Aligned_cols=33  Identities=18%  Similarity=0.290  Sum_probs=29.7

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGD   55 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~   55 (469)
                      ++++..|..++..|++++|+..|++.++..|++
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            357889999999999999999999999998863

>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A

Probab=95.32  E-value=0.033  Score=38.45  Aligned_cols=42  Identities=17%  Similarity=0.245  Sum_probs=34.6

Q ss_pred             cccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHH
Q 012162           58 VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANA  122 (469)
Q Consensus        58 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~  122 (469)
                      .++.+|.+++++|+|                       .+|...++.+++++|+|..+......+
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            467789999999999                       999999999999999998876665544

>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=95.24  E-value=0.0087  Score=54.33  Aligned_cols=59  Identities=32%  Similarity=0.776  Sum_probs=37.1

Q ss_pred             ccccccccc-ccccE-EccCCCcccHHHHHHHcccCCCccccccccccCCCcccCcccHHHHHHHhc
Q 012162          178 FDCTLCLKL-LYEPI-TTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNF  242 (469)
Q Consensus       178 ~~C~ic~~~-~~~p~-~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~  242 (469)
                      ..|--|..- -.+|. .+.|+|.||..|......  ..||.|++.+..    ...+..|..-|..+|
T Consensus         4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~~--~~C~lCkk~ir~----i~l~~slp~~ik~~F   64 (233)
T KOG4739|consen    4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKASSP--DVCPLCKKSIRI----IQLNRSLPTDIKSYF   64 (233)
T ss_pred             EEeccccccCCCCceeeeechhhhhhhhcccCCc--cccccccceeee----eecccccchhHHHHc
Confidence            457666642 24553 479999999999754432  289999998743    233333444455554

>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=95.15  E-value=0.009  Score=57.83  Aligned_cols=44  Identities=27%  Similarity=0.749  Sum_probs=36.5

Q ss_pred             ccccccccccccc-----EEccCCCcccHHHHHHHcccC--CCcccccccc
Q 012162          178 FDCTLCLKLLYEP-----ITTPCGHSFCRSCLFQSMDRG--NKCPLCRAVL  221 (469)
Q Consensus       178 ~~C~ic~~~~~~p-----~~~~cgh~~C~~Ci~~~~~~~--~~CP~Cr~~~  221 (469)
                      .+|+||++-+.-|     +++.|||-|-..||++|+.+.  ..||.|..+-
T Consensus         5 ~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka   55 (463)
T KOG1645|consen    5 TTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA   55 (463)
T ss_pred             ccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence            4799999977766     568999999999999999643  2599998765

>KOG4814 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.10  E-value=0.078  Score=54.65  Aligned_cols=97  Identities=12%  Similarity=0.131  Sum_probs=85.6

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC------cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHH
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGD------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE   96 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (469)
                      ..+++.|...|+..+|..|+..|...+..-|.|      +....+++.||+.+.+.                       +
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            456788999999999999999999999887765      46777889999999999                       9


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccC
Q 012162           97 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQV  142 (469)
Q Consensus        97 ~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~  142 (469)
                      .|.+.+++|-+.+|.++-..+..-.+....|.-++|+....+....
T Consensus       412 ~A~E~~~EAE~~d~~~~l~q~~~~~~~~~E~~Se~AL~~~~~~~s~  457 (872)
T KOG4814|consen  412 NAVEVYQEAEEVDRQSPLCQLLMLQSFLAEDKSEEALTCLQKIKSS  457 (872)
T ss_pred             HHHHHHHHHHhhccccHHHHHHHHHHHHHhcchHHHHHHHHHHHhh
Confidence            9999999999999999998888888888999999999888776654

>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=95.10  E-value=0.0086  Score=61.07  Aligned_cols=62  Identities=19%  Similarity=0.391  Sum_probs=43.7

Q ss_pred             ccccccccccccc----ccEEccCCCcccHHHHHHHcccCCCccccccccccCCCcccCcccHHHH
Q 012162          176 DDFDCTLCLKLLY----EPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSI  237 (469)
Q Consensus       176 ~~~~C~ic~~~~~----~p~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~  237 (469)
                      +.+.|+||+..|.    .||.+-|||+.|+.|+......++.||..........+..+.|.++-..
T Consensus        10 ~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn~scp~~~De~~~~~~~~e~p~n~alL~~   75 (861)
T KOG3161|consen   10 LLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYNASCPTKRDEDSSLMQLKEEPRNYALLRR   75 (861)
T ss_pred             HHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhhccCCCCccccchhcChhhcchhHHHHHh
Confidence            4568999977654    5899999999999999988877655555544444444556666555443

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=95.10  E-value=0.04  Score=47.08  Aligned_cols=63  Identities=19%  Similarity=0.137  Sum_probs=52.3

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ...+...+..+...|++++|+..+++++..+|.+-.+|..+-.+|...|++                       .+|+..
T Consensus        62 ~~~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~-----------------------~~A~~~  118 (146)
T PF03704_consen   62 LDALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRR-----------------------AEALRV  118 (146)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-H-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCH-----------------------HHHHHH
Confidence            345556677788899999999999999999999999999999999999999                       899988


Q ss_pred             HHHHhh
Q 012162          102 AEKLLN  107 (469)
Q Consensus       102 ~~~al~  107 (469)
                      |++..+
T Consensus       119 Y~~~~~  124 (146)
T PF03704_consen  119 YERYRR  124 (146)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            877643

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

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

Probab=95.04  E-value=0.2  Score=43.98  Aligned_cols=93  Identities=13%  Similarity=0.061  Sum_probs=79.3

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCC--CcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPG--DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      ...+..+++..|.-+++..|...+++..+.+|.  .|+.....|.+|...|++                       ..|.
T Consensus       124 ~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll~aR~laa~g~~-----------------------a~Ae  180 (251)
T COG4700         124 AAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLLFARTLAAQGKY-----------------------ADAE  180 (251)
T ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHHHHHHHHhcCCc-----------------------hhHH
Confidence            566778899999999999999999999999986  466677778899999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhc
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILS  138 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~  138 (469)
                      ..++.+++.-|+ +.+....|.-+..+|+.++|...|..
T Consensus       181 safe~a~~~ypg-~~ar~~Y~e~La~qgr~~ea~aq~~~  218 (251)
T COG4700         181 SAFEVAISYYPG-PQARIYYAEMLAKQGRLREANAQYVA  218 (251)
T ss_pred             HHHHHHHHhCCC-HHHHHHHHHHHHHhcchhHHHHHHHH
Confidence            999999999987 57777888888999988887665543

>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]

Probab=95.01  E-value=0.029  Score=59.89  Aligned_cols=43  Identities=44%  Similarity=0.991  Sum_probs=37.8

Q ss_pred             cccccccccccccEEccCCCcccHHHHHHHcccCC--Ccccccccc
Q 012162          178 FDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGN--KCPLCRAVL  221 (469)
Q Consensus       178 ~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~~~--~CP~Cr~~~  221 (469)
                      ..|.+|.+ ...++.++|||.||..|+...++...  .||.||..+
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            78999999 77889999999999999999887543  699999876

>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]

Probab=94.98  E-value=0.02  Score=42.05  Aligned_cols=31  Identities=29%  Similarity=0.757  Sum_probs=27.7

Q ss_pred             ccCCCcccHHHHHHHcccCCCcccccccccc
Q 012162          193 TPCGHSFCRSCLFQSMDRGNKCPLCRAVLFI  223 (469)
Q Consensus       193 ~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~~  223 (469)
                      -.|.|.|.-.||.+|+.....||.||++...
T Consensus        52 G~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~   82 (88)
T COG5194          52 GVCNHAFHDHCIYRWLDTKGVCPLDRQTWVL   82 (88)
T ss_pred             EecchHHHHHHHHHHHhhCCCCCCCCceeEE
Confidence            3699999999999999988899999998743

>COG4976 Predicted methyltransferase (contains TPR repeat) [General function prediction only]

Probab=94.97  E-value=0.025  Score=51.13  Aligned_cols=62  Identities=16%  Similarity=0.110  Sum_probs=56.8

Q ss_pred             HHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhcc
Q 012162           30 NRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQ  109 (469)
Q Consensus        30 ~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~  109 (469)
                      ....+.+|.+.|.+.|.+|+.+.|.....|+..|....+.|++                       +.|.+.+++.++++
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             ccchH
Q 012162          110 SNSMK  114 (469)
Q Consensus       110 p~~~~  114 (469)
                      |.+.-
T Consensus        60 p~D~~   64 (287)
T COG4976          60 PEDHG   64 (287)
T ss_pred             ccccc
Confidence            98743

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.96  E-value=0.02  Score=51.58  Aligned_cols=48  Identities=17%  Similarity=0.345  Sum_probs=42.1

Q ss_pred             ccccccccccccccccE----EccCCCcccHHHHHHHcccCCCccccccccc
Q 012162          175 TDDFDCTLCLKLLYEPI----TTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  222 (469)
Q Consensus       175 ~~~~~C~ic~~~~~~p~----~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~  222 (469)
                      +..+.|++|.+.+.+.+    .-+|||.+|..|.++.......||+|..++.
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            46789999999998863    4599999999999999988889999999884

>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins

Probab=94.94  E-value=0.019  Score=39.04  Aligned_cols=40  Identities=23%  Similarity=0.714  Sum_probs=31.4

Q ss_pred             ccccccc--cccccEEccCC-----CcccHHHHHHHcccC--CCccccc
Q 012162          179 DCTLCLK--LLYEPITTPCG-----HSFCRSCLFQSMDRG--NKCPLCR  218 (469)
Q Consensus       179 ~C~ic~~--~~~~p~~~~cg-----h~~C~~Ci~~~~~~~--~~CP~Cr  218 (469)
                      .|.||++  .-.+|...||.     |.+...|+.+|+..+  ..||+|+
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  45567788985     779999999999644  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

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=94.81  E-value=0.099  Score=52.54  Aligned_cols=94  Identities=19%  Similarity=0.135  Sum_probs=76.3

Q ss_pred             HHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHH
Q 012162           39 EEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLL  118 (469)
Q Consensus        39 ~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~  118 (469)
                      ..-...|++|+.--+.|..+|.+...-..+.+.+                       .+.-..|.+++..+|++++.|..
T Consensus        88 ~rIv~lyr~at~rf~~D~~lW~~yi~f~kk~~~~-----------------------~~v~ki~~~~l~~Hp~~~dLWI~  144 (568)
T KOG2396|consen   88 NRIVFLYRRATNRFNGDVKLWLSYIAFCKKKKTY-----------------------GEVKKIFAAMLAKHPNNPDLWIY  144 (568)
T ss_pred             HHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhcch-----------------------hHHHHHHHHHHHhCCCCchhHHh
Confidence            3446789999999998888887755444444557                       78888999999999999999999


Q ss_pred             HHHHHHHHhH-HHHHHHHHhccccCCCCCchhHHHHHH
Q 012162          119 KANALILLER-YDMARDAILSGLQVDPFSNPLQASLQN  155 (469)
Q Consensus       119 ~g~~~~~~~~-~~~A~~~~~~al~~~p~~~~~~~~~~~  155 (469)
                      -|.-.+.-+. .+.|.+.|.++|+.+|+++.++...=+
T Consensus       145 aA~wefe~n~ni~saRalflrgLR~npdsp~Lw~eyfr  182 (568)
T KOG2396|consen  145 AAKWEFEINLNIESARALFLRGLRFNPDSPKLWKEYFR  182 (568)
T ss_pred             hhhhHHhhccchHHHHHHHHHHhhcCCCChHHHHHHHH
Confidence            8887766555 999999999999999999987755433

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

Probab=94.69  E-value=0.085  Score=53.86  Aligned_cols=99  Identities=14%  Similarity=-0.010  Sum_probs=84.0

Q ss_pred             HHhHHHHH-HhccHHHHHHHHHHHhcCCCCCc--ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHH
Q 012162           26 VQKGNRAF-RESNFEEAISNYSRANNIKPGDP--IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  102 (469)
Q Consensus        26 ~~~g~~~~-~~~~~~~A~~~y~~al~~~p~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~  102 (469)
                      ...+..|. .+|+..+|..+|..|+-..|...  .++..+|.++.++|..                       .+|--.+
T Consensus       216 H~~as~YWR~~G~~~~A~~Ca~~a~hf~~~h~kdi~lLSlaTiL~RaG~s-----------------------adA~iIL  272 (886)
T KOG4507|consen  216 HNMASFYWRIKGEPYQAVECAMRALHFSSRHNKDIALLSLATVLHRAGFS-----------------------ADAAVIL  272 (886)
T ss_pred             HHHHHHHHHHcCChhhhhHHHHHHhhhCCcccccchhhhHHHHHHHcccc-----------------------cchhhee
Confidence            34444443 56999999999999999887643  6778899999999987                       7777778


Q ss_pred             HHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCc
Q 012162          103 EKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  147 (469)
Q Consensus       103 ~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~  147 (469)
                      ..|+.-.|.....+|.+|.++..+|+|......|..+.+.+|...
T Consensus       273 hAA~~dA~~~t~n~y~l~~i~aml~~~N~S~~~ydha~k~~p~f~  317 (886)
T KOG4507|consen  273 HAALDDADFFTSNYYTLGNIYAMLGEYNHSVLCYDHALQARPGFE  317 (886)
T ss_pred             ehhccCCccccccceeHHHHHHHHhhhhhhhhhhhhhhccCcchh
Confidence            888888888888899999999999999999999999999999654

>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=94.67  E-value=0.031  Score=53.42  Aligned_cols=71  Identities=15%  Similarity=0.079  Sum_probs=64.4

Q ss_pred             hhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHH
Q 012162           18 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL   97 (469)
Q Consensus        18 ~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (469)
                      ....+.-+..+|.++++.+.+..||..|..|++++|+.+.-|-.++.+...+|+|                       .+
T Consensus       144 np~~a~l~~kr~sv~lkl~kp~~airD~d~A~ein~Dsa~~ykfrg~A~rllg~~-----------------------e~  200 (377)
T KOG1308|consen  144 NPPLAILYAKRASVFLKLKKPNAAIRDCDFAIEINPDSAKGYKFRGYAERLLGNW-----------------------EE  200 (377)
T ss_pred             CCchhhhcccccceeeeccCCchhhhhhhhhhccCcccccccchhhHHHHHhhch-----------------------HH
Confidence            3344677788999999999999999999999999999999999999999999999                       99


Q ss_pred             HHHHHHHHhhcccc
Q 012162           98 ALKDAEKLLNLQSN  111 (469)
Q Consensus        98 A~~~~~~al~l~p~  111 (469)
                      |..++..|.+++-+
T Consensus       201 aa~dl~~a~kld~d  214 (377)
T KOG1308|consen  201 AAHDLALACKLDYD  214 (377)
T ss_pred             HHHHHHHHHhcccc
Confidence            99999999988743

>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=94.66  E-value=0.0083  Score=43.61  Aligned_cols=44  Identities=25%  Similarity=0.714  Sum_probs=32.9

Q ss_pred             ccccccccccc------------cEEc-cCCCcccHHHHHHHcccC---CCccccccccc
Q 012162          179 DCTLCLKLLYE------------PITT-PCGHSFCRSCLFQSMDRG---NKCPLCRAVLF  222 (469)
Q Consensus       179 ~C~ic~~~~~~------------p~~~-~cgh~~C~~Ci~~~~~~~---~~CP~Cr~~~~  222 (469)
                      .|.||...|..            |.+. -|.|.|-..||.+|+...   ..||.||+...
T Consensus        22 ~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   22 TCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             ccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            67777766643            3332 599999999999998732   36999999764

>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A

Probab=94.59  E-value=0.0065  Score=44.81  Aligned_cols=47  Identities=23%  Similarity=0.678  Sum_probs=23.2

Q ss_pred             cccccccccccc-c---cEE----ccCCCcccHHHHHHHccc---C--------CCcccccccccc
Q 012162          177 DFDCTLCLKLLY-E---PIT----TPCGHSFCRSCLFQSMDR---G--------NKCPLCRAVLFI  223 (469)
Q Consensus       177 ~~~C~ic~~~~~-~---p~~----~~cgh~~C~~Ci~~~~~~---~--------~~CP~Cr~~~~~  223 (469)
                      ...|.||..... +   |..    ..|+..|...||.+|+..   +        ..||.|+.++..
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~   67 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW   67 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence            458999998654 2   322    379999999999999752   1        149999998853

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.39  E-value=0.4  Score=44.59  Aligned_cols=92  Identities=11%  Similarity=0.138  Sum_probs=77.5

Q ss_pred             ccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHH
Q 012162           36 SNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKS  115 (469)
Q Consensus        36 ~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~  115 (469)
                      +.+..|.-.|++.-+-.|-.+..+.+.|.|++.+++|                       ++|...++.|+..+++++++
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            5688899999998886777889999999999999999                       99999999999999999999


Q ss_pred             HHHHHHHHHHHhHHHHHHHH-HhccccCCCCCchhH
Q 012162          116 HLLKANALILLERYDMARDA-ILSGLQVDPFSNPLQ  150 (469)
Q Consensus       116 ~~~~g~~~~~~~~~~~A~~~-~~~al~~~p~~~~~~  150 (469)
                      +.++-.+-..+|.-.++..- +.+....+|+++-+.
T Consensus       244 L~Nliv~a~~~Gkd~~~~~r~l~QLk~~~p~h~~vk  279 (299)
T KOG3081|consen  244 LANLIVLALHLGKDAEVTERNLSQLKLSHPEHPFVK  279 (299)
T ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHhcCCcchHHH
Confidence            99998888889998777654 445555667666543

>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B

Probab=94.36  E-value=0.094  Score=40.79  Aligned_cols=67  Identities=18%  Similarity=0.111  Sum_probs=50.4

Q ss_pred             HHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccc--hHHHHH
Q 012162           41 AISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNS--MKSHLL  118 (469)
Q Consensus        41 A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~--~~~~~~  118 (469)
                      .+..++++++.+|+|..+.+.+|..++..|++                       ++|++.+-.+++.++++  ..+.-.
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            46778999999999999999999999999999                       99999999999999887  334444


Q ss_pred             HHHHHHHHhHHH
Q 012162          119 KANALILLERYD  130 (469)
Q Consensus       119 ~g~~~~~~~~~~  130 (469)
                      +=.++..+|.-+
T Consensus        64 ll~~f~~lg~~~   75 (90)
T PF14561_consen   64 LLDIFELLGPGD   75 (90)
T ss_dssp             HHHHHHHH-TT-
T ss_pred             HHHHHHHcCCCC
Confidence            444445555433

>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B

Probab=94.36  E-value=0.03  Score=37.45  Aligned_cols=41  Identities=37%  Similarity=0.929  Sum_probs=21.0

Q ss_pred             ccccccccccc---E-EccCCCcccHHHHHHHcc-cCCCccccccc
Q 012162          180 CTLCLKLLYEP---I-TTPCGHSFCRSCLFQSMD-RGNKCPLCRAV  220 (469)
Q Consensus       180 C~ic~~~~~~p---~-~~~cgh~~C~~Ci~~~~~-~~~~CP~Cr~~  220 (469)
                      |++|.+.+...   + .=+||+..|+.|.....+ .+..||-||++
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            56777666322   1 127999999999999886 46799999976

>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=94.25  E-value=0.023  Score=54.72  Aligned_cols=45  Identities=29%  Similarity=0.707  Sum_probs=33.3

Q ss_pred             ccccccccccccccE---Ec-cCCCcccHHHHHHHccc--C-CCcccccccc
Q 012162          177 DFDCTLCLKLLYEPI---TT-PCGHSFCRSCLFQSMDR--G-NKCPLCRAVL  221 (469)
Q Consensus       177 ~~~C~ic~~~~~~p~---~~-~cgh~~C~~Ci~~~~~~--~-~~CP~Cr~~~  221 (469)
                      ...|.||.+.+.+--   .+ .|||+|...|+.+|++.  + -.||.|+..+
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            357999976554432   23 49999999999999973  3 3699999443

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.21  E-value=0.33  Score=44.26  Aligned_cols=99  Identities=20%  Similarity=0.118  Sum_probs=61.3

Q ss_pred             HHHHHhccHHHHHHHHHHHhcCCCCCc------ccccchhHHHHHH-HhhhccCCCCCcccCccCCCCCchhHHHHHHHH
Q 012162           30 NRAFRESNFEEAISNYSRANNIKPGDP------IVLGNRSSAYIRI-SQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  102 (469)
Q Consensus        30 ~~~~~~~~~~~A~~~y~~al~~~p~~~------~~~~~~a~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~  102 (469)
                      ...|++++..+|+.++++|+++-.+-.      ..+..+|..|-.- .++                       ++|+.+|
T Consensus        81 ~~cykk~~~~eAv~cL~~aieIyt~~Grf~~aAk~~~~iaEiyEsdl~d~-----------------------ekaI~~Y  137 (288)
T KOG1586|consen   81 ANCYKKVDPEEAVNCLEKAIEIYTDMGRFTMAAKHHIEIAEIYESDLQDF-----------------------EKAIAHY  137 (288)
T ss_pred             HHHhhccChHHHHHHHHHHHHHHHhhhHHHHHHhhhhhHHHHHhhhHHHH-----------------------HHHHHHH
Confidence            334455677777777777776643321      1222333333221 344                       7888888


Q ss_pred             HHHhhccc------cchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHH
Q 012162          103 EKLLNLQS------NSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQA  151 (469)
Q Consensus       103 ~~al~l~p------~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~  151 (469)
                      ++|-+.-.      .--+.+...|..-..+++|.+|++.|++...-.-+|+.++-
T Consensus       138 E~Aae~yk~ees~ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~~s~~n~LLKy  192 (288)
T KOG1586|consen  138 EQAAEYYKGEESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQVARSSLDNNLLKY  192 (288)
T ss_pred             HHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchHHHh
Confidence            88866422      22345666677778899999999999998876666665443

>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=94.19  E-value=0.22  Score=49.96  Aligned_cols=121  Identities=18%  Similarity=0.171  Sum_probs=63.9

Q ss_pred             hhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc--------ccccc--hhHHH---HHHHhhhccCCCCCcccCc
Q 012162           19 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP--------IVLGN--RSSAY---IRISQFLKHRPPSASEYRP   85 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~--------~~~~~--~a~~~---~~~~~~~~~~~~~~~~~~~   85 (469)
                      ..........|..++..|+|.+|+..|+..|..-|-..        .+...  ++.=|   +++.-.++..+.       
T Consensus       201 l~~L~~~Lk~gyk~~t~gKF~eA~~~Fr~iL~~i~l~vv~~~~E~~e~~eli~icrEYilgl~iEl~Rr~l~~-------  273 (422)
T PF06957_consen  201 LSSLEERLKEGYKLFTAGKFEEAIEIFRSILHSIPLLVVESREEEDEAKELIEICREYILGLSIELERRELPK-------  273 (422)
T ss_dssp             HHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHC--BSSCHHHHHHHHHHHHHHHHHHHHHHHHHHCTS-T-------
T ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhheeeecCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc-------
Confidence            34455566789999999999999999999986643211        11111  11111   111111111000       


Q ss_pred             cCCCCCchhHHHH--HHHHHHHhhccccchHHHHHHHHHH-HHHhHHHHHHHHHhccccCCCCCchhH
Q 012162           86 LNGLDPTTHAELA--LKDAEKLLNLQSNSMKSHLLKANAL-ILLERYDMARDAILSGLQVDPFSNPLQ  150 (469)
Q Consensus        86 ~~~~~~~~~~~~A--~~~~~~al~l~p~~~~~~~~~g~~~-~~~~~~~~A~~~~~~al~~~p~~~~~~  150 (469)
                          ++.......  +..|=...+|.|.+-..-.+.|+.. ++.++|--|....++.|+++|..+.+.
T Consensus       274 ----~~~~~~kR~lELAAYFThc~LQp~H~~LaLr~AM~~~~K~KNf~tAa~FArRLLel~p~~~~a~  337 (422)
T PF06957_consen  274 ----DPVEDQKRNLELAAYFTHCKLQPSHLILALRSAMSQAFKLKNFITAASFARRLLELNPSPEVAE  337 (422)
T ss_dssp             ----TTHHHHHHHHHHHHHHCCS---HHHHHHHHHHHHHHCCCTTBHHHHHHHHHHHHCT--SCHHHH
T ss_pred             ----cchhhHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHcCCCHHHHH
Confidence                000000111  1222233456777766666666654 789999999999999999999765443

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.

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.18  E-value=0.17  Score=51.11  Aligned_cols=105  Identities=13%  Similarity=0.051  Sum_probs=63.0

Q ss_pred             HhHHHHHHhccHHHHHHHHHHHhcCCCC--CcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHH
Q 012162           27 QKGNRAFRESNFEEAISNYSRANNIKPG--DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  104 (469)
Q Consensus        27 ~~g~~~~~~~~~~~A~~~y~~al~~~p~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  104 (469)
                      ..|..+.+.|+.++||+.|...++..|.  +..+++++..+++.++.|                       .++...+.+
T Consensus       264 RLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Y-----------------------ad~q~lL~k  320 (539)
T PF04184_consen  264 RLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAY-----------------------ADVQALLAK  320 (539)
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCH-----------------------HHHHHHHHH
Confidence            4566666777777777777777776664  345677777777777777                       666666665


Q ss_pred             Hhhc-cccchHHHHHHHHHHHH-HhH---------------HHHHHHHHhccccCCCCCchhHHHHH
Q 012162          105 LLNL-QSNSMKSHLLKANALIL-LER---------------YDMARDAILSGLQVDPFSNPLQASLQ  154 (469)
Q Consensus       105 al~l-~p~~~~~~~~~g~~~~~-~~~---------------~~~A~~~~~~al~~~p~~~~~~~~~~  154 (469)
                      .-++ -|+++...|..|....+ .++               -..|.+++.+|.+.||.-+.....++
T Consensus       321 YdDi~lpkSAti~YTaALLkaRav~d~fs~e~a~rRGls~ae~~aveAi~RAvefNPHVp~YLLe~K  387 (539)
T PF04184_consen  321 YDDISLPKSATICYTAALLKARAVGDKFSPEAASRRGLSPAEMNAVEAIHRAVEFNPHVPKYLLEMK  387 (539)
T ss_pred             hccccCCchHHHHHHHHHHHHHhhccccCchhhhhcCCChhHHHHHHHHHHHHHhCCCCchhhhccC
Confidence            5333 25555555555543321 111               12356667777777776665544433

The molecular function of this protein is uncertain.

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.06  E-value=0.46  Score=44.11  Aligned_cols=67  Identities=16%  Similarity=0.287  Sum_probs=60.5

Q ss_pred             HHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHH
Q 012162           24 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  103 (469)
Q Consensus        24 ~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~  103 (469)
                      .+.+.+..+.-.+||..|...|++.+..||.++.+-++.|.|++.+|+.                       ..|++..+
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            3445666777889999999999999999999999999999999999999                       99999999


Q ss_pred             HHhhccccch
Q 012162          104 KLLNLQSNSM  113 (469)
Q Consensus       104 ~al~l~p~~~  113 (469)
                      .++...|...
T Consensus       311 ~~~~~~P~~~  320 (366)
T KOG2796|consen  311 AMVQQDPRHY  320 (366)
T ss_pred             HHhccCCccc
Confidence            9999999753

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.01  E-value=0.38  Score=48.60  Aligned_cols=94  Identities=19%  Similarity=0.040  Sum_probs=65.5

Q ss_pred             HHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHH-----HHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHH
Q 012162           30 NRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAY-----IRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  104 (469)
Q Consensus        30 ~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  104 (469)
                      ..+.+..++.+-++.-.+||+++|+.+.+|.-+|.-.     -...-|                       .+|++..+.
T Consensus       176 q~AWRERnp~aRIkaA~eALei~pdCAdAYILLAEEeA~Ti~Eae~l~-----------------------rqAvkAgE~  232 (539)
T PF04184_consen  176 QKAWRERNPQARIKAAKEALEINPDCADAYILLAEEEASTIVEAEELL-----------------------RQAVKAGEA  232 (539)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHhhhhhhHHHhhcccccccCHHHHHHHH-----------------------HHHHHHHHH
Confidence            3566778999999999999999999988876655421     111112                       334444443


Q ss_pred             Hhhccc----------------c--chHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCC
Q 012162          105 LLNLQS----------------N--SMKSHLLKANALILLERYDMARDAILSGLQVDPFS  146 (469)
Q Consensus       105 al~l~p----------------~--~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~  146 (469)
                      ++..+.                .  .+.+-.++|++..++|+.++|++.|+..++.+|..
T Consensus       233 ~lg~s~~~~~~g~~~e~~~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~  292 (539)
T PF04184_consen  233 SLGKSQFLQHHGHFWEAWHRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNL  292 (539)
T ss_pred             hhchhhhhhcccchhhhhhccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCcc
Confidence            333221                1  13355778999999999999999999999988853

The molecular function of this protein is uncertain.

>PRK04841 transcriptional regulator MalT; Provisional

Probab=94.00  E-value=0.13  Score=57.84  Aligned_cols=98  Identities=13%  Similarity=-0.018  Sum_probs=78.2

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc-----ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP-----IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE   96 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (469)
                      .......|..++..|++++|...++++++..|...     .++..+|.++...|++                       +
T Consensus       452 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~-----------------------~  508 (903)
T PRK04841        452 AEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGEL-----------------------A  508 (903)
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCH-----------------------H
Confidence            34444578888999999999999999998655432     3456678888889999                       9


Q ss_pred             HHHHHHHHHhhcccc------chHHHHHHHHHHHHHhHHHHHHHHHhccccC
Q 012162           97 LALKDAEKLLNLQSN------SMKSHLLKANALILLERYDMARDAILSGLQV  142 (469)
Q Consensus        97 ~A~~~~~~al~l~p~------~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~  142 (469)
                      +|...+++++.....      ...++..+|.++...|++++|...+++++.+
T Consensus       509 ~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~  560 (903)
T PRK04841        509 RALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQL  560 (903)
T ss_pred             HHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            999999999875322      1346678899999999999999999999876

>PLN03218 maturation of RBCL 1; Provisional

Probab=93.97  E-value=0.2  Score=56.79  Aligned_cols=43  Identities=12%  Similarity=0.171  Sum_probs=19.5

Q ss_pred             HHHHHhccHHHHHHHHHHHhcCC-CCCcccccchhHHHHHHHhh
Q 012162           30 NRAFRESNFEEAISNYSRANNIK-PGDPIVLGNRSSAYIRISQF   72 (469)
Q Consensus        30 ~~~~~~~~~~~A~~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~   72 (469)
                      ..+.+.|++++|...|+++.+.+ +.+...|..+..+|.+.|++
T Consensus       587 ~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~  630 (1060)
T PLN03218        587 KACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDW  630 (1060)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCH
Confidence            34444555555555555554443 22333444444444444444

>PLN03218 maturation of RBCL 1; Provisional

Probab=93.97  E-value=0.25  Score=56.00  Aligned_cols=47  Identities=9%  Similarity=-0.029  Sum_probs=28.0

Q ss_pred             HHHHHHHHHHhhcc-ccchHHHHHHHHHHHHHhHHHHHHHHHhccccC
Q 012162           96 ELALKDAEKLLNLQ-SNSMKSHLLKANALILLERYDMARDAILSGLQV  142 (469)
Q Consensus        96 ~~A~~~~~~al~l~-p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~  142 (469)
                      ++|.+.++...+.+ +.+...|..+..+|.+.|++++|+..|++..+.
T Consensus       596 deA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~  643 (1060)
T PLN03218        596 DRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKK  643 (1060)
T ss_pred             HHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Confidence            66666666665554 334455666666666666666666666665543

>PF04641 Rtf2: Rtf2 RING-finger

Probab=93.94  E-value=0.053  Score=51.33  Aligned_cols=48  Identities=25%  Similarity=0.534  Sum_probs=38.9

Q ss_pred             Cccccccccccccccc--cE--EccCCCcccHHHHHHHcccCCCccccccccc
Q 012162          174 RTDDFDCTLCLKLLYE--PI--TTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  222 (469)
Q Consensus       174 ~~~~~~C~ic~~~~~~--p~--~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~  222 (469)
                      ....+.||++...|..  ++  ..+|||.|+..|+.+.- .+..||+|..++.
T Consensus       110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~  161 (260)
T PF04641_consen  110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFT  161 (260)
T ss_pred             CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccc
Confidence            4578899999988854  22  35999999999999884 4567999999985

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

Probab=93.90  E-value=0.31  Score=53.22  Aligned_cols=100  Identities=11%  Similarity=-0.078  Sum_probs=80.0

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcC--CCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNI--KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA   98 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~--~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A   98 (469)
                      +...|......|.+.|++++|++.|++..+.  .|+ ...|..+..++.+.|..                       ++|
T Consensus       390 d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd-~~T~~~ll~a~~~~g~~-----------------------~~a  445 (697)
T PLN03081        390 NLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPN-HVTFLAVLSACRYSGLS-----------------------EQG  445 (697)
T ss_pred             CeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCC-HHHHHHHHHHHhcCCcH-----------------------HHH
Confidence            4556778888999999999999999998764  453 45567777788889999                       999


Q ss_pred             HHHHHHHhhc---cccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCC
Q 012162           99 LKDAEKLLNL---QSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS  146 (469)
Q Consensus        99 ~~~~~~al~l---~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~  146 (469)
                      ...++...+.   .|+ ...|..+..+|...|++++|.+.+++.- ..|+.
T Consensus       446 ~~~f~~m~~~~g~~p~-~~~y~~li~~l~r~G~~~eA~~~~~~~~-~~p~~  494 (697)
T PLN03081        446 WEIFQSMSENHRIKPR-AMHYACMIELLGREGLLDEAYAMIRRAP-FKPTV  494 (697)
T ss_pred             HHHHHHHHHhcCCCCC-ccchHhHHHHHHhcCCHHHHHHHHHHCC-CCCCH
Confidence            9999998763   343 3578889999999999999999998753 44543

>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]

Probab=93.80  E-value=0.031  Score=43.26  Aligned_cols=29  Identities=28%  Similarity=0.569  Sum_probs=26.5

Q ss_pred             ccCCCcccHHHHHHHcccCCCcccccccc
Q 012162          193 TPCGHSFCRSCLFQSMDRGNKCPLCRAVL  221 (469)
Q Consensus       193 ~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~  221 (469)
                      -.|.|.|...||.+|+.....||+|.++-
T Consensus        79 G~CNHaFH~hCisrWlktr~vCPLdn~eW  107 (114)
T KOG2930|consen   79 GVCNHAFHFHCISRWLKTRNVCPLDNKEW  107 (114)
T ss_pred             eecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence            36999999999999999999999998865

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=93.67  E-value=0.21  Score=47.95  Aligned_cols=111  Identities=13%  Similarity=0.016  Sum_probs=83.5

Q ss_pred             HHHHHhHHHHHH-hccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           23 FDLVQKGNRAFR-ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        23 ~~~~~~g~~~~~-~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ..|...|...+. .++.+.|...|+++++.-|.+..+|......+..+++.                       +.|-..
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            345555666555 57777799999999999999999988888888888888                       999999


Q ss_pred             HHHHhhccccch---HHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHH
Q 012162          102 AEKLLNLQSNSM---KSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  156 (469)
Q Consensus       102 ~~~al~l~p~~~---~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~  156 (469)
                      +++++..-|...   ..|......-...|+.+.....++++.+.-|++..+.....+.
T Consensus        93 fer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~~~~~~~f~~ry  150 (280)
T PF05843_consen   93 FERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPEDNSLELFSDRY  150 (280)
T ss_dssp             HHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTTS-HHHHHHCCT
T ss_pred             HHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhhhHHHHHHHHh
Confidence            999999876655   3555556666789999999999999999999866655444433

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.

>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]

Probab=93.63  E-value=0.055  Score=50.32  Aligned_cols=83  Identities=18%  Similarity=0.325  Sum_probs=55.5

Q ss_pred             HHHHHHhccccCCCCCchhHHHHHHHHHhhhhhhcccCCCCCCCccccccccccccccc-c--EEccCCCcccHHHHHHH
Q 012162          131 MARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCLKLLYE-P--ITTPCGHSFCRSCLFQS  207 (469)
Q Consensus       131 ~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~ic~~~~~~-p--~~~~cgh~~C~~Ci~~~  207 (469)
                      +-...+...++.+-+-+.+...++.+...|...+-          ...+|.||+--|.+ |  ..++|-|.|...|+.++
T Consensus        79 ~i~~~~~~iikq~~g~pii~~lie~~~e~LT~nn~----------p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRy  148 (368)
T KOG4445|consen   79 EIQRQIQEIIKQNSGMPIICQLIEHCSEFLTENNH----------PNGQCVICLYGFASSPAFTVTACDHYMHFACLARY  148 (368)
T ss_pred             HHHHHHHHHHHhcCCCchhHHHHHHHHHHcccCCC----------CCCceEEEEEeecCCCceeeehhHHHHHHHHHHHH
Confidence            33344444455555666666666666666655443          66789999976654 4  35899999999999876


Q ss_pred             ccc-----------------------CCCcccccccccc
Q 012162          208 MDR-----------------------GNKCPLCRAVLFI  223 (469)
Q Consensus       208 ~~~-----------------------~~~CP~Cr~~~~~  223 (469)
                      +..                       ...||+||..+..
T Consensus       149 l~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~  187 (368)
T KOG4445|consen  149 LTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI  187 (368)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence            431                       1249999998844

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.61  E-value=0.037  Score=49.98  Aligned_cols=33  Identities=27%  Similarity=0.423  Sum_probs=29.3

Q ss_pred             cccccccccccccccEEccCCCcccHHHHHHHc
Q 012162          176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSM  208 (469)
Q Consensus       176 ~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~  208 (469)
                      +.--|++|++...+||+.+-||.||+.||.+++
T Consensus        42 ~FdcCsLtLqPc~dPvit~~GylfdrEaILe~i   74 (303)
T KOG3039|consen   42 PFDCCSLTLQPCRDPVITPDGYLFDREAILEYI   74 (303)
T ss_pred             CcceeeeecccccCCccCCCCeeeeHHHHHHHH
Confidence            444689999999999999999999999998764

>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=93.44  E-value=0.44  Score=41.05  Aligned_cols=112  Identities=17%  Similarity=0.031  Sum_probs=90.2

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      +..+..........++.+.+...+...--+.|..+.+-..-|+.++..|+|                       .+|+..
T Consensus        10 v~gLie~~~~al~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w-----------------------~dA~rl   66 (160)
T PF09613_consen   10 VGGLIEVLSVALRLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDW-----------------------DDALRL   66 (160)
T ss_pred             HHHHHHHHHHHHccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCH-----------------------HHHHHH
Confidence            567778888889999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHH
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  158 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~  158 (469)
                      ++.+..-.|..+.+--.++.+++.+|+.+= ..+-..+++-.+ ++.+....+.+..
T Consensus        67 Lr~l~~~~~~~p~~kALlA~CL~~~~D~~W-r~~A~evle~~~-d~~a~~Lv~~Ll~  121 (160)
T PF09613_consen   67 LRELEERAPGFPYAKALLALCLYALGDPSW-RRYADEVLESGA-DPDARALVRALLA  121 (160)
T ss_pred             HHHHhccCCCChHHHHHHHHHHHHcCChHH-HHHHHHHHhcCC-ChHHHHHHHHHHH
Confidence            999999999999888899999988887632 112233444443 5655555555544

>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=93.41  E-value=0.061  Score=50.96  Aligned_cols=49  Identities=27%  Similarity=0.723  Sum_probs=39.3

Q ss_pred             CCccccccccccccccccEEccCCCcccHHHHHHHc--ccCCCcccccccc
Q 012162          173 ERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSM--DRGNKCPLCRAVL  221 (469)
Q Consensus       173 ~~~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~--~~~~~CP~Cr~~~  221 (469)
                      -.++...|.||-.-+.-...+||+|..|.-|....-  -..+.||.||...
T Consensus        57 tDEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~  107 (493)
T COG5236          57 TDEENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYMQKGCPLCRTET  107 (493)
T ss_pred             cccccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence            345667899999887777789999999999987643  3567899999764

>COG2912 Uncharacterized conserved protein [Function unknown]

Probab=93.36  E-value=0.28  Score=45.95  Aligned_cols=71  Identities=21%  Similarity=0.384  Sum_probs=64.0

Q ss_pred             HHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhcc
Q 012162           30 NRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQ  109 (469)
Q Consensus        30 ~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~  109 (469)
                      ..+...++++.|...-++.+.++|.++.-+.-+|.+|.++|-+                       .-|+.+++..++.-
T Consensus       189 ~~~~~e~~~~~al~~~~r~l~l~P~dp~eirDrGliY~ql~c~-----------------------~vAl~dl~~~~~~~  245 (269)
T COG2912         189 AALLRELQWELALRVAERLLDLNPEDPYEIRDRGLIYAQLGCY-----------------------HVALEDLSYFVEHC  245 (269)
T ss_pred             HHHHHhhchHHHHHHHHHHHhhCCCChhhccCcHHHHHhcCCc-----------------------hhhHHHHHHHHHhC
Confidence            4567789999999999999999999999999999999999999                       99999999999999


Q ss_pred             ccchHHHHHHHHHH
Q 012162          110 SNSMKSHLLKANAL  123 (469)
Q Consensus       110 p~~~~~~~~~g~~~  123 (469)
                      |+.+.+-..++...
T Consensus       246 P~~~~a~~ir~~l~  259 (269)
T COG2912         246 PDDPIAEMIRAQLL  259 (269)
T ss_pred             CCchHHHHHHHHHH
Confidence            99988776665543

>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function

Probab=93.31  E-value=0.15  Score=46.60  Aligned_cols=100  Identities=18%  Similarity=0.027  Sum_probs=69.4

Q ss_pred             HHHhccHHHHHHHHHHHhcC----CCCC---cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHH
Q 012162           32 AFRESNFEEAISNYSRANNI----KPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  104 (469)
Q Consensus        32 ~~~~~~~~~A~~~y~~al~~----~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  104 (469)
                      +-....+++|++.|.-|+-.    ..+.   +.++..+|++|..+++.                .....+...|+..+.+
T Consensus        87 ~~~~Rt~~~ai~~YkLAll~~~~~~~~~s~~A~l~LrlAWlyR~~~~~----------------~~E~~fl~~Al~~y~~  150 (214)
T PF09986_consen   87 FSGERTLEEAIESYKLALLCAQIKKEKPSKKAGLCLRLAWLYRDLGDE----------------ENEKRFLRKALEFYEE  150 (214)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhccCCH----------------HHHHHHHHHHHHHHHH
Confidence            33456788999999888744    1111   35556667777666653                1112233788888888


Q ss_pred             Hhhcccc------chHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCc
Q 012162          105 LLNLQSN------SMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  147 (469)
Q Consensus       105 al~l~p~------~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~  147 (469)
                      |++....      .....|.+|.....+|++++|+.+|.+++...-.+.
T Consensus       151 a~~~e~~~~~~~~~~~l~YLigeL~rrlg~~~eA~~~fs~vi~~~~~s~  199 (214)
T PF09986_consen  151 AYENEDFPIEGMDEATLLYLIGELNRRLGNYDEAKRWFSRVIGSKKASK  199 (214)
T ss_pred             HHHhCcCCCCCchHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCCCCCC
Confidence            8875532      356888999999999999999999999998544333

>PRK04841 transcriptional regulator MalT; Provisional

Probab=93.19  E-value=0.2  Score=56.42  Aligned_cols=100  Identities=16%  Similarity=0.135  Sum_probs=78.6

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC------cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA   95 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (469)
                      +..+...|..+...|++++|...|.+++......      ..++.++|.+++..|++                       
T Consensus       491 ~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~-----------------------  547 (903)
T PRK04841        491 IVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFL-----------------------  547 (903)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCH-----------------------
Confidence            3445667888899999999999999999764432      23556778889999999                       


Q ss_pred             HHHHHHHHHHhhcccc--------chHHHHHHHHHHHHHhHHHHHHHHHhccccCCC
Q 012162           96 ELALKDAEKLLNLQSN--------SMKSHLLKANALILLERYDMARDAILSGLQVDP  144 (469)
Q Consensus        96 ~~A~~~~~~al~l~p~--------~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p  144 (469)
                      ++|...+++++.+...        ....+..+|.++...|++++|...+.+++.+..
T Consensus       548 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~  604 (903)
T PRK04841        548 QAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLS  604 (903)
T ss_pred             HHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhh
Confidence            9999999998886321        223456788999999999999999999988644

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.17  E-value=0.55  Score=42.83  Aligned_cols=114  Identities=17%  Similarity=0.178  Sum_probs=75.1

Q ss_pred             HHhHHHHHHh-ccHHHHHHHHHHHhcCCCCC-c-----ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHH
Q 012162           26 VQKGNRAFRE-SNFEEAISNYSRANNIKPGD-P-----IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA   98 (469)
Q Consensus        26 ~~~g~~~~~~-~~~~~A~~~y~~al~~~p~~-~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A   98 (469)
                      ...|..|-.. .++++||.+|++|-+.-..+ .     ..+...|..-..+++|                       .+|
T Consensus       117 ~~iaEiyEsdl~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY-----------------------~~A  173 (288)
T KOG1586|consen  117 IEIAEIYESDLQDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQY-----------------------SKA  173 (288)
T ss_pred             hhHHHHHhhhHHHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHH-----------------------HHH
Confidence            3455555544 78999999999997653322 1     2333334444566888                       889


Q ss_pred             HHHHHHHhhccccc------hHHHHH-HHHHHHHHhHHHHHHHHHhccccCCCCCchhHHH--HHHHHHhhhh
Q 012162           99 LKDAEKLLNLQSNS------MKSHLL-KANALILLERYDMARDAILSGLQVDPFSNPLQAS--LQNLERTTAS  162 (469)
Q Consensus        99 ~~~~~~al~l~p~~------~~~~~~-~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~--~~~~~~~~~~  162 (469)
                      +..|++...-.-++      .+.|+. .|.++.-..+.-.|..++++..+++|...+.++.  ++.+-..+..
T Consensus       174 i~iyeqva~~s~~n~LLKys~KdyflkAgLChl~~~D~v~a~~ALeky~~~dP~F~dsREckflk~L~~aieE  246 (288)
T KOG1586|consen  174 IDIYEQVARSSLDNNLLKYSAKDYFLKAGLCHLCKADEVNAQRALEKYQELDPAFTDSRECKFLKDLLDAIEE  246 (288)
T ss_pred             HHHHHHHHHHhccchHHHhHHHHHHHHHHHHhHhcccHHHHHHHHHHHHhcCCcccccHHHHHHHHHHHHHhh
Confidence            99888877644333      344444 4667777788888899999999999998876543  4444444433

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=93.12  E-value=0.61  Score=41.34  Aligned_cols=99  Identities=18%  Similarity=0.137  Sum_probs=71.0

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC---cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA   98 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A   98 (469)
                      ...+..+|+.+.+.||+++|++.|.++.+.....   .+++.+.-.+.+..++|                       ..+
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            4677889999999999999999999988765432   24556666667777888                       666


Q ss_pred             HHHHHHHhhccc--cchH----HHHHHHHHHHHHhHHHHHHHHHhccccCC
Q 012162           99 LKDAEKLLNLQS--NSMK----SHLLKANALILLERYDMARDAILSGLQVD  143 (469)
Q Consensus        99 ~~~~~~al~l~p--~~~~----~~~~~g~~~~~~~~~~~A~~~~~~al~~~  143 (469)
                      .....++-.+-.  .++.    .....|..+...++|.+|-..|-.+..-.
T Consensus        93 ~~~i~ka~~~~~~~~d~~~~nrlk~~~gL~~l~~r~f~~AA~~fl~~~~t~  143 (177)
T PF10602_consen   93 EKYIEKAESLIEKGGDWERRNRLKVYEGLANLAQRDFKEAAELFLDSLSTF  143 (177)
T ss_pred             HHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHhchHHHHHHHHHccCcCC
Confidence            666666655422  2222    23345777788999999999998876433

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.

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=93.10  E-value=0.27  Score=50.79  Aligned_cols=91  Identities=16%  Similarity=0.094  Sum_probs=77.8

Q ss_pred             hccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccch-
Q 012162           35 ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSM-  113 (469)
Q Consensus        35 ~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~-  113 (469)
                      ..+.+.|........+.-|+.+..++..|..+...|+.                       ++|+..+++++....... 
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            45678899999999999999999999999999999999                       999999999986554433 


Q ss_pred             ---HHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCch
Q 012162          114 ---KSHLLKANALILLERYDMARDAILSGLQVDPFSNP  148 (469)
Q Consensus       114 ---~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~  148 (469)
                         -.++-+|+++..+++|++|..+|.+..+.+.-.+.
T Consensus       303 l~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~WSka  340 (468)
T PF10300_consen  303 LHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKWSKA  340 (468)
T ss_pred             HHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccccHHH
Confidence               36788999999999999999999999986544333

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.

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.00  E-value=0.7  Score=42.48  Aligned_cols=104  Identities=14%  Similarity=-0.002  Sum_probs=70.7

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc------ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchh
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP------IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH   94 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (469)
                      .+..+...+..+...++|++|...+.+|.+-..++.      .+|...|.....+..+                      
T Consensus        30 aas~yekAAvafRnAk~feKakdcLlkA~~~yEnnrslfhAAKayEqaamLake~~kl----------------------   87 (308)
T KOG1585|consen   30 AASLYEKAAVAFRNAKKFEKAKDCLLKASKGYENNRSLFHAAKAYEQAAMLAKELSKL----------------------   87 (308)
T ss_pred             hHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHHHh----------------------
Confidence            345555666667778999999999999996654443      3444455555566677                      


Q ss_pred             HHHHHHHHHHHhhcc-----ccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCc
Q 012162           95 AELALKDAEKLLNLQ-----SNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  147 (469)
Q Consensus        95 ~~~A~~~~~~al~l~-----p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~  147 (469)
                       .++...+++|..+-     |+-+..-..+|-=....-+.++|+..|++++.+--++.
T Consensus        88 -sEvvdl~eKAs~lY~E~GspdtAAmaleKAak~lenv~Pd~AlqlYqralavve~~d  144 (308)
T KOG1585|consen   88 -SEVVDLYEKASELYVECGSPDTAAMALEKAAKALENVKPDDALQLYQRALAVVEEDD  144 (308)
T ss_pred             -HHHHHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHhccc
Confidence             88888888887752     44433334444445567788999999999987755443

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

Probab=92.94  E-value=0.56  Score=47.02  Aligned_cols=109  Identities=14%  Similarity=0.041  Sum_probs=88.7

Q ss_pred             HHhccHHHHHHHHHHHhcCCCCCc----ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhc
Q 012162           33 FRESNFEEAISNYSRANNIKPGDP----IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNL  108 (469)
Q Consensus        33 ~~~~~~~~A~~~y~~al~~~p~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l  108 (469)
                      ....|.+.+...|+.+|++-|...    .+|...|....+..+.                       ..|-+.+..||..
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            456889999999999999999754    4444445555566666                       8999999999999


Q ss_pred             cccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhhhc
Q 012162          109 QSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIG  165 (469)
Q Consensus       109 ~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~  165 (469)
                      -|.+ +.+-..-..-.+++++|.....|++-|+.+|.|-.+......++..+++...
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            9976 4444444455789999999999999999999999999999999999988765

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.91  E-value=0.42  Score=45.83  Aligned_cols=93  Identities=14%  Similarity=0.083  Sum_probs=75.5

Q ss_pred             HHHHhHHHHHHhccHHHHHHHHHHHhcC-CCCCcc---cccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           24 DLVQKGNRAFRESNFEEAISNYSRANNI-KPGDPI---VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        24 ~~~~~g~~~~~~~~~~~A~~~y~~al~~-~p~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      +++---..+|-.|+...-...+++.+-. +|+-|-   ++--.|.++...|-|                       ++|.
T Consensus       139 a~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y-----------------------~dAE  195 (491)
T KOG2610|consen  139 AVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIY-----------------------DDAE  195 (491)
T ss_pred             hhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccc-----------------------hhHH
Confidence            3444456778889999999999998877 666542   233345666777888                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhcc
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSG  139 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~a  139 (469)
                      +.+++++++++.+..+...++.++...|++.++.+...+.
T Consensus       196 k~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~t  235 (491)
T KOG2610|consen  196 KQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYKT  235 (491)
T ss_pred             HHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHhc
Confidence            9999999999999999999999999999999999887764

>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=92.90  E-value=0.097  Score=51.06  Aligned_cols=45  Identities=33%  Similarity=0.704  Sum_probs=33.4

Q ss_pred             ccccccccccccccc---EEccCCCcccHHHHHHHccc---C-----CCccccccc
Q 012162          176 DDFDCTLCLKLLYEP---ITTPCGHSFCRSCLFQSMDR---G-----NKCPLCRAV  220 (469)
Q Consensus       176 ~~~~C~ic~~~~~~p---~~~~cgh~~C~~Ci~~~~~~---~-----~~CP~Cr~~  220 (469)
                      ..+.|.||.+-..-.   +-+||+|.||+.|+..+++.   +     -.||.|..+
T Consensus       183 slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~  238 (445)
T KOG1814|consen  183 SLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCG  238 (445)
T ss_pred             hcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCc
Confidence            577999999755443   34799999999999988751   1     258877654

>PLN03077 Protein ECB2; Provisional

Probab=92.87  E-value=0.55  Score=52.68  Aligned_cols=101  Identities=13%  Similarity=0.027  Sum_probs=72.2

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcC--CCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNI--KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~--~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      ...|......+.+.|+.++|+..|++..+.  .|+ ...|..+-.++.+.|.+                       ++|.
T Consensus       554 ~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd-~~T~~~ll~a~~~~g~v-----------------------~ea~  609 (857)
T PLN03077        554 VVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPD-EVTFISLLCACSRSGMV-----------------------TQGL  609 (857)
T ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC-cccHHHHHHHHhhcChH-----------------------HHHH
Confidence            445666677788888888888888887764  454 34455555667777888                       8888


Q ss_pred             HHHHHHhh---ccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCch
Q 012162          100 KDAEKLLN---LQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  148 (469)
Q Consensus       100 ~~~~~al~---l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~  148 (469)
                      ..++...+   +.|+ ...|..+..+|.+.|++++|.+.+++. .+.|+...
T Consensus       610 ~~f~~M~~~~gi~P~-~~~y~~lv~~l~r~G~~~eA~~~~~~m-~~~pd~~~  659 (857)
T PLN03077        610 EYFHSMEEKYSITPN-LKHYACVVDLLGRAGKLTEAYNFINKM-PITPDPAV  659 (857)
T ss_pred             HHHHHHHHHhCCCCc-hHHHHHHHHHHHhCCCHHHHHHHHHHC-CCCCCHHH
Confidence            88888774   3444 467888888888889999998888875 35565443

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=92.81  E-value=0.65  Score=49.99  Aligned_cols=101  Identities=17%  Similarity=0.105  Sum_probs=81.3

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHH
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  102 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~  102 (469)
                      .+...+|-.+++.|.+++|..+++..-...++|-..+..+-.+|..++++                       ++|...|
T Consensus        44 ~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~-----------------------d~~~~~Y  100 (932)
T KOG2053|consen   44 YAKVLKALSLFRLGKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKL-----------------------DEAVHLY  100 (932)
T ss_pred             HHHHHHHHHHHHhcCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhh-----------------------hHHHHHH
Confidence            34456788999999999999888777777777877888889999999999                       9999999


Q ss_pred             HHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCc
Q 012162          103 EKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  147 (469)
Q Consensus       103 ~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~  147 (469)
                      ++++..+|+ .+..+.+-++|.+-+.|.+-.++--+..+.-|+++
T Consensus       101 e~~~~~~P~-eell~~lFmayvR~~~yk~qQkaa~~LyK~~pk~~  144 (932)
T KOG2053|consen  101 ERANQKYPS-EELLYHLFMAYVREKSYKKQQKAALQLYKNFPKRA  144 (932)
T ss_pred             HHHHhhCCc-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccc
Confidence            999999999 78888888999988888664333333333556655

>KOG2042 consensus Ubiquitin fusion degradation protein-2 [Posttranslational modification, protein turnover, chaperones]

Probab=92.75  E-value=0.13  Score=56.01  Aligned_cols=71  Identities=20%  Similarity=0.191  Sum_probs=62.9

Q ss_pred             CccccccccccccccccEEcc-CCCcccHHHHHHHcccCCCccccccccccCCCcccCcccHHHHHHHhchHHH
Q 012162          174 RTDDFDCTLCLKLLYEPITTP-CGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEY  246 (469)
Q Consensus       174 ~~~~~~C~ic~~~~~~p~~~~-cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~~~~~  246 (469)
                      ..+.+.=|+..-.+.+||.+| .|++-||.=|..++-.+...|.||.+++.  +...+|..++.-++.|..+.+
T Consensus       867 vpdef~DPlm~Tlm~dPV~LP~Srv~vDRsti~rhlLs~~tdPFNR~pLt~--d~v~pn~eLK~kI~~~~~ek~  938 (943)
T KOG2042|consen  867 VPDEFLDPLMSTLMSDPVVLPSSRVTVDRSTIERHLLSDCTDPFNREPLTE--DMVSPNEELKAKIRCWIKEKR  938 (943)
T ss_pred             CchhhhCccccccCCCCccCCcccccccHHHHHHHHhcCCCCccccccCch--hhcCCCHHHHHHHHHHHHHhh
Confidence            667788899999999999998 99999999999999999999999999965  578899999999988875544

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=92.67  E-value=1.5  Score=43.43  Aligned_cols=116  Identities=19%  Similarity=0.187  Sum_probs=73.1

Q ss_pred             HHhHHHHHH---hccHHHHHHHHHH-HhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           26 VQKGNRAFR---ESNFEEAISNYSR-ANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        26 ~~~g~~~~~---~~~~~~A~~~y~~-al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ...|.++-+   .|+.++|+..+.. .....+.+++.+.-.|.+|-.+  |.+.. -.+           ....++|+..
T Consensus       183 ~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GRIyKD~--~~~s~-~~d-----------~~~ldkAi~~  248 (374)
T PF13281_consen  183 FQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGRIYKDL--FLESN-FTD-----------RESLDKAIEW  248 (374)
T ss_pred             HHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHH--HHHcC-ccc-----------hHHHHHHHHH
Confidence            345666666   8999999999999 4555667888888888888554  21100 001           1112556666


Q ss_pred             HHHHhhcccc---------------------------------------------chHHHHHHHHHHHHHhHHHHHHHHH
Q 012162          102 AEKLLNLQSN---------------------------------------------SMKSHLLKANALILLERYDMARDAI  136 (469)
Q Consensus       102 ~~~al~l~p~---------------------------------------------~~~~~~~~g~~~~~~~~~~~A~~~~  136 (469)
                      |.++.+++|+                                             +.+.+-.++.+....|++++|++++
T Consensus       249 Y~kgFe~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~  328 (374)
T PF13281_consen  249 YRKGFEIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKMQDYWDVATLLEASVLAGDYEKAIQAA  328 (374)
T ss_pred             HHHHHcCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            6665555443                                             2334444555666688999999999


Q ss_pred             hccccCCCCCchhHHHHHH
Q 012162          137 LSGLQVDPFSNPLQASLQN  155 (469)
Q Consensus       137 ~~al~~~p~~~~~~~~~~~  155 (469)
                      ++++++.|..=.....++.
T Consensus       329 e~~~~l~~~~W~l~St~~n  347 (374)
T PF13281_consen  329 EKAFKLKPPAWELESTLEN  347 (374)
T ss_pred             HHHhhcCCcchhHHHHHHH
Confidence            9999987765444433333

>COG2912 Uncharacterized conserved protein [Function unknown]

Probab=92.60  E-value=0.2  Score=46.93  Aligned_cols=57  Identities=23%  Similarity=0.159  Sum_probs=53.3

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHH
Q 012162           96 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQAS  152 (469)
Q Consensus        96 ~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~  152 (469)
                      +.|+...++.+.++|+++.-+.-.|.+|.++|.+.-|+.+++..++..|+++.+...
T Consensus       198 ~~al~~~~r~l~l~P~dp~eirDrGliY~ql~c~~vAl~dl~~~~~~~P~~~~a~~i  254 (269)
T COG2912         198 ELALRVAERLLDLNPEDPYEIRDRGLIYAQLGCYHVALEDLSYFVEHCPDDPIAEMI  254 (269)
T ss_pred             HHHHHHHHHHHhhCCCChhhccCcHHHHHhcCCchhhHHHHHHHHHhCCCchHHHHH
Confidence            999999999999999999999999999999999999999999999999998876433

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

Probab=92.54  E-value=0.56  Score=45.47  Aligned_cols=99  Identities=16%  Similarity=0.102  Sum_probs=77.1

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc-----ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP-----IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE   96 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (469)
                      .+++.+.+..+-+-.+|.+++.+-...+.+...++     ..+..+|.++..++.|                       +
T Consensus        83 ~ea~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~f-----------------------q  139 (518)
T KOG1941|consen   83 LEAYLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVF-----------------------Q  139 (518)
T ss_pred             HHHHHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHH-----------------------H
Confidence            45555566666666788888887777777654444     3455688899999999                       9


Q ss_pred             HHHHHHHHHhhccccchH------HHHHHHHHHHHHhHHHHHHHHHhccccCC
Q 012162           97 LALKDAEKLLNLQSNSMK------SHLLKANALILLERYDMARDAILSGLQVD  143 (469)
Q Consensus        97 ~A~~~~~~al~l~p~~~~------~~~~~g~~~~~~~~~~~A~~~~~~al~~~  143 (469)
                      ++++.|+.|+++..++.+      .+..+|..|..+.+|++|+-+..+|+++.
T Consensus       140 ~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv  192 (518)
T KOG1941|consen  140 KALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELV  192 (518)
T ss_pred             HHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHH
Confidence            999999999998655433      67889999999999999999999988764

>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=92.54  E-value=0.51  Score=35.28  Aligned_cols=52  Identities=10%  Similarity=0.178  Sum_probs=43.8

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCccccc---chhHHHHHHHhh
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLG---NRSSAYIRISQF   72 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~---~~a~~~~~~~~~   72 (469)
                      .+.....+|..+|++.+.++|+...++|++..++.+.-+.   .+..+|...|+|
T Consensus         5 ~ak~~ie~GlkLY~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gky   59 (80)
T PF10579_consen    5 QAKQQIEKGLKLYHQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKY   59 (80)
T ss_pred             HHHHHHHHHHHHhccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHH
Confidence            4667789999999999999999999999999888775544   445678889999

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

>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=92.53  E-value=0.14  Score=45.68  Aligned_cols=47  Identities=30%  Similarity=0.648  Sum_probs=38.0

Q ss_pred             ccccccccccccc--ccEEccCCCcccHHHHHHHcc--------cCCCccccccccc
Q 012162          176 DDFDCTLCLKLLY--EPITTPCGHSFCRSCLFQSMD--------RGNKCPLCRAVLF  222 (469)
Q Consensus       176 ~~~~C~ic~~~~~--~p~~~~cgh~~C~~Ci~~~~~--------~~~~CP~Cr~~~~  222 (469)
                      ..-.|.+|.-.+.  +.+.+.|-|.|.+.|+..|..        .++.||.|.++++
T Consensus        49 Y~pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiF  105 (299)
T KOG3970|consen   49 YNPNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIF  105 (299)
T ss_pred             CCCCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence            4457999987665  457789999999999998854        3578999999885

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=92.43  E-value=0.1  Score=33.47  Aligned_cols=30  Identities=23%  Similarity=0.196  Sum_probs=25.9

Q ss_pred             hHHHHHHHHHHHHHhHHHHHHHHHhccccC
Q 012162          113 MKSHLLKANALILLERYDMARDAILSGLQV  142 (469)
Q Consensus       113 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~  142 (469)
                      ..++.++|.+|...|++++|+..+++++++
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            357889999999999999999999999864

>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0

Probab=92.39  E-value=0.13  Score=42.14  Aligned_cols=49  Identities=22%  Similarity=0.554  Sum_probs=39.4

Q ss_pred             ccccccccccccccccEEc----cCCCcccHHHHHHHcccC---CCcccccccccc
Q 012162          175 TDDFDCTLCLKLLYEPITT----PCGHSFCRSCLFQSMDRG---NKCPLCRAVLFI  223 (469)
Q Consensus       175 ~~~~~C~ic~~~~~~p~~~----~cgh~~C~~Ci~~~~~~~---~~CP~Cr~~~~~  223 (469)
                      ....+|.||.+...+..-+    =||.+.|..|-...|...   ..||+|+..+..
T Consensus        78 ~~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKs  133 (140)
T PF05290_consen   78 PKLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKS  133 (140)
T ss_pred             CCceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccc
Confidence            3678999999998887544    399999999999877643   369999987743

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=91.71  E-value=0.15  Score=48.27  Aligned_cols=43  Identities=28%  Similarity=0.783  Sum_probs=32.0

Q ss_pred             cccccccccccc----EEccCCCcccHHHHHHHccc-CCCcccccccc
Q 012162          179 DCTLCLKLLYEP----ITTPCGHSFCRSCLFQSMDR-GNKCPLCRAVL  221 (469)
Q Consensus       179 ~C~ic~~~~~~p----~~~~cgh~~C~~Ci~~~~~~-~~~CP~Cr~~~  221 (469)
                      .|++|.+.+.-.    ..-+||...|+.|-...-.. +.+||.||...
T Consensus        16 ~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y   63 (480)
T COG5175          16 YCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKY   63 (480)
T ss_pred             cCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhc
Confidence            499999876543    23489999999997655433 45899999875

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=91.68  E-value=0.88  Score=37.87  Aligned_cols=64  Identities=17%  Similarity=0.206  Sum_probs=52.9

Q ss_pred             ccHHHHHHHHHHHhc-CCCC-CcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccch
Q 012162           36 SNFEEAISNYSRANN-IKPG-DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSM  113 (469)
Q Consensus        36 ~~~~~A~~~y~~al~-~~p~-~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~  113 (469)
                      .|-.+.|..++..++ -.|. .-+..+.+|..++++++|                       +.|+.+.+..++.+|+|.
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            456778999999996 5554 347788899999999999                       999999999999999998


Q ss_pred             HHHHHHHHH
Q 012162          114 KSHLLKANA  122 (469)
Q Consensus       114 ~~~~~~g~~  122 (469)
                      .+.-..-.+
T Consensus       106 Qa~~Lk~~i  114 (149)
T KOG3364|consen  106 QALELKETI  114 (149)
T ss_pred             HHHHHHHHH
Confidence            876554444

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=91.46  E-value=1  Score=44.67  Aligned_cols=99  Identities=13%  Similarity=-0.009  Sum_probs=74.2

Q ss_pred             HHHhHHHHHHhccHHHHHHHHHHHhcC----CCCCcccccchhHHHHH---HHhhhccCCCCCcccCccCCCCCchhHHH
Q 012162           25 LVQKGNRAFRESNFEEAISNYSRANNI----KPGDPIVLGNRSSAYIR---ISQFLKHRPPSASEYRPLNGLDPTTHAEL   97 (469)
Q Consensus        25 ~~~~g~~~~~~~~~~~A~~~y~~al~~----~p~~~~~~~~~a~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (469)
                      ..+.--.|..-.+|+.-+...+..-.+    -++.+.+-+..|.++.+   .|+.                       ++
T Consensus       144 v~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdr-----------------------e~  200 (374)
T PF13281_consen  144 VINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDR-----------------------EK  200 (374)
T ss_pred             HHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCH-----------------------HH
Confidence            334444566778888888887776555    33455566677777777   6666                       99


Q ss_pred             HHHHHHH-HhhccccchHHHHHHHHHHHH---------HhHHHHHHHHHhccccCCCCC
Q 012162           98 ALKDAEK-LLNLQSNSMKSHLLKANALIL---------LERYDMARDAILSGLQVDPFS  146 (469)
Q Consensus        98 A~~~~~~-al~l~p~~~~~~~~~g~~~~~---------~~~~~~A~~~~~~al~~~p~~  146 (469)
                      |+..+.. .....+.+++.+-..|.+|-.         ....++|+++|.++++++|+.
T Consensus       201 Al~il~~~l~~~~~~~~d~~gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~~~~~  259 (374)
T PF13281_consen  201 ALQILLPVLESDENPDPDTLGLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEIEPDY  259 (374)
T ss_pred             HHHHHHHHHhccCCCChHHHHHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcCCccc
Confidence            9999988 666778889999999999853         335789999999999999753

>COG5191 Uncharacterized conserved protein, contains HAT (Half-A-TPR) repeat [General function prediction only]

Probab=91.45  E-value=0.24  Score=46.97  Aligned_cols=90  Identities=14%  Similarity=0.141  Sum_probs=71.9

Q ss_pred             HHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHH-HHHH
Q 012162           44 NYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLL-KANA  122 (469)
Q Consensus        44 ~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~-~g~~  122 (469)
                      .|.++-.--|+|+.+|...+.--.+.+.|                       .+.-..+.++++.+|.+.+.|.. -+.-
T Consensus        95 ~~~R~tnkff~D~k~w~~y~~Y~~k~k~y-----------------------~~~~nI~~~~l~khP~nvdlWI~~c~~e  151 (435)
T COG5191          95 ELYRSTNKFFNDPKIWSQYAAYVIKKKMY-----------------------GEMKNIFAECLTKHPLNVDLWIYCCAFE  151 (435)
T ss_pred             eeehhhhcCCCCcHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHhcCCCCceeeeeeccch
Confidence            34455555677888877766655666777                       78888999999999999998877 5566


Q ss_pred             HHHHhHHHHHHHHHhccccCCCCCchhHHHHHHH
Q 012162          123 LILLERYDMARDAILSGLQVDPFSNPLQASLQNL  156 (469)
Q Consensus       123 ~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~  156 (469)
                      |...++++.|...|.++|+++|+++.++...-++
T Consensus       152 ~~~~ani~s~Ra~f~~glR~N~~~p~iw~eyfr~  185 (435)
T COG5191         152 LFEIANIESSRAMFLKGLRMNSRSPRIWIEYFRM  185 (435)
T ss_pred             hhhhccHHHHHHHHHhhhccCCCCchHHHHHHHH
Confidence            7889999999999999999999999877554443

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=91.41  E-value=2.4  Score=42.50  Aligned_cols=137  Identities=14%  Similarity=0.076  Sum_probs=77.5

Q ss_pred             HHHHHHhHHHHHHhcc-HHHHHHHHHHHhcCCCCCcccc---------------cchhHH-HHHHHhhhccCCCCCcccC
Q 012162           22 VFDLVQKGNRAFRESN-FEEAISNYSRANNIKPGDPIVL---------------GNRSSA-YIRISQFLKHRPPSASEYR   84 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~-~~~A~~~y~~al~~~p~~~~~~---------------~~~a~~-~~~~~~~~~~~~~~~~~~~   84 (469)
                      +..+..-|..+.+.|. -++|+..+..+++..|.|...-               ...+.. +++++++++...-++-...
T Consensus       379 vh~L~~~Ak~lW~~g~~dekalnLLk~il~ft~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~  458 (549)
T PF07079_consen  379 VHYLVFGAKHLWEIGQCDEKALNLLKLILQFTNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITIS  458 (549)
T ss_pred             HHHHHHHHHHHHhcCCccHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCccccc
Confidence            4445555666777777 6778888888888888764211               111110 1223333222111111100


Q ss_pred             c--c-CCCCC------chhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCC----CchhHH
Q 012162           85 P--L-NGLDP------TTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF----SNPLQA  151 (469)
Q Consensus        85 ~--~-~~~~~------~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~----~~~~~~  151 (469)
                      -  + ...+.      +....++.-+..-..+++| ++.+|..+|.+++...+|++|..++...   -|+    |..+++
T Consensus       459 e~eian~LaDAEyLysqgey~kc~~ys~WL~~iaP-S~~~~RLlGl~l~e~k~Y~eA~~~l~~L---P~n~~~~dskvqK  534 (549)
T PF07079_consen  459 EEEIANFLADAEYLYSQGEYHKCYLYSSWLTKIAP-SPQAYRLLGLCLMENKRYQEAWEYLQKL---PPNERMRDSKVQK  534 (549)
T ss_pred             HHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCC-cHHHHHHHHHHHHHHhhHHHHHHHHHhC---CCchhhHHHHHHH
Confidence            0  0 00000      0111556666667788999 8999999999999999999999998764   342    223445


Q ss_pred             HHHHHHHhhhh
Q 012162          152 SLQNLERTTAS  162 (469)
Q Consensus       152 ~~~~~~~~~~~  162 (469)
                      .+.-+++.+.+
T Consensus       535 Al~lCqKh~~k  545 (549)
T PF07079_consen  535 ALALCQKHLPK  545 (549)
T ss_pred             HHHHHHHhhhh
Confidence            55555555443

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=91.38  E-value=1.2  Score=43.88  Aligned_cols=114  Identities=15%  Similarity=0.068  Sum_probs=78.3

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCC---------------------------CcccccchhHHHHHHHhhhc
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPG---------------------------DPIVLGNRSSAYIRISQFLK   74 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~---------------------------~~~~~~~~a~~~~~~~~~~~   74 (469)
                      .......+..+...|+..+|+......++....                           ...-....|.++..+++|..
T Consensus       184 ~~v~~e~akllw~~g~~~~Ai~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~~a~w~~  263 (352)
T PF02259_consen  184 PRVFLEYAKLLWAQGEQEEAIQKLRELLKCRLSKNIDSISNAELKSGLLESLEVISSTNLDKESKELKAKAFLLLAKWLD  263 (352)
T ss_pred             cchHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhccccccHHHHhhccccccccccccchhhhhHHHHHHHHHHHHHHHH
Confidence            344566778888889999999988888872111                           11122446778888888833


Q ss_pred             cCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHH-----------------HHHHHHHh
Q 012162           75 HRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERY-----------------DMARDAIL  137 (469)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~-----------------~~A~~~~~  137 (469)
                      ... ..         ......++++..+.++++++|++.++|+..|..+..+-+.                 ..|+..|-
T Consensus       264 ~~~-~~---------~~~~~~~~~~~~~~~a~~~~~~~~k~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~ai~~y~  333 (352)
T PF02259_consen  264 ELY-SK---------LSSESSDEILKYYKEATKLDPSWEKAWHSWALFNDKLLESDPREKEESSQEDRSEYLEQAIEGYL  333 (352)
T ss_pred             hhc-cc---------cccccHHHHHHHHHHHHHhChhHHHHHHHHHHHHHHHHHhhhhcccccchhHHHHHHHHHHHHHH
Confidence            220 00         1123348899999999999999999999999987654222                 33778888


Q ss_pred             ccccCCCC
Q 012162          138 SGLQVDPF  145 (469)
Q Consensus       138 ~al~~~p~  145 (469)
                      +++.+.+.
T Consensus       334 ~al~~~~~  341 (352)
T PF02259_consen  334 KALSLGSK  341 (352)
T ss_pred             HHHhhCCC
Confidence            88887776

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>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=91.35  E-value=0.33  Score=38.98  Aligned_cols=32  Identities=34%  Similarity=0.703  Sum_probs=25.6

Q ss_pred             CccccccccccccccccE--EccCCCcccHHHHH
Q 012162          174 RTDDFDCTLCLKLLYEPI--TTPCGHSFCRSCLF  205 (469)
Q Consensus       174 ~~~~~~C~ic~~~~~~p~--~~~cgh~~C~~Ci~  205 (469)
                      ..+.-.|++|...+.+.+  .+||||.|+..|+.
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            345567999999888763  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 [].

>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]

Probab=91.33  E-value=0.07  Score=47.96  Aligned_cols=46  Identities=35%  Similarity=0.870  Sum_probs=36.4

Q ss_pred             cccccccccc-cccccE----Ecc-CCCcccHHHHHHHcccCC-Ccc--cccccc
Q 012162          176 DDFDCTLCLK-LLYEPI----TTP-CGHSFCRSCLFQSMDRGN-KCP--LCRAVL  221 (469)
Q Consensus       176 ~~~~C~ic~~-~~~~p~----~~~-cgh~~C~~Ci~~~~~~~~-~CP--~Cr~~~  221 (469)
                      .+..||+|.. .+-+|-    +.| |-|..|.+|..+.+..+. .||  .|.+.+
T Consensus         9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kIL   63 (314)
T COG5220           9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKIL   63 (314)
T ss_pred             hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHH
Confidence            4558999984 566772    235 999999999999998876 699  788766

>KOG0530 consensus Protein farnesyltransferase, alpha subunit/protein geranylgeranyltransferase type I, alpha subunit [Posttranslational modification, protein turnover, chaperones]

Probab=91.32  E-value=1.4  Score=40.92  Aligned_cols=113  Identities=12%  Similarity=0.116  Sum_probs=69.4

Q ss_pred             ccCCCCCC----hhhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCccc
Q 012162            8 NEGEGSLP----WDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEY   83 (469)
Q Consensus         8 ~~~~~~~~----~~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   83 (469)
                      ..++.++.    ++.+.++..|...  ..++...-..|+..-..+|.++|.+..+|..|-.++-.++...          
T Consensus        27 dDg~npvv~I~Yte~fr~~m~YfRA--I~~~~E~S~RAl~LT~d~i~lNpAnYTVW~yRr~iL~~l~~dL----------   94 (318)
T KOG0530|consen   27 DDGPNPVVKIAYTEDFRDVMDYFRA--IIAKNEKSPRALQLTEDAIRLNPANYTVWQYRRVILRHLMSDL----------   94 (318)
T ss_pred             CCCCCcceEeeechhHHHHHHHHHH--HHhccccCHHHHHHHHHHHHhCcccchHHHHHHHHHHHhHHHH----------
Confidence            44444444    3566666666531  3344456678999999999999999999988888877665431          


Q ss_pred             CccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHH-HHHHHHhccccCCC
Q 012162           84 RPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYD-MARDAILSGLQVDP  144 (469)
Q Consensus        84 ~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~-~A~~~~~~al~~~p  144 (469)
                                  .+-+..+++.++-+|+|...|..+-.+...+|++. .-+...+.++..+.
T Consensus        95 ------------~~El~~l~eI~e~npKNYQvWHHRr~ive~l~d~s~rELef~~~~l~~Da  144 (318)
T KOG0530|consen   95 ------------NKELEYLDEIIEDNPKNYQVWHHRRVIVELLGDPSFRELEFTKLMLDDDA  144 (318)
T ss_pred             ------------HHHHHHHHHHHHhCccchhHHHHHHHHHHHhcCcccchHHHHHHHHhccc
Confidence                        44455555555555555555555555555555544 44444445554443

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=90.94  E-value=0.75  Score=51.90  Aligned_cols=105  Identities=12%  Similarity=-0.073  Sum_probs=55.1

Q ss_pred             HHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccc
Q 012162           31 RAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQS  110 (469)
Q Consensus        31 ~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p  110 (469)
                      .|-+-+.|++|.++|++.++---.....|...|..+++.++-                       ++|...+.+|++--|
T Consensus      1539 iy~k~ek~~~A~ell~~m~KKF~q~~~vW~~y~~fLl~~ne~-----------------------~aa~~lL~rAL~~lP 1595 (1710)
T KOG1070|consen 1539 IYEKSEKNDEADELLRLMLKKFGQTRKVWIMYADFLLRQNEA-----------------------EAARELLKRALKSLP 1595 (1710)
T ss_pred             HHHHhhcchhHHHHHHHHHHHhcchhhHHHHHHHHHhcccHH-----------------------HHHHHHHHHHHhhcc
Confidence            333445555555555555554444445555555555554444                       455555555555555


Q ss_pred             c--chHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHH
Q 012162          111 N--SMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  158 (469)
Q Consensus       111 ~--~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~  158 (469)
                      .  +.+..-..|+.-++.|+-+.++..|+-.+.-.|.-.+++......+.
T Consensus      1596 k~eHv~~IskfAqLEFk~GDaeRGRtlfEgll~ayPKRtDlW~VYid~ei 1645 (1710)
T KOG1070|consen 1596 KQEHVEFISKFAQLEFKYGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEI 1645 (1710)
T ss_pred             hhhhHHHHHHHHHHHhhcCCchhhHHHHHHHHhhCccchhHHHHHHHHHH
Confidence            5  44444445555555555555555555555555555555554444443

>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=90.93  E-value=0.17  Score=32.22  Aligned_cols=29  Identities=14%  Similarity=0.114  Sum_probs=26.7

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHhccccC
Q 012162          114 KSHLLKANALILLERYDMARDAILSGLQV  142 (469)
Q Consensus       114 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~  142 (469)
                      +.|..+|.+-...++|++|+.+|+++|++
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            57889999999999999999999999875

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 [].

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=90.91  E-value=0.34  Score=30.92  Aligned_cols=30  Identities=23%  Similarity=0.192  Sum_probs=26.1

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcC
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNI   51 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~   51 (469)
                      +..+...|..+...|+|++|..++++++++
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            456788999999999999999999999876

>PF07720 TPR_3: Tetratricopeptide repeat; InterPro: IPR011716 This entry includes tetratricopeptide-like repeats found in the LcrH/SycD-like chaperones []

Probab=90.51  E-value=0.31  Score=30.61  Aligned_cols=34  Identities=15%  Similarity=-0.013  Sum_probs=26.3

Q ss_pred             hHHHHHHHHHHHHHhHHHHHHHH--HhccccCCCCC
Q 012162          113 MKSHLLKANALILLERYDMARDA--ILSGLQVDPFS  146 (469)
Q Consensus       113 ~~~~~~~g~~~~~~~~~~~A~~~--~~~al~~~p~~  146 (469)
                      ++.++.+|..+...|+|++|++.  |.-+..+++.|
T Consensus         1 ~e~~y~~a~~~y~~~ky~~A~~~~~y~~l~~ld~~n   36 (36)
T PF07720_consen    1 PEYLYGLAYNFYQKGKYDEAIHFFQYAFLCALDKYN   36 (36)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHTTT-
T ss_pred             CcHHHHHHHHHHHHhhHHHHHHHHHHHHHHHhcccC
Confidence            35678899999999999999999  44777777654

; PDB: 3KS2_O 3GZ2_A 3GZ1_A 3GYZ_A 4AM9_A 2VGX_A 2VGY_A.

>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=90.43  E-value=0.35  Score=27.77  Aligned_cols=26  Identities=23%  Similarity=0.156  Sum_probs=22.7

Q ss_pred             hHHHHHHHHHHHHHhHHHHHHHHHhc
Q 012162          113 MKSHLLKANALILLERYDMARDAILS  138 (469)
Q Consensus       113 ~~~~~~~g~~~~~~~~~~~A~~~~~~  138 (469)
                      +.+++.+|.++...|++++|...+++
T Consensus         1 ~~a~~~la~~~~~~G~~~eA~~~l~~   26 (26)
T PF07721_consen    1 PRARLALARALLAQGDPDEAERLLRR   26 (26)
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHhC
Confidence            35788999999999999999998764

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

>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=90.22  E-value=0.15  Score=33.60  Aligned_cols=42  Identities=29%  Similarity=0.774  Sum_probs=24.9

Q ss_pred             ccccccccccccEEccC-CCcccHHHHHHHcccCCCccccccccc
Q 012162          179 DCTLCLKLLYEPITTPC-GHSFCRSCLFQSMDRGNKCPLCRAVLF  222 (469)
Q Consensus       179 ~C~ic~~~~~~p~~~~c-gh~~C~~Ci~~~~~~~~~CP~Cr~~~~  222 (469)
                      .|.-|.  |.+--.+.| .|-.|..|+.-.+..+..||.|..++.
T Consensus         4 nCKsCW--f~~k~Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LP   46 (50)
T PF03854_consen    4 NCKSCW--FANKGLIKCSDHYLCLNCLTLMLSRSDRCPICGKPLP   46 (50)
T ss_dssp             ---SS---S--SSEEE-SS-EEEHHHHHHT-SSSSEETTTTEE--
T ss_pred             cChhhh--hcCCCeeeecchhHHHHHHHHHhccccCCCcccCcCc
Confidence            355554  223323345 489999999999999999999999874

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.

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=90.19  E-value=2.3  Score=41.83  Aligned_cols=121  Identities=20%  Similarity=0.121  Sum_probs=89.1

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCC----CcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPG----DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA   95 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (469)
                      ..+..+...+..+.+.|.++.|...+.++...++.    .+.+....|..+...|+.                       
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            44677888899999999999999999999987633    355556566666666766                       


Q ss_pred             HHHHHHHHHHhhc--c--------------------------------ccchHHHHHHHHHHHHH------hHHHHHHHH
Q 012162           96 ELALKDAEKLLNL--Q--------------------------------SNSMKSHLLKANALILL------ERYDMARDA  135 (469)
Q Consensus        96 ~~A~~~~~~al~l--~--------------------------------p~~~~~~~~~g~~~~~~------~~~~~A~~~  135 (469)
                      .+|+..++..+..  .                                ....++++.+|.-...+      +.+++++..
T Consensus       201 ~~Ai~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~~a~w~~~~~~~~~~~~~~~~~~~  280 (352)
T PF02259_consen  201 EEAIQKLRELLKCRLSKNIDSISNAELKSGLLESLEVISSTNLDKESKELKAKAFLLLAKWLDELYSKLSSESSDEILKY  280 (352)
T ss_pred             HHHHHHHHHHHHHHhhhccccccHHHHhhccccccccccccchhhhhHHHHHHHHHHHHHHHHhhccccccccHHHHHHH
Confidence            7777776666651  0                                11245667777766666      888899999


Q ss_pred             HhccccCCCCCchhHHHHHHHHHhhhhh
Q 012162          136 ILSGLQVDPFSNPLQASLQNLERTTASL  163 (469)
Q Consensus       136 ~~~al~~~p~~~~~~~~~~~~~~~~~~~  163 (469)
                      |.++++++|++..+..........+-..
T Consensus       281 ~~~a~~~~~~~~k~~~~~a~~~~~~~~~  308 (352)
T PF02259_consen  281 YKEATKLDPSWEKAWHSWALFNDKLLES  308 (352)
T ss_pred             HHHHHHhChhHHHHHHHHHHHHHHHHHh
Confidence            9999999999888777776666555443

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>COG3914 Spy Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]

Probab=90.04  E-value=1.4  Score=45.49  Aligned_cols=106  Identities=13%  Similarity=-0.062  Sum_probs=84.8

Q ss_pred             HHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhc
Q 012162           29 GNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNL  108 (469)
Q Consensus        29 g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l  108 (469)
                      .-.+...++...|+.....++..+|++..++.++|.+....+...                      ..+....+.+...
T Consensus        74 si~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~L~~ale~~~~~~----------------------~~~~~~~~~a~~~  131 (620)
T COG3914          74 SILLAPLADSTLAFLAKRIPLSVNPENCPAVQNLAAALELDGLQF----------------------LALADISEIAEWL  131 (620)
T ss_pred             HhhccccccchhHHHHHhhhHhcCcccchHHHHHHHHHHHhhhHH----------------------HHHHHHHHHHHhc
Confidence            444556678888999999999999999999999999988877661                      4444555669999


Q ss_pred             cccchHHHHHH------HHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHH
Q 012162          109 QSNSMKSHLLK------ANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  156 (469)
Q Consensus       109 ~p~~~~~~~~~------g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~  156 (469)
                      .|++..+...+      |..+..+|+..++..+..++..+.|.++.+...+...
T Consensus       132 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~l~~~~d~~p~~~~~~~~~~~~  185 (620)
T COG3914         132 SPDNAEFLGHLIRFYQLGRYLKLLGRTAEAELALERAVDLLPKYPRVLGALMTA  185 (620)
T ss_pred             CcchHHHHhhHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhhhhhhHhHHHHH
Confidence            99998877777      8888889999999999999999999987655444333

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=89.90  E-value=2.5  Score=35.93  Aligned_cols=86  Identities=14%  Similarity=0.012  Sum_probs=75.4

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      +..+.+........+++.++.......--+.|+.+.+-..-|..++..|+|                       .+|+..
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            445566666677789999999999998889999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHH
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYD  130 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~  130 (469)
                      ++...+-.+..+.+--.++.+++.+|+.+
T Consensus        67 lr~l~~~~~~~p~~kAL~A~CL~al~Dp~   95 (153)
T TIGR02561        67 LRELLSSAGAPPYGKALLALCLNAKGDAE   95 (153)
T ss_pred             HHhhhccCCCchHHHHHHHHHHHhcCChH
Confidence            99999999998888888999999888863

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PHA02537 M terminase endonuclease subunit; Provisional

Probab=89.52  E-value=1.7  Score=40.03  Aligned_cols=122  Identities=12%  Similarity=0.123  Sum_probs=65.6

Q ss_pred             HHHhccHHHHHHHHHHHhcCCCCCccccc-chhHHHH-HHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhcc
Q 012162           32 AFRESNFEEAISNYSRANNIKPGDPIVLG-NRSSAYI-RISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQ  109 (469)
Q Consensus        32 ~~~~~~~~~A~~~y~~al~~~p~~~~~~~-~~a~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~  109 (469)
                      +|..|+|+.|++...-||+.+=.-|.-|. +.+.... ..-++......+...      .++..  -........-.++ 
T Consensus        93 ~~D~Gd~~~AL~ia~yAI~~~l~~Pd~f~R~~~t~vaeev~~~A~~~~~ag~~------~e~~~--~~~~~~l~~~~dm-  163 (230)
T PHA02537         93 RFDIGDFDGALEIAEYALEHGLTMPDQFRRTLANFVAEEVANAALKAASAGES------VEPYF--LRVFLDLTTEWDM-  163 (230)
T ss_pred             eeeccCHHHHHHHHHHHHHcCCCCCccccCCchHHHHHHHHHHHHHHHHcCCC------CChHH--HHHHHHHHhcCCC-
Confidence            45779999999999999998655554333 1111111 001110000000000      11110  1111111111112 


Q ss_pred             ccchHH--HHHHHHHH---------HHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhh
Q 012162          110 SNSMKS--HLLKANAL---------ILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  163 (469)
Q Consensus       110 p~~~~~--~~~~g~~~---------~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~  163 (469)
                      |+...+  |-..|..+         ...++...|+.++++|+++|| +...+..++++++.++..
T Consensus       164 pd~vrAKl~K~~G~~llr~~~g~~~~d~~~l~~Al~~L~rA~~l~~-k~GVK~~i~~l~~~lr~~  227 (230)
T PHA02537        164 PDEVRAKLYKAAGYLLLRNEKGEPIGDAETLQLALALLQRAFQLND-KCGVKKDIERLERRLKAL  227 (230)
T ss_pred             ChHHHHHHHHHHHHHHhhcccCCCccCcccHHHHHHHHHHHHHhCC-CCChHHHHHHHHHHHhhc
Confidence            444444  44456655         245678899999999999996 466777788888887643

>PRK13184 pknD serine/threonine-protein kinase; Reviewed

Probab=89.49  E-value=1.5  Score=48.77  Aligned_cols=111  Identities=16%  Similarity=0.082  Sum_probs=82.0

Q ss_pred             hHHHHHHhccHHHHHHHHHHHhcCCCCCccc---ccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHH
Q 012162           28 KGNRAFRESNFEEAISNYSRANNIKPGDPIV---LGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  104 (469)
Q Consensus        28 ~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  104 (469)
                      -.++.+..+.|++|+..|++.-.--|+....   .+..|.+.+..-+-               ..|+ ....+|+..|++
T Consensus       481 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~-~~~~~~~~~~~~  544 (932)
T PRK13184        481 VPDAFLAEKLYDQALIFYRRIRESFPGRKEGYEAQFRLGITLLEKASE---------------QGDP-RDFTQALSEFSY  544 (932)
T ss_pred             CcHHHHhhHHHHHHHHHHHHHhhcCCCcccchHHHHHhhHHHHHHHHh---------------cCCh-HHHHHHHHHHHH
Confidence            3466777889999999999999999987654   45556555443322               0111 122778887776


Q ss_pred             HhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHH
Q 012162          105 LLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  155 (469)
Q Consensus       105 al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~  155 (469)
                      .-. .|.-|--|..+|.+|..+|+|++-++.|.-|++.-|+++.+......
T Consensus       545 ~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  594 (932)
T PRK13184        545 LHG-GVGAPLEYLGKALVYQRLGEYNEEIKSLLLALKRYSQHPEISRLRDH  594 (932)
T ss_pred             hcC-CCCCchHHHhHHHHHHHhhhHHHHHHHHHHHHHhcCCCCccHHHHHH
Confidence            533 46667889999999999999999999999999999999987544433

>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]

Probab=89.12  E-value=0.18  Score=52.98  Aligned_cols=46  Identities=28%  Similarity=0.763  Sum_probs=39.4

Q ss_pred             cccccccccccccccEEccCCCcccHHHHHHHccc---CCCcccccccc
Q 012162          176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR---GNKCPLCRAVL  221 (469)
Q Consensus       176 ~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~---~~~CP~Cr~~~  221 (469)
                      ..++|+||...+..|+.+.|-|.||..|+...+..   ...||+|+..+
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            56799999999999999999999999999876653   34699999665

>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]

Probab=88.67  E-value=0.24  Score=55.25  Aligned_cols=47  Identities=28%  Similarity=0.745  Sum_probs=41.3

Q ss_pred             Ccccccccccccccc-ccEEccCCCcccHHHHHHHcccCCCccccccc
Q 012162          174 RTDDFDCTLCLKLLY-EPITTPCGHSFCRSCLFQSMDRGNKCPLCRAV  220 (469)
Q Consensus       174 ~~~~~~C~ic~~~~~-~p~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~  220 (469)
                      ....+.|++|++++. .-.+..|||.+|..|+..|+..+..||.|...
T Consensus      1150 ~~~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1150 LSGHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLYASSRCPICKSI 1197 (1394)
T ss_pred             hhcccchHHHHHHHHhcCCeeeechhHhhhHHHHHHHHhccCcchhhh
Confidence            345669999999999 55788999999999999999999999999854

>KOG2471 consensus TPR repeat-containing protein [General function prediction only]

Probab=88.43  E-value=0.41  Score=48.09  Aligned_cols=81  Identities=16%  Similarity=0.146  Sum_probs=69.0

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhc---------CCCC---------CcccccchhHHHHHHHhhhccCCCCCccc
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANN---------IKPG---------DPIVLGNRSSAYIRISQFLKHRPPSASEY   83 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~---------~~p~---------~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   83 (469)
                      .-.+.+.|-..|+.|.|..++.+|.+|++         +.|.         .-.++||.|..|+..|+.           
T Consensus       283 cif~NNlGcIh~~~~~y~~~~~~F~kAL~N~c~qL~~g~~~~~~~tls~nks~eilYNcG~~~Lh~grP-----------  351 (696)
T KOG2471|consen  283 CIFNNNLGCIHYQLGCYQASSVLFLKALRNSCSQLRNGLKPAKTFTLSQNKSMEILYNCGLLYLHSGRP-----------  351 (696)
T ss_pred             heeecCcceEeeehhhHHHHHHHHHHHHHHHHHHHhccCCCCcceehhcccchhhHHhhhHHHHhcCCc-----------
Confidence            34456788999999999999999999996         1221         237889999999999999           


Q ss_pred             CccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHH
Q 012162           84 RPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALIL  125 (469)
Q Consensus        84 ~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~  125 (469)
                                  -.|.+.|.+++..--.+|..|.++|.+...
T Consensus       352 ------------l~AfqCf~~av~vfh~nPrlWLRlAEcCim  381 (696)
T KOG2471|consen  352 ------------LLAFQCFQKAVHVFHRNPRLWLRLAECCIM  381 (696)
T ss_pred             ------------HHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence                        999999999999999999999999998754

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=88.10  E-value=1.3  Score=41.96  Aligned_cols=91  Identities=19%  Similarity=0.122  Sum_probs=68.6

Q ss_pred             HHHHHHhccHHHHHHHHHHHhcCCCCC----------------cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCc
Q 012162           29 GNRAFRESNFEEAISNYSRANNIKPGD----------------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPT   92 (469)
Q Consensus        29 g~~~~~~~~~~~A~~~y~~al~~~p~~----------------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (469)
                      |......+.+.++..++.......++.                ..++..++..+...+++                    
T Consensus       110 ~~~~~~~~~~~~~~~~~~~g~~~~d~~f~~WV~~~R~~l~e~~~~~l~~lae~~~~~~~~--------------------  169 (280)
T COG3629         110 GLKARAGLRFEQAGELLSEGPVLGDDRFDEWVLEQRRALEELFIKALTKLAEALIACGRA--------------------  169 (280)
T ss_pred             ccchhhhHHHHHHHHHhhcCCcCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccH--------------------
Confidence            444555567777777777522222211                14445556666666777                    


Q ss_pred             hhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccC
Q 012162           93 THAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQV  142 (469)
Q Consensus        93 ~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~  142 (469)
                         +.+...+++.+.++|.+-.+|..+-.+|...|+...|+..|++.-.+
T Consensus       170 ---~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~  216 (280)
T COG3629         170 ---DAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKT  216 (280)
T ss_pred             ---HHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHHH
Confidence               89999999999999999999999999999999999999999987663

>KOG0292 consensus Vesicle coat complex COPI, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.84  E-value=5.6  Score=43.16  Aligned_cols=191  Identities=18%  Similarity=0.202  Sum_probs=97.3

Q ss_pred             hhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC---cccccchhHHHHHHH-hhhccCCCCCcccCccCCCCCchh
Q 012162           19 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRIS-QFLKHRPPSASEYRPLNGLDPTTH   94 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~---~~~~~~~a~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~   94 (469)
                      ......-.++|..+...|.|.+|++.|..+|-.-|-.   ...-...+......+ .|+-.- +-..+.+.    -+...
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 LSQLNKKLQKGYKLTTEGKFGEAIEKFRSIIYSIPLLVVDSKEEEAEADELIKICREYIVGL-SVELERRK----LKKPN 1062 (1202)
T ss_pred             HHHHHHHHHHHHhhhccCcHHHHHHHHHHHHhheeEEEecchhhHHHHHHHHHHHHHHHhhh-eeeeeecc----cCCch
Confidence            4445666788999999999999999999998654421   000000111111111 120000 00000000    01111


Q ss_pred             HHHH--HHHHHHHhhccccchHHHHHHH-HHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhhhcccCCCC
Q 012162           95 AELA--LKDAEKLLNLQSNSMKSHLLKA-NALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIGRRIHGT  171 (469)
Q Consensus        95 ~~~A--~~~~~~al~l~p~~~~~~~~~g-~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~  171 (469)
                      ...+  +..|=.-..+.|-+.-.-.+.| .+++++++|..|-..-.+.+++.|..+.+...-+.....-++....-.   
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 LEQQLELAAYFTHCKLQPMHRILALRTAMNVFFKLKNLKTAAEFARRLLELAPSPPVAEQARKIKQAAEKNPTDAYE--- 1139 (1202)
T ss_pred             HHHHHHHHHHhhcCCCCcHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhCCCChHHHHHHHHHHHhhcCcccccc---
Confidence            2333  3333444567777655444444 477899999999999999999999877664332222221111111111   


Q ss_pred             CCCccccccccccccccccEE---ccCCCcccHHHHHHHcccCCCcccccc
Q 012162          172 PERTDDFDCTLCLKLLYEPIT---TPCGHSFCRSCLFQSMDRGNKCPLCRA  219 (469)
Q Consensus       172 ~~~~~~~~C~ic~~~~~~p~~---~~cgh~~C~~Ci~~~~~~~~~CP~Cr~  219 (469)
                      .+-++...-.||...+. |+.   -.|...||..|..... .++.|-+|.-
T Consensus      1140 l~yd~~n~f~iC~~t~~-Piy~g~p~~~cp~cga~y~~~~-~g~iCtvc~V 1188 (1202)
T KOG0292|consen 1140 LNYDPHNPFVICGATYV-PIYRGRPDVSCPYCGACFVPSS-KGNICTVCDV 1188 (1202)
T ss_pred             cCcccCCCeeEecccce-eeecCCCCcCCCcccceecccc-CCceeeeeee
Confidence            11111112235544332 332   2355667777765544 3457888864

>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length

Probab=87.64  E-value=0.41  Score=39.63  Aligned_cols=45  Identities=20%  Similarity=0.496  Sum_probs=33.8

Q ss_pred             ccccccccccccc--c-EEccCC------CcccHHHHHHHcccCCCcccccccc
Q 012162          177 DFDCTLCLKLLYE--P-ITTPCG------HSFCRSCLFQSMDRGNKCPLCRAVL  221 (469)
Q Consensus       177 ~~~C~ic~~~~~~--p-~~~~cg------h~~C~~Ci~~~~~~~~~CP~Cr~~~  221 (469)
                      ..+|.||++.+.+  - |.++||      |.||..|+.+|-......|-=|...
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~~rDPfnR~I~   79 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRERNRDPFNRNIK   79 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhhccCCCcccceE
Confidence            5689999998877  4 446777      6699999999965556677655443

The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.

>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]

Probab=87.62  E-value=0.23  Score=46.57  Aligned_cols=41  Identities=32%  Similarity=0.644  Sum_probs=29.0

Q ss_pred             cccccccc-ccccEEccCCCcccHHHHHHHcccCCCcccccccc
Q 012162          179 DCTLCLKL-LYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL  221 (469)
Q Consensus       179 ~C~ic~~~-~~~p~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~  221 (469)
                      .|.-|... ..--..+||.|.||.+|..  .+..+.||.|..++
T Consensus        92 fCd~Cd~PI~IYGRmIPCkHvFCl~CAr--~~~dK~Cp~C~d~V  133 (389)
T KOG2932|consen   92 FCDRCDFPIAIYGRMIPCKHVFCLECAR--SDSDKICPLCDDRV  133 (389)
T ss_pred             eecccCCcceeeecccccchhhhhhhhh--cCccccCcCcccHH
Confidence            57777542 2223458999999999974  33356899998776

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=87.53  E-value=2  Score=42.28  Aligned_cols=93  Identities=15%  Similarity=0.073  Sum_probs=70.9

Q ss_pred             HHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc-ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHH
Q 012162           25 LVQKGNRAFRESNFEEAISNYSRANNIKPGDP-IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  103 (469)
Q Consensus        25 ~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~  103 (469)
                      ....+....-.|+|+.|.+.|+-.+. +|..- -.+..+-..-.++|.+                       +.|..+++
T Consensus       123 hlLeAQaal~eG~~~~Ar~kfeAMl~-dPEtRllGLRgLyleAqr~Gar-----------------------eaAr~yAe  178 (531)
T COG3898         123 HLLEAQAALLEGDYEDARKKFEAMLD-DPETRLLGLRGLYLEAQRLGAR-----------------------EAARHYAE  178 (531)
T ss_pred             HHHHHHHHHhcCchHHHHHHHHHHhc-ChHHHHHhHHHHHHHHHhcccH-----------------------HHHHHHHH
Confidence            34567788889999999999988775 44321 1111111223356777                       89999999


Q ss_pred             HHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhcccc
Q 012162          104 KLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQ  141 (469)
Q Consensus       104 ~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~  141 (469)
                      ++-.+.|.-+.+....-......|+++.|++..+...+
T Consensus       179 ~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~  216 (531)
T COG3898         179 RAAEKAPQLPWAARATLEARCAAGDWDGALKLVDAQRA  216 (531)
T ss_pred             HHHhhccCCchHHHHHHHHHHhcCChHHHHHHHHHHHH
Confidence            99999999999999988899999999999998887654

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=87.45  E-value=1.8  Score=46.42  Aligned_cols=97  Identities=11%  Similarity=-0.022  Sum_probs=65.4

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHH----------hcCCCC----------CcccccchhHHHHHHHhhhccCCCCCcc
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRA----------NNIKPG----------DPIVLGNRSSAYIRISQFLKHRPPSASE   82 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~a----------l~~~p~----------~~~~~~~~a~~~~~~~~~~~~~~~~~~~   82 (469)
                      ..|++.|..+-..+|.+.|+++|+++          |.-+|.          ++.+|.+-|.-.-..|+.          
T Consensus       859 ~Tyy~yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~Gem----------  928 (1416)
T KOG3617|consen  859 NTYYNYAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEM----------  928 (1416)
T ss_pred             hhHHHHHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccch----------
Confidence            45677777888889999999999876          233443          233333333333333333          


Q ss_pred             cCccCCCCCchhHHHHHHHHHHHhh---------------------ccccchHHHHHHHHHHHHHhHHHHHHHHHhcccc
Q 012162           83 YRPLNGLDPTTHAELALKDAEKLLN---------------------LQSNSMKSHLLKANALILLERYDMARDAILSGLQ  141 (469)
Q Consensus        83 ~~~~~~~~~~~~~~~A~~~~~~al~---------------------l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~  141 (469)
                                   +.|+..|..|-+                     -...+-.|.|.+|.-|...|++.+|+..|.+|-.
T Consensus       929 -------------daAl~~Y~~A~D~fs~VrI~C~qGk~~kAa~iA~esgd~AAcYhlaR~YEn~g~v~~Av~FfTrAqa  995 (1416)
T KOG3617|consen  929 -------------DAALSFYSSAKDYFSMVRIKCIQGKTDKAARIAEESGDKAACYHLARMYENDGDVVKAVKFFTRAQA  995 (1416)
T ss_pred             -------------HHHHHHHHHhhhhhhheeeEeeccCchHHHHHHHhcccHHHHHHHHHHhhhhHHHHHHHHHHHHHHH
Confidence                         666666655432                     2356677899999999999999999999888754


Q ss_pred             C
Q 012162          142 V  142 (469)
Q Consensus       142 ~  142 (469)
                      +
T Consensus       996 f  996 (1416)
T KOG3617|consen  996 F  996 (1416)
T ss_pred             H
Confidence            3

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.27  E-value=7.3  Score=36.06  Aligned_cols=100  Identities=17%  Similarity=0.170  Sum_probs=66.5

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC------cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA   95 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (469)
                      +.....++-.....-++++|+.+|++++.+--.+      ...+...+..+.++++|                       
T Consensus       110 AAmaleKAak~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf-----------------------  166 (308)
T KOG1585|consen  110 AAMALEKAAKALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKF-----------------------  166 (308)
T ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHh-----------------------
Confidence            3444556666677778888999999887763322      24555666778888888                       


Q ss_pred             HHHHHHHHH----Hhhcc--ccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCC
Q 012162           96 ELALKDAEK----LLNLQ--SNSMKSHLLKANALILLERYDMARDAILSGLQVDP  144 (469)
Q Consensus        96 ~~A~~~~~~----al~l~--p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p  144 (469)
                      .+|-..+.+    +++.+  ++..+++...-.+|....+|..|...|+..-++..
T Consensus       167 ~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~  221 (308)
T KOG1585|consen  167 TEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPA  221 (308)
T ss_pred             hHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCcc
Confidence            666555443    33333  34445565555666777899999999999777643

>cd02682 MIT_AAA_Arch MIT: domain contained within Microtubule Interacting and Trafficking molecules

Probab=86.79  E-value=7.7  Score=28.89  Aligned_cols=30  Identities=30%  Similarity=0.356  Sum_probs=19.5

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhc
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANN   50 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~   50 (469)
                      .+..+..+|..+=+.|+|.+|+.+|++|++
T Consensus         5 ~A~~~a~~AVe~D~~gr~~eAi~~Y~~aIe   34 (75)
T cd02682           5 MARKYAINAVKAEKEGNAEDAITNYKKAIE   34 (75)
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            355666667777777777777776655544

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=86.68  E-value=0.39  Score=46.04  Aligned_cols=60  Identities=30%  Similarity=0.557  Sum_probs=43.1

Q ss_pred             CCccccccccccccccccEE-ccCCCcccHHHHHHHcccCCCccccccccccCCCcccCcccHHHHHHH
Q 012162          173 ERTDDFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQK  240 (469)
Q Consensus       173 ~~~~~~~C~ic~~~~~~p~~-~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~  240 (469)
                      ...+.++||+|.+.+.-|+- =+=||.-|..|-.   .....||.||.++..     .-++++..+++.
T Consensus        44 ~~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g~-----~R~~amEkV~e~  104 (299)
T KOG3002|consen   44 LDLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRT---KVSNKCPTCRLPIGN-----IRCRAMEKVAEA  104 (299)
T ss_pred             cchhhccCchhhccCcccceecCCCcEehhhhhh---hhcccCCcccccccc-----HHHHHHHHHHHh
Confidence            35577899999999998853 4668999999965   334689999998741     134455555554

>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=86.56  E-value=0.88  Score=28.97  Aligned_cols=30  Identities=30%  Similarity=0.413  Sum_probs=26.3

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCC
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIK   52 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~   52 (469)
                      +.+...|...+..++|++|+..|.+++++.
T Consensus         2 dv~~~Lgeisle~e~f~qA~~D~~~aL~i~   31 (38)
T PF10516_consen    2 DVYDLLGEISLENENFEQAIEDYEKALEIQ   31 (38)
T ss_pred             cHHHHHHHHHHHhccHHHHHHHHHHHHHHH
Confidence            456778999999999999999999999863

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 [].

>PF12862 Apc5: Anaphase-promoting complex subunit 5

Probab=86.13  E-value=1  Score=35.23  Aligned_cols=52  Identities=13%  Similarity=0.105  Sum_probs=40.7

Q ss_pred             HHHHHHHHHHhhccc---------cchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCc
Q 012162           96 ELALKDAEKLLNLQS---------NSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  147 (469)
Q Consensus        96 ~~A~~~~~~al~l~p---------~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~  147 (469)
                      ..|++.+.+..+...         ....+...+|.++...|++++|+..+++|+++.....
T Consensus        15 ~~A~d~L~~~fD~~~~~~~~~~~~~~~~all~lA~~~~~~G~~~~A~~~l~eAi~~Are~~   75 (94)
T PF12862_consen   15 SEALDALHRYFDYAKQSNNSSSNSGLAYALLNLAELHRRFGHYEEALQALEEAIRLARENG   75 (94)
T ss_pred             HHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHC
Confidence            888887777766432         1245778899999999999999999999998865443

>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=86.12  E-value=0.53  Score=46.00  Aligned_cols=47  Identities=26%  Similarity=0.537  Sum_probs=36.7

Q ss_pred             ccccccccccccccc---cEEccCCCcccHHHHHHHcccC---CCcccccccc
Q 012162          175 TDDFDCTLCLKLLYE---PITTPCGHSFCRSCLFQSMDRG---NKCPLCRAVL  221 (469)
Q Consensus       175 ~~~~~C~ic~~~~~~---p~~~~cgh~~C~~Ci~~~~~~~---~~CP~Cr~~~  221 (469)
                      ...|.|||-.+.-.+   |+.+.|||..|+.-+.+...++   +.||-|-...
T Consensus       332 HSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~  384 (394)
T KOG2817|consen  332 HSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQ  384 (394)
T ss_pred             cceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCccc
Confidence            456789988875443   6889999999999999887654   4799997553

>COG4941 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]

Probab=85.81  E-value=3.9  Score=39.42  Aligned_cols=97  Identities=22%  Similarity=0.169  Sum_probs=65.2

Q ss_pred             cHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhc--cccchH
Q 012162           37 NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNL--QSNSMK  114 (469)
Q Consensus        37 ~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l--~p~~~~  114 (469)
                      ||..-..+|+-...+.| +|.+-.|+|.+.....-.                       ..++...+....-  -..+..
T Consensus       311 DW~~I~aLYdaL~~~ap-SPvV~LNRAVAla~~~Gp-----------------------~agLa~ve~L~~~~~L~gy~~  366 (415)
T COG4941         311 DWPAIDALYDALEQAAP-SPVVTLNRAVALAMREGP-----------------------AAGLAMVEALLARPRLDGYHL  366 (415)
T ss_pred             ChHHHHHHHHHHHHhCC-CCeEeehHHHHHHHhhhH-----------------------HhHHHHHHHhhcccccccccc
Confidence            34444455555555555 466677788777655444                       5555555544443  233445


Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHH
Q 012162          115 SHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  157 (469)
Q Consensus       115 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~  157 (469)
                      .+-..|..+..+|+.++|...|++|+.+.++..+......++.
T Consensus       367 ~h~~RadlL~rLgr~~eAr~aydrAi~La~~~aer~~l~~r~~  409 (415)
T COG4941         367 YHAARADLLARLGRVEEARAAYDRAIALARNAAERAFLRQRLD  409 (415)
T ss_pred             cHHHHHHHHHHhCChHHHHHHHHHHHHhcCChHHHHHHHHHHH
Confidence            6677899999999999999999999999998877655554443

>PF14863 Alkyl_sulf_dimr: Alkyl sulfatase dimerisation; PDB: 2YHE_C 2CG2_A 2CG3_A 2CFU_A 2CFZ_A

Probab=84.37  E-value=1.4  Score=37.26  Aligned_cols=51  Identities=8%  Similarity=0.079  Sum_probs=43.8

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhh
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF   72 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~   72 (469)
                      ++.+..++..++..|+|.-|..+.+.++..+|++..+...++.+|.+++.-
T Consensus        70 ~d~vl~~A~~~~~~gd~~wA~~L~d~l~~adp~n~~ar~l~A~al~~lg~~  120 (141)
T PF14863_consen   70 ADKVLERAQAALAAGDYQWAAELLDHLVFADPDNEEARQLKADALEQLGYQ  120 (141)
T ss_dssp             HHHHHHHHHHHHHCT-HHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHh
Confidence            567788999999999999999999999999999999999999999888864

>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]

Probab=84.23  E-value=4.2  Score=44.07  Aligned_cols=35  Identities=37%  Similarity=0.859  Sum_probs=27.5

Q ss_pred             Cccccccccccc-cccccE-EccCCCcccHHHHHHHc
Q 012162          174 RTDDFDCTLCLK-LLYEPI-TTPCGHSFCRSCLFQSM  208 (469)
Q Consensus       174 ~~~~~~C~ic~~-~~~~p~-~~~cgh~~C~~Ci~~~~  208 (469)
                      .+..-.|.+|.. ++..|. .+||||.|.++|+.+..
T Consensus       814 ~ep~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  814 LEPQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHV  850 (911)
T ss_pred             ecCccchHHhcchhhcCcceeeeccchHHHHHHHHHH
Confidence            445568999997 556674 57999999999998753

>COG3914 Spy Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]

Probab=84.14  E-value=4.3  Score=42.08  Aligned_cols=97  Identities=18%  Similarity=0.059  Sum_probs=73.1

Q ss_pred             HhccHHH-HHHHHHHHhcCCCCCcccccc--hhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccc
Q 012162           34 RESNFEE-AISNYSRANNIKPGDPIVLGN--RSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQS  110 (469)
Q Consensus        34 ~~~~~~~-A~~~y~~al~~~p~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p  110 (469)
                      ..++... |+..|...+.++|.++.++..  ++..+..++..                       ..+......++..+|
T Consensus        42 ~~~~~~~~~~~a~~~~~~~~~~~~~llla~~lsi~~~~~~~~-----------------------~~~~~~~~~~l~~~~   98 (620)
T COG3914          42 NAEGLQALAIYALLLGIAINDVNPELLLAAFLSILLAPLADS-----------------------TLAFLAKRIPLSVNP   98 (620)
T ss_pred             cccCchhHHHHHHHccCccCCCCHHHHHHHHHHhhccccccc-----------------------hhHHHHHhhhHhcCc
Confidence            3344444 788888888899998876432  24444444444                       678888999999999


Q ss_pred             cchHHHHHHHHHHHHHhHHHHHHHHHhc-cccCCCCCchhHHHH
Q 012162          111 NSMKSHLLKANALILLERYDMARDAILS-GLQVDPFSNPLQASL  153 (469)
Q Consensus       111 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~-al~~~p~~~~~~~~~  153 (469)
                      +++.++.++|.++...|....+...+.+ +....|+|......+
T Consensus        99 ~~~~~~~~L~~ale~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~  142 (620)
T COG3914          99 ENCPAVQNLAAALELDGLQFLALADISEIAEWLSPDNAEFLGHL  142 (620)
T ss_pred             ccchHHHHHHHHHHHhhhHHHHHHHHHHHHHhcCcchHHHHhhH
Confidence            9999999999999888887777766666 889999988765554

>PF10373 EST1_DNA_bind: Est1 DNA/RNA binding domain; InterPro: IPR018834 Est1 is a protein which recruits or activates telomerase at the site of polymerisation [, ]

Probab=84.00  E-value=2  Score=40.81  Aligned_cols=62  Identities=16%  Similarity=-0.084  Sum_probs=49.0

Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHh
Q 012162           98 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERT  159 (469)
Q Consensus        98 A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~  159 (469)
                      |..+|.+|+.+.|++...|+.+|.++...|+.=+|+-+|-+++...--.+.+..++..+=++
T Consensus         1 A~~~Y~~A~~l~P~~G~p~nQLAvl~~~~~~~l~avy~y~Rsl~~~~Pf~~A~~NL~~lf~~   62 (278)
T PF10373_consen    1 AERYYRKAIRLLPSNGNPYNQLAVLASYQGDDLDAVYYYIRSLAVRIPFPSARENLQKLFEK   62 (278)
T ss_dssp             HHHHHHHHHHH-TTBSHHHHHHHHHHHHTT-HHHHHHHHHHHHSSSB--HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHhCCCCCCcccchhhhhccccchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHH
Confidence            67889999999999999999999999999999999999999987654456666666555444

This is the DNA/RNA binding domain of EST1 []. ; PDB: 1YA0_B.

>PF12862 Apc5: Anaphase-promoting complex subunit 5

Probab=83.49  E-value=2.1  Score=33.48  Aligned_cols=58  Identities=22%  Similarity=0.283  Sum_probs=45.7

Q ss_pred             HHHHHhccHHHHHHHHHHHhcCCCCC---------cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           30 NRAFRESNFEEAISNYSRANNIKPGD---------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        30 ~~~~~~~~~~~A~~~y~~al~~~p~~---------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ....+.|||.+|++.+.+.++.....         ..+..++|..+...|++                       ++|+.
T Consensus         6 ~~~~~~~dy~~A~d~L~~~fD~~~~~~~~~~~~~~~~all~lA~~~~~~G~~-----------------------~~A~~   62 (94)
T PF12862_consen    6 LNALRSGDYSEALDALHRYFDYAKQSNNSSSNSGLAYALLNLAELHRRFGHY-----------------------EEALQ   62 (94)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHHHHHHhCCH-----------------------HHHHH
Confidence            34567899999988888887663322         34567788889999999                       99999


Q ss_pred             HHHHHhhccc
Q 012162          101 DAEKLLNLQS  110 (469)
Q Consensus       101 ~~~~al~l~p  110 (469)
                      .+++|+++.-
T Consensus        63 ~l~eAi~~Ar   72 (94)
T PF12862_consen   63 ALEEAIRLAR   72 (94)
T ss_pred             HHHHHHHHHH
Confidence            9999998754

>PHA03096 p28-like protein; Provisional

Probab=83.44  E-value=0.55  Score=44.72  Aligned_cols=42  Identities=24%  Similarity=0.328  Sum_probs=29.5

Q ss_pred             cccccccccccc-c-------EEccCCCcccHHHHHHHcccC---CCcccccc
Q 012162          178 FDCTLCLKLLYE-P-------ITTPCGHSFCRSCLFQSMDRG---NKCPLCRA  219 (469)
Q Consensus       178 ~~C~ic~~~~~~-p-------~~~~cgh~~C~~Ci~~~~~~~---~~CP~Cr~  219 (469)
                      -.|.||++.... +       +...|.|.||..|+..|....   ..||.||.
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~  231 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR  231 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence            579999985443 2       234799999999999986532   24666654

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

Probab=83.29  E-value=1.1  Score=43.37  Aligned_cols=82  Identities=15%  Similarity=0.054  Sum_probs=69.2

Q ss_pred             HHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHH
Q 012162           26 VQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKL  105 (469)
Q Consensus        26 ~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a  105 (469)
                      .+.+...++.+++..|+..-..+++.++....+|+.++.+++.+.++                       ++|+++...+
T Consensus       279 ~n~~~~~lk~~~~~~a~~~~~~~~~~~~s~tka~~Rr~~~~~~~~~~-----------------------~~a~~~~~~a  335 (372)
T KOG0546|consen  279 RNLAAVGLKVKGRGGARFRTNEALRDERSKTKAHYRRGQAYKLLKNY-----------------------DEALEDLKKA  335 (372)
T ss_pred             cchHHhcccccCCCcceeccccccccChhhCcHHHHHHhHHHhhhch-----------------------hhhHHHHHHh
Confidence            34566777889999999998999999999999999999999999999                       9999999999


Q ss_pred             hhccccchHHHHHHHHHHHHHhHHH
Q 012162          106 LNLQSNSMKSHLLKANALILLERYD  130 (469)
Q Consensus       106 l~l~p~~~~~~~~~g~~~~~~~~~~  130 (469)
                      ....|++....-.+..+-....++.
T Consensus       336 ~~~~p~d~~i~~~~~~~~~~~~~~~  360 (372)
T KOG0546|consen  336 KQKAPNDKAIEEELENVRQKKKQYN  360 (372)
T ss_pred             hccCcchHHHHHHHHHhhhHHHHHH
Confidence            9999999877666666555544443

>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=83.12  E-value=0.67  Score=31.56  Aligned_cols=42  Identities=24%  Similarity=0.586  Sum_probs=21.2

Q ss_pred             cccccccccccccEE-ccCCCcccHHHHHHHcc-----cCCCccccccc
Q 012162          178 FDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMD-----RGNKCPLCRAV  220 (469)
Q Consensus       178 ~~C~ic~~~~~~p~~-~~cgh~~C~~Ci~~~~~-----~~~~CP~Cr~~  220 (469)
                      +.|++....+..|+. ..|.|.-|-+= ..++.     ..-.||.|+++
T Consensus         3 L~CPls~~~i~~P~Rg~~C~H~~CFDl-~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    3 LRCPLSFQRIRIPVRGKNCKHLQCFDL-ESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             SB-TTTSSB-SSEEEETT--SS--EEH-HHHHHHHHHS---B-TTT---
T ss_pred             eeCCCCCCEEEeCccCCcCcccceECH-HHHHHHhhccCCeECcCCcCc
Confidence            679999999999987 69999866432 22222     22379999863

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.

>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=83.11  E-value=3.9  Score=40.97  Aligned_cols=34  Identities=29%  Similarity=0.757  Sum_probs=25.2

Q ss_pred             ccccccccccccccc----EEccCCCcccHHHHHHHcc
Q 012162          176 DDFDCTLCLKLLYEP----ITTPCGHSFCRSCLFQSMD  209 (469)
Q Consensus       176 ~~~~C~ic~~~~~~p----~~~~cgh~~C~~Ci~~~~~  209 (469)
                      ...+|.+|..-...+    .+..|+|.||..|..++.+
T Consensus       145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~ie  182 (384)
T KOG1812|consen  145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIE  182 (384)
T ss_pred             ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhh
Confidence            456899999333222    2457999999999998876

>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=83.09  E-value=4.4  Score=34.98  Aligned_cols=62  Identities=16%  Similarity=-0.058  Sum_probs=52.3

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHH
Q 012162           96 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  157 (469)
Q Consensus        96 ~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~  157 (469)
                      +.+...+...--+.|+.+..-..-|+.+...|++.+|+..|+...+-.|..+..+..+.-+-
T Consensus        27 ~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL   88 (160)
T PF09613_consen   27 DDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCL   88 (160)
T ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHH
Confidence            67777777777799999999999999999999999999999999888888877665554443

>PF10373 EST1_DNA_bind: Est1 DNA/RNA binding domain; InterPro: IPR018834 Est1 is a protein which recruits or activates telomerase at the site of polymerisation [, ]

Probab=83.01  E-value=1.9  Score=40.85  Aligned_cols=62  Identities=10%  Similarity=-0.117  Sum_probs=52.1

Q ss_pred             HHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHH
Q 012162           41 AISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKA  120 (469)
Q Consensus        41 A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g  120 (469)
                      |..+|.+|+.+.|++...|+.+|..+...|+.                       -.|+-+|-+++-..--.+.|..++.
T Consensus         1 A~~~Y~~A~~l~P~~G~p~nQLAvl~~~~~~~-----------------------l~avy~y~Rsl~~~~Pf~~A~~NL~   57 (278)
T PF10373_consen    1 AERYYRKAIRLLPSNGNPYNQLAVLASYQGDD-----------------------LDAVYYYIRSLAVRIPFPSARENLQ   57 (278)
T ss_dssp             HHHHHHHHHHH-TTBSHHHHHHHHHHHHTT-H-----------------------HHHHHHHHHHHSSSB--HHHHHHHH
T ss_pred             CHHHHHHHHHhCCCCCCcccchhhhhccccch-----------------------HHHHHHHHHHHhcCCCcHHHHHHHH
Confidence            78899999999999999999999999999998                       8899999999887666688888888


Q ss_pred             HHHHH
Q 012162          121 NALIL  125 (469)
Q Consensus       121 ~~~~~  125 (469)
                      ..+..
T Consensus        58 ~lf~~   62 (278)
T PF10373_consen   58 KLFEK   62 (278)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            87776

This is the DNA/RNA binding domain of EST1 []. ; PDB: 1YA0_B.

>PF07720 TPR_3: Tetratricopeptide repeat; InterPro: IPR011716 This entry includes tetratricopeptide-like repeats found in the LcrH/SycD-like chaperones []

Probab=82.95  E-value=2.8  Score=26.31  Aligned_cols=33  Identities=15%  Similarity=0.174  Sum_probs=25.0

Q ss_pred             HHHHHhHHHHHHhccHHHHHHH--HHHHhcCCCCC
Q 012162           23 FDLVQKGNRAFRESNFEEAISN--YSRANNIKPGD   55 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~--y~~al~~~p~~   55 (469)
                      +.+...|-.++.+|+|++|+..  |.-+..+++.|
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            3456778999999999999999  54877777654

; PDB: 3KS2_O 3GZ2_A 3GZ1_A 3GYZ_A 4AM9_A 2VGX_A 2VGY_A.

>COG5191 Uncharacterized conserved protein, contains HAT (Half-A-TPR) repeat [General function prediction only]

Probab=82.84  E-value=3.6  Score=39.28  Aligned_cols=76  Identities=12%  Similarity=-0.003  Sum_probs=61.0

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccc-hhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGN-RSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA   98 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~-~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A   98 (469)
                      .+..-|..-+.-..+.|-|.+--..|.+++...|.|.++|.. -+.-|...+++                       ..+
T Consensus       105 ~D~k~w~~y~~Y~~k~k~y~~~~nI~~~~l~khP~nvdlWI~~c~~e~~~~ani-----------------------~s~  161 (435)
T COG5191         105 NDPKIWSQYAAYVIKKKMYGEMKNIFAECLTKHPLNVDLWIYCCAFELFEIANI-----------------------ESS  161 (435)
T ss_pred             CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCceeeeeeccchhhhhccH-----------------------HHH
Confidence            344555556666667788889999999999999999999976 44556677888                       899


Q ss_pred             HHHHHHHhhccccchHHHHH
Q 012162           99 LKDAEKLLNLQSNSMKSHLL  118 (469)
Q Consensus        99 ~~~~~~al~l~p~~~~~~~~  118 (469)
                      ...+.++++++|++|..|+.
T Consensus       162 Ra~f~~glR~N~~~p~iw~e  181 (435)
T COG5191         162 RAMFLKGLRMNSRSPRIWIE  181 (435)
T ss_pred             HHHHHhhhccCCCCchHHHH
Confidence            99999999999999887653

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=82.77  E-value=6  Score=39.80  Aligned_cols=78  Identities=15%  Similarity=0.195  Sum_probs=59.6

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      .......|.-+|..|+|.++..+-.-..+++| .+.+|..+|.|.+...+|                       .+|...
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            34445678889999999999999999999999 899999999999999999                       999887


Q ss_pred             HHHHhhccccchHHHHHHHHHHH
Q 012162          102 AEKLLNLQSNSMKSHLLKANALI  124 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~  124 (469)
                      +...-- +.+-.++....|.++.
T Consensus       518 l~~LP~-n~~~~dskvqKAl~lC  539 (549)
T PF07079_consen  518 LQKLPP-NERMRDSKVQKALALC  539 (549)
T ss_pred             HHhCCC-chhhHHHHHHHHHHHH
Confidence            765422 2222344444555443

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=82.60  E-value=8.9  Score=38.86  Aligned_cols=98  Identities=14%  Similarity=0.172  Sum_probs=65.8

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      .+......-......||...|-.-...+++..|.+|..-..++.++..+|+|                       +.|..
T Consensus       288 ~~~~~~~si~k~~~~gd~~aas~~~~~~lr~~~~~p~~i~l~~~i~~~lg~y-----------------------e~~~~  344 (831)
T PRK15180        288 QIREITLSITKQLADGDIIAASQQLFAALRNQQQDPVLIQLRSVIFSHLGYY-----------------------EQAYQ  344 (831)
T ss_pred             chhHHHHHHHHHhhccCHHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhhhH-----------------------HHHHH
Confidence            3444445556677889999999999999999999999999999999999999                       66665


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhcccc
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQ  141 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~  141 (469)
                      +..-+-..-..-.++..-+-..+..+|++++|...-.-.|.
T Consensus       345 ~~s~~~~~~~s~~~~~~~~~r~~~~l~r~~~a~s~a~~~l~  385 (831)
T PRK15180        345 DISDVEKIIGTTDSTLRCRLRSLHGLARWREALSTAEMMLS  385 (831)
T ss_pred             HhhchhhhhcCCchHHHHHHHhhhchhhHHHHHHHHHHHhc
Confidence            55444333333333444444445555555555554444443

>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=82.52  E-value=5.5  Score=29.86  Aligned_cols=45  Identities=18%  Similarity=0.124  Sum_probs=36.3

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHH---HHHHHHhHHHHHHHHHhccc
Q 012162           96 ELALKDAEKLLNLQSNSMKSHLLKA---NALILLERYDMARDAILSGL  140 (469)
Q Consensus        96 ~~A~~~~~~al~l~p~~~~~~~~~g---~~~~~~~~~~~A~~~~~~al  140 (469)
                      ++|+..+.++++..++.+..+..+|   .+|...|+|.+++++..+=+
T Consensus        23 ~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~fA~~Q~   70 (80)
T PF10579_consen   23 QQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAFALQQL   70 (80)
T ss_pred             HHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999999888777666655   46789999999887755433

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

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=82.23  E-value=16  Score=34.90  Aligned_cols=124  Identities=17%  Similarity=0.169  Sum_probs=80.1

Q ss_pred             hhhhhHHHHHHhHHHHHHhc-cHHHHHHHHHHHhcC----CC---CCc-------ccccchhHHHHHHHhhhccCCCCCc
Q 012162           17 DRYTHVFDLVQKGNRAFRES-NFEEAISNYSRANNI----KP---GDP-------IVLGNRSSAYIRISQFLKHRPPSAS   81 (469)
Q Consensus        17 ~~~~~~~~~~~~g~~~~~~~-~~~~A~~~y~~al~~----~p---~~~-------~~~~~~a~~~~~~~~~~~~~~~~~~   81 (469)
                      ....-+..+++-|...+.++ +|+.|+..+++|+++    ..   ..+       .++..++.+|+..+.+         
T Consensus        30 ~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr~~iL~~La~~~l~~~~~---------  100 (278)
T PF08631_consen   30 MAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELRLSILRLLANAYLEWDTY---------  100 (278)
T ss_pred             HHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHHHHHHHHHHHHHHcCCCh---------
Confidence            34455788889999999999 999999999999988    22   222       2333344444443332         


Q ss_pred             ccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCC-CCchhHHHHHHHHHhh
Q 012162           82 EYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP-FSNPLQASLQNLERTT  160 (469)
Q Consensus        82 ~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~  160 (469)
                                 +...+|....+.+-.--|+.+..++..=.++...++.+++.+.+.+.+.--+ ........+..+.+..
T Consensus       101 -----------~~~~ka~~~l~~l~~e~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~~~e~~~~~~l~~i~~l~  169 (278)
T PF08631_consen  101 -----------ESVEKALNALRLLESEYGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSVDHSESNFDSILHHIKQLA  169 (278)
T ss_pred             -----------HHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhcccccchHHHHHHHHHHHH
Confidence                       2335666666666666788777776655666667888888888888876443 2333444444444433

It is also involved in sporulation [].

>KOG2979 consensus Protein involved in DNA repair [General function prediction only]

Probab=81.69  E-value=1.1  Score=41.35  Aligned_cols=43  Identities=21%  Similarity=0.431  Sum_probs=35.5

Q ss_pred             cccccccccccccccEE-ccCCCcccHHHHHHHccc--CCCccccc
Q 012162          176 DDFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDR--GNKCPLCR  218 (469)
Q Consensus       176 ~~~~C~ic~~~~~~p~~-~~cgh~~C~~Ci~~~~~~--~~~CP~Cr  218 (469)
                      -.+.||+....+.+|+. ..|||.|-+.-|...+..  +..||+=+
T Consensus       175 fs~rdPis~~~I~nPviSkkC~HvydrDsI~~~l~~~~~i~CPv~g  220 (262)
T KOG2979|consen  175 FSNRDPISKKPIVNPVISKKCGHVYDRDSIMQILCDEITIRCPVLG  220 (262)
T ss_pred             hcccCchhhhhhhchhhhcCcCcchhhhhHHHHhccCceeeccccc
Confidence            34589999999999975 699999999999998865  45799843

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=81.23  E-value=3.5  Score=39.17  Aligned_cols=63  Identities=14%  Similarity=0.139  Sum_probs=55.7

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ...+...+..+...|+++.++..+++.+..+|.+-.+|..+-.+|++.|+.                       ..|+..
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~-----------------------~~ai~~  209 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQ-----------------------SAAIRA  209 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCc-----------------------hHHHHH
Confidence            456667888899999999999999999999999999999999999999999                       888887


Q ss_pred             HHHHhh
Q 012162          102 AEKLLN  107 (469)
Q Consensus       102 ~~~al~  107 (469)
                      |++.-+
T Consensus       210 y~~l~~  215 (280)
T COG3629         210 YRQLKK  215 (280)
T ss_pred             HHHHHH
Confidence            776644

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=80.67  E-value=6.2  Score=38.60  Aligned_cols=100  Identities=14%  Similarity=-0.034  Sum_probs=73.3

Q ss_pred             HHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHH
Q 012162           42 ISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKAN  121 (469)
Q Consensus        42 ~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~  121 (469)
                      ...|++.++-+|.|..+|..+....-.+-..  +...         .......++..+..+++|++.+|++...+..+-.
T Consensus         5 ~~el~~~v~~~P~di~~Wl~li~~Qd~~~~~--~~~~---------~~~~~a~~E~klsilerAL~~np~~~~L~l~~l~   73 (321)
T PF08424_consen    5 TAELNRRVRENPHDIEAWLELIEFQDELFRL--QSSS---------KAERRALAERKLSILERALKHNPDSERLLLGYLE   73 (321)
T ss_pred             HHHHHHHHHhCcccHHHHHHHHHHHHHhccc--cccc---------hhhHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            3568889999999999887655544333221  0000         1222344578889999999999999998888877


Q ss_pred             HHHHHhHHHHHHHHHhccccCCCCCchhHHH
Q 012162          122 ALILLERYDMARDAILSGLQVDPFSNPLQAS  152 (469)
Q Consensus       122 ~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~  152 (469)
                      ......+-++..+-+++++..+|++..++..
T Consensus        74 ~~~~~~~~~~l~~~we~~l~~~~~~~~LW~~  104 (321)
T PF08424_consen   74 EGEKVWDSEKLAKKWEELLFKNPGSPELWRE  104 (321)
T ss_pred             HHHHhCCHHHHHHHHHHHHHHCCCChHHHHH
Confidence            7888888888899999999999998776543

>PF14863 Alkyl_sulf_dimr: Alkyl sulfatase dimerisation; PDB: 2YHE_C 2CG2_A 2CG3_A 2CFU_A 2CFZ_A

Probab=80.08  E-value=4  Score=34.57  Aligned_cols=82  Identities=15%  Similarity=0.122  Sum_probs=55.3

Q ss_pred             cCccCCCCCchhHHH-HHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhh
Q 012162           83 YRPLNGLDPTTHAEL-ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  161 (469)
Q Consensus        83 ~~~~~~~~~~~~~~~-A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~  161 (469)
                      |-.+|.-+|+++... -...+.+.+++-- -.+.....|......|+|.-|....+.++..+|+|..++......-+.+.
T Consensus        40 Y~GWfDgnP~~L~pl~p~~~A~~~v~l~G-G~d~vl~~A~~~~~~gd~~wA~~L~d~l~~adp~n~~ar~l~A~al~~lg  118 (141)
T PF14863_consen   40 YLGWFDGNPANLNPLPPEEEAKRYVELAG-GADKVLERAQAALAAGDYQWAAELLDHLVFADPDNEEARQLKADALEQLG  118 (141)
T ss_dssp             HC-S--S-GGGTS---HHHHHHHHHHHTT-CHHHHHHHHHHHHHCT-HHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHH
T ss_pred             cCCccCCCccccCCCChHHHHHHHHHHcC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHH
Confidence            345677777766432 2234455555553 35677888999999999999999999999999999999999888888777


Q ss_pred             hhhc
Q 012162          162 SLIG  165 (469)
Q Consensus       162 ~~~~  165 (469)
                      ....
T Consensus       119 ~~~~  122 (141)
T PF14863_consen  119 YQSE  122 (141)
T ss_dssp             HH-S
T ss_pred             Hhcc
Confidence            6543

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=80.07  E-value=6  Score=40.27  Aligned_cols=70  Identities=13%  Similarity=0.019  Sum_probs=55.3

Q ss_pred             HHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHh-hhccCCCCCcccCccCCCCCchhHHHHHHHHH
Q 012162           25 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQ-FLKHRPPSASEYRPLNGLDPTTHAELALKDAE  103 (469)
Q Consensus        25 ~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~  103 (469)
                      +..-..-.-+.+.|.+--..|.+++...|+++++|..-|.-.+..+. .                       +.|-..+.
T Consensus       108 W~~yi~f~kk~~~~~~v~ki~~~~l~~Hp~~~dLWI~aA~wefe~n~ni-----------------------~saRalfl  164 (568)
T KOG2396|consen  108 WLSYIAFCKKKKTYGEVKKIFAAMLAKHPNNPDLWIYAAKWEFEINLNI-----------------------ESARALFL  164 (568)
T ss_pred             HHHHHHHHHHhcchhHHHHHHHHHHHhCCCCchhHHhhhhhHHhhccch-----------------------HHHHHHHH
Confidence            33333334445558889999999999999999999887777766665 4                       88899999


Q ss_pred             HHhhccccchHHHH
Q 012162          104 KLLNLQSNSMKSHL  117 (469)
Q Consensus       104 ~al~l~p~~~~~~~  117 (469)
                      ++|+.+|++++.|.
T Consensus       165 rgLR~npdsp~Lw~  178 (568)
T KOG2396|consen  165 RGLRFNPDSPKLWK  178 (568)
T ss_pred             HHhhcCCCChHHHH
Confidence            99999999988654

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	469
3l11_A	115	Crystal Structure Of The Ring Domain Of Rnf168 Leng		2e-08
2jmd_A	63	Solution Structure Of The Ring Domain Of Human Traf		3e-07
2eci_A	86	Solution Structure Of The Ring Domain Of The Human		6e-07
3hct_A	118	Crystal Structure Of Traf6 In Complex With Ubc13 In		9e-07
3hcs_A	170	Crystal Structure Of The N-Terminal Domain Of Traf6		1e-06
1jm7_A	112	Solution Structure Of The Brca1/bard1 Ring-domain H		5e-06
2ecv_A	85	Solution Structure Of The Zinc Finger, C3hc4 Type (		6e-06
2ecw_A	85	Solution Structure Of The Zinc Finger, C3hc4 Type (		7e-06
2egp_A	79	Solution Structure Of The Ring-Finger Domain From H		7e-06
2ckl_B	165	Ring1b-Bmi1 E3 Catalytic Domain Structure Length =		9e-06
4epo_C	149	Crystal Structure Of Rnf8 Bound To The Ubc13MMS2 HE		1e-05
4ayc_A	138	Rnf8 Ring Domain Structure Length = 138		1e-05
4ayc_B	138	Rnf8 Ring Domain Structure Length = 138		1e-05
2ecj_A	58	Solution Structure Of The Ring Domain Of The Human		1e-05
2ysl_A	73	Solution Structure Of The Ring Domain (1-66) From T		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
2d8t_A	71	Solution Structure Of The Ring Domain Of The Human		3e-04
1elw_A	118	Crystal Structure Of The Tpr1 Domain Of Hop In Comp		5e-04
4ap4_A	133	Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex Le		8e-04

>pdb|3L11|A Chain A, Crystal Structure Of The Ring Domain Of Rnf168 Length = 115

Iteration: 1
 Score = 57.0 bits (136), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 29/86 (33%), Positives = 49/86 (56%), Gaps = 6/86 (6%)
Query: 176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGN-KCPLCRAVL-----FITPRTCA 229
            +  C +C+++L EP+T PC H+ C+ C   ++++ +  CP CR  +     + T R   
Sbjct: 14  SECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRRNSL 73
Query: 230 VSVTLNSIIQKNFPEEYAERKSEHDS 255
           V+V L +IIQK++P E   R S  +S
Sbjct: 74  VNVELWTIIQKHYPRECKLRASGQES 99

>pdb|2JMD|A Chain A, Solution Structure Of The Ring Domain Of Human Traf6 Length = 63

Iteration: 1
 Score = 53.5 bits (127), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 20/46 (43%), Positives = 32/46 (69%), Gaps = 1/46 (2%)
Query: 178 FDCTLCLKLLYEPITTPCGHSFCRSCLFQSM-DRGNKCPLCRAVLF 222
           ++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 = 6e-07,   Method: Compositional matrix adjust.
 Identities = 22/59 (37%), Positives = 35/59 (59%), Gaps = 1/59 (1%)
Query: 165 GRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSM-DRGNKCPLCRAVLF 222
           G  +   P     ++C +CL  L E + TPCGH FC++C+ +S+ D G+KCP+   +L 
Sbjct: 13  GYDVEFDPPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILL 71

>pdb|3HCT|A Chain A, Crystal Structure Of Traf6 In Complex With Ubc13 In The P1 Space Group Length = 118

Iteration: 1
 Score = 51.6 bits (122), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 22/59 (37%), Positives = 35/59 (59%), Gaps = 1/59 (1%)
Query: 165 GRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSM-DRGNKCPLCRAVLF 222
           G  +   P     ++C +CL  L E + TPCGH FC++C+ +S+ D G+KCP+   +L 
Sbjct: 6   GYDVEFDPPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILL 64

>pdb|3HCS|A Chain A, Crystal Structure Of The N-Terminal Domain Of Traf6 Length = 170

Iteration: 1
 Score = 50.8 bits (120), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 22/59 (37%), Positives = 35/59 (59%), Gaps = 1/59 (1%)
Query: 165 GRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSM-DRGNKCPLCRAVLF 222
           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 = 49.3 bits (116), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 20/66 (30%), Positives = 41/66 (62%), Gaps = 5/66 (7%)
Query: 178 FDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRG---NKCPLCRAVLFITPRTCAVSVTL 234
            +C +CL+L+ EP++T C H FC+ C+ + +++    ++CPLC+    IT R+   S   
Sbjct: 22  LECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKND--ITKRSLQESTRF 79
Query: 235 NSIIQK 240
           + ++++
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 = 48.9 bits (115), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 20/49 (40%), Positives = 34/49 (69%), Gaps = 6/49 (12%)
Query: 176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQS-----MDRG-NKCPLCR 218
           ++  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 = 48.5 bits (114), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 19/49 (38%), Positives = 30/49 (61%), Gaps = 6/49 (12%)
Query: 176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLF------QSMDRGNKCPLCR 218
           ++  C +CL+LL EP++  C HSFCR+C+       ++ D    CP+CR
Sbjct: 18  EEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCR 66

>pdb|2EGP|A Chain A, Solution Structure Of The Ring-Finger Domain From Human Tripartite Motif Protein 34 Length = 79

Iteration: 1
 Score = 48.5 bits (114), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 19/49 (38%), Positives = 29/49 (59%), Gaps = 7/49 (14%)
Query: 176 DDFDCTLCLKLLYEPITTPCGHSFCRSCL-------FQSMDRGNKCPLC 217
           ++  C +CL+LL EP++  CGHS CR+C+         SM   + CP+C
Sbjct: 11  EEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVC 59

>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure Length = 165

Iteration: 1
 Score = 48.5 bits (114), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 39/123 (31%), Positives = 60/123 (48%), Gaps = 10/123 (8%)
Query: 131 MARDAILSGLQVDPFSNPLQASLQNLERTTASLI--GRRIHGTPERT-DDFDCTLCLKLL 187
           M++    +G Q  P S   + SL  L+RT    I  G  I  +P     +  C +CL +L
Sbjct: 7   MSQAVQTNGTQ--PLSKTWELSLYELQRTPQEAITDGLEIVVSPRSLHSELMCPICLDML 64
Query: 188 YEPITTP-CGHSFCRSCLFQSMDRGNK-CPLCRAVLFITPRTCAVSVTLNSIIQKNFP-- 243
              +TT  C H FC  C+  ++  GNK CP CR  L ++ R+       +++I K +P  
Sbjct: 65  KNTMTTKECLHRFCADCIITALRSGNKECPTCRKKL-VSKRSLRPDPNFDALISKIYPSR 123
Query: 244 EEY 246
           +EY
Sbjct: 124 DEY 126

>pdb|4EPO|C Chain C, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2 HETERODIMER Length = 149

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 24/78 (30%), Positives = 40/78 (51%), Gaps = 7/78 (8%)
Query: 176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLN 235
           ++  C +C +   E +T  C HSFC  C+ + M R  +CP+CR  +    ++   S+ L+
Sbjct: 63  NELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICRKDI----KSKTYSLVLD 118
Query: 236 SIIQK---NFPEEYAERK 250
           + I K   N   E  ER+
Sbjct: 119 NCINKMVNNLSSEVKERR 136

>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure Length = 138

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 24/78 (30%), Positives = 40/78 (51%), Gaps = 7/78 (8%)
Query: 176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLN 235
           ++  C +C +   E +T  C HSFC  C+ + M R  +CP+CR  +    ++   S+ L+
Sbjct: 52  NELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICRKDI----KSKTYSLVLD 107
Query: 236 SIIQK---NFPEEYAERK 250
           + I K   N   E  ER+
Sbjct: 108 NCINKMVNNLSSEVKERR 125

>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure Length = 138

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 24/78 (30%), Positives = 40/78 (51%), Gaps = 7/78 (8%)
Query: 176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLN 235
           ++  C +C +   E +T  C HSFC  C+ + M R  +CP+CR  +    ++   S+ L+
Sbjct: 52  NELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICRKDI----KSKTYSLVLD 107
Query: 236 SIIQK---NFPEEYAERK 250
           + I K   N   E  ER+
Sbjct: 108 NXINKMVNNLSSEVKERR 125

>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human Tripartite Motif-Containing Protein 39 Length = 58

Iteration: 1
 Score = 47.8 bits (112), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/41 (39%), Positives = 29/41 (70%), Gaps = 3/41 (7%)
Query: 180 CTLCLKLLYEPITTPCGHSFCRSCL---FQSMDRGNKCPLC 217
           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: 180 CTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGN---KCPLCR 218
           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 = 45.4 bits (106), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 37/119 (31%), Positives = 57/119 (47%), Gaps = 8/119 (6%)
Query: 130 DMARDAILSGLQVDPFSNPLQASLQNLERTTASLI--GRRIHGTPERT-DDFDCTLCLKL 186
            M++    +G Q  P S   + SL  L+RT    I  G  I  +P     +  C +CL +
Sbjct: 5   SMSQAVQTNGTQ--PLSKTWELSLYELQRTPQEAITDGLEIVVSPRSLHSELMCPICLDM 62
Query: 187 LYEPITTP-CGHSFCRSCLFQSMDRGNK-CPLCRAVLFITPRTCAVSVTLNSIIQKNFP 243
           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: 180 CTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGN---KCPLC 217
           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: 180 CTLCLKLLYEPITTPCGHSFCRSCLFQSMD-RGNKCPLCRAVLFITPRTCAVSVTLN 235
           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: 178 FDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD-RGNKCPLCR 218
           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: 161 ASLIGRRIHGTP------ERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSM-DRGNK 213
           ASL  R   G+P      +  + F C  C +L++ PITT C H+ C+ CL +S   +   
Sbjct: 30  ASLKDRPASGSPFQLFLSKVEETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVFS 89
Query: 214 CPLCRAVLFITPRTCAVSVT--LNSIIQKNFP 243
           CP CR  L    R+ A+ V   L +++ + FP
Sbjct: 90  CPACRYDL---GRSYAMQVNQPLQTVLNQLFP 118

>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 = 3e-04,   Method: Composition-based stats.
 Identities = 15/40 (37%), Positives = 23/40 (57%)
Query: 179 DCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCR 218
           +C +CL+    P++ PC H FC  C+  +   G +C LCR
Sbjct: 17  ECAICLQTCVHPVSLPCKHVFCYLCVKGASWLGKRCALCR 56

>pdb|1ELW|A Chain A, Crystal Structure Of The Tpr1 Domain Of Hop In Complex With A Hsc70 Peptide Length = 118

Iteration: 1
 Score = 42.7 bits (99), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 35/139 (25%), Positives = 59/139 (42%), Gaps = 27/139 (19%)
Query: 21  HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSA 80
            V +L +KGN+A    N ++A+  YS A  + P + ++  NRS+AY +   + K      
Sbjct: 3   QVNELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGC 62
Query: 81  S--EYRPLNGLDPTTHXXXXXXXXXXXXXXQSNSMKSHLLKANALILLERYDMARDAILS 138
              + +P  G                         K +  KA AL  L R++ A+     
Sbjct: 63  KTVDLKPDWG-------------------------KGYSRKAAALEFLNRFEEAKRTYEE 97
Query: 139 GLQVDPFSNPLQASLQNLE 157
           GL+ +  +  L+  LQN+E
Sbjct: 98  GLKHEANNPQLKEGLQNME 116

>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex Length = 133

Iteration: 1
 Score = 41.6 bits (96), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 14/28 (50%), Positives = 17/28 (60%)
Query: 191 ITTPCGHSFCRSCLFQSMDRGNKCPLCR 218
           ++T CGH FC  CL  S+   N CP CR
Sbjct: 28  VSTECGHVFCSQCLRDSLKNANTCPTCR 55

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	469
1zbo_A	210	Hypothetical protein BPP1347; alpha-beta protein,	5e-34
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	2e-25
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	5e-23
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	1e-22
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	5e-22
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	7e-22
1z6u_A	150	NP95-like ring finger protein isoform B; structura	1e-21
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	9e-21
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	1e-20
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	8e-19
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	2e-18
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	1e-17
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	2e-17
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	3e-17
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	4e-17
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	7e-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	4e-16
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	9e-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;	3e-14
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	3e-14
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	4e-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	1e-13
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	1e-13
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	2e-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	5e-13
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	7e-13
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	9e-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
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	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	2e-12
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	1e-06
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	4e-06
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	4e-05
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	8e-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	4e-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	5e-12
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	9e-12
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	2e-11
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	3e-11
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	5e-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
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	9e-11
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	1e-10
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	1e-08
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	1e-10
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	2e-10
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	5e-10
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	7e-10
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	2e-09
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	1e-08
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	4e-08
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	1e-07
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	2e-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
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	2e-07
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	4e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-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	9e-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	4e-06
3u4t_A	272	TPR repeat-containing protein; structural genomics	5e-06
3u4t_A	272	TPR repeat-containing protein; structural genomics	1e-05
3ugm_A	1047	TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xan	6e-06
3ugm_A	1047	TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xan	6e-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	7e-04
3ugm_A	1047	TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xan	9e-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	1e-05
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	2e-05
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	2e-05
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	3e-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	7e-05
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	9e-05
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	7e-04
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	5e-05
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	6e-04
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
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	6e-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
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	8e-05
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	8e-05
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	9e-05
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	2e-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
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	2e-04
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	3e-04
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	5e-04
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	3e-04
3tax_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	3e-04
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	4e-04
2ea5_A	68	Cell growth regulator with ring finger domain prot	4e-04
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	4e-04
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	5e-04
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	6e-04
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	7e-04

>1zbo_A Hypothetical protein BPP1347; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.60A {Bordetella parapertussis} SCOP: b.122.1.10 Length = 210

 Score =  126 bits (317), Expect = 5e-34
 Identities = 43/209 (20%), Positives = 72/209 (34%), Gaps = 23/209 (11%)

Query: 264 MPLFVMDVVI-PCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPT--------TGSVA 314
           +PLF +   + P     L +FE RY  MVRR +      G+V+++             +A
Sbjct: 4   IPLFPLSNALFPAGVLRLRVFEIRYLDMVRRCIADGSEFGVVVLEQGTEVRRPDGREVLA 63

Query: 315 DFACEVEITECEPLPDGRFVLEIESRRRFRILRSW-DQDGYRVAEIEWVQDIHPEGVEDR 373
                  I   E        L      RFR+      + G    + E V D  P   E  
Sbjct: 64  RAGTMARIDHWEAPMPALLELACTGTGRFRLHACTQGKYGLWTGQAEPVPDDAPL--EVP 121

Query: 374 ADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVMMPPSQDPERFSFWLATLSD 433
            +L      A+   RL  R ++E        +     ++       D    +   A +  
Sbjct: 122 PELARS---ASALGRLIARLQREGVPPHIMPMAAPFRLD-------DCGWVADRWAEMLS 171

Query: 434 RRPSERLELLRIRDTRERIRRGLIFLRAE 462
             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 = 99.6 bits (248), Expect = 2e-25
 Identities = 29/86 (33%), Positives = 49/86 (56%), Gaps = 6/86 (6%)

Query: 176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNK-CPLCRAVL-----FITPRTCA 229
            +  C +C+++L EP+T PC H+ C+ C   ++++ +  CP CR  +     + T R   
Sbjct: 14  SECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRRNSL 73

Query: 230 VSVTLNSIIQKNFPEEYAERKSEHDS 255
           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 = 93.1 bits (231), Expect = 5e-23
 Identities = 23/75 (30%), Positives = 36/75 (48%), Gaps = 2/75 (2%)

Query: 176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD-RGNKCPLCRAVLFITPRTCAVSVTL 234
           + F C  C +L++ PITT C H+ C+ CL +S   +   CP CR           V+  L
Sbjct: 51  ETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYD-LGRSYAMQVNQPL 109

Query: 235 NSIIQKNFPEEYAER 249
            +++ + 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 = 91.9 bits (229), Expect = 1e-22
 Identities = 35/135 (25%), Positives = 63/135 (46%), Gaps = 23/135 (17%)

Query: 24  DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEY 83
           +L +KGN+A    N ++A+  YS A  + P + ++  NRS+AY +   +           
Sbjct: 6   ELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDY----------- 54

Query: 84  RPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVD 143
                       + A +D  K ++L+ +  K +  KA AL  L R++ A+     GL+ +
Sbjct: 55  ------------QKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFEEAKRTYEEGLKHE 102

Query: 144 PFSNPLQASLQNLER 158
             +  L+  LQN+E 
Sbjct: 103 ANNPQLKEGLQNMEA 117

>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 = 90.4 bits (225), Expect = 5e-22
 Identities = 30/132 (22%), Positives = 58/132 (43%), Gaps = 23/132 (17%)

Query: 27  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 86
            KGN  F++ ++  A+ +Y+ A    P + I+  NR++   ++ +F              
Sbjct: 18  NKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEF-------------- 63

Query: 87  NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS 146
                    + AL D +  + L S  +K ++ KA  L+ +  +  A+ A    LQVDP +
Sbjct: 64  ---------QRALDDCDTCIRLDSKFIKGYIRKAACLVAMREWSKAQRAYEDALQVDPSN 114

Query: 147 NPLQASLQNLER 158
              +  ++N  R
Sbjct: 115 EEAREGVRNCLR 126

>4epo_C E3 ubiquitin-protein ligase RNF8; coiled-coil, E3 ubiquitin ligase, protein binding complex; 4.80A {Homo sapiens} Length = 149

 Score = 90.9 bits (225), Expect = 7e-22
 Identities = 24/114 (21%), Positives = 46/114 (40%), Gaps = 1/114 (0%)

Query: 142 VDPFSNPLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCLKLLYEPITTPCGHSFCR 201
           +   +  L+ + +  E+  A       H      ++  C +C +   E +T  C HSFC 
Sbjct: 29  IQAKNKELEQTKEEKEKMQAQKEEVLSHMNDVLENELQCIICSEYFIEAVTLNCAHSFCS 88

Query: 202 SCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAERKSEHDS 255
            C+ + M R  +CP+CR  +     +  +   +N ++      E  ER+     
Sbjct: 89  YCINEWMKRKIECPICRKDIKSKTYSLVLDNCINKMVNN-LSSEVKERRIVLIR 141

>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 = 90.1 bits (223), Expect = 1e-21
 Identities = 23/75 (30%), Positives = 34/75 (45%), Gaps = 2/75 (2%)

Query: 176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNK-CPLCRAVLFITPRTCAVSVTL 234
             F C  C +L+Y+P+TT C H+ C+ CL +S       CP CR  L         +  L
Sbjct: 77  QSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNYIMI-PNEIL 135

Query: 235 NSIIQKNFPEEYAER 249
            +++   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 = 86.9 bits (216), Expect = 9e-21
 Identities = 31/132 (23%), Positives = 54/132 (40%), Gaps = 23/132 (17%)

Query: 27  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 86
            KGN  F++ ++ +A+ +Y+ A    P D  +  NR++ Y ++ +F              
Sbjct: 21  NKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEF-------------- 66

Query: 87  NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS 146
                    +LALKD E+ + L+   +K +  KA AL  ++ Y  A D     L +D   
Sbjct: 67  ---------QLALKDCEECIQLEPTFIKGYTRKAAALEAMKDYTKAMDVYQKALDLDSSC 117

Query: 147 NPLQASLQNLER 158
                  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 = 87.8 bits (218), Expect = 1e-20
 Identities = 29/132 (21%), Positives = 52/132 (39%), Gaps = 23/132 (17%)

Query: 27  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 86
            + N  F+  ++E AI  YS+A  + P + I  GNRS AY+R   +              
Sbjct: 18  TQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECY-------------- 63

Query: 87  NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS 146
                      AL DA + + L    +K +  +A + + L ++  A     + ++V P  
Sbjct: 64  ---------GYALGDATRAIELDKKYIKGYYRRAASNMALGKFRAALRDYETVVKVKPHD 114

Query: 147 NPLQASLQNLER 158
              +   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 = 85.8 bits (213), Expect = 2e-20
 Identities = 27/121 (22%), Positives = 43/121 (35%), Gaps = 23/121 (19%)

Query: 27  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 86
           ++GNR F    + EA + Y RA    P   +   NR+  Y+++ Q               
Sbjct: 14  EQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQP-------------- 59

Query: 87  NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS 146
                    E AL D  + L L   S+K+H       + +E YD A   +     +    
Sbjct: 60  ---------EQALADCRRALELDGQSVKAHFFLGQCQLEMESYDEAIANLQRAYSLAKEQ 110

Query: 147 N 147
            
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: 27  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 86
            +GN A     + +AI  Y++A +I P +PI L NR++AY    Q               
Sbjct: 16  SEGNAAMARKEYSKAIDLYTQALSIAPANPIYLSNRAAAYSASGQH-------------- 61

Query: 87  NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS 146
                    E A +DAE    +     K+      A   +  Y  A++A   G++ +  +
Sbjct: 62  ---------EKAAEDAELATVVDPKYSKAWSRLGLARFDMADYKGAKEAYEKGIEAEG-N 111

Query: 147 NPLQASLQNLERT 159
               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: 171 TPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL 221
           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 = 83.1 bits (206), Expect = 2e-19
 Identities = 23/128 (17%), Positives = 48/128 (37%), Gaps = 23/128 (17%)

Query: 27  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 86
            +G   F +S++  A+  Y+      P D     NR++A  ++  F              
Sbjct: 9   LEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSF-------------- 54

Query: 87  NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS 146
                      A+ D  K +    N +++++ KA A I ++ Y  A + + +    D   
Sbjct: 55  ---------PEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLDAARTKDAEV 105

Query: 147 NPLQASLQ 154
           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 = 8e-19
 Identities = 26/132 (19%), Positives = 54/132 (40%), Gaps = 23/132 (17%)

Query: 27  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 86
            +GN   +  NFE A+  Y +A  + P + +   NR++AY ++  +              
Sbjct: 17  TEGNEQMKVENFEAAVHFYGKAIELNPANAVYFCNRAAAYSKLGNY-------------- 62

Query: 87  NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS 146
                      A++D E+ + +     K++     AL  L ++  A       L++DP +
Sbjct: 63  ---------AGAVQDCERAICIDPAYSKAYGRMGLALSSLNKHVEAVAYYKKALELDPDN 113

Query: 147 NPLQASLQNLER 158
              +++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 = 84.2 bits (208), Expect = 2e-18
 Identities = 27/131 (20%), Positives = 43/131 (32%), Gaps = 23/131 (17%)

Query: 27  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 86
           ++GNR F    + EA + Y RA    P   +   NR+  Y+++ Q               
Sbjct: 9   EQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQP-------------- 54

Query: 87  NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS 146
                    E AL D  + L L   S+K+H       + +E YD A   +     +    
Sbjct: 55  ---------EQALADCRRALELDGQSVKAHFFLGQCQLEMESYDEAIANLQRAYSLAKEQ 105

Query: 147 NPLQASLQNLE 157
                      
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 = 79.6 bits (196), Expect = 1e-17
 Identities = 34/134 (25%), Positives = 55/134 (41%), Gaps = 8/134 (5%)

Query: 130 DMARDAILSGLQVDPFSNPLQASLQNLERTTASLIG---RRIHGTPERTDDFDCTLCLKL 186
            M++    +G Q  P S   + SL  L+RT    I      +        +  C +CL +
Sbjct: 6   HMSQAVQTNGTQ--PLSKTWELSLYELQRTPQEAITDGLEIVVSPRSLHSELMCPICLDM 63

Query: 187 LYEPITTP-CGHSFCRSCLFQSMDRGNK-CPLCRAVLFITPRTCAVSVTLNSIIQKNFPE 244
           L   +TT  C H FC  C+  ++  GNK CP CR    ++ R+       +++I K +P 
Sbjct: 64  LKNTMTTKECLHRFCADCIITALRSGNKECPTCRKK-LVSKRSLRPDPNFDALISKIYPS 122

Query: 245 EYAERKSEHDSLIN 258
                  +   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 = 76.4 bits (188), Expect = 2e-17
 Identities = 19/85 (22%), Positives = 31/85 (36%), Gaps = 3/85 (3%)

Query: 176 DDFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSV-- 232
               C LC     +  T   C HSFC++C+ + ++    CP+C   +  T     +    
Sbjct: 14  PHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLLNIRSDK 73

Query: 233 TLNSIIQKNFPEEYAERKSEHDSLI 257
           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 = 77.8 bits (192), Expect = 3e-17
 Identities = 22/134 (16%), Positives = 56/134 (41%), Gaps = 26/134 (19%)

Query: 27  QKGNRAFRESNFEEAISNYSRANNIKP---GDPIVLGNRSSAYIRISQFLKHRPPSASEY 83
           ++GN  F+  ++  A++ Y++A  +        ++  NR++ ++++  +           
Sbjct: 33  KEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDY----------- 81

Query: 84  RPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVD 143
                       + A  +A K +      +K+   ++ AL  L R D A   +   + ++
Sbjct: 82  ------------DKAETEASKAIEKDGGDVKALYRRSQALEKLGRLDQAVLDLQRCVSLE 129

Query: 144 PFSNPLQASLQNLE 157
           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 = 4e-17
 Identities = 16/48 (33%), Positives = 23/48 (47%), Gaps = 1/48 (2%)

Query: 176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGN-KCPLCRAVLF 222
           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 = 7e-17
 Identities = 16/48 (33%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 176 DDFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRGNKCPLCRAVLF 222
               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: 173 ERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRA 219
           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 = 73.2 bits (180), Expect = 4e-16
 Identities = 20/68 (29%), Positives = 39/68 (57%), Gaps = 5/68 (7%)

Query: 176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNK---CPLCRAVLFITPRTCAVSV 232
              +C +CL+L+ EP++T C H FC+ C+ + +++      CPLC+    IT R+   S 
Sbjct: 20  KILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKND--ITKRSLQEST 77

Query: 233 TLNSIIQK 240
             + ++++
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 = 72.7 bits (179), Expect = 9e-16
 Identities = 20/139 (14%), Positives = 47/139 (33%), Gaps = 31/139 (22%)

Query: 27  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 86
           + GN A+++ +F+ A+ +Y +A  + P +   + N+++ Y     +              
Sbjct: 9   ELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDY-------------- 54

Query: 87  NGLDPTTHAELALKDAEKLLNLQSNSM-------KSHLLKANALILLERYDMARDAILSG 139
                        +  EK + +   +        K++    N+    E+Y  A       
Sbjct: 55  ---------NKCRELCEKAIEVGRENREDYRQIAKAYARIGNSYFKEEKYKDAIHFYNKS 105

Query: 140 LQVDPFSNPLQASLQNLER 158
           L     +  +    Q  E+
Sbjct: 106 LAEHR-TPDVLKKCQQAEK 123

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans} Length = 127

 Score = 72.3 bits (178), Expect = 1e-15
 Identities = 22/138 (15%), Positives = 45/138 (32%), Gaps = 31/138 (22%)

Query: 28  KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLN 87
            GN A+++ +FE+A  +Y +A  + P +     N+++ Y    +F               
Sbjct: 14  LGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKF--------------- 58

Query: 88  GLDPTTHAELALKDAEKLLNLQSNSM-------KSHLLKANALILLERYDMARDAILSGL 140
                      ++  EK + +   +        K+     NA        +A       L
Sbjct: 59  --------AECVQFCEKAVEVGRETRADYKLIAKAMSRAGNAFQKQNDLSLAVQWFHRSL 110

Query: 141 QVDPFSNPLQASLQNLER 158
                   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: 176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNK---CPLCRA 219
           ++  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 = 68.1 bits (167), Expect = 3e-14
 Identities = 18/132 (13%), Positives = 46/132 (34%), Gaps = 30/132 (22%)

Query: 28  KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLN 87
           +GN  F++  + EA+  Y +    +P +P+   N++ A I++ ++               
Sbjct: 10  QGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEY--------------- 54

Query: 88  GLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN 147
                     A++  ++ L   S +    +        LE    A  ++   +       
Sbjct: 55  --------TQAIQMCQQGLRYTSTAEHVAIRSKLQY-RLELAQGAVGSVQIPVV------ 99

Query: 148 PLQASLQNLERT 159
            +    +  +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: 176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSM-DRGNKCPLCRAVLFITPRTCAVSVTL 234
             ++C +CL  L E + TPCGH FC++C+ +S+ D G+KCP+   +L             
Sbjct: 17  SKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILL--ENQLFPDNFA 74

Query: 235 NSIIQK 240
              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 = 4e-14
 Identities = 17/45 (37%), Positives = 26/45 (57%), Gaps = 3/45 (6%)

Query: 176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNK---CPLC 217
           ++  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: 173 ERTDDFDCTLCLKLLYEPI-------TTPCGHSFCRSCLFQSMDRGNKCPLCRAVL 221
             +    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 = 66.1 bits (161), Expect = 5e-14
 Identities = 17/54 (31%), Positives = 24/54 (44%), Gaps = 7/54 (12%)

Query: 175 TDDFDCTLCLKLLYEPI-------TTPCGHSFCRSCLFQSMDRGNKCPLCRAVL 221
           +    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 = 66.5 bits (162), Expect = 1e-13
 Identities = 21/61 (34%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR-GNKCPLCRAVLFITPRTCAVSVTL 234
               C +C  +L +P+ T C H FCR C+ + +   G+ CP CR   F T     V   L
Sbjct: 22  KSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESPVKSFL 81

Query: 235 N 235
           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: 176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNK-------CPLCRAVLFITPRTC 228
           ++  C +CL+LL EP++  CGHS CR+C+  S             CP+C      +    
Sbjct: 11  EEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGIS--YSFEHL 68

Query: 229 AVSVTLNSIIQ 239
             +  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 = 2e-13
 Identities = 17/52 (32%), Positives = 23/52 (44%), Gaps = 7/52 (13%)

Query: 177 DFDCTLCLKLLYEPI-------TTPCGHSFCRSCLFQSMDRGNKCPLCRAVL 221
              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 = 63.9 bits (156), Expect = 3e-13
 Identities = 18/50 (36%), Positives = 29/50 (58%), Gaps = 6/50 (12%)

Query: 176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNK------CPLCRA 219
           ++  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 = 63.8 bits (156), Expect = 3e-13
 Identities = 20/70 (28%), Positives = 37/70 (52%), Gaps = 8/70 (11%)

Query: 176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNK------CPLCRAVLFITPRTCA 229
           ++  C +CL+LL +P++  CGHSFC++CL  +  +         CP+CR      P    
Sbjct: 18  EEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRIS--YQPENIR 75

Query: 230 VSVTLNSIIQ 239
            +  + +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 = 66.3 bits (161), Expect = 4e-13
 Identities = 21/66 (31%), Positives = 33/66 (50%), Gaps = 3/66 (4%)

Query: 176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSM-DRGNKCPLCRAVLFITPRTCAVSVTL 234
             ++C +CL  L E + TPCGH FC++C+ +S+ D G+KCP+   +L             
Sbjct: 17  SKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILL--ENQLFPDNFA 74

Query: 235 NSIIQK 240
              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 = 62.7 bits (153), Expect = 5e-13
 Identities = 15/45 (33%), Positives = 28/45 (62%), Gaps = 3/45 (6%)

Query: 176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNK---CPLC 217
            +  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 = 64.8 bits (157), Expect = 7e-13
 Identities = 17/75 (22%), Positives = 25/75 (33%), Gaps = 7/75 (9%)

Query: 176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNK-CPLCRAVLFITPRTCAVSVTL 234
             + C+ C  +L  P    CGH +C  CL   +  G + C  C            +    
Sbjct: 30  AKYLCSACRNVLRRPFQAQCGHRYCSFCLASILSSGPQNCAACVHEGIYEEGISILE--- 86

Query: 235 NSIIQKNFPEEYAER 249
                  FP+  A R
Sbjct: 87  ---SSSAFPDNAARR 98

>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: 176 DDFDCTLCLKLLYEPITTP-CGHSFCRSCLFQSMDRGNK--CPLCRA 219
           D+  C +C  ++ + +  P CG+S+C  C+  ++   ++  CP C  
Sbjct: 14  DELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQ 60

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae} Length = 514

 Score = 69.0 bits (169), Expect = 9e-13
 Identities = 28/132 (21%), Positives = 53/132 (40%), Gaps = 25/132 (18%)

Query: 25  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYR 84
           L  KGN+ FR   +++AI  Y+ A  +K  DP+   N S+ Y+ +               
Sbjct: 9   LKDKGNQFFRNKKYDDAIKYYNWALELKE-DPVFYSNLSACYVSVGDL------------ 55

Query: 85  PLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAI-LSGLQVD 143
                      +  ++ + K L L+ +  K  L +A+A   L ++  A   + +  L  D
Sbjct: 56  -----------KKVVEMSTKALELKPDYSKVLLRRASANEGLGKFADAMFDLSVLSLNGD 104

Query: 144 PFSNPLQASLQN 155
                ++  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: 28  KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLN 87
                  +++F++A+  Y  A  ++     +    +    +    L  R P+   +    
Sbjct: 378 FAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGK--ATLLTRNPTVENF---- 431

Query: 88  GLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP-FS 146
                     A    EK   L   S ++ +  A   +  E  D A         +     
Sbjct: 432 --------IEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFEESADLARTME 483

Query: 147 NPLQA-SLQNLERT 159
             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: 27  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 86
            +G   F   N+++A  ++ +A  + P +       +    R ++F              
Sbjct: 309 HRGQMNFILQNYDQAGKDFDKAKELDPENIFPYIQLACLAYRENKF-------------- 354

Query: 87  NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 144
                    +       +       + +     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: 30  NRA---FRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 86
             A      ++  E  + + +A  +   +  V  +R      +  +              
Sbjct: 275 YMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMNFILQNY-------------- 320

Query: 87  NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 144
                    + A KD +K   L   ++  ++  A       ++D          +  P
Sbjct: 321 ---------DQAGKDFDKAKELDPENIFPYIQLACLAYRENKFDDCETLFSEAKRKFP 369

>3ztg_A E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mRNA processing, mRNA splicing; NMR {Homo sapiens} Length = 92

 Score = 62.9 bits (153), Expect = 1e-12
 Identities = 18/80 (22%), Positives = 35/80 (43%), Gaps = 5/80 (6%)

Query: 176 DDFDCTLCLKLLYEPITTP-CGHSFCRSCLFQSMDRGNK--CPLCRAVLFITPRTCAVSV 232
           D+  C +C  ++ + +  P CG+S+C  C+  ++   ++  CP C     ++P     + 
Sbjct: 12  DELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQN-DVSPDALIANK 70

Query: 233 TLNSIIQKNFPEEYAERKSE 252
            L   +  NF  E    K  
Sbjct: 71  FLRQAV-NNFKNETGYTKRL 89

>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 = 67.8 bits (166), Expect = 2e-12
 Identities = 21/134 (15%), Positives = 50/134 (37%), Gaps = 23/134 (17%)

Query: 25  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYR 84
            ++ G +        +A+S +  A +  P + I    R++ ++ + +             
Sbjct: 29  HLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKS------------ 76

Query: 85  PLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 144
                      + AL D  K++ L+ +   + L + + L+   + D A D     L+ +P
Sbjct: 77  -----------KAALPDLTKVIQLKMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNP 125

Query: 145 FSNPLQASLQNLER 158
             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 = 58.9 bits (143), Expect = 1e-09
 Identities = 16/138 (11%), Positives = 45/138 (32%), Gaps = 27/138 (19%)

Query: 25  LVQKGNRAFRESNFEEAISNYSRANNIKPGDP----IVLGNRSSAYIRISQFLKHRPPSA 80
           L++      R+  + +A S Y      +P                + +  +         
Sbjct: 260 LIESAEELIRDGRYTDATSKYESVMKTEPSIAEYTVRSKERICHCFSKDEKP-------- 311

Query: 81  SEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGL 140
                            A++   ++L ++ +++ +   +A A ++ E YD A     +  
Sbjct: 312 ---------------VEAIRVCSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYETAQ 356

Query: 141 QVDPFSNPLQASLQNLER 158
           + +     ++  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: 18  RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRP 77
           +   +  L  +   AF   ++  AI+   +   +   D  +   R+  +I+  +      
Sbjct: 139 KSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCVWDAELRELRAECFIKEGEP----- 193

Query: 78  PSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAIL 137
                               A+ D +    L++++ ++    +     L  ++++   + 
Sbjct: 194 ------------------RKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVR 235

Query: 138 SGLQVDP 144
             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: 25  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYR 84
            +Q+G+   ++   +EA  ++ +     P +      +  + +  S  ++     A    
Sbjct: 97  RLQRGHLLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQ--SQLIKSDEMQRLRSQALNAF 154

Query: 85  PLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 144
                        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 = 2e-12
 Identities = 28/118 (23%), Positives = 43/118 (36%), Gaps = 23/118 (19%)

Query: 15  PWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLK 74
           P  R  +   L  +GN  F   NF EAI  Y  A  + P +P+   N S+ YI       
Sbjct: 18  PSQRQAYAVQLKNRGNHFFTAKNFNEAIKYYQYAIELDPNEPVFYSNISACYISTGDL-- 75

Query: 75  HRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMA 132
                                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: 28  KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLN 87
                    +F+ AI  Y  A  ++     +         + +   +             
Sbjct: 384 FAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQ-SSQDPTQLDEE 442

Query: 88  GLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP-FS 146
                     A+K   K   L   S ++ +  A   + +E+ D A +       +     
Sbjct: 443 KF------NAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILARTMD 496

Query: 147 NPLQA-SLQNLERT 159
             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: 25  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYR 84
           L   G   F ++N  +A      + N+ P  P      +                     
Sbjct: 246 LCYTGIFHFLKNNLLDAQVLLQESINLHP-TPNSYIFLALTLADKENS------------ 292

Query: 85  PLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMA 132
                      +   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 = 44.7 bits (106), Expect = 4e-05
 Identities = 13/108 (12%), Positives = 34/108 (31%), Gaps = 23/108 (21%)

Query: 25  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYR 84
            +        + N +E    + +A ++ P  P    +R   Y  +  +            
Sbjct: 279 YIFLALTLADKENSQEFFKFFQKAVDLNPEYPPTYYHRGQMYFILQDY------------ 326

Query: 85  PLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMA 132
                      + 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: 25  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYR 84
            ++ G +        +A+S +  A +  P + I    R++ ++ + +             
Sbjct: 6   HLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKS------------ 53

Query: 85  PLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 144
                      + 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 = 56.1 bits (136), Expect = 8e-09
 Identities = 13/120 (10%), Positives = 39/120 (32%), Gaps = 8/120 (6%)

Query: 25  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYR 84
            +Q+G+   ++   +EA  ++ +     P +         + +  +  ++     A +  
Sbjct: 74  RLQRGHLLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAE--SQLVKADEMQRLRSQALDAF 131

Query: 85  PLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 144
                        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: 22  VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----IVLGNRSSAYIRISQFLKHRP 77
           +  L++      R+  + +A S Y      +P                + +  +      
Sbjct: 234 LNKLIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKP----- 288

Query: 78  PSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMA 132
                               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 = 54.2 bits (131), Expect = 4e-08
 Identities = 15/127 (11%), Positives = 44/127 (34%), Gaps = 23/127 (18%)

Query: 18  RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRP 77
           +   +  L  +   AF  +++  AI+   +   +   D  +   R+  +I+  +      
Sbjct: 116 KADEMQRLRSQALDAFDGADYTAAITFLDKILEVCVWDAELRELRAECFIKEGEP----- 170

Query: 78  PSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAIL 137
                               A+ D +    L+S++ ++    +     L  ++++   + 
Sbjct: 171 ------------------RKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHELSLSEVR 212

Query: 138 SGLQVDP 144
             L++D 
Sbjct: 213 ECLKLDQ 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 = 45.0 bits (107), Expect = 3e-05
 Identities = 16/103 (15%), Positives = 31/103 (30%), Gaps = 26/103 (25%)

Query: 30  NRA---FRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 86
                  ++    EAI   S    ++P +   L +R+ AY+    +              
Sbjct: 277 RICHCFSKDEKPVEAIRICSEVLQMEPDNVNALKDRAEAYLIEEMY-------------- 322

Query: 87  NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERY 129
                    + 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 = 61.1 bits (148), Expect = 5e-12
 Identities = 14/48 (29%), Positives = 24/48 (50%), Gaps = 2/48 (4%)

Query: 176 DDFDCTLCLKLLYEP-ITTPCGHSFCRSCLFQSMDRGN-KCPLCRAVL 221
           + 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 = 9e-12
 Identities = 13/66 (19%), Positives = 28/66 (42%), Gaps = 3/66 (4%)

Query: 176 DDFDCTLCLKLLYEPITTP-CGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTL 234
           D   C +C +     +  P C H++C  C+ + +    +CP C     +T      +  L
Sbjct: 21  DLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVT--VTEPDLKNNRIL 78

Query: 235 NSIIQK 240
           + +++ 
Sbjct: 79  DELVKS 84

>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 = 62.1 bits (151), Expect = 2e-11
 Identities = 20/148 (13%), Positives = 47/148 (31%), Gaps = 39/148 (26%)

Query: 27  QKGNRAFRESNFEEAISNYSRANNIKPGDP----------------IVLGNRSSAYIRIS 70
           ++GN  F+++   EAI  Y  A +                          N ++ Y +  
Sbjct: 43  EEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNK 102

Query: 71  QFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYD 130
            +                         A+  A K+L +  N++K+      A +     +
Sbjct: 103 DY-----------------------PKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLE 139

Query: 131 MARDAILSGLQVDPFSNPLQASLQNLER 158
            A++ +     ++P +  ++ S +    
Sbjct: 140 EAKENLYKAASLNPNNLDIRNSYELCVN 167

>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 = 3e-11
 Identities = 15/40 (37%), Positives = 19/40 (47%), Gaps = 3/40 (7%)

Query: 180 CTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRA 219
           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 = 58.8 bits (142), Expect = 5e-11
 Identities = 18/62 (29%), Positives = 30/62 (48%), Gaps = 5/62 (8%)

Query: 180 CTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSII 238
           C+ C  +L EP+    C H FC +C+   +  G  CP+C        +   ++  L+S+I
Sbjct: 25  CSRCTNILREPVCLGGCEHIFCSNCVSDCI--GTGCPVCYTP--AWIQDLKINRQLDSMI 80

Query: 239 QK 240
           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: 176 DDFDCTLCLKLLYE-------PITTPCGHSFCRSCLFQSMDRGNKCPLCR 218
               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: 166 RRIHGTPERTDDFDCTLCLKLLYEPI-------TTPCGHSFCRSCLFQSMDRGNKCPLCR 218
           +R H     +    C +C+    E +       +T CGH FC  CL  S+   N CP CR
Sbjct: 61  KRYHPIYIGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 120

Query: 219 A 219
            
Sbjct: 121 K 121

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3 Length = 477

 Score = 62.8 bits (153), Expect = 9e-11
 Identities = 29/132 (21%), Positives = 52/132 (39%), Gaps = 23/132 (17%)

Query: 27  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 86
            + N  F+  ++E AI  YS+A  + P + I  GNRS AY+R   +              
Sbjct: 11  TQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECY-------------- 56

Query: 87  NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS 146
                      AL DA + + L    +K +  +A + + L ++  A     + ++V P  
Sbjct: 57  ---------GYALGDATRAIELDKKYIKGYYRRAASNMALGKFRAALRDYETVVKVKPHD 107

Query: 147 NPLQASLQNLER 158
              +   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: 28  KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLN 87
           +G   F +S++  A+  Y+      P D     NR++A  ++  F               
Sbjct: 145 EGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSF--------------- 189

Query: 88  GLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 144
                     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: 27  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 86
            +GN+ ++   F+EAI +Y++A  +   D   L NR++A     ++              
Sbjct: 10  AEGNKFYKARQFDEAIEHYNKAWELHK-DITYLNNRAAAEYEKGEY-------------- 54

Query: 87  NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMA 132
                    E A+      +         + + + +   +      
Sbjct: 55  ---------ETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHK 91

>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 = 62.1 bits (150), Expect = 1e-10
 Identities = 15/48 (31%), Positives = 20/48 (41%), Gaps = 1/48 (2%)

Query: 173 ERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD-RGNKCPLCRA 219
             +    C +C +   +    PCGH  C SCL    +  G  CP CR 
Sbjct: 328 MGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRC 375

>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid herpesvirus 1} SCOP: g.44.1.1 Length = 68

 Score = 55.9 bits (135), Expect = 2e-10
 Identities = 14/46 (30%), Positives = 23/46 (50%), Gaps = 1/46 (2%)

Query: 175 TDDFDCTLCLKLLYEP-ITTPCGHSFCRSCLFQSMDRGNKCPLCRA 219
           T    C +CL+      +  PC H+FC  C+ + + +   CPLC+ 
Sbjct: 3   TVAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKV 48

>2ecn_A Ring finger protein 141; RNF141, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 70

 Score = 54.7 bits (132), Expect = 5e-10
 Identities = 17/47 (36%), Positives = 27/47 (57%), Gaps = 1/47 (2%)

Query: 175 TDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL 221
           TD+ +C +C+      +  PC HSFC+ C+ +  DR   CP+CR  +
Sbjct: 13  TDEEECCICMDG-RADLILPCAHSFCQKCIDKWSDRHRNCPICRLQM 58

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans} Length = 162

 Score = 56.6 bits (137), Expect = 7e-10
 Identities = 25/150 (16%), Positives = 48/150 (32%), Gaps = 41/150 (27%)

Query: 27  QKGNRAFRESNFEEAISNYSRA------------------NNIKPGDPIVLGNRSSAYIR 68
           QKGN  F + +++EAI  Y  A                    +   +  +  N S  Y+ 
Sbjct: 16  QKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLN 75

Query: 69  ISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLER 128
           I                            A + + ++L  +  + K+   +A A I   +
Sbjct: 76  IGDL-----------------------HEAEETSSEVLKREETNEKALFRRAKARIAAWK 112

Query: 129 YDMARDAILSGLQVDPFSNPLQASLQNLER 158
            D A + +   L+  P +  + A    +  
Sbjct: 113 LDEAEEDLKLLLRNHPAAASVVAREMKIVT 142

>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 = 58.4 bits (141), Expect = 2e-09
 Identities = 21/147 (14%), Positives = 50/147 (34%), Gaps = 38/147 (25%)

Query: 27  QKGNRAFRESNFEEAISNYSRANNIKPGDP---------------IVLGNRSSAYIRISQ 71
           ++G   F+E  +++A+  Y +  +    +                    N +  ++++  
Sbjct: 152 ERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQA 211

Query: 72  FLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDM 131
           F                         A++   K L L SN+ K    +  A + +  +++
Sbjct: 212 F-----------------------SAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFEL 248

Query: 132 ARDAILSGLQVDPFSNPLQASLQNLER 158
           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: 176 DDFDCTLCLKLLY-----EPITTPCGHSFCRSCLFQSMDRG-NKCPLCRAVL 221
           DD  C  C    Y     + +   CGH+ C SC+     RG   CP C   L
Sbjct: 2   DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPL 53

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A Length = 457

 Score = 54.3 bits (130), Expect = 4e-08
 Identities = 22/173 (12%), Positives = 58/173 (33%), Gaps = 38/173 (21%)

Query: 1   MSFEMQANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNI-----KPGD 55
           +    +A E       ++      + +KG   F+   + +A+  Y +  +         +
Sbjct: 247 LKSFEKAKESWEMDTKEKLEQAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSE 306

Query: 56  P----------IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKL 105
                          N +  Y+++ ++ K                       A++  +K 
Sbjct: 307 KESKASESFLLAAFLNLAMCYLKLREYTK-----------------------AVECCDKA 343

Query: 106 LNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER 158
           L L S + K    +  A +L+  ++ A+      L+V+P +   +  +   ++
Sbjct: 344 LGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQK 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 = 48.5 bits (116), Expect = 1e-07
 Identities = 14/52 (26%), Positives = 24/52 (46%), Gaps = 7/52 (13%)

Query: 176 DDFDCTLCLKLLYE----PITTPCGHSFCRSCLFQSMDRGN---KCPLCRAV 220
           +  +C +C++   E    P    CGH+ CR CL + +       +CP C  +
Sbjct: 14  EVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKI 65

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe} Length = 597

 Score = 52.9 bits (127), Expect = 2e-07
 Identities = 14/120 (11%), Positives = 33/120 (27%), Gaps = 23/120 (19%)

Query: 25  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYR 84
           L+ K +  F  S F + ++  ++   I P +  V     ++     +             
Sbjct: 308 LLCKADTLFVRSRFIDVLAITTKILEIDPYNLDVYPLHLASLHESGEK------------ 355

Query: 85  PLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 144
                            +  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 = 49.5 bits (118), Expect = 1e-06
 Identities = 18/131 (13%), Positives = 33/131 (25%), Gaps = 28/131 (21%)

Query: 37  NFEEAISNYSRANNIKPGDPIVLGNRSSAYIR-------ISQFLKHRPPSASEYRPLNGL 89
           N   A      +  +   DP++L                I+ F       A         
Sbjct: 456 NILLANEYLQSSYALFQYDPLLLNELGVVAFNKSDMQTAINHFQN-----ALLLVKKTQS 510

Query: 90  DPTTHA----------------ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMAR 133
           +    A                + A+    + L L +N    H   A   +  +   +A 
Sbjct: 511 NEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAI 570

Query: 134 DAILSGLQVDP 144
             +   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 = 42.9 bits (101), Expect = 2e-04
 Identities = 25/133 (18%), Positives = 46/133 (34%), Gaps = 14/133 (10%)

Query: 28  KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQ----------FLKHRP 77
           +G      SNF+ A   Y  A  +            S ++  +           +  +  
Sbjct: 206 RGQVYTNLSNFDRAKECYKEALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSK 265

Query: 78  PSASEYRPL--NGLDPTTHAEL--ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMAR 133
             A+  R L    L+ T+H +     +D    +N    S    L KA+ L +  R+    
Sbjct: 266 EDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLFVRSRFIDVL 325

Query: 134 DAILSGLQVDPFS 146
                 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 = 42.9 bits (101), Expect = 2e-04
 Identities = 8/108 (7%), Positives = 27/108 (25%), Gaps = 23/108 (21%)

Query: 37  NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE 96
              +     +   +  P   +        Y+ +++                         
Sbjct: 354 EKNKLYLISNDLVDRHPEKAVTWLAVGIYYLCVNKI-----------------------S 390

Query: 97  LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 144
            A +   K   +      + +  A++  +   +D A  A  +  ++  
Sbjct: 391 EARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQ 438

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana} Length = 338

 Score = 51.9 bits (124), Expect = 2e-07
 Identities = 25/161 (15%), Positives = 46/161 (28%), Gaps = 40/161 (24%)

Query: 15  PWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNI--------KPGDP---------I 57
             +R          GN  F+E   EEA+  Y  A             G            
Sbjct: 172 VEERIGAADRRKMDGNSLFKEEKLEEAMQQYEMAIAYMGDDFMFQLYGKYQDMALAVKNP 231

Query: 58  VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHL 117
              N ++  I++ ++ +                       A+     +L  +  + K+  
Sbjct: 232 CHLNIAACLIKLKRYDE-----------------------AIGHCNIVLTEEEKNPKALF 268

Query: 118 LKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER 158
            +  A   L + D ARD      +  P    ++  L+ L  
Sbjct: 269 RRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAE 309

>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: 25  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF----------LK 74
            ++  +R ++  +FE A  +  +    +P +  VL   SS + +  +           +K
Sbjct: 2   PMELAHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIK 61

Query: 75  HRPPSASEYRPL-NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMAR 133
             P  A  Y  L N        + A++     L L+ + +  ++  A AL+     + A 
Sbjct: 62  QNPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAV 121

Query: 134 DAILSGLQVDP 144
            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: 21  HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF-------- 72
           +   L+   +  F+    + +    + A    P       N  + Y    Q         
Sbjct: 32  NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQEAIEHYR 91

Query: 73  --LKHRPPSASEYRPL-NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERY 129
             L+ +P     Y  L   L      E A++     L    +         N L  L R 
Sbjct: 92  HALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRL 151

Query: 130 DMARDAILSGLQVDP 144
           + 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 = 47.2 bits (113), Expect = 6e-06
 Identities = 22/108 (20%), Positives = 39/108 (36%), Gaps = 23/108 (21%)

Query: 37  NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE 96
            F+ A++ Y RA ++ P   +V GN +  Y                             +
Sbjct: 218 IFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLI-----------------------D 254

Query: 97  LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 144
           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: 37  NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE 96
           +  EA   Y+ A  + P     L N ++                               E
Sbjct: 286 SVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNI-----------------------E 322

Query: 97  LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 144
            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: 37  NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE 96
           + E A+  Y  A    P    V  +  +    + +                        E
Sbjct: 116 DMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRL-----------------------E 152

Query: 97  LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 144
            A     K +  Q N   +               +A       + +DP
Sbjct: 153 EAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDP 200

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1 Length = 388

 Score = 41.4 bits (98), Expect = 4e-04
 Identities = 16/108 (14%), Positives = 29/108 (26%), Gaps = 23/108 (21%)

Query: 37  NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE 96
               AI ++ +A  + P       N  +       F                       +
Sbjct: 184 EIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIF-----------------------D 220

Query: 97  LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 144
            A+    + L+L  N    H   A         D+A D     +++ P
Sbjct: 221 RAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQP 268

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 52.2 bits (124), Expect = 3e-07
 Identities = 83/518 (16%), Positives = 151/518 (29%), Gaps = 128/518 (24%)

Query: 13  SLPWDRYTHVFDLVQKGNRAFRESNF--EEAISNYSRA-NNIKPGDPIVL------GN-- 61
           S+    Y    D +   N+ F + N    +      +A   ++P   +++      G   
Sbjct: 106 SMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTW 165

Query: 62  ------RSSAYIRISQF------LKHRPPSASEYRPLNGL----DPTTHAELALKDAEKL 105
                  S        F      LK+     +    L  L    DP   +     D    
Sbjct: 166 VALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRS---DHSSN 222

Query: 106 LNLQSNSMK---SHLLK----ANALILLERYDMARDAILSGLQVDPFSN----------- 147
           + L+ +S++     LLK     N L++L      ++A       + F+            
Sbjct: 223 IKLRIHSIQAELRRLLKSKPYENCLLVL---LNVQNAKA----WNAFNLSCKILLTTRFK 275

Query: 148 PLQASLQNLERTTASLIGRRIHGTPERTDDFDCTLCLKLLYEPITT-P---CGHSFCRSC 203
            +   L     T  SL    +  TP+        L LK L       P      +  R  
Sbjct: 276 QVTDFLSAATTTHISLDHHSMTLTPDEVKS----LLLKYLDCRPQDLPREVLTTNPRRLS 331

Query: 204 LFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAERKSEHDSLINFGVDL 263
           +     R     L     +       ++  + S +    P EY +            V  
Sbjct: 332 IIAESIRDG---LATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKM------FDRLSV-- 380

Query: 264 MPLFVMDVVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPTTGSVADFACEVEIT 323
              F     IP     L  F+      V  ++   H+  +V   P   +++  +  +E+ 
Sbjct: 381 ---FPPSAHIPTILLSLIWFDVIKSD-VMVVVNKLHKYSLVEKQPKESTISIPSIYLELK 436

Query: 324 ECEPLPDGRFVLEIESRRRFRILRSWDQ--------DGYRVAEIEWVQDI--HPEGVEDR 373
                 +  + L       + I +++D         D Y      +   I  H + +E  
Sbjct: 437 V---KLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQY------FYSHIGHHLKNIE-H 486

Query: 374 ADLQDLTNNAAEYARLWLRREKESARQDRRRLE-KLLNVEVMMPPSQDPERFSFWLATLS 432
            +   L      +  ++L         D R LE K+ +       S         L TL 
Sbjct: 487 PERMTL------FRMVFL---------DFRFLEQKIRHDSTAWNASGSI------LNTLQ 525

Query: 433 DRRPSERLELLRIRD---TRERIRRGLI-FLRAEEQGC 466
             +  +      I D     ER+   ++ FL   E+  
Sbjct: 526 QLKFYKP----YICDNDPKYERLVNAILDFLPKIEENL 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 = 6e-04
 Identities = 38/244 (15%), Positives = 74/244 (30%), Gaps = 93/244 (38%)

Query: 313 VADFAC-EVE------IT--ECEPL---PDGRFVLEIESRRRFRILRSWDQDGYR--VAE 358
           V +F C +V+      ++  E + +    D        + R F  L S  ++  +  V E
Sbjct: 30  VDNFDCKDVQDMPKSILSKEEIDHIIMSKDA----VSGTLRLFWTLLSKQEEMVQKFVEE 85

Query: 359 I-----EWV------QDIHPEGVEDR--ADLQDLTNNAAEYARLWLRREKESARQDRRRL 405
           +     +++      +   P  +          L N+   +A+  + R +    + R+ L
Sbjct: 86  VLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQP-YLKLRQAL 144

Query: 406 EKL---LNVEVM-MPPS----------QDPE---RFS---FWLATLSDRRPSERLELL-- 443
            +L    NV +  +  S             +   +     FWL   +   P   LE+L  
Sbjct: 145 LELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQK 204

Query: 444 ---------------------RIRDTRERIRR---------GLIFLR---------AEEQ 464
                                RI   +  +RR          L+ L          A   
Sbjct: 205 LLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNL 264

Query: 465 GCRL 468
            C++
Sbjct: 265 SCKI 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 = 49.7 bits (119), Expect = 3e-07
 Identities = 17/125 (13%), Positives = 41/125 (32%), Gaps = 15/125 (12%)

Query: 24  DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASE- 82
           +++QK + A       +A+S + +   +      +       +  + +  +     A+E 
Sbjct: 6   EMLQKVSAAIEAGQNGQAVSYFRQTIALNIDRTEMY-----YWTNVDKNSEISSKLATEL 60

Query: 83  ---YRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSG 139
              Y+     D       A    ++LL    N++      A   +   +   A       
Sbjct: 61  ALAYKKNRNYD------KAYLFYKELLQKAPNNVDCLEACAEMQVCRGQEKDALRMYEKI 114

Query: 140 LQVDP 144
           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: 25  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYR 84
           L             ++A+  Y +   ++  +        + Y   ++  K          
Sbjct: 91  LEACAEMQVCRGQEKDALRMYEKILQLEADNLAANIFLGNYYYLTAEQEKK--------- 141

Query: 85  PLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 144
                         L+   K L+  +    +      + +   RY+ AR+++   +   P
Sbjct: 142 -------------KLETDYKKLSSPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFP 188

Query: 145 FSNPLQASLQNLER 158
            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 = 48.2 bits (115), Expect = 4e-07
 Identities = 15/142 (10%), Positives = 35/142 (24%), Gaps = 25/142 (17%)

Query: 27  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 86
             G   ++   +++A   +     +   D        +    +  +              
Sbjct: 23  ALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLY-------------- 68

Query: 87  NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS 146
                    E AL+       +  N  +     A   + L   D A     S   +   +
Sbjct: 69  ---------EQALQSYSYGALMDINEPRFPFHAAECHLQLGDLDGAESGFYSARALAA-A 118

Query: 147 NPLQASL-QNLERTTASLIGRR 167
            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 = 46.6 bits (111), Expect = 9e-07
 Identities = 18/129 (13%), Positives = 26/129 (20%), Gaps = 29/129 (22%)

Query: 39  EEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA 98
           +               + ++       Y    QF                       + A
Sbjct: 2   QAITERLEAMLAQGTDNMLLRFTLGKTYAEHEQF-----------------------DAA 38

Query: 99  LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQA------S 152
           L      L+       +       L        AR A  SGL         Q        
Sbjct: 39  LPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLAAAQSRGDQQVVKELQVF 98

Query: 153 LQNLERTTA 161
           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 = 48.3 bits (116), Expect = 2e-06
 Identities = 19/112 (16%), Positives = 39/112 (34%), Gaps = 26/112 (23%)

Query: 27  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 86
           Q+  R     ++E+A   +++A      D I   N ++    +++               
Sbjct: 28  QQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNEL-------------- 73

Query: 87  NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILS 138
                    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: 28  KGNRAFRE-SNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 86
            G     +    + A+    RA  +   D                               
Sbjct: 131 LGT-VLVKLEQPKLALPYLQRAVELNENDTEARFQFGMCLANEGML-------------- 175

Query: 87  NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP-- 144
                    + AL     +         +           E  + A + +   + + P  
Sbjct: 176 ---------DEALSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQPDH 226

Query: 145 ---FSNPLQASLQNLER 158
                   +    +   
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 = 48.8 bits (116), Expect = 2e-06
 Identities = 15/128 (11%), Positives = 32/128 (25%), Gaps = 4/128 (3%)

Query: 29  GNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNG 88
                R+   ++AI    +A    P +  +       Y      + +      E      
Sbjct: 254 AKFYRRKDEPDKAIELLKKALEYIPNNAYLHCQIGCCYRAKVFQVMN----LRENGMYGK 309

Query: 89  LDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP 148
                    A+   +K      N  +   + A+   L ++Y+ A          +     
Sbjct: 310 RKLLELIGHAVAHLKKADEANDNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVA 369

Query: 149 LQASLQNL 156
            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: 33  FRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRP---LNGL 89
              +  E A   + +A   KP +P      + A  R+  +   +  +    R    LN  
Sbjct: 149 CGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNWPPSQ-NAIDPLRQAIRLNPD 207

Query: 90  DPTTHAELALK------------DAEKL----LNLQSNSMKSHLLKANALILLERYDMAR 133
           +      LALK            + EKL    L             A      +  D A 
Sbjct: 208 NQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPGVTDVLRSAAKFYRRKDEPDKAI 267

Query: 134 DAILSGLQVDP 144
           + +   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 = 4e-06
 Identities = 27/130 (20%), Positives = 42/130 (32%), Gaps = 22/130 (16%)

Query: 37  NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF----------LKHRPPSASEY--- 83
           NF  AI    +       DP V      AY    ++          L+ +P     Y   
Sbjct: 123 NFPLAIQYMEKQIRPTTTDPKVFYELGQAYYYNKEYVKADSSFVKVLELKPNIYIGYLWR 182

Query: 84  -RPLNGLDPTTHAELALKDAEKLLNL--------QSNSMKSHLLKANALILLERYDMARD 134
            R     DP T   LA    EKL+ +        +   ++++   A    +      A  
Sbjct: 183 ARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADA 242

Query: 135 AILSGLQVDP 144
           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 = 5e-06
 Identities = 18/121 (14%), Positives = 39/121 (32%), Gaps = 26/121 (21%)

Query: 27  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 86
           +  +  F+ +N+ EAI  +++    K   P +   R+  Y  ++++              
Sbjct: 8   RYADFLFKNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKY-------------- 53

Query: 87  NGLDPTTHAELALKDAE---KLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVD 143
                    +LA KD E     +N               L+   +  +A     + +  D
Sbjct: 54  ---------DLAQKDIETYFSKVNATKAKSADFEYYGKILMKKGQDSLAIQQYQAAVDRD 104

Query: 144 P 144
            
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: 37  NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE 96
               AI  Y  A +       + G   S +     F                        
Sbjct: 89  QDSLAIQQYQAAVDRDTTRLDMYGQIGSYFYNKGNF-----------------------P 125

Query: 97  LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 144
           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 = 47.7 bits (113), Expect = 6e-06
 Identities = 15/160 (9%), Positives = 35/160 (21%), Gaps = 19/160 (11%)

Query: 21  HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF-------- 72
            V  +             +  +    +A+ + P   + + +       +           
Sbjct: 191 QVVAIASNNGGKQALETVQRLLPVLCQAHGLTPAQVVAIASHDGGKQALETMQRLLPVLC 250

Query: 73  ----LKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLER 128
               L      A     + G       +  L    +   L  + + +          LE 
Sbjct: 251 QAHGLPPDQVVAIASN-IGGKQALETVQRLLPVLCQAHGLTPDQVVAIASHGGGKQALET 309

Query: 129 YDMARDAILSGLQVDP-----FSNPLQASLQNLERTTASL 163
                  +     + P      ++      Q LE     L
Sbjct: 310 VQRLLPVLCQAHGLTPDQVVAIAS-HDGGKQALETVQRLL 348

>3ugm_A TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xanthomonas oryzae} Length = 1047

 Score = 44.6 bits (105), Expect = 6e-05
 Identities = 15/147 (10%), Positives = 32/147 (21%), Gaps = 17/147 (11%)

Query: 28  KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF----------LKHRP 77
            G         +  +    +A+ + P   + + +       +                  
Sbjct: 537 NGGGKQALETVQRLLPVLCQAHGLTPDQVVAIASNGGGKQALETVQRLLPVLCQAHGLTQ 596

Query: 78  PSASEY-RPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMA---- 132
                    + G       +  L    +   L    + +          LE         
Sbjct: 597 VQVVAIASNIGGKQALETVQRLLPVLCQAHGLTPAQVVAIASHDGGKQALETVQRLLPVL 656

Query: 133 RDAI-LSGLQVDPFSNPLQASLQNLER 158
             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 = 42.3 bits (99), Expect = 3e-04
 Identities = 8/120 (6%), Positives = 25/120 (20%), Gaps = 23/120 (19%)

Query: 25  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYR 84
           +   G         +  +    +A+ + P   + + +       +               
Sbjct: 297 IASHGGGKQALETVQRLLPVLCQAHGLTPDQVVAIASHDGGKQALETV------------ 344

Query: 85  PLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 144
                      +  L    +   L  + + +          LE        +     + P
Sbjct: 345 -----------QRLLPVLCQAHGLTPDQVVAIASNGGGKQALETVQRLLPVLCQAHGLTP 393

>3ugm_A TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xanthomonas oryzae} Length = 1047

 Score = 41.2 bits (96), Expect = 7e-04
 Identities = 15/151 (9%), Positives = 34/151 (22%), Gaps = 19/151 (12%)

Query: 25  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF------------ 72
           +             +  +    + + + P   + + +       +               
Sbjct: 432 IASHDGGKQALETVQRLLPVLCQTHGLTPAQVVAIASHDGGKQALETVQQLLPVLCQAHG 491

Query: 73  LKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMA 132
           L      A     + G       +  L    +   L  + + +          LE     
Sbjct: 492 LTPDQVVAIASN-IGGKQALATVQRLLPVLCQAHGLTPDQVVAIASNGGGKQALETVQRL 550

Query: 133 ----RDAI-LSGLQVDPFSNPLQASLQNLER 158
                 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 = 40.8 bits (95), Expect = 9e-04
 Identities = 17/155 (10%), Positives = 35/155 (22%), Gaps = 17/155 (10%)

Query: 21  HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRI----------S 70
            V  +   G         +  +    +A+ +     + + +       +           
Sbjct: 564 QVVAIASNGGGKQALETVQRLLPVLCQAHGLTQVQVVAIASNIGGKQALETVQRLLPVLC 623

Query: 71  QFLKHRPPSASEYRPL-NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERY 129
           Q     P           G       +  L    +   L  + + +          LE  
Sbjct: 624 QAHGLTPAQVVAIASHDGGKQALETVQRLLPVLCQAHGLTPDQVVAIASNGGGKQALETV 683

Query: 130 DMA----RDAI-LSGLQVDPFSNPLQASLQNLERT 159
                    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: 28  KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAY----------------IRISQ 71
            G      +N + A   +S+A +I P DP V+                       +   +
Sbjct: 165 IGLEYGLTNNSKLAERFFSQALSIAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIK 224

Query: 72  FLKHRPPSASEYRPLNGLDPTTHAEL-----ALKDAEKLLNLQSNSMKSHLLKANALILL 126
            + +          LN L      +L     AL    + L L   +  ++        L+
Sbjct: 225 AIGNEVTVDKWEPLLNNL-GHVCRKLKKYAEALDYHRQALVLIPQNASTYSAIGYIHSLM 283

Query: 127 ERYDMARDAILSGLQVDP 144
             ++ 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: 25  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF-----LKHRPPS 79
           +V    R +   +F+      S      P     L       + +++      L H+   
Sbjct: 25  VVSLAERHYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHK--- 81

Query: 80  ASEYRPLNGLDPTTH-------------AELALKDAEKLLNLQSNSMKSHLLKANALILL 126
             +  P N   P +               E A +   K   L+     + +   ++  + 
Sbjct: 82  LVDLYPSN---PVSWFAVGCYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVE 138

Query: 127 ERYDMARDAILSGLQVDP 144
             +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 = 1e-05
 Identities = 14/49 (28%), Positives = 23/49 (46%), Gaps = 4/49 (8%)

Query: 175 TDDFDCTLCLKLLYEPITT----PCGHSFCRSCLFQSMDRGNKCPLCRA 219
           +    C +CL+ ++         PCGH   R+C  + +  G +CPLC  
Sbjct: 3   SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSG 51

>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 = 42.9 bits (100), Expect = 2e-05
 Identities = 16/71 (22%), Positives = 24/71 (33%), Gaps = 23/71 (32%)

Query: 173 ERTDDFDCTLCLKLLYEPIT------------------TPCGHSFCRSCLFQSMDRGNK- 213
           +   + DC +C++ L                       T C H+F   CL      GNK 
Sbjct: 21  KVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKD 80

Query: 214 ----CPLCRAV 220
               CP C+ +
Sbjct: 81  GSLQCPSCKTI 91

>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 = 44.1 bits (104), Expect = 2e-05
 Identities = 13/130 (10%), Positives = 41/130 (31%), Gaps = 20/130 (15%)

Query: 29  GNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNG 88
           G     ++++  ++  Y +A  ++  +  +    ++                        
Sbjct: 51  GEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYY-----------------QAS 93

Query: 89  LDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP 148
              T      +   +K L L SN + + +L A+   +   Y  A +     + ++     
Sbjct: 94  QHMTAQTRAMI---DKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPRIN 150

Query: 149 LQASLQNLER 158
               ++++  
Sbjct: 151 RTQLVESINM 160

>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 = 43.2 bits (102), Expect = 3e-05
 Identities = 14/136 (10%), Positives = 31/136 (22%), Gaps = 26/136 (19%)

Query: 25  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYR 84
           +       + +   EEA   +         +   +   ++ Y    QF            
Sbjct: 39  IYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQF------------ 86

Query: 85  PLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 144
                      + A         L  N            + L+    A++     +Q   
Sbjct: 87  -----------QQAADLYAVAFALGKNDYTPVFHTGQCQLRLKAPLKAKECFELVIQHSN 135

Query: 145 ---FSNPLQASLQNLE 157
                   Q+ L  ++
Sbjct: 136 DEKLKIKAQSYLDAIQ 151

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus} Length = 365

 Score = 44.7 bits (106), Expect = 3e-05
 Identities = 20/149 (13%), Positives = 43/149 (28%), Gaps = 27/149 (18%)

Query: 19  YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPP 78
           +       ++G +  +E +    I     A    PGD                       
Sbjct: 62  FKDWPGAFEEGLKRLKEGDLPVTILFMEAAILQDPGDAEAWQFLGITQAENENE------ 115

Query: 79  SASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILS 138
                            + A+   ++ L LQ N++K+ +  A +         A +A+ +
Sbjct: 116 -----------------QAAIVALQRCLELQPNNLKALMALAVSYTNTSHQQDACEALKN 158

Query: 139 GLQVDP----FSNPLQASLQNLERTTASL 163
            ++ +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 = 44.7 bits (106), Expect = 4e-05
 Identities = 13/138 (9%), Positives = 30/138 (21%), Gaps = 17/138 (12%)

Query: 37  NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF----------LKHRPPSASEYRPL 86
             +  +    +A+ + P   + + + S     +                 P         
Sbjct: 257 TVQRLLPVLCQAHGLTPQQVVAIASNSGGKQALETVQRLLPVLCQAHGLTPQQVVAIASN 316

Query: 87  -NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP- 144
             G       +  L    +   L    + +          LE        +     + P 
Sbjct: 317 GGGKQALETVQRLLPVLCQAHGLTPQQVVAIASHDGGKQALETVQRLLPVLCQAHGLTPE 376

Query: 145 ----FSNPLQASLQNLER 158
                ++      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 = 7e-05
 Identities = 13/143 (9%), Positives = 30/143 (20%), Gaps = 17/143 (11%)

Query: 37  NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF----------LKHRPPSASEYRPL 86
             +  +    +A+ + P   + + +       +                 P         
Sbjct: 325 TVQRLLPVLCQAHGLTPQQVVAIASHDGGKQALETVQRLLPVLCQAHGLTPEQVVAIASN 384

Query: 87  -NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP- 144
             G       +  L    +   L    + +          LE        +     + P 
Sbjct: 385 GGGKQALETVQRLLPVLCQAHGLTPEQVVAIASHDGGKQALETVQRLLPVLCQAHGLTPQ 444

Query: 145 ----FSNPLQASLQNLERTTASL 163
                ++        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 = 43.6 bits (103), Expect = 9e-05
 Identities = 10/135 (7%), Positives = 26/135 (19%), Gaps = 11/135 (8%)

Query: 21  HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF-------- 72
            V  +             +  +    +A+ + P   + + +       +           
Sbjct: 71  QVVAIASHDGGKQALETVQRLLPVLCQAHGLTPQQVVAIASHDGGKQALETVQRLLPVLC 130

Query: 73  --LKHRPPSASEYRPL-NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERY 129
                 P           G       +  L    +   L    + +          LE  
Sbjct: 131 QAHGLTPEQVVAIASHDGGKQALETVQALLPVLCQAHGLTPEQVVAIASNGGGKQALETV 190

Query: 130 DMARDAILSGLQVDP 144
                 +     + 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 = 40.9 bits (96), Expect = 7e-04
 Identities = 16/141 (11%), Positives = 32/141 (22%), Gaps = 23/141 (16%)

Query: 37  NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDP----- 91
             +  +    +A+ + P   + + +         Q L+            +GL P     
Sbjct: 189 TVQRLLPVLCQAHGLTPQQVVAIASNGGGK----QALETVQRLLPVLCQAHGLTPQQVVA 244

Query: 92  -----TTHAEL-----ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQ 141
                     L      L    +   L    + +    +     LE        +     
Sbjct: 245 IASNGGGKQALETVQRLLPVLCQAHGLTPQQVVAIASNSGGKQALETVQRLLPVLCQAHG 304

Query: 142 VDPFS----NPLQASLQNLER 158
           + 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 = 44.6 bits (105), Expect = 5e-05
 Identities = 24/136 (17%), Positives = 41/136 (30%), Gaps = 16/136 (11%)

Query: 27  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 86
           Q  +      +  +++     A  +   D        +AY+ +                 
Sbjct: 184 QTDSGDEHSRHVMDSVRQAKLAVQMDVLDGRSWYILGNAYLSLYFNTGQN---------P 234

Query: 87  NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP-F 145
                   A  A   AEK+    S++   HL +A      E Y  A +       +DP +
Sbjct: 235 KISQ---QALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAW 291

Query: 146 SNP---LQASLQNLER 158
             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 = 41.1 bits (96), Expect = 6e-04
 Identities = 19/168 (11%), Positives = 36/168 (21%), Gaps = 41/168 (24%)

Query: 4   EMQANEGEGSLPWDRYTHVFDLVQKGNRAFRESN---------------FEEAISNYSRA 48
            M   E E      +   + D +     ++ E++                E+ +      
Sbjct: 35  MMADEEEEAKHVLQKLQGLVDRLYCFRDSYFETHSVEDAGRKQQDVQEEMEKTLQQMEEV 94

Query: 49  NNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNL 108
                 +   L  +  A      +                         A     K + L
Sbjct: 95  LGSAQVEAQALMLKGKALNVTPDYS----------------------PEAEVLLSKAVKL 132

Query: 109 QSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL 156
           +   +++                A       L      N    SLQNL
Sbjct: 133 EPELVEAWNQLGEVYWKKGDVTSAHTCFSGALTHCK--NK--VSLQNL 176

>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: 37  NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF----------LKHRPPSASEYRPL 86
           +    +     A   +P D +     + A + +             L   P        L
Sbjct: 4   DGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARL 63

Query: 87  NGLDPTT-HAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF 145
             +  T      A    ++  +         L   +AL    + + A  A     Q+ P 
Sbjct: 64  GRVRWTQQRHAEAAVLLQQASDAAPEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPE 123

Query: 146 SNPLQASLQNL 156
              + 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: 19  YTHVFDLVQKGNRAFRESNFEEAISNYSRANNI------KPGDPIVLGNRSSAYIRISQF 72
           Y + F    +G     +  +  AI  + +A +       +          S +Y  + Q 
Sbjct: 104 YFNFF----RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQT 159

Query: 73  LKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMA 132
                  + +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: 179 DCTLCLKLLYEPITT-----PCGHSF-CRSCLFQSMDRGNKCPLCRA 219
            C+LC K    P          GH   C  C  +    G  CP+C+ 
Sbjct: 9   PCSLCEK---RPRDGNIIHGRTGHLVTCFHCARRLKKAGASCPICKK 52

>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 = 43.8 bits (102), Expect = 6e-05
 Identities = 13/85 (15%), Positives = 25/85 (29%), Gaps = 3/85 (3%)

Query: 177 DFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRGNK--CPLCRAVLFITPRTCAVSVT 233
           +  C +  K    P+    C H F R  +   +       CP       ++ R       
Sbjct: 181 ELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRDFVRDPI 240

Query: 234 LNSIIQKNFPEEYAERKSEHDSLIN 258
           +    +    +E  E+       I+
Sbjct: 241 MELRCKIAKMKESQEQDKRSSQAID 265

>1e4u_A Transcriptional repressor NOT4; gene regulation, transcriptional control; NMR {Homo sapiens} SCOP: g.44.1.1 PDB: 1ur6_B Length = 78

 Score = 40.5 bits (94), Expect = 7e-05
 Identities = 15/49 (30%), Positives = 20/49 (40%), Gaps = 5/49 (10%)

Query: 176 DDFDCTLCLKLL----YEPITTPCGHSFCRSCLFQ-SMDRGNKCPLCRA 219
           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: 176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL 221
           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: 170 GTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNK-CPLCRAVL 221
           G+PE  + F C + L+L+ +P+    G ++ RS + + +D G+K CP  +  L
Sbjct: 1   GSPEFPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETL 53

>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 = 8e-05
 Identities = 10/47 (21%), Positives = 17/47 (36%), Gaps = 3/47 (6%)

Query: 176 DDFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQ--SMDRGNKCPLCRA 219
               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 = 8e-05
 Identities = 15/120 (12%), Positives = 42/120 (35%), Gaps = 25/120 (20%)

Query: 27  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 86
            +G   +   N+ E+I  + +A  + P +      +  A   + ++              
Sbjct: 11  LEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERY-------------- 56

Query: 87  NGLDPTTHAELALKDAEKLLNLQSNSMKSHLL--KANALILLERYDMARDAILSGLQVDP 144
                    E A+     ++N+  +     +   KA+AL  +E  ++  +   +  +++ 
Sbjct: 57  ---------EEAVDCYNYVINVIEDEYNKDVWAAKADALRYIEGKEVEAEIAEARAKLEH 107

>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 = 43.4 bits (103), Expect = 9e-05
 Identities = 22/153 (14%), Positives = 38/153 (24%), Gaps = 32/153 (20%)

Query: 37  NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF----------LKHRPPSASEYRPL 86
               AI   + A  + P D  V    + ++                L  +P         
Sbjct: 70  KDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHNANAALASLRAWLLSQPQYEQLGSVN 129

Query: 87  NGLDPTTHAE------LALKDAEKL----------LNLQSNSMKSHLLKANALILLERYD 130
              D                   +           L +  N  + H        L   YD
Sbjct: 130 LQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNPNDAQLHASLGVLYNLSNNYD 189

Query: 131 MARDAILSGLQVDP-----FSNPLQASLQNLER 158
            A   +   +++ P     ++  L A+L N  R
Sbjct: 190 SAAANLRRAVELRPDDAQLWNK-LGATLANGNR 221

>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 = 39.7 bits (93), Expect = 2e-04
 Identities = 12/46 (26%), Positives = 19/46 (41%)

Query: 176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL 221
           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: 178 FDCTLCLKLLYEPITTP-CGHSFCRSCLFQSMDRGNKCPLCRAVL 221
             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: 180 CTLCLKLLYEPITT-----PCGHSF-CRSCLFQSMDRGNKCPLCRA 219
           C +C      P          GH   C +C  +   R   CP+CR 
Sbjct: 11  CVICQG---RPKNGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQ 53

>2ep4_A Ring finger protein 24; zinc binding, ubiquitin, E3 enzyme, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 74

 Score = 38.6 bits (90), Expect = 2e-04
 Identities = 16/59 (27%), Positives = 26/59 (44%), Gaps = 5/59 (8%)

Query: 173 ERTDDFDCTLCLKLLYEP----ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRT 227
           E      C +CL+  ++P       PC H+F R CL + ++    CPLC   +    + 
Sbjct: 11  ELNLHELCAVCLED-FKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQL 68

>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 = 41.9 bits (99), Expect = 3e-04
 Identities = 15/130 (11%), Positives = 34/130 (26%), Gaps = 23/130 (17%)

Query: 15  PWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLK 74
             +         ++G R  +E +   A+  +  A    P          +      Q   
Sbjct: 57  EENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQE-- 114

Query: 75  HRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARD 134
                                 LA+    + L L+ ++  + +  A +         A +
Sbjct: 115 ---------------------LLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACE 153

Query: 135 AILSGLQVDP 144
            +   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 = 41.2 bits (97), Expect = 5e-04
 Identities = 21/131 (16%), Positives = 33/131 (25%), Gaps = 16/131 (12%)

Query: 35  ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH 94
           ES   +A           P    ++                        R L  L   + 
Sbjct: 145 ESLQRQACEILRDWLRYTPAYAHLVTPAEEGAG--------GAGLGPSKRILGSLLSDSL 196

Query: 95  AELALKDAEKLLNLQSNSM--KSHLLKANALILLERYDMARDAILSGLQVDP-----FSN 147
                +     + L   S+             L   YD A D   + L V P     ++ 
Sbjct: 197 FLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNK 256

Query: 148 PLQASLQNLER 158
            L A+L N  +
Sbjct: 257 -LGATLANGNQ 266

>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: 37  NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE 96
               A+ N        P         S AY+ + +  + R                   E
Sbjct: 54  LVNPALENGKTLVARTPRYLGGYMVLSEAYVALYRQAEDRERGKGYL------------E 101

Query: 97  LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS---NPLQASL 153
            AL   +    +       HL +     LL   D A  ++   L ++      + L    
Sbjct: 102 QALSVLKDAERVNPRYAPLHLQRGLVYALLGERDKAEASLKQALALEDTPEIRSALAELY 161

Query: 154 QNLER 158
            ++ R
Sbjct: 162 LSMGR 166

>3tax_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; thiocarbamate crosslink, covalent inhibitor, gylcosyltransfe inhibitor, O-GLCNAC transferase; HET: UDP; 1.88A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* Length = 723

 Score = 42.1 bits (98), Expect = 3e-04
 Identities = 22/127 (17%), Positives = 43/127 (33%), Gaps = 11/127 (8%)

Query: 29  GNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF----------LKHRPP 78
            N    + N EEA+  Y +A  + P       N +S   +  +           ++  P 
Sbjct: 16  ANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPT 75

Query: 79  SASEYRPL-NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAIL 137
            A  Y  + N L      + AL+   + + +      +H   A+          A  +  
Sbjct: 76  FADAYSNMGNTLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYR 135

Query: 138 SGLQVDP 144
           + L++ P
Sbjct: 136 TALKLKP 142

>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 = 41.1 bits (97), Expect = 4e-04
 Identities = 15/127 (11%), Positives = 33/127 (25%), Gaps = 23/127 (18%)

Query: 29  GNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNG 88
           G  + +     +A   + ++  +    P V    +    +  ++                
Sbjct: 148 GLVSLQMKKPAQAKEYFEKSLRLNRNQPSVALEMADLLYKEREY---------------- 191

Query: 89  LDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP 148
                    A +  +        + +S LL      + E  D A    L   ++ P S  
Sbjct: 192 -------VPARQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLYPGSLE 244

Query: 149 LQASLQN 155
            Q     
Sbjct: 245 YQEFQAE 251

>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 68

 Score = 37.9 bits (88), Expect = 4e-04
 Identities = 13/49 (26%), Positives = 19/49 (38%), Gaps = 5/49 (10%)

Query: 172 PERTDDFDCTLCLKLLYEPITTPCGH-SFCRSCLFQSMDRGNKCPLCRA 219
           P   +  DC +C       +  PC H   C  C  +      +CP+CR 
Sbjct: 10  PSEENSKDCVVCQNGTVNWVLLPCRHTCLCDGC-VKYFQ---QCPMCRQ 54

>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: 180 CTLCLK-LLYEPITTPCGHSFCRSCLFQSMDRGNK-CPLCRA 219
           C  C   +       PC H FC  C      +G+K CP C  
Sbjct: 4   CDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSD 45

>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: 170 GTPERTDDFDCTLCLKLLYEPITTPC----GHSFCRSCLFQSMDRGNK-----CPLCRA 219
                +    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 = 40.4 bits (95), Expect = 6e-04
 Identities = 23/117 (19%), Positives = 40/117 (34%), Gaps = 23/117 (19%)

Query: 28  KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLN 87
           +G           A +++S+A  I+P  P V         +   F               
Sbjct: 49  RGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNF--------------- 93

Query: 88  GLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP 144
                   + 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: 37  NFEEAISNYSRANNIKPGDPIVLGNRSSAYI-------------RISQFLKHRPPSASEY 83
             + A  +        P DP        A                  +  K +       
Sbjct: 126 RDKLAQDDLLAFYQDDPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWGWNIVE 185

Query: 84  RPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMA 132
             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	469
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	100.0
1zbo_A	210	Hypothetical protein BPP1347; alpha-beta protein,	100.0
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.96
2ane_A	125	ATP-dependent protease LA; LONN119, LON protease,	99.85
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.8
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	99.75
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	99.71
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	99.7
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	99.69
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	99.67
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.66
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	99.65
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	99.63
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.61
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.58
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	99.58
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	99.56
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	99.55
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	99.55
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	99.55
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.54
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.54
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	99.53
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.52
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.52
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.52
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	99.51
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	99.51
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.51
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.5
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.5
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	99.5
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	99.48
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	99.48
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	99.48
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.47
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.46
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	99.46
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.46
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.45
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.45
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	99.44
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	99.44
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.43
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.43
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.43
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.42
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.42
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.41
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.4
3k9i_A	117	BH0479 protein; putative protein binding protein,	99.39
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.39
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.39
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	99.38
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.37
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.36
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	99.35
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	99.35
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.34
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.34
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.34
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	99.33
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.33
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	99.33
2l6j_A	111	TPR repeat-containing protein associated with HSP;	99.3
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.29
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.28
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.28
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.27
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.27
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.26
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.26
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.25
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.25
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.24
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.24
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.23
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.23
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.23
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.23
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.22
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.22
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.22
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.22
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.21
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.21
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.2
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.2
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.19
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.19
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.19
2kat_A	115	Uncharacterized protein; NESG, structure, structur	99.19
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.18
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.18
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.18
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.18
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.18
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	99.17
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.16
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	99.16
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.16
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.15
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.15
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.15
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.14
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.14
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.14
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	99.14
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.13
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.13
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.13
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.12
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.11
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.11
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.11
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.11
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.11
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.1
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.1
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.1
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.09
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.09
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.09
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.08
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.08
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.08
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.07
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	99.07
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.07
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.07
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	99.06
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	99.06
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.06
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.05
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.05
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.05
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.05
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.04
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.04
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.04
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.03
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.03
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.03
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.02
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.02
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.02
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	99.02
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.01
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	99.0
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.99
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	98.99
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.99
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.99
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	98.97
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	98.97
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.97
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.96
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.96
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.95
4g1t_A	472	Interferon-induced protein with tetratricopeptide	98.94
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.91
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	98.9
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.9
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	98.9
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	98.9
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.89
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	98.88
1pc2_A	152	Mitochondria fission protein; unknown function; NM	98.87
2gw1_A	514	Mitochondrial precursor proteins import receptor;	98.87
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.86
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.86
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.85
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.85
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.84
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	98.84
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	98.84
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.83
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.83
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.83
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.83
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.83
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.82
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.82
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.81
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.8
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.79
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	98.79
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	98.79
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.78
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.78
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	98.78
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.76
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.75
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.75
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.75
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.75
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.74
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.74
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.74
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	98.73
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.73
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.72
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.72
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	98.72
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.71
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.71
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.7
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.7
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	98.7
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.69
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.69
4g1t_A	472	Interferon-induced protein with tetratricopeptide	98.68
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	98.68
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.67
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	98.67
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.66
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.66
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.65
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.63
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.63
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.63
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.63
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.63
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	98.62
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	98.6
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.6
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.6
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.6
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.59
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.59
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.59
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.59
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	98.58
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.58
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.57
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.56
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.55
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.54
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	98.53
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	98.52
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	98.52
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.52
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.51
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	98.5
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.49
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	98.48
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	98.48
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	98.47
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.47
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	98.46
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.45
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	98.44
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	98.42
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	98.4
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.39
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.37
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.35
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	98.35
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	98.34
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.31
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	98.29
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	98.22
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	98.21
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.16
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	98.16
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	98.12
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	98.09
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.04
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	98.03
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	97.98
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	97.92
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	97.89
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	97.87
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	97.86
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	97.82
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	97.77
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.76
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.72
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	97.71
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	97.71
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	97.65
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	97.55
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.55
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.54
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.47
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	97.43
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.34
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	97.18
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.12
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	97.11
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	97.1
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.92
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.92
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	96.9
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	96.46
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.4
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	96.24
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	95.81
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	95.71
3mv2_A	325	Coatomer subunit alpha; vesicular membrane coat CO	95.6
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	95.54
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	95.25
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	95.02
3mkr_B	320	Coatomer subunit alpha; tetratricopeptide repeats	95.01
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	94.92
3nw0_A	238	Non-structural maintenance of chromosomes element	94.17
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	93.56
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	93.51
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	93.49
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	93.0
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	92.72
1ya0_A	497	SMG-7 transcript variant 2; alpha-helical repeat,	91.78
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	89.12
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	88.86
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	88.33
1ya0_A	497	SMG-7 transcript variant 2; alpha-helical repeat,	87.39
4fo9_A	360	E3 SUMO-protein ligase PIAS2; E3 ligase, pinit dom	86.53
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	85.43
3kae_A	242	CDC27, possible protein of nuclear scaffold; tetra	84.28
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	83.86
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	81.23
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	81.07
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	80.16

>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=2.2e-34  Score=262.91  Aligned_cols=193  Identities=13%  Similarity=0.267  Sum_probs=167.8

Q ss_pred             Cccceeee--ccCCCCccCcccCchHHHHHHHHHHhCCceeEEEEeCC------CCCccccccceEEEEEeeecCCceEE
Q 012162          263 LMPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDP------TTGSVADFACEVEITECEPLPDGRFV  334 (469)
Q Consensus       263 ~lPl~~l~--v~fP~~~~~l~i~~~~~~~~~~~~~~~~~~~~l~~~~~------~~~~~~~~G~~~~I~~~~~~~dg~~~  334 (469)
                      .+|+||++  |+|||+.+||+||+++|+.|+++|+++++.||++++..      ..+++|.+||+|+|.++.++|||++.
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            49999996  99999999999999999999999999999999999843      23578999999999999999999999


Q ss_pred             EEEEeccceEEeeeeccCCeeEEEEEEecCCCCCCcchhhhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhcC
Q 012162          335 LEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVM  414 (469)
Q Consensus       335 v~~~g~~R~~i~~~~~~~~~~~a~ve~~~d~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  414 (469)
                      |.++|.+||+|.++.+.+||+.|+|+++++.+..    ..+.+++.+.+.+.+.+|.......+.       ++...   
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    245678889999999998887655543       22222   


Q ss_pred             CCCCCCcchhHHHHHhcCCCChhHhhhhccCCCHHHHHHHHHHHHHhhhccccCC
Q 012162          415 MPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAEEQGCRLQ  469 (469)
Q Consensus       415 ~~~~~~p~~l~~~ia~~l~l~~~~kq~lLe~~~~~eRl~~l~~~l~~~~~~~~~~  469 (469)
                      +...+||++++|++|++++++.++||+|||+.|+.+|+++++.+|.+|++..++|
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            2347999999999999999999999999999999999999999999999876654

>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=100.00  E-value=4.1e-33  Score=261.58  Aligned_cols=193  Identities=17%  Similarity=0.234  Sum_probs=166.9

Q ss_pred             CCccceeee--ccCCCCccCcccCchHHHHHHHHHHhCCceeEEEEeCC------CCCccccccceEEEEEeeecCCceE
Q 012162          262 DLMPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDP------TTGSVADFACEVEITECEPLPDGRF  333 (469)
Q Consensus       262 ~~lPl~~l~--v~fP~~~~~l~i~~~~~~~~~~~~~~~~~~~~l~~~~~------~~~~~~~~G~~~~I~~~~~~~dg~~  333 (469)
                      ..+|+||++  |+|||+.+||+||+++|+.|+++|+++++.||++++..      ..+++|.+||+|+|.++.++|||++
T Consensus        16 ~~lPl~PLr~~VlfPg~~~pL~I~~~r~~~~v~~a~~~~~~~~lv~q~~~~~~~p~~~~l~~vGt~a~I~~~~~lpdG~~   95 (252)
T 3ljc_A           16 IEIPVLPLRDVVVYPHMVIPLFVGREKSIRCLEAAMDHDKKIMLVAQKEASTDEPGVNDLFTVGTVASILQMLKLPDGTV   95 (252)
T ss_dssp             CCCEEEEESSCCCCBTCEEEEEECCTTTHHHHHHHHTTTTEEEEEEBCSSCCSSCCSSSBCSEEEEEEECCCBCCTTSCE
T ss_pred             CceeEEEeCCccccCCcceEEEECCHHHHHHHHHHHhcCCEEEEEEecCCCcCCCCccchhheeEEEEEEEEEECCCCeE
Confidence            359999997  99999999999999999999999999999999999842      2357999999999999999999999


Q ss_pred             EEEEEeccceEEeeeeccCCeeEEEEEEecCCCCCCcchhhhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhc
Q 012162          334 VLEIESRRRFRILRSWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEV  413 (469)
Q Consensus       334 ~v~~~g~~R~~i~~~~~~~~~~~a~ve~~~d~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  413 (469)
                      .|.++|.+||+|.++.+.+||+.|+|+++++.+.+    ..+.+++.+.+.+.+.+|.......+.       ++...  
T Consensus        96 ~v~v~G~~R~rI~~~~~~~~~~~a~ve~l~d~~~~----~~e~~al~~~l~~~~~~~~~l~~~~~~-------e~~~~--  162 (252)
T 3ljc_A           96 KVLVEGLQRARISALSDNGEHFSAKAEYLESPTID----EREQEVLVRTAISQFEGYIKLNKKIPP-------EVLTS--  162 (252)
T ss_dssp             EEEEEEEEEEECSEEEEETTEEEEECCCCCCCCSC----HHHHHHHHHHHHHHHHHHHHHHCSSCH-------HHHHH--
T ss_pred             EEEEEEEEEEEEEEEEcCCCcEEEEEEeecCCCCC----ChHHHHHHHHHHHHHHHHHHhcccCCH-------HHHHH--
Confidence            99999999999999999999999999999875322    245778888899999888876554443       22122  


Q ss_pred             CCCCCCCcchhHHHHHhcCCCChhHhhhhccCCCHHHHHHHHHHHHHhhhccccC
Q 012162          414 MMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAEEQGCRL  468 (469)
Q Consensus       414 ~~~~~~~p~~l~~~ia~~l~l~~~~kq~lLe~~~~~eRl~~l~~~l~~~~~~~~~  468 (469)
                       +...+||++++|++|+++|++.++||+|||+.|+.+|+++++.+|.++++.-.+
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             456799999999999999999999999999999999999999999998876543

>1zbo_A Hypothetical protein BPP1347; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.60A {Bordetella parapertussis} SCOP: b.122.1.10

Probab=100.00  E-value=1.1e-32  Score=251.85  Aligned_cols=190  Identities=21%  Similarity=0.260  Sum_probs=156.0

Q ss_pred             Cccceeee-ccCCCCccCcccCchHHHHHHHHHHhCCceeEEEEeCCC--------CCccccccceEEEEEeeecCCceE
Q 012162          263 LMPLFVMD-VVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDPT--------TGSVADFACEVEITECEPLPDGRF  333 (469)
Q Consensus       263 ~lPl~~l~-v~fP~~~~~l~i~~~~~~~~~~~~~~~~~~~~l~~~~~~--------~~~~~~~G~~~~I~~~~~~~dg~~  333 (469)
                      .+|+||+. |+|||+.+||+||+++|+.|+++|+++++.||++++.+.        .+++|.+||+|+|.++.++|||++
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 999999999999999999999999999999999998532        145899999999999999999999


Q ss_pred             EEEEEeccceEEee-eeccCCeeEEEEEEecCCCCCCcchhhhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhhhh
Q 012162          334 VLEIESRRRFRILR-SWDQDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVE  412 (469)
Q Consensus       334 ~v~~~g~~R~~i~~-~~~~~~~~~a~ve~~~d~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  412 (469)
                      .|.++|.+||+|.+ +.+.+||+.|+|+++++.+..  ....+.+++.+.+++.+.++..... .+        ....+.
T Consensus        83 ~v~v~G~~R~rI~~~~~~~~~y~~a~ve~l~~~~~~--~~~~e~~al~~~l~~~~~~~~~~~~-~~--------~~~~l~  151 (210)
T 1zbo_A           83 ELACTGTGRFRLHACTQGKYGLWTGQAEPVPDDAPL--EVPPELARSASALGRLIARLQREGV-PP--------HIMPMA  151 (210)
T ss_dssp             EEEEEEEEEEEEEEEEECGGGCEEEEEEEECCCCCC--CCCGGGHHHHHHHHHHHHHHHHTTC-CT--------TTCSBC
T ss_pred             EEEEEEEEEEEEEEEeecCCCcEEEEEEEcCCCCCC--CCcHHHHHHHHHHHHHHHHHHHhcc-cc--------ccccCC
Confidence            99999999999965 668899999999999885321  1234677888888888877765430 00        000111


Q ss_pred             cCCCCCCCcchhHHHHHhcCCCChhHhhhhccCCCHHHHHHHHHHHHHhhhcc
Q 012162          413 VMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLRAEEQG  465 (469)
Q Consensus       413 ~~~~~~~~p~~l~~~ia~~l~l~~~~kq~lLe~~~~~eRl~~l~~~l~~~~~~  465 (469)
                       .+...+||++|+|++|++++++.++||+|||+ |+.+|+++++.+|.++..+
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             14456899999999999999999999999999 9999999999999998765

>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=99.96  E-value=4.4e-30  Score=246.09  Aligned_cols=198  Identities=22%  Similarity=0.318  Sum_probs=165.5

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      .+..+...|..++..|+|++|+..|++|++.+|+++.+++++|.+|..+|+|                       ++|+.
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~-----------------------~~A~~   59 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQP-----------------------EQALA   59 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCH-----------------------HHHHH
Confidence            4678899999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchh-----HHHHH---------------------
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL-----QASLQ---------------------  154 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~-----~~~~~---------------------  154 (469)
                      +++++++++|+++.+++.+|.+|..+|++++|+..|+++++++|+++..     ...+.                     
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            9999999999999999999999999999999999999999999876311     11110                     


Q ss_pred             ----------HHHHhhhhh-------------------------------h----c-ccCCCCCCCcccccccccccccc
Q 012162          155 ----------NLERTTASL-------------------------------I----G-RRIHGTPERTDDFDCTLCLKLLY  188 (469)
Q Consensus       155 ----------~~~~~~~~~-------------------------------~----~-~~~~~~~~~~~~~~C~ic~~~~~  188 (469)
                                ..++++...                               .    + ............+.|+||.++|.
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                      111111000                               0    0 01223445667899999999999


Q ss_pred             ccEEccCCCcccHHHHHHHcccC-CCccccccccccCCCcccCcccHHHHHHHhch
Q 012162          189 EPITTPCGHSFCRSCLFQSMDRG-NKCPLCRAVLFITPRTCAVSVTLNSIIQKNFP  243 (469)
Q Consensus       189 ~p~~~~cgh~~C~~Ci~~~~~~~-~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~~  243 (469)
                      +||+++|||+||+.||..|+..+ ..||.||.++..  .++.+|..|+++|+.|..
T Consensus       220 dPv~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~--~~l~~n~~l~~~i~~~~~  273 (281)
T 2c2l_A          220 EPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQ--EQLIPNLAMKEVIDAFIS  273 (281)
T ss_dssp             SEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCG--GGCEECHHHHHHHHHHHT
T ss_pred             CCeECCCCCEECHHHHHHHHHHCCCCCcCCCCCCch--hcCcccHHHHHHHHHHHH
Confidence            99999999999999999999864 459999999853  578999999999999864

>2ane_A ATP-dependent protease LA; LONN119, LON protease, hydrolase; 2.03A {Escherichia coli} SCOP: b.122.1.10

Probab=99.85  E-value=2.3e-21  Score=160.60  Aligned_cols=101  Identities=20%  Similarity=0.269  Sum_probs=93.0

Q ss_pred             Cccceeee--ccCCCCccCcccCchHHHHHHHHHHhCCceeEEEEeCC------CCCccccccceEEEEEeeecCCceEE
Q 012162          263 LMPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDP------TTGSVADFACEVEITECEPLPDGRFV  334 (469)
Q Consensus       263 ~lPl~~l~--v~fP~~~~~l~i~~~~~~~~~~~~~~~~~~~~l~~~~~------~~~~~~~~G~~~~I~~~~~~~dg~~~  334 (469)
                      .+|+||++  |+|||+.+||+||+++|++|+++|+++++.|+++++..      ..+++|.+||+|+|.++.+++||++.
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  99999999999999999999999999888999998853      22478999999999999999999999


Q ss_pred             EEEEeccceEEeeeeccCCeeEEEEEEec
Q 012162          335 LEIESRRRFRILRSWDQDGYRVAEIEWVQ  363 (469)
Q Consensus       335 v~~~g~~R~~i~~~~~~~~~~~a~ve~~~  363 (469)
                      |.++|.+||+|.++.+.+||+.|+|++++
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            99999999999999889999999999873

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.80  E-value=6e-20  Score=153.52  Aligned_cols=114  Identities=25%  Similarity=0.445  Sum_probs=110.2

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      ..++.+.++|+.+++.|+|++|+..|++|++++|+++.+|.++|.+|..+|++                       ++|+
T Consensus        11 ~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~-----------------------~~A~   67 (126)
T 4gco_A           11 ELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEF-----------------------QRAL   67 (126)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccH-----------------------HHHH
Confidence            45889999999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHH
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  156 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~  156 (469)
                      .+++++++++|+++.+|+.+|.+|..+|++++|+..|+++++++|++..++..+..+
T Consensus        68 ~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~l~P~~~~a~~~l~~~  124 (126)
T 4gco_A           68 DDCDTCIRLDSKFIKGYIRKAACLVAMREWSKAQRAYEDALQVDPSNEEAREGVRNC  124 (126)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHhhhhhhHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcCCHHHHHHHHHh
Confidence            999999999999999999999999999999999999999999999999998887765

>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=99.75  E-value=7.3e-19  Score=150.75  Aligned_cols=125  Identities=18%  Similarity=0.152  Sum_probs=116.8

Q ss_pred             hhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCC-------Ccc-----cccchhHHHHHHHhhhccCCCCCcccCc
Q 012162           18 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPG-------DPI-----VLGNRSSAYIRISQFLKHRPPSASEYRP   85 (469)
Q Consensus        18 ~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~-------~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~~   85 (469)
                      ....+..++..|+.+++.|+|++|+..|++||+++|+       +..     +|.|+|.++..+|+|             
T Consensus         7 ~~~~a~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~-------------   73 (159)
T 2hr2_A            7 EVVGAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSF-------------   73 (159)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCH-------------
T ss_pred             HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCH-------------
Confidence            4557899999999999999999999999999999999       333     999999999999999             


Q ss_pred             cCCCCCchhHHHHHHHHHHHhhc-------cccchHHH----HHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHH
Q 012162           86 LNGLDPTTHAELALKDAEKLLNL-------QSNSMKSH----LLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQ  154 (469)
Q Consensus        86 ~~~~~~~~~~~~A~~~~~~al~l-------~p~~~~~~----~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~  154 (469)
                                ++|+..+++||++       +|+++++|    +++|.++..+|+|++|+..|++|++++|+++.+...+.
T Consensus        74 ----------~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~~~~~~  143 (159)
T 2hr2_A           74 ----------DEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKE  143 (159)
T ss_dssp             ----------HHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTTHH
T ss_pred             ----------HHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHH
Confidence                      9999999999999       99999999    99999999999999999999999999999999999999


Q ss_pred             HHHHhhhhhhc
Q 012162          155 NLERTTASLIG  165 (469)
Q Consensus       155 ~~~~~~~~~~~  165 (469)
                      .+++.++....
T Consensus       144 ~~~~~~~~~~~  154 (159)
T 2hr2_A          144 RMMEVAIDRIA  154 (159)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99988876543

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=99.71  E-value=1.1e-17  Score=145.51  Aligned_cols=126  Identities=22%  Similarity=0.276  Sum_probs=117.4

Q ss_pred             hhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcC------------------CCCCcccccchhHHHHHHHhhhccCCC
Q 012162           17 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNI------------------KPGDPIVLGNRSSAYIRISQFLKHRPP   78 (469)
Q Consensus        17 ~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~------------------~p~~~~~~~~~a~~~~~~~~~~~~~~~   78 (469)
                      +....+..+..+|+.+++.|+|++|+..|++|+++                  +|.++.+|.++|.+|+.+|+|      
T Consensus         6 e~~~~a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~------   79 (162)
T 3rkv_A            6 DKLKSVEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDL------   79 (162)
T ss_dssp             --CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCH------
T ss_pred             HHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcH------
Confidence            45567899999999999999999999999999999                  777789999999999999999      


Q ss_pred             CCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCc-hhHHHHHHHH
Q 012162           79 SASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN-PLQASLQNLE  157 (469)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~-~~~~~~~~~~  157 (469)
                                       ++|+.+++++++++|+++.+|+++|.+|..+|+|++|+.+|+++++++|+++ .+...+..++
T Consensus        80 -----------------~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~l~~~~  142 (162)
T 3rkv_A           80 -----------------HEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAASVVAREMKIVT  142 (162)
T ss_dssp             -----------------HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHH
T ss_pred             -----------------HHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence                             9999999999999999999999999999999999999999999999999998 7788999998


Q ss_pred             Hhhhhhhc
Q 012162          158 RTTASLIG  165 (469)
Q Consensus       158 ~~~~~~~~  165 (469)
                      +.+.....
T Consensus       143 ~~~~~~~~  150 (162)
T 3rkv_A          143 ERRAEKKA  150 (162)
T ss_dssp             HHHHHHTT
T ss_pred             HHHHHHHH
Confidence            88877655

>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=99.70  E-value=2.2e-17  Score=137.95  Aligned_cols=116  Identities=19%  Similarity=0.252  Sum_probs=104.8

Q ss_pred             hhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHH
Q 012162           18 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL   97 (469)
Q Consensus        18 ~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (469)
                      ....+.++.+.|+.+++.|+|++|+.+|++|++++|+++.+|.++|.+|+.+|+|                       ++
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            4567888999999999999999999999999999999999999999999999999                       99


Q ss_pred             HHHHHHHHhhccccch-------HHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHH
Q 012162           98 ALKDAEKLLNLQSNSM-------KSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  157 (469)
Q Consensus        98 A~~~~~~al~l~p~~~-------~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~  157 (469)
                      |+.+++++++++|++.       .+|+++|.++..+|++++|+..|+++++.+|+ ++....+..++
T Consensus        61 A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~kal~~~~~-~~~~~~l~~le  126 (127)
T 4gcn_A           61 CVQFCEKAVEVGRETRADYKLIAKAMSRAGNAFQKQNDLSLAVQWFHRSLSEFRD-PELVKKVKELE  126 (127)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCC-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcC-HHHHHHHHHhC
Confidence            9999999999998764       58999999999999999999999999999885 45555555554

>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=99.69  E-value=3.5e-17  Score=135.86  Aligned_cols=118  Identities=19%  Similarity=0.277  Sum_probs=112.7

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      ..+..+..+|..++..|+|++|+..|+++++++|+++.+|.++|.+|..+|+|                       ++|+
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 012162          100 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVD------PFSNPLQASLQNLERTT  160 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~------p~~~~~~~~~~~~~~~~  160 (469)
                      ..++++++++|+++.+|+.+|.++..+|++++|+..|+++++++      |++..+...+..+.+++
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      99999988888887654

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=99.67  E-value=1.9e-16  Score=138.00  Aligned_cols=126  Identities=25%  Similarity=0.306  Sum_probs=117.9

Q ss_pred             hhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHH
Q 012162           17 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE   96 (469)
Q Consensus        17 ~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (469)
                      +...++..+...|..++..|+|++|+..|+++++++|+++.+|+++|.+|+.+|+|                       +
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            34556889999999999999999999999999999999999999999999999999                       9


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCch--hHHHHHHHHHhhhhhhc
Q 012162           97 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP--LQASLQNLERTTASLIG  165 (469)
Q Consensus        97 ~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~--~~~~~~~~~~~~~~~~~  165 (469)
                      +|+..++++++++|+++.+|+.+|.+|..+|++++|+.+|+++++++|++..  ....+..+++.+.+...
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  67778888888777654

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.66  E-value=1.2e-16  Score=137.77  Aligned_cols=106  Identities=12%  Similarity=-0.008  Sum_probs=102.4

Q ss_pred             hhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHH
Q 012162           19 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA   98 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A   98 (469)
                      ..++..+...|..++..|+|++|+..|+++++++|+++.+|.++|.+|..+|+|                       ++|
T Consensus        33 p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~-----------------------~~A   89 (151)
T 3gyz_A           33 DDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQF-----------------------QQA   89 (151)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccH-----------------------HHH
Confidence            445788999999999999999999999999999999999999999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCc
Q 012162           99 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  147 (469)
Q Consensus        99 ~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~  147 (469)
                      +..++++++++|+++.+|+++|.+|..+|++++|+..|+++++++|+++
T Consensus        90 i~~~~~al~l~P~~~~~~~~lg~~~~~lg~~~eA~~~~~~al~l~~~~~  138 (151)
T 3gyz_A           90 ADLYAVAFALGKNDYTPVFHTGQCQLRLKAPLKAKECFELVIQHSNDEK  138 (151)
T ss_dssp             HHHHHHHHHHSSSCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHH
T ss_pred             HHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHH
Confidence            9999999999999999999999999999999999999999999999875

>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=99.65  E-value=3.4e-16  Score=134.43  Aligned_cols=124  Identities=8%  Similarity=0.052  Sum_probs=115.1

Q ss_pred             hhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHH
Q 012162           19 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA   98 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A   98 (469)
                      ..++..+...|..++..|+|++|+..|+++++++|+++.+|+++|.+|..+|+|                       ++|
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            345778899999999999999999999999999999999999999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhhhc
Q 012162           99 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIG  165 (469)
Q Consensus        99 ~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~  165 (469)
                      +..++++++++|+++.+++.+|.+|..+|++++|+..|+++++++|+++........++..+....+
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            9999999999999999999999999999999999999999999999999888888888777776554

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=99.63  E-value=5.1e-16  Score=132.02  Aligned_cols=123  Identities=11%  Similarity=0.071  Sum_probs=115.4

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      .....+...|..++..|+|++|+..|+++++.+|+++.+|+++|.+|..+|+|                       ++|+
T Consensus        16 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~-----------------------~~A~   72 (142)
T 2xcb_A           16 DTLEQLYALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLY-----------------------EQAL   72 (142)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHH
T ss_pred             HHHHHHHHHHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhH-----------------------HHHH
Confidence            45778889999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhhhc
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIG  165 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~  165 (469)
                      ..++++++++|+++.+++.+|.+|..+|++++|+..|+++++++|+++........+...+....+
T Consensus        73 ~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~l~~l~~  138 (142)
T 2xcb_A           73 QSYSYGALMDINEPRFPFHAAECHLQLGDLDGAESGFYSARALAAAQPAHEALAARAGAMLEAVTA  138 (142)
T ss_dssp             HHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCGGGHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999999999999888888888777766543

>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=99.61  E-value=4e-16  Score=134.24  Aligned_cols=115  Identities=12%  Similarity=0.007  Sum_probs=105.2

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      .....++..|..++..|+|++|+..|+++++++|+++.+|.++|.+|..+|++                       ++|+
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            34556778899999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHH-HhccccCCCCCchhHHHHHHHH
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDA-ILSGLQVDPFSNPLQASLQNLE  157 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~-~~~al~~~p~~~~~~~~~~~~~  157 (469)
                      ..++++++++|+++.+|+.+|.+|...|++++|... +++|++++|+++.+......+-
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 5999999999999877666553

>2kr4_A Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ring, E3 ligase, UBL conjugation pathway; NMR {Mus musculus}

Probab=99.58  E-value=1.1e-15  Score=117.47  Aligned_cols=73  Identities=22%  Similarity=0.297  Sum_probs=64.5

Q ss_pred             CCccccccccccccccccEEccCCCcccHHHHHHHcccCCCccccccccccCCCcccCcccHHHHHHHhchHHHH
Q 012162          173 ERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYA  247 (469)
Q Consensus       173 ~~~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  247 (469)
                      ...+.+.|+||+++|.+||+++|||+||+.||..|+.....||.||.++..  .++.+|..|+++|+.|......
T Consensus        10 ~~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~--~~l~pn~~L~~~i~~~~~~~~~   82 (85)
T 2kr4_A           10 DAPDEFRDPLMDTLMTDPVRLPSGTVMDRSIILRHLLNSPTDPFNRQMLTE--SMLEPVPELKEQIQAWMREKQS   82 (85)
T ss_dssp             TCCTTTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCG--GGCEECHHHHHHHHHHHHHHHH
T ss_pred             cCchheECcccCchhcCCeECCCCCEECHHHHHHHHhcCCCCCCCcCCCCh--HhcchHHHHHHHHHHHHHHhhh
Confidence            455789999999999999999999999999999999877899999999854  5789999999999998755443

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=99.58  E-value=4.1e-15  Score=122.94  Aligned_cols=103  Identities=13%  Similarity=0.057  Sum_probs=93.6

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHH
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  102 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~  102 (469)
                      ..+...|..++..|++++|+..|+++++.+|+++.+|+++|.++..+|++                       ++|+..+
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            45678999999999999999999999999999999999999999999999                       9999999


Q ss_pred             HHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCch
Q 012162          103 EKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  148 (469)
Q Consensus       103 ~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~  148 (469)
                      +++++++|+++.+++.+|.+|...|++++|+..|+++++++|++..
T Consensus        75 ~~al~l~P~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~P~~~~  120 (121)
T 1hxi_A           75 NHARMLDPKDIAVHAALAVSHTNEHNANAALASLRAWLLSQPQYEQ  120 (121)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-------
T ss_pred             HHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCCC
Confidence            9999999999999999999999999999999999999999998754

>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=99.56  E-value=5.9e-15  Score=126.20  Aligned_cols=115  Identities=17%  Similarity=0.171  Sum_probs=98.8

Q ss_pred             HhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccch
Q 012162           34 RESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSM  113 (469)
Q Consensus        34 ~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~  113 (469)
                      +.+.|++|+..|++|++++|+++.+|.++|.++..++++..             +.+.-...++|+..+++||+++|++.
T Consensus        14 r~~~feeA~~~~~~Ai~l~P~~aea~~n~G~~l~~l~~~~~-------------g~~al~~~~eAi~~le~AL~ldP~~~   80 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHS-------------ISDAKQMIQEAITKFEEALLIDPKKD   80 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSC-------------HHHHHHHHHHHHHHHHHHHHHCTTCH
T ss_pred             HHhHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccch-------------hhhhHhHHHHHHHHHHHHHHhCcCcH
Confidence            45789999999999999999999999999999999988600             00000012699999999999999999


Q ss_pred             HHHHHHHHHHHHHh-----------HHHHHHHHHhccccCCCCCchhHHHHHHHHHhhh
Q 012162          114 KSHLLKANALILLE-----------RYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  161 (469)
Q Consensus       114 ~~~~~~g~~~~~~~-----------~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~  161 (469)
                      .+|+.+|.+|..+|           +|++|+.+|++|++++|++..+...++.+.++.+
T Consensus        81 ~A~~~LG~ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~~~y~~al~~~~ka~e  139 (158)
T 1zu2_A           81 EAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSLEMTAKAPQ  139 (158)
T ss_dssp             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHTHHH
T ss_pred             HHHHHHHHHHHHhcccCcchhhhhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHhCHh
Confidence            99999999999875           8999999999999999999999999888877654

>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=99.55  E-value=1.9e-14  Score=129.26  Aligned_cols=126  Identities=17%  Similarity=0.258  Sum_probs=118.7

Q ss_pred             hhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc----------------ccccchhHHHHHHHhhhccCCCCC
Q 012162           17 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----------------IVLGNRSSAYIRISQFLKHRPPSA   80 (469)
Q Consensus        17 ~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~----------------~~~~~~a~~~~~~~~~~~~~~~~~   80 (469)
                      +....+..+...|..++..|+|++|+..|.+++++.|.++                .++.++|.+|..+|+|        
T Consensus        33 ~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~--------  104 (198)
T 2fbn_A           33 EKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDY--------  104 (198)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCH--------
T ss_pred             HHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCH--------
Confidence            4556788899999999999999999999999999999988                8999999999999999        


Q ss_pred             cccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhh
Q 012162           81 SEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  160 (469)
Q Consensus        81 ~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~  160 (469)
                                     ++|+..++++++++|+++.+++.+|.+|..+|++++|+..|+++++++|++..+...+..+...+
T Consensus       105 ---------------~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~  169 (198)
T 2fbn_A          105 ---------------PKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVNKL  169 (198)
T ss_dssp             ---------------HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH
T ss_pred             ---------------HHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHH
Confidence                           99999999999999999999999999999999999999999999999999999999999988887


Q ss_pred             hhhhc
Q 012162          161 ASLIG  165 (469)
Q Consensus       161 ~~~~~  165 (469)
                      +....
T Consensus       170 ~~~~~  174 (198)
T 2fbn_A          170 KEARK  174 (198)
T ss_dssp             HHHHC
T ss_pred             HHHHH
Confidence            76654

>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=99.55  E-value=6.5e-15  Score=123.42  Aligned_cols=121  Identities=24%  Similarity=0.369  Sum_probs=112.3

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      ..+..+...|..++..|+|++|+..|.++++++|+++.++.++|.++..+|++                       ++|+
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~-----------------------~~A~   63 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQP-----------------------EQAL   63 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCH-----------------------HHHH
Confidence            35788999999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCC-----CchhHHHHHHHHHhhhhh
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF-----SNPLQASLQNLERTTASL  163 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~-----~~~~~~~~~~~~~~~~~~  163 (469)
                      ..++++++++|+++.+++.+|.++..+|++++|+..|+++++++|+     +..+...+..+++.....
T Consensus        64 ~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~l~~~~~~~~~~  132 (137)
T 3q49_B           64 ADCRRALELDGQSVKAHFFLGQCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRIAKKKRWNS  132 (137)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCchhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHChhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999998     677777777777665443

>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=99.55  E-value=2.3e-14  Score=115.86  Aligned_cols=115  Identities=31%  Similarity=0.482  Sum_probs=109.8

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      .+..+...|..++..|+|++|+..|+++++.+|+++.++.++|.++...|++                       ++|+.
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 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  158 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~  158 (469)
                      .++++++++|+++.+++.+|.++..+|++++|+..|+++++++|++..+...+..+.+
T Consensus        60 ~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  117 (118)
T 1elw_A           60 DGCKTVDLKPDWGKGYSRKAAALEFLNRFEEAKRTYEEGLKHEANNPQLKEGLQNMEA  117 (118)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHhhc
Confidence            9999999999999999999999999999999999999999999999998888777654

>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=99.54  E-value=1.5e-15  Score=120.14  Aligned_cols=71  Identities=23%  Similarity=0.293  Sum_probs=63.2

Q ss_pred             CCCccccccccccccccccEEccCCCcccHHHHHHHcccCCCccccccccccCCCcccCcccHHHHHHHhchH
Q 012162          172 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPE  244 (469)
Q Consensus       172 ~~~~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~~~  244 (469)
                      ....+.+.|+||+++|.+||+++|||+||+.||..|+.....||.||.++..  .++.+|..|+++|+.|...
T Consensus        24 ~~~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~--~~L~pn~~Lk~~I~~~~~~   94 (100)
T 2kre_A           24 SDAPDEFRDPLMDTLMTDPVRLPSGTIMDRSIILRHLLNSPTDPFNRQTLTE--SMLEPVPELKEQIQAWMRE   94 (100)
T ss_dssp             SSCSTTTBCTTTCSBCSSEEEETTTEEEEHHHHHHHTTSCSBCSSSCCBCCT--TSSEECHHHHHHHHHHHHT
T ss_pred             ccCcHhhCCcCccCcccCCeECCCCCEEchHHHHHHHHcCCCCCCCCCCCCh--hhceECHHHHHHHHHHHHH
Confidence            3456789999999999999999999999999999999877899999999853  5889999999999998643

>1t1h_A Gspef-atpub14, armadillo repeat containing protein; ubiquitin ligase, E3 ligase, U-BOX,; NMR {Arabidopsis thaliana} SCOP: g.44.1.2

Probab=99.54  E-value=4e-15  Score=112.83  Aligned_cols=69  Identities=23%  Similarity=0.444  Sum_probs=60.9

Q ss_pred             CCccccccccccccccccEEccCCCcccHHHHHHHccc-CCCccccccccccCCCcccCcccHHHHHHHhch
Q 012162          173 ERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR-GNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFP  243 (469)
Q Consensus       173 ~~~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~~  243 (469)
                      ...+.+.|+||.+.|.+|++++|||+||+.||..|+.. ...||.||.++..  .++.+|..|+++|++|..
T Consensus         4 ~~~~~~~C~IC~~~~~~Pv~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~--~~l~~n~~l~~~i~~~~~   73 (78)
T 1t1h_A            4 EFPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLH--AGLTPNYVLKSLIALWCE   73 (78)
T ss_dssp             CCSSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSS--CCCEECTTTHHHHHHHHH
T ss_pred             CCcccCCCCCccccccCCEEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCCh--hhCccCHHHHHHHHHHHH
Confidence            45678899999999999999999999999999999986 5689999999853  478889999999998753

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=99.53  E-value=1.8e-14  Score=119.34  Aligned_cols=121  Identities=26%  Similarity=0.390  Sum_probs=112.7

Q ss_pred             hhhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhH
Q 012162           16 WDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA   95 (469)
Q Consensus        16 ~~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (469)
                      +........+...|..++..|+|++|+..|+++++.+|+++.++.++|.+|...|++                       
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~-----------------------   66 (133)
T 2lni_A           10 HMNPDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEF-----------------------   66 (133)
T ss_dssp             CSSSCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCH-----------------------
T ss_pred             CcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccH-----------------------
Confidence            344556889999999999999999999999999999999999999999999999999                       


Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHh
Q 012162           96 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERT  159 (469)
Q Consensus        96 ~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~  159 (469)
                      ++|+..++++++++|+++.+++.+|.++..+|++++|+..|+++++++|++..+...+..+...
T Consensus        67 ~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  130 (133)
T 2lni_A           67 QLALKDCEECIQLEPTFIKGYTRKAAALEAMKDYTKAMDVYQKALDLDSSCKEAADGYQRCMMA  130 (133)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCCCchHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999998888777766544

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.52  E-value=9.7e-15  Score=132.61  Aligned_cols=114  Identities=16%  Similarity=0.056  Sum_probs=108.8

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccc----------------hhHHHHHHHhhhccCCCCCcccC
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGN----------------RSSAYIRISQFLKHRPPSASEYR   84 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~----------------~a~~~~~~~~~~~~~~~~~~~~~   84 (469)
                      .+..+..+|..++..|+|++|+..|+++++++|+++.+|++                +|.+|..+|++            
T Consensus         3 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~------------   70 (208)
T 3urz_A            3 SVDEMLQKVSAAIEAGQNGQAVSYFRQTIALNIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNY------------   70 (208)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCH------------
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCH------------
Confidence            46778999999999999999999999999999999999999                99999999999            


Q ss_pred             ccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHH
Q 012162           85 PLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  157 (469)
Q Consensus        85 ~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~  157 (469)
                                 ++|+..++++++++|+++.+++.+|.+|...|++++|+..|+++++++|++..+...+..+-
T Consensus        71 -----------~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~  132 (208)
T 3urz_A           71 -----------DKAYLFYKELLQKAPNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEADNLAANIFLGNYY  132 (208)
T ss_dssp             -----------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             -----------HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence                       99999999999999999999999999999999999999999999999999999888777654

>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=99.52  E-value=1.2e-14  Score=114.47  Aligned_cols=71  Identities=20%  Similarity=0.303  Sum_probs=63.2

Q ss_pred             CCCccccccccccccccccEEccCC-CcccHHHHHHHcccCCCccccccccccCCCcccCcccHHHHHHHhchH
Q 012162          172 PERTDDFDCTLCLKLLYEPITTPCG-HSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPE  244 (469)
Q Consensus       172 ~~~~~~~~C~ic~~~~~~p~~~~cg-h~~C~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~~~  244 (469)
                      ....+.+.|+||+++|.+||+++|| |+||+.||..|+.....||.||.++..  .++.+|..|+++|+.|...
T Consensus        17 ~~~p~~~~CpI~~~~m~dPV~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~~--~~L~pn~~Lk~~I~~~~~~   88 (98)
T 1wgm_A           17 ADACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTM--DQIRPNTELKEKIQRWLAE   88 (98)
T ss_dssp             CSCCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCT--TTSEECHHHHHHHHHHHHH
T ss_pred             hcCcHhcCCcCccccccCCeECCCCCeEECHHHHHHHHHhCCCCCCCCCCCCh--hhceEcHHHHHHHHHHHHH
Confidence            3456789999999999999999999 999999999999887799999999854  5889999999999998643

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.52  E-value=3.6e-14  Score=129.67  Aligned_cols=120  Identities=16%  Similarity=0.218  Sum_probs=111.2

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      .++..+...|..++..|++++|+..|+++++++|+++.+++++|.++...|++                       ++|+
T Consensus         3 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~-----------------------~~A~   59 (217)
T 2pl2_A            3 TAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLV-----------------------NPAL   59 (217)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCH-----------------------HHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH-----------------------HHHH
Confidence            34567889999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHH-----------hHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhh
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANALILL-----------ERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~~~-----------~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                      ..++++++++|+++.+++.+|.++...           |++++|+..|+++++++|++..+...+..+-...+.
T Consensus        60 ~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~lg~~~~~~g~  133 (217)
T 2pl2_A           60 ENGKTLVARTPRYLGGYMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPRYAPLHLQRGLVYALLGE  133 (217)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCC
Confidence            999999999999999999999999999           999999999999999999999888777766554443

>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=99.51  E-value=2.5e-14  Score=146.06  Aligned_cols=124  Identities=15%  Similarity=0.275  Sum_probs=112.5

Q ss_pred             hhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC---------------cccccchhHHHHHHHhhhccCCCCCcc
Q 012162           18 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---------------PIVLGNRSSAYIRISQFLKHRPPSASE   82 (469)
Q Consensus        18 ~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~---------------~~~~~~~a~~~~~~~~~~~~~~~~~~~   82 (469)
                      ....+..+..+|+.+++.|+|++|+..|++|++++|++               ..+|+++|.+|+++++|          
T Consensus       264 ~~~~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~----------  333 (457)
T 1kt0_A          264 KLEQAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREY----------  333 (457)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCH----------
T ss_pred             HHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCH----------
Confidence            44568889999999999999999999999999999998               58999999999999999          


Q ss_pred             cCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhh
Q 012162           83 YRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus        83 ~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                                   ++|+.+++++++++|+++++|+++|.+|..+|+|++|+.+|++|++++|++..+...+..+...+++
T Consensus       334 -------------~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~  400 (457)
T 1kt0_A          334 -------------TKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQKKAKE  400 (457)
T ss_dssp             -------------HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHHHHHH
T ss_pred             -------------HHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHH
Confidence                         9999999999999999999999999999999999999999999999999999999888888877765


Q ss_pred             hh
Q 012162          163 LI  164 (469)
Q Consensus       163 ~~  164 (469)
                      ..
T Consensus       401 ~~  402 (457)
T 1kt0_A          401 HN  402 (457)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>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=99.51  E-value=3.4e-14  Score=139.09  Aligned_cols=124  Identities=17%  Similarity=0.263  Sum_probs=114.9

Q ss_pred             hhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC---------------cccccchhHHHHHHHhhhccCCCCCcc
Q 012162           18 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---------------PIVLGNRSSAYIRISQFLKHRPPSASE   82 (469)
Q Consensus        18 ~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~---------------~~~~~~~a~~~~~~~~~~~~~~~~~~~   82 (469)
                      ....+..+..+|..++..|+|++|+..|++|++++|++               ..+|.++|.+|+.+|+|          
T Consensus       143 ~p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~----------  212 (336)
T 1p5q_A          143 KLEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAF----------  212 (336)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCH----------
T ss_pred             HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCH----------
Confidence            44568889999999999999999999999999999999               58999999999999999          


Q ss_pred             cCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhh
Q 012162           83 YRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus        83 ~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                                   ++|+..++++++++|+++.+|+++|.+|..+|+|++|+.+|+++++++|++..+...+..+...+++
T Consensus       213 -------------~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~  279 (336)
T 1p5q_A          213 -------------SAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRR  279 (336)
T ss_dssp             -------------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHH
T ss_pred             -------------HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHH
Confidence                         9999999999999999999999999999999999999999999999999999988888777666554


Q ss_pred             hh
Q 012162          163 LI  164 (469)
Q Consensus       163 ~~  164 (469)
                      ..
T Consensus       280 ~~  281 (336)
T 1p5q_A          280 QL  281 (336)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=99.51  E-value=5.4e-15  Score=122.72  Aligned_cols=71  Identities=32%  Similarity=0.687  Sum_probs=62.3

Q ss_pred             cccccccccccccccEEccCCCcccHHHHHHHcccC-CCccccccccccCCCcccCcccHHHHHHHhchHHHH
Q 012162          176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRG-NKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYA  247 (469)
Q Consensus       176 ~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~~-~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  247 (469)
                      +.+.|+||++.+.+|++++|||+||+.||..|+..+ ..||.||.++... ..+.+|..+.+++++++|+...
T Consensus        51 ~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~-~~~~~n~~l~~~i~~~~p~~~~  122 (124)
T 3fl2_A           51 ETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGRS-YAMQVNQPLQTVLNQLFPGYGN  122 (124)
T ss_dssp             HHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT-CCCCCCHHHHHHHHHHSTTTTT
T ss_pred             cCCCCCcCChHHcCcEEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCCC-CCCCCCHHHHHHHHHHcccccc
Confidence            567899999999999999999999999999999754 4899999998542 5788999999999999988543

>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=99.50  E-value=2.7e-14  Score=153.05  Aligned_cols=117  Identities=18%  Similarity=0.191  Sum_probs=92.5

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      .++.++.+.|..+.+.|+|++|+..|++|++++|+++.+|+++|.+|.++|++                       ++|+
T Consensus         7 ~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~-----------------------~eA~   63 (723)
T 4gyw_A            7 THADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKL-----------------------QEAL   63 (723)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCH-----------------------HHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH-----------------------HHHH
Confidence            45777888888888888888888888888888888888888888888888888                       7888


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHh
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERT  159 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~  159 (469)
                      ..+++|++++|+++.+|+++|.+|..+|++++|++.|++|++++|++..+...+..+...
T Consensus        64 ~~~~~Al~l~P~~~~a~~nLg~~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~  123 (723)
T 4gyw_A           64 MHYKEAIRISPTFADAYSNMGNTLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKD  123 (723)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            888888888888888888888888888888888888888888888777766665544433

>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=99.50  E-value=6.7e-15  Score=126.49  Aligned_cols=111  Identities=17%  Similarity=0.149  Sum_probs=101.4

Q ss_pred             hHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhh
Q 012162           28 KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLN  107 (469)
Q Consensus        28 ~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~  107 (469)
                      .|..+..+|++++|+..|.+++..+|+++..++++|.+|+.+|+|                       ++|+..++++++
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            577888899999999999999999999999999999999999999                       999999999999


Q ss_pred             ccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhh
Q 012162          108 LQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  161 (469)
Q Consensus       108 l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~  161 (469)
                      ++|+++.+|+.+|.+|..+|++++|+..|+++++++|++..+...+..+-...+
T Consensus        60 ~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~  113 (150)
T 4ga2_A           60 VQERDPKAHRFLGLLYELEENTDKAVECYRRSVELNPTQKDLVLKIAELLCKND  113 (150)
T ss_dssp             HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHC
T ss_pred             hCCCCHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcC
Confidence            999999999999999999999999999999999999999998888776655443

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.50  E-value=5.3e-14  Score=118.95  Aligned_cols=118  Identities=20%  Similarity=0.351  Sum_probs=111.2

Q ss_pred             hhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC---cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchh
Q 012162           18 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH   94 (469)
Q Consensus        18 ~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (469)
                      ....+..+...|..++..|+|++|+..|+++++.+|++   ..++.++|.+|..+|++                      
T Consensus        24 ~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~----------------------   81 (148)
T 2dba_A           24 GASSVEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDY----------------------   81 (148)
T ss_dssp             TCCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCH----------------------
T ss_pred             chHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccH----------------------
Confidence            34568889999999999999999999999999999998   89999999999999999                      


Q ss_pred             HHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHH
Q 012162           95 AELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  158 (469)
Q Consensus        95 ~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~  158 (469)
                       ++|+..++++++++|+++.+++.+|.++..+|++++|+..|+++++++|++..+...+..+.+
T Consensus        82 -~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~  144 (148)
T 2dba_A           82 -DKAETEASKAIEKDGGDVKALYRRSQALEKLGRLDQAVLDLQRCVSLEPKNKVFQEALRNISG  144 (148)
T ss_dssp             -HHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHC
T ss_pred             -HHHHHHHHHHHhhCccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHh
Confidence             999999999999999999999999999999999999999999999999999998888777754

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=99.48  E-value=5.8e-14  Score=116.23  Aligned_cols=114  Identities=12%  Similarity=0.081  Sum_probs=106.2

Q ss_pred             HHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc---ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           24 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        24 ~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      .+...|..++..|+|++|+..|+++++.+|+++   .+++++|.+|+..|+|                       ++|+.
T Consensus         4 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~-----------------------~~A~~   60 (129)
T 2xev_A            4 TAYNVAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNF-----------------------QLAEA   60 (129)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccH-----------------------HHHHH
Confidence            467889999999999999999999999999998   7999999999999999                       99999


Q ss_pred             HHHHHhhccccc---hHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhh
Q 012162          101 DAEKLLNLQSNS---MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  160 (469)
Q Consensus       101 ~~~~al~l~p~~---~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~  160 (469)
                      .++++++.+|++   +.+++.+|.++..+|++++|+..|+++++..|++..+......+....
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   899999999999999999999999999999999998877777666543

>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=99.48  E-value=4.3e-14  Score=140.16  Aligned_cols=126  Identities=20%  Similarity=0.280  Sum_probs=117.4

Q ss_pred             hhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhc----------------CCCCCcccccchhHHHHHHHhhhccCCCCC
Q 012162           17 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANN----------------IKPGDPIVLGNRSSAYIRISQFLKHRPPSA   80 (469)
Q Consensus        17 ~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~----------------~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~   80 (469)
                      .....+..+...|+.+++.|+|++|+..|++|++                ++|.++.+|.++|.+|+++++|        
T Consensus       218 ~~~~~a~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~--------  289 (370)
T 1ihg_A          218 KILLISEDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDW--------  289 (370)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCH--------
T ss_pred             HHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCH--------
Confidence            3445678899999999999999999999999999                8888899999999999999999        


Q ss_pred             cccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhh
Q 012162           81 SEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  160 (469)
Q Consensus        81 ~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~  160 (469)
                                     ++|+.+++++++++|+++++|+++|.+|..+|+|++|+.+|++|++++|++..+...+..+.+.+
T Consensus       290 ---------------~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~~~~  354 (370)
T 1ihg_A          290 ---------------QGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKI  354 (370)
T ss_dssp             ---------------HHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             ---------------HHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence                           99999999999999999999999999999999999999999999999999999999998888877


Q ss_pred             hhhhc
Q 012162          161 ASLIG  165 (469)
Q Consensus       161 ~~~~~  165 (469)
                      +....
T Consensus       355 ~~~~~  359 (370)
T 1ihg_A          355 KAQKD  359 (370)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            66543

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=99.48  E-value=1.4e-13  Score=113.15  Aligned_cols=123  Identities=22%  Similarity=0.312  Sum_probs=114.3

Q ss_pred             hhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHH
Q 012162           17 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE   96 (469)
Q Consensus        17 ~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (469)
                      .....+..+...|..++..|+|++|+..|+++++.+|+++.++.++|.++...|++                       +
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            34556888999999999999999999999999999999999999999999999999                       9


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhh
Q 012162           97 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus        97 ~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                      +|+..++++++++|+++.+++.+|.++..+|++++|+..|+++++++|++..+...+..+...+++
T Consensus        64 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           64 GAVQDCERAICIDPAYSKAYGRMGLALSSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhcCccCHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhc
Confidence            999999999999999999999999999999999999999999999999999888887777665543

>3ztg_A E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mRNA processing, mRNA splicing; NMR {Homo sapiens}

Probab=99.47  E-value=4.4e-14  Score=110.66  Aligned_cols=72  Identities=19%  Similarity=0.563  Sum_probs=60.8

Q ss_pred             CCCCccccccccccccccccEEcc-CCCcccHHHHHHHcccC--CCccccccccccCCCcccCcccHHHHHHHhch
Q 012162          171 TPERTDDFDCTLCLKLLYEPITTP-CGHSFCRSCLFQSMDRG--NKCPLCRAVLFITPRTCAVSVTLNSIIQKNFP  243 (469)
Q Consensus       171 ~~~~~~~~~C~ic~~~~~~p~~~~-cgh~~C~~Ci~~~~~~~--~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~~  243 (469)
                      .....+.+.|+||++.+.+|++++ |||+||+.||..|+...  ..||.||.++. ....+.+|..+.++++.+..
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            344567889999999999999999 99999999999998643  58999999873 23578899999999988754

>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=99.46  E-value=2.2e-13  Score=117.51  Aligned_cols=118  Identities=25%  Similarity=0.387  Sum_probs=109.9

Q ss_pred             hhhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhH
Q 012162           16 WDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA   95 (469)
Q Consensus        16 ~~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (469)
                      ......+..+...|..++..|+|++|+..|.++++.+|+++.++.++|.++..+|++                       
T Consensus         7 ~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~~~~~-----------------------   63 (166)
T 1a17_A            7 DGALKRAEELKTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECY-----------------------   63 (166)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCH-----------------------
T ss_pred             hhHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCH-----------------------
Confidence            345667899999999999999999999999999999999999999999999999999                       


Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHH
Q 012162           96 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  156 (469)
Q Consensus        96 ~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~  156 (469)
                      ++|+..++++++++|+++.+++.+|.++..+|++++|+..|+++++++|++..+...+...
T Consensus        64 ~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~  124 (166)
T 1a17_A           64 GYALGDATRAIELDKKYIKGYYRRAASNMALGKFRAALRDYETVVKVKPHDKDAKMKYQEC  124 (166)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999998776544443

>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=99.46  E-value=1.7e-13  Score=112.79  Aligned_cols=119  Identities=17%  Similarity=0.280  Sum_probs=110.8

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      .+..+...|..++..|+|++|+..|.++++.+|.++.++.++|.+|...|++                       ++|+.
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 012162          101 DAEKLLNLQSNS-------MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  163 (469)
Q Consensus       101 ~~~~al~l~p~~-------~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~  163 (469)
                      .++++++++|++       +.+++.+|.++..+|++++|+..|+++++++| +......+..+.+.++..
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            999999999988       99999999999999999999999999999999 677888888887776654

>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=99.46  E-value=2.2e-14  Score=117.39  Aligned_cols=82  Identities=33%  Similarity=0.742  Sum_probs=68.5

Q ss_pred             CCCccccccccccccccccEEccCCCcccHHHHHHHccc-CCCccccccccccC-----CCcccCcccHHHHHHHhchHH
Q 012162          172 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR-GNKCPLCRAVLFIT-----PRTCAVSVTLNSIIQKNFPEE  245 (469)
Q Consensus       172 ~~~~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~-~~~CP~Cr~~~~~~-----~~~~~~~~~l~~~~~~~~~~~  245 (469)
                      ....+.+.|+||++.+.+|++++|||+||..||..|+.. ...||.||..+...     ..+..+|..+.+++++++|++
T Consensus        10 ~~~~~~~~C~iC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~n~~l~~~i~~~~p~~   89 (115)
T 3l11_A           10 IPSLSECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRRNSLVNVELWTIIQKHYPRE   89 (115)
T ss_dssp             CCCHHHHBCTTTCSBCSSCEECTTSCEECHHHHCCCCCTTTSBCTTTCCBCHHHHHHHHHTTCCBCHHHHHHHHHHSHHH
T ss_pred             cCCCCCCCCccCCcccCceeEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccCccccccccccchhhHHHHHHHHHHCCHH
Confidence            344567899999999999999999999999999999976 45899999987531     245678999999999999999


Q ss_pred             HHHhhhhc
Q 012162          246 YAERKSEH  253 (469)
Q Consensus       246 ~~~~~~~~  253 (469)
                      ...+..+.
T Consensus        90 ~~~r~~~~   97 (115)
T 3l11_A           90 CKLRASGQ   97 (115)
T ss_dssp             HHHHHHC-
T ss_pred             HHHHHhhh
Confidence            88776543

>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=99.45  E-value=9.8e-14  Score=148.73  Aligned_cols=117  Identities=13%  Similarity=0.068  Sum_probs=110.2

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      .+..+.+.|..+.+.|++++|+..|++|++++|+++.+|+++|.+|..+|++                       ++|+.
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            4678899999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhh
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  160 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~  160 (469)
                      .+++|++++|+++.+|+++|.+|..+|++++|+..|++|++++|++..+...+..+...+
T Consensus        99 ~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~  158 (723)
T 4gyw_A           99 CYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIV  158 (723)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhc
Confidence            999999999999999999999999999999999999999999999998887776554443

>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=99.45  E-value=2.6e-14  Score=122.14  Aligned_cols=72  Identities=31%  Similarity=0.629  Sum_probs=62.9

Q ss_pred             cccccccccccccccEEccCCCcccHHHHHHHcccCC-CccccccccccCCCcccCcccHHHHHHHhchHHHHH
Q 012162          176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGN-KCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAE  248 (469)
Q Consensus       176 ~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~~~-~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~  248 (469)
                      +.+.|+||++.+.+|++++|||+||+.||..|+..+. .||.||.++... ..+.+|..+.++++.++|+....
T Consensus        77 ~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~-~~l~~n~~l~~lv~~~~p~~~~~  149 (150)
T 1z6u_A           77 QSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQN-YIMIPNEILQTLLDLFFPGYSKG  149 (150)
T ss_dssp             HHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT-CCCCBCHHHHHHHHHHSTTTTTT
T ss_pred             cCCEeecCChhhcCCEEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCCC-CCCCCCHHHHHHHHHHhhHhhcc
Confidence            5678999999999999999999999999999998664 899999998543 37889999999999999875443

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=99.44  E-value=4.2e-14  Score=138.53  Aligned_cols=122  Identities=20%  Similarity=0.260  Sum_probs=97.5

Q ss_pred             hhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc-----------------ccccchhHHHHHHHhhhccCCCC
Q 012162           17 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP-----------------IVLGNRSSAYIRISQFLKHRPPS   79 (469)
Q Consensus        17 ~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~-----------------~~~~~~a~~~~~~~~~~~~~~~~   79 (469)
                      .....+..+..+|+.++..|+|++|+..|.+|+++.|++.                 .+|+++|.+|+++|+|       
T Consensus       174 ~~~~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~-------  246 (338)
T 2if4_A          174 ERIGAADRRKMDGNSLFKEEKLEEAMQQYEMAIAYMGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRY-------  246 (338)
T ss_dssp             HHHHHHHHHHHHHHHTCSSSCCHHHHHHHHHHHHHSCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCC-------
T ss_pred             HHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCH-------
Confidence            4566789999999999999999999999999999999877                 4899999999999999       


Q ss_pred             CcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHh
Q 012162           80 ASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERT  159 (469)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~  159 (469)
                                      ++|+..++++++++|+++.+|+++|.+|..+|+|++|+.+|+++++++|++..++..+..+...
T Consensus       247 ----------------~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~  310 (338)
T 2if4_A          247 ----------------DEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQ  310 (338)
T ss_dssp             ----------------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC------------------
T ss_pred             ----------------HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
Confidence                            9999999999999999999999999999999999999999999999999999998888877554


Q ss_pred             hh
Q 012162          160 TA  161 (469)
Q Consensus       160 ~~  161 (469)
                      ..
T Consensus       311 ~~  312 (338)
T 2if4_A          311 EK  312 (338)
T ss_dssp             --
T ss_pred             HH
Confidence            43

>2f42_A STIP1 homology and U-box containing protein 1; chaperone; 2.50A {Danio rerio} PDB: 2c2v_S 2oxq_C

Probab=99.44  E-value=9.5e-14  Score=120.68  Aligned_cols=70  Identities=21%  Similarity=0.338  Sum_probs=61.8

Q ss_pred             CCCCccccccccccccccccEEccCCCcccHHHHHHHccc-CCCccccccccccCCCcccCcccHHHHHHHhc
Q 012162          171 TPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR-GNKCPLCRAVLFITPRTCAVSVTLNSIIQKNF  242 (469)
Q Consensus       171 ~~~~~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~  242 (469)
                      .......+.||||.++|.+||+++|||+||+.||..|+.. +..||.||.++..  .++.+|..|+++|+.|.
T Consensus       100 ~~~ip~~f~CPI~~elm~DPV~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~--~~L~pN~~Lk~~Ie~~~  170 (179)
T 2f42_A          100 KREIPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQ--DQLIPNLAMKEVIDAFI  170 (179)
T ss_dssp             CCCCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG--GGCEECHHHHHHHHHHH
T ss_pred             ccCCcHhhcccCccccCCCCeECCCCCEECHHHHHHHHHhCCCCCCCCcCCCCh--hhCcchHHHHHHHHHHH
Confidence            3455689999999999999999999999999999999975 3479999999854  57899999999999885

>4ayc_A E3 ubiquitin-protein ligase RNF8; DNA damage, K63 chains; HET: CPQ; 1.90A {Homo sapiens} PDB: 4epo_C

Probab=99.43  E-value=2.6e-14  Score=120.79  Aligned_cols=74  Identities=27%  Similarity=0.693  Sum_probs=55.1

Q ss_pred             cccccccccccccccEEccCCCcccHHHHHHHcccCCCccccccccccCCCcccCcccHHHHHHHhchHHHHHhh
Q 012162          176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAERK  250 (469)
Q Consensus       176 ~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~  250 (469)
                      +++.|+||++.+.+|++++|||+||..||..|+.....||.||.++...+.++..+..+..++.. ++++..+++
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            45689999999999999999999999999999998889999999885332233334444444443 444444443

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.43  E-value=4.1e-13  Score=122.62  Aligned_cols=117  Identities=16%  Similarity=0.099  Sum_probs=108.2

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHH-----------HhhhccCCCCCcccCccCCC
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRI-----------SQFLKHRPPSASEYRPLNGL   89 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~-----------~~~~~~~~~~~~~~~~~~~~   89 (469)
                      .+..+...|..+...|++++|+..|+++++++|+++.++.++|.++..+           |++                 
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            4678889999999999999999999999999999999999999999999           999                 


Q ss_pred             CCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhh
Q 012162           90 DPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  161 (469)
Q Consensus        90 ~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~  161 (469)
                            ++|+..++++++++|+++.+++.+|.+|..+|++++|+..|+++++++ ++..+...+..+-...+
T Consensus       101 ------~~A~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~la~~~~~~g  165 (217)
T 2pl2_A          101 ------EQALSVLKDAERVNPRYAPLHLQRGLVYALLGERDKAEASLKQALALE-DTPEIRSALAELYLSMG  165 (217)
T ss_dssp             ------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHHT
T ss_pred             ------HHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc-cchHHHHHHHHHHHHcC
Confidence                  999999999999999999999999999999999999999999999999 88887776666554443

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.43  E-value=8.4e-13  Score=119.68  Aligned_cols=106  Identities=20%  Similarity=0.234  Sum_probs=93.7

Q ss_pred             hHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhh
Q 012162           28 KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLN  107 (469)
Q Consensus        28 ~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~  107 (469)
                      .|..++..|+|++|+..|+++++++|+++.++.++|.+|..+|++                       ++|+..++++++
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            999999999999999999999999999999999999999999999                       999999999999


Q ss_pred             ccccchHHHHHHHHHHHHH-----------------------------------hHHHHHHHHHhccccCCCCCchhHHH
Q 012162          108 LQSNSMKSHLLKANALILL-----------------------------------ERYDMARDAILSGLQVDPFSNPLQAS  152 (469)
Q Consensus       108 l~p~~~~~~~~~g~~~~~~-----------------------------------~~~~~A~~~~~~al~~~p~~~~~~~~  152 (469)
                      ++|+++.+|+.+|.+|...                                   |+|++|+.+|+++++++|++ .+...
T Consensus       117 ~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~~-~~~~~  195 (208)
T 3urz_A          117 LEADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSSPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPST-EAQKT  195 (208)
T ss_dssp             HCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCCH-HHHHH
T ss_pred             cCCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCH-HHHHH
Confidence            9999999999998887543                                   45788999999999999964 34444


Q ss_pred             HHHHH
Q 012162          153 LQNLE  157 (469)
Q Consensus       153 ~~~~~  157 (469)
                      +.+++
T Consensus       196 l~~i~  200 (208)
T 3urz_A          196 LDKIL  200 (208)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            55543

>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=99.42  E-value=1.4e-13  Score=136.97  Aligned_cols=118  Identities=10%  Similarity=-0.051  Sum_probs=87.1

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHh-hhccCCCCCcccCccCCCCCchhHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQ-FLKHRPPSASEYRPLNGLDPTTHAELA   98 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~A   98 (469)
                      ..+..+...|..+...|++++|+..|++|++++|+++.+|+++|.++..+|+ +                       ++|
T Consensus        95 ~~~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~P~~~~a~~~~g~~l~~~g~d~-----------------------~eA  151 (382)
T 2h6f_A           95 KFRDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDL-----------------------HEE  151 (382)
T ss_dssp             HHHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCH-----------------------HHH
T ss_pred             hhHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcccCH-----------------------HHH
Confidence            3466677777777777777777777777777777777777777777777775 7                       777


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhh
Q 012162           99 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  160 (469)
Q Consensus        99 ~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~  160 (469)
                      +..++++++++|+++.+|+.+|.++..+|++++|+..|+++++++|++..++..+..+-..+
T Consensus       152 l~~~~~al~l~P~~~~a~~~~g~~~~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~  213 (382)
T 2h6f_A          152 MNYITAIIEEQPKNYQVWHHRRVLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEF  213 (382)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHc
Confidence            77777777777777777777777777777777777777777777777776665555444433

>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=99.42  E-value=1.3e-13  Score=111.30  Aligned_cols=74  Identities=26%  Similarity=0.597  Sum_probs=63.5

Q ss_pred             ccccccccccccccccEEc-cCCCcccHHHHHHHcccCCCccccccccccCC--CcccCcccHHHHHHHhchHHHHH
Q 012162          175 TDDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDRGNKCPLCRAVLFITP--RTCAVSVTLNSIIQKNFPEEYAE  248 (469)
Q Consensus       175 ~~~~~C~ic~~~~~~p~~~-~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~~~~--~~~~~~~~l~~~~~~~~~~~~~~  248 (469)
                      .+.+.|+||++.+.+|+++ +|||+||+.||..|+..+..||.||..+....  ..+..|..+.++++++++.....
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            4678999999999999997 99999999999999998889999999985321  25678999999999999865533

>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=99.41  E-value=2.1e-13  Score=135.56  Aligned_cols=118  Identities=10%  Similarity=-0.010  Sum_probs=112.1

Q ss_pred             hhHHHHHHhHHHHHHhcc-HHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHH
Q 012162           20 THVFDLVQKGNRAFRESN-FEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA   98 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~-~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A   98 (469)
                      ..+..+..+|..+...|+ |++|+..|++|++++|+++.+|+++|.++..+|++                       ++|
T Consensus       129 ~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~~~~~g~~-----------------------~eA  185 (382)
T 2h6f_A          129 ANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEWLRDP-----------------------SQE  185 (382)
T ss_dssp             TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCC-----------------------TTH
T ss_pred             cCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHccCH-----------------------HHH
Confidence            447888999999999996 99999999999999999999999999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhh
Q 012162           99 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  160 (469)
Q Consensus        99 ~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~  160 (469)
                      +..++++++++|+++.+|+.+|.++..+|++++|+.+|+++++++|++..++..+..+-..+
T Consensus       186 l~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~~~~a~~~lg~~l~~l  247 (382)
T 2h6f_A          186 LEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNT  247 (382)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999998888876653

>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=99.40  E-value=6.4e-13  Score=121.66  Aligned_cols=106  Identities=16%  Similarity=0.165  Sum_probs=101.8

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCC-CCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKP-GDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ...+..+|..++..|+|++|+..|+++++++| .+..+++++|.++..+|++                       ++|+.
T Consensus         7 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~-----------------------~~A~~   63 (228)
T 4i17_A            7 PNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKY-----------------------KEAAD   63 (228)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcH-----------------------HHHHH
Confidence            47889999999999999999999999999999 8999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhH
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  150 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~  150 (469)
                      .++++++++|+++.+++.+|.+|..+|++++|+..|+++++++|++....
T Consensus        64 ~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~  113 (228)
T 4i17_A           64 YFDIAIKKNYNLANAYIGKSAAYRDMKNNQEYIATLTEGIKAVPGNATIE  113 (228)
T ss_dssp             HHHHHHHTTCSHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHH
T ss_pred             HHHHHHHhCcchHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHH
Confidence            99999999999999999999999999999999999999999999998543

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=99.39  E-value=6.6e-14  Score=114.58  Aligned_cols=101  Identities=14%  Similarity=0.065  Sum_probs=90.0

Q ss_pred             HhccHHHHHHHHHHHhcC---CCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccc
Q 012162           34 RESNFEEAISNYSRANNI---KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQS  110 (469)
Q Consensus        34 ~~~~~~~A~~~y~~al~~---~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p  110 (469)
                      ..|+|++|+..|++|+++   +|+++.++.++|.+|..+|+|                       ++|+..++++++++|
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            468999999999999999   699999999999999999999                       999999999999999


Q ss_pred             cchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHH
Q 012162          111 NSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  157 (469)
Q Consensus       111 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~  157 (469)
                      +++.+++.+|.++..+|++++|+..|+++++.+|+++.+......+.
T Consensus        59 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~ai~  105 (117)
T 3k9i_A           59 NHQALRVFYAMVLYNLGRYEQGVELLLKIIAETSDDETIQSYKQAIL  105 (117)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHTHHHHH
T ss_pred             CchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHH
Confidence            99999999999999999999999999999999999988765544443

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.39  E-value=8.4e-13  Score=116.53  Aligned_cols=115  Identities=16%  Similarity=0.220  Sum_probs=89.5

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ++..+...|..++..|+|++|+..|++|++++|+++.++.++|.+|..+|++                       ++|+.
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            4677889999999999999999999999999999999999999999999998                       66666


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHH
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  158 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~  158 (469)
                      .+.+++..+|+++.++..+|.++...++++.|+..+.++++++|++..+...+..+-.
T Consensus        61 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~  118 (184)
T 3vtx_A           61 SLKKFVVLDTTSAEAYYILGSANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYD  118 (184)
T ss_dssp             HHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHhcCchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHH
Confidence            6666666666666666666666666666666666666666666666655555444433

>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=99.39  E-value=7.8e-13  Score=121.09  Aligned_cols=117  Identities=11%  Similarity=0.080  Sum_probs=107.1

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc-------ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCch
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP-------IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT   93 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~-------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (469)
                      ....+...|..+...|+|++|+..|+++++++|+++       .+|.++|.++..+|++                     
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            466788889999999999999999999999999988       6688889999999999                     


Q ss_pred             hHHHHHHHHHHHhhcccc--chHHHHHHHHHHHHHhHH---------------------------HHHHHHHhccccCCC
Q 012162           94 HAELALKDAEKLLNLQSN--SMKSHLLKANALILLERY---------------------------DMARDAILSGLQVDP  144 (469)
Q Consensus        94 ~~~~A~~~~~~al~l~p~--~~~~~~~~g~~~~~~~~~---------------------------~~A~~~~~~al~~~p  144 (469)
                        ++|+..++++++++|+  ++.+++.+|.+|...|+.                           ++|+..|+++++++|
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 012162          145 FSNPLQASLQNLERTT  160 (469)
Q Consensus       145 ~~~~~~~~~~~~~~~~  160 (469)
                      ++..+...+..++..+
T Consensus       212 ~~~~~~~~l~~i~~~~  227 (228)
T 4i17_A          212 NRTEIKQMQDQVKAMI  227 (228)
T ss_dssp             TCHHHHHHHHHHHTTC
T ss_pred             CCHHHHHHHHHHHHhh
Confidence            9999999888887654

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=99.38  E-value=1.4e-12  Score=106.17  Aligned_cols=115  Identities=23%  Similarity=0.344  Sum_probs=108.3

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      .+..+...|..++..|++++|+..|.++++.+|+++.++..+|.++...|++                       ++|+.
T Consensus         8 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~-----------------------~~A~~   64 (125)
T 1na0_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDY-----------------------DEAIE   64 (125)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHhCCH-----------------------HHHHH
Confidence            3677888999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHH
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  158 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~  158 (469)
                      .++++++++|+++.+++.+|.++...|++++|+..|+++++.+|++..+...+..+..
T Consensus        65 ~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  122 (125)
T 1na0_A           65 YYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQ  122 (125)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999988877766654

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.37  E-value=3.1e-13  Score=119.35  Aligned_cols=115  Identities=13%  Similarity=0.024  Sum_probs=78.2

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ++..+...|..++..|++++|+..+.+++..+|+++.++..+|.++...+++                       +.|+.
T Consensus        38 ~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------------~~a~~   94 (184)
T 3vtx_A           38 NVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTTSAEAYYILGSANFMIDEK-----------------------QAAID   94 (184)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHcCCH-----------------------HHHHH
Confidence            3556666777777777777777777777777777777777777777666666                       66667


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHH
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  158 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~  158 (469)
                      .+.++++++|+++.+++.+|.+|..+|++++|+..|+++++++|++..+...+..+-.
T Consensus        95 ~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~  152 (184)
T 3vtx_A           95 ALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYE  152 (184)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHH
Confidence            7777777777776777777777777777777777777777777766666555544433

>2y43_A E3 ubiquitin-protein ligase RAD18; DNA repair, metal-binding, translesion synthesis, UB conjugation pathway; 1.80A {Homo sapiens}

Probab=99.36  E-value=2.8e-13  Score=107.53  Aligned_cols=65  Identities=17%  Similarity=0.514  Sum_probs=58.2

Q ss_pred             cccccccccccccccEEc-cCCCcccHHHHHHHcccCCCccccccccccCCCcccCcccHHHHHHHhc
Q 012162          176 DDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNF  242 (469)
Q Consensus       176 ~~~~C~ic~~~~~~p~~~-~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~  242 (469)
                      +.+.|+||++.+.+|+.+ +|||+||+.||..|+..+..||.||.++..  .++.+|..+.++++.+.
T Consensus        21 ~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~--~~l~~n~~l~~~i~~~~   86 (99)
T 2y43_A           21 DLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTE--PDLKNNRILDELVKSLN   86 (99)
T ss_dssp             HHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCG--GGCEECHHHHHHHHHHH
T ss_pred             CCCCcccCChhhCCcCEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCCh--hhCCcCHHHHHHHHHHH
Confidence            567999999999999998 999999999999999988899999998853  46888999999998863

>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=99.35  E-value=2.8e-13  Score=106.18  Aligned_cols=68  Identities=16%  Similarity=0.473  Sum_probs=57.6

Q ss_pred             ccccccccccccccccEEcc-CCCcccHHHHHHHcccC------CCccc--cccc-cccCCCcccCcccHHHHHHHhchH
Q 012162          175 TDDFDCTLCLKLLYEPITTP-CGHSFCRSCLFQSMDRG------NKCPL--CRAV-LFITPRTCAVSVTLNSIIQKNFPE  244 (469)
Q Consensus       175 ~~~~~C~ic~~~~~~p~~~~-cgh~~C~~Ci~~~~~~~------~~CP~--Cr~~-~~~~~~~~~~~~~l~~~~~~~~~~  244 (469)
                      ...+.|+||+++|.+||+++ |||+||+.||..|+..+      ..||.  |+.. +.  ..++.+|..|+++|+.|...
T Consensus         5 ~~~~~CPI~~~~~~dPV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~--~~~L~pn~~L~~~I~~~~~~   82 (94)
T 2yu4_A            5 SSGFTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIR--KSDLIQDEALRRAIENHNKK   82 (94)
T ss_dssp             SSCCBCTTTCSBCSSEEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBC--GGGEEECHHHHHHHHHHHTT
T ss_pred             CcEeECcCcCchhcCCEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccC--HhhCcCCHHHHHHHHHHHHH
Confidence            46789999999999999996 99999999999999753      48999  8765 53  35789999999999988533

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=99.35  E-value=4.8e-13  Score=106.99  Aligned_cols=103  Identities=16%  Similarity=0.164  Sum_probs=98.0

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      +..+...|..++..|+|++|+..|+++++.+|.++.++.++|.++..+|++                       ++|+..
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~-----------------------~~A~~~   62 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERY-----------------------EEAVDC   62 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCH-----------------------HHHHHH
Confidence            345677899999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhcccc--chHHHHHHHHHHHHH-hHHHHHHHHHhccccCCCCCc
Q 012162          102 AEKLLNLQSN--SMKSHLLKANALILL-ERYDMARDAILSGLQVDPFSN  147 (469)
Q Consensus       102 ~~~al~l~p~--~~~~~~~~g~~~~~~-~~~~~A~~~~~~al~~~p~~~  147 (469)
                      ++++++++|+  +..+++.+|.++..+ |++++|++.+++++..+|++.
T Consensus        63 ~~~a~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~p~~~  111 (112)
T 2kck_A           63 YNYVINVIEDEYNKDVWAAKADALRYIEGKEVEAEIAEARAKLEHHHHH  111 (112)
T ss_dssp             HHHHHHTSCCTTCHHHHHHHHHHHTTCSSCSHHHHHHHHHHGGGCCCCC
T ss_pred             HHHHHHhCcccchHHHHHHHHHHHHHHhCCHHHHHHHHHHHhhcccCCC
Confidence            9999999999  999999999999999 999999999999999999764

>2csy_A Zinc finger protein 183-like 1; ring finger protein 161, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.34  E-value=5.2e-13  Score=101.78  Aligned_cols=61  Identities=25%  Similarity=0.561  Sum_probs=50.8

Q ss_pred             CCCccccccccccccccccEEccCCCcccHHHHHHHcccCCCccccccccccCCCcccCcccHH
Q 012162          172 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLN  235 (469)
Q Consensus       172 ~~~~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~  235 (469)
                      ......+.|+||++.+.+|++++|||+||+.||..|+.....||.||.++.   ..+.+|..+.
T Consensus        10 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~---~~~~~~~~l~   70 (81)
T 2csy_A           10 EEEEIPFRCFICRQAFQNPVVTKCRHYFCESCALEHFRATPRCYICDQPTG---GIFNPAKELM   70 (81)
T ss_dssp             SCCCCCSBCSSSCSBCCSEEECTTSCEEEHHHHHHHHHHCSBCSSSCCBCC---SCCEECHHHH
T ss_pred             ccCCCCCCCcCCCchhcCeeEccCCCHhHHHHHHHHHHCCCcCCCcCcccc---ccCCcHHHHH
Confidence            344567899999999999999999999999999999988889999999874   3455554433

>2egp_A Tripartite motif-containing protein 34; ZF-C3HC4 domain, tripartite motif protein 34, interferon- responsive finger protein 1; NMR {Homo sapiens}

Probab=99.34  E-value=1e-13  Score=105.32  Aligned_cols=64  Identities=31%  Similarity=0.753  Sum_probs=53.1

Q ss_pred             CCCccccccccccccccccEEccCCCcccHHHHHHHccc-------CCCccccccccccCCCcccCcccHHHH
Q 012162          172 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR-------GNKCPLCRAVLFITPRTCAVSVTLNSI  237 (469)
Q Consensus       172 ~~~~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~-------~~~CP~Cr~~~~~~~~~~~~~~~l~~~  237 (469)
                      ....+.+.|+||++.+.+|+.++|||+||+.||..|+..       ...||.||.++..  .++.+|..+.++
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            344577899999999999999999999999999999876       4579999999853  467777766554

>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=99.34  E-value=4.2e-13  Score=106.61  Aligned_cols=65  Identities=25%  Similarity=0.530  Sum_probs=55.9

Q ss_pred             ccccccccccccccccEE-ccCCCcccHHHHHHHcccC-CCccccccccccCCCcccCcccHHHHHHHh
Q 012162          175 TDDFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRG-NKCPLCRAVLFITPRTCAVSVTLNSIIQKN  241 (469)
Q Consensus       175 ~~~~~C~ic~~~~~~p~~-~~cgh~~C~~Ci~~~~~~~-~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~  241 (469)
                      .+.+.|+||++.+.+|+. ++|||+||+.||..|+... ..||.||.++..  .++..+..+.++++.+
T Consensus        20 ~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~--~~l~~~~~~~~i~~~~   86 (100)
T 3lrq_A           20 AEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQL--RELVNCRWAEEVTQQL   86 (100)
T ss_dssp             HHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCG--GGCEECTTHHHHHHHH
T ss_pred             CCCCCCccCCccccCccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCH--HHhHhhHHHHHHHHHH
Confidence            357799999999999999 9999999999999999877 689999999843  5677788888876653

>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=99.33  E-value=4e-13  Score=137.76  Aligned_cols=116  Identities=26%  Similarity=0.420  Sum_probs=108.9

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      ..+..+...|..++..|+|++|+..|++|++++|+++.++.++|.+|..+|+|                       ++|+
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            34666778899999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHH
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  158 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~  158 (469)
                      ..++++++++|+++.+++.+|.+|..+|++++|+..|+++++++|++..+...+..+..
T Consensus        61 ~~~~~al~l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~l~~~~~  119 (477)
T 1wao_1           61 GDATRAIELDKKYIKGYYRRAASNMALGKFRAALRDYETVVKVKPHDKDAKMKYQECNK  119 (477)
T ss_dssp             HHHHHHHHSCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCTTHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999988877776643

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.33  E-value=3.1e-13  Score=116.18  Aligned_cols=105  Identities=9%  Similarity=-0.093  Sum_probs=94.8

Q ss_pred             ccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHH
Q 012162           36 SNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKS  115 (469)
Q Consensus        36 ~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~  115 (469)
                      +++..+-..|+++++++|+++.+++++|.+++..|+|                       ++|+..++++++++|+++.+
T Consensus        16 ~~~~~~~~~l~~al~l~p~~~~~~~~lg~~~~~~g~~-----------------------~eA~~~~~~al~~~P~~~~~   72 (151)
T 3gyz_A           16 IDAINSGATLKDINAIPDDMMDDIYSYAYDFYNKGRI-----------------------EEAEVFFRFLCIYDFYNVDY   72 (151)
T ss_dssp             HHHHHTSCCTGGGCCSCHHHHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHCTTCHHH
T ss_pred             HHHHHCCCCHHHHhCCCHHHHHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHHHhCCCCHHH
Confidence            3444455679999999999999999999999999999                       99999999999999999999


Q ss_pred             HHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhh
Q 012162          116 HLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  163 (469)
Q Consensus       116 ~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~  163 (469)
                      |+.+|.+|..+|+|++|+..|+++++++|+++.++..+..+-..+++.
T Consensus        73 ~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~lg~~~~~lg~~  120 (151)
T 3gyz_A           73 IMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFHTGQCQLRLKAP  120 (151)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCH
Confidence            999999999999999999999999999999999988877766655543

>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=99.33  E-value=3.6e-12  Score=111.80  Aligned_cols=118  Identities=13%  Similarity=0.191  Sum_probs=106.4

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHH-HHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSA-YIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      ....+...|..++..|+|++|+..|.++++++|+++.++.++|.+ +...|++.                     .++|+
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            467888999999999999999999999999999999999999999 77888840                     07899


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHh
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERT  159 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~  159 (469)
                      ..++++++++|+++.+++.+|.+|...|++++|+..|+++++++|++......+..+++.
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

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=99.30  E-value=9.5e-13  Score=105.60  Aligned_cols=96  Identities=17%  Similarity=0.240  Sum_probs=90.1

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ++..+...|..++..|+|++|+..|++|++++|+++.++.++|.+|..+|++                       ++|+.
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 012162          101 DAEKLLNLQSNS------MKSHLLKANALILLERYDMARDAILSG  139 (469)
Q Consensus       101 ~~~~al~l~p~~------~~~~~~~g~~~~~~~~~~~A~~~~~~a  139 (469)
                      .++++++++|++      ..+++.+|.++..+|++++|+..|++.
T Consensus        60 ~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  104 (111)
T 2l6j_A           60 MCQQGLRYTSTAEHVAIRSKLQYRLELAQGAVGSVQIPVVEVDEL  104 (111)
T ss_dssp             HHHHHHTSCSSTTSHHHHHHHHHHHHHHHHHHHCCCCCSSSSSSC
T ss_pred             HHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHhHhhhHhHHHHh
Confidence            999999999999      999999999999999888887776654

>2ecw_A Tripartite motif-containing protein 30; metal binding protein, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.29  E-value=5.8e-13  Score=102.56  Aligned_cols=65  Identities=29%  Similarity=0.756  Sum_probs=53.5

Q ss_pred             CCCCccccccccccccccccEEccCCCcccHHHHHHHccc------CCCccccccccccCCCcccCcccHHHH
Q 012162          171 TPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR------GNKCPLCRAVLFITPRTCAVSVTLNSI  237 (469)
Q Consensus       171 ~~~~~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~------~~~CP~Cr~~~~~~~~~~~~~~~l~~~  237 (469)
                      .....+.+.|+||++.+.+|+.++|||+||+.|+..|+..      ...||.||.++..  ..+.+|..+.++
T Consensus        13 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~--~~~~~n~~l~~~   83 (85)
T 2ecw_A           13 LEMIKEEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPF--GNLKPNLHVANI   83 (85)
T ss_dssp             CCCCCTTTSCTTTCSCCSSCEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCT--TCCEECSCCCSS
T ss_pred             HHhCccCCCCcCCChhhCcceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCH--HhCCcCHHHHHh
Confidence            3445677899999999999999999999999999999876      5589999998853  466677666554

>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=99.28  E-value=3.7e-12  Score=136.46  Aligned_cols=110  Identities=11%  Similarity=-0.028  Sum_probs=56.5

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      +..+..+|..++..|+|++|+..|+++++++|+++.+|+++|.+|..+|+|                       ++|+..
T Consensus       433 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~-----------------------~~A~~~  489 (681)
T 2pzi_A          433 VELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLTGDY-----------------------DSATKH  489 (681)
T ss_dssp             SHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTCH-----------------------HHHHHH
T ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHcCCH-----------------------HHHHHH
Confidence            344455555555555555555555555555555555555555555555555                       555555


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHH
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  155 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~  155 (469)
                      ++++++++|+++.+|+.+|.+|..+|+|++ +..|++|++++|++..++..+..
T Consensus       490 ~~~al~l~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~  542 (681)
T 2pzi_A          490 FTEVLDTFPGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLAR  542 (681)
T ss_dssp             HHHHHHHSTTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHhCCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHH
Confidence            555555555555555555555555555554 55555555555544444444433

>2yur_A Retinoblastoma-binding protein 6; P53-associated cellular protein of testis, proliferation potential-related protein, protein P2P-R; NMR {Homo sapiens}

Probab=99.28  E-value=2.7e-12  Score=95.91  Aligned_cols=52  Identities=23%  Similarity=0.745  Sum_probs=45.6

Q ss_pred             CCCCccccccccccccccccEEcc-CCCcccHHHHHHHcccC--CCccccccccc
Q 012162          171 TPERTDDFDCTLCLKLLYEPITTP-CGHSFCRSCLFQSMDRG--NKCPLCRAVLF  222 (469)
Q Consensus       171 ~~~~~~~~~C~ic~~~~~~p~~~~-cgh~~C~~Ci~~~~~~~--~~CP~Cr~~~~  222 (469)
                      .....+.+.|+||++.+.+|+.++ |||+||+.||..|+...  ..||.||.++.
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            445567889999999999999999 99999999999999754  58999999763

>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=99.27  E-value=1.6e-12  Score=113.39  Aligned_cols=71  Identities=28%  Similarity=0.733  Sum_probs=60.4

Q ss_pred             CCccccccccccccccccEEc-cCCCcccHHHHHHHccc-CCCccccccccccCCCcccCcccHHHHHHHhchH
Q 012162          173 ERTDDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDR-GNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPE  244 (469)
Q Consensus       173 ~~~~~~~C~ic~~~~~~p~~~-~cgh~~C~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~~~  244 (469)
                      .....+.|+||++.+.+|+.+ +|||+||+.||..|+.. ...||.||.++.. ...+.+|..+.++|.+++++
T Consensus        50 ~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~-~~~l~~~~~l~~~i~~~~~~  122 (165)
T 2ckl_B           50 SLHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVS-KRSLRPDPNFDALISKIYPS  122 (165)
T ss_dssp             CCHHHHBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCS-GGGEEECHHHHHHHHHHC--
T ss_pred             hCCCCCCCcccChHhhCcCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCC-cccCCcCHHHHHHHHHHHcc
Confidence            345678999999999999987 99999999999999986 5689999999853 35688999999999998875

>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=99.27  E-value=1e-11  Score=111.99  Aligned_cols=105  Identities=16%  Similarity=0.108  Sum_probs=98.8

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      .+..+...|..++..|+|++|+..|+++++++|+++.++.++|.+|..+|++                       ++|+.
T Consensus        36 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~-----------------------~~A~~   92 (213)
T 1hh8_A           36 HSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKY-----------------------DLAIK   92 (213)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcccH-----------------------HHHHH
Confidence            3568889999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccch----------------HHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCch
Q 012162          101 DAEKLLNLQSNSM----------------KSHLLKANALILLERYDMARDAILSGLQVDPFSNP  148 (469)
Q Consensus       101 ~~~~al~l~p~~~----------------~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~  148 (469)
                      .+++++++.|++.                .+++.+|.+|..+|++++|+..|+++++++|++..
T Consensus        93 ~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~  156 (213)
T 1hh8_A           93 DLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEPRH  156 (213)
T ss_dssp             HHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSGGG
T ss_pred             HHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCccccc
Confidence            9999999777665                99999999999999999999999999999998643

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.26  E-value=1.8e-11  Score=114.61  Aligned_cols=114  Identities=11%  Similarity=0.103  Sum_probs=104.4

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC---cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE   96 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (469)
                      ..+..++.+|..++..|+|++|+..|+++++.+|++   +.+++++|.+|+.+|+|                       +
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~-----------------------~   69 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEY-----------------------L   69 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCH-----------------------H
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcH-----------------------H
Confidence            347889999999999999999999999999999999   78999999999999999                       9


Q ss_pred             HHHHHHHHHhhcccc---chHHHHHHHHHHHH--------HhHHHHHHHHHhccccCCCCCchhHHHHHHH
Q 012162           97 LALKDAEKLLNLQSN---SMKSHLLKANALIL--------LERYDMARDAILSGLQVDPFSNPLQASLQNL  156 (469)
Q Consensus        97 ~A~~~~~~al~l~p~---~~~~~~~~g~~~~~--------~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~  156 (469)
                      +|+..+++++++.|+   .+.+++.+|.++..        .|++++|+..|+++++.+|++..+...+..+
T Consensus        70 ~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~  140 (261)
T 3qky_A           70 LAASEYERFIQIYQIDPRVPQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPNHELVDDATQKI  140 (261)
T ss_dssp             HHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTTCTTHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCCchhHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcCchhHHHHHHHH
Confidence            999999999999874   46799999999999        9999999999999999999998776555433

>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.26  E-value=5.3e-12  Score=93.79  Aligned_cols=54  Identities=31%  Similarity=0.722  Sum_probs=47.7

Q ss_pred             CCCCCccccccccccccccccEEc-cCCCcccHHHHHHHcccCCCcccccccccc
Q 012162          170 GTPERTDDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDRGNKCPLCRAVLFI  223 (469)
Q Consensus       170 ~~~~~~~~~~C~ic~~~~~~p~~~-~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~~  223 (469)
                      ......+.+.|+||++.+.+|+.+ +|||+||+.||..|+.....||.||.++..
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   62 (72)
T 2djb_A            8 NLSELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQ   62 (72)
T ss_dssp             CCCCCCGGGSCTTTSSCCSSCEECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCS
T ss_pred             hHhhcCCCCCCCCCChHHHCcCEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCc
Confidence            344556788999999999999997 999999999999999888899999998853

>2ecv_A Tripartite motif-containing protein 5; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.25  E-value=9.2e-13  Score=101.42  Aligned_cols=64  Identities=30%  Similarity=0.768  Sum_probs=53.2

Q ss_pred             CCCccccccccccccccccEEccCCCcccHHHHHHHccc------CCCccccccccccCCCcccCcccHHHH
Q 012162          172 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR------GNKCPLCRAVLFITPRTCAVSVTLNSI  237 (469)
Q Consensus       172 ~~~~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~------~~~CP~Cr~~~~~~~~~~~~~~~l~~~  237 (469)
                      ....+.+.|+||++.+.+|+.++|||+||..|+..|+..      ...||.||..+..  .++.+|..+.++
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            345577899999999999999999999999999999876      5689999998853  466777666554

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.25  E-value=1.1e-11  Score=126.87  Aligned_cols=120  Identities=16%  Similarity=0.061  Sum_probs=111.7

Q ss_pred             HHHHHHhHHHHHHh---------ccHHHHHHHHHHHhcCCCCCcccccchhHHHHHH--------HhhhccCCCCCcccC
Q 012162           22 VFDLVQKGNRAFRE---------SNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRI--------SQFLKHRPPSASEYR   84 (469)
Q Consensus        22 ~~~~~~~g~~~~~~---------~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~--------~~~~~~~~~~~~~~~   84 (469)
                      ...+...|..+...         |+|++|+..|++|++++|+++.+|+++|.+|..+        |++            
T Consensus       170 ~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~~~~g~~------------  237 (474)
T 4abn_A          170 KVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVLDGRSWYILGNAYLSLYFNTGQNPKIS------------  237 (474)
T ss_dssp             HHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHTTCCHHHH------------
T ss_pred             HHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHhhccccchH------------
Confidence            46778889999999         9999999999999999999999999999999999        999            


Q ss_pred             ccCCCCCchhHHHHHHHHHHHhhccc---cchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhh
Q 012162           85 PLNGLDPTTHAELALKDAEKLLNLQS---NSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  161 (469)
Q Consensus        85 ~~~~~~~~~~~~~A~~~~~~al~l~p---~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~  161 (469)
                                 ++|+..++++++++|   +++.+|+.+|.+|..+|+|++|+..|+++++++|++..+...+..+...++
T Consensus       238 -----------~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg  306 (474)
T 4abn_A          238 -----------QQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLS  306 (474)
T ss_dssp             -----------HHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             -----------HHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHH
Confidence                       999999999999999   999999999999999999999999999999999999988888777776666


Q ss_pred             hhh
Q 012162          162 SLI  164 (469)
Q Consensus       162 ~~~  164 (469)
                      ...
T Consensus       307 ~~~  309 (474)
T 4abn_A          307 RLT  309 (474)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.24  E-value=8.8e-12  Score=115.16  Aligned_cols=114  Identities=19%  Similarity=0.283  Sum_probs=105.0

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      .....+...|..++..|+|++|+..|+++++.+|+++.++.++|.+|..+|++                       ++|+
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            34677888999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCC------CCCchhHHHHHHH
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVD------PFSNPLQASLQNL  156 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~------p~~~~~~~~~~~~  156 (469)
                      ..++++++++|+++.+++.+|.++..+|++++|+..|+++++++      |++..+...+..+
T Consensus       194 ~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~p~~~~~~~~l~~~  256 (258)
T 3uq3_A          194 ADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYKA  256 (258)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHT
T ss_pred             HHHHHHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhChhhcCCCchHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999      8887777666543

>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=99.24  E-value=2.3e-12  Score=105.51  Aligned_cols=63  Identities=27%  Similarity=0.663  Sum_probs=56.3

Q ss_pred             cccccccccccccccEEc-cCCCcccHHHHHHHcccCCCccccccccccCCCcccCcccHHHHHHHhc
Q 012162          176 DDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNF  242 (469)
Q Consensus       176 ~~~~C~ic~~~~~~p~~~-~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~  242 (469)
                      +.+.|+||++.+.+|+++ +|||+||+.||..|+.  ..||.||.++.  ...+.+|..+.++++.+.
T Consensus        21 ~~~~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~--~~~~~~n~~l~~l~~~~~   84 (117)
T 1jm7_B           21 KLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAW--IQDLKINRQLDSMIQLCS   84 (117)
T ss_dssp             HTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCS--CSSCCCCHHHHHHHHHHH
T ss_pred             hCCCCCCCChHhhCccEeCCCCCHHHHHHHHHHhc--CCCcCCCCcCc--cccccccHHHHHHHHHHH
Confidence            567999999999999999 9999999999999987  78999999984  357889999999998764

>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=99.23  E-value=2.6e-11  Score=109.32  Aligned_cols=102  Identities=16%  Similarity=0.174  Sum_probs=95.8

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      ..+..++..|..++..|+|++|+..|++++  +| ++.+++++|.+|..+|++                       ++|+
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  34 678999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCc
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  147 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~  147 (469)
                      ..++++++++|+++.+++.+|.+|..+|++++|+..|++++++.|++.
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

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.23  E-value=3.4e-11  Score=110.27  Aligned_cols=115  Identities=14%  Similarity=0.145  Sum_probs=102.8

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc---ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL   97 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (469)
                      .+..+..+|..++..|+|++|+..|+++++..|+++   .+++++|.+|+.+|+|                       ++
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~-----------------------~~   59 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADL-----------------------PL   59 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCH-----------------------HH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCH-----------------------HH
Confidence            356788999999999999999999999999999875   6899999999999999                       99


Q ss_pred             HHHHHHHHhhccccchH---HHHHHHHHHHH------------------HhHHHHHHHHHhccccCCCCCchhHHHHHHH
Q 012162           98 ALKDAEKLLNLQSNSMK---SHLLKANALIL------------------LERYDMARDAILSGLQVDPFSNPLQASLQNL  156 (469)
Q Consensus        98 A~~~~~~al~l~p~~~~---~~~~~g~~~~~------------------~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~  156 (469)
                      |+..++++++++|+++.   +++.+|.++..                  .|++++|+..|+++++..|++..+......+
T Consensus        60 A~~~~~~~l~~~P~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~~~~a~~a~~~l  139 (225)
T 2yhc_A           60 AQAAIDRFIRLNPTHPNIDYVMYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGYPNSQYTTDATKRL  139 (225)
T ss_dssp             HHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTCTTCTTHHHHHHHH
T ss_pred             HHHHHHHHHHHCcCCCcHHHHHHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHCcCChhHHHHHHHH
Confidence            99999999999999875   89999999986                  5799999999999999999998776655444


Q ss_pred             HH
Q 012162          157 ER  158 (469)
Q Consensus       157 ~~  158 (469)
                      ..
T Consensus       140 ~~  141 (225)
T 2yhc_A          140 VF  141 (225)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.23  E-value=2.3e-11  Score=113.76  Aligned_cols=110  Identities=22%  Similarity=0.168  Sum_probs=104.2

Q ss_pred             hhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHH
Q 012162           19 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA   98 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A   98 (469)
                      ...+..+...|..++..|+|++|+..|+++++++|+++.++.++|.+|...|++                       ++|
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            345788899999999999999999999999999999999999999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHH
Q 012162           99 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQA  151 (469)
Q Consensus        99 ~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~  151 (469)
                      +..++++++++|+++.+++.+|.+|..+|++++|+..|+++++++|++.....
T Consensus        97 ~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~  149 (275)
T 1xnf_A           97 YEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPNDPFRSL  149 (275)
T ss_dssp             HHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCChHHHH
Confidence            99999999999999999999999999999999999999999999999875443

>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=99.23  E-value=4.1e-12  Score=103.31  Aligned_cols=66  Identities=27%  Similarity=0.808  Sum_probs=56.6

Q ss_pred             cccccccccccccccEEccCCCcccHHHHHHHcccC---CCccccccccccCCCcccCcccHHHHHHHhch
Q 012162          176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRG---NKCPLCRAVLFITPRTCAVSVTLNSIIQKNFP  243 (469)
Q Consensus       176 ~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~~---~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~~  243 (469)
                      ..+.|+||++.+.+|+.++|||+||+.||..|+...   ..||.||.++..  ..+..|..+.++++.+..
T Consensus        20 ~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~--~~~~~~~~l~~~~~~~~~   88 (112)
T 1jm7_A           20 KILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK--RSLQESTRFSQLVEELLK   88 (112)
T ss_dssp             HHTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCT--TTCBCCCSSSHHHHHHHH
T ss_pred             CCCCCcccChhhcCeEECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCH--hhcCccHHHHHHHHHHHH
Confidence            466899999999999999999999999999999754   379999998853  567788888888887654

>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=99.22  E-value=3.1e-11  Score=99.20  Aligned_cols=114  Identities=24%  Similarity=0.296  Sum_probs=103.3

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHH
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  102 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~  102 (469)
                      ..+...|..++..|++++|+..|.++++.+|+++.++..+|.++...|++                       ++|+..+
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            45677899999999999999999999999999999999999999999999                       9999999


Q ss_pred             HHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHh
Q 012162          103 EKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERT  159 (469)
Q Consensus       103 ~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~  159 (469)
                      +++++.+|+++.+++.+|.++...|++++|+..|+++++.+|++..+...+..+...
T Consensus        59 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~  115 (136)
T 2fo7_A           59 QKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYK  115 (136)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHCCCchHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999887766665554433

>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=99.22  E-value=3.5e-12  Score=112.20  Aligned_cols=135  Identities=10%  Similarity=0.052  Sum_probs=104.7

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCC--ch-------
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDP--TT-------   93 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~-------   93 (469)
                      ..+...|..++..|++++|+..|+++++.+|+++.++.++|.++...|++.    .+...++.....+|  ..       
T Consensus         7 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~----~A~~~~~~a~~~~p~~~~~~~~~~~   82 (176)
T 2r5s_A            7 EQLLKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFE----LAQELLATIPLEYQDNSYKSLIAKL   82 (176)
T ss_dssp             TTHHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHH----HHHHHHTTCCGGGCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHH----HHHHHHHHhhhccCChHHHHHHHHH
Confidence            446778889999999999999999999999999999999999998888762    22222333333322  00       


Q ss_pred             ------hHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCc--hhHHHHHHHHHhhh
Q 012162           94 ------HAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN--PLQASLQNLERTTA  161 (469)
Q Consensus        94 ------~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~--~~~~~~~~~~~~~~  161 (469)
                            ...+|+..++++++++|+++.+++.+|.++...|++++|+..|+++++++|++.  .++..+..+-..++
T Consensus        83 ~~~~~~~~~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g  158 (176)
T 2r5s_A           83 ELHQQAAESPELKRLEQELAANPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALG  158 (176)
T ss_dssp             HHHHHHTSCHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHC
T ss_pred             HHHhhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhC
Confidence                  002368889999999999999999999999999999999999999999999864  46666666555443

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.22  E-value=3.6e-11  Score=116.52  Aligned_cols=119  Identities=13%  Similarity=0.214  Sum_probs=109.8

Q ss_pred             HHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcc----cccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           24 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPI----VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        24 ~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      .....|..++..|++++|+..|+++++.+|+++.    ++..+|.++...|++                       ++|+
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            3456699999999999999999999999999874    466799999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhhhc
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIG  165 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~  165 (469)
                      ..++++++++|+++.+++.+|.++...|++++|+..|+++++++|++..+...+..++..++...+
T Consensus       293 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~  358 (359)
T 3ieg_A          293 RICSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNENDQQIREGLEKAQRLLKQSQK  358 (359)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHhcc
Confidence            999999999999999999999999999999999999999999999999999999999988876543

>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=99.22  E-value=5.3e-12  Score=135.19  Aligned_cols=113  Identities=6%  Similarity=-0.091  Sum_probs=106.9

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ++..+..+|..++..|+|++|+..|++|++++|+++.+++++|.+|..+|+|                       ++ +.
T Consensus       466 ~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~lg~~~~~~g~~-----------------------~~-~~  521 (681)
T 2pzi_A          466 RWRLVWYRAVAELLTGDYDSATKHFTEVLDTFPGELAPKLALAATAELAGNT-----------------------DE-HK  521 (681)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCC-----------------------CT-TC
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCh-----------------------HH-HH
Confidence            4678889999999999999999999999999999999999999999999999                       88 99


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHH
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  157 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~  157 (469)
                      .++++++++|+++.+|+++|.+|..+|++++|+.+|+++++++|++..++..+..+.
T Consensus       522 ~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~~~~~~  578 (681)
T 2pzi_A          522 FYQTVWSTNDGVISAAFGLARARSAEGDRVGAVRTLDEVPPTSRHFTTARLTSAVTL  578 (681)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHTSCTTSTTHHHHHHHHHHHT
T ss_pred             HHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHHHHHHhhcccCcccHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999988877666654

>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=99.21  E-value=2.4e-11  Score=127.15  Aligned_cols=118  Identities=14%  Similarity=0.061  Sum_probs=110.4

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      ..+..+...|..++..|+|++|+..|++|++++|+++.++.++|.+|..+|++                       ++|+
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            34678899999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhh
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  160 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~  160 (469)
                      ..++++++++|+++.+++.+|.+|..+|++++|+..|+++++++|++..+...+..+...+
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            9999999999999999999999999999999999999999999999988777766665555

>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.21  E-value=6.6e-12  Score=92.97  Aligned_cols=51  Identities=29%  Similarity=0.729  Sum_probs=46.0

Q ss_pred             CCCccccccccccccccccEEccCCCcccHHHHHHHcccCCCccccccccc
Q 012162          172 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  222 (469)
Q Consensus       172 ~~~~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~  222 (469)
                      ....+.+.|+||++.+.+|+.++|||.||..||..|+.....||.||..+.
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            344567899999999999999999999999999999988889999999874

>2ecy_A TNF receptor-associated factor 3; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.20  E-value=8.2e-12  Score=91.02  Aligned_cols=51  Identities=31%  Similarity=0.808  Sum_probs=44.7

Q ss_pred             CCCccccccccccccccccEEccCCCcccHHHHHHHcc-cCCCccccccccc
Q 012162          172 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD-RGNKCPLCRAVLF  222 (469)
Q Consensus       172 ~~~~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~-~~~~CP~Cr~~~~  222 (469)
                      ....+.+.|+||++.+.+|+.++|||+||+.||..|+. ....||.||.++.
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            34456789999999999999999999999999999995 4568999999874

>2ysl_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.20  E-value=1.4e-11  Score=91.71  Aligned_cols=51  Identities=35%  Similarity=0.858  Sum_probs=44.8

Q ss_pred             CCCccccccccccccccccEEccCCCcccHHHHHHHcc---cCCCccccccccc
Q 012162          172 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD---RGNKCPLCRAVLF  222 (469)
Q Consensus       172 ~~~~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~---~~~~CP~Cr~~~~  222 (469)
                      ....+.+.|+||++.+.+|+.++|||+||..||..|+.   ....||.||.++.
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            44567789999999999999999999999999999996   3458999999874

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.19  E-value=2.5e-11  Score=115.72  Aligned_cols=138  Identities=12%  Similarity=0.084  Sum_probs=112.9

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchh------
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH------   94 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------   94 (469)
                      ....+...|..+...|++++|+..|+++++.+|+++.+++++|.++...|++    +.|...++.+...+|...      
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            3567888999999999999999999999999999999999999999999987    223333444433343211      


Q ss_pred             ---------HHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCC--chhHHHHHHHHHhhhh
Q 012162           95 ---------AELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS--NPLQASLQNLERTTAS  162 (469)
Q Consensus        95 ---------~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~--~~~~~~~~~~~~~~~~  162 (469)
                               ..+|+..++++++++|+++.+++.+|.+|...|++++|+..|+++++.+|++  ..++..+..+-..++.
T Consensus       192 ~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~  270 (287)
T 3qou_A          192 QIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGT  270 (287)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCT
T ss_pred             HHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCC
Confidence                     1346778899999999999999999999999999999999999999999998  6677777776665543

>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=99.19  E-value=6.9e-12  Score=102.81  Aligned_cols=67  Identities=30%  Similarity=0.725  Sum_probs=55.2

Q ss_pred             CCCccccccccccccccccEEccCCCcccHHHHHHHcccCC-CccccccccccCCCcccCcccHHHHHHH
Q 012162          172 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGN-KCPLCRAVLFITPRTCAVSVTLNSIIQK  240 (469)
Q Consensus       172 ~~~~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~~~-~CP~Cr~~~~~~~~~~~~~~~l~~~~~~  240 (469)
                      ....+.+.|+||++.+.+|+.++|||+||+.||..|+..+. .||.||.++..  ..+.++..+.+.+..
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            45567889999999999999999999999999999998655 89999998853  355566666666654

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.19  E-value=6.4e-11  Score=110.76  Aligned_cols=120  Identities=18%  Similarity=0.146  Sum_probs=105.1

Q ss_pred             hHHHHHHhHHHHHH--------hccHHHHHHHHHHHhcCCCCCcccc-----------------cchhHHHHHHHhhhcc
Q 012162           21 HVFDLVQKGNRAFR--------ESNFEEAISNYSRANNIKPGDPIVL-----------------GNRSSAYIRISQFLKH   75 (469)
Q Consensus        21 ~~~~~~~~g~~~~~--------~~~~~~A~~~y~~al~~~p~~~~~~-----------------~~~a~~~~~~~~~~~~   75 (469)
                      ....+...|..++.        .|++++|+..|+++++..|+++.+.                 +++|.+|...|+|   
T Consensus        88 ~~~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~---  164 (261)
T 3qky_A           88 VPQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPNHELVDDATQKIRELRAKLARKQYEAARLYERRELY---  164 (261)
T ss_dssp             HHHHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCH---
T ss_pred             hHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCH---
Confidence            35678889999999        9999999999999999999998777                 8889999999999   


Q ss_pred             CCCCCcccCccCCCCCchhHHHHHHHHHHHhhcccc---chHHHHHHHHHHHHH----------hHHHHHHHHHhccccC
Q 012162           76 RPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSN---SMKSHLLKANALILL----------ERYDMARDAILSGLQV  142 (469)
Q Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~---~~~~~~~~g~~~~~~----------~~~~~A~~~~~~al~~  142 (469)
                                          ++|+..++++++..|+   .+.+++.+|.+|..+          |++++|+..|+++++.
T Consensus       165 --------------------~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~  224 (261)
T 3qky_A          165 --------------------EAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI  224 (261)
T ss_dssp             --------------------HHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             --------------------HHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH
Confidence                                9999999999999998   677999999999987          9999999999999999


Q ss_pred             CCCCchhHHHH---HHHHHhhhhh
Q 012162          143 DPFSNPLQASL---QNLERTTASL  163 (469)
Q Consensus       143 ~p~~~~~~~~~---~~~~~~~~~~  163 (469)
                      .|+++.+....   ..+.+.+++.
T Consensus       225 ~p~~~~~~~a~~~l~~~~~~~~~~  248 (261)
T 3qky_A          225 FPDSPLLRTAEELYTRARQRLTEL  248 (261)
T ss_dssp             CTTCTHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCChHHHHHHHHHHHHHHHHHHh
Confidence            99997655544   4444444444

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=99.19  E-value=1.4e-11  Score=99.95  Aligned_cols=86  Identities=15%  Similarity=0.070  Sum_probs=82.1

Q ss_pred             HHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHH
Q 012162           39 EEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLL  118 (469)
Q Consensus        39 ~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~  118 (469)
                      ++|+..|+++++.+|+++.+++++|.+|...|++                       ++|+..++++++++|+++.+|+.
T Consensus         2 ~~a~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~-----------------------~~A~~~~~~al~~~p~~~~~~~~   58 (115)
T 2kat_A            2 QAITERLEAMLAQGTDNMLLRFTLGKTYAEHEQF-----------------------DAALPHLRAALDFDPTYSVAWKW   58 (115)
T ss_dssp             CCHHHHHHHHHTTTCCCHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             hHHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCH-----------------------HHHHHHHHHHHHHCCCcHHHHHH
Confidence            3689999999999999999999999999999999                       99999999999999999999999


Q ss_pred             HHHHHHHHhHHHHHHHHHhccccCCCCCc
Q 012162          119 KANALILLERYDMARDAILSGLQVDPFSN  147 (469)
Q Consensus       119 ~g~~~~~~~~~~~A~~~~~~al~~~p~~~  147 (469)
                      +|.+|..+|++++|+..|+++++++|++.
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            99999999999999999999999998543

>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=99.18  E-value=6.4e-11  Score=103.22  Aligned_cols=109  Identities=16%  Similarity=0.172  Sum_probs=60.5

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHH
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  102 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~  102 (469)
                      ..+...|..++..|++++|+..|.++++.+|+++.++.++|.++...|++                       ++|+..+
T Consensus        43 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~-----------------------~~A~~~~   99 (186)
T 3as5_A           43 DVALHLGIAYVKTGAVDRGTELLERSLADAPDNVKVATVLGLTYVQVQKY-----------------------DLAVPLL   99 (186)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH-----------------------HHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCH-----------------------HHHHHHH
Confidence            44445555555555555555555555555555555555555555555555                       5555555


Q ss_pred             HHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHH
Q 012162          103 EKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQ  154 (469)
Q Consensus       103 ~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~  154 (469)
                      +++++.+|+++.+++.+|.++...|++++|+..|+++++.+|++..+...+.
T Consensus       100 ~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la  151 (186)
T 3as5_A          100 IKVAEANPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIA  151 (186)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHhcCcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHH
Confidence            5555555555555555555555555555555555555555555544444333

>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=99.18  E-value=5.3e-11  Score=103.75  Aligned_cols=118  Identities=13%  Similarity=0.142  Sum_probs=108.7

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      .+..+...|..++..|++++|+..|+++++.+|.++.++..+|.++...|++                       ++|+.
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            4677889999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhh
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  161 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~  161 (469)
                      .++++++++|+++.+++.+|.++...|++++|+..|+++++.+|++..+...+..+....+
T Consensus        64 ~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  124 (186)
T 3as5_A           64 LLERSLADAPDNVKVATVLGLTYVQVQKYDLAVPLLIKVAEANPINFNVRFRLGVALDNLG  124 (186)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcHhHHHHHHHHHHHHHcC
Confidence            9999999999999999999999999999999999999999999999877766665544433

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.18  E-value=5.3e-11  Score=115.34  Aligned_cols=113  Identities=19%  Similarity=0.303  Sum_probs=106.5

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ++..+...|..++..|+|++|+..|+++++.+|+++.++.++|.++..+|++                       ++|+.
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~-----------------------~~A~~   58 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKS-----------------------KAALP   58 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH-----------------------HHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHccCH-----------------------HHHHH
Confidence            4678899999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCC---CCchhHHHHHHH
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDP---FSNPLQASLQNL  156 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p---~~~~~~~~~~~~  156 (469)
                      .++++++++|++..+++.+|.++...|++++|+..|+++++++|   ++..+...+..+
T Consensus        59 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~  117 (359)
T 3ieg_A           59 DLTKVIALKMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKA  117 (359)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCcchHHHHHHHHHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999   777776666443

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.18  E-value=3.7e-11  Score=123.06  Aligned_cols=118  Identities=18%  Similarity=0.141  Sum_probs=92.2

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHH---------HhhhccCCCCCcccCccCCCCCc
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRI---------SQFLKHRPPSASEYRPLNGLDPT   92 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~   92 (469)
                      +..+...|..++..|+|++|+..|++|++++|+ +.++.++|.+|..+         |++                    
T Consensus       137 ~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~lg~~~~~~~~~~~~~~~g~~--------------------  195 (474)
T 4abn_A          137 VEAWNQLGEVYWKKGDVTSAHTCFSGALTHCKN-KVSLQNLSMVLRQLQTDSGDEHSRHV--------------------  195 (474)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCCC-HHHHHHHHHHHTTCCCSCHHHHHHHH--------------------
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-HHHHHHHHHHHHHhccCChhhhhhhH--------------------
Confidence            445555566666666666666666666666665 45566666666665         666                    


Q ss_pred             hhHHHHHHHHHHHhhccccchHHHHHHHHHHHHH--------hHHHHHHHHHhccccCCC---CCchhHHHHHHHHHhhh
Q 012162           93 THAELALKDAEKLLNLQSNSMKSHLLKANALILL--------ERYDMARDAILSGLQVDP---FSNPLQASLQNLERTTA  161 (469)
Q Consensus        93 ~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~--------~~~~~A~~~~~~al~~~p---~~~~~~~~~~~~~~~~~  161 (469)
                         ++|+..++++++++|+++.+|+.+|.+|..+        |++++|+..|+++++++|   ++..++..+..+...++
T Consensus       196 ---~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g  272 (474)
T 4abn_A          196 ---MDSVRQAKLAVQMDVLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEE  272 (474)
T ss_dssp             ---HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTT
T ss_pred             ---HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcC
Confidence               9999999999999999999999999999999        999999999999999999   89988888777666555


Q ss_pred             hh
Q 012162          162 SL  163 (469)
Q Consensus       162 ~~  163 (469)
                      +.
T Consensus       273 ~~  274 (474)
T 4abn_A          273 SY  274 (474)
T ss_dssp             CH
T ss_pred             CH
Confidence            43

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.18  E-value=1e-11  Score=103.19  Aligned_cols=95  Identities=13%  Similarity=0.073  Sum_probs=84.5

Q ss_pred             HHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHH
Q 012162           46 SRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALIL  125 (469)
Q Consensus        46 ~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~  125 (469)
                      .++..++|+.+..+.++|.+|++.|+|                       ++|+..++++++++|+++.+|+.+|.+|..
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             HhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhh
Q 012162          126 LERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  163 (469)
Q Consensus       126 ~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~  163 (469)
                      +|++++|+..|+++++++|++..+...+..+-..+++.
T Consensus        60 ~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~   97 (126)
T 4gco_A           60 LMEFQRALDDCDTCIRLDSKFIKGYIRKAACLVAMREW   97 (126)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             hccHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHCCCH
Confidence            99999999999999999999998887777766555443

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=99.17  E-value=3.4e-11  Score=94.69  Aligned_cols=92  Identities=10%  Similarity=0.058  Sum_probs=85.9

Q ss_pred             HHhHHHHHHhccHHHHHHHHHHHhcCCCCCcc-cccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHH
Q 012162           26 VQKGNRAFRESNFEEAISNYSRANNIKPGDPI-VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  104 (469)
Q Consensus        26 ~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  104 (469)
                      ..+|..++..|+|++|+..|+++++.+|+++. +++++|.+|..+|++                       ++|+..+++
T Consensus         4 ~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~-----------------------~~A~~~~~~   60 (99)
T 2kc7_A            4 LKTIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDW-----------------------QKALNNYQS   60 (99)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCH-----------------------HHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCH-----------------------HHHHHHHHH
Confidence            56899999999999999999999999999999 999999999999999                       999999999


Q ss_pred             HhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCch
Q 012162          105 LLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  148 (469)
Q Consensus       105 al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~  148 (469)
                      +++++|+++.+++.        +.+.+|+..|++++..+|++..
T Consensus        61 al~~~p~~~~~~~~--------~~~~~a~~~~~~~~~~~p~~~~   96 (99)
T 2kc7_A           61 AIELNPDSPALQAR--------KMVMDILNFYNKDMYNQLEHHH   96 (99)
T ss_dssp             HHHHCTTSTHHHHH--------HHHHHHHHHHCCTTHHHHCCSS
T ss_pred             HHhcCCCcHHHHHH--------HHHHHHHHHHHHHhccCccccc
Confidence            99999999988754        7889999999999999998764

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.16  E-value=4.4e-11  Score=111.87  Aligned_cols=117  Identities=15%  Similarity=0.226  Sum_probs=88.3

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      .+.+...|..++..|+|++|+..|+++++.+|+++.++..+|.+|..+|++                       ++|+..
T Consensus         3 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~-----------------------~~A~~~   59 (272)
T 3u4t_A            3 DDVEFRYADFLFKNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKY-----------------------DLAQKD   59 (272)
T ss_dssp             --CHHHHHHHHHTTTCHHHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhH-----------------------HHHHHH
Confidence            345677888888888888888888888888888888888888888888888                       788888


Q ss_pred             HHHHhhccccc----hHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhh
Q 012162          102 AEKLLNLQSNS----MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus       102 ~~~al~l~p~~----~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                      ++++++ .|.+    ..+|+.+|.++..+|++++|+..|+++++++|++..+...+..+....++
T Consensus        60 ~~~a~~-~~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~  123 (272)
T 3u4t_A           60 IETYFS-KVNATKAKSADFEYYGKILMKKGQDSLAIQQYQAAVDRDTTRLDMYGQIGSYFYNKGN  123 (272)
T ss_dssp             HHHHHT-TSCTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTC
T ss_pred             HHHHHh-ccCchhHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHccC
Confidence            888877 3333    33477788888888888888888888888888777776666655544443

>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=99.16  E-value=7.6e-12  Score=107.02  Aligned_cols=100  Identities=13%  Similarity=-0.000  Sum_probs=90.8

Q ss_pred             HHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHH
Q 012162           40 EAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLK  119 (469)
Q Consensus        40 ~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~  119 (469)
                      .+-..|+++++++|++..+++++|.+++..|+|                       ++|+..++++++++|+++.+|+.+
T Consensus         5 ~~~~~~~~al~~~p~~~~~~~~~g~~~~~~g~~-----------------------~~A~~~~~~al~~~p~~~~~~~~l   61 (148)
T 2vgx_A            5 SGGGTIAMLNEISSDTLEQLYSLAFNQYQSGXY-----------------------EDAHXVFQALCVLDHYDSRFFLGL   61 (148)
T ss_dssp             -CCCSHHHHTTCCHHHHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             chhhhHHHHHcCCHhhHHHHHHHHHHHHHcCCh-----------------------HHHHHHHHHHHHcCcccHHHHHHH
Confidence            334568999999999999999999999999999                       999999999999999999999999


Q ss_pred             HHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhh
Q 012162          120 ANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus       120 g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                      |.++..+|+|++|+..|+++++++|++..+...+..+-..+++
T Consensus        62 g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~  104 (148)
T 2vgx_A           62 GACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAECLLQXGE  104 (148)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHcCC
Confidence            9999999999999999999999999999888777666555444

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.16  E-value=4e-11  Score=109.87  Aligned_cols=117  Identities=14%  Similarity=0.047  Sum_probs=90.1

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ....+...|..+...|++++|+..|+++++.+|.++.++..+|.++...|++                       ++|+.
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            3566677778888888888888888888888888888888888888888888                       78888


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhh
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  160 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~  160 (469)
                      .++++++++|+++.+++.+|.++...|++++|+..|+++++.+|++..+...+..+....
T Consensus       147 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~  206 (243)
T 2q7f_A          147 YLQRAVELNENDTEARFQFGMCLANEGMLDEALSQFAAVTEQDPGHADAFYNAGVTYAYK  206 (243)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHc
Confidence            888888888888888888888888888888888888888888887776666555544433

>2ysj_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.15  E-value=2.8e-11  Score=87.25  Aligned_cols=47  Identities=38%  Similarity=0.925  Sum_probs=41.0

Q ss_pred             CCCCccccccccccccccccEEccCCCcccHHHHHHHcc---cCCCcccc
Q 012162          171 TPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD---RGNKCPLC  217 (469)
Q Consensus       171 ~~~~~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~---~~~~CP~C  217 (469)
                      .....+.+.|+||++.+.+|+.++|||+||+.||.+|+.   ....||.|
T Consensus        14 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           14 VNKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCCCCBCTTTCSBCSSCEECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             HHhCccCCCCCcCCchhCCeEEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            344567889999999999999999999999999999997   34579998

>3ng2_A RNF4, snurf, ring finger protein 4; ring domain, E3 ligase, ubiquitylation, sumoylation, zinc-FI metal binding protein; 1.80A {Rattus norvegicus}

Probab=99.15  E-value=1.7e-11  Score=90.83  Aligned_cols=49  Identities=35%  Similarity=0.873  Sum_probs=44.7

Q ss_pred             Ccccccccccccccccc-------EEccCCCcccHHHHHHHcccCCCccccccccc
Q 012162          174 RTDDFDCTLCLKLLYEP-------ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  222 (469)
Q Consensus       174 ~~~~~~C~ic~~~~~~p-------~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~  222 (469)
                      ..+.+.|+||++.+.+|       +.++|||+||..||.+|+.....||.||.++.
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            34677999999999998       88999999999999999998889999999874

>2ct2_A Tripartite motif protein 32; zinc-finger protein HT2A, TAT- interacting protein, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.15  E-value=1.5e-11  Score=95.18  Aligned_cols=53  Identities=28%  Similarity=0.787  Sum_probs=45.8

Q ss_pred             CCCCccccccccccccccc----cEEccCCCcccHHHHHHHcccC---CCcccccccccc
Q 012162          171 TPERTDDFDCTLCLKLLYE----PITTPCGHSFCRSCLFQSMDRG---NKCPLCRAVLFI  223 (469)
Q Consensus       171 ~~~~~~~~~C~ic~~~~~~----p~~~~cgh~~C~~Ci~~~~~~~---~~CP~Cr~~~~~  223 (469)
                      .....+.+.|+||++.+.+    |+.++|||+||..|+..|+...   ..||.||.++..
T Consensus         9 ~~~~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   68 (88)
T 2ct2_A            9 LDALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRI   68 (88)
T ss_dssp             CCCCCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCC
T ss_pred             hhhccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccc
Confidence            3445577899999999999    9999999999999999999865   689999998743

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.14  E-value=5e-11  Score=116.84  Aligned_cols=102  Identities=19%  Similarity=0.159  Sum_probs=83.6

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      +..+...|..+...|++++|+..|+++++++|+++.+|.++|.+|...|++                       ++|+..
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            556677788888888888888888888888888888888888888888888                       888888


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCC
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS  146 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~  146 (469)
                      ++++++++|+++.+++.+|.+|..+|++++|+..|+++++++|++
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            888888888888888888888888888888888888888887763

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.14  E-value=7e-11  Score=115.52  Aligned_cols=120  Identities=16%  Similarity=0.122  Sum_probs=104.6

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      .+..+...|..+...|++++|+..|+++++++|+++.++.++|.++...|++                       ++|+.
T Consensus       216 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~-----------------------~~A~~  272 (368)
T 1fch_A          216 DPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQS-----------------------EEAVA  272 (368)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHcCCH-----------------------HHHHH
Confidence            3567778899999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCC-----------chhHHHHHHHHHhhhhh
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS-----------NPLQASLQNLERTTASL  163 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~-----------~~~~~~~~~~~~~~~~~  163 (469)
                      .++++++++|+++.+++.+|.+|..+|++++|+..|+++++++|++           ..+...+..+-..++..
T Consensus       273 ~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  346 (368)
T 1fch_A          273 AYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQS  346 (368)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCG
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCCh
Confidence            9999999999999999999999999999999999999999998887           56666666665555443

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.14  E-value=9.9e-11  Score=119.65  Aligned_cols=108  Identities=24%  Similarity=0.338  Sum_probs=102.1

Q ss_pred             hhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHH
Q 012162           18 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL   97 (469)
Q Consensus        18 ~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (469)
                      ....+..+..+|..+++.|+|++|+..|+++++.+| ++.++.++|.+|..+|++                       ++
T Consensus         2 ~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~la~~~~~~g~~-----------------------~~   57 (514)
T 2gw1_A            2 KDKYALALKDKGNQFFRNKKYDDAIKYYNWALELKE-DPVFYSNLSACYVSVGDL-----------------------KK   57 (514)
T ss_dssp             HHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHHTCH-----------------------HH
T ss_pred             cchhHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCc-cHHHHHhHHHHHHHHhhH-----------------------HH
Confidence            345789999999999999999999999999999999 689999999999999999                       99


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchh
Q 012162           98 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  149 (469)
Q Consensus        98 A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~  149 (469)
                      |+..++++++++|+++.+++.+|.+|..+|++++|+..|+++++.+|.+...
T Consensus        58 A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  109 (514)
T 2gw1_A           58 VVEMSTKALELKPDYSKVLLRRASANEGLGKFADAMFDLSVLSLNGDFNDAS  109 (514)
T ss_dssp             HHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSCCGGG
T ss_pred             HHHHHHHHhccChHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCccch
Confidence            9999999999999999999999999999999999999999999999966543

>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=99.14  E-value=2.5e-11  Score=110.39  Aligned_cols=67  Identities=18%  Similarity=0.368  Sum_probs=58.4

Q ss_pred             CCccccccccccccccccEEc-cCCCcccHHHHHHHcccC--CCccc--cccccccCCCcccCcccHHHHHHHh
Q 012162          173 ERTDDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDRG--NKCPL--CRAVLFITPRTCAVSVTLNSIIQKN  241 (469)
Q Consensus       173 ~~~~~~~C~ic~~~~~~p~~~-~cgh~~C~~Ci~~~~~~~--~~CP~--Cr~~~~~~~~~~~~~~~l~~~~~~~  241 (469)
                      .....+.||||++.|.+||+. .|||+||+.||..|+..+  ..||+  |++.+..  .++.+|..|.++++.+
T Consensus       177 ~~~~el~CPIcl~~f~DPVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~--~dL~pN~~L~~lve~~  248 (267)
T 3htk_C          177 GGKIELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSM--RDFVRDPIMELRCKIA  248 (267)
T ss_dssp             SSBCCSBCTTTSSBCSSEEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECG--GGEEECHHHHHHHHHH
T ss_pred             CCceeeECcCccCcccCCeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCch--hhCCcCHHHHHHHHHH
Confidence            356778999999999999985 999999999999999754  37999  9998743  5899999999999885

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.13  E-value=7e-11  Score=116.94  Aligned_cols=117  Identities=18%  Similarity=0.069  Sum_probs=106.0

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      +...+...|..+...|++++|+..|+++++++|+++.++.++|.++...|++                       ++|+.
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            4677888999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhh
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  160 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~  160 (469)
                      .++++++++|+++.++..+|.++...|++++|+..|+++++++|++..+...+..+-...
T Consensus       293 ~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~  352 (388)
T 1w3b_A          293 CYNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQ  352 (388)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHhhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHc
Confidence            999999999999999999999999999999999999999999999888777766554433

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.13  E-value=1.6e-10  Score=114.37  Aligned_cols=118  Identities=23%  Similarity=0.282  Sum_probs=109.0

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ....+...|..+...|+|++|+..|.++++++|+++.++.++|.+|...|++                       ++|+.
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            4677889999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhh
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  161 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~  161 (469)
                      .++++++++|+++.+|+.+|.++...|++++|+..|+++++++|++..+...+..+....+
T Consensus       259 ~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g  319 (388)
T 1w3b_A          259 TYRRAIELQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQG  319 (388)
T ss_dssp             HHHHHHHTCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHcC
Confidence            9999999999999999999999999999999999999999999999888777766554443

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.13  E-value=7.8e-11  Score=108.71  Aligned_cols=118  Identities=14%  Similarity=0.147  Sum_probs=106.6

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhc--------------------------CCCCCcccccchhHHHHHHHhhhcc
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANN--------------------------IKPGDPIVLGNRSSAYIRISQFLKH   75 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~--------------------------~~p~~~~~~~~~a~~~~~~~~~~~~   75 (469)
                      +..+...|..+...|++++|+..|+++++                          .+|.++.++.++|.++...|++   
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            67788899999999999999999999999                          7777888999999999999999   


Q ss_pred             CCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHH
Q 012162           76 RPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  155 (469)
Q Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~  155 (469)
                                          ++|+..++++++++|+++.+++.+|.++...|++++|+..|+++++++|++..+...+..
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                                999999999999999999999999999999999999999999999999999888777666


Q ss_pred             HHHhhhh
Q 012162          156 LERTTAS  162 (469)
Q Consensus       156 ~~~~~~~  162 (469)
                      +....++
T Consensus       216 ~~~~~g~  222 (258)
T 3uq3_A          216 AQIAVKE  222 (258)
T ss_dssp             HHHHTTC
T ss_pred             HHHHHhh
Confidence            5554443

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.12  E-value=2.5e-10  Score=106.63  Aligned_cols=109  Identities=6%  Similarity=0.023  Sum_probs=100.1

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCccc----ccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIV----LGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL   97 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (469)
                      ...+...|..++..|+|++|+..|+++++ .|.++..    |.++|.+|..+|++                       ++
T Consensus        37 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~-~~~~~~~~~~~~~~lg~~~~~~~~~-----------------------~~   92 (272)
T 3u4t_A           37 PYIYNRRAVCYYELAKYDLAQKDIETYFS-KVNATKAKSADFEYYGKILMKKGQD-----------------------SL   92 (272)
T ss_dssp             STTHHHHHHHHHHTTCHHHHHHHHHHHHT-TSCTTTCCHHHHHHHHHHHHHTTCH-----------------------HH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHh-ccCchhHHHHHHHHHHHHHHHcccH-----------------------HH
Confidence            34677889999999999999999999999 6666655    88999999999999                       99


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHH
Q 012162           98 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQ  154 (469)
Q Consensus        98 A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~  154 (469)
                      |+..++++++++|+++.++..+|.+|..+|++++|+..|+++++++|++..+...+.
T Consensus        93 A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~  149 (272)
T 3u4t_A           93 AIQQYQAAVDRDTTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTTDPKVFYELG  149 (272)
T ss_dssp             HHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCCCHHHHHHHH
T ss_pred             HHHHHHHHHhcCcccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCCcHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999988777666

>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=99.11  E-value=3e-11  Score=98.77  Aligned_cols=65  Identities=29%  Similarity=0.715  Sum_probs=50.5

Q ss_pred             CccccccccccccccccEEccCCCcccHHHHHHHccc-CCCccccccccccCCCcccCcccHHHHHH
Q 012162          174 RTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR-GNKCPLCRAVLFITPRTCAVSVTLNSIIQ  239 (469)
Q Consensus       174 ~~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~  239 (469)
                      ..+.+.|+||++.+.+|+.++|||+||+.||..|+.. +..||.||.++... .-...+..+.+++.
T Consensus        20 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~-~~~~~~~~l~~~i~   85 (116)
T 1rmd_A           20 FVKSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPT-DLESPVKSFLNILN   85 (116)
T ss_dssp             HHHHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGG-GCBCCCHHHHHHHH
T ss_pred             ccCCCCCCCCCcHhcCcEEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCHh-hccccHHHHHHHHH
Confidence            3457899999999999999999999999999999986 66899999998532 11233444444443

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.11  E-value=1.6e-10  Score=105.83  Aligned_cols=110  Identities=21%  Similarity=0.185  Sum_probs=52.3

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      .+..+..+|..++..|+|++|+..|+++++.+|+++.++..+|.++...|++                       ++|+.
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~-----------------------~~A~~   78 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNEL-----------------------ERALA   78 (243)
T ss_dssp             --------------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCH-----------------------HHHHH
Confidence            3445555555555556666666666666665555555555555555555555                       55555


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHH
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASL  153 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~  153 (469)
                      .++++++++|++..+++.+|.++...|++++|+..|+++++.+|++..+...+
T Consensus        79 ~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~  131 (243)
T 2q7f_A           79 FYDKALELDSSAATAYYGAGNVYVVKEMYKEAKDMFEKALRAGMENGDLFYML  131 (243)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTCCSHHHHHHH
T ss_pred             HHHHHHHcCCcchHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            55555555555555555555555555555555555555555555555444333

>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=99.11  E-value=2.2e-11  Score=102.67  Aligned_cols=50  Identities=26%  Similarity=0.721  Sum_probs=44.7

Q ss_pred             CCccccccccccccccccEEccCCCcccHHHHHHHcccCC-Cccccccccc
Q 012162          173 ERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGN-KCPLCRAVLF  222 (469)
Q Consensus       173 ~~~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~~~-~CP~Cr~~~~  222 (469)
                      ...+.+.|+||++.+.+|++++|||+||+.||.+|+..+. .||.||.++.
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            3457889999999999999999999999999999998665 8999999763

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.11  E-value=1.9e-10  Score=110.21  Aligned_cols=114  Identities=15%  Similarity=0.086  Sum_probs=106.2

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCC---------CCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCC
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIK---------PGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDP   91 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~---------p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (469)
                      ....+...|..++..|+|++|+..|+++++..         |.++.++.++|.+|...|++                   
T Consensus       192 ~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~-------------------  252 (330)
T 3hym_B          192 DPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKY-------------------  252 (330)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCH-------------------
T ss_pred             ChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCH-------------------
Confidence            35678889999999999999999999999986         67778999999999999999                   


Q ss_pred             chhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHH
Q 012162           92 TTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  157 (469)
Q Consensus        92 ~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~  157 (469)
                          ++|+..++++++++|+++.+++.+|.++..+|++++|+..|+++++++|++..+...+..+-
T Consensus       253 ----~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~  314 (330)
T 3hym_B          253 ----AEALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFSVTMLGHCI  314 (330)
T ss_dssp             ----HHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCCHHHHHHHHHHH
T ss_pred             ----HHHHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCCchHHHHHHHHHH
Confidence                99999999999999999999999999999999999999999999999999998888777643

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.11  E-value=1.1e-10  Score=95.78  Aligned_cols=102  Identities=25%  Similarity=0.347  Sum_probs=96.8

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ...+...|..+...|++++|+..|.++++.+|.++.++..+|.++...|++                       ++|+..
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            556777899999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCC
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS  146 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~  146 (469)
                      ++++++..|++..+++.+|.++...|++++|+..|++++..+|++
T Consensus        92 ~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~  136 (136)
T 2fo7_A           92 YQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRS  136 (136)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSTTC
T ss_pred             HHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccCCCC
Confidence            999999999999999999999999999999999999999998864

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.10  E-value=1.7e-10  Score=116.14  Aligned_cols=115  Identities=20%  Similarity=0.319  Sum_probs=106.7

Q ss_pred             hhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHH
Q 012162           17 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE   96 (469)
Q Consensus        17 ~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (469)
                      ....++..+...|..++..|+|++|+..|+++++.+|+++.+++.+|.+|..+|++                       +
T Consensus        21 ~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~-----------------------~   77 (450)
T 2y4t_A           21 QSMADVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKS-----------------------K   77 (450)
T ss_dssp             --CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------H
T ss_pred             ccHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCH-----------------------H
Confidence            44566889999999999999999999999999999999999999999999999999                       9


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCc---hhHHHHH
Q 012162           97 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN---PLQASLQ  154 (469)
Q Consensus        97 ~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~---~~~~~~~  154 (469)
                      +|+..++++++++|+++.+++.+|.+|..+|++++|+..|+++++++|++.   .+...+.
T Consensus        78 ~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~  138 (450)
T 2y4t_A           78 AALPDLTKVIQLKMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLI  138 (450)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999988   6655443

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.10  E-value=1.8e-10  Score=103.95  Aligned_cols=116  Identities=12%  Similarity=0.004  Sum_probs=103.3

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      ..+..+...|..++..|++++|+..|+++++.+|+++.++..+|.+|...|++                       ++|+
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            45778889999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHH-hHHHHHHHHHhcccc--CCCCCchhHHHHHHHHH
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANALILL-ERYDMARDAILSGLQ--VDPFSNPLQASLQNLER  158 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~~~-~~~~~A~~~~~~al~--~~p~~~~~~~~~~~~~~  158 (469)
                      ..++++++++|++..+++.+|.++... |++++|+..|+++++  .+|++..+...+..+..
T Consensus        63 ~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~  124 (225)
T 2vq2_A           63 ESFRQALSIKPDSAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSA  124 (225)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHH
Confidence            999999999999999999999999999 999999999999999  44544555555444433

>2ea6_A Ring finger protein 4; RNF4, RES4-26, ring domain, zinc- binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.10  E-value=3.7e-11  Score=88.35  Aligned_cols=50  Identities=34%  Similarity=0.858  Sum_probs=44.7

Q ss_pred             CCcccccccccccccccc-------EEccCCCcccHHHHHHHcccCCCccccccccc
Q 012162          173 ERTDDFDCTLCLKLLYEP-------ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  222 (469)
Q Consensus       173 ~~~~~~~C~ic~~~~~~p-------~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~  222 (469)
                      ...+...|+||++.+.+|       +.++|||.||..||..|+.....||.||.++.
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   67 (69)
T 2ea6_A           11 RPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN   67 (69)
T ss_dssp             CTTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHCSSCTTTCCCCC
T ss_pred             CCCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcCCCCCCCCCccC
Confidence            345678999999999988       88999999999999999988889999998863

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.09  E-value=2.7e-10  Score=104.20  Aligned_cols=122  Identities=13%  Similarity=0.065  Sum_probs=94.6

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcc---cccchhHHHHHHHhhhccCCCCCcccCccCC-CCCchhHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPI---VLGNRSSAYIRISQFLKHRPPSASEYRPLNG-LDPTTHAEL   97 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~   97 (469)
                      ...+...|..++..|+|++|+..|+++++.+|+++.   +++.+|.++..++..      ....+..+.. .-.+...++
T Consensus        41 ~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~  114 (225)
T 2yhc_A           41 QQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRGLTNMALDDS------ALQGFFGVDRSDRDPQQARA  114 (225)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHC--------------------CCHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHHHHHHhhhhh------hhhhhhccchhhcCcHHHHH
Confidence            467888999999999999999999999999999886   789999999875411      0000000000 000122399


Q ss_pred             HHHHHHHHhhccccchHHH-----------------HHHHHHHHHHhHHHHHHHHHhccccCCCCCchh
Q 012162           98 ALKDAEKLLNLQSNSMKSH-----------------LLKANALILLERYDMARDAILSGLQVDPFSNPL  149 (469)
Q Consensus        98 A~~~~~~al~l~p~~~~~~-----------------~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~  149 (469)
                      |+..++++++..|+++.++                 +.+|.+|...|+|++|+..|+++++..|+++..
T Consensus       115 A~~~~~~~l~~~P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~  183 (225)
T 2yhc_A          115 AFSDFSKLVRGYPNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQAT  183 (225)
T ss_dssp             HHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHH
T ss_pred             HHHHHHHHHHHCcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCcc
Confidence            9999999999999998665                 678999999999999999999999999998743

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.09  E-value=1.9e-10  Score=106.33  Aligned_cols=116  Identities=18%  Similarity=0.116  Sum_probs=106.1

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      .+..+...|..++..|+|++|+..|+++++.+|+++.++..+|.+|...|++                       ++|+.
T Consensus        36 ~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~-----------------------~~A~~   92 (252)
T 2ho1_A           36 ARDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEP-----------------------KLADE   92 (252)
T ss_dssp             HHHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             HHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCH-----------------------HHHHH
Confidence            4788899999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhcccc--CCCCCchhHHHHHHHHHh
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQ--VDPFSNPLQASLQNLERT  159 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~~~~~~~~  159 (469)
                      .++++++++|++..+++.+|.++...|++++|+..|+++++  .+|.+..+...+..+...
T Consensus        93 ~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~  153 (252)
T 2ho1_A           93 EYRKALASDSRNARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQ  153 (252)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCcCcHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999  777776666655554433

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.09  E-value=3.8e-10  Score=108.14  Aligned_cols=115  Identities=11%  Similarity=-0.003  Sum_probs=92.4

Q ss_pred             HHHHHHhHHHHHHhc-cHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           22 VFDLVQKGNRAFRES-NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~-~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ...+...|..++..| ++++|+..|+++++++|+++.++..+|.++...|++                       ++|+.
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            456677788888888 888888888888888888888888888888888888                       88888


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHh
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERT  159 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~  159 (469)
                      .++++++++|++..+++.+|.++...|++++|+..|+++++.+|++..+...+..+...
T Consensus       147 ~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~  205 (330)
T 3hym_B          147 AYFTAAQLMKGCHLPMLYIGLEYGLTNNSKLAERFFSQALSIAPEDPFVMHEVGVVAFQ  205 (330)
T ss_dssp             HHHHHHHHTTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHH
Confidence            88888888888888888888888888888888888888888888887666655554433

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.08  E-value=2.5e-10  Score=114.91  Aligned_cols=118  Identities=14%  Similarity=0.221  Sum_probs=108.9

Q ss_pred             HHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc----ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           24 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        24 ~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      .+...|..++..|++++|+..|+++++++|+++    .++.++|.++.++|++                       ++|+
T Consensus       259 ~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~l~~~~~~~g~~-----------------------~~A~  315 (450)
T 2y4t_A          259 KLIESAEELIRDGRYTDATSKYESVMKTEPSIAEYTVRSKERICHCFSKDEKP-----------------------VEAI  315 (450)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHTTTCH-----------------------HHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHHCCCH-----------------------HHHH
Confidence            345569999999999999999999999999985    4788999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhhh
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLI  164 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~  164 (469)
                      ..++++++++|+++.+|+.+|.++...|++++|+..|+++++++|++..+...+..++..++...
T Consensus       316 ~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~  380 (450)
T 2y4t_A          316 RVCSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQSQ  380 (450)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhhccc
Confidence            99999999999999999999999999999999999999999999999999999988887776543

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.08  E-value=1e-10  Score=114.59  Aligned_cols=113  Identities=14%  Similarity=0.074  Sum_probs=99.9

Q ss_pred             HhHHHHHHhccHHHHHHHHHHHhcCCCC--CcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHH
Q 012162           27 QKGNRAFRESNFEEAISNYSRANNIKPG--DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  104 (469)
Q Consensus        27 ~~g~~~~~~~~~~~A~~~y~~al~~~p~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  104 (469)
                      ..|..+...|++++|+..|+++++++|+  ++.++.++|.+|...|++                       ++|+..+++
T Consensus       182 ~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~-----------------------~~A~~~~~~  238 (365)
T 4eqf_A          182 RMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEF-----------------------NRAIDAFNA  238 (365)
T ss_dssp             -------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCH-----------------------HHHHHHHHH
T ss_pred             HHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCH-----------------------HHHHHHHHH
Confidence            4478889999999999999999999999  899999999999999999                       999999999


Q ss_pred             HhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhh
Q 012162          105 LLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus       105 al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                      +++++|+++.+|+.+|.+|...|++++|+..|+++++++|++..+...+..+....++
T Consensus       239 al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~  296 (365)
T 4eqf_A          239 ALTVRPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGA  296 (365)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTC
T ss_pred             HHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCC
Confidence            9999999999999999999999999999999999999999998888777776655544

>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=99.08  E-value=1.2e-10  Score=119.89  Aligned_cols=109  Identities=26%  Similarity=0.346  Sum_probs=96.1

Q ss_pred             hhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHH
Q 012162           17 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE   96 (469)
Q Consensus        17 ~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (469)
                      .....+..+..+|..++..|+|++|+..|+++++.+|+++.++.++|.+|..+|++                       +
T Consensus        20 ~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~-----------------------~   76 (537)
T 3fp2_A           20 QRQAYAVQLKNRGNHFFTAKNFNEAIKYYQYAIELDPNEPVFYSNISACYISTGDL-----------------------E   76 (537)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCCC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH-----------------------H
T ss_pred             hhHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCH-----------------------H
Confidence            34556899999999999999999999999999999999999999999999999999                       9


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchh
Q 012162           97 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  149 (469)
Q Consensus        97 ~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~  149 (469)
                      +|+..++++++++|+++.+++.+|.++..+|++++|+..|+ ++.++|+....
T Consensus        77 ~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~-~~~~~~~~~~~  128 (537)
T 3fp2_A           77 KVIEFTTKALEIKPDHSKALLRRASANESLGNFTDAMFDLS-VLSLNGDFDGA  128 (537)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHH-HHC--------
T ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHHHHHcCCHHHHHHHHH-HHhcCCCCChH
Confidence            99999999999999999999999999999999999999996 89999986653

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.07  E-value=3.8e-10  Score=104.22  Aligned_cols=116  Identities=11%  Similarity=0.026  Sum_probs=89.8

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ....+...|..++..|++++|+..|.++++.+|+++.++.++|.+|...|++                       ++|+.
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            3566777888888888888888888888888888888888888888888888                       78888


Q ss_pred             HHHHHhh--ccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHh
Q 012162          101 DAEKLLN--LQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERT  159 (469)
Q Consensus       101 ~~~~al~--l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~  159 (469)
                      .++++++  .+|.++.+++.+|.++...|++++|+..|+++++.+|++..+...+..+...
T Consensus       127 ~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~  187 (252)
T 2ho1_A          127 RLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRNQPSVALEMADLLYK  187 (252)
T ss_dssp             HHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHH
T ss_pred             HHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHH
Confidence            8888877  7777777788888888888888888888888888777777666555444333

>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=99.07  E-value=1.7e-11  Score=107.48  Aligned_cols=112  Identities=13%  Similarity=0.046  Sum_probs=97.2

Q ss_pred             HhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHh
Q 012162           27 QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLL  106 (469)
Q Consensus        27 ~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al  106 (469)
                      ..+..++..|+|++|+..|+++++.+|+++.++..+|.+|...|++                       ++|+..+++++
T Consensus        15 ~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~-----------------------~~A~~~~~~al   71 (177)
T 2e2e_A           15 DPLHQFASQQNPEAQLQALQDKIRANPQNSEQWALLGEYYLWQNDY-----------------------SNSLLAYRQAL   71 (177)
T ss_dssp             TTTCCCC-----CCCCHHHHHHHHHCCSCHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHHHH
T ss_pred             hhhhhhhhccCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHH
Confidence            3445567889999999999999999999999999999999999999                       99999999999


Q ss_pred             hccccchHHHHHHHHH-HHHHhHH--HHHHHHHhccccCCCCCchhHHHHHHHHHhhh
Q 012162          107 NLQSNSMKSHLLKANA-LILLERY--DMARDAILSGLQVDPFSNPLQASLQNLERTTA  161 (469)
Q Consensus       107 ~l~p~~~~~~~~~g~~-~~~~~~~--~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~  161 (469)
                      +++|+++.+++.+|.+ +...|++  ++|+..|+++++++|++..+...+..+....+
T Consensus        72 ~~~p~~~~~~~~la~~l~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g  129 (177)
T 2e2e_A           72 QLRGENAELYAALATVLYYQASQHMTAQTRAMIDKALALDSNEITALMLLASDAFMQA  129 (177)
T ss_dssp             HHHCSCHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HcCCCCHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcc
Confidence            9999999999999999 8899999  99999999999999999888777766555443

>2ecj_A Tripartite motif-containing protein 39; TRIM39, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.07  E-value=8.4e-11  Score=83.19  Aligned_cols=46  Identities=35%  Similarity=0.977  Sum_probs=39.9

Q ss_pred             CCCccccccccccccccccEEccCCCcccHHHHHHHcc---cCCCcccc
Q 012162          172 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD---RGNKCPLC  217 (469)
Q Consensus       172 ~~~~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~---~~~~CP~C  217 (469)
                      ....+.+.|+||++.+.+|+.++|||+||+.||.+|+.   ....||.|
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   45689988

>1bor_A Transcription factor PML; proto-oncogene, nuclear bodies (PODS), leukemia, transcription regulation; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=99.07  E-value=2.6e-11  Score=85.05  Aligned_cols=47  Identities=30%  Similarity=0.683  Sum_probs=40.9

Q ss_pred             CccccccccccccccccEEccCCCcccHHHHHHHcccCCCcccccccccc
Q 012162          174 RTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFI  223 (469)
Q Consensus       174 ~~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~~  223 (469)
                      ..+.+.|+||++.+.+|+.++|||+||+.|+..   ....||.||+.+..
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            346789999999999999999999999999976   35589999998754

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=99.06  E-value=5.9e-11  Score=100.36  Aligned_cols=97  Identities=11%  Similarity=-0.017  Sum_probs=86.7

Q ss_pred             HHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHH
Q 012162           43 SNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANA  122 (469)
Q Consensus        43 ~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~  122 (469)
                      ..|.++++++|++...++.+|.+++..|+|                       ++|+..+++++.++|+++.+|+.+|.+
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            578999999999999999999999999999                       999999999999999999999999999


Q ss_pred             HHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhh
Q 012162          123 LILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus       123 ~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                      |..+|+|++|+..|+++++++|+++.+...+..+-..+++
T Consensus        62 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~  101 (142)
T 2xcb_A           62 RQSLGLYEQALQSYSYGALMDINEPRFPFHAAECHLQLGD  101 (142)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTC
T ss_pred             HHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcCC
Confidence            9999999999999999999999999888777665555443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=99.06  E-value=3.5e-10  Score=86.86  Aligned_cols=85  Identities=21%  Similarity=0.315  Sum_probs=80.2

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      ..+..+...|..++..|+|++|+..|+++++.+|+++.++.++|.++...|++                       ++|+
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 012162          100 KDAEKLLNLQSNSMKSHLLKANALILLE  127 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~~~~  127 (469)
                      ..++++++++|+++.++..+|.++..+|
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            9999999999999999999999988764

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.06  E-value=2.9e-10  Score=111.10  Aligned_cols=107  Identities=15%  Similarity=0.103  Sum_probs=97.6

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      +..+...|..++..|+|++|+..|+++++.+|+++.++..+|.+|...|++                       ++|+..
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            455778899999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHH
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQA  151 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~  151 (469)
                      ++++++++|+++.+++.+|.++...|++++|+..|+++++++|++.....
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            99999999999999999999999999999999999999999998876553

>2xeu_A Ring finger protein 4; transcription, zinc-finger, metal-binding; HET: SUC; 1.50A {Homo sapiens}

Probab=99.05  E-value=5.3e-11  Score=86.06  Aligned_cols=47  Identities=36%  Similarity=0.882  Sum_probs=42.9

Q ss_pred             ccccccccccccccc-------EEccCCCcccHHHHHHHcccCCCccccccccc
Q 012162          176 DDFDCTLCLKLLYEP-------ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  222 (469)
Q Consensus       176 ~~~~C~ic~~~~~~p-------~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~  222 (469)
                      +.+.|+||++.+.+|       +.++|||.||..|+.+|+.....||.||.++.
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            457899999999988       78999999999999999988889999999874

>1iym_A EL5; ring-H2 finger, ubiquitin ligase, DNA binding protein; NMR {Oryza sativa} SCOP: g.44.1.1

Probab=99.05  E-value=9e-11  Score=82.06  Aligned_cols=47  Identities=34%  Similarity=0.824  Sum_probs=42.0

Q ss_pred             ccccccccccccccc---cEEcc-CCCcccHHHHHHHcccCCCcccccccc
Q 012162          175 TDDFDCTLCLKLLYE---PITTP-CGHSFCRSCLFQSMDRGNKCPLCRAVL  221 (469)
Q Consensus       175 ~~~~~C~ic~~~~~~---p~~~~-cgh~~C~~Ci~~~~~~~~~CP~Cr~~~  221 (469)
                      ++...|+||++.+.+   ++.++ |||.||..||.+|+.....||.||.++
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            456789999999887   77887 999999999999999888999999876

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.05  E-value=3.6e-10  Score=101.87  Aligned_cols=118  Identities=13%  Similarity=0.068  Sum_probs=105.2

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHH-HhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRI-SQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ...+...|..+...|++++|+..|.++++.+|+++.++.++|.++... |++                       ++|+.
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            567788899999999999999999999999999999999999999999 999                       99999


Q ss_pred             HHHHHhh--ccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhh
Q 012162          101 DAEKLLN--LQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus       101 ~~~~al~--l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                      .++++++  .+|.+..+++.+|.++...|++++|+..|+++++.+|++..+...+..+....++
T Consensus        99 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~  162 (225)
T 2vq2_A           99 YFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQ  162 (225)
T ss_dssp             HHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCC
Confidence            9999999  7777889999999999999999999999999999999988877766665544433

>2ecn_A Ring finger protein 141; RNF141, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.05  E-value=1.1e-10  Score=86.07  Aligned_cols=51  Identities=33%  Similarity=0.824  Sum_probs=45.0

Q ss_pred             CCCccccccccccccccccEEccCCCcccHHHHHHHcccCCCcccccccccc
Q 012162          172 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFI  223 (469)
Q Consensus       172 ~~~~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~~  223 (469)
                      ....+...|+||++.+.+ +.++|||.||..||..|+.....||.||.++..
T Consensus        10 ~~~~~~~~C~IC~~~~~~-~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   60 (70)
T 2ecn_A           10 KQLTDEEECCICMDGRAD-LILPCAHSFCQKCIDKWSDRHRNCPICRLQMTG   60 (70)
T ss_dssp             CCCCCCCCCSSSCCSCCS-EEETTTEEECHHHHHHSSCCCSSCHHHHHCTTC
T ss_pred             hcCCCCCCCeeCCcCccC-cccCCCCcccHHHHHHHHHCcCcCCCcCCcccC
Confidence            344567899999999999 899999999999999999988899999998853

>1g25_A CDK-activating kinase assembly factor MAT1; ring finger (C3HC4), metal binding protein; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=99.04  E-value=8.5e-11  Score=85.29  Aligned_cols=47  Identities=36%  Similarity=0.822  Sum_probs=40.7

Q ss_pred             cccccccccc-ccccc----EEccCCCcccHHHHHHHcccC-CCccccccccc
Q 012162          176 DDFDCTLCLK-LLYEP----ITTPCGHSFCRSCLFQSMDRG-NKCPLCRAVLF  222 (469)
Q Consensus       176 ~~~~C~ic~~-~~~~p----~~~~cgh~~C~~Ci~~~~~~~-~~CP~Cr~~~~  222 (469)
                      +++.|+||++ .+.+|    +.++|||+||..||.+|+..+ ..||.||.++.
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            4578999999 99999    578999999999999997654 57999999874

>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid herpesvirus 1} SCOP: g.44.1.1

Probab=99.04  E-value=6e-11  Score=86.96  Aligned_cols=47  Identities=28%  Similarity=0.707  Sum_probs=42.5

Q ss_pred             ccccccccccccccc-EEccCCCcccHHHHHHHcccCCCccccccccc
Q 012162          176 DDFDCTLCLKLLYEP-ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  222 (469)
Q Consensus       176 ~~~~C~ic~~~~~~p-~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~  222 (469)
                      ....|+||++.+.+| +.++|||.||..|+..|+..+..||.||.++.
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 67899999999999999988889999999874

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.04  E-value=3e-10  Score=108.70  Aligned_cols=118  Identities=14%  Similarity=0.155  Sum_probs=105.7

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ...+...|..+...|++++|+..|+++++.+|+++.++.++|.++...|++                       ++|+..
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            566778899999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCC------------CchhHHHHHHHHHhhhh
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF------------SNPLQASLQNLERTTAS  162 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~------------~~~~~~~~~~~~~~~~~  162 (469)
                      ++++++++|+++.+++.+|.++..+|++++|+..|+++++++|+            +..+...+..+-..++.
T Consensus       229 ~~~a~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  301 (327)
T 3cv0_A          229 YNRALDINPGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNR  301 (327)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCC
Confidence            99999999999999999999999999999999999999999998            56666666555554443

>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=99.03  E-value=1.5e-10  Score=85.03  Aligned_cols=50  Identities=34%  Similarity=0.721  Sum_probs=42.9

Q ss_pred             CCcccccccccccccc---ccEEccCCCcccHHHHHHHcccCCCccccccccc
Q 012162          173 ERTDDFDCTLCLKLLY---EPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  222 (469)
Q Consensus       173 ~~~~~~~C~ic~~~~~---~p~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~  222 (469)
                      .......|+||++.+.   .++.++|||.||..||.+|+..+..||.||..+.
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            3456678999998874   4577999999999999999998889999999874

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.03  E-value=6.4e-10  Score=106.20  Aligned_cols=113  Identities=10%  Similarity=0.080  Sum_probs=83.6

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHH----HhhhccCCCCCcccCccCCCCCchhHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRI----SQFLKHRPPSASEYRPLNGLDPTTHAEL   97 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (469)
                      ...+...|..+.+.|++++|+..|+++++.+|++...  +++.++..+    |++                       ++
T Consensus       130 ~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~~~~--~l~~a~~~l~~~~~~~-----------------------~e  184 (291)
T 3mkr_A          130 LECMAMTVQILLKLDRLDLARKELKKMQDQDEDATLT--QLATAWVSLAAGGEKL-----------------------QD  184 (291)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHH--HHHHHHHHHHHCTTHH-----------------------HH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcCcHHH--HHHHHHHHHHhCchHH-----------------------HH
Confidence            4556667777777777777777777777777765422  333333222    666                       88


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHh
Q 012162           98 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERT  159 (469)
Q Consensus        98 A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~  159 (469)
                      |+..++++++.+|+++.+++.+|.++..+|++++|+..|+++++++|+++.+...+..+...
T Consensus       185 A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~~~~l~~l~~~~~~  246 (291)
T 3mkr_A          185 AYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETLINLVVLSQH  246 (291)
T ss_dssp             HHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            88888888888888888888888888888888888888888888888888877666554443

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.03  E-value=8.1e-10  Score=103.07  Aligned_cols=105  Identities=14%  Similarity=0.058  Sum_probs=88.5

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ....+...|..++..|+|++|+..|+++++++|+++.++.++|.+|..+|++                       ++|+.
T Consensus        76 ~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~-----------------------~~A~~  132 (275)
T 1xnf_A           76 MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRD-----------------------KLAQD  132 (275)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCccccHHHHHHHHHHHHhccH-----------------------HHHHH
Confidence            3567788999999999999999999999999999999999999999999998                       66666


Q ss_pred             HHHHHhhccccc--------------------------------------------------------------------
Q 012162          101 DAEKLLNLQSNS--------------------------------------------------------------------  112 (469)
Q Consensus       101 ~~~~al~l~p~~--------------------------------------------------------------------  112 (469)
                      .++++++++|++                                                                    
T Consensus       133 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  212 (275)
T 1xnf_A          133 DLLAFYQDDPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWGWNIVEFYLGNISEQTLMERLKADATDNTSLAE  212 (275)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCSTHHHHHHHHTTSSCHHHHHHHHHHHCCSHHHHHH
T ss_pred             HHHHHHHhCCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHhcCHHHHHHHHHHHhcccccccc
Confidence            666666555554                                                                    


Q ss_pred             --hHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCch
Q 012162          113 --MKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  148 (469)
Q Consensus       113 --~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~  148 (469)
                        +.+++.+|.+|...|++++|+..|+++++++|++..
T Consensus       213 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~  250 (275)
T 1xnf_A          213 HLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFV  250 (275)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCH
T ss_pred             cccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchhHH
Confidence              467788888888889999999999999998887655

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.02  E-value=3.6e-10  Score=107.97  Aligned_cols=98  Identities=7%  Similarity=-0.016  Sum_probs=91.3

Q ss_pred             HHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccc
Q 012162           33 FRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNS  112 (469)
Q Consensus        33 ~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~  112 (469)
                      ...|++++|+..|+++++.+|+++.+++++|.++..+|++                       ++|+..++++++++|++
T Consensus       177 ~~~~~~~eA~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~-----------------------~eA~~~l~~al~~~p~~  233 (291)
T 3mkr_A          177 AGGEKLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRW-----------------------EAAEGVLQEALDKDSGH  233 (291)
T ss_dssp             HCTTHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHCTTC
T ss_pred             hCchHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCH-----------------------HHHHHHHHHHHHhCCCC
Confidence            3458999999999999999999999999999999999999                       99999999999999999


Q ss_pred             hHHHHHHHHHHHHHhHHHH-HHHHHhccccCCCCCchhHHHH
Q 012162          113 MKSHLLKANALILLERYDM-ARDAILSGLQVDPFSNPLQASL  153 (469)
Q Consensus       113 ~~~~~~~g~~~~~~~~~~~-A~~~~~~al~~~p~~~~~~~~~  153 (469)
                      +.+++++|.++..+|++++ +..+++++++++|+++.+....
T Consensus       234 ~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~~~~d~~  275 (291)
T 3mkr_A          234 PETLINLVVLSQHLGKPPEVTNRYLSQLKDAHRSHPFIKEYR  275 (291)
T ss_dssp             HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCCChHHHHHH
Confidence            9999999999999999987 5689999999999999876543

>2ect_A Ring finger protein 126; metal binding protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=99.02  E-value=1.7e-10  Score=87.00  Aligned_cols=52  Identities=25%  Similarity=0.607  Sum_probs=44.4

Q ss_pred             CCCcccccccccccccccc---EEccCCCcccHHHHHHHcccCCCcccccccccc
Q 012162          172 PERTDDFDCTLCLKLLYEP---ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFI  223 (469)
Q Consensus       172 ~~~~~~~~C~ic~~~~~~p---~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~~  223 (469)
                      ........|+||++.+.++   +.++|||.||..||.+|+.....||.||.++..
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   64 (78)
T 2ect_A           10 EHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTG   64 (78)
T ss_dssp             TTSSSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCCCC
T ss_pred             ccCCCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCccCC
Confidence            3445677999999999866   457999999999999999888899999998853

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.02  E-value=3.6e-10  Score=108.11  Aligned_cols=111  Identities=13%  Similarity=0.038  Sum_probs=102.1

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      .....+..+|..++..|+|++|+..|+++++.+|+++.++..+|.++...|++                       ++|+
T Consensus        19 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----------------------~~A~   75 (327)
T 3cv0_A           19 MYHENPMEEGLSMLKLANLAEAALAFEAVCQAAPEREEAWRSLGLTQAENEKD-----------------------GLAI   75 (327)
T ss_dssp             GGSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHH
T ss_pred             hhhHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH-----------------------HHHH
Confidence            34667889999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHH
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASL  153 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~  153 (469)
                      ..++++++++|++..+++.+|.++...|++++|+..|+++++.+|++......+
T Consensus        76 ~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~  129 (327)
T 3cv0_A           76 IALNHARMLDPKDIAVHAALAVSHTNEHNANAALASLRAWLLSQPQYEQLGSVN  129 (327)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTTTC----
T ss_pred             HHHHHHHhcCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHH
Confidence            999999999999999999999999999999999999999999999887655443

>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=99.02  E-value=5.6e-10  Score=108.95  Aligned_cols=97  Identities=19%  Similarity=0.205  Sum_probs=91.8

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      +..+...|..++..|+|++|+..|++|++++|+++.+|+++|.+|..+|++                       ++|+..
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            678889999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHHHH-HHHHhcccc
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMA-RDAILSGLQ  141 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A-~~~~~~al~  141 (469)
                      ++++++++|++..++..+|.++..+|++++| ...|++.+.
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 556776664

>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=99.01  E-value=1.2e-10  Score=81.39  Aligned_cols=46  Identities=30%  Similarity=0.792  Sum_probs=41.3

Q ss_pred             cccccccccccccc----cEEccCCCcccHHHHHHHcccCCCcccccccc
Q 012162          176 DDFDCTLCLKLLYE----PITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL  221 (469)
Q Consensus       176 ~~~~C~ic~~~~~~----p~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~  221 (469)
                      ....|+||++.+.+    ++.++|||.||..||.+|+.....||.||.++
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            45689999999866    77899999999999999999889999999876

>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=99.00  E-value=1.5e-10  Score=101.32  Aligned_cols=67  Identities=30%  Similarity=0.729  Sum_probs=54.5

Q ss_pred             CCCccccccccccccccccEEccCCCcccHHHHHHHcccC-CCccccccccccCCCcccCcccHHHHHHH
Q 012162          172 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRG-NKCPLCRAVLFITPRTCAVSVTLNSIIQK  240 (469)
Q Consensus       172 ~~~~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~~-~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~  240 (469)
                      ....+.+.|+||++.+.+|+.++|||+||+.||.+|+..+ ..||.||.++..  ..+.++..+.+.+..
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            3556789999999999999999999999999999999754 489999998843  345566666666554

>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=98.99  E-value=4.3e-10  Score=115.17  Aligned_cols=105  Identities=10%  Similarity=0.160  Sum_probs=94.4

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      .+..+...|..++..|+|++|+..|++|++++|+++.+++++|.+|..+|++                       ++|+.
T Consensus        39 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~-----------------------~eA~~   95 (477)
T 1wao_1           39 NAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKF-----------------------RAALR   95 (477)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCH-----------------------HHHHH
T ss_pred             cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH-----------------------HHHHH
Confidence            3677889999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHH--HHHHhHHHHHHHHHh-----------ccccCCCCCch
Q 012162          101 DAEKLLNLQSNSMKSHLLKANA--LILLERYDMARDAIL-----------SGLQVDPFSNP  148 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~--~~~~~~~~~A~~~~~-----------~al~~~p~~~~  148 (469)
                      .++++++++|++..++..+|.+  +...|++++|+..++           ++++++|+...
T Consensus        96 ~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~al~~~~~~~~  156 (477)
T 1wao_1           96 DYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRSVVDSLDIESMTIEDEYSG  156 (477)
T ss_dssp             HHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC------CCSTTTCCTTSSCCCCTTCCS
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhccccccchhHhhhhhhhccccccccc
Confidence            9999999999999999999998  889999999999999           99999987643

>2l0b_A E3 ubiquitin-protein ligase praja-1; zinc finger, NESG, structural genomics, PSI-2, protein struc initiative; NMR {Homo sapiens}

Probab=98.99  E-value=2.1e-10  Score=89.24  Aligned_cols=49  Identities=22%  Similarity=0.678  Sum_probs=43.4

Q ss_pred             Cccccccccccccccc---cEEccCCCcccHHHHHHHcccCCCccccccccc
Q 012162          174 RTDDFDCTLCLKLLYE---PITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  222 (469)
Q Consensus       174 ~~~~~~C~ic~~~~~~---p~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~  222 (469)
                      ......|+||++.+..   ++.++|||.||..||..|+.....||.||.++.
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            4467789999998877   778999999999999999998889999998863

>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=98.99  E-value=6.1e-10  Score=116.50  Aligned_cols=107  Identities=14%  Similarity=0.011  Sum_probs=101.7

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ....+...|..+...|+|++|+..|+++++++|+++.++.++|.+|..+|++                       ++|+.
T Consensus        56 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~-----------------------~~A~~  112 (568)
T 2vsy_A           56 HPEAVARLGRVRWTQQRHAEAAVLLQQASDAAPEHPGIALWLGHALEDAGQA-----------------------EAAAA  112 (568)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCH-----------------------HHHHH
Confidence            3677889999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHH---hHHHHHHHHHhccccCCCCCchhH
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILL---ERYDMARDAILSGLQVDPFSNPLQ  150 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~---~~~~~A~~~~~~al~~~p~~~~~~  150 (469)
                      .++++++++|+++.+++.+|.++..+   |++++|+..|+++++.+|++....
T Consensus       113 ~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  165 (568)
T 2vsy_A          113 AYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQGVGAVEPF  165 (568)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHTCCCSCHH
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcCCcccChH
Confidence            99999999999999999999999999   999999999999999999875544

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.99  E-value=4.5e-10  Score=107.18  Aligned_cols=106  Identities=15%  Similarity=0.030  Sum_probs=89.7

Q ss_pred             HHHHHHhHHHHHHh-ccHHHHHHHHHHHhcCCCCC------cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchh
Q 012162           22 VFDLVQKGNRAFRE-SNFEEAISNYSRANNIKPGD------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH   94 (469)
Q Consensus        22 ~~~~~~~g~~~~~~-~~~~~A~~~y~~al~~~p~~------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (469)
                      +..+...|..+... |++++|+.+|++|+++.|.+      ..++.++|.+|..+|+|                      
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            56778899999996 99999999999999998865      46788999999999999                      


Q ss_pred             HHHHHHHHHHHhhccccchH-------HHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhH
Q 012162           95 AELALKDAEKLLNLQSNSMK-------SHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  150 (469)
Q Consensus        95 ~~~A~~~~~~al~l~p~~~~-------~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~  150 (469)
                       ++|+..+++++++.|++..       +|+.+|.++..+|++++|+.+|+++++++|++....
T Consensus       175 -~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~  236 (292)
T 1qqe_A          175 -IEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSR  236 (292)
T ss_dssp             -HHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC--------
T ss_pred             -HHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcH
Confidence             9999999999999987653       688999999999999999999999999999877643

>2ep4_A Ring finger protein 24; zinc binding, ubiquitin, E3 enzyme, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.97  E-value=2e-10  Score=85.64  Aligned_cols=52  Identities=29%  Similarity=0.632  Sum_probs=44.2

Q ss_pred             CCCCccccccccccccccccEE---ccCCCcccHHHHHHHcccCCCccccccccc
Q 012162          171 TPERTDDFDCTLCLKLLYEPIT---TPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  222 (469)
Q Consensus       171 ~~~~~~~~~C~ic~~~~~~p~~---~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~  222 (469)
                      .........|+||++.+.++..   ++|||.||..||.+|+.....||.||.++.
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            3445567799999999987743   499999999999999988889999999874

>1x4j_A Ring finger protein 38; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.97  E-value=2.2e-10  Score=85.71  Aligned_cols=49  Identities=24%  Similarity=0.598  Sum_probs=43.5

Q ss_pred             Ccccccccccccccccc---EEccCCCcccHHHHHHHcccCCCccccccccc
Q 012162          174 RTDDFDCTLCLKLLYEP---ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  222 (469)
Q Consensus       174 ~~~~~~C~ic~~~~~~p---~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~  222 (469)
                      ..+...|+||++.+.++   +.++|||.||..||..|+.....||.||+++.
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            34567899999999887   67899999999999999998889999999874

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.97  E-value=1.7e-10  Score=91.36  Aligned_cols=76  Identities=18%  Similarity=0.152  Sum_probs=69.6

Q ss_pred             CCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHH
Q 012162           51 IKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYD  130 (469)
Q Consensus        51 ~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~  130 (469)
                      .+|+++.+++++|.+|+..|+|                       ++|+..++++++++|+++.+|+.+|.+|..+|+++
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 012162          131 MARDAILSGLQVDPFSNPL  149 (469)
Q Consensus       131 ~A~~~~~~al~~~p~~~~~  149 (469)
                      +|+..|++++++.|.+...
T Consensus        59 ~A~~~~~~al~l~~~~~~~   77 (100)
T 3ma5_A           59 DAIDTYAQGIEVAREEGTQ   77 (100)
T ss_dssp             HHHHHHHHHHHHHHHHSCH
T ss_pred             HHHHHHHHHHhhhhcCCch
Confidence            9999999999998865543

>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=98.96  E-value=1.3e-09  Score=93.37  Aligned_cols=99  Identities=12%  Similarity=0.163  Sum_probs=89.9

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ....+...|..++..|+|++|+..|.++++++|+++.++.++|.++..+|++                       ++|+.
T Consensus        46 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~-----------------------~~A~~  102 (166)
T 1a17_A           46 NAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKF-----------------------RAALR  102 (166)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhccH-----------------------HHHHH
Confidence            3667888999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHH--HHHHhHHHHHHHHHhccccC
Q 012162          101 DAEKLLNLQSNSMKSHLLKANA--LILLERYDMARDAILSGLQV  142 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~--~~~~~~~~~A~~~~~~al~~  142 (469)
                      .++++++++|++..++..++.+  +...|++++|+..+.++..+
T Consensus       103 ~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  146 (166)
T 1a17_A          103 DYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRSV  146 (166)
T ss_dssp             HHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHHH
Confidence            9999999999999988555554  88899999999999876543

>1e4u_A Transcriptional repressor NOT4; gene regulation, transcriptional control; NMR {Homo sapiens} SCOP: g.44.1.1 PDB: 1ur6_B

Probab=98.96  E-value=4.2e-10  Score=84.27  Aligned_cols=50  Identities=30%  Similarity=0.687  Sum_probs=40.2

Q ss_pred             Ccccccccccccccc--ccEEcc--CCCcccHHHHHHHccc-CCCcccccccccc
Q 012162          174 RTDDFDCTLCLKLLY--EPITTP--CGHSFCRSCLFQSMDR-GNKCPLCRAVLFI  223 (469)
Q Consensus       174 ~~~~~~C~ic~~~~~--~p~~~~--cgh~~C~~Ci~~~~~~-~~~CP~Cr~~~~~  223 (469)
                      ..+.+.|+||++.+.  +++.++  |||+||+.|+..++.. ...||.||+++..
T Consensus         8 ~~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~   62 (78)
T 1e4u_A            8 KEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE   62 (78)
T ss_dssp             CCCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSS
T ss_pred             cccCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCC
Confidence            457789999999874  445555  9999999999998854 4689999998753

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.95  E-value=9.3e-10  Score=104.97  Aligned_cols=106  Identities=12%  Similarity=-0.091  Sum_probs=95.6

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC------cccccchhHHHHHH-HhhhccCCCCCcccCccCCCCCch
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD------PIVLGNRSSAYIRI-SQFLKHRPPSASEYRPLNGLDPTT   93 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~------~~~~~~~a~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~   93 (469)
                      .+..+.+.|..+...|+|++|+.+|++|+++.|..      +.++.++|.+|... |++                     
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            36788899999999999999999999999998764      45788999999995 999                     


Q ss_pred             hHHHHHHHHHHHhhccccc------hHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchh
Q 012162           94 HAELALKDAEKLLNLQSNS------MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  149 (469)
Q Consensus        94 ~~~~A~~~~~~al~l~p~~------~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~  149 (469)
                        ++|+..+++|+++.|..      ..++..+|.+|..+|+|++|+..|+++++++|++...
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              99999999999998865      5679999999999999999999999999999987653

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=98.94  E-value=1.7e-09  Score=109.72  Aligned_cols=117  Identities=10%  Similarity=0.042  Sum_probs=100.6

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcC---------CCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCc
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNI---------KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPT   92 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~---------~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (469)
                      +..+...|..++..|+|++|+..|++|+++         +|.....|.++|.+|..+|++                    
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            566778999999999999999999999986         566677899999999999999                    


Q ss_pred             hhHHHHHHHHHHHhhcc--------ccchHHHHHHHHHHHHH--hHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhh
Q 012162           93 THAELALKDAEKLLNLQ--------SNSMKSHLLKANALILL--ERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  161 (469)
Q Consensus        93 ~~~~~A~~~~~~al~l~--------p~~~~~~~~~g~~~~~~--~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~  161 (469)
                         ++|+..+++++++.        +..+.++..+|.++...  ++|++|+..|++|++++|+++.+...+..+-..+.
T Consensus       111 ---~~A~~~~~ka~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l~  186 (472)
T 4g1t_A          111 ---SDVQIYVDKVKHVCEKFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYRLD  186 (472)
T ss_dssp             ---HHHHHHHHHHHHHHHHSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHH
T ss_pred             ---HHHHHHHHHHHHHhHhcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhc
Confidence               99999999999874        35678899999888665  58999999999999999999998877766644443

>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=98.91  E-value=2.1e-09  Score=102.07  Aligned_cols=107  Identities=7%  Similarity=0.036  Sum_probs=91.2

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ++..+...|..++..|+|++|+..|++|++++|+++.+++++|.+|..+|++                       ++|+.
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            4677889999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchH-----HH--------------------------HHHHHHHHHHhHHHHHHHHHhccccCCCCCchh
Q 012162          101 DAEKLLNLQSNSMK-----SH--------------------------LLKANALILLERYDMARDAILSGLQVDPFSNPL  149 (469)
Q Consensus       101 ~~~~al~l~p~~~~-----~~--------------------------~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~  149 (469)
                      .++++++++|+++.     ++                          ..++.  ...|++++|++.|+++++++|++...
T Consensus        94 ~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~--l~~~~~~~A~~~~~~al~~~p~~~~~  171 (281)
T 2c2l_A           94 NLQRAYSLAKEQRLNFGDDIPSALRIAKKKRWNSIEERRIHQESELHSYLTR--LIAAERERELEECQRNHEGHEDDGHI  171 (281)
T ss_dssp             HHHHHHHHHHHTTCCCCSHHHHHHHHHHHHHHHHHHHTCCCCCCHHHHHHHH--HHHHHHHHHHTTTSGGGTTTSCHHHH
T ss_pred             HHHHHHHhCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHH--HHHHHHHHHHHHHHhhhccccchhhh
Confidence            99999999997631     11                          11122  24789999999999999999987655


Q ss_pred             HHH
Q 012162          150 QAS  152 (469)
Q Consensus       150 ~~~  152 (469)
                      ...
T Consensus       172 ~~~  174 (281)
T 2c2l_A          172 RAQ  174 (281)
T ss_dssp             THH
T ss_pred             hhH
Confidence            443

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=98.90  E-value=3.5e-09  Score=101.66  Aligned_cols=115  Identities=12%  Similarity=-0.054  Sum_probs=72.9

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcc-cccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPI-VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ...+...|..+...|++++|+..|+++++++|.++. +|.++|.++.+.|++                       ++|..
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            345556666666666777777777777777666665 666666666666666                       66666


Q ss_pred             HHHHHhhccccchHHHHHHHHHHH-HHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHh
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALI-LLERYDMARDAILSGLQVDPFSNPLQASLQNLERT  159 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~-~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~  159 (469)
                      .++++++.+|.+..+|...|.... ..|++++|+..|+++++++|++..+...+..+...
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            677777666666666554444432 25666677777777766666666665555544443

>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=98.90  E-value=3.3e-10  Score=80.50  Aligned_cols=53  Identities=19%  Similarity=0.212  Sum_probs=45.2

Q ss_pred             ccccccccccccccEEc-cCCCcccHHHHHHHcccCCCccccccccccCCCcccCc
Q 012162          177 DFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVS  231 (469)
Q Consensus       177 ~~~C~ic~~~~~~p~~~-~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~  231 (469)
                      .+.|+||++.|.+||.+ +|||+||+.||.+|+..+..||.+++++..  .++.++
T Consensus         3 ~~~CpIs~~~m~dPV~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~--~~Lip~   56 (61)
T 2bay_A            3 HMLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSI--EEIVEI   56 (61)
T ss_dssp             -CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCG--GGCEEC
T ss_pred             eEEecCCCCCCCCCEEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCCh--hhcEEC
Confidence            47899999999999999 999999999999999877789999999853  344443

>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=98.90  E-value=1.5e-09  Score=111.65  Aligned_cols=110  Identities=15%  Similarity=0.125  Sum_probs=68.4

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      +..+...|..++..|++++|+..|+++++.+|+ +.++..+|.++...|++                       ++|+..
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            445566666666666666666666666666666 56666666666666666                       666666


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHH
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  155 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~  155 (469)
                      ++++++++|+++.+++.+|.++...|++++|+..|+++++++|++..+...+..
T Consensus       299 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~  352 (537)
T 3fp2_A          299 FQKAVDLNPEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPENVYPYIQLAC  352 (537)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCSHHHHHHHH
T ss_pred             HHHHhccCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            666666666666666666666666666666666666666666665555444433

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=98.90  E-value=1.8e-09  Score=112.79  Aligned_cols=112  Identities=19%  Similarity=0.210  Sum_probs=98.3

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcC------CCCC-cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchh
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNI------KPGD-PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH   94 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~------~p~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (469)
                      ...+...|..+.+.|++++|+..|+++++.      +|++ ..+|..+|.+|...|++                      
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            456777888888888888888888888887      4543 56788888888888888                      


Q ss_pred             HHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHH
Q 012162           95 AELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  156 (469)
Q Consensus        95 ~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~  156 (469)
                       ++|+..++++++++|+++.+|+.+|.+|...|++++|+..|+++++++|++..+...+..+
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             9999999999999999999999999999999999999999999999999999887776654

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.89  E-value=5.7e-10  Score=108.97  Aligned_cols=104  Identities=12%  Similarity=0.024  Sum_probs=60.0

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHH
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  102 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~  102 (469)
                      ..+.+.|..+++.|+|++|+.+|++|++++|+++.+|+++|.+|..+|+|                       ++|+.++
T Consensus       231 ~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~-----------------------~~A~~~l  287 (338)
T 2if4_A          231 PCHLNIAACLIKLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQM-----------------------DSARDDF  287 (338)
T ss_dssp             HHHHHHHHHHHTTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCH-----------------------HHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH-----------------------HHHHHHH
Confidence            36788999999999999999999999999999999999999999999999                       9999999


Q ss_pred             HHHhhccccchHHHHHHHHHH-HHHhHHHHHHHHHhccccCCCCCchh
Q 012162          103 EKLLNLQSNSMKSHLLKANAL-ILLERYDMARDAILSGLQVDPFSNPL  149 (469)
Q Consensus       103 ~~al~l~p~~~~~~~~~g~~~-~~~~~~~~A~~~~~~al~~~p~~~~~  149 (469)
                      +++++++|++..++..++.+. ...+.++++...|.+++..+|+++..
T Consensus       288 ~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a~~~~~~~l~~~p~~~~~  335 (338)
T 2if4_A          288 RKAQKYAPDDKAIRRELRALAEQEKALYQKQKEMYKGIFKGKDEGGAK  335 (338)
T ss_dssp             HHTTC-------------------------------------------
T ss_pred             HHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCCC
Confidence            999999999999999999984 56778889999999999999987653

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=98.88  E-value=7e-09  Score=99.53  Aligned_cols=114  Identities=10%  Similarity=-0.011  Sum_probs=99.9

Q ss_pred             hhHHHHHHhHHHHHH-------hccH-------HHHHHHHHHHhc-CCCCCcccccchhHHHHHHHhhhccCCCCCcccC
Q 012162           20 THVFDLVQKGNRAFR-------ESNF-------EEAISNYSRANN-IKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYR   84 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~-------~~~~-------~~A~~~y~~al~-~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   84 (469)
                      ..+..+...|..+..       .|++       ++|+..|++|++ ++|++..+|.++|.++...|++            
T Consensus        48 ~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~~~~------------  115 (308)
T 2ond_A           48 HHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKY------------  115 (308)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCH------------
T ss_pred             CCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCH------------
Confidence            345667777777653       4776       999999999999 7999999999999999999999            


Q ss_pred             ccCCCCCchhHHHHHHHHHHHhhccccchH-HHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHH
Q 012162           85 PLNGLDPTTHAELALKDAEKLLNLQSNSMK-SHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  156 (469)
Q Consensus        85 ~~~~~~~~~~~~~A~~~~~~al~l~p~~~~-~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~  156 (469)
                                 ++|...++++++++|+++. +|..+|.++...|++++|+..|++|++.+|.+..+......+
T Consensus       116 -----------~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~a~~  177 (308)
T 2ond_A          116 -----------EKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALM  177 (308)
T ss_dssp             -----------HHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTCCTHHHHHHHHH
T ss_pred             -----------HHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence                       9999999999999999987 999999999999999999999999999999887665444333

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=98.87  E-value=2.3e-09  Score=90.56  Aligned_cols=104  Identities=12%  Similarity=0.071  Sum_probs=94.6

Q ss_pred             ccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHH---hhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhcc-c-
Q 012162           36 SNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRIS---QFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQ-S-  110 (469)
Q Consensus        36 ~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~-p-  110 (469)
                      .....+...|.++++.+|.+..+.++.|+++.+.+   ++                       .+++..++.+++.+ | 
T Consensus        12 ~~l~~~~~~y~~e~~~~~~~~~~~F~ya~~Lv~S~~~~~~-----------------------~~gI~lLe~ll~~~~p~   68 (152)
T 1pc2_A           12 EDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRSKYNDDI-----------------------RKGIVLLEELLPKGSKE   68 (152)
T ss_dssp             HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHTCSSHHHH-----------------------HHHHHHHHHHHHHSCHH
T ss_pred             HHHHHHHHHHHHHHccCCCcHHHHHHHHHHHHcCCCHHHH-----------------------HHHHHHHHHHHhcCCcc
Confidence            44567778899999989999999999999999876   56                       89999999999999 7 


Q ss_pred             cchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhh
Q 012162          111 NSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus       111 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                      ++.+++|++|.+++++|+|++|+.+++++|+++|+|..+....+.+++++.+
T Consensus        69 ~~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~ieP~n~QA~~Lk~~ie~~~~k  120 (152)
T 1pc2_A           69 EQRDYVFYLAVGNYRLKEYEKALKYVRGLLQTEPQNNQAKELERLIDKAMKK  120 (152)
T ss_dssp             HHHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHH
Confidence            6799999999999999999999999999999999999999999999988865

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=98.87  E-value=2.2e-09  Score=109.60  Aligned_cols=114  Identities=15%  Similarity=0.046  Sum_probs=103.0

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcc------cccchhHHHHH---HHhhhccCCCCCcccCccCCCCCc
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPI------VLGNRSSAYIR---ISQFLKHRPPSASEYRPLNGLDPT   92 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~------~~~~~a~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~   92 (469)
                      ...+...|..++..|++++|+..|+++++.+|+++.      ++.++|.++..   .|++                    
T Consensus       372 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~--------------------  431 (514)
T 2gw1_A          372 PEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENF--------------------  431 (514)
T ss_dssp             SHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHH--------------------
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCH--------------------
Confidence            456777889999999999999999999999888866      88899999999   9999                    


Q ss_pred             hhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHH
Q 012162           93 THAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  158 (469)
Q Consensus        93 ~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~  158 (469)
                         ++|+..++++++++|+++.+++.+|.+|...|++++|+..|+++++++|++..+...+...+.
T Consensus       432 ---~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~  494 (514)
T 2gw1_A          432 ---IEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFEESADLARTMEEKLQAITFAEA  494 (514)
T ss_dssp             ---HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSHHHHHHHHHHHHH
T ss_pred             ---HHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhccccHHHHHHHHHHHH
Confidence               999999999999999999999999999999999999999999999999999988776655444

>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=98.86  E-value=4.7e-09  Score=93.69  Aligned_cols=98  Identities=12%  Similarity=0.020  Sum_probs=84.4

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ...+...|..++..|+|++|+..|+++++++|+++.+++++|.+|..+|++                       ++|+..
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            467889999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHHHHH-HHHhccccC
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMAR-DAILSGLQV  142 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~-~~~~~al~~  142 (469)
                      ++++++++|++..++..++.++..+++++++. ..|.+.+..
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            99999999999999999999999999999987 555555543

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus}

Probab=98.86  E-value=7.2e-10  Score=92.74  Aligned_cols=49  Identities=35%  Similarity=0.864  Sum_probs=44.8

Q ss_pred             cccccccccccccccc-------EEccCCCcccHHHHHHHcccCCCcccccccccc
Q 012162          175 TDDFDCTLCLKLLYEP-------ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFI  223 (469)
Q Consensus       175 ~~~~~C~ic~~~~~~p-------~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~~  223 (469)
                      .+.+.|+||++.+.+|       +.++|||+||..||.+|+.....||.||+.+..
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   60 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   60 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTT
T ss_pred             CCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCcc
Confidence            3567999999999999       899999999999999999988899999998843

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.85  E-value=4.8e-09  Score=90.38  Aligned_cols=92  Identities=12%  Similarity=-0.034  Sum_probs=82.2

Q ss_pred             hhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHH
Q 012162           18 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL   97 (469)
Q Consensus        18 ~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (469)
                      ....+..+...|..++..|+|++|+..|++|++++|+++.+|+++|.+|..+|+|                       ++
T Consensus        59 ~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~-----------------------~~  115 (162)
T 3rkv_A           59 DRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKL-----------------------DE  115 (162)
T ss_dssp             HHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCH-----------------------HH
T ss_pred             HHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcH-----------------------HH
Confidence            3445678899999999999999999999999999999999999999999999999                       99


Q ss_pred             HHHHHHHHhhccccch-HHHHHHHHHHHHHhHHHHH
Q 012162           98 ALKDAEKLLNLQSNSM-KSHLLKANALILLERYDMA  132 (469)
Q Consensus        98 A~~~~~~al~l~p~~~-~~~~~~g~~~~~~~~~~~A  132 (469)
                      |+.+++++++++|+++ .+...++.+....+++.++
T Consensus       116 A~~~~~~al~l~p~~~~~~~~~l~~~~~~~~~~~~~  151 (162)
T 3rkv_A          116 AEEDLKLLLRNHPAAASVVAREMKIVTERRAEKKAD  151 (162)
T ss_dssp             HHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999998 6677778777776666543

>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=98.85  E-value=5.8e-09  Score=108.87  Aligned_cols=118  Identities=6%  Similarity=-0.097  Sum_probs=108.0

Q ss_pred             hhHHHHHHhHHHHHHhcc----------HHHHHHHHHHHhcCCCCCcccccchhHHHHHHH--hhhccCCCCCcccCccC
Q 012162           20 THVFDLVQKGNRAFRESN----------FEEAISNYSRANNIKPGDPIVLGNRSSAYIRIS--QFLKHRPPSASEYRPLN   87 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~----------~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~--~~~~~~~~~~~~~~~~~   87 (469)
                      +...+|..+|..+...|+          +++|+..|+++++.+|++..+|+.|+.++.+++  +|               
T Consensus        61 ~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK~y~aW~hR~w~l~~l~~~~~---------------  125 (567)
T 1dce_A           61 DFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNW---------------  125 (567)
T ss_dssp             TCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCSSCCH---------------
T ss_pred             hhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccccH---------------
Confidence            446778889999988888          999999999999999999999999999999999  77               


Q ss_pred             CCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHh-HHHHHHHHHhccccCCCCCchhHHHHHHHHHhh
Q 012162           88 GLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLE-RYDMARDAILSGLQVDPFSNPLQASLQNLERTT  160 (469)
Q Consensus        88 ~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~-~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~  160 (469)
                              ++|+..++++++++|++..||..+|.++..+| .+++|+++++++++.+|.|..++.....+-..+
T Consensus       126 --------~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l  191 (567)
T 1dce_A          126 --------ARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQL  191 (567)
T ss_dssp             --------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHH
T ss_pred             --------HHHHHHHHHHHhhccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhh
Confidence                    99999999999999999999999999999999 999999999999999999998877766654443

>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=98.84  E-value=4.9e-09  Score=106.69  Aligned_cols=97  Identities=13%  Similarity=0.141  Sum_probs=85.6

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      +..+.++|..+++.|+|++|+..|++|++++|+++.+|+++|.+|+.+|+|                       ++|+.+
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            678889999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHHHHHH-HHhcccc
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMARD-AILSGLQ  141 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~-~~~~al~  141 (469)
                      ++++++++|++..++..+|.++..+|++++|.. .|.+.+.
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

>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=98.84  E-value=2e-09  Score=87.50  Aligned_cols=46  Identities=28%  Similarity=0.653  Sum_probs=39.3

Q ss_pred             ccccccccccccccE------------------EccCCCcccHHHHHHHcc-----cCCCccccccccc
Q 012162          177 DFDCTLCLKLLYEPI------------------TTPCGHSFCRSCLFQSMD-----RGNKCPLCRAVLF  222 (469)
Q Consensus       177 ~~~C~ic~~~~~~p~------------------~~~cgh~~C~~Ci~~~~~-----~~~~CP~Cr~~~~  222 (469)
                      +..|+||++.|.+|.                  .++|||.||..||..|+.     ....||+||..+.
T Consensus        25 ~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~   93 (114)
T 1v87_A           25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYG   93 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSS
T ss_pred             CCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccC
Confidence            458999999997764                  689999999999999994     4568999999874

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=98.84  E-value=6.6e-09  Score=108.53  Aligned_cols=115  Identities=11%  Similarity=0.066  Sum_probs=93.3

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ....+...|..+.+.|++++|+..|+++++++|++..+|..+|.+|.+.|++                       ++|+.
T Consensus       372 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-----------------------~~A~~  428 (597)
T 2xpi_A          372 KAVTWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEH-----------------------DQAIS  428 (597)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH-----------------------HHHHH
T ss_pred             cHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH-----------------------HHHHH
Confidence            3556667788888888888888888888888888888888888888888888                       88888


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHH
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  158 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~  158 (469)
                      .++++++.+|++..+++.+|.+|...|++++|+..|+++++++|++..+...+..+-.
T Consensus       429 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  486 (597)
T 2xpi_A          429 AYTTAARLFQGTHLPYLFLGMQHMQLGNILLANEYLQSSYALFQYDPLLLNELGVVAF  486 (597)
T ss_dssp             HHHHHHHTTTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHhCccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHH
Confidence            8888888888888888888888888888888888888888888887776655544433

>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=98.83  E-value=7.1e-10  Score=91.93  Aligned_cols=71  Identities=14%  Similarity=0.084  Sum_probs=66.4

Q ss_pred             cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHH
Q 012162           56 PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDA  135 (469)
Q Consensus        56 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~  135 (469)
                      +.++.++|.++++.|+|                       ++|+..|++|++++|+++.+|+++|.+|..+|+|++|+..
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            45677899999999999                       9999999999999999999999999999999999999999


Q ss_pred             HhccccCCCCCchh
Q 012162          136 ILSGLQVDPFSNPL  149 (469)
Q Consensus       136 ~~~al~~~p~~~~~  149 (469)
                      |+++++++|++...
T Consensus        65 ~~~al~~~~~~~~~   78 (127)
T 4gcn_A           65 CEKAVEVGRETRAD   78 (127)
T ss_dssp             HHHHHHHHHHTTCC
T ss_pred             HHHHHHhCcccchh
Confidence            99999999987653

>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=98.83  E-value=1.5e-09  Score=101.28  Aligned_cols=119  Identities=14%  Similarity=0.037  Sum_probs=101.7

Q ss_pred             hhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcC--------CCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCC
Q 012162           19 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNI--------KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLD   90 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~--------~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (469)
                      ...+..+...|..++..|+|++|+..|.+++++        +|....++.++|.+|...|++                  
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            345778889999999999999999999999987        466678999999999999999                  


Q ss_pred             CchhHHHHHHHHHHHhhc--------cccchHHHHHHHHHHHHHhHHHHHHHHHhccccC--------CCCCchhHHHHH
Q 012162           91 PTTHAELALKDAEKLLNL--------QSNSMKSHLLKANALILLERYDMARDAILSGLQV--------DPFSNPLQASLQ  154 (469)
Q Consensus        91 ~~~~~~~A~~~~~~al~l--------~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--------~p~~~~~~~~~~  154 (469)
                           ++|+..+++++++        +|....+++.+|.+|..+|++++|+..|++++++        +|....+...+.
T Consensus       102 -----~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la  176 (283)
T 3edt_B          102 -----KEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLA  176 (283)
T ss_dssp             -----HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHH
T ss_pred             -----HHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHH
Confidence                 9999999999998        5888999999999999999999999999999998        554445555554


Q ss_pred             HHHHhh
Q 012162          155 NLERTT  160 (469)
Q Consensus       155 ~~~~~~  160 (469)
                      .+....
T Consensus       177 ~~~~~~  182 (283)
T 3edt_B          177 SCYLKQ  182 (283)
T ss_dssp             HHHHHH
T ss_pred             HHHHHc
Confidence            444333

>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=98.83  E-value=1.8e-09  Score=88.66  Aligned_cols=86  Identities=13%  Similarity=0.050  Sum_probs=77.1

Q ss_pred             CCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHH
Q 012162           54 GDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMAR  133 (469)
Q Consensus        54 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~  133 (469)
                      ..+..+..+|..++..|+|                       ++|+..++++++++|+++.+|+.+|.++..+|+|++|+
T Consensus         2 ~~a~~~~~~g~~~~~~~~~-----------------------~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~   58 (126)
T 3upv_A            2 MKAEEARLEGKEYFTKSDW-----------------------PNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAI   58 (126)
T ss_dssp             HHHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             chHHHHHHHHHHHHHhcCH-----------------------HHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHH
Confidence            3456788899999999999                       99999999999999999999999999999999999999


Q ss_pred             HHHhccccCCCCCchhHHHHHHHHHhhhh
Q 012162          134 DAILSGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus       134 ~~~~~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                      ..|+++++++|++..+...+..+...+++
T Consensus        59 ~~~~~al~~~p~~~~~~~~lg~~~~~~~~   87 (126)
T 3upv_A           59 ADCNKAIEKDPNFVRAYIRKATAQIAVKE   87 (126)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHHhC
Confidence            99999999999999887777666555443

>4ic3_A E3 ubiquitin-protein ligase XIAP; ring domain, zinc-finger, E3 ligase; 1.78A {Homo sapiens} PDB: 4ic2_A

Probab=98.83  E-value=7.5e-10  Score=82.37  Aligned_cols=43  Identities=30%  Similarity=0.839  Sum_probs=39.2

Q ss_pred             cccccccccccccccEEccCCCc-ccHHHHHHHcccCCCccccccccc
Q 012162          176 DDFDCTLCLKLLYEPITTPCGHS-FCRSCLFQSMDRGNKCPLCRAVLF  222 (469)
Q Consensus       176 ~~~~C~ic~~~~~~p~~~~cgh~-~C~~Ci~~~~~~~~~CP~Cr~~~~  222 (469)
                      +...|+||++.+.+|+.+||||+ ||..|+..|    ..||.||.++.
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            45689999999999999999999 999999887    68999999874

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.83  E-value=4.1e-09  Score=83.59  Aligned_cols=87  Identities=21%  Similarity=0.154  Sum_probs=80.6

Q ss_pred             CCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHH
Q 012162           51 IKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYD  130 (469)
Q Consensus        51 ~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~  130 (469)
                      ++|+++.++..+|.+++..|++                       ++|+..++++++++|++..+++.+|.++..+|+++
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 012162          131 MARDAILSGLQVDPF--SNPLQASLQNLERTT  160 (469)
Q Consensus       131 ~A~~~~~~al~~~p~--~~~~~~~~~~~~~~~  160 (469)
                      +|+..|+++++++|+  +..+...+..+...+
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  888777776666555

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.82  E-value=2.3e-09  Score=82.20  Aligned_cols=83  Identities=22%  Similarity=0.266  Sum_probs=75.9

Q ss_pred             CCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHH
Q 012162           54 GDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMAR  133 (469)
Q Consensus        54 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~  133 (469)
                      .++.+++++|.++...|++                       ++|+..++++++++|+++.+++.+|.++...|++++|+
T Consensus         7 ~~~~~~~~la~~~~~~~~~-----------------------~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~   63 (91)
T 1na3_A            7 NSAEAWYNLGNAYYKQGDY-----------------------DEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAI   63 (91)
T ss_dssp             HHHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             ccHHHHHHHHHHHHHccCH-----------------------HHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHH
Confidence            3567888999999999999                       99999999999999999999999999999999999999


Q ss_pred             HHHhccccCCCCCchhHHHHHHHHHh
Q 012162          134 DAILSGLQVDPFSNPLQASLQNLERT  159 (469)
Q Consensus       134 ~~~~~al~~~p~~~~~~~~~~~~~~~  159 (469)
                      ..|+++++++|++..+...+..+...
T Consensus        64 ~~~~~a~~~~p~~~~~~~~l~~~~~~   89 (91)
T 1na3_A           64 EYYQKALELDPNNAEAKQNLGNAKQK   89 (91)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCHHHHHHHHHHHHh
Confidence            99999999999999888777666543

>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=98.82  E-value=6.3e-09  Score=108.59  Aligned_cols=119  Identities=10%  Similarity=-0.045  Sum_probs=109.1

Q ss_pred             hhhHHHHHHhHHHHHHhc--cHHHHHHHHHHHhcCCCCCcccccchhHHHHHHH-hhhccCCCCCcccCccCCCCCchhH
Q 012162           19 YTHVFDLVQKGNRAFRES--NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRIS-QFLKHRPPSASEYRPLNGLDPTTHA   95 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~--~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~   95 (469)
                      .+...+|..+|..+.+.|  +|++|++.++++++++|.+..+|.+|+.+...++ .+                       
T Consensus       104 pK~y~aW~hR~w~l~~l~~~~~~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~~~-----------------------  160 (567)
T 1dce_A          104 PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAP-----------------------  160 (567)
T ss_dssp             TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCH-----------------------
T ss_pred             CCCHHHHHHHHHHHHHcccccHHHHHHHHHHHHhhccccccHHHHHHHHHHHcCCCh-----------------------
Confidence            345778889999999999  7799999999999999999999999999999999 78                       


Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHH--------------hHHHHHHHHHhccccCCCCCchhHHHHHHHHHhh
Q 012162           96 ELALKDAEKLLNLQSNSMKSHLLKANALILL--------------ERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  160 (469)
Q Consensus        96 ~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~--------------~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~  160 (469)
                      ++++++++++++.+|++..||+.+|.++..+              +.+++|++++.+|+.++|+|..++..+.-+-...
T Consensus       161 ~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~~~~~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~  239 (567)
T 1dce_A          161 AEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRA  239 (567)
T ss_dssp             HHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHHCCCCccHHHHHHHHHHhhcccccccccccccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcC
Confidence            9999999999999999999999999999886              8899999999999999999999998887765543

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.81  E-value=5.9e-09  Score=82.98  Aligned_cols=84  Identities=20%  Similarity=0.164  Sum_probs=74.2

Q ss_pred             cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHH
Q 012162           56 PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDA  135 (469)
Q Consensus        56 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~  135 (469)
                      +.++.++|.+++..|+|                       ++|+..++++++++|+++.+++.+|.++..+|++++|+..
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            45678899999999999                       9999999999999999999999999999999999999999


Q ss_pred             HhccccCCCCC------chhHHHHHHHHHhhhh
Q 012162          136 ILSGLQVDPFS------NPLQASLQNLERTTAS  162 (469)
Q Consensus       136 ~~~al~~~p~~------~~~~~~~~~~~~~~~~  162 (469)
                      |+++++++|++      ..+...+..+...++.
T Consensus        61 ~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~   93 (111)
T 2l6j_A           61 CQQGLRYTSTAEHVAIRSKLQYRLELAQGAVGS   93 (111)
T ss_dssp             HHHHHTSCSSTTSHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHh
Confidence            99999999998      5555555555555553

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.80  E-value=5.5e-09  Score=84.88  Aligned_cols=90  Identities=10%  Similarity=0.018  Sum_probs=79.7

Q ss_pred             hhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHH
Q 012162           18 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL   97 (469)
Q Consensus        18 ~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (469)
                      ....+..+...|..++..|+|++|+..|+++++++|+++.+++++|.++..+|++                       ++
T Consensus        23 ~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~-----------------------~~   79 (117)
T 3k9i_A           23 GKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRY-----------------------EQ   79 (117)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH-----------------------HH
T ss_pred             CccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCH-----------------------HH
Confidence            3456788999999999999999999999999999999999999999999999999                       99


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhcccc
Q 012162           98 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQ  141 (469)
Q Consensus        98 A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~  141 (469)
                      |+..++++++++|+++...           .|..|+..|.+.+.
T Consensus        80 A~~~~~~al~~~p~~~~~~-----------~~~~ai~~~~~~l~  112 (117)
T 3k9i_A           80 GVELLLKIIAETSDDETIQ-----------SYKQAILFYADKLD  112 (117)
T ss_dssp             HHHHHHHHHHHHCCCHHHH-----------HTHHHHHHHTTCTT
T ss_pred             HHHHHHHHHHhCCCcHHHH-----------HHHHHHHHHHHHHH
Confidence            9999999999999997653           45666776666553

>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=98.79  E-value=1.6e-08  Score=100.01  Aligned_cols=94  Identities=14%  Similarity=0.178  Sum_probs=88.7

Q ss_pred             hhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHH
Q 012162           19 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA   98 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A   98 (469)
                      ...+..+...|..+++.|+|++|+.+|++|++++|+++.+|+++|.+|..+|+|                       ++|
T Consensus       270 ~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~-----------------------~eA  326 (370)
T 1ihg_A          270 PVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEY-----------------------DQA  326 (370)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCH-----------------------HHH
T ss_pred             HHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCH-----------------------HHH
Confidence            345678889999999999999999999999999999999999999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHH
Q 012162           99 LKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDA  135 (469)
Q Consensus        99 ~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~  135 (469)
                      +.++++|++++|++..++..++.++..++++++|...
T Consensus       327 ~~~l~~Al~l~P~~~~~~~~l~~~~~~~~~~~~a~k~  363 (370)
T 1ihg_A          327 LADLKKAQEIAPEDKAIQAELLKVKQKIKAQKDKEKA  363 (370)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999988654

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=98.79  E-value=9.9e-09  Score=79.99  Aligned_cols=86  Identities=13%  Similarity=0.075  Sum_probs=72.0

Q ss_pred             CCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHH
Q 012162           52 KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDM  131 (469)
Q Consensus        52 ~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~  131 (469)
                      +|+++.++..+|.+++..++-                    ...++|...++++++++|+++.+++.+|.+++..|+|++
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            688999999999999766551                    001899999999999999999999999999999999999


Q ss_pred             HHHHHhccccCCCCCchhHHHHHHHH
Q 012162          132 ARDAILSGLQVDPFSNPLQASLQNLE  157 (469)
Q Consensus       132 A~~~~~~al~~~p~~~~~~~~~~~~~  157 (469)
                      |+..|+++++.+|.++........+.
T Consensus        62 Ai~~w~~~l~~~p~~~~~~~i~~~I~   87 (93)
T 3bee_A           62 AIDTWVLLLDSNDPNLDRVTIIESIN   87 (93)
T ss_dssp             HHHHHHHHHTCCCTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHhhCCCCccHHHHHHHHH
Confidence            99999999999999655443333333

>2ecl_A Ring-box protein 2; RNF7, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.79  E-value=3e-09  Score=80.60  Aligned_cols=47  Identities=26%  Similarity=0.661  Sum_probs=40.2

Q ss_pred             cccccccccccccc--------------cEEc-cCCCcccHHHHHHHcccCCCccccccccc
Q 012162          176 DDFDCTLCLKLLYE--------------PITT-PCGHSFCRSCLFQSMDRGNKCPLCRAVLF  222 (469)
Q Consensus       176 ~~~~C~ic~~~~~~--------------p~~~-~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~  222 (469)
                      +...|+||++.+.+              ++.+ +|||.||..||.+|+.....||+||+++.
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   75 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWV   75 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCC
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcc
Confidence            45579999998876              4455 59999999999999998889999999874

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.78  E-value=7.8e-09  Score=84.25  Aligned_cols=86  Identities=16%  Similarity=0.135  Sum_probs=81.7

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ....+...|..++..|++++|+..|.++++.+|+++.++..+|.++..+|++                       ++|+.
T Consensus        45 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------------~~A~~  101 (131)
T 2vyi_A           45 NAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLALSSLNKH-----------------------VEAVA  101 (131)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             CHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHHHHHhCCH-----------------------HHHHH
Confidence            3567788999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHhHH
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERY  129 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~  129 (469)
                      .++++++++|+++.+++.+|.++..+|++
T Consensus       102 ~~~~~~~~~p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A          102 YYKKALELDPDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHHHHHHSTTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhcCccchHHHHHHHHHHHHHhcC
Confidence            99999999999999999999999998875

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.78  E-value=7.6e-09  Score=84.84  Aligned_cols=83  Identities=11%  Similarity=0.006  Sum_probs=74.9

Q ss_pred             ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHH
Q 012162           57 IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAI  136 (469)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~  136 (469)
                      ..++.+|.+++..|++                       ++|+..++++++++|+++.+|+.+|.++..+|++++|+..|
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            4567889999999999                       99999999999999999999999999999999999999999


Q ss_pred             hccccCCCCCchhHHHHHHHHHhhhh
Q 012162          137 LSGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus       137 ~~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                      +++++++|++..+...+..+....+.
T Consensus        75 ~~al~l~P~~~~~~~~la~~~~~~g~  100 (121)
T 1hxi_A           75 NHARMLDPKDIAVHAALAVSHTNEHN  100 (121)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCCHHHHHHHHHHHHHcCC
Confidence            99999999999888777665554443

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=98.78  E-value=5.6e-09  Score=103.66  Aligned_cols=121  Identities=17%  Similarity=0.195  Sum_probs=103.7

Q ss_pred             hhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc----ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchh
Q 012162           19 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH   94 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (469)
                      ...+..+...|..++..|+|++|+..|+++++++|+++    .++..+|.+|..+|++                      
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            46678888999999999999999999999999999987    5889999999999999                      


Q ss_pred             HHHHHHHHHHHhhc------cccchHHHHHHHHHHHHHhHHHHHHHHHhccccCC------CCCchhHHHHHHHHHhhhh
Q 012162           95 AELALKDAEKLLNL------QSNSMKSHLLKANALILLERYDMARDAILSGLQVD------PFSNPLQASLQNLERTTAS  162 (469)
Q Consensus        95 ~~~A~~~~~~al~l------~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~------p~~~~~~~~~~~~~~~~~~  162 (469)
                       ++|+..+++++++      +|....+++.+|.+|...|++++|+..|++++++.      |....+...+..+....+.
T Consensus       103 -~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~  181 (411)
T 4a1s_A          103 -NKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGK  181 (411)
T ss_dssp             -HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             -HHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCc
Confidence             9999999999998      78889999999999999999999999999999883      3333344444444444333

>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=98.76  E-value=1.1e-08  Score=87.29  Aligned_cols=72  Identities=22%  Similarity=0.291  Sum_probs=65.3

Q ss_pred             hhHHHHHHhHHHHHHhccH----------HHHHHHHHHHhcCCCCCcccccchhHHHHHHH-----------hhhccCCC
Q 012162           20 THVFDLVQKGNRAFRESNF----------EEAISNYSRANNIKPGDPIVLGNRSSAYIRIS-----------QFLKHRPP   78 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~----------~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~-----------~~~~~~~~   78 (469)
                      .+++.+...|..+...+++          ++|+..|++||+++|+++.+|+++|.+|..+|           +|      
T Consensus        34 ~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~lg~l~P~~~~a~g~~------  107 (158)
T 1zu2_A           34 LDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNF------  107 (158)
T ss_dssp             TCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHH------
T ss_pred             CCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhcccCcchhhhhccH------
Confidence            3578888999999988775          59999999999999999999999999999886           77      


Q ss_pred             CCcccCccCCCCCchhHHHHHHHHHHHhhccccchH
Q 012162           79 SASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMK  114 (469)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~  114 (469)
                                       ++|+..|++|++++|++..
T Consensus       108 -----------------~eA~~~~~kAl~l~P~~~~  126 (158)
T 1zu2_A          108 -----------------DLATQFFQQAVDEQPDNTH  126 (158)
T ss_dssp             -----------------HHHHHHHHHHHHHCTTCHH
T ss_pred             -----------------HHHHHHHHHHHHhCCCCHH
Confidence                             9999999999999999853

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.75  E-value=1.2e-08  Score=83.78  Aligned_cols=85  Identities=11%  Similarity=0.066  Sum_probs=80.4

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ....+...|..++..|++++|+..|+++++.+|+++.++.++|.++..+|++                       ++|+.
T Consensus        49 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~-----------------------~~A~~  105 (133)
T 2lni_A           49 DAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAALEAMKDY-----------------------TKAMD  105 (133)
T ss_dssp             CHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             cHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHHhhH-----------------------HHHHH
Confidence            3677888999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHhH
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLER  128 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~  128 (469)
                      .++++++++|++..+++.+|.++...|+
T Consensus       106 ~~~~~~~~~p~~~~~~~~l~~~~~~~~~  133 (133)
T 2lni_A          106 VYQKALDLDSSCKEAADGYQRCMMAQYN  133 (133)
T ss_dssp             HHHHHHHHCGGGTHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHhCCCchHHHHHHHHHHHHhcC
Confidence            9999999999999999999999987764

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.75  E-value=1.3e-08  Score=87.82  Aligned_cols=82  Identities=12%  Similarity=0.073  Sum_probs=76.6

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ++..+...|..++..|+|++|+..|+++++++|+++.+|+++|.+|..+|++                       ++|+.
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            4677889999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHH
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALIL  125 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~  125 (469)
                      .++++++++|++..+|+.+|.....
T Consensus       101 ~~~~al~~~p~~~~~~~~~~l~~~~  125 (164)
T 3sz7_A          101 AYEKGIEAEGNGGSDAMKRGLETTK  125 (164)
T ss_dssp             HHHHHHHHHSSSCCHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCchHHHHHHHHHHHH
Confidence            9999999999999988888876543

>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=98.75  E-value=3.4e-09  Score=102.83  Aligned_cols=45  Identities=33%  Similarity=0.792  Sum_probs=41.9

Q ss_pred             cccccccccccccEEccCCCcccHHHHHHHcc-cCCCccccccccc
Q 012162          178 FDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD-RGNKCPLCRAVLF  222 (469)
Q Consensus       178 ~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~-~~~~CP~Cr~~~~  222 (469)
                      ..|+||++.+.+|+.++|||.||..|+..|+. ....||.||.++.
T Consensus       333 ~~C~ICle~~~~pv~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~  378 (389)
T 2y1n_A          333 QLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIK  378 (389)
T ss_dssp             SBCTTTSSSBCCEEEETTCCEECHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCccCcCCCCeEEeCCCChhhHHHHHHHHhcCCCCCCCCCCccC
Confidence            68999999999999999999999999999998 6678999999874

>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=98.75  E-value=8.9e-09  Score=95.88  Aligned_cols=101  Identities=17%  Similarity=0.042  Sum_probs=94.1

Q ss_pred             hhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcC--------CCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCC
Q 012162           19 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNI--------KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLD   90 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~--------~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (469)
                      ...+..+...|..+...|+|++|+..|.+++++        +|....++.++|.+|..+|++                  
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            345778889999999999999999999999998        467788999999999999999                  


Q ss_pred             CchhHHHHHHHHHHHhhc--------cccchHHHHHHHHHHHHHhHHHHHHHHHhccccC
Q 012162           91 PTTHAELALKDAEKLLNL--------QSNSMKSHLLKANALILLERYDMARDAILSGLQV  142 (469)
Q Consensus        91 ~~~~~~~A~~~~~~al~l--------~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~  142 (469)
                           ++|+..+++++++        +|....++..+|.+|...|++++|+..|++++++
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=98.74  E-value=1.6e-08  Score=79.77  Aligned_cols=85  Identities=11%  Similarity=0.078  Sum_probs=72.2

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      .++..+...|..++..|+|++|+..|+++++++|+++.+|+++|.+|..+|++                       ++|+
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            34678899999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchH--HHHHHHHHHHHHh
Q 012162          100 KDAEKLLNLQSNSMK--SHLLKANALILLE  127 (469)
Q Consensus       100 ~~~~~al~l~p~~~~--~~~~~g~~~~~~~  127 (469)
                      ..+++++++.|++..  +...+...+...+
T Consensus        62 ~~~~~al~l~~~~~~~~~~~~l~~~l~~~~   91 (100)
T 3ma5_A           62 DTYAQGIEVAREEGTQKDLSELQDAKLKAE   91 (100)
T ss_dssp             HHHHHHHHHHHHHSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhhcCCchhHHHHHHHHHHHcc
Confidence            999999999876543  3334444444333

>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=98.74  E-value=3.1e-09  Score=76.47  Aligned_cols=48  Identities=23%  Similarity=0.479  Sum_probs=43.1

Q ss_pred             ccccccccccccccccEEc--cCCCc-ccHHHHHHHcccCCCccccccccc
Q 012162          175 TDDFDCTLCLKLLYEPITT--PCGHS-FCRSCLFQSMDRGNKCPLCRAVLF  222 (469)
Q Consensus       175 ~~~~~C~ic~~~~~~p~~~--~cgh~-~C~~Ci~~~~~~~~~CP~Cr~~~~  222 (469)
                      .+...|.||++...+++.+  ||||. ||..|+..+...+..||.||+++.
T Consensus         6 ~~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   56 (64)
T 2vje_A            6 NAIEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQ   56 (64)
T ss_dssp             GGGSCCTTTSSSCSCEEEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCC
T ss_pred             CCcCCCCcCCCCCCCEEEECCCCCChhhHHHHHHHHHHcCCcCCCcCcchh
Confidence            4566899999999999977  99999 899999999988889999999873

>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=98.74  E-value=3.4e-09  Score=75.97  Aligned_cols=48  Identities=25%  Similarity=0.477  Sum_probs=42.7

Q ss_pred             ccccccccccccccccEEc--cCCCc-ccHHHHHHHcccCCCccccccccc
Q 012162          175 TDDFDCTLCLKLLYEPITT--PCGHS-FCRSCLFQSMDRGNKCPLCRAVLF  222 (469)
Q Consensus       175 ~~~~~C~ic~~~~~~p~~~--~cgh~-~C~~Ci~~~~~~~~~CP~Cr~~~~  222 (469)
                      .....|+||++...+++.+  ||||. ||..|+..+...+..||.||+++.
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   55 (63)
T 2vje_B            5 NLLKPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQ   55 (63)
T ss_dssp             GGGSBCTTTSSSBSCEEEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCC
T ss_pred             CcCCCCcccCCcCCCeEEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhh
Confidence            3456899999999999887  99999 999999999888889999999873

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=98.73  E-value=1.2e-08  Score=97.25  Aligned_cols=104  Identities=20%  Similarity=0.249  Sum_probs=95.0

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc----ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE   96 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (469)
                      .+..+...|..++..|+|++|+..|+++++.+|+++    .++..+|.+|...|++                       +
T Consensus         4 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~-----------------------~   60 (338)
T 3ro2_A            4 SCLELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDY-----------------------A   60 (338)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCH-----------------------H
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCH-----------------------H
Confidence            456788999999999999999999999999999984    6888999999999999                       9


Q ss_pred             HHHHHHHHHhhc------cccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCc
Q 012162           97 LALKDAEKLLNL------QSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  147 (469)
Q Consensus        97 ~A~~~~~~al~l------~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~  147 (469)
                      +|+..+++++++      .|....+++.+|.++...|++++|+..|++++++.+...
T Consensus        61 ~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~  117 (338)
T 3ro2_A           61 KALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELN  117 (338)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhc
Confidence            999999999988      667788999999999999999999999999999877543

>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=98.73  E-value=9.8e-09  Score=98.54  Aligned_cols=103  Identities=15%  Similarity=0.165  Sum_probs=77.9

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC------cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA   95 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (469)
                      +..+...|..+.. |+|++|+.+|++|+++.|..      ..++.++|.+|..+|+|                       
T Consensus       116 a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~-----------------------  171 (307)
T 2ifu_A          116 AMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKF-----------------------  171 (307)
T ss_dssp             HHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH-----------------------
T ss_pred             HHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCH-----------------------
Confidence            5566677777777 88888888888888876653      45677788888888888                       


Q ss_pred             HHHHHHHHHHhhccccc------hHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchh
Q 012162           96 ELALKDAEKLLNLQSNS------MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  149 (469)
Q Consensus        96 ~~A~~~~~~al~l~p~~------~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~  149 (469)
                      ++|+..+++++++.|++      ..+++.+|.++..+|++++|+..|++++ ++|+....
T Consensus       172 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al-~~p~~~~~  230 (307)
T 2ifu_A          172 DEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY-SIPGFSGS  230 (307)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT-TSTTSTTS
T ss_pred             HHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh-CCCCCCCC
Confidence            88888888888876544      2367777778888888888888888888 88876543

>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=98.72  E-value=3.1e-08  Score=95.59  Aligned_cols=115  Identities=10%  Similarity=-0.041  Sum_probs=104.5

Q ss_pred             hhhHHHHHHhHHHHHHhc--cHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHh-hhccCCCCCcccCccCCCCCchhH
Q 012162           19 YTHVFDLVQKGNRAFRES--NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQ-FLKHRPPSASEYRPLNGLDPTTHA   95 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~--~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~   95 (469)
                      .++...+..++..+...|  +|++++..++++++.+|.|..+|.+|+.+...+|. +                       
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            345778888898888888  49999999999999999999999999999999887 5                       


Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHH--------------hHHHHHHHHHhccccCCCCCchhHHHHHHH
Q 012162           96 ELALKDAEKLLNLQSNSMKSHLLKANALILL--------------ERYDMARDAILSGLQVDPFSNPLQASLQNL  156 (469)
Q Consensus        96 ~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~--------------~~~~~A~~~~~~al~~~p~~~~~~~~~~~~  156 (469)
                      ++++..++++++.+|.|..||..++.++..+              +.++++++.+.+++..+|+|..+...+.-+
T Consensus       162 ~eel~~~~~~I~~~p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~l  236 (331)
T 3dss_A          162 AEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWL  236 (331)
T ss_dssp             HHHHHHHHHHHHHCSCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            8999999999999999999999999999888              789999999999999999999998765443

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.72  E-value=1.9e-08  Score=96.37  Aligned_cols=119  Identities=8%  Similarity=-0.076  Sum_probs=107.3

Q ss_pred             hhHHHHHHhHHHH----HHh---ccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCc
Q 012162           20 THVFDLVQKGNRA----FRE---SNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPT   92 (469)
Q Consensus        20 ~~~~~~~~~g~~~----~~~---~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (469)
                      +....+..++..+    ...   +++++++..++++++.+|.+..+|+.|+.+...++.+                    
T Consensus       101 k~y~aW~~R~~iL~~~~~~l~~~~~~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~--------------------  160 (306)
T 3dra_A          101 KNYQIWNYRQLIIGQIMELNNNDFDPYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLH--------------------  160 (306)
T ss_dssp             TCCHHHHHHHHHHHHHHHHTTTCCCTHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCT--------------------
T ss_pred             ccHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccc--------------------
Confidence            3456677777777    555   7899999999999999999999999999999999988                    


Q ss_pred             hhHH--HHHHHHHHHhhccccchHHHHHHHHHHHHHhH------HHHHHHHHhccccCCCCCchhHHHHHHHHHhhh
Q 012162           93 THAE--LALKDAEKLLNLQSNSMKSHLLKANALILLER------YDMARDAILSGLQVDPFSNPLQASLQNLERTTA  161 (469)
Q Consensus        93 ~~~~--~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~------~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~  161 (469)
                         +  +++..++++++.+|.|..||..++.++..+|+      ++++++.+++++..+|+|..+...+..+-...+
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  99999999999999999999999999999988      999999999999999999999988877766554

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=98.72  E-value=2.1e-08  Score=78.37  Aligned_cols=69  Identities=23%  Similarity=0.228  Sum_probs=65.7

Q ss_pred             ccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchH-HHHHHHHHHHHHhHHHHHHHHHh
Q 012162           59 LGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMK-SHLLKANALILLERYDMARDAIL  137 (469)
Q Consensus        59 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~-~~~~~g~~~~~~~~~~~A~~~~~  137 (469)
                      .+++|.+++..|+|                       ++|+..++++++++|+++. +++.+|.+|..+|++++|+..|+
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            45688999999999                       9999999999999999999 99999999999999999999999


Q ss_pred             ccccCCCCCchhH
Q 012162          138 SGLQVDPFSNPLQ  150 (469)
Q Consensus       138 ~al~~~p~~~~~~  150 (469)
                      ++++++|++..+.
T Consensus        60 ~al~~~p~~~~~~   72 (99)
T 2kc7_A           60 SAIELNPDSPALQ   72 (99)
T ss_dssp             HHHHHCTTSTHHH
T ss_pred             HHHhcCCCcHHHH
Confidence            9999999999876

>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=98.71  E-value=1.8e-08  Score=88.14  Aligned_cols=82  Identities=11%  Similarity=0.024  Sum_probs=71.7

Q ss_pred             cHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccc--hH
Q 012162           37 NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNS--MK  114 (469)
Q Consensus        37 ~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~--~~  114 (469)
                      +..+|+..|+++++.+|+++.+++++|.++...|++                       ++|+..++++++++|++  +.
T Consensus        89 ~~~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~-----------------------~~A~~~~~~~l~~~p~~~~~~  145 (176)
T 2r5s_A           89 AESPELKRLEQELAANPDNFELACELAVQYNQVGRD-----------------------EEALELLWNILKVNLGAQDGE  145 (176)
T ss_dssp             TSCHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHTTCTTTTTTH
T ss_pred             ccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccH-----------------------HHHHHHHHHHHHhCcccChHH
Confidence            334467777777788888888888999999999999                       99999999999999986  66


Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHhcccc
Q 012162          115 SHLLKANALILLERYDMARDAILSGLQ  141 (469)
Q Consensus       115 ~~~~~g~~~~~~~~~~~A~~~~~~al~  141 (469)
                      +++.+|.++..+|++++|+..|++++.
T Consensus       146 a~~~l~~~~~~~g~~~~A~~~y~~al~  172 (176)
T 2r5s_A          146 VKKTFMDILSALGQGNAIASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHHHHHCSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCcHHHHHHHHHH
Confidence            999999999999999999999998864

>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=98.71  E-value=1.4e-08  Score=84.30  Aligned_cols=89  Identities=10%  Similarity=-0.006  Sum_probs=79.5

Q ss_pred             cCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHH
Q 012162           50 NIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERY  129 (469)
Q Consensus        50 ~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~  129 (469)
                      ..+|.++..+..+|.+++..|+|                       ++|+..++++++++|+++.+++.+|.++..+|++
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             HHHHHHHhccccCCCCCchhHHHHHHHHHhhh
Q 012162          130 DMARDAILSGLQVDPFSNPLQASLQNLERTTA  161 (469)
Q Consensus       130 ~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~  161 (469)
                      ++|+..|+++++++|++..+...+..+-..++
T Consensus        60 ~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~   91 (137)
T 3q49_B           60 EQALADCRRALELDGQSVKAHFFLGQCQLEME   91 (137)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhCchhHHHHHHHHHHHHHHh
Confidence            99999999999999999888777766655444

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.70  E-value=9.5e-09  Score=97.35  Aligned_cols=104  Identities=14%  Similarity=0.106  Sum_probs=93.7

Q ss_pred             hhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcC--------CCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCC
Q 012162           19 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNI--------KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLD   90 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~--------~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (469)
                      ...+..+...|..++..|++++|+..|++++++        .|....++.++|.+|..+|++                  
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            345677888999999999999999999999998        677778999999999999999                  


Q ss_pred             CchhHHHHHHHHHHHhhc-------------------------------------------------cccchHHHHHHHH
Q 012162           91 PTTHAELALKDAEKLLNL-------------------------------------------------QSNSMKSHLLKAN  121 (469)
Q Consensus        91 ~~~~~~~A~~~~~~al~l-------------------------------------------------~p~~~~~~~~~g~  121 (469)
                           ++|+..+++++++                                                 +|..+.+++.+|.
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                                                 5778889999999


Q ss_pred             HHHHHhHHHHHHHHHhccccCCCC
Q 012162          122 ALILLERYDMARDAILSGLQVDPF  145 (469)
Q Consensus       122 ~~~~~~~~~~A~~~~~~al~~~p~  145 (469)
                      +|...|++++|+..|++++++.|.
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            999999999999999999998775

>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.70  E-value=3.1e-09  Score=79.24  Aligned_cols=43  Identities=30%  Similarity=0.839  Sum_probs=38.0

Q ss_pred             cccccccccccccccEEccCCCc-ccHHHHHHHcccCCCccccccccc
Q 012162          176 DDFDCTLCLKLLYEPITTPCGHS-FCRSCLFQSMDRGNKCPLCRAVLF  222 (469)
Q Consensus       176 ~~~~C~ic~~~~~~p~~~~cgh~-~C~~Ci~~~~~~~~~CP~Cr~~~~  222 (469)
                      +...|+||++.+.+|+.+||||. ||..|+...    ..||.||.++.
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            45689999999999999999999 999999643    68999999874

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=98.70  E-value=1.6e-08  Score=99.80  Aligned_cols=121  Identities=9%  Similarity=0.023  Sum_probs=99.6

Q ss_pred             hhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc-------ccccchhHHHHHHHhhhccCCCCCcccCccCCCC
Q 012162           18 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP-------IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLD   90 (469)
Q Consensus        18 ~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~-------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (469)
                      ....+..+...|..++..|++++|+.+|.+|+++.+...       .++.++|.+|..+|+|                  
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            344678889999999999999999999999999865544       4788999999999999                  


Q ss_pred             CchhHHHHHHHHHHHhhccccch------HHHHHHHHHHHHHhHHHHHHHHHhccccC-----C-CCCchhHHHHHHHHH
Q 012162           91 PTTHAELALKDAEKLLNLQSNSM------KSHLLKANALILLERYDMARDAILSGLQV-----D-PFSNPLQASLQNLER  158 (469)
Q Consensus        91 ~~~~~~~A~~~~~~al~l~p~~~------~~~~~~g~~~~~~~~~~~A~~~~~~al~~-----~-p~~~~~~~~~~~~~~  158 (469)
                           ++|+..+++++++.+...      .+++++|.+|..+|++++|+..|++++++     + |....+...+..+-.
T Consensus       201 -----~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~  275 (383)
T 3ulq_A          201 -----EDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHY  275 (383)
T ss_dssp             -----HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHH
T ss_pred             -----HHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHH
Confidence                 999999999999865443      58999999999999999999999999994     5 555555555555444


Q ss_pred             hhh
Q 012162          159 TTA  161 (469)
Q Consensus       159 ~~~  161 (469)
                      .++
T Consensus       276 ~~g  278 (383)
T 3ulq_A          276 KLG  278 (383)
T ss_dssp             HTT
T ss_pred             HCC
Confidence            433

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.69  E-value=9.6e-09  Score=97.78  Aligned_cols=102  Identities=15%  Similarity=0.046  Sum_probs=89.0

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcC-------CCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCc
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNI-------KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPT   92 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~-------~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (469)
                      ..+..+...|..++..|+|++|+.+|++|++.       .+....+++++|.+|..+|+|                    
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            34567889999999999999999999999943       233446899999999999999                    


Q ss_pred             hhHHHHHHHHHHHhhccccc------hHHHHHHHHHHHHHh-HHHHHHHHHhccccCCC
Q 012162           93 THAELALKDAEKLLNLQSNS------MKSHLLKANALILLE-RYDMARDAILSGLQVDP  144 (469)
Q Consensus        93 ~~~~~A~~~~~~al~l~p~~------~~~~~~~g~~~~~~~-~~~~A~~~~~~al~~~p  144 (469)
                         ++|+..+++++++.+..      +.+|+.+|.+|..+| .+++|+..|++|+.+..
T Consensus       213 ---~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al~i~~  268 (293)
T 3u3w_A          213 ---EESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKASFFFD  268 (293)
T ss_dssp             ---HHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             ---HHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHH
Confidence               99999999999987655      789999999999999 57999999999997643

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.69  E-value=1.2e-08  Score=86.24  Aligned_cols=103  Identities=25%  Similarity=0.233  Sum_probs=91.6

Q ss_pred             hhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc------ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCc
Q 012162           19 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP------IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPT   92 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (469)
                      ...+..+...|..++..|+|++|+..|.+++++.+...      .++.++|.+|...|++                    
T Consensus         6 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~--------------------   65 (164)
T 3ro3_A            6 AAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEF--------------------   65 (164)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCH--------------------
T ss_pred             HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCH--------------------
Confidence            34577889999999999999999999999999876544      4888999999999999                    


Q ss_pred             hhHHHHHHHHHHHhhccccc------hHHHHHHHHHHHHHhHHHHHHHHHhccccCCC
Q 012162           93 THAELALKDAEKLLNLQSNS------MKSHLLKANALILLERYDMARDAILSGLQVDP  144 (469)
Q Consensus        93 ~~~~~A~~~~~~al~l~p~~------~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p  144 (469)
                         ++|+..+++++++.+..      ..+++.+|.++...|++++|+..+++++++.+
T Consensus        66 ---~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~  120 (164)
T 3ro3_A           66 ---ETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQ  120 (164)
T ss_dssp             ---HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             ---HHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence               99999999999987653      67899999999999999999999999998744

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=98.68  E-value=3e-08  Score=100.42  Aligned_cols=125  Identities=12%  Similarity=-0.004  Sum_probs=98.4

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ....+...|..+...|++++|+..|.+|++.+|+++.++.++|.+|...+.......    ..............+.|+.
T Consensus       246 ~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~y~~~~~~~~~~~----~~~~~~~~~~~~~~~~A~~  321 (472)
T 4g1t_A          246 VTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPNNAYLHCQIGCCYRAKVFQVMNLR----ENGMYGKRKLLELIGHAVA  321 (472)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHC----------CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHhhhHH----HHHHHHHHHHHhhHHHHHH
Confidence            356677889999999999999999999999999999999999999876544311000    0000000000112378999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchh
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  149 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~  149 (469)
                      .++++++++|.+..+++.+|.+|...|++++|+..|+++++++|++...
T Consensus       322 ~~~~a~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~  370 (472)
T 4g1t_A          322 HLKKADEANDNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAK  370 (472)
T ss_dssp             HHHHHHHHCTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHH
T ss_pred             HHHHHhhcCCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHH
Confidence            9999999999999999999999999999999999999999999876553

>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=98.68  E-value=3.9e-08  Score=92.09  Aligned_cols=110  Identities=16%  Similarity=0.105  Sum_probs=95.2

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHH----HHhhhccCCCCCcccCccCCCCCchhH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIR----ISQFLKHRPPSASEYRPLNGLDPTTHA   95 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (469)
                      .++..+...|..++..|++++|+..|+++++  |+++.+++++|.+|..    .+++                       
T Consensus         4 ~~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~--~~~~~a~~~lg~~~~~g~~~~~~~-----------------------   58 (273)
T 1ouv_A            4 QDPKELVGLGAKSYKEKDFTQAKKYFEKACD--LKENSGCFNLGVLYYQGQGVEKNL-----------------------   58 (273)
T ss_dssp             -CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--TTCHHHHHHHHHHHHHTSSSCCCH-----------------------
T ss_pred             CChHHHHHHHHHHHhCCCHHHHHHHHHHHHH--CCCHHHHHHHHHHHHcCCCcCCCH-----------------------
Confidence            3467788999999999999999999999998  7788999999999999    8999                       


Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHH----HhHHHHHHHHHhccccCCCCCchhHHHHHHHHH
Q 012162           96 ELALKDAEKLLNLQSNSMKSHLLKANALIL----LERYDMARDAILSGLQVDPFSNPLQASLQNLER  158 (469)
Q Consensus        96 ~~A~~~~~~al~l~p~~~~~~~~~g~~~~~----~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~  158 (469)
                      ++|+..++++++++  ++.+++.+|.+|..    .+++++|+.+|+++++.+  +..+...+..+-.
T Consensus        59 ~~A~~~~~~a~~~~--~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~--~~~a~~~lg~~~~  121 (273)
T 1ouv_A           59 KKAASFYAKACDLN--YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK--YAEGCASLGGIYH  121 (273)
T ss_dssp             HHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCC--CHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC--CccHHHHHHHHHH
Confidence            99999999999986  78999999999999    999999999999999874  6666555555443

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.67  E-value=3.2e-08  Score=94.80  Aligned_cols=116  Identities=7%  Similarity=-0.132  Sum_probs=98.2

Q ss_pred             HHHHHHhHHHHHHhc--cHHHHHHHHHHHhcCCCCCcccccchhHHH----HHH---HhhhccCCCCCcccCccCCCCCc
Q 012162           22 VFDLVQKGNRAFRES--NFEEAISNYSRANNIKPGDPIVLGNRSSAY----IRI---SQFLKHRPPSASEYRPLNGLDPT   92 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~--~~~~A~~~y~~al~~~p~~~~~~~~~a~~~----~~~---~~~~~~~~~~~~~~~~~~~~~~~   92 (469)
                      ..++..+|..+...|  ++++|+..+++++..+|++..+|+.|+.++    ..+   +++                    
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            566777788887777  888888888888888888888888888888    333   344                    


Q ss_pred             hhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHH--HHHHHHhccccCCCCCchhHHHHHHHHHhh
Q 012162           93 THAELALKDAEKLLNLQSNSMKSHLLKANALILLERYD--MARDAILSGLQVDPFSNPLQASLQNLERTT  160 (469)
Q Consensus        93 ~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~--~A~~~~~~al~~~p~~~~~~~~~~~~~~~~  160 (469)
                         .+++..++++++.+|++..+|+.++.++..+|.++  ++++.++++++.+|.|..+......+-..+
T Consensus       127 ---~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~N~sAW~~R~~ll~~l  193 (306)
T 3dra_A          127 ---YREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLKNNSAWSHRFFLLFSK  193 (306)
T ss_dssp             ---HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHSS
T ss_pred             ---HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhc
Confidence               89999999999999999999999999999999999  999999999999999998877665554433

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=98.67  E-value=1.6e-08  Score=99.76  Aligned_cols=104  Identities=19%  Similarity=0.239  Sum_probs=95.4

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc----ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA   95 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (469)
                      ..+..+...|..++..|+|++|+..|+++++++|+++    .++..+|.+|...|++                       
T Consensus         7 ~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~-----------------------   63 (406)
T 3sf4_A            7 ASCLELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDY-----------------------   63 (406)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCH-----------------------
T ss_pred             HHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCH-----------------------
Confidence            3467788999999999999999999999999999984    6788999999999999                       


Q ss_pred             HHHHHHHHHHhhc------cccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCC
Q 012162           96 ELALKDAEKLLNL------QSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS  146 (469)
Q Consensus        96 ~~A~~~~~~al~l------~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~  146 (469)
                      ++|+..+++++++      .|....+++.+|.++..+|++++|+..|++++++.|..
T Consensus        64 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~  120 (406)
T 3sf4_A           64 AKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISREL  120 (406)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhc
Confidence            9999999999988      56778899999999999999999999999999987754

>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=98.66  E-value=3.3e-08  Score=94.05  Aligned_cols=100  Identities=13%  Similarity=0.092  Sum_probs=86.4

Q ss_pred             HHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcc------cccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHH
Q 012162           24 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPI------VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL   97 (469)
Q Consensus        24 ~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~------~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (469)
                      .+...|..+...|+|++|+.+|.+|+++.+....      ++.++|.+|..+|+|                       ++
T Consensus       117 ~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~-----------------------~~  173 (293)
T 3u3w_A          117 WQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYL-----------------------KK  173 (293)
T ss_dssp             HHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCH-----------------------HH
T ss_pred             HHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCH-----------------------HH
Confidence            4445788888899999999999999997665443      689999999999999                       99


Q ss_pred             HHHHHHHHhh-------ccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCC
Q 012162           98 ALKDAEKLLN-------LQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS  146 (469)
Q Consensus        98 A~~~~~~al~-------l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~  146 (469)
                      |+..++++++       ..+....+++++|.+|..+|+|++|+..+++|+++.+..
T Consensus       174 A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~  229 (293)
T 3u3w_A          174 GIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRI  229 (293)
T ss_dssp             HHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHc
Confidence            9999999994       345566799999999999999999999999999987644

>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=98.66  E-value=6.2e-08  Score=93.98  Aligned_cols=127  Identities=9%  Similarity=-0.078  Sum_probs=100.5

Q ss_pred             hhHHHHHHhHHHHHHh-c-cHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHH
Q 012162           20 THVFDLVQKGNRAFRE-S-NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL   97 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~-~-~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (469)
                      +....+..++..+... + ++++++..++++++.+|.|..+|..|+.+...++.+.               ........+
T Consensus       121 Kny~aW~hR~wlL~~l~~~~~~~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~---------------~~~~~~~~e  185 (349)
T 3q7a_A          121 KSYQVWHHRLLLLDRISPQDPVSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLG---------------RISEAQWGS  185 (349)
T ss_dssp             CCHHHHHHHHHHHHHHCCSCCHHHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTT---------------CCCHHHHHH
T ss_pred             CcHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccc---------------ccchhhHHH
Confidence            3456667777777666 6 7778888888888888888888888888887777770               000111248


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHHHhH-------HHHHHHHHhccccCCCCCchhHHHHHHHHHhhh
Q 012162           98 ALKDAEKLLNLQSNSMKSHLLKANALILLER-------YDMARDAILSGLQVDPFSNPLQASLQNLERTTA  161 (469)
Q Consensus        98 A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~-------~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~  161 (469)
                      ++..++++++.+|.|..||..++.++..+++       ++++++.+++++.++|+|..+...+.-+-...+
T Consensus       186 ELe~~~k~I~~dp~N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~~~P~n~SaW~Ylr~Ll~~~~  256 (349)
T 3q7a_A          186 ELDWCNEMLRVDGRNNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHLIPHNVSAWNYLRGFLKHFS  256 (349)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcC
Confidence            9999999999999999999999999999886       899999999999999999999988776655443

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.65  E-value=3.4e-08  Score=92.80  Aligned_cols=109  Identities=11%  Similarity=-0.100  Sum_probs=89.8

Q ss_pred             HHHHhHHHHHHhccHHHHHHHHHHHhcCC-CCC-cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           24 DLVQKGNRAFRESNFEEAISNYSRANNIK-PGD-PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        24 ~~~~~g~~~~~~~~~~~A~~~y~~al~~~-p~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ..+.+|..+++.++|++|+..|+++++.. |.. ..+++++|.++..+|++                       ++|+..
T Consensus       137 ~~~~~a~l~~~~~r~~dA~~~l~~a~~~~d~~~~~~a~~~LG~al~~LG~~-----------------------~eAl~~  193 (282)
T 4f3v_A          137 VAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAGAAGVAHGVAAANLALF-----------------------TEAERR  193 (282)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHHHHHHHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHhhccCCcccHHHHHHHHHHHHHHCCCH-----------------------HHHHHH
Confidence            66788889999999999999998887753 221 35788999999999999                       999999


Q ss_pred             HHHHhhcc--cc-chHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHH
Q 012162          102 AEKLLNLQ--SN-SMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  156 (469)
Q Consensus       102 ~~~al~l~--p~-~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~  156 (469)
                      +++++.-.  |. .+.+++++|.++..+|+.++|...|+++++.+|+ ..+...+...
T Consensus       194 l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~-~~~~~aL~~~  250 (282)
T 4f3v_A          194 LTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE-PKVAAALKDP  250 (282)
T ss_dssp             HHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC-HHHHHHHHCT
T ss_pred             HHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-HHHHHHHhCC
Confidence            99998654  55 6789999999999999999999999999999998 7766665443

>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=98.63  E-value=1.5e-08  Score=86.53  Aligned_cols=79  Identities=13%  Similarity=0.081  Sum_probs=71.4

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcC-------CCCCcccc----cchhHHHHHHHhhhccCCCCCcccCccCCC
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNI-------KPGDPIVL----GNRSSAYIRISQFLKHRPPSASEYRPLNGL   89 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~-------~p~~~~~~----~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (469)
                      ++..|.++|..+.+.|+|++|+..|++||++       +|+++.+|    +++|.++..+|++                 
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             CCchhHHHHHHHHHHHhhccccchHHHHHHHHH
Q 012162           90 DPTTHAELALKDAEKLLNLQSNSMKSHLLKANA  122 (469)
Q Consensus        90 ~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~  122 (469)
                            ++|+.+|+++++++|++...+-.+..+
T Consensus       119 ------eEAl~~y~kAlel~p~d~~~~~~~~~~  145 (159)
T 2hr2_A          119 ------AEAMPEFKKVVEMIEERKGETPGKERM  145 (159)
T ss_dssp             ------HHHHHHHHHHHHHHHHCCSCCTTHHHH
T ss_pred             ------HHHHHHHHHHHhcCCCcHHHHHHHHHH
Confidence                  999999999999999986654444333

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.63  E-value=1.9e-08  Score=95.32  Aligned_cols=105  Identities=12%  Similarity=0.048  Sum_probs=96.0

Q ss_pred             hhhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcC--------CCCCcccccchhHHHHHHHhhhccCCCCCcccCccC
Q 012162           16 WDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNI--------KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLN   87 (469)
Q Consensus        16 ~~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~--------~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~   87 (469)
                      ++....+..+...|..++..|+|++|+..|++++++        .|....++..+|.+|...|++               
T Consensus        21 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~---------------   85 (311)
T 3nf1_A           21 YEIPARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKY---------------   85 (311)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCH---------------
T ss_pred             CcchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCH---------------
Confidence            445567889999999999999999999999999995        677788999999999999999               


Q ss_pred             CCCCchhHHHHHHHHHHHhhc--------cccchHHHHHHHHHHHHHhHHHHHHHHHhccccCC
Q 012162           88 GLDPTTHAELALKDAEKLLNL--------QSNSMKSHLLKANALILLERYDMARDAILSGLQVD  143 (469)
Q Consensus        88 ~~~~~~~~~~A~~~~~~al~l--------~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~  143 (469)
                              ++|+..+++++++        +|....+++.+|.+|...|++++|+..|++++++.
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

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.63  E-value=2.4e-08  Score=94.94  Aligned_cols=100  Identities=14%  Similarity=0.064  Sum_probs=88.6

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHh---cCCCCCc----ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCch
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRAN---NIKPGDP----IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT   93 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al---~~~p~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (469)
                      .+..+...|..++..|+|++|+.+|++|+   +..|++.    .+++++|.+|..+|+|                     
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            46788899999999999999999999999   4455543    6899999999999999                     


Q ss_pred             hHHHHHHHHHHHhhcccc------chHHHHHHHHHHHHHhHHHHH-HHHHhccccCC
Q 012162           94 HAELALKDAEKLLNLQSN------SMKSHLLKANALILLERYDMA-RDAILSGLQVD  143 (469)
Q Consensus        94 ~~~~A~~~~~~al~l~p~------~~~~~~~~g~~~~~~~~~~~A-~~~~~~al~~~  143 (469)
                        ++|+..+++++++.++      ...+|+.+|.+|..+|++++| ..+|++|+.+.
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      278999999999999999999 78899998764

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.63  E-value=2.4e-08  Score=94.98  Aligned_cols=92  Identities=12%  Similarity=0.004  Sum_probs=80.6

Q ss_pred             HhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHh
Q 012162           27 QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLL  106 (469)
Q Consensus        27 ~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al  106 (469)
                      ..+..+...+++++|+..|+++++.+|+++.+++++|.+|...|++                       ++|+..+.+++
T Consensus       190 ~~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~-----------------------~~A~~~l~~~l  246 (287)
T 3qou_A          190 VAQIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRN-----------------------EEALELLFGHL  246 (287)
T ss_dssp             HHHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHHHH
T ss_pred             HHHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccH-----------------------HHHHHHHHHHH
Confidence            3344455555666667777777888999999999999999999999                       99999999999


Q ss_pred             hccccc--hHHHHHHHHHHHHHhHHHHHHHHHhcccc
Q 012162          107 NLQSNS--MKSHLLKANALILLERYDMARDAILSGLQ  141 (469)
Q Consensus       107 ~l~p~~--~~~~~~~g~~~~~~~~~~~A~~~~~~al~  141 (469)
                      +++|++  ..++..+|.++..+|+.++|...|++++.
T Consensus       247 ~~~p~~~~~~a~~~l~~~~~~~g~~~~a~~~~r~al~  283 (287)
T 3qou_A          247 RXDLTAADGQTRXTFQEILAALGTGDALASXYRRQLY  283 (287)
T ss_dssp             HHCTTGGGGHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hcccccccchHHHHHHHHHHHcCCCCcHHHHHHHHHH
Confidence            999999  89999999999999999999999999874

>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=98.63  E-value=7.6e-08  Score=93.32  Aligned_cols=97  Identities=18%  Similarity=0.064  Sum_probs=83.0

Q ss_pred             HhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHH-hhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccc
Q 012162           34 RESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRIS-QFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNS  112 (469)
Q Consensus        34 ~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~  112 (469)
                      +.+..++|+..++++|.++|++..+|+.|+.++..++ .+                       ++++..+++++..+|++
T Consensus        66 ~~e~se~AL~lt~~~L~~nP~~ytaWn~R~~iL~~l~~~l-----------------------~eEL~~~~~~L~~nPKn  122 (349)
T 3q7a_A           66 KEEKSERALELTEIIVRMNPAHYTVWQYRFSLLTSLNKSL-----------------------EDELRLMNEFAVQNLKS  122 (349)
T ss_dssp             TTCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCH-----------------------HHHHHHHHHHHHTTCCC
T ss_pred             hCCCCHHHHHHHHHHHHhCchhHHHHHHHHHHHHHhhhhH-----------------------HHHHHHHHHHHHhCCCc
Confidence            3344567999999999999999999999999998888 47                       88999999999999999


Q ss_pred             hHHHHHHHHHHHHH-h-HHHHHHHHHhccccCCCCCchhHHHH
Q 012162          113 MKSHLLKANALILL-E-RYDMARDAILSGLQVDPFSNPLQASL  153 (469)
Q Consensus       113 ~~~~~~~g~~~~~~-~-~~~~A~~~~~~al~~~p~~~~~~~~~  153 (469)
                      ..+|+.++.++..+ + +++++++.+.++++.+|.|..+....
T Consensus       123 y~aW~hR~wlL~~l~~~~~~~EL~~~~k~L~~dpkNy~AW~~R  165 (349)
T 3q7a_A          123 YQVWHHRLLLLDRISPQDPVSEIEYIHGSLLPDPKNYHTWAYL  165 (349)
T ss_dssp             HHHHHHHHHHHHHHCCSCCHHHHHHHHHHTSSCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            99999999999888 7 88899999999999999888765443

>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=98.62  E-value=1.7e-08  Score=80.15  Aligned_cols=46  Identities=20%  Similarity=0.435  Sum_probs=40.1

Q ss_pred             ccccccccccccccc------------------EEccCCCcccHHHHHHHcccCCCcccccccc
Q 012162          176 DDFDCTLCLKLLYEP------------------ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL  221 (469)
Q Consensus       176 ~~~~C~ic~~~~~~p------------------~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~  221 (469)
                      ....|.||++.|.++                  +.++|||.||..||.+|+.....||+||+.+
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            345799999988865                  3479999999999999999888999999986

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=98.60  E-value=3.7e-08  Score=97.22  Aligned_cols=104  Identities=15%  Similarity=0.096  Sum_probs=94.0

Q ss_pred             hhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc------ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCc
Q 012162           19 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP------IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPT   92 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (469)
                      ...+..+...|..+...|+|++|+.+|.+|+++.+...      .++.++|.+|..+|++                    
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            34567888999999999999999999999999876554      5899999999999999                    


Q ss_pred             hhHHHHHHHHHHHhh-----cc-ccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCC
Q 012162           93 THAELALKDAEKLLN-----LQ-SNSMKSHLLKANALILLERYDMARDAILSGLQVDPF  145 (469)
Q Consensus        93 ~~~~~A~~~~~~al~-----l~-p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~  145 (469)
                         ++|+..++++++     .+ |..+.+++.+|.+|..+|++++|+..|++++++.+.
T Consensus       241 ---~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~  296 (383)
T 3ulq_A          241 ---EDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQK  296 (383)
T ss_dssp             ---HHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             ---HHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence               999999999999     56 888999999999999999999999999999988553

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.60  E-value=1.2e-07  Score=76.39  Aligned_cols=87  Identities=14%  Similarity=0.024  Sum_probs=74.7

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ....+...|..++..|+|++|+..|+++++++|+++.+|+++|.+|..+|++                       ++|+.
T Consensus        18 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~-----------------------~~A~~   74 (115)
T 2kat_A           18 NMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDR-----------------------AGARQ   74 (115)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH-----------------------HHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCH-----------------------HHHHH
Confidence            3577889999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccc--hHHHHHHHHHHHHHhHHH
Q 012162          101 DAEKLLNLQSNS--MKSHLLKANALILLERYD  130 (469)
Q Consensus       101 ~~~~al~l~p~~--~~~~~~~g~~~~~~~~~~  130 (469)
                      .++++++++|++  ..+...+...+..+++..
T Consensus        75 ~~~~al~~~~~~~~~~~~~~l~~~l~~l~~~~  106 (115)
T 2kat_A           75 AWESGLAAAQSRGDQQVVKELQVFLRRLARED  106 (115)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccccccHHHHHHHHHHHHHhcccc
Confidence            999999999864  344555555555555443

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.60  E-value=8.9e-08  Score=77.08  Aligned_cols=83  Identities=22%  Similarity=0.322  Sum_probs=78.0

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ...+...|..++..|++++|+..|+++++.+|.++.++.++|.+|...|++                       ++|+..
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            566778899999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHh
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLE  127 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~  127 (469)
                      ++++++++|+++.++..+|.++...|
T Consensus       100 ~~~~~~~~~~~~~~~~~l~~~~~~~g  125 (125)
T 1na0_A          100 YQKALELDPNNAEAKQNLGNAKQKQG  125 (125)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHhcc
Confidence            99999999999999999999987654

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus}

Probab=98.60  E-value=1.2e-08  Score=85.30  Aligned_cols=49  Identities=35%  Similarity=0.872  Sum_probs=44.3

Q ss_pred             Ccccccccccccccccc-------EEccCCCcccHHHHHHHcccCCCccccccccc
Q 012162          174 RTDDFDCTLCLKLLYEP-------ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  222 (469)
Q Consensus       174 ~~~~~~C~ic~~~~~~p-------~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~  222 (469)
                      ......|+||++.+.+|       +.++|||.||..||.+|+..+..||.||..+.
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            34677899999999987       88999999999999999999999999999874

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.59  E-value=3.3e-08  Score=83.48  Aligned_cols=100  Identities=17%  Similarity=0.115  Sum_probs=88.0

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC------cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA   95 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (469)
                      +..+...|..++..|+|++|+..|++++++.+..      ..++.++|.++...|++                       
T Consensus        49 ~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----------------------  105 (164)
T 3ro3_A           49 RIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDY-----------------------  105 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH-----------------------
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhH-----------------------
Confidence            4677889999999999999999999999986653      56788999999999999                       


Q ss_pred             HHHHHHHHHHhhccc------cchHHHHHHHHHHHHHhHHHHHHHHHhccccCCC
Q 012162           96 ELALKDAEKLLNLQS------NSMKSHLLKANALILLERYDMARDAILSGLQVDP  144 (469)
Q Consensus        96 ~~A~~~~~~al~l~p------~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p  144 (469)
                      ++|+..+++++++.+      ....++..+|.++...|++++|+..+++++++..
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      3467899999999999999999999999987654

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.59  E-value=7.4e-08  Score=91.56  Aligned_cols=100  Identities=13%  Similarity=0.130  Sum_probs=85.4

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC------cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA   95 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (469)
                      +..+...|..+...|+|++|+..|.+|+++.+..      ..++.++|.+|..+|+|                       
T Consensus       115 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~-----------------------  171 (293)
T 2qfc_A          115 LQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYL-----------------------  171 (293)
T ss_dssp             HHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHHHHHHHHHHTTCH-----------------------
T ss_pred             HHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHcCCH-----------------------
Confidence            4445567888888999999999999999876554      35788999999999999                       


Q ss_pred             HHHHHHHHHHhh---ccccc----hHHHHHHHHHHHHHhHHHHHHHHHhccccCCC
Q 012162           96 ELALKDAEKLLN---LQSNS----MKSHLLKANALILLERYDMARDAILSGLQVDP  144 (469)
Q Consensus        96 ~~A~~~~~~al~---l~p~~----~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p  144 (469)
                      ++|+..++++++   ..|++    ..+++++|.+|..+|+|++|+..|++++++.+
T Consensus       172 ~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~  227 (293)
T 2qfc_A          172 KKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISC  227 (293)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            999999999994   44543    26999999999999999999999999998864

>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=98.59  E-value=9.6e-08  Score=92.15  Aligned_cols=118  Identities=6%  Similarity=-0.099  Sum_probs=105.4

Q ss_pred             hhHHHHHHhHHHHHHhcc----------HHHHHHHHHHHhcCCCCCcccccchhHHHHHHHh--hhccCCCCCcccCccC
Q 012162           20 THVFDLVQKGNRAFRESN----------FEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQ--FLKHRPPSASEYRPLN   87 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~----------~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~--~~~~~~~~~~~~~~~~   87 (469)
                      .....+..++..+...|.          +++++..++.++..+|.+..+|+.|+.++..+++  +               
T Consensus        62 ~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PKny~aW~hR~wlL~~l~~~~~---------------  126 (331)
T 3dss_A           62 DFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNW---------------  126 (331)
T ss_dssp             TCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHCSSCCH---------------
T ss_pred             hhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHhccCcccH---------------
Confidence            345667777777766655          7899999999999999999999999999998884  7               


Q ss_pred             CCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhH-HHHHHHHHhccccCCCCCchhHHHHHHHHHhh
Q 012162           88 GLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLER-YDMARDAILSGLQVDPFSNPLQASLQNLERTT  160 (469)
Q Consensus        88 ~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~-~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~  160 (469)
                              .+++..++++++++|.|..+|..++.++..+|. ++++++++.++++.+|.|..+......+-..+
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                    899999999999999999999999999999999 69999999999999999999988887776555

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.59  E-value=3.5e-08  Score=87.50  Aligned_cols=102  Identities=12%  Similarity=-0.006  Sum_probs=90.4

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhc------CCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCch
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANN------IKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT   93 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~------~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (469)
                      ..+..+...|..+...|+|++|+.+|.++++      ..|....++.++|.+|...|++                     
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            3577888999999999999999999999999      4555678899999999999999                     


Q ss_pred             hHHHHHHHHHHHhhc------cc-cchHHHHHHHHHHHHHhHHHHHHHHHhccccCCC
Q 012162           94 HAELALKDAEKLLNL------QS-NSMKSHLLKANALILLERYDMARDAILSGLQVDP  144 (469)
Q Consensus        94 ~~~~A~~~~~~al~l------~p-~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p  144 (469)
                        ++|+..+++++++      ++ ....+++.+|.++..+|++++|+..+++++++.+
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 4466899999999999999999999999997643

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=98.58  E-value=1e-07  Score=93.94  Aligned_cols=103  Identities=16%  Similarity=0.054  Sum_probs=93.6

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCC------CcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCch
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPG------DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT   93 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~------~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (469)
                      ..+..+...|..+...|+|++|+.+|.+|+++.+.      ...++.++|.+|..+|++                     
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            45777889999999999999999999999997442      246889999999999999                     


Q ss_pred             hHHHHHHHHHHHhh-----ccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCC
Q 012162           94 HAELALKDAEKLLN-----LQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF  145 (469)
Q Consensus        94 ~~~~A~~~~~~al~-----l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~  145 (469)
                        ++|+..++++++     .+|..+.+++.+|.++..+|++++|+..+++++++.+.
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     88999999999999999999999999999999998765

>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=98.58  E-value=2.1e-08  Score=96.22  Aligned_cols=101  Identities=11%  Similarity=0.034  Sum_probs=62.9

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC------cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA   95 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (469)
                      +..+...|..+...|+|++|+.+|++|+++.+..      ..++.++|.+|.. |++                       
T Consensus        76 a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~-----------------------  131 (307)
T 2ifu_A           76 AKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDL-----------------------  131 (307)
T ss_dssp             HHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCH-----------------------
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCH-----------------------
Confidence            4455556666666666666666666666653321      2455566666665 666                       


Q ss_pred             HHHHHHHHHHhhccccc------hHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCC
Q 012162           96 ELALKDAEKLLNLQSNS------MKSHLLKANALILLERYDMARDAILSGLQVDPFS  146 (469)
Q Consensus        96 ~~A~~~~~~al~l~p~~------~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~  146 (469)
                      ++|+..+++|+++.|..      ..++..+|.+|..+|+|++|+..|++++++.|++
T Consensus       132 ~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~  188 (307)
T 2ifu_A          132 SKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEM  188 (307)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHc
Confidence            66777777777666543      4566667777777777777777777777665544

>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.57  E-value=3.4e-08  Score=71.80  Aligned_cols=47  Identities=28%  Similarity=0.762  Sum_probs=40.5

Q ss_pred             CCCccccccccccccccccEEccCCCc-ccHHHHHHHcccCCCccccccccc
Q 012162          172 PERTDDFDCTLCLKLLYEPITTPCGHS-FCRSCLFQSMDRGNKCPLCRAVLF  222 (469)
Q Consensus       172 ~~~~~~~~C~ic~~~~~~p~~~~cgh~-~C~~Ci~~~~~~~~~CP~Cr~~~~  222 (469)
                      ....+...|.||++...+++.+||||. ||..|+..    ...||.||.++.
T Consensus        10 ~~~~~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~----~~~CP~CR~~i~   57 (68)
T 2ea5_A           10 PSEENSKDCVVCQNGTVNWVLLPCRHTCLCDGCVKY----FQQCPMCRQFVQ   57 (68)
T ss_dssp             CSCCCSSCCSSSSSSCCCCEETTTTBCCSCTTHHHH----CSSCTTTCCCCC
T ss_pred             ccCCCCCCCCCcCcCCCCEEEECCCChhhhHHHHhc----CCCCCCCCcchh
Confidence            344567799999999999999999999 99999984    368999999874

>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=98.56  E-value=1.3e-07  Score=75.44  Aligned_cols=80  Identities=14%  Similarity=0.116  Sum_probs=75.3

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ....+...|..++..|+|++|+..|.++++.+|+++.++.++|.++..+|++                       ++|+.
T Consensus        37 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~-----------------------~~A~~   93 (118)
T 1elw_A           37 NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRF-----------------------EEAKR   93 (118)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             cHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhH-----------------------HHHHH
Confidence            3567888999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHH
Q 012162          101 DAEKLLNLQSNSMKSHLLKANAL  123 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~  123 (469)
                      .++++++++|+++.++..++.+.
T Consensus        94 ~~~~~~~~~~~~~~~~~~l~~~~  116 (118)
T 1elw_A           94 TYEEGLKHEANNPQLKEGLQNME  116 (118)
T ss_dssp             HHHHHHTTCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHcCCCCHHHHHHHHHhh
Confidence            99999999999999999888764

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.55  E-value=7.8e-08  Score=98.20  Aligned_cols=114  Identities=11%  Similarity=0.025  Sum_probs=94.6

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcC-----CCCC---cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCc
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNI-----KPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPT   92 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~-----~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (469)
                      .+..+..++..+..+|+|++|+..|++++++     .|++   ...+.++|.+|..+|+|                    
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            3556667788888999999999999999976     3444   46789999999999999                    


Q ss_pred             hhHHHHHHHHHHHhhc--------cccchHHHHHHHHHHHHHhHHHHHHHHHhccccC-----CCCCchhHHHHHHHH
Q 012162           93 THAELALKDAEKLLNL--------QSNSMKSHLLKANALILLERYDMARDAILSGLQV-----DPFSNPLQASLQNLE  157 (469)
Q Consensus        93 ~~~~~A~~~~~~al~l--------~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~-----~p~~~~~~~~~~~~~  157 (469)
                         ++|+..+++++++        .|+-...++++|.+|..+|+|++|+..|++|+++     .|+++.....+..+.
T Consensus       368 ---~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~  442 (490)
T 3n71_A          368 ---EEASHYARRMVDGYMKLYHHNNAQLGMAVMRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRM  442 (490)
T ss_dssp             ---HHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHH
T ss_pred             ---HHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHH
Confidence               9999999999985        3555668999999999999999999999999974     788887765544433

>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=98.54  E-value=1.5e-08  Score=76.09  Aligned_cols=43  Identities=33%  Similarity=0.805  Sum_probs=38.3

Q ss_pred             cccccccccccccccEEccCCCc-ccHHHHHHHcccCCCccccccccc
Q 012162          176 DDFDCTLCLKLLYEPITTPCGHS-FCRSCLFQSMDRGNKCPLCRAVLF  222 (469)
Q Consensus       176 ~~~~C~ic~~~~~~p~~~~cgh~-~C~~Ci~~~~~~~~~CP~Cr~~~~  222 (469)
                      +...|+||++.+.+|+.+||||. ||..|+..+.    .||.||.++.
T Consensus        17 ~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~~~----~CP~Cr~~i~   60 (79)
T 2yho_A           17 EAMLCMVCCEEEINSTFCPCGHTVCCESCAAQLQ----SCPVCRSRVE   60 (79)
T ss_dssp             HHTBCTTTSSSBCCEEEETTCBCCBCHHHHTTCS----BCTTTCCBCC
T ss_pred             CCCEeEEeCcccCcEEEECCCCHHHHHHHHHhcC----cCCCCCchhh
Confidence            34589999999999999999999 9999998663    8999999874

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=98.53  E-value=5.9e-08  Score=95.54  Aligned_cols=103  Identities=24%  Similarity=0.193  Sum_probs=93.9

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcc------cccchhHHHHHHHhhhccCCCCCcccCccCCCCCchh
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPI------VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH   94 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~------~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (469)
                      .+..+...|..++..|+|++|+..|.+++++.|....      ++.++|.+|..+|++                      
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            3567788999999999999999999999999887665      899999999999999                      


Q ss_pred             HHHHHHHHHHHhhccccc------hHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCC
Q 012162           95 AELALKDAEKLLNLQSNS------MKSHLLKANALILLERYDMARDAILSGLQVDPFS  146 (469)
Q Consensus        95 ~~~A~~~~~~al~l~p~~------~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~  146 (469)
                       ++|+..+++++++.+..      ..+++.+|.+|...|++++|+..|++++++.+..
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             99999999999998776      7899999999999999999999999999986654

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=98.52  E-value=9.9e-08  Score=94.09  Aligned_cols=122  Identities=14%  Similarity=0.000  Sum_probs=100.0

Q ss_pred             hhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC-------cccccchhHHHHHHHhhhccCCCCCcccCccCCCC
Q 012162           18 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD-------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLD   90 (469)
Q Consensus        18 ~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~-------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (469)
                      ....+..+...|..++..|++++|+.+|.+|+++.+..       +.++.++|.+|..+|+|                  
T Consensus       137 ~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~------------------  198 (378)
T 3q15_A          137 DIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHY------------------  198 (378)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCH------------------
T ss_pred             hHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCH------------------
Confidence            34567888899999999999999999999999885542       35678899999999999                  


Q ss_pred             CchhHHHHHHHHHHHhhccc------cchHHHHHHHHHHHHHhHHHHHHHHHhcccc-----CCCCCchhHHHHHHHHHh
Q 012162           91 PTTHAELALKDAEKLLNLQS------NSMKSHLLKANALILLERYDMARDAILSGLQ-----VDPFSNPLQASLQNLERT  159 (469)
Q Consensus        91 ~~~~~~~A~~~~~~al~l~p------~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~-----~~p~~~~~~~~~~~~~~~  159 (469)
                           ++|+..+++++++.+      ....+++++|.+|..+|++++|+..|+++++     .+|....+...+..+...
T Consensus       199 -----~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~  273 (378)
T 3q15_A          199 -----DKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTLCK  273 (378)
T ss_dssp             -----HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHH
T ss_pred             -----HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHHHH
Confidence                 999999999999743      2356899999999999999999999999999     677666565555555544


Q ss_pred             hhh
Q 012162          160 TAS  162 (469)
Q Consensus       160 ~~~  162 (469)
                      +++
T Consensus       274 ~g~  276 (378)
T 3q15_A          274 AGQ  276 (378)
T ss_dssp             TTC
T ss_pred             CCC
Confidence            443

>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=98.52  E-value=6.6e-08  Score=97.18  Aligned_cols=111  Identities=14%  Similarity=0.116  Sum_probs=91.7

Q ss_pred             HHHHhHHHHHHhccHHHHHHHHHHHhcC-----CCCCc---ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhH
Q 012162           24 DLVQKGNRAFRESNFEEAISNYSRANNI-----KPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA   95 (469)
Q Consensus        24 ~~~~~g~~~~~~~~~~~A~~~y~~al~~-----~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (469)
                      .....+....+.|+|++|+..|++++++     .|+++   ..+.++|.+|..+|+|                       
T Consensus       300 ~~le~~~~~~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~-----------------------  356 (433)
T 3qww_A          300 NVIEEFRRAKHYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDW-----------------------  356 (433)
T ss_dssp             HHHHHHHHHTTTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCH-----------------------
T ss_pred             HHHHHHHHhhhccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCH-----------------------
Confidence            3444555555678999999999999975     45554   6788999999999999                       


Q ss_pred             HHHHHHHHHHhhc--------cccchHHHHHHHHHHHHHhHHHHHHHHHhccccC-----CCCCchhHHHHHHHH
Q 012162           96 ELALKDAEKLLNL--------QSNSMKSHLLKANALILLERYDMARDAILSGLQV-----DPFSNPLQASLQNLE  157 (469)
Q Consensus        96 ~~A~~~~~~al~l--------~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~-----~p~~~~~~~~~~~~~  157 (469)
                      ++|+..+++++++        .|+-...++++|.+|..+|+|++|+..|++|+++     .|+++.+......++
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        3555668999999999999999999999999975     788888777666554

>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=98.52  E-value=8.7e-08  Score=86.67  Aligned_cols=110  Identities=15%  Similarity=0.056  Sum_probs=93.8

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHH----hhhccCCCCCcccCccCCCCCchhH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRIS----QFLKHRPPSASEYRPLNGLDPTTHA   95 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~   95 (469)
                      .++..+...|..++..+++++|+..|++|++.  +++.+++++|.+|.. +    ++                       
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            45788899999999999999999999999875  588999999999887 6    66                       


Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHH----HhHHHHHHHHHhccccCCCC--CchhHHHHHHHH
Q 012162           96 ELALKDAEKLLNLQSNSMKSHLLKANALIL----LERYDMARDAILSGLQVDPF--SNPLQASLQNLE  157 (469)
Q Consensus        96 ~~A~~~~~~al~l~p~~~~~~~~~g~~~~~----~~~~~~A~~~~~~al~~~p~--~~~~~~~~~~~~  157 (469)
                      ++|+..++++++  +.++.+++.+|.+|..    .+++++|+.+|+++++.+|.  ++.+...+..+-
T Consensus        70 ~~A~~~~~~A~~--~g~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y  135 (212)
T 3rjv_A           70 PQARQLAEKAVE--AGSKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIY  135 (212)
T ss_dssp             HHHHHHHHHHHH--TTCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH--CCCHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHH
Confidence            999999999954  5789999999999987    88999999999999999883  356655555543

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.51  E-value=2e-07  Score=77.77  Aligned_cols=80  Identities=16%  Similarity=0.158  Sum_probs=75.2

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ...+...|..++..|+|++|+..|+++++++|+++.+++++|.+|..+|++                       ++|+..
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            677888999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHH
Q 012162          102 AEKLLNLQSNSMKSHLLKANALI  124 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~  124 (469)
                      ++++++++|++..++..++.+..
T Consensus       122 ~~~al~~~p~~~~~~~~l~~~~~  144 (148)
T 2dba_A          122 LQRCVSLEPKNKVFQEALRNISG  144 (148)
T ss_dssp             HHHHHHHCSSCHHHHHHHHHHHC
T ss_pred             HHHHHHcCCCcHHHHHHHHHHHh
Confidence            99999999999999888877653

>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=98.50  E-value=2.3e-07  Score=86.74  Aligned_cols=106  Identities=13%  Similarity=0.056  Sum_probs=92.4

Q ss_pred             hHHHHHHhHHHHHH----hccHHHHHHHHHHHhcCCCCCcccccchhHHHHH----HHhhhccCCCCCcccCccCCCCCc
Q 012162           21 HVFDLVQKGNRAFR----ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIR----ISQFLKHRPPSASEYRPLNGLDPT   92 (469)
Q Consensus        21 ~~~~~~~~g~~~~~----~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~   92 (469)
                      ....+...|..+..    .+++++|+..|++|++.+  ++.+++++|.+|..    .+++                    
T Consensus        37 ~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~--~~~a~~~lg~~~~~g~~~~~~~--------------------   94 (273)
T 1ouv_A           37 ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN--YSNGCHLLGNLYYSGQGVSQNT--------------------   94 (273)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCH--------------------
T ss_pred             CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC--CHHHHHHHHHHHhCCCCcccCH--------------------
Confidence            35677889999999    999999999999999986  78999999999999    8999                    


Q ss_pred             hhHHHHHHHHHHHhhccccchHHHHHHHHHHHH----HhHHHHHHHHHhccccCCCCCchhHHHHHH
Q 012162           93 THAELALKDAEKLLNLQSNSMKSHLLKANALIL----LERYDMARDAILSGLQVDPFSNPLQASLQN  155 (469)
Q Consensus        93 ~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~----~~~~~~A~~~~~~al~~~p~~~~~~~~~~~  155 (469)
                         ++|+..++++++++  ++.+++.+|.+|..    .+++++|+.+|+++++.+  +..+...+..
T Consensus        95 ---~~A~~~~~~a~~~~--~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~--~~~a~~~lg~  154 (273)
T 1ouv_A           95 ---NKALQYYSKACDLK--YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN--DGDGCTILGS  154 (273)
T ss_dssp             ---HHHHHHHHHHHHTT--CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHH
T ss_pred             ---HHHHHHHHHHHHcC--CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC--cHHHHHHHHH
Confidence               99999999999984  78999999999999    999999999999999976  4444444433

>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=98.49  E-value=9.2e-08  Score=86.50  Aligned_cols=110  Identities=8%  Similarity=-0.053  Sum_probs=89.0

Q ss_pred             hHHHHHHhHHHHHHhc----cHHHHHHHHHHHhcCCCCCcccccchhHHHHH----HHhhhccCCCCCcccCccCCCCCc
Q 012162           21 HVFDLVQKGNRAFRES----NFEEAISNYSRANNIKPGDPIVLGNRSSAYIR----ISQFLKHRPPSASEYRPLNGLDPT   92 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~----~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~   92 (469)
                      .+.++...|..+.. +    ++++|+.+|++|++  +.++.+++++|.+|..    .+++                    
T Consensus        49 ~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~--~g~~~a~~~Lg~~y~~g~g~~~d~--------------------  105 (212)
T 3rjv_A           49 DGDALALLAQLKIR-NPQQADYPQARQLAEKAVE--AGSKSGEIVLARVLVNRQAGATDV--------------------  105 (212)
T ss_dssp             CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHH--TTCHHHHHHHHHHHTCGGGSSCCH--------------------
T ss_pred             CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHH--CCCHHHHHHHHHHHHcCCCCccCH--------------------
Confidence            45667777888777 6    89999999999964  5688888889888876    5667                    


Q ss_pred             hhHHHHHHHHHHHhhccc--cchHHHHHHHHHHHH----HhHHHHHHHHHhccccCCCCCchhHHHHHHHH
Q 012162           93 THAELALKDAEKLLNLQS--NSMKSHLLKANALIL----LERYDMARDAILSGLQVDPFSNPLQASLQNLE  157 (469)
Q Consensus        93 ~~~~~A~~~~~~al~l~p--~~~~~~~~~g~~~~~----~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~  157 (469)
                         .+|+..++++++.+|  +++.+++.+|.+|..    .+++++|+.+|++++++ |+++.+...+..+-
T Consensus       106 ---~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~-~~~~~a~~~Lg~~y  172 (212)
T 3rjv_A          106 ---AHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL-SRTGYAEYWAGMMF  172 (212)
T ss_dssp             ---HHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT-SCTTHHHHHHHHHH
T ss_pred             ---HHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc-CCCHHHHHHHHHHH
Confidence               899999999999988  568899999999988    88899999999999888 66666666555543

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=98.48  E-value=2.9e-07  Score=95.14  Aligned_cols=118  Identities=12%  Similarity=-0.036  Sum_probs=97.7

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc-ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP-IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      ....+...|..+...|++++|...|+++++++|.++ .+|.+.+.++.+.|++                       ++|.
T Consensus       320 ~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~-----------------------~~A~  376 (530)
T 2ooe_A          320 NMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGI-----------------------KSGR  376 (530)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHH-----------------------HHHH
T ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHHHHhCccccCchHHHHHHHHHHHHhcCH-----------------------HHHH
Confidence            356677788888888999999999999999999885 5888888888888998                       8999


Q ss_pred             HHHHHHhhccccchHHHHHHHHH-HHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhh
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANA-LILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  161 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~-~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~  161 (469)
                      ..+++|++..|.....+...|.. +...|++++|+..|+++++.+|++..+...+..++...+
T Consensus       377 ~~~~~Al~~~~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~p~~~~~~~~~~~~~~~~g  439 (530)
T 2ooe_A          377 MIFKKAREDARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLN  439 (530)
T ss_dssp             HHHHHHHTCTTCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTT
T ss_pred             HHHHHHHhccCCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHCCCCHHHHHHHHHHHHhCC
Confidence            99999999988887777776665 346889999999999999999988888777777665543

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=98.48  E-value=5.2e-08  Score=96.63  Aligned_cols=103  Identities=19%  Similarity=0.115  Sum_probs=93.0

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcc------cccchhHHHHHHHhhhccCCCCCcccCccCCCCCchh
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPI------VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH   94 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~------~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (469)
                      .+..+...|..++..|+|++|+.+|++++++.|....      ++.++|.+|...|++                      
T Consensus       222 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~----------------------  279 (411)
T 4a1s_A          222 QGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQF----------------------  279 (411)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCH----------------------
T ss_pred             HHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCH----------------------
Confidence            3567788999999999999999999999999887655      899999999999999                      


Q ss_pred             HHHHHHHHHHHhhccccc------hHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCC
Q 012162           95 AELALKDAEKLLNLQSNS------MKSHLLKANALILLERYDMARDAILSGLQVDPFS  146 (469)
Q Consensus        95 ~~~A~~~~~~al~l~p~~------~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~  146 (469)
                       ++|+..+++++++.+..      ..+++.+|.+|...|++++|+..|++++++.+..
T Consensus       280 -~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~  336 (411)
T 4a1s_A          280 -EDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQEL  336 (411)
T ss_dssp             -HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             -HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHC
Confidence             99999999999998854      7889999999999999999999999999886643

>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=98.47  E-value=2.7e-07  Score=92.74  Aligned_cols=119  Identities=12%  Similarity=0.039  Sum_probs=98.5

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcC-----CCCCc---ccccchhHHHHHHHhhhccCCCCCcccCccCCCCC
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNI-----KPGDP---IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDP   91 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~-----~p~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (469)
                      ..+..+......+..+|+|++|+..|++++++     .|+++   ..+.++|.+|..+|+|                   
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            34556666777888999999999999999976     34443   6789999999999999                   


Q ss_pred             chhHHHHHHHHHHHhhc--------cccchHHHHHHHHHHHHHhHHHHHHHHHhccccC-----CCCCchhHHHHHHHHH
Q 012162           92 TTHAELALKDAEKLLNL--------QSNSMKSHLLKANALILLERYDMARDAILSGLQV-----DPFSNPLQASLQNLER  158 (469)
Q Consensus        92 ~~~~~~A~~~~~~al~l--------~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~-----~p~~~~~~~~~~~~~~  158 (469)
                          ++|+..+++++++        .|+-...++++|.+|..+|+|++|+..|++|+++     .|+++.....+..++.
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        3455668999999999999999999999999875     7888888777666665


Q ss_pred             hhh
Q 012162          159 TTA  161 (469)
Q Consensus       159 ~~~  161 (469)
                      ...
T Consensus       422 ~~~  424 (429)
T 3qwp_A          422 CDA  424 (429)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.47  E-value=2.9e-07  Score=75.21  Aligned_cols=80  Identities=11%  Similarity=-0.002  Sum_probs=72.2

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC---cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA   98 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A   98 (469)
                      ...+...|..++..|+|++|+..|+++++.+|++   +.+++++|.+|..+|++                       ++|
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             HHHHHHHhhccccchHHHHHHHHHHH
Q 012162           99 LKDAEKLLNLQSNSMKSHLLKANALI  124 (469)
Q Consensus        99 ~~~~~~al~l~p~~~~~~~~~g~~~~  124 (469)
                      +..++++++..|+++.+...+..+..
T Consensus        96 ~~~~~~~~~~~p~~~~~~~a~~~l~~  121 (129)
T 2xev_A           96 QQTLQQVATQYPGSDAARVAQERLQS  121 (129)
T ss_dssp             HHHHHHHHHHSTTSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCChHHHHHHHHHHH
Confidence            99999999999999887666655443

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=98.46  E-value=9.3e-08  Score=90.99  Aligned_cols=103  Identities=24%  Similarity=0.193  Sum_probs=92.2

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcc------cccchhHHHHHHHhhhccCCCCCcccCccCCCCCchh
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPI------VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH   94 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~------~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (469)
                      .+..+...|..++..|++++|+..|++++++.+....      ++.++|.++...|++                      
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            3556778899999999999999999999998776544      899999999999999                      


Q ss_pred             HHHHHHHHHHHhhccccc------hHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCC
Q 012162           95 AELALKDAEKLLNLQSNS------MKSHLLKANALILLERYDMARDAILSGLQVDPFS  146 (469)
Q Consensus        95 ~~~A~~~~~~al~l~p~~------~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~  146 (469)
                       ++|+..+++++++.+..      ..++..+|.++...|++++|+..|++++++.+..
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             99999999999988766      7899999999999999999999999999886643

>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=98.45  E-value=3e-08  Score=77.44  Aligned_cols=45  Identities=33%  Similarity=0.636  Sum_probs=37.5

Q ss_pred             cccccccccccccccEEc---cCCCcccHHHHHHHccc----C----CCccc--cccc
Q 012162          176 DDFDCTLCLKLLYEPITT---PCGHSFCRSCLFQSMDR----G----NKCPL--CRAV  220 (469)
Q Consensus       176 ~~~~C~ic~~~~~~p~~~---~cgh~~C~~Ci~~~~~~----~----~~CP~--Cr~~  220 (469)
                      ..+.|+||++.+..|+.+   +|||+||+.|+.+++..    +    ..||.  |+..
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            567899999999988653   79999999999998752    2    36999  9987

>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=98.44  E-value=3.5e-07  Score=88.68  Aligned_cols=124  Identities=11%  Similarity=0.071  Sum_probs=77.2

Q ss_pred             hhHHHHHHhHHHHHHh---ccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCcc---------C
Q 012162           20 THVFDLVQKGNRAFRE---SNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL---------N   87 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~---~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~---------~   87 (469)
                      ..+..++.+|..++..   .++.+|+.+|++|++++|+++.+|..++.+|.....+  + +........+         .
T Consensus       194 ~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lDP~~a~A~A~la~a~~~~~~~--~-~~~~~~~~~l~~a~~a~~a~  270 (372)
T 3ly7_A          194 GALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSSPEFTYARAEKALVDIVRHSQ--H-PLDEKQLAALNTEIDNIVTL  270 (372)
T ss_dssp             GGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHH--S-CCCHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhcc--C-CCchhhHHHHHHHHHHHHhc
Confidence            3577888889888765   4468899999999999999999999999998754333  0 0000000000         0


Q ss_pred             CCCC---------------chhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCc
Q 012162           88 GLDP---------------TTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSN  147 (469)
Q Consensus        88 ~~~~---------------~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~  147 (469)
                      ..++               ....++|+..+++|+.++|+ +.+|..+|.++...|++++|++.|++|+.++|..+
T Consensus       271 ~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s-~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~~~  344 (372)
T 3ly7_A          271 PELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMS-WLNYVLLGKVYEMKGMNREAADAYLTAFNLRPGAN  344 (372)
T ss_dssp             GGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCSHH
T ss_pred             ccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcC
Confidence            0000               11125566666666666653 45566666666666666666666666666666543

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=98.42  E-value=5.1e-07  Score=71.69  Aligned_cols=77  Identities=19%  Similarity=0.130  Sum_probs=52.6

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCC-------CCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCch
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKP-------GDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT   93 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p-------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (469)
                      .+......|..+++.|+|..|+..|++|++..+       ..+.++.++|.+|+++|++                     
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~---------------------   62 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDL---------------------   62 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCH---------------------
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCH---------------------
Confidence            356788999999999999999999999998632       2234455555555555555                     


Q ss_pred             hHHHHHHHHHHHhhccccchHHHHHHH
Q 012162           94 HAELALKDAEKLLNLQSNSMKSHLLKA  120 (469)
Q Consensus        94 ~~~~A~~~~~~al~l~p~~~~~~~~~g  120 (469)
                        +.|+..++++++++|++..+..+++
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              5555555555555555555544444

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=98.40  E-value=1.1e-06  Score=90.64  Aligned_cols=107  Identities=10%  Similarity=-0.023  Sum_probs=95.4

Q ss_pred             hHHHHHHhHHHHHH-------hccHH-------HHHHHHHHHhc-CCCCCcccccchhHHHHHHHhhhccCCCCCcccCc
Q 012162           21 HVFDLVQKGNRAFR-------ESNFE-------EAISNYSRANN-IKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRP   85 (469)
Q Consensus        21 ~~~~~~~~g~~~~~-------~~~~~-------~A~~~y~~al~-~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~   85 (469)
                      ....+...|..+..       .|+++       +|+..|++|++ +.|++..+|..+|..+...|++             
T Consensus       271 ~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~-------------  337 (530)
T 2ooe_A          271 HPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKY-------------  337 (530)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCH-------------
T ss_pred             CHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCH-------------
Confidence            35566677777765       69987       99999999998 8999999999999999999999             


Q ss_pred             cCCCCCchhHHHHHHHHHHHhhccccch-HHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhH
Q 012162           86 LNGLDPTTHAELALKDAEKLLNLQSNSM-KSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  150 (469)
Q Consensus        86 ~~~~~~~~~~~~A~~~~~~al~l~p~~~-~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~  150 (469)
                                ++|...++++++++|+++ .+|..+|.++...|++++|+..|++|++..|.+....
T Consensus       338 ----------~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~~~~~~~  393 (530)
T 2ooe_A          338 ----------EKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVY  393 (530)
T ss_dssp             ----------HHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTCCTHHH
T ss_pred             ----------HHHHHHHHHHhCccccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCCchHHH
Confidence                      999999999999999985 6999999999999999999999999999988765543

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.39  E-value=1.8e-07  Score=82.72  Aligned_cols=104  Identities=12%  Similarity=-0.012  Sum_probs=88.1

Q ss_pred             hhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcC---CCC----CcccccchhHHHHHHHhhhccCCCCCcccCccCCCCC
Q 012162           19 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNI---KPG----DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDP   91 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~---~p~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (469)
                      ...+..+...|..+...|+|++|+..|.+++++   .++    ...++.++|.++..+|++                   
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            345677889999999999999999999999998   442    246789999999999999                   


Q ss_pred             chhHHHHHHHHHHHhhcccc------chHHHHHHHHHHHHHhHHHHHHHHHhccccCCCC
Q 012162           92 TTHAELALKDAEKLLNLQSN------SMKSHLLKANALILLERYDMARDAILSGLQVDPF  145 (469)
Q Consensus        92 ~~~~~~A~~~~~~al~l~p~------~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~  145 (469)
                          ++|+..+++++++.+.      ...++..+|.++...|++++|+..+++++++...
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      2345689999999999999999999999987543

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.37  E-value=3.7e-07  Score=85.73  Aligned_cols=114  Identities=9%  Similarity=-0.004  Sum_probs=93.0

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      .......|..+...|+|++|.+.|+.++...|++. +++.+|.++++.++|                       ++|+..
T Consensus       102 ~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~p~~~-~~~~~a~l~~~~~r~-----------------------~dA~~~  157 (282)
T 4f3v_A          102 LAITMGFAACEAAQGNYADAMEALEAAPVAGSEHL-VAWMKAVVYGAAERW-----------------------TDVIDQ  157 (282)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTSSCCTTCHHH-HHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             hHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCchH-HHHHHHHHHHHcCCH-----------------------HHHHHH
Confidence            34455678899999999999999999999999988 999999999999999                       999999


Q ss_pred             HHHHhhcc-ccc-hHHHHHHHHHHHHHhHHHHHHHHHhccccCC--CC-CchhHHHHHHHHHh
Q 012162          102 AEKLLNLQ-SNS-MKSHLLKANALILLERYDMARDAILSGLQVD--PF-SNPLQASLQNLERT  159 (469)
Q Consensus       102 ~~~al~l~-p~~-~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--p~-~~~~~~~~~~~~~~  159 (469)
                      +++++... |.. ..+++.+|.++..+|++++|+.+|++++.-.  |. ..++...+..+-..
T Consensus       158 l~~a~~~~d~~~~~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~  220 (282)
T 4f3v_A          158 VKSAGKWPDKFLAGAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRS  220 (282)
T ss_dssp             HTTGGGCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHH
T ss_pred             HHHhhccCCcccHHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHH
Confidence            99998874 322 4589999999999999999999999998644  44 33344444333333

>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=98.35  E-value=7.3e-08  Score=93.07  Aligned_cols=43  Identities=30%  Similarity=0.893  Sum_probs=39.2

Q ss_pred             cccccccccccccccEEccCCCc-ccHHHHHHHcccCCCccccccccc
Q 012162          176 DDFDCTLCLKLLYEPITTPCGHS-FCRSCLFQSMDRGNKCPLCRAVLF  222 (469)
Q Consensus       176 ~~~~C~ic~~~~~~p~~~~cgh~-~C~~Ci~~~~~~~~~CP~Cr~~~~  222 (469)
                      +...|+||++.+.+|+.+||||+ ||..|+..+    ..||.||.++.
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            45789999999999999999999 999999877    68999999874

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=98.35  E-value=5.8e-07  Score=73.05  Aligned_cols=110  Identities=11%  Similarity=0.042  Sum_probs=93.2

Q ss_pred             HHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhcc-c-
Q 012162           33 FRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQ-S-  110 (469)
Q Consensus        33 ~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~-p-  110 (469)
                      ........+...|.+++..++....+-++.|+++.+..+.                    .+..+++..++..++-+ | 
T Consensus        12 ~~~~~l~~~~~~y~~e~~~~~~s~~~~F~yAw~Lv~S~~~--------------------~d~~~GI~lLe~l~~~~~p~   71 (126)
T 1nzn_A           12 VSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYN--------------------DDIRKGIVLLEELLPKGSKE   71 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSH--------------------HHHHHHHHHHHHHTTTSCHH
T ss_pred             CCHHHHHHHHHHHHHHhccCCCcHHHHHHHHHHHHcCCCH--------------------HHHHHHHHHHHHHHhcCCcc
Confidence            3445566778888888888888889999999999876544                    22267999999999988 6 


Q ss_pred             cchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhh
Q 012162          111 NSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus       111 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                      ..-+.+|.+|.+++++|+|++|+.+++..|+.+|+|..+......+++++..
T Consensus        72 ~~Rd~lY~LAvg~yklg~Y~~A~~~~~~lL~~eP~n~QA~~Lk~~i~~~i~k  123 (126)
T 1nzn_A           72 EQRDYVFYLAVGNYRLKEYEKALKYVRGLLQTEPQNNQAKELERLIDKAMKK  123 (126)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHh
Confidence            6788999999999999999999999999999999999999998888887754

>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=98.34  E-value=6.3e-08  Score=77.97  Aligned_cols=45  Identities=20%  Similarity=0.495  Sum_probs=0.4

Q ss_pred             cccccccccccccc-----------------E-EccCCCcccHHHHHHHcccCCCcccccccc
Q 012162          177 DFDCTLCLKLLYEP-----------------I-TTPCGHSFCRSCLFQSMDRGNKCPLCRAVL  221 (469)
Q Consensus       177 ~~~C~ic~~~~~~p-----------------~-~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~  221 (469)
                      .-.|.||++.|.++                 + .++|||.||..||.+|+.....||+||.++
T Consensus        48 ~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~  110 (117)
T 4a0k_B           48 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREW  110 (117)
T ss_dssp             C--------------------------------------------------------------
T ss_pred             CCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCee
Confidence            35899999998764                 2 258999999999999999888999999886

>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=98.31  E-value=5.6e-07  Score=73.00  Aligned_cols=85  Identities=9%  Similarity=0.109  Sum_probs=76.4

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC-------cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCch
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD-------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT   93 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~-------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (469)
                      ....+...|..++..|+|++|+..|.++++.+|++       +.+++++|.+|..+|++                     
T Consensus        37 ~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~---------------------   95 (131)
T 1elr_A           37 NMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNSYFKEEKY---------------------   95 (131)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHTTCH---------------------
T ss_pred             cHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHHHHHHHHhccH---------------------
Confidence            35677889999999999999999999999999887       88999999999999999                     


Q ss_pred             hHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHH
Q 012162           94 HAELALKDAEKLLNLQSNSMKSHLLKANALILLERY  129 (469)
Q Consensus        94 ~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~  129 (469)
                        ++|+..++++++++| ++..+..++.++..+++.
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 588888888887776653

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=98.29  E-value=8.5e-07  Score=70.40  Aligned_cols=83  Identities=13%  Similarity=-0.048  Sum_probs=73.3

Q ss_pred             cccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhcc-------ccchHHHHHHHHHHHHHhHHH
Q 012162           58 VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQ-------SNSMKSHLLKANALILLERYD  130 (469)
Q Consensus        58 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~-------p~~~~~~~~~g~~~~~~~~~~  130 (469)
                      -.+.+|..++..++|                       ..|+..+++|++..       +..+..+..+|.+++.+|+++
T Consensus         7 dc~~lG~~~~~~~~y-----------------------~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~   63 (104)
T 2v5f_A            7 DCFELGKVAYTEADY-----------------------YHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLD   63 (104)
T ss_dssp             HHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHccch-----------------------HHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHH
Confidence            356789999999999                       99999999999864       456789999999999999999


Q ss_pred             HHHHHHhccccCCCCCchhHHHHHHHHHhhhhh
Q 012162          131 MARDAILSGLQVDPFSNPLQASLQNLERTTASL  163 (469)
Q Consensus       131 ~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~  163 (469)
                      +|+..++++++++|++..+...+..+++.+...
T Consensus        64 ~A~~~~~~al~l~P~~~~~~~n~~~~~~~~~~~   96 (104)
T 2v5f_A           64 KALLLTKKLLELDPEHQRANGNLKYFEYIMAKE   96 (104)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCCHHHHhhHHHHHHHHHhc
Confidence            999999999999999999988888777766544

>2d8s_A Cellular modulator of immune recognition; C-MIR, march8, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.22  E-value=8.4e-07  Score=66.47  Aligned_cols=50  Identities=26%  Similarity=0.555  Sum_probs=41.3

Q ss_pred             Cccccccccccccc--cccEEccCC-----CcccHHHHHHHcccC--CCcccccccccc
Q 012162          174 RTDDFDCTLCLKLL--YEPITTPCG-----HSFCRSCLFQSMDRG--NKCPLCRAVLFI  223 (469)
Q Consensus       174 ~~~~~~C~ic~~~~--~~p~~~~cg-----h~~C~~Ci~~~~~~~--~~CP~Cr~~~~~  223 (469)
                      ..+...|.||++.+  .+++.+||+     |.|+..||.+|+..+  ..||+||..+..
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            34556899999876  468889996     999999999999865  489999998854

>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=98.21  E-value=6.5e-07  Score=95.58  Aligned_cols=75  Identities=17%  Similarity=0.196  Sum_probs=66.1

Q ss_pred             CCCccccccccccccccccEEccCC-CcccHHHHHHHcccCCCccccccccccCCCcccCcccHHHHHHHhchHHHHH
Q 012162          172 PERTDDFDCTLCLKLLYEPITTPCG-HSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNFPEEYAE  248 (469)
Q Consensus       172 ~~~~~~~~C~ic~~~~~~p~~~~cg-h~~C~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~  248 (469)
                      ....+.+.|||..++|.+||+++.| +||.+.+|.+|+..+.+||..|+++..  ..+.+|..|++.|+.|..+....
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            4567899999999999999999998 699999999999888899999999854  57899999999999998665543

>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=98.16  E-value=1.9e-06  Score=72.09  Aligned_cols=96  Identities=11%  Similarity=-0.011  Sum_probs=81.6

Q ss_pred             hHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHH----HHhhhccCCCCCcccCccCCCCCchhHHHHHHHHH
Q 012162           28 KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIR----ISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  103 (469)
Q Consensus        28 ~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~  103 (469)
                      .|..+...+.+++|+..|++|.+.  .++.+++++|.+|..    .+++                       .+|+..++
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            667777778888999999999987  688999999999987    6777                       99999999


Q ss_pred             HHhhccccchHHHHHHHHHHHH----HhHHHHHHHHHhccccCCCCCchhHHH
Q 012162          104 KLLNLQSNSMKSHLLKANALIL----LERYDMARDAILSGLQVDPFSNPLQAS  152 (469)
Q Consensus       104 ~al~l~p~~~~~~~~~g~~~~~----~~~~~~A~~~~~~al~~~p~~~~~~~~  152 (469)
                      +|.+.  .++.+++.+|.+|..    .+++++|+.+|++|.+..  ++.+...
T Consensus        86 ~Aa~~--g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g--~~~A~~~  134 (138)
T 1klx_A           86 KACGL--NDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG--SEDACGI  134 (138)
T ss_dssp             HHHHT--TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--CHHHHHH
T ss_pred             HHHcC--CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC--CHHHHHH
Confidence            99987  678999999999998    899999999999998873  4444333

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=98.16  E-value=1.8e-06  Score=84.47  Aligned_cols=103  Identities=15%  Similarity=0.124  Sum_probs=88.9

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcc------cccchhHHHHHHHhhhccCCCCCcccCccCCCCCchh
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPI------VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH   94 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~------~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (469)
                      .+..+...|..++..|+|++|+..|.+++++.|....      ++.++|.++...|++                      
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            4556778899999999999999999999998776543      367889999999999                      


Q ss_pred             HHHHHHHHHHHhhcc--------ccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCC
Q 012162           95 AELALKDAEKLLNLQ--------SNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS  146 (469)
Q Consensus        95 ~~~A~~~~~~al~l~--------p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~  146 (469)
                       ++|+..+++++++.        |....++..+|.++...|++++|...+++++++.+..
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

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=98.12  E-value=3.2e-06  Score=65.55  Aligned_cols=72  Identities=14%  Similarity=0.116  Sum_probs=65.2

Q ss_pred             hhHHHHHHhHHHHHHhcc---HHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHH
Q 012162           20 THVFDLVQKGNRAFRESN---FEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE   96 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~---~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (469)
                      .++..+...|..++..++   ..+|..++++|++++|+++.++..+|..++..|+|                       +
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y-----------------------~   60 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRF-----------------------Q   60 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------H
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCH-----------------------H
Confidence            346788889999976666   79999999999999999999999999999999999                       9


Q ss_pred             HHHHHHHHHhhccccchH
Q 012162           97 LALKDAEKLLNLQSNSMK  114 (469)
Q Consensus        97 ~A~~~~~~al~l~p~~~~  114 (469)
                      +|+..++++++.+|.++.
T Consensus        61 ~Ai~~w~~~l~~~p~~~~   78 (93)
T 3bee_A           61 EAIDTWVLLLDSNDPNLD   78 (93)
T ss_dssp             HHHHHHHHHHTCCCTTCC
T ss_pred             HHHHHHHHHHhhCCCCcc
Confidence            999999999999998544

>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=98.09  E-value=1.8e-06  Score=80.51  Aligned_cols=104  Identities=23%  Similarity=0.198  Sum_probs=87.2

Q ss_pred             hhHHHHHHhHHHHHH-----hcc------HHHHHHHHHHHhcCCCC--CcccccchhHHHHHH-----HhhhccCCCCCc
Q 012162           20 THVFDLVQKGNRAFR-----ESN------FEEAISNYSRANNIKPG--DPIVLGNRSSAYIRI-----SQFLKHRPPSAS   81 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~-----~~~------~~~A~~~y~~al~~~p~--~~~~~~~~a~~~~~~-----~~~~~~~~~~~~   81 (469)
                      ..++.++-.|.....     .|+      ...|...+++|+++||+  +..+|..+|..|...     |+.         
T Consensus       150 ~dve~L~W~ai~~ss~a~~~~gg~~Al~~l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~---------  220 (301)
T 3u64_A          150 VDVGTLYWVGTGYVAAFALTPLGSALPDTVHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGM---------  220 (301)
T ss_dssp             GGHHHHHHHHHHHHHHHTTSCTTSCCHHHHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCH---------
T ss_pred             cccHHHHHHHHHHHHHHhcCCCChHHHHhHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCH---------
Confidence            345666655544422     233      47899999999999999  677999999999885     788         


Q ss_pred             ccCccCCCCCchhHHHHHHHHHHHhhccccc-hHHHHHHHHHHHH-HhHHHHHHHHHhccccCCCCC
Q 012162           82 EYRPLNGLDPTTHAELALKDAEKLLNLQSNS-MKSHLLKANALIL-LERYDMARDAILSGLQVDPFS  146 (469)
Q Consensus        82 ~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~-~~~~~~~g~~~~~-~~~~~~A~~~~~~al~~~p~~  146 (469)
                                    ++|...+++|++++|+. ...++..|..+.. .|++++|...+++|++.+|..
T Consensus       221 --------------ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~p~~  273 (301)
T 3u64_A          221 --------------EKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAGFDEALDRALAIDPES  273 (301)
T ss_dssp             --------------HHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCCGGG
T ss_pred             --------------HHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCCC
Confidence                          99999999999999975 9999999999987 599999999999999998874

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.04  E-value=3.3e-06  Score=86.20  Aligned_cols=105  Identities=8%  Similarity=-0.055  Sum_probs=88.3

Q ss_pred             CChhhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcC-----CCCC---cccccchhHHHHHHHhhhccCCCCCcccCc
Q 012162           14 LPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNI-----KPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRP   85 (469)
Q Consensus        14 ~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~-----~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~   85 (469)
                      +.++....+..+.+.|..|..+|+|++|+.+|++++++     .|++   +..++++|.+|..+|+|             
T Consensus       343 lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~~G~~-------------  409 (490)
T 3n71_A          343 FADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRAGLTNWHAGHI-------------  409 (490)
T ss_dssp             BCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHTTCH-------------
T ss_pred             cCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCH-------------
Confidence            33445556888899999999999999999999999976     3444   47789999999999999             


Q ss_pred             cCCCCCchhHHHHHHHHHHHhhc-----cccc---hHHHHHHHHHHHHHhHHHHHHHHHhcccc
Q 012162           86 LNGLDPTTHAELALKDAEKLLNL-----QSNS---MKSHLLKANALILLERYDMARDAILSGLQ  141 (469)
Q Consensus        86 ~~~~~~~~~~~~A~~~~~~al~l-----~p~~---~~~~~~~g~~~~~~~~~~~A~~~~~~al~  141 (469)
                                ++|+..+++|+++     .|++   .+....++.++..++.|.+|...|.++.+
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                      9999999999974     4554   45667889999999999999999988754

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=98.03  E-value=6.4e-06  Score=80.50  Aligned_cols=102  Identities=12%  Similarity=-0.034  Sum_probs=88.3

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcc-----cccchhHHHHHHHhhhccCCCCCcccCccCCCCCchh
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPI-----VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH   94 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (469)
                      ..+..+..+|..++..|++++|+..+++++...|.+..     ++.++|.++...|++                      
T Consensus        12 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~----------------------   69 (373)
T 1hz4_A           12 MHAEFNALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGEL----------------------   69 (373)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCH----------------------
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcH----------------------
Confidence            34667778899999999999999999999999876542     678889999999999                      


Q ss_pred             HHHHHHHHHHHhhccccch------HHHHHHHHHHHHHhHHHHHHHHHhccccCCC
Q 012162           95 AELALKDAEKLLNLQSNSM------KSHLLKANALILLERYDMARDAILSGLQVDP  144 (469)
Q Consensus        95 ~~~A~~~~~~al~l~p~~~------~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p  144 (469)
                       ++|+..+++++++.|...      .++..+|.++...|++++|+..|++++++.+
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             999999999999876543      3478899999999999999999999998753

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=97.98  E-value=5e-06  Score=84.88  Aligned_cols=95  Identities=14%  Similarity=0.032  Sum_probs=57.8

Q ss_pred             HHHHHhHHHHHHhc---cHHHHHHHHHHHhcCCCCCcccccchhHHHHH----HHhhhccCCCCCcccCccCCCCCchhH
Q 012162           23 FDLVQKGNRAFRES---NFEEAISNYSRANNIKPGDPIVLGNRSSAYIR----ISQFLKHRPPSASEYRPLNGLDPTTHA   95 (469)
Q Consensus        23 ~~~~~~g~~~~~~~---~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (469)
                      ..+...|..++..|   ++++|+..|++|++.  +++.+++++|.+|..    .+++                       
T Consensus       329 ~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~--~~~~a~~~Lg~~y~~g~g~~~~~-----------------------  383 (490)
T 2xm6_A          329 TAQANLGAIYFRLGSEEEHKKAVEWFRKAAAK--GEKAAQFNLGNALLQGKGVKKDE-----------------------  383 (490)
T ss_dssp             HHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHTSSSCCCH-----------------------
T ss_pred             HHHHHHHHHHHhCCCcccHHHHHHHHHHHHHC--CCHHHHHHHHHHHHcCCCCCCCH-----------------------
Confidence            33444555555433   566666666666655  355666666666655    4555                       


Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHH----HhHHHHHHHHHhccccCCC
Q 012162           96 ELALKDAEKLLNLQSNSMKSHLLKANALIL----LERYDMARDAILSGLQVDP  144 (469)
Q Consensus        96 ~~A~~~~~~al~l~p~~~~~~~~~g~~~~~----~~~~~~A~~~~~~al~~~p  144 (469)
                      ++|+..++++++..  ++.+++.+|.+|..    .+++++|+.+|++|++.+|
T Consensus       384 ~~A~~~~~~A~~~~--~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~  434 (490)
T 2xm6_A          384 QQAAIWMRKAAEQG--LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTNDM  434 (490)
T ss_dssp             HHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhCC--CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCC
Confidence            66666666666653  46666677776666    6667777777777776664

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=97.92  E-value=1.4e-05  Score=80.98  Aligned_cols=106  Identities=10%  Similarity=-0.064  Sum_probs=78.8

Q ss_pred             HHHHhHHHHHHhc---cHHHHHHHHHHHhcCCCCCcccccchhHHHHHH----HhhhccCCCCCcccCccCCCCCchhHH
Q 012162           24 DLVQKGNRAFRES---NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRI----SQFLKHRPPSASEYRPLNGLDPTTHAE   96 (469)
Q Consensus        24 ~~~~~g~~~~~~~---~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (469)
                      .+...|..+...|   ++++|+..|++|.+..|.++..++++|.+|...    +++                       +
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            5567777888888   888888888888888888777777888887554    345                       7


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHH-H--HHHhHHHHHHHHHhccccCCCCCchhHHHHHHHH
Q 012162           97 LALKDAEKLLNLQSNSMKSHLLKANA-L--ILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  157 (469)
Q Consensus        97 ~A~~~~~~al~l~p~~~~~~~~~g~~-~--~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~  157 (469)
                      +|+..++++.   |+++.+++.+|.+ +  ...+++++|+.+|+++.+.  +++.+...+..+-
T Consensus       235 ~A~~~~~~aa---~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~--g~~~A~~~Lg~~y  293 (452)
T 3e4b_A          235 TAQALLEKIA---PGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAA--DQPRAELLLGKLY  293 (452)
T ss_dssp             HHHHHHHHHG---GGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHT--TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHc---CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHC--CCHHHHHHHHHHH
Confidence            8888888877   7788888888887 4  4677888888888887754  4566655555443

>2ct0_A Non-SMC element 1 homolog; ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.89  E-value=2.4e-05  Score=57.24  Aligned_cols=49  Identities=20%  Similarity=0.487  Sum_probs=40.0

Q ss_pred             ccccccccccccccccEE-ccCCCcccHHHHHHHcccC--CCcccccccccc
Q 012162          175 TDDFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRG--NKCPLCRAVLFI  223 (469)
Q Consensus       175 ~~~~~C~ic~~~~~~p~~-~~cgh~~C~~Ci~~~~~~~--~~CP~Cr~~~~~  223 (469)
                      +....|.||..++..-.. ..|+|.|...||.+|+...  ..||.||..+..
T Consensus        13 ~~i~~C~IC~~~i~~g~~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~   64 (74)
T 2ct0_A           13 DAVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH   64 (74)
T ss_dssp             SSSCBCSSSCCBCSSSEECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCCS
T ss_pred             CCCCcCcchhhHcccCCccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCCC
Confidence            345689999998874443 4899999999999999866  689999988753

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=97.87  E-value=2.8e-05  Score=78.63  Aligned_cols=101  Identities=11%  Similarity=0.017  Sum_probs=85.5

Q ss_pred             HHhHHHHHHh----ccHHHHHHHHHHHhcCCCCCcccccchhHHHH---HHHhhhccCCCCCcccCccCCCCCchhHHHH
Q 012162           26 VQKGNRAFRE----SNFEEAISNYSRANNIKPGDPIVLGNRSSAYI---RISQFLKHRPPSASEYRPLNGLDPTTHAELA   98 (469)
Q Consensus        26 ~~~g~~~~~~----~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A   98 (469)
                      ...|..+...    +++++|+..|+++.   |+++.+++++|.+|+   ..+++                       ++|
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            5567666554    79999999999998   899999999999954   45667                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHh-----HHHHHHHHHhccccCCCCCchhHHHHHHHHH
Q 012162           99 LKDAEKLLNLQSNSMKSHLLKANALILLE-----RYDMARDAILSGLQVDPFSNPLQASLQNLER  158 (469)
Q Consensus        99 ~~~~~~al~l~p~~~~~~~~~g~~~~~~~-----~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~  158 (469)
                      +..++++.+.+  ++.+++.+|.+|. .|     ++++|+.+|++|.   ++++.+...+..+-.
T Consensus       271 ~~~~~~Aa~~g--~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa---~g~~~A~~~Lg~~y~  329 (452)
T 3e4b_A          271 MKYLDNGRAAD--QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV---GREVAADYYLGQIYR  329 (452)
T ss_dssp             HHHHHHHHHTT--CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT---TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCC--CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh---CCCHHHHHHHHHHHH
Confidence            99999998664  8999999999998 66     9999999999999   888888777766543

>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=97.86  E-value=4.3e-05  Score=62.20  Aligned_cols=88  Identities=11%  Similarity=0.040  Sum_probs=74.4

Q ss_pred             CcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccc-cchHHHHHHHHHHHHHhHHHHHH
Q 012162           55 DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQS-NSMKSHLLKANALILLERYDMAR  133 (469)
Q Consensus        55 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p-~~~~~~~~~g~~~~~~~~~~~A~  133 (469)
                      .+..-++.|+++.+..+.                    .+..+++..++..++-+| ..-+.+|.+|.+++++|+|++|+
T Consensus        39 s~qt~F~yAw~Lv~S~~~--------------------~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar   98 (134)
T 3o48_A           39 TIQSRFNYAWGLIKSTDV--------------------NDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAK   98 (134)
T ss_dssp             CHHHHHHHHHHHHHSSCH--------------------HHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             ChhhHHHHHHHHHcCCCH--------------------HHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHH
Confidence            456667778888776433                    122789999999999888 45788999999999999999999


Q ss_pred             HHHhccccCCCCCchhHHHHHHHHHhhhh
Q 012162          134 DAILSGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus       134 ~~~~~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                      .+.+..|+.+|+|..+......+++++.+
T Consensus        99 ~y~d~lL~~eP~N~QA~~Lk~~Ie~ki~k  127 (134)
T 3o48_A           99 RYVDTLFEHERNNKQVGALKSMVEDKIQK  127 (134)
T ss_dssp             HHHHHHHTTCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhCCCCHHHHHHHHHHHHHHHh
Confidence            99999999999999999999999888765

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=97.82  E-value=3.6e-05  Score=78.45  Aligned_cols=108  Identities=11%  Similarity=-0.023  Sum_probs=89.4

Q ss_pred             hhHHHHHHhHHHHHH----hccHHHHHHHHHHHhcCCCCCcccccchhHHHHH----HHhhhccCCCCCcccCccCCCCC
Q 012162           20 THVFDLVQKGNRAFR----ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIR----ISQFLKHRPPSASEYRPLNGLDP   91 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~----~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~----~~~~~~~~~~~~~~~~~~~~~~~   91 (469)
                      .++..+...|..++.    .+++++|+..|++|++.  +++.+++.+|.+|..    .+++                   
T Consensus        37 g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~--~~~~a~~~Lg~~y~~g~g~~~~~-------------------   95 (490)
T 2xm6_A           37 GEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQ--GYTPAEYVLGLRYMNGEGVPQDY-------------------   95 (490)
T ss_dssp             TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHTSSSCCCH-------------------
T ss_pred             CCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHC--CCHHHHHHHHHHHHcCCCCCCCH-------------------
Confidence            457788888999988    89999999999999886  678899999999988    7777                   


Q ss_pred             chhHHHHHHHHHHHhhccccchHHHHHHHHHHHH----HhHHHHHHHHHhccccCCCCCchhHHHHHHH
Q 012162           92 TTHAELALKDAEKLLNLQSNSMKSHLLKANALIL----LERYDMARDAILSGLQVDPFSNPLQASLQNL  156 (469)
Q Consensus        92 ~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~----~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~  156 (469)
                          ++|+..++++.+.  .++.+++.+|.+|..    .+++++|+.+|+++.+.  ++..+...+..+
T Consensus        96 ----~~A~~~~~~a~~~--~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~--~~~~a~~~Lg~~  156 (490)
T 2xm6_A           96 ----AQAVIWYKKAALK--GLPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQ--GRDSGQQSMGDA  156 (490)
T ss_dssp             ----HHHHHHHHHHHHT--TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT--TCHHHHHHHHHH
T ss_pred             ----HHHHHHHHHHHHC--CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC--CCHHHHHHHHHH
Confidence                8999999999875  478899999999988    78999999999998775  455555555443

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=97.77  E-value=7e-05  Score=61.72  Aligned_cols=90  Identities=11%  Similarity=0.041  Sum_probs=76.4

Q ss_pred             CCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccc-cchHHHHHHHHHHHHHhHHHH
Q 012162           53 PGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQS-NSMKSHLLKANALILLERYDM  131 (469)
Q Consensus        53 p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p-~~~~~~~~~g~~~~~~~~~~~  131 (469)
                      .-.+...++.|+++.+..+-                    .+..+++..++..++-+| ..-+.+|.+|.+++++|+|++
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~--------------------~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~   95 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDV--------------------NDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSM   95 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSH--------------------HHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHH
T ss_pred             CCcHHHHHHHHHHHHcCCCH--------------------HHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHH
Confidence            34567788888888876543                    222789999999999888 467789999999999999999


Q ss_pred             HHHHHhccccCCCCCchhHHHHHHHHHhhhh
Q 012162          132 ARDAILSGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus       132 A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                      |+.+.+..|+.+|+|..+......+++++..
T Consensus        96 Ar~y~d~lL~~eP~n~QA~~Lk~~Ie~~i~k  126 (144)
T 1y8m_A           96 AKRYVDTLFEHERNNKQVGALKSMVEDKIQK  126 (144)
T ss_dssp             HHHHHHHHHHTCCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCcHHHHHHHHHHHHHHHH
Confidence            9999999999999999999998888888755

>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=97.76  E-value=2.7e-05  Score=65.00  Aligned_cols=92  Identities=12%  Similarity=-0.023  Sum_probs=76.5

Q ss_pred             hccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchH
Q 012162           35 ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMK  114 (469)
Q Consensus        35 ~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~  114 (469)
                      .+|+++|+..|++|.+..  ++.+.  +|.+|...+..                       ++|+..++++.+.  .++.
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            468999999999999887  44444  88888777777                       8899999999987  6889


Q ss_pred             HHHHHHHHHHH----HhHHHHHHHHHhccccCCCCCchhHHHHHHHH
Q 012162          115 SHLLKANALIL----LERYDMARDAILSGLQVDPFSNPLQASLQNLE  157 (469)
Q Consensus       115 ~~~~~g~~~~~----~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~  157 (469)
                      +++.+|.+|..    .+++++|+.+|++|.+.  +++.+...+..+-
T Consensus        59 a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~--g~~~a~~~Lg~~y  103 (138)
T 1klx_A           59 GCRFLGDFYENGKYVKKDLRKAAQYYSKACGL--NDQDGCLILGYKQ  103 (138)
T ss_dssp             HHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT--TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCCCccHHHHHHHHHHHHcC--CCHHHHHHHHHHH
Confidence            99999999998    89999999999999886  5666666655543

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.72  E-value=3.1e-05  Score=65.22  Aligned_cols=79  Identities=13%  Similarity=0.016  Sum_probs=69.1

Q ss_pred             HHHHHHhHHHHHHhc---cHHHHHHHHHHHhcCC-C-CCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHH
Q 012162           22 VFDLVQKGNRAFRES---NFEEAISNYSRANNIK-P-GDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE   96 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~---~~~~A~~~y~~al~~~-p-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (469)
                      .+..++.|..+.+.+   ++.+|+..++..++.+ | ++.++++++|.+|+++++|                       .
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            566677888888866   7889999999999998 7 5689999999999999999                       9


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHH
Q 012162           97 LALKDAEKLLNLQSNSMKSHLLKANAL  123 (469)
Q Consensus        97 ~A~~~~~~al~l~p~~~~~~~~~g~~~  123 (469)
                      +|..+++++++++|+|..+...+-.+-
T Consensus        89 ~A~~y~~~lL~ieP~n~QA~~Lk~~ie  115 (152)
T 1pc2_A           89 KALKYVRGLLQTEPQNNQAKELERLID  115 (152)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCCHHHHHHHHHHH
Confidence            999999999999999988877665554

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=97.71  E-value=7.6e-05  Score=70.90  Aligned_cols=100  Identities=9%  Similarity=-0.037  Sum_probs=85.9

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCCC--CCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIKP--GDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ..+...|..+...|++++|+..+.+++..+|  ++..++...+.+++++|+.                       +.|.+
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            4456789999999999999999999999997  7889999999999999999                       99999


Q ss_pred             HHHHHhhcccc------chHHHHHHHHHHHHHh--HHHHHHHHHhccccCCCC
Q 012162          101 DAEKLLNLQSN------SMKSHLLKANALILLE--RYDMARDAILSGLQVDPF  145 (469)
Q Consensus       101 ~~~~al~l~p~------~~~~~~~~g~~~~~~~--~~~~A~~~~~~al~~~p~  145 (469)
                      .+++..+.+|+      ....+..-|++....|  ++.+|...|+++....|+
T Consensus       158 ~l~~~~~~~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~p~  210 (310)
T 3mv2_B          158 IFDNYTNAIEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTFPT  210 (310)
T ss_dssp             HHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTSCS
T ss_pred             HHHHHHhcCccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhCCC
Confidence            99999999993      3334444455577777  999999999999888886

>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=97.71  E-value=6.8e-05  Score=83.54  Aligned_cols=105  Identities=14%  Similarity=0.146  Sum_probs=86.8

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ...+...|..++..|+|++|+.+|.+|        ..|..+|.+|.++|+|                       ++|++.
T Consensus      1195 ~ad~~~iGd~le~eg~YeeA~~~Y~kA--------~ny~rLA~tLvkLge~-----------------------q~AIEa 1243 (1630)
T 1xi4_A         1195 NAHIQQVGDRCYDEKMYDAAKLLYNNV--------SNFGRLASTLVHLGEY-----------------------QAAVDG 1243 (1630)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHhh--------hHHHHHHHHHHHhCCH-----------------------HHHHHH
Confidence            356778999999999999999999997        4688899999999999                       999999


Q ss_pred             HHHHhhccc-------------------------cchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHH
Q 012162          102 AEKLLNLQS-------------------------NSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  156 (469)
Q Consensus       102 ~~~al~l~p-------------------------~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~  156 (469)
                      +++|...++                         .+++-+..++..|...|.|++|+..++++|.++|.+......+..+
T Consensus      1244 arKA~n~~aWkev~~acve~~Ef~LA~~cgl~Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiL 1323 (1630)
T 1xi4_A         1244 ARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAIL 1323 (1630)
T ss_pred             HHHhCCHHHHHHHHHHHhhhhHHHHHHHHHHhhhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHH
Confidence            998855543                         2444566777788899999999999999999999888777665554


Q ss_pred             H
Q 012162          157 E  157 (469)
Q Consensus       157 ~  157 (469)
                      -
T Consensus      1324 y 1324 (1630)
T 1xi4_A         1324 Y 1324 (1630)
T ss_pred             H
Confidence            3

>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=97.65  E-value=5.5e-05  Score=75.21  Aligned_cols=103  Identities=15%  Similarity=0.161  Sum_probs=66.8

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHH
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  102 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~  102 (469)
                      ..+...|..++..|+|++|+.+|+++        ..|..+|.++.++|+|                       ++|++.+
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            47788899999999999999999877        4678889999999999                       8888888


Q ss_pred             HHHhhcccc---------------------------chHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHH
Q 012162          103 EKLLNLQSN---------------------------SMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  155 (469)
Q Consensus       103 ~~al~l~p~---------------------------~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~  155 (469)
                      .++.  +|.                           +++-...+...|...|++++|+..+++++.+++.+-.+...+..
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            8882  221                           11112233467888899999999999999999888777777655


Q ss_pred             HHH
Q 012162          156 LER  158 (469)
Q Consensus       156 ~~~  158 (469)
                      +..
T Consensus       250 l~~  252 (449)
T 1b89_A          250 LYS  252 (449)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=97.55  E-value=0.00014  Score=69.01  Aligned_cols=100  Identities=11%  Similarity=-0.012  Sum_probs=82.8

Q ss_pred             HhHHHHHHhc--cHHHHHHHHHHHhcCCCC--CcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHH
Q 012162           27 QKGNRAFRES--NFEEAISNYSRANNIKPG--DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  102 (469)
Q Consensus        27 ~~g~~~~~~~--~~~~A~~~y~~al~~~p~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~  102 (469)
                      ..|...+..|  ++.+|...|+++.+..|+  .+..+++   +++++|+|                       ++|...+
T Consensus       181 aea~v~l~~g~~~~q~A~~~f~El~~~~p~~~~~~lLln---~~~~~g~~-----------------------~eAe~~L  234 (310)
T 3mv2_B          181 AESYIKFATNKETATSNFYYYEELSQTFPTWKTQLGLLN---LHLQQRNI-----------------------AEAQGIV  234 (310)
T ss_dssp             HHHHHHHHHTCSTTTHHHHHHHHHHTTSCSHHHHHHHHH---HHHHHTCH-----------------------HHHHHHH
T ss_pred             HHHHHHHHhCCccHHHHHHHHHHHHHhCCCcccHHHHHH---HHHHcCCH-----------------------HHHHHHH
Confidence            3444466556  999999999999888886  3445555   89999999                       9999999


Q ss_pred             HHHhhc----------cccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHH
Q 012162          103 EKLLNL----------QSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQ  154 (469)
Q Consensus       103 ~~al~l----------~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~  154 (469)
                      +.++++          +|+++.++.++..+...+|+  +|.+.+.++.+.+|+++.+.....
T Consensus       235 ~~l~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp~i~d~~~  294 (310)
T 3mv2_B          235 ELLLSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHAFIKHHQE  294 (310)
T ss_dssp             HHHHSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCHHHHHHHH
T ss_pred             HHHHHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCChHHHHHHH
Confidence            988887          58899999999888888897  899999999999999997754443

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus}

Probab=97.55  E-value=4.6e-05  Score=58.00  Aligned_cols=44  Identities=25%  Similarity=0.555  Sum_probs=34.8

Q ss_pred             cccccccccccc-EEccCCCcccHHHHHHHccc-CCCccccccccc
Q 012162          179 DCTLCLKLLYEP-ITTPCGHSFCRSCLFQSMDR-GNKCPLCRAVLF  222 (469)
Q Consensus       179 ~C~ic~~~~~~p-~~~~cgh~~C~~Ci~~~~~~-~~~CP~Cr~~~~  222 (469)
                      .|+.|.-.+..- ..+||+|.||.+|+..|... .+.||.|+.++.
T Consensus         3 fC~~C~~Pi~iygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~   48 (101)
T 3vk6_A            3 FCDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQ   48 (101)
T ss_dssp             BCTTTCSBCSEEEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCS
T ss_pred             ecCccCCCeEEEeeeccccccHHHHHHHHHHhccCCCCcCcCCeee
Confidence            477777655443 46899999999999998754 568999999873

>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=97.54  E-value=0.00026  Score=65.98  Aligned_cols=90  Identities=10%  Similarity=-0.074  Sum_probs=68.8

Q ss_pred             hcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhcccc--chHHHHHHHHHHHHH
Q 012162           49 NNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSN--SMKSHLLKANALILL  126 (469)
Q Consensus        49 l~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~--~~~~~~~~g~~~~~~  126 (469)
                      -+.+|+++.++++.|.+....-.-            .-.+...-.++..|...+++|+++||+  +..+|..+|..|...
T Consensus       145 ~~~~~~dve~L~W~ai~~ss~a~~------------~~gg~~Al~~l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~v  212 (301)
T 3u64_A          145 SRCTRVDVGTLYWVGTGYVAAFAL------------TPLGSALPDTVHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAA  212 (301)
T ss_dssp             TTCCGGGHHHHHHHHHHHHHHHTT------------SCTTSCCHHHHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHS
T ss_pred             HHcCccccHHHHHHHHHHHHHHhc------------CCCChHHHHhHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhC
Confidence            345778888888888877543211            011233344568899999999999999  566999999999984


Q ss_pred             -----hHHHHHHHHHhccccCCCCC-chhH
Q 012162          127 -----ERYDMARDAILSGLQVDPFS-NPLQ  150 (469)
Q Consensus       127 -----~~~~~A~~~~~~al~~~p~~-~~~~  150 (469)
                           |+.++|..+|++|++++|+. ....
T Consensus       213 Pp~~gGd~ekA~~~ferAL~LnP~~~id~~  242 (301)
T 3u64_A          213 PESFGGGMEKAHTAFEHLTRYCSAHDPDHH  242 (301)
T ss_dssp             CTTTTCCHHHHHHHHHHHHHHCCTTCSHHH
T ss_pred             CCccCCCHHHHHHHHHHHHHhCCCCCchHH
Confidence                 99999999999999999975 5443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.47  E-value=0.0002  Score=71.08  Aligned_cols=103  Identities=9%  Similarity=0.042  Sum_probs=69.9

Q ss_pred             hhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc------------------------------------------
Q 012162           19 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP------------------------------------------   56 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~------------------------------------------   56 (469)
                      .....++...|..++..|+|++|+..|.++++..+...                                          
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            33456678889999999999999999988876544321                                          


Q ss_pred             ----ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhc------cccchHHHHHHHHHHHHH
Q 012162           57 ----IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNL------QSNSMKSHLLKANALILL  126 (469)
Q Consensus        57 ----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l------~p~~~~~~~~~g~~~~~~  126 (469)
                          .++.++|.+|...|+|                       .+|+..+.+++..      .+....++...|.+|..+
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                2334556666666666                       6777766666553      344455677777777777


Q ss_pred             hHHHHHHHHHhccccCCC
Q 012162          127 ERYDMARDAILSGLQVDP  144 (469)
Q Consensus       127 ~~~~~A~~~~~~al~~~p  144 (469)
                      |+|++|...|++++.+.+
T Consensus       189 ~~~~~A~~~~~~al~~~~  206 (434)
T 4b4t_Q          189 RNLAKSKASLTAARTAAN  206 (434)
T ss_dssp             TCHHHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHHhh
Confidence            777777777777766544

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=97.43  E-value=0.00022  Score=60.46  Aligned_cols=94  Identities=9%  Similarity=0.036  Sum_probs=78.7

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcc---------cccchhHHHHHHHhhhccCCCCCcccCccCCCCCch
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPI---------VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT   93 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (469)
                      ..+++....++..|.|+.|+..+..++.+..+++.         ++...|.+++..++|                     
T Consensus        21 ~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~ey---------------------   79 (167)
T 3ffl_A           21 MNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEY---------------------   79 (167)
T ss_dssp             CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCH---------------------
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHH---------------------
Confidence            45778889999999999999999998888655554         678899999999999                     


Q ss_pred             hHHHHHHHHHHHhhccc---c----------------------chHHHHHHHHHHHHHhHHHHHHHHHhcc
Q 012162           94 HAELALKDAEKLLNLQS---N----------------------SMKSHLLKANALILLERYDMARDAILSG  139 (469)
Q Consensus        94 ~~~~A~~~~~~al~l~p---~----------------------~~~~~~~~g~~~~~~~~~~~A~~~~~~a  139 (469)
                        ..|...|++||++.-   +                      ..+..|.+|.||..+|++++|+..++..
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              999999999876431   1                      1267799999999999999999998864

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.34  E-value=0.00022  Score=70.80  Aligned_cols=96  Identities=10%  Similarity=0.042  Sum_probs=75.3

Q ss_pred             HHHhHHHHHHhccHHHHHHHHHHHhcCCCCCccc-----------------ccchhHHHHHHHhhhccCCCCCcccCccC
Q 012162           25 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIV-----------------LGNRSSAYIRISQFLKHRPPSASEYRPLN   87 (469)
Q Consensus        25 ~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~-----------------~~~~a~~~~~~~~~~~~~~~~~~~~~~~~   87 (469)
                      ...+|..+.+.|+|++|++.|.++++.+|.....                 +.++|.+|...|+|               
T Consensus         7 ~l~~a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~---------------   71 (434)
T 4b4t_Q            7 KLEEARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAK---------------   71 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCH---------------
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCH---------------
Confidence            4678999999999999999999999999986543                 56788999999999               


Q ss_pred             CCCCchhHHHHHHHHHHHhhccccchHH------HHHHHHHHHHHhHHHHHHHHHhccccCC
Q 012162           88 GLDPTTHAELALKDAEKLLNLQSNSMKS------HLLKANALILLERYDMARDAILSGLQVD  143 (469)
Q Consensus        88 ~~~~~~~~~~A~~~~~~al~l~p~~~~~------~~~~g~~~~~~~~~~~A~~~~~~al~~~  143 (469)
                              ++|+..+.+++++.+...++      +..+|.++...|++++|+..+++++...
T Consensus        72 --------~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  125 (434)
T 4b4t_Q           72 --------DKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFA  125 (434)
T ss_dssp             --------HHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHH
T ss_pred             --------HHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHH
Confidence                    99999999988876554332      3345666666777777777777776553

>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=97.18  E-value=0.0003  Score=78.49  Aligned_cols=65  Identities=11%  Similarity=0.005  Sum_probs=57.9

Q ss_pred             CCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHH
Q 012162           53 PGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMA  132 (469)
Q Consensus        53 p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A  132 (469)
                      .+.+.+|+++|.++...|++                       .+|+..|.+|     +++.+|+.+|.++..+|+|++|
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            35678899999999999999                       9999999886     8889999999999999999999


Q ss_pred             HHHHhccccCCCC
Q 012162          133 RDAILSGLQVDPF  145 (469)
Q Consensus       133 ~~~~~~al~~~p~  145 (469)
                      +++|..|.+..++
T Consensus      1154 IeyL~mArk~~~e 1166 (1630)
T 1xi4_A         1154 VKYLQMARKKARE 1166 (1630)
T ss_pred             HHHHHHHHhhccc
Confidence            9999999988755

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.12  E-value=0.00049  Score=68.92  Aligned_cols=89  Identities=13%  Similarity=0.025  Sum_probs=70.2

Q ss_pred             CCChhhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcC-----CCCC---cccccchhHHHHHHHhhhccCCCCCcccC
Q 012162           13 SLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNI-----KPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYR   84 (469)
Q Consensus        13 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~-----~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   84 (469)
                      .+.+.....+..+.+.|..|..+|+|++|+.+|.+++++     .|++   +..++++|.+|..+|+|            
T Consensus       320 ~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~nLa~~~~~~g~~------------  387 (429)
T 3qwp_A          320 RLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMKVGKLQLHQGMF------------  387 (429)
T ss_dssp             CCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCH------------
T ss_pred             cCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHHHHHHHHhcCCH------------
Confidence            344556667888999999999999999999999999976     3444   47789999999999999            


Q ss_pred             ccCCCCCchhHHHHHHHHHHHhhc-----cccchHH---HHHHHHHHH
Q 012162           85 PLNGLDPTTHAELALKDAEKLLNL-----QSNSMKS---HLLKANALI  124 (469)
Q Consensus        85 ~~~~~~~~~~~~~A~~~~~~al~l-----~p~~~~~---~~~~g~~~~  124 (469)
                                 ++|+..+++|+++     .|+++..   +..++.+..
T Consensus       388 -----------~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~  424 (429)
T 3qwp_A          388 -----------PQAMKNLRLAFDIMRVTHGREHSLIEDLILLLEECDA  424 (429)
T ss_dssp             -----------HHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHH
T ss_pred             -----------HHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHH
Confidence                       9999999999884     4666543   344444443

>3k1l_B Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A {Drosophila melanogaster}

Probab=97.11  E-value=0.00012  Score=68.94  Aligned_cols=49  Identities=22%  Similarity=0.651  Sum_probs=38.4

Q ss_pred             ccccccccccccccc----cE----EccCCCcccHHHHHHHcccC-----------CCcccccccccc
Q 012162          175 TDDFDCTLCLKLLYE----PI----TTPCGHSFCRSCLFQSMDRG-----------NKCPLCRAVLFI  223 (469)
Q Consensus       175 ~~~~~C~ic~~~~~~----p~----~~~cgh~~C~~Ci~~~~~~~-----------~~CP~Cr~~~~~  223 (469)
                      +....|+||+..+.+    |.    ...|||.|...||.+|+...           ..||.||.+++.
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~  373 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLST  373 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEG
T ss_pred             cCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCc
Confidence            456689999988776    31    14799999999999998631           359999998853

>1vyx_A ORF K3, K3RING; zinc-binding protein, ring domain, cross-brace motif; NMR {Human herpesvirus 8} SCOP: g.44.1.3

Probab=97.10  E-value=0.00028  Score=49.42  Aligned_cols=47  Identities=28%  Similarity=0.478  Sum_probs=38.1

Q ss_pred             cccccccccccccccEEccCC--C---cccHHHHHHHccc--CCCccccccccc
Q 012162          176 DDFDCTLCLKLLYEPITTPCG--H---SFCRSCLFQSMDR--GNKCPLCRAVLF  222 (469)
Q Consensus       176 ~~~~C~ic~~~~~~p~~~~cg--h---~~C~~Ci~~~~~~--~~~CP~Cr~~~~  222 (469)
                      +...|.||+....+|...||.  +   .|...|+.+|+..  +..||+|+.++.
T Consensus         5 ~~~~CrIC~~~~~~~l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            5 DVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             SCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCEeEEeecCCCCceecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            455899999887778778865  4   7999999999974  458999998763

>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=96.92  E-value=0.00089  Score=64.82  Aligned_cols=92  Identities=10%  Similarity=-0.033  Sum_probs=71.7

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      +..+...|..++..|++++|+..+++|+.++|+ ..+|..+|.++...|++                       ++|+..
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            455556677778889999999999999999974 66778889999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHH-HHHhHHHHHHHHHh
Q 012162          102 AEKLLNLQSNSMKSHLLKANAL-ILLERYDMARDAIL  137 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~-~~~~~~~~A~~~~~  137 (469)
                      +++|+.++|..+..++..+.++ ..+...+-++..|.
T Consensus       333 ~~~AlrL~P~~~t~~~~~~l~F~sn~~~i~~~~~~~~  369 (372)
T 3ly7_A          333 YLTAFNLRPGANTLYWIENGIFQTSVPYVVPYLDKFL  369 (372)
T ss_dssp             HHHHHHHSCSHHHHHHHHHSSSCCCHHHHCHHHHHHH
T ss_pred             HHHHHhcCCCcChHHHHhCceeecchhhhHHHHHhcc
Confidence            9999999998864333333333 45666666665553

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=96.92  E-value=0.00048  Score=69.00  Aligned_cols=79  Identities=8%  Similarity=-0.040  Sum_probs=66.2

Q ss_pred             CChhhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcC-----CCC---CcccccchhHHHHHHHhhhccCCCCCcccCc
Q 012162           14 LPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNI-----KPG---DPIVLGNRSSAYIRISQFLKHRPPSASEYRP   85 (469)
Q Consensus        14 ~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~-----~p~---~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~   85 (469)
                      +.++....+..+.+.|..|..+|+|++|+.+|++++++     .|+   -+..++++|.+|..+|+|             
T Consensus       332 lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~-------------  398 (433)
T 3qww_A          332 FEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYMGLENK-------------  398 (433)
T ss_dssp             BCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCH-------------
T ss_pred             cChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhccCH-------------
Confidence            34455566888899999999999999999999999976     344   447789999999999999             


Q ss_pred             cCCCCCchhHHHHHHHHHHHhhc-----cccchHH
Q 012162           86 LNGLDPTTHAELALKDAEKLLNL-----QSNSMKS  115 (469)
Q Consensus        86 ~~~~~~~~~~~~A~~~~~~al~l-----~p~~~~~  115 (469)
                                ++|+..+++|+++     .|+++..
T Consensus       399 ----------~eA~~~~~~Al~i~~~~lG~~Hp~~  423 (433)
T 3qww_A          399 ----------AAGEKALKKAIAIMEVAHGKDHPYI  423 (433)
T ss_dssp             ----------HHHHHHHHHHHHHHHHHTCTTCHHH
T ss_pred             ----------HHHHHHHHHHHHHHHHHcCCCChHH
Confidence                      9999999999985     5777654

>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=96.90  E-value=0.0011  Score=65.95  Aligned_cols=109  Identities=16%  Similarity=0.079  Sum_probs=86.0

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccc------------------------------hhHHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGN------------------------------RSSAYIRIS   70 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~------------------------------~a~~~~~~~   70 (469)
                      ++..+...|..+.+.|+|++|++.|.+|.     ++..|..                              +...|.+.|
T Consensus       147 ~a~n~~~LA~~L~~Lg~yq~AVea~~KA~-----~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~~~ad~l~~lv~~Yek~G  221 (449)
T 1b89_A          147 NVSNFGRLASTLVHLGEYQAAVDGARKAN-----STRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRG  221 (449)
T ss_dssp             HTTCHHHHHHHHHTTTCHHHHHHHHHHHT-----CHHHHHHHHHHHHHTTCHHHHHHTTTTTTTCHHHHHHHHHHHHHTT
T ss_pred             HhhhHHHHHHHHHHhccHHHHHHHHHHcC-----CchhHHHHHHHHHHcCcHHHHHHHHHHHHhCHhhHHHHHHHHHHCC
Confidence            34556678899999999999999999993     3333333                              234566667


Q ss_pred             hhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHH--HHhHHHHHHHHHhccccCCC----
Q 012162           71 QFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALI--LLERYDMARDAILSGLQVDP----  144 (469)
Q Consensus        71 ~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~--~~~~~~~A~~~~~~al~~~p----  144 (469)
                      ++                       ++|+..+++++.+++.+...+..+|.+|.  +-++..++++.|...+.+.|    
T Consensus       222 ~~-----------------------eEai~lLe~aL~le~ah~~~ftel~il~~ky~p~k~~ehl~~~~~~ini~k~~~~  278 (449)
T 1b89_A          222 YF-----------------------EELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLELFWSRVNIPKVLRA  278 (449)
T ss_dssp             CH-----------------------HHHHHHHHHHTTSTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTTSCHHHHHHH
T ss_pred             CH-----------------------HHHHHHHHHHhCCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhcCcHHHHH
Confidence            77                       99999999999999999999999999884  78999999999999999888    


Q ss_pred             -CCchhHHHHHHHH
Q 012162          145 -FSNPLQASLQNLE  157 (469)
Q Consensus       145 -~~~~~~~~~~~~~  157 (469)
                       .+...+..+.-+-
T Consensus       279 ~~~~~~w~e~~~ly  292 (449)
T 1b89_A          279 AEQAHLWAELVFLY  292 (449)
T ss_dssp             HHTTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence             6666665554433

>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=96.46  E-value=0.0064  Score=64.37  Aligned_cols=117  Identities=13%  Similarity=0.010  Sum_probs=89.4

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcC-CCCCcccccchhHHHHHHHh-hhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNI-KPGDPIVLGNRSSAYIRISQ-FLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~-~p~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ..+...+....+.|+.+.|...|.+|++. .+....+|...|..-.+.++ +                       +.|..
T Consensus       435 ~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~-----------------------e~Ar~  491 (679)
T 4e6h_A          435 YVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDT-----------------------KTACK  491 (679)
T ss_dssp             HHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCC-----------------------HHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCH-----------------------HHHHH
Confidence            45666667777789999999999999998 44445555544444444433 5                       89999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCC---CchhHHHHHHHHHhhhh
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF---SNPLQASLQNLERTTAS  162 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~---~~~~~~~~~~~~~~~~~  162 (469)
                      .|+++++..|+++..+...+......|+.+.|...|++|+...|+   ...+......+|+..+.
T Consensus       492 ife~~Lk~~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~  556 (679)
T 4e6h_A          492 VLELGLKYFATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGS  556 (679)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHCCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCC
Confidence            999999999999998888888888999999999999999999884   34455555556555443

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.40  E-value=0.0053  Score=49.67  Aligned_cols=78  Identities=13%  Similarity=0.004  Sum_probs=63.5

Q ss_pred             HHHHHhHHHHHHhccHHH---HHHHHHHHhcCC-C-CCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHH
Q 012162           23 FDLVQKGNRAFRESNFEE---AISNYSRANNIK-P-GDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL   97 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~---A~~~y~~al~~~-p-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (469)
                      ..-++.|..+.+..+...   +|..++..++.+ | ..-+.++.+|..++++|+|                       .+
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            444566666666555544   999999999987 5 4668899999999999999                       99


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHH
Q 012162           98 ALKDAEKLLNLQSNSMKSHLLKANAL  123 (469)
Q Consensus        98 A~~~~~~al~l~p~~~~~~~~~g~~~  123 (469)
                      |...++..|+.+|+|..|...+..+-
T Consensus        93 A~~~~~~lL~~eP~n~QA~~Lk~~i~  118 (126)
T 1nzn_A           93 ALKYVRGLLQTEPQNNQAKELERLID  118 (126)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            99999999999999988877665553

>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=96.24  E-value=0.015  Score=57.15  Aligned_cols=100  Identities=17%  Similarity=0.037  Sum_probs=79.2

Q ss_pred             hhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc----------------------ccccchhHHHHHHHhhhccC
Q 012162           19 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----------------------IVLGNRSSAYIRISQFLKHR   76 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~----------------------~~~~~~a~~~~~~~~~~~~~   76 (469)
                      ......+...|......|+.+.|+..+.+|+.+-...+                      .+...++.++...|++    
T Consensus       112 ~~~f~~l~~~~~~~~~~~~~~~a~~~l~~Al~L~rG~~L~~~~~~~w~~~~r~~l~~~~~~a~~~~~~~~l~~g~~----  187 (388)
T 2ff4_A          112 LGRFVAEKTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRA----  187 (388)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCH----
T ss_pred             HHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHCCCH----
Confidence            33456677778888888999999999999999843321                      1112234455666788    


Q ss_pred             CCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhcccc
Q 012162           77 PPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQ  141 (469)
Q Consensus        77 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~  141 (469)
                                         .+|+..+.+++..+|-+-.+|..+-.+|...|+..+|+..|++.-+
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                               8999999999999999999999999999999999999999988633

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=95.81  E-value=0.072  Score=44.21  Aligned_cols=104  Identities=15%  Similarity=0.002  Sum_probs=80.8

Q ss_pred             HHHHHHhHHHHHHhccH------HHHHHHHHHHhcCCCCCcccccchhHHHH--------HHHhhhccCCCCCcccCccC
Q 012162           22 VFDLVQKGNRAFRESNF------EEAISNYSRANNIKPGDPIVLGNRSSAYI--------RISQFLKHRPPSASEYRPLN   87 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~------~~A~~~y~~al~~~p~~~~~~~~~a~~~~--------~~~~~~~~~~~~~~~~~~~~   87 (469)
                      .+.+..-....-+.|+.      ++-++.|++|+..-|-.. --.++..+|+        .+++.               
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 PEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEALPPDK-YGQNESFARIQVRFAELKAIQEP---------------   76 (161)
T ss_dssp             HHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHHSCGGG-GTTCHHHHHHHHHHHHHHHHHCG---------------
T ss_pred             HHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHcCCccc-cccHHHHHHHHHHHHHHHHhcCH---------------
Confidence            45555555566666888      888999999998877553 3344444433        33555               


Q ss_pred             CCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchh
Q 012162           88 GLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  149 (469)
Q Consensus        88 ~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~  149 (469)
                              ++|-..|+.++++....++.|...|..-...|+...|+..+.+|+.+.|...+.
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                    889999999999988888888888888889999999999999999999987653

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=95.71  E-value=0.012  Score=47.74  Aligned_cols=78  Identities=8%  Similarity=0.023  Sum_probs=62.3

Q ss_pred             HHHhHHHHHHh---ccHHHHHHHHHHHhcCCCC-CcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           25 LVQKGNRAFRE---SNFEEAISNYSRANNIKPG-DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        25 ~~~~g~~~~~~---~~~~~A~~~y~~al~~~p~-~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      -++.|-.+.+.   .+..++|..++..++.+|. .-+.++.+|..++++|+|                       ..|..
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            34444444443   3556899999999998884 468899999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHH
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALIL  125 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~  125 (469)
                      .++.+++.+|+|..|......+-.+
T Consensus       100 y~d~lL~~eP~N~QA~~Lk~~Ie~k  124 (134)
T 3o48_A          100 YVDTLFEHERNNKQVGALKSMVEDK  124 (134)
T ss_dssp             HHHHHHTTCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhCCCCHHHHHHHHHHHHH
Confidence            9999999999999887776665433

>3mv2_A Coatomer subunit alpha; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_A

Probab=95.60  E-value=0.083  Score=49.61  Aligned_cols=175  Identities=11%  Similarity=0.013  Sum_probs=91.4

Q ss_pred             hhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc--------cc--ccchhHHHH-----HHHhhhccCCCCCccc
Q 012162           19 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP--------IV--LGNRSSAYI-----RISQFLKHRPPSASEY   83 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~--------~~--~~~~a~~~~-----~~~~~~~~~~~~~~~~   83 (469)
                      ..........|..++..|+|++|+..|+.+|-.-|-..        .+  +..++.-|.     .+.+-  ..+.     
T Consensus       111 l~~L~~~Lk~gyk~~t~gKf~eAl~~Fr~iL~~i~l~~v~~~~e~~e~~eli~icrEYilal~iEl~Rr--~l~~-----  183 (325)
T 3mv2_A          111 LDVVNEKMNEGYKNFKLNKPDIAIECFREAIYRITLLMVDDAEDEKLAHKILETAREYILGLSIELERR--SLKE-----  183 (325)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCCBCSSHHHHHHHHHHHHHHHHHHHHHHHHHHH--TCCT-----
T ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhheeeeccHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hcCc-----
Confidence            33445566789999999999999999999986644211        11  111111111     11111  0000     


Q ss_pred             CccCCCCCchhHHHHH--HHHHHHhhccccchHHHHHHHHH-HHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhh
Q 012162           84 RPLNGLDPTTHAELAL--KDAEKLLNLQSNSMKSHLLKANA-LILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  160 (469)
Q Consensus        84 ~~~~~~~~~~~~~~A~--~~~~~al~l~p~~~~~~~~~g~~-~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~  160 (469)
                               +.....+  ..|=...++.|.+-..-.+.|+. .++.++|--|....++.|+++|..+.+..    .++.+
T Consensus       184 ---------~~~kR~lELAAYFT~c~LQp~H~~LaLr~AM~~a~K~KNy~tAa~fArrLLel~p~~~~a~q----Arkil  250 (325)
T 3mv2_A          184 ---------GNTVRMLELAAYFTKAKLSPIHRTNALQVAMSQHFKHKNFLQASYFAGEFLKIISSGPRAEQ----ARKIK  250 (325)
T ss_dssp             ---------TCHHHHHHHHHHGGGSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSHHHHH----HHHHH
T ss_pred             ---------ccHHHHHHHHHHhccCCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCHHHHHH----HHHHH
Confidence                     0001111  12223345666665555555654 47899999999999999999996544433    33333


Q ss_pred             hhhhcccCC----CCCCCcccccccccccccc--ccEE--ccCCCcccHHHHHHHcccCCCcccccc
Q 012162          161 ASLIGRRIH----GTPERTDDFDCTLCLKLLY--EPIT--TPCGHSFCRSCLFQSMDRGNKCPLCRA  219 (469)
Q Consensus       161 ~~~~~~~~~----~~~~~~~~~~C~ic~~~~~--~p~~--~~cgh~~C~~Ci~~~~~~~~~CP~Cr~  219 (469)
                      ....++...    ......+-..|...+..+.  .|..  .-||-.|....      .+..|++|.-
T Consensus       251 ~~ce~~~~Da~eidyD~~~~F~iCa~s~tPIY~g~~~v~Cp~cgA~y~~~~------kG~lC~vC~l  311 (325)
T 3mv2_A          251 NKADSMASDAIPIDFDPYAKFDICAATYKPIYEDTPSVSDPLTGSKYVITE------KDKIDRIAMI  311 (325)
T ss_dssp             HHHHTSCCCSSCCSCCTTSCEEECTTTCCEEESSSCEEECTTTCCEEEGGG------TTSBCSSSSC
T ss_pred             HHHhcCCCCccccCCCCCCCceeecCCcccccCCCCCccCCCCCCeechhh------CCCCCCCCcC
Confidence            322221111    1111222334555554322  3322  23555555432      4668999974

>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=95.54  E-value=0.025  Score=59.85  Aligned_cols=97  Identities=7%  Similarity=-0.049  Sum_probs=81.0

Q ss_pred             HHHHHhHHHHHHhccHHHHH-HHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           23 FDLVQKGNRAFRESNFEEAI-SNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~-~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ..+...|......|+.++|+ ..|.+|+...|.+..+|...+......|++                       +.|...
T Consensus       344 ~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~P~s~~Lwl~~a~~ee~~~~~-----------------------e~aR~i  400 (679)
T 4e6h_A          344 EIWFNMANYQGEKNTDSTVITKYLKLGQQCIPNSAVLAFSLSEQYELNTKI-----------------------PEIETT  400 (679)
T ss_dssp             HHHHHHHHHHHHHSCCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCCH-----------------------HHHHHH
Confidence            44555666667788888997 999999999999888888888888888988                       999999


Q ss_pred             HHHHhhcc-----------c-----------cchHHHHHHHHHHHHHhHHHHHHHHHhccccC
Q 012162          102 AEKLLNLQ-----------S-----------NSMKSHLLKANALILLERYDMARDAILSGLQV  142 (469)
Q Consensus       102 ~~~al~l~-----------p-----------~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~  142 (469)
                      ++++++.-           |           +...+|...+......|..+.|+..|.+|++.
T Consensus       401 yek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~  463 (679)
T 4e6h_A          401 ILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRL  463 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            99998752           4           24557888888888899999999999999987

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=95.25  E-value=0.0061  Score=47.51  Aligned_cols=31  Identities=23%  Similarity=0.652  Sum_probs=26.8

Q ss_pred             ccccccccccc-ccccEE--ccCCCcccHHHHHH
Q 012162          176 DDFDCTLCLKL-LYEPIT--TPCGHSFCRSCLFQ  206 (469)
Q Consensus       176 ~~~~C~ic~~~-~~~p~~--~~cgh~~C~~Ci~~  206 (469)
                      ++..|++|.+. +..|+.  +.|+|+||..|+..
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~   35 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKA   35 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETTTTEEECHHHHHH
T ss_pred             CCCCCcCCCCCCCCCceEECCcCChHHhHHHCHH
Confidence            35789999964 778887  89999999999997

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=95.02  E-value=0.039  Score=46.66  Aligned_cols=79  Identities=20%  Similarity=0.201  Sum_probs=58.8

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCC---CCC----------------------cccccchhHHHHHHHhhhcc
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIK---PGD----------------------PIVLGNRSSAYIRISQFLKH   75 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~---p~~----------------------~~~~~~~a~~~~~~~~~~~~   75 (469)
                      .++.+...|+.+|..|+|..|...|++||++.   +..                      .++.+.+|.||.+++++   
T Consensus        62 ~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~~~~~~~~ss~p~s~~~~~e~Elkykia~C~~~l~~~---  138 (167)
T 3ffl_A           62 KYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKVRPSTGNSASTPQSQCLPSEIEVKYKLAECYTVLKQD---  138 (167)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC--------------------CCCCHHHHHHHHHHHHHHTTCH---
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCccccccccCCCcccccccchHHHHHHHHHHHHHHCCH---
Confidence            46778889999999999999999999997551   111                      15678899999999999   


Q ss_pred             CCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHH
Q 012162           76 RPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANAL  123 (469)
Q Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~  123 (469)
                                          .+|+..++..-. .-..++.-..+|..|
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                                999988765422 234566666666554

>3mkr_B Coatomer subunit alpha; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=95.01  E-value=0.2  Score=47.01  Aligned_cols=177  Identities=15%  Similarity=0.124  Sum_probs=91.0

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc--------cc--ccchhHHHH-----HHHhhhccCCCCCcccCc
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP--------IV--LGNRSSAYI-----RISQFLKHRPPSASEYRP   85 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~--------~~--~~~~a~~~~-----~~~~~~~~~~~~~~~~~~   85 (469)
                      ........|..++..|+|++|+..|+.+|-.-|-..        .+  +..++.-|.     .+.+-  +.+.       
T Consensus       101 ~l~~~Lk~gyk~~t~gKf~eAl~~Fr~iL~~i~l~~v~~~~e~~e~~eli~icreYilal~iEl~Rr--~l~~-------  171 (320)
T 3mkr_B          101 DLIQRLQLCYQLTTVGKFEEAVEKFRSILLSVPLLVVDNKQEIAEAQQLITICREYIVGLSMETERK--KLPK-------  171 (320)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHGGGCCCCSHHHHHHHHHHHHHHHHHHHHHHHHHHHT--TSCC-------
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhhheeeccHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hccc-------
Confidence            344566889999999999999999999987655221        11  111111111     11111  0000       


Q ss_pred             cCCCCCchhHHHHH--HHHHHHhhccccchHHHHHHHHH-HHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhh
Q 012162           86 LNGLDPTTHAELAL--KDAEKLLNLQSNSMKSHLLKANA-LILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus        86 ~~~~~~~~~~~~A~--~~~~~al~l~p~~~~~~~~~g~~-~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                         .+ .+.....+  ..|=...++.|.+-..-.+.|+. .++.++|--|...-++.|++.|+.+.+.    ..++.+..
T Consensus       172 ---~~-~~~~kR~lELAAYFT~c~Lqp~H~~LaLr~AM~~a~K~KNy~tAa~fArrLLel~p~~~~~~----qArkil~~  243 (320)
T 3mkr_B          172 ---ET-LEQQKRICEMAAYFTHSNLQPVHMILVLRTALNLFFKLKNFRTAAAFARRLLELGPKPEVAQ----QTRKILSA  243 (320)
T ss_dssp             ---CS-HHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTBHHHHHHHHHHHHHTCCCHHHHH----HHHHHHHH
T ss_pred             ---CC-chhHHHHHHHHHHhccCCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCHHHHH----HHHHHHHH
Confidence               00 00111111  12223345667665555555654 4789999999999999999988643332    23333322


Q ss_pred             hhcc---c-CCCCCCCcccccccccccccc--ccEE--ccCCCcccHHHHHHHcccCCCccccccc
Q 012162          163 LIGR---R-IHGTPERTDDFDCTLCLKLLY--EPIT--TPCGHSFCRSCLFQSMDRGNKCPLCRAV  220 (469)
Q Consensus       163 ~~~~---~-~~~~~~~~~~~~C~ic~~~~~--~p~~--~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~  220 (469)
                      ..++   . ........+-..|...+..+.  .|..  -=||-.|+...      .+..|++|.-.
T Consensus       244 ce~~~~da~eidyD~~~~f~iCa~s~tPIY~g~~~v~Cp~cgA~y~~~~------kG~lC~vC~l~  303 (320)
T 3mkr_B          244 CEKNPTDAYQLNYDMHNPFDICAASYRPIYRGKPVEKCPLSGACYSPEF------KGQICKVTTVT  303 (320)
T ss_dssp             HHHSCCBSSCCSCCTTSCCCBBTTTCCBCCTTSCCEECTTTCCEECGGG------TTSBCTTTSSB
T ss_pred             HhcCCCCccccCCCCCCccceecCCCccccCCCCCccCCCCCCeechhh------CCCCCCCCcCc
Confidence            2221   1 111112222335655554332  2322  23555554432      46679999743

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=94.92  E-value=0.062  Score=44.18  Aligned_cols=78  Identities=8%  Similarity=0.040  Sum_probs=61.7

Q ss_pred             HHHHHhHHHHHHh---ccHHHHHHHHHHHhcCCCC-CcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHH
Q 012162           23 FDLVQKGNRAFRE---SNFEEAISNYSRANNIKPG-DPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA   98 (469)
Q Consensus        23 ~~~~~~g~~~~~~---~~~~~A~~~y~~al~~~p~-~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A   98 (469)
                      +.-++.|..+.+.   .+-.++|..++..++.+|. .-+.++.+|..++++|+|                       .+|
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            3344455555544   3456799999999998884 457899999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHH
Q 012162           99 LKDAEKLLNLQSNSMKSHLLKANAL  123 (469)
Q Consensus        99 ~~~~~~al~l~p~~~~~~~~~g~~~  123 (469)
                      ...++..|+.+|+|..|......+-
T Consensus        97 r~y~d~lL~~eP~n~QA~~Lk~~Ie  121 (144)
T 1y8m_A           97 KRYVDTLFEHERNNKQVGALKSMVE  121 (144)
T ss_dssp             HHHHHHHHHTCCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCcHHHHHHHHHHH
Confidence            9999999999999988766655443

>3nw0_A Non-structural maintenance of chromosomes element homolog; E3 ligase, Zn, metal binding protein; 2.92A {Homo sapiens}

Probab=94.17  E-value=0.047  Score=49.53  Aligned_cols=47  Identities=21%  Similarity=0.523  Sum_probs=37.8

Q ss_pred             cccccccccccccccEE-ccCCCcccHHHHHHHcccC--CCccccccccc
Q 012162          176 DDFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRG--NKCPLCRAVLF  222 (469)
Q Consensus       176 ~~~~C~ic~~~~~~p~~-~~cgh~~C~~Ci~~~~~~~--~~CP~Cr~~~~  222 (469)
                      ....|.+|..+...-+. -.|+|.|...|+..|+...  ..||.|+....
T Consensus       179 ~i~~C~iC~~iv~~g~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~  228 (238)
T 3nw0_A          179 AVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP  228 (238)
T ss_dssp             TCCBCTTTCSBCSSCEECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCC
T ss_pred             CCCcCcchhhHHhCCcccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCC
Confidence            36689999998775544 4599999999999998753  48999998763

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=93.56  E-value=0.3  Score=49.45  Aligned_cols=134  Identities=12%  Similarity=-0.073  Sum_probs=68.4

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHH---HHHhhhccCCCCC---------cccCccC--
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYI---RISQFLKHRPPSA---------SEYRPLN--   87 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~---~~~~~~~~~~~~~---------~~~~~~~--   87 (469)
                      ...+...+..+...|+.++|...|.+|+.. |.+..++...+...-   ..++.........         .....+|  
T Consensus       213 ~~lW~~ya~~~~~~~~~~~ar~i~erAi~~-P~~~~l~~~y~~~~e~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~  291 (493)
T 2uy1_A          213 EEVYFFYSEYLIGIGQKEKAKKVVERGIEM-SDGMFLSLYYGLVMDEEAVYGDLKRKYSMGEAESAEKVFSKELDLLRIN  291 (493)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CCSSHHHHHHHHHTTCTHHHHHHHHHTC----------CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhC-CCcHHHHHHHHhhcchhHHHHHHHHHHHhhccchhhhhcccccHHHHHH
Confidence            345666677777889999999999999999 988755543222100   0000000000000         0000000  


Q ss_pred             ---CCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHh-HHHHHHHHHhccccCCCCCchhHHHHHHHH
Q 012162           88 ---GLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLE-RYDMARDAILSGLQVDPFSNPLQASLQNLE  157 (469)
Q Consensus        88 ---~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~-~~~~A~~~~~~al~~~p~~~~~~~~~~~~~  157 (469)
                         ..-.....+.|...+++| +..+.....|...|..-...+ +++.|...|+.+++..|+++........++
T Consensus       292 y~~~~~r~~~~~~AR~i~~~A-~~~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~~~~~~~~~~yid~e  364 (493)
T 2uy1_A          292 HLNYVLKKRGLELFRKLFIEL-GNEGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKHPDSTLLKEEFFLFL  364 (493)
T ss_dssp             HHHHHHHHHCHHHHHHHHHHH-TTSCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHh-hCCCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Confidence               000000125566666777 322223445555555555555 477788888888877777665433333333

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=93.51  E-value=0.2  Score=45.82  Aligned_cols=64  Identities=16%  Similarity=0.121  Sum_probs=58.9

Q ss_pred             HHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhc
Q 012162           29 GNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNL  108 (469)
Q Consensus        29 g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l  108 (469)
                      ...+++.|+.++|++.....++-+|.|+.....+-..+.-.|+|                       +.|.+.++.+.++
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            35678899999999999999999999999999999999999999                       9999999999999


Q ss_pred             cccchHH
Q 012162          109 QSNSMKS  115 (469)
Q Consensus       109 ~p~~~~~  115 (469)
                      +|.....
T Consensus        61 ~p~~~~~   67 (273)
T 1zbp_A           61 FPEYLPG   67 (273)
T ss_dssp             CGGGHHH
T ss_pred             CchhhHH
Confidence            9998554

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=93.49  E-value=0.45  Score=48.16  Aligned_cols=110  Identities=10%  Similarity=-0.103  Sum_probs=78.3

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHH-hhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRIS-QFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ..+...+....+.++.+.|...|.+| +..+.....|...|..-+..+ +.                       +.|...
T Consensus       287 ~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~~~~~~v~i~~A~lE~~~~~d~-----------------------~~ar~i  342 (493)
T 2uy1_A          287 LLRINHLNYVLKKRGLELFRKLFIEL-GNEGVGPHVFIYCAFIEYYATGSR-----------------------ATPYNI  342 (493)
T ss_dssp             HHHHHHHHHHHHHHCHHHHHHHHHHH-TTSCCCHHHHHHHHHHHHHHHCCS-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHh-hCCCCChHHHHHHHHHHHHHCCCh-----------------------HHHHHH
Confidence            34555566666778899999999999 433223344444444444455 46                       899999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhh
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  160 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~  160 (469)
                      ++.+++.-|+.+..+...+......|+.+.|...|+++.    ....+......++...
T Consensus       343 fe~al~~~~~~~~~~~~yid~e~~~~~~~~aR~l~er~~----k~~~lw~~~~~fE~~~  397 (493)
T 2uy1_A          343 FSSGLLKHPDSTLLKEEFFLFLLRIGDEENARALFKRLE----KTSRMWDSMIEYEFMV  397 (493)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC----CBHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH----HHHHHHHHHHHHHHHC
Confidence            999999999988887777887889999999999999983    2344444444444443

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=92.72  E-value=0.17  Score=53.70  Aligned_cols=45  Identities=33%  Similarity=0.183  Sum_probs=43.0

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccc
Q 012162           96 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGL  140 (469)
Q Consensus        96 ~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al  140 (469)
                      +.|+..+++|+...|.....|+.++.+|..+|+|+.|+-.+..+=
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            999999999999999999999999999999999999998888763

>1ya0_A SMG-7 transcript variant 2; alpha-helical repeat, tetratricopetide repeat (TPR), 14-3-3, signaling protein; 2.55A {Homo sapiens} SCOP: a.118.8.1

Probab=91.78  E-value=0.33  Score=49.08  Aligned_cols=79  Identities=14%  Similarity=0.006  Sum_probs=70.9

Q ss_pred             HHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHH
Q 012162           24 DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  103 (469)
Q Consensus        24 ~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~  103 (469)
                      -+...|+.+.-+..+..|..+|.+|+.+.|++...|+.+|..+...|+.                       -.|+-+|.
T Consensus       154 ~l~~LGDL~RY~~~~~~A~~~Y~~A~~~~P~~G~~~nqLavla~~~~~~-----------------------l~a~y~y~  210 (497)
T 1ya0_A          154 CLVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILASSKGDH-----------------------LTTIFYYC  210 (497)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHHHTTCH-----------------------HHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHHHHHHHhCCCCCchHHHHHHHHhccccc-----------------------HHHHHHHH
Confidence            4567899888889999999999999999999999999999999988888                       88999999


Q ss_pred             HHhhccccchHHHHHHHHHHHH
Q 012162          104 KLLNLQSNSMKSHLLKANALIL  125 (469)
Q Consensus       104 ~al~l~p~~~~~~~~~g~~~~~  125 (469)
                      +++......+.+.-++...+..
T Consensus       211 rsl~~~~Pf~~a~~nL~~~f~~  232 (497)
T 1ya0_A          211 RSIAVKFPFPAASTNLQKALSK  232 (497)
T ss_dssp             HHHSSSBCCHHHHHHHHHHHHH
T ss_pred             HHHhcCCCChhHHHHHHHHHHH
Confidence            9999887788999888887754

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=89.12  E-value=0.34  Score=51.45  Aligned_cols=51  Identities=12%  Similarity=0.048  Sum_probs=47.4

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhh
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF   72 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~   72 (469)
                      +.-|..++..+..+|+|+-|+...++|+...|.+-..|+.+|.+|..+|+|
T Consensus       337 ~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~  387 (754)
T 4gns_B          337 SDLLNIQTNFLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEY  387 (754)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHHHHHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccH
Confidence            345667888899999999999999999999999999999999999999999

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=88.86  E-value=1.3  Score=44.72  Aligned_cols=99  Identities=8%  Similarity=-0.016  Sum_probs=75.5

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcC--CCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNI--KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~--~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      ...+...-..+.+.|++++|...|.+..+.  .| +...|..+-.+|.+.|+.                       ++|.
T Consensus       105 ~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~P-d~~tyn~lI~~~~~~g~~-----------------------~~A~  160 (501)
T 4g26_A          105 EATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQP-RLRSYGPALFGFCRKGDA-----------------------DKAY  160 (501)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCC-CHHHHHHHHHHHHHTTCH-----------------------HHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-ccceehHHHHHHHHCCCH-----------------------HHHH
Confidence            344555567788899999999999987764  34 455667777788888988                       9999


Q ss_pred             HHHHHHhhc--cccchHHHHHHHHHHHHHhHHHHHHHHHhcccc--CCCC
Q 012162          100 KDAEKLLNL--QSNSMKSHLLKANALILLERYDMARDAILSGLQ--VDPF  145 (469)
Q Consensus       100 ~~~~~al~l--~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~--~~p~  145 (469)
                      ..+++..+.  .|+ ...|..+-.+|...|+.++|...|++.-+  ..|+
T Consensus       161 ~l~~~M~~~G~~Pd-~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps  209 (501)
T 4g26_A          161 EVDAHMVESEVVPE-EPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVS  209 (501)
T ss_dssp             HHHHHHHHTTCCCC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBC
T ss_pred             HHHHHHHhcCCCCC-HHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcC
Confidence            999887764  454 46788888899999999999999988643  3454

>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication, ring E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus; 2.60A {Saccharomyces cerevisiae}

Probab=88.33  E-value=0.24  Score=47.37  Aligned_cols=64  Identities=20%  Similarity=0.457  Sum_probs=45.6

Q ss_pred             ccccccccccccccccEE-ccCCCcccHHH--HHHHccc--CCCccccccccccCCCcccCcccHHHHHHH
Q 012162          175 TDDFDCTLCLKLLYEPIT-TPCGHSFCRSC--LFQSMDR--GNKCPLCRAVLFITPRTCAVSVTLNSIIQK  240 (469)
Q Consensus       175 ~~~~~C~ic~~~~~~p~~-~~cgh~~C~~C--i~~~~~~--~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~  240 (469)
                      .-.+.||+....+..|+. ..|.|.-|.+-  +......  .-.||+|.+.+..  .++.++..+.+++..
T Consensus       247 ~vSL~CPlS~~ri~~PvRg~~C~HlQCFDl~sfL~~~~~~~~W~CPIC~k~~~~--~dL~ID~~~~~IL~~  315 (371)
T 3i2d_A          247 IMSLQCPISYTRMKYPSKSINCKHLQCFDALWFLHSQLQIPTWQCPVCQIDIAL--ENLAISEFVDDILQN  315 (371)
T ss_dssp             EEESBCTTTSSBCSSEEEETTCCSSCCEEHHHHHHHHHHSCCCBCTTTCCBCCG--GGEEEBHHHHHHHTT
T ss_pred             EEeecCCCccccccccCcCCcCCCcceECHHHHHHHhhcCCceeCCCCCcccCH--HHeeEcHHHHHHHHh
Confidence            456799999999999987 68999955443  4443332  3479999988743  577777776666543

>1ya0_A SMG-7 transcript variant 2; alpha-helical repeat, tetratricopetide repeat (TPR), 14-3-3, signaling protein; 2.55A {Homo sapiens} SCOP: a.118.8.1

Probab=87.39  E-value=0.81  Score=46.20  Aligned_cols=64  Identities=9%  Similarity=-0.210  Sum_probs=56.4

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHh
Q 012162           96 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERT  159 (469)
Q Consensus        96 ~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~  159 (469)
                      ..|..+|.+|+.+.|++...|..+|.+....|++-+|+-+|-+++....-.+.+..++..+-++
T Consensus       169 ~~A~~~Y~~A~~~~P~~G~~~nqLavla~~~~~~l~a~y~y~rsl~~~~Pf~~a~~nL~~~f~~  232 (497)
T 1ya0_A          169 SQAESYYRHAAQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKFPFPAASTNLQKALSK  232 (497)
T ss_dssp             HHHHHHHHHHHHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCchHHHHHHHHhcccccHHHHHHHHHHHhcCCCChhHHHHHHHHHHH
Confidence            7899999999999999999999999999999999999999999998776677777776665444

>4fo9_A E3 SUMO-protein ligase PIAS2; E3 ligase, pinit domain, SP-ring domain, structural GE consortium, SGC; 2.39A {Homo sapiens} PDB: 2asq_B

Probab=86.53  E-value=0.36  Score=46.00  Aligned_cols=63  Identities=19%  Similarity=0.333  Sum_probs=45.3

Q ss_pred             ccccccccccccccccEE-ccCCCccc--HHHHHHHccc--CCCccccccccccCCCcccCcccHHHHHH
Q 012162          175 TDDFDCTLCLKLLYEPIT-TPCGHSFC--RSCLFQSMDR--GNKCPLCRAVLFITPRTCAVSVTLNSIIQ  239 (469)
Q Consensus       175 ~~~~~C~ic~~~~~~p~~-~~cgh~~C--~~Ci~~~~~~--~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~  239 (469)
                      .-.+.||+....+..|+. ..|.|.-|  ..-+......  .-.||+|.+.+..  .++.++..+.+++.
T Consensus       213 ~vSL~CPlS~~ri~~P~Rg~~C~HlqCFDl~sfL~~~~~~~~W~CPiC~k~~~~--~dL~ID~~~~~IL~  280 (360)
T 4fo9_A          213 RVSLMCPLGKMRLTIPCRAVTCTHLQCFDAALYLQMNEKKPTWICPVCDKKAAY--ESLILDGLFMEILN  280 (360)
T ss_dssp             EEESBCTTTCSBCSSEEEETTCCCCCCEEHHHHHHHHHHSCCCBCTTTCSBCCG--GGEEEBHHHHHHHT
T ss_pred             EEeeeCCCccceeccCCcCCCCCCCccCCHHHHHHHHhhCCCeECCCCCcccCH--HHeEEcHHHHHHHH
Confidence            456799999999999987 69999944  4444444333  3479999998743  57777766666654

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=85.43  E-value=0.74  Score=42.13  Aligned_cols=55  Identities=11%  Similarity=0.089  Sum_probs=51.7

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhH
Q 012162           96 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  150 (469)
Q Consensus        96 ~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~  150 (469)
                      ++|+..+...++-+|.+.+.-..+-+.+.-.|+++.|...++-+.+++|+.....
T Consensus        14 ~~al~~~~~~VR~~P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~p~~~~~a   68 (273)
T 1zbp_A           14 QQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGA   68 (273)
T ss_dssp             HHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHH
T ss_pred             HHHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhhHHH
Confidence            9999999999999999999999999999999999999999999999999876543

>3kae_A CDC27, possible protein of nuclear scaffold; tetratricopeptide repeat protein, protein binding; 2.30A {Encephalitozoon cuniculi}

Probab=84.28  E-value=2.5  Score=35.68  Aligned_cols=95  Identities=11%  Similarity=0.118  Sum_probs=72.6

Q ss_pred             HhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHh
Q 012162           27 QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLL  106 (469)
Q Consensus        27 ~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al  106 (469)
                      ..+-.++-.|.|..|+-++..   +  +.....+..+.||.++++|                       ..|+..++..+
T Consensus        38 L~~I~LyyngEY~R~Lf~L~~---l--NT~Ts~YYk~LCy~klKdY-----------------------kkA~~~le~il   89 (242)
T 3kae_A           38 LMSIVLYLNGEYTRALFHLHK---L--NTCTSKYYESLCYKKKKDY-----------------------KKAIKSLESIL   89 (242)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHT---C--CBHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHHHH
T ss_pred             hhhhhhhhcchHhHHHHHHHh---c--chHHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHH
Confidence            356777888999888877643   2  2345566678999999999                       99999999988


Q ss_pred             --hc---------------cccchHH-HHHHHHHHHHHhHHHHHHHHHhccccCCCCCchh
Q 012162          107 --NL---------------QSNSMKS-HLLKANALILLERYDMARDAILSGLQVDPFSNPL  149 (469)
Q Consensus       107 --~l---------------~p~~~~~-~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~  149 (469)
                        +.               ||.+-+. +..+|..+...|.-++|+.+|......+|-.+.+
T Consensus        90 ~~kvd~d~~~d~~~~~ffvd~~DkEfFy~l~a~lltq~g~r~EaI~y~~~Sf~~~~lf~~v  150 (242)
T 3kae_A           90 EGKVERDPDVDARIQEMFVDPGDEEFFESLLGDLCTLSGYREEGIGHYVRSFGKSFLFSPV  150 (242)
T ss_dssp             TTCSBCCCCCCHHHHTTSCCTTCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHH
T ss_pred             hcccccCcccccccceeeeccchHHHHHHHHHHHHHHhcCHHHhhhHhhhhcCCccccchH
Confidence              22               3555454 4457889999999999999999999888765544

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=83.86  E-value=0.91  Score=44.97  Aligned_cols=96  Identities=6%  Similarity=-0.015  Sum_probs=70.7

Q ss_pred             HHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC---cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           24 DLVQKGNRAFRESNFEEAISNYSRANNIKPGD---PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        24 ~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      .+..+|..+++.||+++|++.|.++.......   ..++.....+++..++|                       ..+..
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~-----------------------~~~~~  189 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQ-----------------------LYVKE  189 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCH-----------------------HHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccH-----------------------HHHHH
Confidence            45678999999999999999999988764443   25666667777888899                       88888


Q ss_pred             HHHHHhhcc---ccc---hHHHHHHHHHHHHHhHHHHHHHHHhccccC
Q 012162          101 DAEKLLNLQ---SNS---MKSHLLKANALILLERYDMARDAILSGLQV  142 (469)
Q Consensus       101 ~~~~al~l~---p~~---~~~~~~~g~~~~~~~~~~~A~~~~~~al~~  142 (469)
                      ...++-.+-   +++   .......|.++...++|.+|-..|..++.-
T Consensus       190 ~~~ka~~~~~~~~d~~~~~~lk~~~gl~~l~~r~f~~Aa~~f~e~~~t  237 (429)
T 4b4t_R          190 KLEAVNSMIEKGGDWERRNRYKTYYGIHCLAVRNFKEAAKLLVDSLAT  237 (429)
T ss_dssp             HHHHHHHHHTTCCCTHHHHHHHHHHHHGGGGTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhcCCCHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHhcc
Confidence            888875542   221   123344577778899999999988887653

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=81.23  E-value=1.4  Score=42.96  Aligned_cols=62  Identities=11%  Similarity=0.029  Sum_probs=53.8

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHH
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDA  102 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~  102 (469)
                      ..+...+..+...|++.+|+..+.+++..+|-+-.+|..+-.+|+..|+.                       .+|+..|
T Consensus       172 ~a~~~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~-----------------------~~Al~~y  228 (388)
T 2ff4_A          172 LAHTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQ-----------------------SDALGAY  228 (388)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCH-----------------------HHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH-----------------------HHHHHHH
Confidence            34455677788999999999999999999999999999999999999999                       8999888


Q ss_pred             HHHhh
Q 012162          103 EKLLN  107 (469)
Q Consensus       103 ~~al~  107 (469)
                      +++-+
T Consensus       229 ~~~r~  233 (388)
T 2ff4_A          229 RRVKT  233 (388)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            76533

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=81.07  E-value=8.6  Score=32.74  Aligned_cols=84  Identities=10%  Similarity=-0.055  Sum_probs=47.7

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ...|...|..+...|+++-|..+|.++=.        +..+...|...|+-                       +.-...
T Consensus        34 ~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D--------~~~L~~Ly~~tg~~-----------------------e~L~kl   82 (177)
T 3mkq_B           34 SITWERLIQEALAQGNASLAEMIYQTQHS--------FDKLSFLYLVTGDV-----------------------NKLSKM   82 (177)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHTTC--------HHHHHHHHHHHTCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHhCC--------HHHHHHHHHHhCCH-----------------------HHHHHH
Confidence            34566777777777777777777776543        22334445555554                       332222


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhcccc
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQ  141 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~  141 (469)
                      .+.+...+ ++    .....++..+|+++++++.|.+.-+
T Consensus        83 a~iA~~~g-~~----n~af~~~l~lGdv~~~i~lL~~~~r  117 (177)
T 3mkq_B           83 QNIAQTRE-DF----GSMLLNTFYNNSTKERSSIFAEGGS  117 (177)
T ss_dssp             HHHHHHTT-CH----HHHHHHHHHHTCHHHHHHHHHHTTC
T ss_pred             HHHHHHCc-cH----HHHHHHHHHcCCHHHHHHHHHHCCC
Confidence            23332222 21    2234456788999999988877544

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=80.16  E-value=2.1  Score=41.65  Aligned_cols=92  Identities=12%  Similarity=-0.024  Sum_probs=66.5

Q ss_pred             HhHHHHHHhccHHHHHHHHHHHhcCCC--CCc----ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           27 QKGNRAFRESNFEEAISNYSRANNIKP--GDP----IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        27 ~~g~~~~~~~~~~~A~~~y~~al~~~p--~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ..|..++..|+|.+|...+.+.++.-.  ++.    +++......|..++++                       .++..
T Consensus       104 kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~-----------------------~k~k~  160 (394)
T 3txn_A          104 RLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNL-----------------------PKARA  160 (394)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCH-----------------------HHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccH-----------------------HHHHH
Confidence            678999999999999999998876422  122    4555666778888888                       77777


Q ss_pred             HHHHHhhcc------cc-chHHHHHHHHHHH-HHhHHHHHHHHHhcccc
Q 012162          101 DAEKLLNLQ------SN-SMKSHLLKANALI-LLERYDMARDAILSGLQ  141 (469)
Q Consensus       101 ~~~~al~l~------p~-~~~~~~~~g~~~~-~~~~~~~A~~~~~~al~  141 (469)
                      .+.+|....      |. .......-|..+. ..++|..|-..|-.+++
T Consensus       161 ~l~~a~~~~~ai~~~p~i~a~i~~~~Gi~~l~~~rdyk~A~~~F~eaf~  209 (394)
T 3txn_A          161 ALTSARTTANAIYCPPKVQGALDLQSGILHAADERDFKTAFSYFYEAFE  209 (394)
T ss_dssp             HHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhccCCCCHHHHHHHHHHhhHHHHHhccCHHHHHHHHHHHHh
Confidence            776665433      22 1233444577888 89999999999998864

---

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	469
d1zboa1	197	b.122.1.10 (A:2-198) Hypothetical protein BPP1347	7e-16
d2anea1	110	b.122.1.10 (A:8-117) ATP-dependent protease La (Lo	2e-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	4e-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	1e-08
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	2e-08
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	9e-06
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	2e-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	4e-08
d1elra_	128	a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9	2e-07
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	5e-07
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
d1elwa_	117	a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9	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	2e-05
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	5e-05
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	6e-05
d1fcha_	323	a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting	2e-04
d1kt1a1	168	a.118.8.1 (A:254-421) FKBP51, C-terminal domain {M	3e-04
d1ihga1	169	a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos tau	0.002
d1p5qa1	170	a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal d	0.002
d2fbna1	153	a.118.8.1 (A:22-174) Putative 70 kda peptidylproly	0.002
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	0.002

>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 = 73.8 bits (180), Expect = 7e-16
 Identities = 39/208 (18%), Positives = 59/208 (28%), Gaps = 23/208 (11%)

Query: 264 MPLFVMDVVI-PCQRFPLHIFEPRYRLMVRRIMEGNHRM--------GMVIIDPTTGSVA 314
           +PLF +   + P     L +FE RY  MVRR +                V        +A
Sbjct: 3   IPLFPLSNALFPAGVLRLRVFEIRYLDMVRRCIADGSEFGVVVLEQGTEVRRPDGREVLA 62

Query: 315 DFACEVEITECEPLPDGRFVLEIESRRRFRILRSW-DQDGYRVAEIEWVQDIHPEGVEDR 373
                  I   E        L      RFR+      + G    + E V D  P   E  
Sbjct: 63  RAGTMARIDHWEAPMPALLELACTGTGRFRLHACTQGKYGLWTGQAEPVPDDAPL--EVP 120

Query: 374 ADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVEVMMPPSQDPERFSFWLATLSD 433
            +L    +          R              +L           D    +   A +  
Sbjct: 121 PELARSASALGRLIARLQREGVPPHIMPMAAPFRL----------DDCGWVADRWAEMLS 170

Query: 434 RRPSERLELLRIRDTRERIRRGLIFLRA 461
             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 = 70.1 bits (171), Expect = 2e-15
 Identities = 21/107 (19%), Positives = 41/107 (38%), Gaps = 8/107 (7%)

Query: 264 MPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIID------PTTGSVAD 315
           +P+  +   VV P    PL +   +    +   M+ + ++ +V         P    +  
Sbjct: 4   IPVLPLRDVVVYPHMVIPLFVGREKSIRCLEAAMDHDKKIMLVAQKEASTDEPGVNDLFT 63

Query: 316 FACEVEITECEPLPDGRFVLEIESRRRFRILRSWDQDGYRVAEIEWV 362
                 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: 176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD-RGNKCPLCRAVLFITPRTCAVSVTL 234
               C +C  +L +P+ T C H FCR C+ + +   G+ CP CR   F T     V   L
Sbjct: 22  KSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESPVKSFL 81

Query: 235 N 235
           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 = 59.9 bits (145), Expect = 1e-12
 Identities = 17/58 (29%), Positives = 23/58 (39%), Gaps = 3/58 (5%)

Query: 173 ERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAV 230
           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 = 60.5 bits (146), Expect = 4e-12
 Identities = 20/68 (29%), Positives = 40/68 (58%), Gaps = 5/68 (7%)

Query: 176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGN---KCPLCRAVLFITPRTCAVSV 232
              +C +CL+L+ EP++T C H FC+ C+ + +++     +CPLC+    IT R+   S 
Sbjct: 20  KILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKND--ITKRSLQEST 77

Query: 233 TLNSIIQK 240
             + ++++
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 = 56.5 bits (136), Expect = 4e-11
 Identities = 15/48 (31%), Positives = 21/48 (43%), Gaps = 1/48 (2%)

Query: 175 TDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD-RGNKCPLCRAVL 221
           +    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: 175 TDDFDCTLCLKLLYEP-ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVL 221
           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: 170 GTPERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCA 229
           G+PE  + F C + L+L+ +P+    G ++ RS + + +D G+K         +      
Sbjct: 1   GSPEFPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQE-TLLHAGLT 59

Query: 230 VSVTLNSIIQK 240
            +  L S+I  
Sbjct: 60  PNYVLKSLIAL 70

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 48.7 bits (116), Expect = 1e-08
 Identities = 15/52 (28%), Positives = 23/52 (44%), Gaps = 4/52 (7%)

Query: 176 DDFDCTLCLKLLYEP----ITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFI 223
           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 = 53.5 bits (127), Expect = 2e-08
 Identities = 21/137 (15%), Positives = 41/137 (29%), Gaps = 11/137 (8%)

Query: 19  YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLK--HR 76
             H           + +   + AI  Y RA  ++P  P    N ++A        +    
Sbjct: 234 PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSVAEAEDC 293

Query: 77  PPSASEYRPLNGLDPTTHAEL---------ALKDAEKLLNLQSNSMKSHLLKANALILLE 127
             +A    P +       A +         A++   K L +      +H   A+ L    
Sbjct: 294 YNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQG 353

Query: 128 RYDMARDAILSGLQVDP 144
           +   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 = 9e-06
 Identities = 10/99 (10%), Positives = 30/99 (30%), Gaps = 23/99 (23%)

Query: 25  LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYR 84
            ++  +R ++  +FE A  +  +    +P +  VL   SS + +  +             
Sbjct: 2   PMELAHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRL------------ 49

Query: 85  PLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANAL 123
                      + +   +   +       +++    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 = 41.2 bits (95), Expect = 2e-04
 Identities = 18/123 (14%), Positives = 37/123 (30%), Gaps = 23/123 (18%)

Query: 5   MQANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSS 64
            +A +   +      TH   L    N    + N EEA+  Y +A  + P       N +S
Sbjct: 288 AEAEDCYNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLAS 347

Query: 65  AYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALI 124
              +  +                        + AL   ++ + +      ++    N L 
Sbjct: 348 VLQQQGKL-----------------------QEALMHYKEAIRISPTFADAYSNMGNTLK 384

Query: 125 LLE 127
            ++
Sbjct: 385 EMQ 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: 27  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIR-------ISQFLKHRPPS 79
             G     +     AI ++ +A  + P       N  +           ++ +L+    S
Sbjct: 174 NLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS 233

Query: 80  ASEYRPLNGLDPTTHA----ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDA 135
            +       L    +     +LA+    + + LQ +   ++   ANAL        A D 
Sbjct: 234 PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSVAEAEDC 293

Query: 136 ILSGLQVDPFSNPLQASLQNLER 158
             + 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 = 51.1 bits (121), Expect = 4e-08
 Identities = 24/121 (19%), Positives = 42/121 (34%), Gaps = 23/121 (19%)

Query: 24  DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEY 83
           +L ++GNR F    + EA + Y RA    P   +   NR+  Y+++ Q  +         
Sbjct: 6   ELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADC---- 61

Query: 84  RPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVD 143
                               + L L   S+K+H       + +E YD A   +     + 
Sbjct: 62  -------------------RRALELDGQSVKAHFFLGQCQLEMESYDEAIANLQRAYSLA 102

Query: 144 P 144
            
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 = 47.6 bits (112), Expect = 2e-07
 Identities = 22/132 (16%), Positives = 48/132 (36%), Gaps = 17/132 (12%)

Query: 27  QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPL 86
           + GN A+++ +F+ A+ +Y +A  + P +   + N+++ Y     + K R          
Sbjct: 9   ELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCR---------- 58

Query: 87  NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFS 146
                    E A++   +         K++    N+    E+Y  A       L     +
Sbjct: 59  ------ELCEKAIEVGRENREDYRQIAKAYARIGNSYFKEEKYKDAIHFYNKSLAEHR-T 111

Query: 147 NPLQASLQNLER 158
             +    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: 176 DDFDCTLCLKLLYEP-----ITTPCGHSFCRSCLFQSMDRG-NKCPLCRAVL 221
           DD  C  C    Y       +   CGH+ C SC+     RG   CP C   L
Sbjct: 2   DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPL 53

>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: 179 DCTLCLKLLYE----PITTPCGHSFCRSCLFQSMDRGNK-CPLCRA 219
           +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: 180 CTLCLKLLYEPITTP-CGHSFCRSCLFQSMDRGNKCPLCRAVL 221
           C +  K+   P+ +P     F +S L Q +      P+    L
Sbjct: 3   CAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPL 45

>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 = 42.3 bits (98), Expect = 1e-05
 Identities = 32/134 (23%), Positives = 56/134 (41%), Gaps = 23/134 (17%)

Query: 24  DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEY 83
           +L +KGN+A    N ++A+  YS A  + P + ++  NRS+AY +   + K         
Sbjct: 5   ELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTV 64

Query: 84  RPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVD 143
                                    + +  K +  KA AL  L R++ A+     GL+ +
Sbjct: 65  DL-----------------------KPDWGKGYSRKAAALEFLNRFEEAKRTYEEGLKHE 101

Query: 144 PFSNPLQASLQNLE 157
             +  L+  LQN+E
Sbjct: 102 ANNPQLKEGLQNME 115

>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: 190 PITTPCGHSFCRSCLFQSMDRGNKCPLCRA 219
                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 = 2e-05
 Identities = 11/65 (16%), Positives = 24/65 (36%), Gaps = 1/65 (1%)

Query: 176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLN 235
           D     +  +L+ EP  TP G ++ R  + + + R            +T      ++ + 
Sbjct: 6   DYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPV-TRSPLTQEQLIPNLAMK 64

Query: 236 SIIQK 240
            +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 = 40.2 bits (93), Expect = 5e-05
 Identities = 18/66 (27%), Positives = 30/66 (45%), Gaps = 5/66 (7%)

Query: 176 DDFDCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTL 234
               C+ C  +L EP+    C H FC +C+   +  G  CP+C        +   ++  L
Sbjct: 21  KLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCI--GTGCPVCYTP--AWIQDLKINRQL 76

Query: 235 NSIIQK 240
           +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 = 6e-05
 Identities = 11/33 (33%), Positives = 15/33 (45%), Gaps = 5/33 (15%)

Query: 193 TPCGHSFCRSCLFQSMDRGN-----KCPLCRAV 220
           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: 19 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQF 72
                  ++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 = 39.2 bits (90), Expect = 3e-04
 Identities = 19/165 (11%), Positives = 45/165 (27%), Gaps = 34/165 (20%)

Query: 2   SFEMQANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNI---------- 51
           S+EM   E        +      + +KG   F+   + +A+  Y +  +           
Sbjct: 3   SWEMDTKE--------KLEQAAIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEK 54

Query: 52  -----KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRP-----------LNGLDPTTHA 95
                +        N +  Y+++ ++ K                                
Sbjct: 55  ESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEF 114

Query: 96  ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGL 140
           E A  D EK+L +   +  + L         + ++       + +
Sbjct: 115 ESAKGDFEKVLEVNPQNKAARLQIFMCQKKAKEHNERDRRTYANM 159

>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: 24  DLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEY 83
           DL   GN  F+  N+E AI  Y++      G          A    +   K +P + S  
Sbjct: 29  DLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSR--------AAAEDADGAKLQPVALSCV 80

Query: 84  RPL-NGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQV 142
             +       +  + A+    + L +  ++ K+   +A     L+ YD A   +    ++
Sbjct: 81  LNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEI 140

Query: 143 DPFSNPLQASLQNLER 158
            P    +QA L  +++
Sbjct: 141 APEDKAIQAELLKVKQ 156

>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 = 37.0 bits (84), Expect = 0.002
 Identities = 22/157 (14%), Positives = 51/157 (32%), Gaps = 16/157 (10%)

Query: 2   SFEMQANEGEGSLPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGN 61
           S+EM + E        +      + ++G   F+E  +++A+  Y +  +    +      
Sbjct: 1   SWEMNSEE--------KLEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNE 52

Query: 62  RSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKAN 121
            +     +                       +          K L L SN+ K    +  
Sbjct: 53  EAQKAQALRLASHLNLAMCHLKLQAFSAAIESC--------NKALELDSNNEKGLSRRGE 104

Query: 122 ALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER 158
           A + +  +++AR      LQ+ P +   +  L   ++
Sbjct: 105 AHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQ 141

>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 = 36.5 bits (83), Expect = 0.002
 Identities = 15/142 (10%), Positives = 42/142 (29%), Gaps = 7/142 (4%)

Query: 17  DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHR 76
           ++    FD+ ++GN  F+++   EAI  Y  A +                 +  +   + 
Sbjct: 12  EKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNL 71

Query: 77  PPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAI 136
             +   Y               +   +K        +    +           + A++ +
Sbjct: 72  NLATC-YNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMY------FGFLEEAKENL 124

Query: 137 LSGLQVDPFSNPLQASLQNLER 158
                ++P +  ++ S +    
Sbjct: 125 YKAASLNPNNLDIRNSYELCVN 146

>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 = 0.002
 Identities = 12/54 (22%), Positives = 18/54 (33%), Gaps = 7/54 (12%)

Query: 173 ERTDDFDCTLCL-----KLLYEPITTPCGHSFCRSCLFQ--SMDRGNKCPLCRA 219
           E  D   C +C      +       T    +  RSCL    ++ R   C +C  
Sbjct: 2   EDEDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGV 55

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	469
d1zboa1	197	Hypothetical protein BPP1347 {Bordetella parapertu	99.97
d2anea1	110	ATP-dependent protease La (Lon), N-terminal domain	99.82
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	99.8
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	99.75
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	99.72
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	99.7
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	99.68
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	99.66
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	99.64
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	99.62
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	99.6
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.59
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.58
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.54
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	99.51
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.5
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	99.47
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.45
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	99.45
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	99.41
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.39
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	99.37
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.33
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.32
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.31
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.3
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.29
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.27
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.22
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.22
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.18
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.17
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	99.16
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.12
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	99.08
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.04
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	99.04
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.01
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.0
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	99.0
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.98
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.97
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.95
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.95
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	98.94
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.92
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.9
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.86
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.83
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.7
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.69
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.69
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.63
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	98.63
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	98.62
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.62
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.56
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	98.53
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.38
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.32
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.28
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.28
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.26
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.08
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.02
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	97.99
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.94
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	97.89
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	97.84
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	97.78
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.41
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.3
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.62
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	96.41
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.94
d1wfda_	93	Hypothetical protein 1500032H18Rik {Mouse (Mus mus	84.13

>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=99.97  E-value=5.1e-30  Score=230.25  Aligned_cols=185  Identities=21%  Similarity=0.233  Sum_probs=149.1

Q ss_pred             Cccceeee-ccCCCCccCcccCchHHHHHHHHHHhCCceeEEEEeCC--------CCCccccccceEEEEEeeecCCceE
Q 012162          263 LMPLFVMD-VVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDP--------TTGSVADFACEVEITECEPLPDGRF  333 (469)
Q Consensus       263 ~lPl~~l~-v~fP~~~~~l~i~~~~~~~~~~~~~~~~~~~~l~~~~~--------~~~~~~~~G~~~~I~~~~~~~dg~~  333 (469)
                      .+|+||++ |+|||+.+||+||+|+|+.|+++|+++++.|++++...        ..+++|++||+|+|.++.+.+||++
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 99999999999999999999999999999888877632        2346899999999999999999999


Q ss_pred             EEEEEeccceEEeeeec-cCCeeEEEEEEecCCCCCCcchhhhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhhhh
Q 012162          334 VLEIESRRRFRILRSWD-QDGYRVAEIEWVQDIHPEGVEDRADLQDLTNNAAEYARLWLRREKESARQDRRRLEKLLNVE  412 (469)
Q Consensus       334 ~v~~~g~~R~~i~~~~~-~~~~~~a~ve~~~d~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  412 (469)
                      .|.++|.+||+|.++.+ .++|+.++++++++....  +...++.++.+.+.+.+..+........          ....
T Consensus        82 ~i~v~G~~R~~i~~~~~~~~~~~~~~v~~~~~~~~~--~~~~~~~~l~~~l~~~~~~~~~~~~~~~----------~~~~  149 (197)
T d1zboa1          82 ELACTGTGRFRLHACTQGKYGLWTGQAEPVPDDAPL--EVPPELARSASALGRLIARLQREGVPPH----------IMPM  149 (197)
T ss_dssp             EEEEEEEEEEEEEEEEECGGGCEEEEEEEECCCCCC--CCCGGGHHHHHHHHHHHHHHHHTTCCTT----------TCSB
T ss_pred             eEeeeeccceeeeeeeeccCceEEEEEEeccccCCc--cCcHHHHHHHHHHHHHHHHHHHhcCCch----------hhhh
Confidence            99999999999999875 568999999999875332  1224455666667666665554322111          1222


Q ss_pred             cCCCCCCCcchhHHHHHhcCCCChhHhhhhccCCCHHHHHHHHHHHHH
Q 012162          413 VMMPPSQDPERFSFWLATLSDRRPSERLELLRIRDTRERIRRGLIFLR  460 (469)
Q Consensus       413 ~~~~~~~~p~~l~~~ia~~l~l~~~~kq~lLe~~~~~eRl~~l~~~l~  460 (469)
                      ......+||++++|++|++++++.++||+|||+ |..+||+++..+|+
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            234567899999999999999999999999998 55699999999885

>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=99.82  E-value=1.6e-20  Score=150.93  Aligned_cols=100  Identities=20%  Similarity=0.266  Sum_probs=92.4

Q ss_pred             Cccceeee--ccCCCCccCcccCchHHHHHHHHHHhCCceeEEEEeCC------CCCccccccceEEEEEeeecCCceEE
Q 012162          263 LMPLFVMD--VVIPCQRFPLHIFEPRYRLMVRRIMEGNHRMGMVIIDP------TTGSVADFACEVEITECEPLPDGRFV  334 (469)
Q Consensus       263 ~lPl~~l~--v~fP~~~~~l~i~~~~~~~~~~~~~~~~~~~~l~~~~~------~~~~~~~~G~~~~I~~~~~~~dg~~~  334 (469)
                      .+|+||++  |+|||+.+||++++++|++|+++++++++.++++.+..      ..+++|.+||+|+|.++.+++||++.
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      23478999999999999999999999


Q ss_pred             EEEEeccceEEeeeeccCCeeEEEEEEe
Q 012162          335 LEIESRRRFRILRSWDQDGYRVAEIEWV  362 (469)
Q Consensus       335 v~~~g~~R~~i~~~~~~~~~~~a~ve~~  362 (469)
                      |.++|.+||+|.++.+++||+.|+|+++
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=99.80  E-value=1e-19  Score=148.02  Aligned_cols=115  Identities=31%  Similarity=0.482  Sum_probs=111.5

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ++..+..+|+.++..|+|++|+..|+++|+.+|+++.+|.++|.+|..+|++                       ++|+.
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 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  158 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~  158 (469)
                      .+.++++++|+++.+|+++|.++..+|++++|+..|+++++++|+++.+...+.+++.
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            9999999999999999999999999999999999999999999999999999888864

>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=99.75  E-value=2e-18  Score=148.25  Aligned_cols=121  Identities=25%  Similarity=0.400  Sum_probs=114.0

Q ss_pred             hhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHH
Q 012162           17 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAE   96 (469)
Q Consensus        17 ~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (469)
                      .....+..+..+|+.+++.|+|++|+..|++|++++|+++.+|.++|.+|+.+|++                       .
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            44577999999999999999999999999999999999999999999999999999                       9


Q ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhh
Q 012162           97 LALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  160 (469)
Q Consensus        97 ~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~  160 (469)
                      +|+..++++++++|+++.+|+.+|.++..+|+|++|+..|++++.++|++..+...+..+.+.+
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            9999999999999999999999999999999999999999999999999999887776665543

>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=1.1e-17  Score=142.60  Aligned_cols=125  Identities=18%  Similarity=0.263  Sum_probs=115.4

Q ss_pred             hhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc----------------ccccchhHHHHHHHhhhccCCCCC
Q 012162           17 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----------------IVLGNRSSAYIRISQFLKHRPPSA   80 (469)
Q Consensus        17 ~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~----------------~~~~~~a~~~~~~~~~~~~~~~~~   80 (469)
                      +....+..+..+|+.+|+.|+|.+|+..|++|++..+...                .+|.|+|.+|+++|+|        
T Consensus        12 e~~~~a~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~--------   83 (153)
T d2fbna1          12 EKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDY--------   83 (153)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCH--------
T ss_pred             HHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhccc--------
Confidence            5667788999999999999999999999999998876543                4678999999999999        


Q ss_pred             cccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhh
Q 012162           81 SEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  160 (469)
Q Consensus        81 ~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~  160 (469)
                                     .+|+.+++++++++|++.++|+++|.+|..+|+|++|+.+|+++++++|+|..+...+..+.+.+
T Consensus        84 ---------------~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~kl  148 (153)
T d2fbna1          84 ---------------PKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVNKL  148 (153)
T ss_dssp             ---------------HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH
T ss_pred             ---------------chhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence                           99999999999999999999999999999999999999999999999999999999999998888


Q ss_pred             hhhh
Q 012162          161 ASLI  164 (469)
Q Consensus       161 ~~~~  164 (469)
                      +...
T Consensus       149 ~~~~  152 (153)
T d2fbna1         149 KEAR  152 (153)
T ss_dssp             HHHH
T ss_pred             HHHC
Confidence            6643

>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=99.70  E-value=3.4e-18  Score=151.88  Aligned_cols=106  Identities=26%  Similarity=0.392  Sum_probs=101.8

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      ..++.+..+|+.+++.|+|++|+..|++|++++|+++.+|.++|.+|.++|+|                       ++|+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~~~~~~~~lg~~y~~~~~~-----------------------~~Ai   58 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQP-----------------------EQAL   58 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCH-----------------------HHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHhhhhhh-----------------------hhhh
Confidence            35788999999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCch
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  148 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~  148 (469)
                      .++++|++++|+++.+|+++|.+|..+|+|++|+..|++|++++|++..
T Consensus        59 ~~~~~al~l~p~~~~a~~~lg~~~~~l~~~~~A~~~~~~al~l~p~~~~  107 (201)
T d2c2la1          59 ADCRRALELDGQSVKAHFFLGQCQLEMESYDEAIANLQRAYSLAKEQRL  107 (201)
T ss_dssp             HHHHHHTTSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHH
Confidence            9999999999999999999999999999999999999999999986554

>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=99.68  E-value=5.3e-17  Score=140.82  Aligned_cols=125  Identities=17%  Similarity=0.275  Sum_probs=114.8

Q ss_pred             hhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc---------------ccccchhHHHHHHHhhhccCCCCCc
Q 012162           17 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---------------IVLGNRSSAYIRISQFLKHRPPSAS   81 (469)
Q Consensus        17 ~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~---------------~~~~~~a~~~~~~~~~~~~~~~~~~   81 (469)
                      +....+..+..+|+.+|+.|+|++|+..|++|++..|...               .+|.++|.||+++|+|         
T Consensus         8 ek~~~a~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~---------   78 (170)
T d1p5qa1           8 EKLEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAF---------   78 (170)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCH---------
T ss_pred             HHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhc---------
Confidence            4566788899999999999999999999999999988754               4567899999999999         


Q ss_pred             ccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhh
Q 012162           82 EYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  161 (469)
Q Consensus        82 ~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~  161 (469)
                                    ++|+.+++++|+++|+++.+|+++|.+|..+|+|++|+..|+++++++|+|+.+...+..+.+.+.
T Consensus        79 --------------~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~~  144 (170)
T d1p5qa1          79 --------------SAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIR  144 (170)
T ss_dssp             --------------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHH
T ss_pred             --------------ccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHH
Confidence                          999999999999999999999999999999999999999999999999999999999988887766


Q ss_pred             hhh
Q 012162          162 SLI  164 (469)
Q Consensus       162 ~~~  164 (469)
                      ...
T Consensus       145 ~~~  147 (170)
T d1p5qa1         145 RQL  147 (170)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=99.66  E-value=1.1e-16  Score=138.55  Aligned_cols=125  Identities=15%  Similarity=0.271  Sum_probs=114.1

Q ss_pred             hhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc---------------ccccchhHHHHHHHhhhccCCCCCc
Q 012162           17 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP---------------IVLGNRSSAYIRISQFLKHRPPSAS   81 (469)
Q Consensus        17 ~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~---------------~~~~~~a~~~~~~~~~~~~~~~~~~   81 (469)
                      +....+..+..+|+.+|+.|+|.+|+..|++|+...|...               .+|.|+|.||+++|+|         
T Consensus        10 E~~~~a~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~---------   80 (168)
T d1kt1a1          10 EKLEQAAIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREY---------   80 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCH---------
T ss_pred             HHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhc---------
Confidence            4567789999999999999999999999999998765543               4577899999999999         


Q ss_pred             ccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhh
Q 012162           82 EYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  161 (469)
Q Consensus        82 ~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~  161 (469)
                                    .+|+.+++++++++|++.++|+++|.+|..+|+|++|+.+|+++++++|+|+.+...+..+...+.
T Consensus        81 --------------~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~~  146 (168)
T d1kt1a1          81 --------------TKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQKKAK  146 (168)
T ss_dssp             --------------HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHH
T ss_pred             --------------ccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHH
Confidence                          999999999999999999999999999999999999999999999999999999999888887776


Q ss_pred             hhh
Q 012162          162 SLI  164 (469)
Q Consensus       162 ~~~  164 (469)
                      ...
T Consensus       147 ~~~  149 (168)
T d1kt1a1         147 EHN  149 (168)
T ss_dssp             HHH
T ss_pred             hHH
Confidence            543

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.64  E-value=1.6e-16  Score=130.90  Aligned_cols=119  Identities=16%  Similarity=0.266  Sum_probs=106.0

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      ..|..++..|+.++..|+|++|+.+|++|++++|+++.++.++|.+|..+|+|                       ++|+
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            35788899999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchH-------HHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhh
Q 012162          100 KDAEKLLNLQSNSMK-------SHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus       100 ~~~~~al~l~p~~~~-------~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                      .+++++++++|++..       +|+++|.++..++++++|+.+|++++..+++ ++....+..+++.+++
T Consensus        59 ~~~~~al~l~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~kal~~~~~-~~~~~~l~~~~k~lke  127 (128)
T d1elra_          59 ELCEKAIEVGRENREDYRQIAKAYARIGNSYFKEEKYKDAIHFYNKSLAEHRT-PDVLKKCQQAEKILKE  127 (128)
T ss_dssp             HHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCcccHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCC-HHHHHHHHHHHHHHhC
Confidence            999999999998864       6667777888888999999999999998875 5666777777776653

>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=99.62  E-value=3.4e-16  Score=135.42  Aligned_cols=126  Identities=20%  Similarity=0.270  Sum_probs=114.3

Q ss_pred             hhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcC----------------CCCCcccccchhHHHHHHHhhhccCCCCC
Q 012162           17 DRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNI----------------KPGDPIVLGNRSSAYIRISQFLKHRPPSA   80 (469)
Q Consensus        17 ~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~----------------~p~~~~~~~~~a~~~~~~~~~~~~~~~~~   80 (469)
                      .....+..+...|+.++..|+|.+|+..|++|++.                +|.+..++.++|.+|.++|+|        
T Consensus        22 ~~~~~a~~~~~~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~--------   93 (169)
T d1ihga1          22 KILLISEDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDW--------   93 (169)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCH--------
T ss_pred             HHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhccc--------
Confidence            34455677889999999999999999999999864                456667889999999999999        


Q ss_pred             cccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhh
Q 012162           81 SEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTT  160 (469)
Q Consensus        81 ~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~  160 (469)
                                     ++|+..+++|++++|+++.+|+++|.+|..+|+|++|+..|+++++++|+|..+...+..+.+.+
T Consensus        94 ---------------~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l~~~~~~l  158 (169)
T d1ihga1          94 ---------------QGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKI  158 (169)
T ss_dssp             ---------------HHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             ---------------chhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence                           99999999999999999999999999999999999999999999999999999999999998887


Q ss_pred             hhhhc
Q 012162          161 ASLIG  165 (469)
Q Consensus       161 ~~~~~  165 (469)
                      .....
T Consensus       159 ~~~~~  163 (169)
T d1ihga1         159 KAQKD  163 (169)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            76543

>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=99.60  E-value=9.2e-16  Score=124.94  Aligned_cols=113  Identities=12%  Similarity=0.054  Sum_probs=103.5

Q ss_pred             HhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHH---HHhhhccCCCCCcccCccCCCCCchhHHHHHHHHH
Q 012162           27 QKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIR---ISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAE  103 (469)
Q Consensus        27 ~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~  103 (469)
                      +.++.+...++|++|.+.|++|++++|+++.+++++|.++++   .+++                       .+|+..++
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            567788999999999999999999999999999999999986   5667                       89999999


Q ss_pred             HHhhccccc--hHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhh
Q 012162          104 KLLNLQSNS--MKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus       104 ~al~l~p~~--~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                      ++++.+|++  ..+++.+|.+|..+|+|++|+.+|+++++++|+|..+...+..+++.+++
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            999998766  45899999999999999999999999999999999999999888887653

>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=99.59  E-value=4.1e-16  Score=116.08  Aligned_cols=70  Identities=26%  Similarity=0.512  Sum_probs=61.7

Q ss_pred             CCCccccccccccccccccEEccCCCcccHHHHHHHcccC-CCccccccccccCCCcccCcccHHHHHHHhch
Q 012162          172 PERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRG-NKCPLCRAVLFITPRTCAVSVTLNSIIQKNFP  243 (469)
Q Consensus       172 ~~~~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~~-~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~~  243 (469)
                      ....+++.|+||.++|.+||+++|||+||+.||.+|+..+ ..||.|+.++..  .++.+|..|+++|++|..
T Consensus         3 peiP~~l~CpIc~~~m~dPV~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~--~~l~pN~~L~~~I~~~~~   73 (78)
T d1t1ha_           3 PEFPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLH--AGLTPNYVLKSLIALWCE   73 (78)
T ss_dssp             CCCSSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSS--CCCEECTTTHHHHHHHHH
T ss_pred             CCCCccCCCcCcCchhhCceEccCCCcchHHHHHHHHHHCCCCCCcccccCCc--ccccchHHHHHHHHHHHH
Confidence            3466889999999999999999999999999999999764 579999998843  578899999999999854

>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=99.58  E-value=2.7e-16  Score=117.60  Aligned_cols=68  Identities=21%  Similarity=0.357  Sum_probs=60.4

Q ss_pred             CCccccccccccccccccEEccCCCcccHHHHHHHccc-CCCccccccccccCCCcccCcccHHHHHHHhc
Q 012162          173 ERTDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDR-GNKCPLCRAVLFITPRTCAVSVTLNSIIQKNF  242 (469)
Q Consensus       173 ~~~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~  242 (469)
                      ...+++.|+||.++|.+||+++|||+||+.||.+|+.. +..||.||.++..  .++.+|..|+++|++|+
T Consensus         3 eiP~~l~CpIc~~l~~dPv~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~--~~l~pN~~L~~~I~~~l   71 (80)
T d2c2la2           3 DIPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQ--EQLIPNLAMKEVIDAFI   71 (80)
T ss_dssp             CCCSTTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCG--GGCEECHHHHHHHHHHH
T ss_pred             CCCccccCcCcCchhhhhcccCCcCeecHHHHHHHHhcCCccCCCccccccc--cccccHHHHHHHHHHHH
Confidence            45688999999999999999999999999999999975 4579999998743  57889999999999975

>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=99.54  E-value=6.2e-15  Score=135.56  Aligned_cols=118  Identities=22%  Similarity=0.156  Sum_probs=109.1

Q ss_pred             hhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHH
Q 012162           18 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL   97 (469)
Q Consensus        18 ~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (469)
                      ....+..+..+|..++..|+|++|+..|++|++++|+++.+|+++|.+|..+|++                       ++
T Consensus        33 ~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~-----------------------~~   89 (259)
T d1xnfa_          33 DDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNF-----------------------DA   89 (259)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCH-----------------------HH
T ss_pred             CHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHH-----------------------HH
Confidence            3456889999999999999999999999999999999999999999999999999                       99


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHH
Q 012162           98 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  158 (469)
Q Consensus        98 A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~  158 (469)
                      |+..++++++++|+++.+++.+|.+|..+|++++|+..|+++++++|++......+.....
T Consensus        90 A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~  150 (259)
T d1xnfa_          90 AYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPNDPFRSLWLYLAEQ  150 (259)
T ss_dssp             HHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             hhhhhhHHHHHHhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhccccHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999998876555444333

>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=99.51  E-value=9.6e-15  Score=122.76  Aligned_cols=121  Identities=17%  Similarity=0.134  Sum_probs=102.0

Q ss_pred             HHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhcc
Q 012162           30 NRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQ  109 (469)
Q Consensus        30 ~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~  109 (469)
                      ..+-+.+.|++|+..|++|++++|+++.+++++|.++..++++..    +         .......++|+..+++|++++
T Consensus         5 ~~~~r~~~fe~A~~~~e~al~~~P~~~~~~~~~g~~l~~~~~~~~----~---------~e~~~~~~~Ai~~~~kAl~l~   71 (145)
T d1zu2a1           5 TEFDRILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHS----I---------SDAKQMIQEAITKFEEALLID   71 (145)
T ss_dssp             CSHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSC----H---------HHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHccHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHhhhhhh----h---------hHHHHHHHHHHHHHHHHHHhc
Confidence            445667889999999999999999999999999999998766510    0         001112288999999999999


Q ss_pred             ccchHHHHHHHHHHHHHhH-----------HHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhh
Q 012162          110 SNSMKSHLLKANALILLER-----------YDMARDAILSGLQVDPFSNPLQASLQNLERTTASL  163 (469)
Q Consensus       110 p~~~~~~~~~g~~~~~~~~-----------~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~  163 (469)
                      |+++.+|+++|.+|..+|+           |++|+..|++|++++|++..++..+....++.+..
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            9999999999999988764           79999999999999999999999999888776543

>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=99.50  E-value=2.2e-14  Score=114.90  Aligned_cols=96  Identities=13%  Similarity=0.047  Sum_probs=91.7

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      .......|..+++.|++.+|+..|+++++.+|+++.+|.++|.++..++++                       ++|+..
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 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGL  140 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al  140 (469)
                      ++++++++|+++.+++.+|.+|...|++++|++.|++.|
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            999999999999999999999999999999999999875

>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=99.47  E-value=2.5e-14  Score=110.66  Aligned_cols=71  Identities=18%  Similarity=0.271  Sum_probs=62.4

Q ss_pred             CCCCCccccccccccccccccEEccCC-CcccHHHHHHHcccCCCccccccccccCCCcccCcccHHHHHHHhc
Q 012162          170 GTPERTDDFDCTLCLKLLYEPITTPCG-HSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNF  242 (469)
Q Consensus       170 ~~~~~~~~~~C~ic~~~~~~p~~~~cg-h~~C~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~  242 (469)
                      ......+.|.|+||..+|.+||+++|| |+||+.||.+|+..+..||.||+++..  .++.+|..|++.|++|.
T Consensus        15 ~~~~~P~~f~CPI~~~lm~dPV~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~--~~L~pN~~Lr~~I~~~~   86 (98)
T d1wgma_          15 TYADACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTM--DQIRPNTELKEKIQRWL   86 (98)
T ss_dssp             CCCSCCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCT--TTSEECHHHHHHHHHHH
T ss_pred             hhcCCcHHhCCcCchhHHHHHHhcccccchhhHHHHHHHHHhcCCcccccccccc--hhhcchHHHHHHHHHHH
Confidence            344566789999999999999999877 589999999999988899999999853  58899999999999876

>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=99.45  E-value=1.3e-14  Score=113.96  Aligned_cols=66  Identities=27%  Similarity=0.816  Sum_probs=56.8

Q ss_pred             cccccccccccccccEEccCCCcccHHHHHHHcccC---CCccccccccccCCCcccCcccHHHHHHHhch
Q 012162          176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRG---NKCPLCRAVLFITPRTCAVSVTLNSIIQKNFP  243 (469)
Q Consensus       176 ~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~~---~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~~  243 (469)
                      +.+.|+||++.+.+|++++|||+||+.||..|+...   ..||.||.++.  ..++.+|..+.++++++..
T Consensus        20 ~~l~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~--~~~l~~n~~l~~~ve~l~~   88 (103)
T d1jm7a_          20 KILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDIT--KRSLQESTRFSQLVEELLK   88 (103)
T ss_dssp             HHTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCC--TTTCBCCCSSSHHHHHHHH
T ss_pred             cCcCCCccCchhCCeEEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCC--hhhCCcCHHHHHHHHHHHH
Confidence            467899999999999999999999999999998643   47999999884  3578889999999987643

>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=99.45  E-value=7.4e-14  Score=123.12  Aligned_cols=102  Identities=15%  Similarity=0.135  Sum_probs=94.6

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ++..++++|..++..|+|++|+..|+++   .|.++.+|+++|.+|+.+|+|                       ++|+.
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            5677889999999999999999999864   566788999999999999999                       99999


Q ss_pred             HHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCch
Q 012162          101 DAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNP  148 (469)
Q Consensus       101 ~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~  148 (469)
                      +|++|++++|+++.+|+++|.++..+|+|++|+.+|++|+...+.+..
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=99.41  E-value=7.3e-14  Score=118.80  Aligned_cols=119  Identities=18%  Similarity=0.152  Sum_probs=99.3

Q ss_pred             hhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc------------ccccchhHHHHHHHhhhccCCCCCcccCcc
Q 012162           19 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP------------IVLGNRSSAYIRISQFLKHRPPSASEYRPL   86 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~   86 (469)
                      ...+..++..|+.++..|+|++|+..|++|+++.|+.+            .+|.++|.+|..+|+|              
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            44566677789999999999999999999999988765            4688999999999999              


Q ss_pred             CCCCCchhHHHHHHHHHHHhhcccc-----------chHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHH
Q 012162           87 NGLDPTTHAELALKDAEKLLNLQSN-----------SMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQN  155 (469)
Q Consensus        87 ~~~~~~~~~~~A~~~~~~al~l~p~-----------~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~  155 (469)
                               ++|+.++++++++.|.           ...+|+++|.+|..+|++++|+..|++|+++.|...........
T Consensus        72 ---------~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~~~~~~~~~~~~  142 (156)
T d2hr2a1          72 ---------DEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKER  142 (156)
T ss_dssp             ---------HHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTTHHH
T ss_pred             ---------chhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHhhchHHHHHH
Confidence                     9999999999987553           45689999999999999999999999999998866554444444


Q ss_pred             HHHhh
Q 012162          156 LERTT  160 (469)
Q Consensus       156 ~~~~~  160 (469)
                      +.+.+
T Consensus       143 ~~~~~  147 (156)
T d2hr2a1         143 MMEVA  147 (156)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            43333

>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=99.39  E-value=9.2e-14  Score=103.86  Aligned_cols=48  Identities=35%  Similarity=0.969  Sum_probs=43.1

Q ss_pred             cccccccccccccccEEccCCCcccHHHHHHHcc-cCCCcccccccccc
Q 012162          176 DDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD-RGNKCPLCRAVLFI  223 (469)
Q Consensus       176 ~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~-~~~~CP~Cr~~~~~  223 (469)
                      +.+.|+||++.+.+|++++|||+||+.||.+|++ .+..||.||.++..
T Consensus        22 ~~l~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~   70 (86)
T d1rmda2          22 KSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFP   70 (86)
T ss_dssp             HHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             cCcCCccCCcchhcceecCCCChhhHHHHHHHHhhCCCcCcccCCCCCh
Confidence            5578999999999999999999999999999996 45589999998853

>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=99.37  E-value=1.1e-12  Score=115.43  Aligned_cols=102  Identities=16%  Similarity=0.095  Sum_probs=94.7

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      +..+.+.|..++..|+|++|+..|++|++++|+++.+|+++|.+|.++|+|                       ++|+.+
T Consensus        36 ~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~-----------------------~~A~~~   92 (192)
T d1hh8a_          36 SRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKY-----------------------DLAIKD   92 (192)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHHHHHHHHhhccH-----------------------HHHHHH
Confidence            456889999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhcccc----------------chHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCC
Q 012162          102 AEKLLNLQSN----------------SMKSHLLKANALILLERYDMARDAILSGLQVDPFS  146 (469)
Q Consensus       102 ~~~al~l~p~----------------~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~  146 (469)
                      +++|+...+.                ...+++++|.++..+|++++|++.|.+|+.+.|+.
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            9999986443                25789999999999999999999999999999874

>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=99.33  E-value=1.6e-13  Score=106.42  Aligned_cols=63  Identities=27%  Similarity=0.663  Sum_probs=54.0

Q ss_pred             cccccccccccccccEEc-cCCCcccHHHHHHHcccCCCccccccccccCCCcccCcccHHHHHHHhc
Q 012162          176 DDFDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDRGNKCPLCRAVLFITPRTCAVSVTLNSIIQKNF  242 (469)
Q Consensus       176 ~~~~C~ic~~~~~~p~~~-~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~l~~~~~~~~  242 (469)
                      +.+.|+||.+.|.+|+++ +|||+||+.||.+|+.  ..||.||.++.  ..++.+|..+.++++.+.
T Consensus        21 ~~l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~--~~~l~~n~~l~~lv~~~~   84 (97)
T d1jm7b_          21 KLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAW--IQDLKINRQLDSMIQLCS   84 (97)
T ss_dssp             HTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCS--CSSCCCCHHHHHHHHHHH
T ss_pred             hcCCCccCCchhhcCceeCCCCCchhHHHHHHHHh--ccccccCCcCc--hhhCcccHHHHHHHHHHH
Confidence            356899999999999975 8999999999999984  46999999874  357889999999998753

>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=99.32  E-value=4.1e-13  Score=127.30  Aligned_cols=107  Identities=17%  Similarity=0.137  Sum_probs=98.4

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      +..+...|..+...|++++|+..|++++..+|+++.+|.++|.+|..+|++                       ++|+..
T Consensus       172 ~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~-----------------------~~A~~~  228 (323)
T d1fcha_         172 PDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQS-----------------------EEAVAA  228 (323)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             cccchhhHHHHHHHHHHhhhhcccccccccccccccchhhhhhcccccccc-----------------------hhHHHH
Confidence            456778899999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHH
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQA  151 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~  151 (469)
                      ++++++++|+++.+|+.+|.+|..+|++++|+..|++|++++|++.....
T Consensus       229 ~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~  278 (323)
T d1fcha_         229 YRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRG  278 (323)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC-----
T ss_pred             HHHHHHHhhccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhh
Confidence            99999999999999999999999999999999999999999998876543

>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=99.31  E-value=1.1e-12  Score=124.80  Aligned_cols=119  Identities=10%  Similarity=-0.058  Sum_probs=109.0

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHh-hhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQ-FLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      -++++...|..+.+.+.+++|+..|++||+++|++..+|++||.++..+++ +                       ++|+
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            356666778999999999999999999999999999999999999999875 8                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhh
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                      ..++++++++|++..+|+.+|.++..+|++++|+..|.++++++|++..+...+..+-..++.
T Consensus        99 ~~~~~al~~~p~~~~a~~~~~~~~~~l~~~~eAl~~~~kal~~dp~n~~a~~~~~~~~~~~~~  161 (315)
T d2h6fa1          99 NYITAIIEEQPKNYQVWHHRRVLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKL  161 (315)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhhhhHHHHHhHHHHhhccHHHHHHHHhhhhhhhhcchHHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999999999999998888777766644

>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=99.30  E-value=9e-13  Score=125.36  Aligned_cols=115  Identities=10%  Similarity=-0.013  Sum_probs=107.1

Q ss_pred             hhhHHHHHHhHHHHHHhc-cHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHH
Q 012162           19 YTHVFDLVQKGNRAFRES-NFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL   97 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~-~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (469)
                      ..+..++..+|..+...| ++++|+..|+++++++|++..+|.++|.++..+|++                       ++
T Consensus        74 P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~~~l~~~-----------------------~e  130 (315)
T d2h6fa1          74 AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEWLRDP-----------------------SQ  130 (315)
T ss_dssp             TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCC-----------------------TT
T ss_pred             CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHHHhhccH-----------------------HH
Confidence            344678899999988876 699999999999999999999999999999999999                       99


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHH
Q 012162           98 ALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNL  156 (469)
Q Consensus        98 A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~  156 (469)
                      |+..+.++++++|++..+|+.+|.++..+|++++|+..|+++++++|++..+...+..+
T Consensus       131 Al~~~~kal~~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~n~~a~~~r~~~  189 (315)
T d2h6fa1         131 ELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFV  189 (315)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHhhhhhhhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCccHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999887766554

>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=99.29  E-value=2e-12  Score=124.10  Aligned_cols=133  Identities=17%  Similarity=0.127  Sum_probs=78.6

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCC---------
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDP---------   91 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------   91 (469)
                      .+..+...|..++..|++++|+..|+++++++|+++.++.++|.++...|++.+    +...++......|         
T Consensus       236 ~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~----A~~~~~~~~~~~~~~~~~~~~l  311 (388)
T d1w3ba_         236 HAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSVAE----AEDCYNTALRLCPTHADSLNNL  311 (388)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHHSCHHH----HHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHH----HHHHHHhhhccCCccchhhhHH
Confidence            355667778888888888888888888888888888888888888877777610    0000000000000         


Q ss_pred             ------chhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHH
Q 012162           92 ------TTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  157 (469)
Q Consensus        92 ------~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~  157 (469)
                            ....++|+..++++++++|+++.+++.+|.+|..+|++++|+..|++|++++|++..+...+..+-
T Consensus       312 ~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~lg~~~  383 (388)
T d1w3ba_         312 ANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTL  383 (388)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence                  001155555555555555555555555555555555555555555555555555555555554443

>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=99.27  E-value=3.8e-13  Score=92.43  Aligned_cols=46  Identities=22%  Similarity=0.272  Sum_probs=42.1

Q ss_pred             cccccccccccccEEc-cCCCcccHHHHHHHcccCCCcccccccccc
Q 012162          178 FDCTLCLKLLYEPITT-PCGHSFCRSCLFQSMDRGNKCPLCRAVLFI  223 (469)
Q Consensus       178 ~~C~ic~~~~~~p~~~-~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~~  223 (469)
                      +.|+||++.+.+||.+ .|||+||+.||.+|+..+..||.||+++..
T Consensus         1 l~C~Ic~~~~~~Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~   47 (56)
T d2baya1           1 MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSI   47 (56)
T ss_dssp             CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCG
T ss_pred             CCCccCCchHHhcCccCCCCCcccHHHHHHHHhhccCCCccCCcCCH
Confidence            4699999999999987 599999999999999988899999998853

>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=99.22  E-value=8.5e-12  Score=117.97  Aligned_cols=102  Identities=16%  Similarity=0.127  Sum_probs=98.2

Q ss_pred             HHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHH
Q 012162           25 LVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEK  104 (469)
Q Consensus        25 ~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  104 (469)
                      .+.+|..+++.|+|++|+..|+++++.+|+++.+|.++|.+|..+|++                       ++|+..+.+
T Consensus        22 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~-----------------------~~A~~~~~~   78 (323)
T d1fcha_          22 PFEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQE-----------------------LLAISALRR   78 (323)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCh-----------------------HHHHHHHHh
Confidence            468999999999999999999999999999999999999999999999                       999999999


Q ss_pred             HhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchh
Q 012162          105 LLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPL  149 (469)
Q Consensus       105 al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~  149 (469)
                      +++++|+++.+|+.+|.+|...|++++|+..|++++..+|++...
T Consensus        79 al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~  123 (323)
T d1fcha_          79 CLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHL  123 (323)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGG
T ss_pred             hhccccccccccccccccccccccccccccchhhHHHhccchHHH
Confidence            999999999999999999999999999999999999999987654

>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=99.22  E-value=3.3e-12  Score=94.32  Aligned_cols=46  Identities=33%  Similarity=0.742  Sum_probs=41.5

Q ss_pred             cccccccccccccEEccCCCcccHHHHHHHcc-cCCCcccccccccc
Q 012162          178 FDCTLCLKLLYEPITTPCGHSFCRSCLFQSMD-RGNKCPLCRAVLFI  223 (469)
Q Consensus       178 ~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~-~~~~CP~Cr~~~~~  223 (469)
                      ..|+||++.+.+|+.++|||.||+.||..|+. ++..||.||..+..
T Consensus        24 ~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~   70 (79)
T d1fbva4          24 QLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKG   70 (79)
T ss_dssp             TBCTTTSSSBCCEECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCC
T ss_pred             CCCccCCCcCCCeEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccC
Confidence            46999999999999999999999999999997 45689999999853

>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=99.18  E-value=1.4e-12  Score=89.11  Aligned_cols=47  Identities=32%  Similarity=0.689  Sum_probs=40.5

Q ss_pred             ccccccccccccccccEEccCCCcccHHHHHHHcccCCCccccccccccC
Q 012162          175 TDDFDCTLCLKLLYEPITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLFIT  224 (469)
Q Consensus       175 ~~~~~C~ic~~~~~~p~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~~~  224 (469)
                      .+.+.|+||++.+.+|+.++|||+||..||.+|   +..||.||+++..+
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            355799999999999999999999999998653   56899999988543

>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=99.17  E-value=3.7e-11  Score=114.92  Aligned_cols=116  Identities=23%  Similarity=0.287  Sum_probs=102.5

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      .....+...|..+...|+|++|+..|.+++..+|.++..+..+|.++...|++                       ++|+
T Consensus       201 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----------------------~~A~  257 (388)
T d1w3ba_         201 NFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLI-----------------------DLAI  257 (388)
T ss_dssp             TCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHH
T ss_pred             ccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhhhHHHHHHHHHHHHHHCCCH-----------------------HHHH
Confidence            34678889999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHH
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLER  158 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~  158 (469)
                      ..++++++++|+++.+++.+|.++...|++++|+..|++++...|.+......+..+..
T Consensus       258 ~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  316 (388)
T d1w3ba_         258 DTYRRAIELQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKR  316 (388)
T ss_dssp             HHHHHHHHTCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHHH
Confidence            99999999999999999999999988888888888888888888887766655544433

>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=99.16  E-value=1.8e-11  Score=94.37  Aligned_cols=83  Identities=18%  Similarity=0.112  Sum_probs=63.4

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc-------ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCch
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP-------IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT   93 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~-------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (469)
                      .++..+..|..+++.|+|.+|+..|++|+++.|.+.       .++.++|.+|.++|++                     
T Consensus         4 saddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~---------------------   62 (95)
T d1tjca_           4 TAEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDL---------------------   62 (95)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCH---------------------
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCCh---------------------
Confidence            467788999999999999999999999999877653       3456667777777777                     


Q ss_pred             hHHHHHHHHHHHhhccccchHHHHHHHHHHHHH
Q 012162           94 HAELALKDAEKLLNLQSNSMKSHLLKANALILL  126 (469)
Q Consensus        94 ~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~  126 (469)
                        ++|+..++++++++|+++.++.+++.....+
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              7777777777777777777777666554443

>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=99.12  E-value=6.9e-12  Score=89.87  Aligned_cols=44  Identities=30%  Similarity=0.767  Sum_probs=40.1

Q ss_pred             ccccccccccccEE-ccCCCcccHHHHHHHcccCCCccccccccc
Q 012162          179 DCTLCLKLLYEPIT-TPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  222 (469)
Q Consensus       179 ~C~ic~~~~~~p~~-~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~  222 (469)
                      .|+||++.+.+|+. ++|||+||..||.+|+..+..||.||.++.
T Consensus         7 ~C~IC~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~   51 (68)
T d1chca_           7 RCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCSSCCSCCCSCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCccCCcCccCCcEEeCCCCcCcHHHHHHHHHhCCcCCCCCcchH
Confidence            69999999988755 799999999999999998889999999873

>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=99.08  E-value=2e-10  Score=98.28  Aligned_cols=91  Identities=13%  Similarity=0.184  Sum_probs=85.2

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      ..+..+.++|..+++.|+|++|+..|++||+++|+++.+|+++|.+|..+|+|                       ++|+
T Consensus        75 ~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~-----------------------~~A~  131 (169)
T d1ihga1          75 VALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEY-----------------------DQAL  131 (169)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCH-----------------------HHHH
T ss_pred             hhHHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCH-----------------------HHHH
Confidence            34667788999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHhHHHHHH
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANALILLERYDMAR  133 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~  133 (469)
                      .+++++++++|++..++..++.++..+..+.++.
T Consensus       132 ~~~~~al~l~p~n~~~~~~l~~~~~~l~~~~~~~  165 (169)
T d1ihga1         132 ADLKKAQEIAPEDKAIQAELLKVKQKIKAQKDKE  165 (169)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999998888887764

>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=99.04  E-value=6.1e-11  Score=108.18  Aligned_cols=104  Identities=16%  Similarity=0.071  Sum_probs=91.2

Q ss_pred             ccHHHHHHHHHHHhcCC----CCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhcccc
Q 012162           36 SNFEEAISNYSRANNIK----PGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSN  111 (469)
Q Consensus        36 ~~~~~A~~~y~~al~~~----p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~  111 (469)
                      ++++.|+..+++++...    |..+.+|+++|.+|...|+|                       ++|+..|+++++++|+
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            45677888888888753    34567999999999999999                       9999999999999999


Q ss_pred             chHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhh
Q 012162          112 SMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus       112 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                      ++.+|+.+|.+|..+|++++|+..|+++++++|++..+...+..+-..+++
T Consensus        70 ~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~  120 (259)
T d1xnfa_          70 MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGR  120 (259)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTC
T ss_pred             CHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhhhhhhHHHHHHHHHHHhh
Confidence            999999999999999999999999999999999999888777666554443

>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=99.04  E-value=7.8e-11  Score=90.68  Aligned_cols=81  Identities=14%  Similarity=-0.035  Sum_probs=74.6

Q ss_pred             cccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccc-------hHHHHHHHHHHHHHhHHH
Q 012162           58 VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNS-------MKSHLLKANALILLERYD  130 (469)
Q Consensus        58 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~-------~~~~~~~g~~~~~~~~~~  130 (469)
                      -.+++|.++++.|+|                       .+|+..+++|+++.|.+       ..++.++|.++..+|+++
T Consensus         7 dc~~lG~~~~~~g~y-----------------------~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~   63 (95)
T d1tjca_           7 DSFELGKVAYTEADY-----------------------YHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLD   63 (95)
T ss_dssp             HHHHHHHHHHHTTCH-----------------------HHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHCCCH-----------------------HHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChH
Confidence            356899999999999                       99999999999987654       678999999999999999


Q ss_pred             HHHHHHhccccCCCCCchhHHHHHHHHHhhh
Q 012162          131 MARDAILSGLQVDPFSNPLQASLQNLERTTA  161 (469)
Q Consensus       131 ~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~  161 (469)
                      +|+..|+++|+++|+++.+...+..+++.++
T Consensus        64 ~A~~~y~~aL~l~P~~~~a~~Nl~~~~~~l~   94 (95)
T d1tjca_          64 KALLLTKKLLELDPEHQRANGNLKYFEYIMA   94 (95)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCcCCHHHHHHHHHHHHHhC
Confidence            9999999999999999999999999988775

>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=99.01  E-value=4.9e-11  Score=84.39  Aligned_cols=47  Identities=36%  Similarity=0.834  Sum_probs=38.0

Q ss_pred             cccccccccccccc-c----EEccCCCcccHHHHHHHccc-CCCccccccccc
Q 012162          176 DDFDCTLCLKLLYE-P----ITTPCGHSFCRSCLFQSMDR-GNKCPLCRAVLF  222 (469)
Q Consensus       176 ~~~~C~ic~~~~~~-p----~~~~cgh~~C~~Ci~~~~~~-~~~CP~Cr~~~~  222 (469)
                      ++..|+||++.+.. |    ++++|||+||..||.+|+.. +..||.||+++.
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            45689999986533 2    56799999999999999865 457999999874

>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=99.00  E-value=6.4e-11  Score=80.48  Aligned_cols=47  Identities=32%  Similarity=0.751  Sum_probs=40.0

Q ss_pred             cccccccccccccccc---EEc-cCCCcccHHHHHHHcccCCCcccccccc
Q 012162          175 TDDFDCTLCLKLLYEP---ITT-PCGHSFCRSCLFQSMDRGNKCPLCRAVL  221 (469)
Q Consensus       175 ~~~~~C~ic~~~~~~p---~~~-~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~  221 (469)
                      ++...|+||++.+.+.   +.+ +|||.||..||.+|+.....||.||+++
T Consensus         3 ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i   53 (55)
T d1iyma_           3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV   53 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCS
T ss_pred             CCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEe
Confidence            4566899999988753   444 6999999999999999888999999875

>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=99.00  E-value=2.7e-10  Score=91.14  Aligned_cols=81  Identities=14%  Similarity=0.113  Sum_probs=76.8

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      ..+..+..+|..++..|+|++|+..|.++++++|+++.+|+++|.++..+|+|                       ++|+
T Consensus        35 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~-----------------------~~A~   91 (117)
T d1elwa_          35 HNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRF-----------------------EEAK   91 (117)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHH
T ss_pred             cchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCH-----------------------HHHH
Confidence            34678899999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHH
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANAL  123 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~  123 (469)
                      ..++++++++|+++.++..++.+.
T Consensus        92 ~~~~~a~~~~p~~~~~~~~l~~l~  115 (117)
T d1elwa_          92 RTYEEGLKHEANNPQLKEGLQNME  115 (117)
T ss_dssp             HHHHHHHTTCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHh
Confidence            999999999999999999988764

>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=98.98  E-value=8.6e-10  Score=95.18  Aligned_cols=105  Identities=19%  Similarity=0.083  Sum_probs=94.9

Q ss_pred             hhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc----------------------ccccchhHHHHHHHhhhcc
Q 012162           18 RYTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP----------------------IVLGNRSSAYIRISQFLKH   75 (469)
Q Consensus        18 ~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~----------------------~~~~~~a~~~~~~~~~~~~   75 (469)
                      +....+.+...|..+...|++++|+..|++|+++.+++.                      .++.+++.++..+|++   
T Consensus         7 D~~~f~~~~~~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~---   83 (179)
T d2ff4a2           7 DLGRFVAEKTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRA---   83 (179)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCH---
T ss_pred             cHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCc---
Confidence            345678899999999999999999999999999987653                      3567788899999999   


Q ss_pred             CCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhcc-------ccCCCC
Q 012162           76 RPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSG-------LQVDPF  145 (469)
Q Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~a-------l~~~p~  145 (469)
                                          .+|+..++++++++|.+..+|..++.+|..+|++.+|+..|+++       +-++|.
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

>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=98.97  E-value=8.8e-10  Score=94.14  Aligned_cols=87  Identities=15%  Similarity=0.156  Sum_probs=81.5

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      +..+.++|..+++.|+|.+|+..|+++++++|++..+|+++|.+|..+|+|                       ++|+.+
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            455667999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHHH
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDM  131 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~  131 (469)
                      +.++++++|++..++..++.+...++.+.+
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            999999999999999999999888877755

>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=98.95  E-value=8.4e-10  Score=92.73  Aligned_cols=85  Identities=14%  Similarity=0.067  Sum_probs=79.0

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      +..+.++|..+++.|+|++|+..|++||+++|++..+|+++|.+|..+|+|                       ++|+.+
T Consensus        67 ~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~-----------------------~~A~~~  123 (153)
T d2fbna1          67 ISCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFL-----------------------EEAKEN  123 (153)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCH-----------------------HHHHHH
T ss_pred             HHHHhhHHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCH-----------------------HHHHHH
Confidence            456678999999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHH
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERY  129 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~  129 (469)
                      ++++++++|++..+...++.+...+++.
T Consensus       124 ~~~al~l~P~n~~~~~~l~~~~~kl~~~  151 (153)
T d2fbna1         124 LYKAASLNPNNLDIRNSYELCVNKLKEA  151 (153)
T ss_dssp             HHHHHHHSTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHHHHHH
Confidence            9999999999999999998887766553

>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=98.95  E-value=1.2e-09  Score=93.51  Aligned_cols=89  Identities=20%  Similarity=0.220  Sum_probs=82.7

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ...+...|..+++.|+|++|+..+++||+++|+++.+++++|.+|..+|+|                       ++|+.+
T Consensus        62 ~~~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~-----------------------~~A~~~  118 (170)
T d1p5qa1          62 LASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDF-----------------------ELARAD  118 (170)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhH-----------------------HHHHHH
Confidence            455667899999999999999999999999999999999999999999999                       999999


Q ss_pred             HHHHhhccccchHHHHHHHHHHHHHhHHHHHH
Q 012162          102 AEKLLNLQSNSMKSHLLKANALILLERYDMAR  133 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~  133 (469)
                      ++++++++|+++.+...++.++...+++.+..
T Consensus       119 ~~~al~l~P~n~~~~~~l~~~~~~~~~~~~~e  150 (170)
T d1p5qa1         119 FQKVLQLYPNNKAAKTQLAVCQQRIRRQLARE  150 (170)
T ss_dssp             HHHHHHHCSSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999988887777654

>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=98.94  E-value=1.4e-10  Score=77.92  Aligned_cols=44  Identities=30%  Similarity=0.746  Sum_probs=36.6

Q ss_pred             ccccccccccccc----EEccCCCcccHHHHHHHcccC-CCcccccccc
Q 012162          178 FDCTLCLKLLYEP----ITTPCGHSFCRSCLFQSMDRG-NKCPLCRAVL  221 (469)
Q Consensus       178 ~~C~ic~~~~~~p----~~~~cgh~~C~~Ci~~~~~~~-~~CP~Cr~~~  221 (469)
                      ++|+||++.+...    +.++|||+||..|+.+|+..+ ..||.||+++
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    346899999999999999854 4799999986

>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=98.92  E-value=1.5e-09  Score=91.63  Aligned_cols=93  Identities=12%  Similarity=0.163  Sum_probs=83.3

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      ..+..+...|..++..|++++|+..|.+|++++|++..+|.++|.+|..+|+|                       ++|+
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            34778889999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHH--HHhHHHHHHHH
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANALI--LLERYDMARDA  135 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~--~~~~~~~A~~~  135 (469)
                      ..+++++.++|+++.++..++.+..  ..+.+++|+..
T Consensus        99 ~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          99 RDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             HHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            9999999999999999988887754  44556666543

>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=98.90  E-value=1.1e-09  Score=86.79  Aligned_cols=84  Identities=11%  Similarity=0.001  Sum_probs=76.9

Q ss_pred             ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHH
Q 012162           57 IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAI  136 (469)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~  136 (469)
                      ..++++|.++++.|++                       .+|+..++++++++|+++.+|+.+|.++...|++++|+.+|
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            4557789999999999                       99999999999999999999999999999999999999999


Q ss_pred             hccccCCCCCchhHHHHHHHHHhhhhh
Q 012162          137 LSGLQVDPFSNPLQASLQNLERTTASL  163 (469)
Q Consensus       137 ~~al~~~p~~~~~~~~~~~~~~~~~~~  163 (469)
                      +++++++|++..+...+..+-...++.
T Consensus        74 ~~al~~~p~~~~a~~~la~~y~~~g~~  100 (112)
T d1hxia_          74 NHARMLDPKDIAVHAALAVSHTNEHNA  100 (112)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHHHHHH
T ss_pred             ccccccccccccchHHHHHHHHHCCCH
Confidence            999999999999988887776665543

>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=98.86  E-value=3.6e-09  Score=87.93  Aligned_cols=100  Identities=15%  Similarity=0.071  Sum_probs=81.5

Q ss_pred             hhhHHHHHHhHHHHHH----------hccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCC
Q 012162           19 YTHVFDLVQKGNRAFR----------ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNG   88 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~----------~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~   88 (469)
                      ..++..+...|..++.          .+.+++|+..|++|++++|+++.+|+++|.+|..+|++.               
T Consensus        28 P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~~~g~~~---------------   92 (145)
T d1zu2a1          28 PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFLT---------------   92 (145)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHC---------------
T ss_pred             CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcchhhHHHhhHHHHHHHcccch---------------
Confidence            3457788888988874          455689999999999999999999999999999887640               


Q ss_pred             CCC---chhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHH
Q 012162           89 LDP---TTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMAR  133 (469)
Q Consensus        89 ~~~---~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~  133 (469)
                      .+.   .....+|+..++++++++|++..++..++.+....+.|.++.
T Consensus        93 ~~~~~~~~~~~~A~~~~~kal~l~P~~~~~~~~L~~~~ka~~~~~e~~  140 (145)
T d1zu2a1          93 PDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSLEMTAKAPQLHAEAY  140 (145)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHTHHHHHHHHH
T ss_pred             hhHHHHHHhHHHhhhhhhcccccCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            000   011288999999999999999999999999988888887764

>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=98.83  E-value=1.4e-09  Score=94.98  Aligned_cols=98  Identities=6%  Similarity=0.008  Sum_probs=85.7

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      .++..+..+|..++..|+|++|+..|++|++++|+++.+|+++|.+|+.+|+|                       ++|+
T Consensus        36 ~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg~~~~~l~~~-----------------------~~A~   92 (201)
T d2c2la1          36 LVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQLEMESY-----------------------DEAI   92 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHTTCH-----------------------HHHH
T ss_pred             CCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHHHHHHHCCCH-----------------------HHHH
Confidence            34778889999999999999999999999999999999999999999999999                       9999


Q ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccc
Q 012162          100 KDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGL  140 (469)
Q Consensus       100 ~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al  140 (469)
                      ..+++|++++|++...+...+..+...+++..+.....+..
T Consensus        93 ~~~~~al~l~p~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~  133 (201)
T d2c2la1          93 ANLQRAYSLAKEQRLNFGDDIPSALRIAKKKRWNSIEERRI  133 (201)
T ss_dssp             HHHHHHHHHHHHTTCCCCSHHHHHHHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHhCcccHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence            99999999999877777666777777777776666655543

>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=98.70  E-value=3e-09  Score=107.01  Aligned_cols=66  Identities=9%  Similarity=-0.207  Sum_probs=60.9

Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhh
Q 012162           96 ELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTA  161 (469)
Q Consensus        96 ~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~  161 (469)
                      ++|+..+.+|++++|++..+|+.+|.++...|++.+|+.+|.+|+.++|..+.+...+..+-++..
T Consensus       169 ~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~~~~~a~~nL~~~~~~~~  234 (497)
T d1ya0a1         169 SQAESYYRHAAQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKFPFPAASTNLQKALSKAL  234 (497)
T ss_dssp             HHHHHHHHHHHHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhh
Confidence            999999999999999999999999999999999999999999999999999999888876654443

>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=98.69  E-value=4.5e-09  Score=85.28  Aligned_cols=75  Identities=15%  Similarity=0.125  Sum_probs=68.3

Q ss_pred             ccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhHHHHHHHHHhc
Q 012162           59 LGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMKSHLLKANALILLERYDMARDAILS  138 (469)
Q Consensus        59 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~  138 (469)
                      +-++|.+++..|+|                       ++|+..|+++++++|+++.+++++|.+|..+|+|++|+.+|++
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            45789999999999                       9999999999999999999999999999999999999999999


Q ss_pred             cccCCCCCchhHHHHHHH
Q 012162          139 GLQVDPFSNPLQASLQNL  156 (469)
Q Consensus       139 al~~~p~~~~~~~~~~~~  156 (469)
                      +++++|++......+..+
T Consensus        64 al~l~~~~~~~~~~~a~~   81 (128)
T d1elra_          64 AIEVGRENREDYRQIAKA   81 (128)
T ss_dssp             HHHHHHHSTTCHHHHHHH
T ss_pred             HHHhCcccHHHHHHHHHH
Confidence            999999988765554443

>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=98.69  E-value=8.6e-09  Score=82.76  Aligned_cols=84  Identities=12%  Similarity=0.031  Sum_probs=73.9

Q ss_pred             hHHHHHHhHHHHHH---hccHHHHHHHHHHHhcCCCCC--cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhH
Q 012162           21 HVFDLVQKGNRAFR---ESNFEEAISNYSRANNIKPGD--PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHA   95 (469)
Q Consensus        21 ~~~~~~~~g~~~~~---~~~~~~A~~~y~~al~~~p~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (469)
                      ....+++.|..+++   .+++.+|+..|+++++.+|.+  ..+++++|.+|..+|+|                       
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            46778888988875   567788999999999998865  45899999999999999                       


Q ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHh
Q 012162           96 ELALKDAEKLLNLQSNSMKSHLLKANALILLE  127 (469)
Q Consensus        96 ~~A~~~~~~al~l~p~~~~~~~~~g~~~~~~~  127 (469)
                      ++|+..++++++++|++..|...++.+...++
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            99999999999999999999999988876654

>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=98.63  E-value=1.8e-08  Score=95.43  Aligned_cols=117  Identities=7%  Similarity=-0.082  Sum_probs=102.4

Q ss_pred             HHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHh--hhccCCCCCcccCccCCCCCchhHHHHHHHHH
Q 012162           26 VQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQ--FLKHRPPSASEYRPLNGLDPTTHAELALKDAE  103 (469)
Q Consensus        26 ~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~  103 (469)
                      ...+..+...|++.+|+..|+++++.+|+++.+|+.+|.++..+++  +                       ++|+..+.
T Consensus        77 ~~~~~~~~~~~~~~~al~~~~~~l~~~pk~~~~~~~~~~~~~~~~~~~~-----------------------~~a~~~~~  133 (334)
T d1dcea1          77 ETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNW-----------------------ARELELCA  133 (334)
T ss_dssp             HTTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCSSCCH-----------------------HHHHHHHH
T ss_pred             hhhcchHHHHHHHHHHHHHHHHHHHhCCCcHHHHHHhhHHHHHhccccH-----------------------HHHHHHHH
Confidence            3445556677889999999999999999999999999999988765  5                       89999999


Q ss_pred             HHhhccccchHHH-HHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhhhhc
Q 012162          104 KLLNLQSNSMKSH-LLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTASLIG  165 (469)
Q Consensus       104 ~al~l~p~~~~~~-~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~  165 (469)
                      ++++++|++..++ +..|.++...|++++|+..++++++++|++..+...+..+-..++....
T Consensus       134 ~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~  196 (334)
T d1dcea1         134 RFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPD  196 (334)
T ss_dssp             HHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCC
T ss_pred             HHHhhCchhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCHHH
Confidence            9999999998886 4678899999999999999999999999999999998888777765543

>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=98.63  E-value=7.9e-09  Score=77.57  Aligned_cols=44  Identities=20%  Similarity=0.507  Sum_probs=36.6

Q ss_pred             ccccccccccc------------------cEEccCCCcccHHHHHHHcccCCCccccccccc
Q 012162          179 DCTLCLKLLYE------------------PITTPCGHSFCRSCLFQSMDRGNKCPLCRAVLF  222 (469)
Q Consensus       179 ~C~ic~~~~~~------------------p~~~~cgh~~C~~Ci~~~~~~~~~CP~Cr~~~~  222 (469)
                      .|+||...+.+                  ++.++|||.||..||.+|+....+||+||+++.
T Consensus        23 ~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   84 (88)
T d3dplr1          23 NCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE   84 (88)
T ss_dssp             CCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             cCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCCCCCCccc
Confidence            58888766544                  245799999999999999999899999999874

>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=98.62  E-value=7.4e-09  Score=82.06  Aligned_cols=46  Identities=30%  Similarity=0.703  Sum_probs=36.9

Q ss_pred             cccccccccccccc------------------EEccCCCcccHHHHHHHcccC-----CCccccccccc
Q 012162          177 DFDCTLCLKLLYEP------------------ITTPCGHSFCRSCLFQSMDRG-----NKCPLCRAVLF  222 (469)
Q Consensus       177 ~~~C~ic~~~~~~p------------------~~~~cgh~~C~~Ci~~~~~~~-----~~CP~Cr~~~~  222 (469)
                      +..|+||++.|..+                  ..++|||.||..||..|+...     ..||.||..+.
T Consensus        25 ~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~   93 (114)
T d1v87a_          25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYG   93 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSS
T ss_pred             cccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhc
Confidence            44799999987543                  357999999999999999742     37999998763

>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=98.62  E-value=2.6e-08  Score=94.19  Aligned_cols=102  Identities=14%  Similarity=-0.015  Sum_probs=92.6

Q ss_pred             HHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhcc
Q 012162           30 NRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQ  109 (469)
Q Consensus        30 ~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~  109 (469)
                      ..+...+.+.+|+..|.+++..+|.+..++.+++.++...+++                       .+|+..+.++++.+
T Consensus       216 ~~~~~l~~~~~a~~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~-----------------------~~a~~~~~~~~~~~  272 (334)
T d1dcea1         216 QNAFFTDPNDQSAWFYHRWLLGRAEPLFRCELSVEKSTVLQSE-----------------------LESCKELQELEPEN  272 (334)
T ss_dssp             HHHHHHCSSCSHHHHHHHHHHSCCCCSSSCCCCHHHHHHHHHH-----------------------HHHHHHHHHHCTTC
T ss_pred             HHHHHhcchhHHHHHHHHHHHhCcchhhHHHHHHHHHHHHhhH-----------------------HHHHHHHHHHHhhC
Confidence            3344456667888899999999999999999999999999999                       99999999999999


Q ss_pred             ccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHH
Q 012162          110 SNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQ  154 (469)
Q Consensus       110 p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~  154 (469)
                      |++..+++.+|.+|...|++++|+++|+++++++|++......++
T Consensus       273 p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~~y~~~L~  317 (334)
T d1dcea1         273 KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLR  317 (334)
T ss_dssp             HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcccHHHHHHHH
Confidence            999999999999999999999999999999999999887766553

>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=98.56  E-value=3e-08  Score=90.72  Aligned_cols=93  Identities=11%  Similarity=0.031  Sum_probs=85.8

Q ss_pred             hHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhh
Q 012162           28 KGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLN  107 (469)
Q Consensus        28 ~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~  107 (469)
                      ++..+++.|++++|+..|+++++.+|+++.++.+++.+|...|++                       ++|+..++++++
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            467788999999999999999999999999999999999999999                       999999999999


Q ss_pred             ccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCC
Q 012162          108 LQSNSMKSHLLKANALILLERYDMARDAILSGLQVD  143 (469)
Q Consensus       108 l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~  143 (469)
                      ++|++..++..++.++...+..+++...+.+...+.
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            999999999999999999999998887776655543

>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=98.53  E-value=9.6e-08  Score=75.34  Aligned_cols=87  Identities=11%  Similarity=0.043  Sum_probs=73.6

Q ss_pred             cccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccch-HHHHHHHHHHHHHhHHHHHHH
Q 012162           56 PIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSM-KSHLLKANALILLERYDMARD  134 (469)
Q Consensus        56 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~-~~~~~~g~~~~~~~~~~~A~~  134 (469)
                      ....++.|+++.+..+.                    .+..+|+..++.+++.+|... +.+|.+|.+|+++|+|++|+.
T Consensus        35 ~qt~F~YAw~Lv~S~~~--------------------~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~   94 (124)
T d2pqrb1          35 IQSRFNYAWGLIKSTDV--------------------NDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKR   94 (124)
T ss_dssp             HHHHHHHHHHHHHSSCH--------------------HHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             cchHHHHHHHHHcCCcH--------------------HHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHH
Confidence            35667778888754322                    122899999999999999764 899999999999999999999


Q ss_pred             HHhccccCCCCCchhHHHHHHHHHhhhh
Q 012162          135 AILSGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus       135 ~~~~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                      +++++|+++|+|..+....+.+++++..
T Consensus        95 ~~~~~L~ieP~n~qA~~L~~~Ie~~~~k  122 (124)
T d2pqrb1          95 YVDTLFEHERNNKQVGALKSMVEDKIQK  122 (124)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHccCCCcHHHHHHHHHHHHHHhc
Confidence            9999999999999999999999888764

>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=98.38  E-value=1.8e-07  Score=86.68  Aligned_cols=106  Identities=14%  Similarity=-0.054  Sum_probs=81.9

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC------cccccchhHHHHH-HHhhhccCCCCCcccCccCCCCCchh
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD------PIVLGNRSSAYIR-ISQFLKHRPPSASEYRPLNGLDPTTH   94 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~------~~~~~~~a~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (469)
                      +..+...|..+...|++++|+..|.+++++.+..      ..++.++|.+|.. +|++                      
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            5566677777777777888888887777775554      3455566666644 4677                      


Q ss_pred             HHHHHHHHHHHhhcccc------chHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhH
Q 012162           95 AELALKDAEKLLNLQSN------SMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  150 (469)
Q Consensus        95 ~~~A~~~~~~al~l~p~------~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~  150 (469)
                       ++|+..+++|+++.+.      ...++..+|.++..+|+|++|+..|++++...+.+....
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             9999999999987433      356789999999999999999999999999998876544

>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=98.32  E-value=1.1e-07  Score=88.12  Aligned_cols=102  Identities=11%  Similarity=-0.043  Sum_probs=87.5

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCC------CCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchh
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIK------PGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTH   94 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~------p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (469)
                      .++.|...|+.+...|+|++|+..|.+|+++.      +..+..|.++|.+|.++|++                      
T Consensus        36 Aa~~y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~----------------------   93 (290)
T d1qqea_          36 AADLCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNS----------------------   93 (290)
T ss_dssp             HHHHHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH----------------------
T ss_pred             HHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCc----------------------
Confidence            35667788999999999999999999999873      22346899999999999999                      


Q ss_pred             HHHHHHHHHHHhhccccc------hHHHHHHHHHHHH-HhHHHHHHHHHhccccCCCC
Q 012162           95 AELALKDAEKLLNLQSNS------MKSHLLKANALIL-LERYDMARDAILSGLQVDPF  145 (469)
Q Consensus        95 ~~~A~~~~~~al~l~p~~------~~~~~~~g~~~~~-~~~~~~A~~~~~~al~~~p~  145 (469)
                       ++|+..+++++++.+..      ..++..+|.+|.. +|++++|+..|++|+++.+.
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             99999999999987665      6688899998854 79999999999999987553

>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=98.28  E-value=1.6e-07  Score=64.71  Aligned_cols=48  Identities=27%  Similarity=0.453  Sum_probs=39.2

Q ss_pred             ccccccccccccccccEEccC-----CCcccHHHHHHHcc--cCCCccccccccc
Q 012162          175 TDDFDCTLCLKLLYEPITTPC-----GHSFCRSCLFQSMD--RGNKCPLCRAVLF  222 (469)
Q Consensus       175 ~~~~~C~ic~~~~~~p~~~~c-----gh~~C~~Ci~~~~~--~~~~CP~Cr~~~~  222 (469)
                      ++...|.||++.+.++...+|     +|.||..||.+|+.  .+..||.||+++.
T Consensus         4 ed~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           4 EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeee
Confidence            355689999999888876665     49999999999985  3458999998763

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=98.28  E-value=7e-07  Score=83.12  Aligned_cols=103  Identities=12%  Similarity=-0.014  Sum_probs=90.2

Q ss_pred             hhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCc-----ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCch
Q 012162           19 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDP-----IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTT   93 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (469)
                      ...++....+|..++..|++++|+..|++|++..|++.     .++..+|.+|...|++                     
T Consensus         9 ~~~ae~~~lrA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~---------------------   67 (366)
T d1hz4a_           9 TMHAEFNALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGEL---------------------   67 (366)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCH---------------------
T ss_pred             chhHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCH---------------------
Confidence            34567777889999999999999999999999999874     4788899999999999                     


Q ss_pred             hHHHHHHHHHHHhhccccc------hHHHHHHHHHHHHHhHHHHHHHHHhccccCCC
Q 012162           94 HAELALKDAEKLLNLQSNS------MKSHLLKANALILLERYDMARDAILSGLQVDP  144 (469)
Q Consensus        94 ~~~~A~~~~~~al~l~p~~------~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p  144 (469)
                        ++|+..+++++++.+..      ..++..+|.++...|++..|...+.+++.+.+
T Consensus        68 --~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~  122 (366)
T d1hz4a_          68 --TRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLIN  122 (366)
T ss_dssp             --HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             --HHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence              99999999999876543      45788899999999999999999999987643

>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=98.26  E-value=2.2e-07  Score=93.09  Aligned_cols=109  Identities=6%  Similarity=-0.050  Sum_probs=66.6

Q ss_pred             HHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhc
Q 012162           29 GNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNL  108 (469)
Q Consensus        29 g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l  108 (469)
                      +......+.|..|+..|.+++.++|++...+.++|..+.+.+++                       .+|+..+.+++.+
T Consensus        93 ~~l~~a~~~Y~~ai~~l~~~~~l~~~~~~~~~~lg~~~~~~~~~-----------------------~~A~~~~~~al~~  149 (497)
T d1ya0a1          93 LFLEAASGFYTQLLQELCTVFNVDLPCRVKSSQLGIISNKQTHT-----------------------SAIVKPQSSSCSY  149 (497)
T ss_dssp             HHHHHHHHHHHHHHHHHTC------------------------------------------------------CCHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHCCChhhHHHHHHhHHHHHhCCCH-----------------------HHHHHHHHHHhCC
Confidence            34445568899999999999999999999999999999999999                       9999999999988


Q ss_pred             cccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHHHhhhh
Q 012162          109 QSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLERTTAS  162 (469)
Q Consensus       109 ~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~  162 (469)
                      +|.  .++.++|.++...|+|++|+.+|++|++++|++...+..+..+-...++
T Consensus       150 ~~~--~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~~~~  201 (497)
T d1ya0a1         150 ICQ--HCLVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILASSKGD  201 (497)
T ss_dssp             HHH--HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHHHTTC
T ss_pred             CHH--HHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHcCC
Confidence            875  6889999999999999999999999999999999998888777655443

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=98.08  E-value=2.4e-06  Score=79.30  Aligned_cols=101  Identities=17%  Similarity=0.014  Sum_probs=88.3

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcc----cccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPI----VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAEL   97 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (469)
                      +..+...|..+...|++++|...|.++++..|.+..    .+.++|.+|...|++                       ++
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            455667888999999999999999999999887653    455689999999999                       99


Q ss_pred             HHHHHHHHh------hccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCC
Q 012162           98 ALKDAEKLL------NLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPF  145 (469)
Q Consensus        98 A~~~~~~al------~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~  145 (469)
                      |+..+++++      ...|....++..+|.+|...|++++|+..|++|+++.+.
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      456778899999999999999999999999999988653

>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=98.02  E-value=1e-06  Score=80.18  Aligned_cols=108  Identities=9%  Similarity=-0.035  Sum_probs=93.8

Q ss_pred             hhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHH
Q 012162           20 THVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELAL   99 (469)
Q Consensus        20 ~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~   99 (469)
                      .++..+...|..+...|+|++|+..|+++++++|++..++..++.++...+..                       .++.
T Consensus        28 ~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~~~~~l~~ll~a~~~~-----------------------~~a~   84 (264)
T d1zbpa1          28 KDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQAR-----------------------KDFA   84 (264)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHH-----------------------HHHT
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhcccc-----------------------HHHH
Confidence            45778889999999999999999999999999999999999999988888877                       6666


Q ss_pred             HHHHHH-hhccccchHHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhH
Q 012162          100 KDAEKL-LNLQSNSMKSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQ  150 (469)
Q Consensus       100 ~~~~~a-l~l~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~  150 (469)
                      ....+. +..+|.....+...+.++...|++++|...++++.++.|+.....
T Consensus        85 ~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~~~~  136 (264)
T d1zbpa1          85 QGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGFLA  136 (264)
T ss_dssp             TSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCEEE
T ss_pred             HHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCCccc
Confidence            655443 334677788888999999999999999999999999999988764

>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=97.99  E-value=1e-05  Score=74.98  Aligned_cols=112  Identities=13%  Similarity=-0.058  Sum_probs=69.4

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcc-cccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPI-VLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ..+...+......|++++|...|+++++..|.+.. +|...+....+.+++                       +.|...
T Consensus       100 ~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~-----------------------~~ar~i  156 (308)
T d2onda1         100 LLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGI-----------------------KSGRMI  156 (308)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCH-----------------------HHHHHH
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCCh-----------------------HHHHHH
Confidence            34455566667777777777777777777776653 566666666666666                       666666


Q ss_pred             HHHHhhccccchHHHHHHHHHH-HHHhHHHHHHHHHhccccCCCCCchhHHHHHHHH
Q 012162          102 AEKLLNLQSNSMKSHLLKANAL-ILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  157 (469)
Q Consensus       102 ~~~al~l~p~~~~~~~~~g~~~-~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~  157 (469)
                      ++++++..|.+...|...|... ...|+.+.|...|++++..+|++..+......++
T Consensus       157 ~~~al~~~~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~  213 (308)
T d2onda1         157 FKKAREDARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYL  213 (308)
T ss_dssp             HHHHHTSTTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhhhhHHHHHHHHHHH
Confidence            6666666666666665555543 2345566666666666666666655544444433

>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=97.94  E-value=4e-06  Score=69.62  Aligned_cols=73  Identities=12%  Similarity=0.037  Sum_probs=62.6

Q ss_pred             hhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCC-----------cccccchhHHHHHHHhhhccCCCCCcccCccC
Q 012162           19 YTHVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGD-----------PIVLGNRSSAYIRISQFLKHRPPSASEYRPLN   87 (469)
Q Consensus        19 ~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~-----------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~   87 (469)
                      ...+..+.+.|..+.+.|+|++|+..|++++++.|..           ..+|+++|.+|..+|++               
T Consensus        52 ~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~---------------  116 (156)
T d2hr2a1          52 GFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRG---------------  116 (156)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCH---------------
T ss_pred             hhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHH---------------
Confidence            3456778899999999999999999999999876532           24789999999999999               


Q ss_pred             CCCCchhHHHHHHHHHHHhhccccchH
Q 012162           88 GLDPTTHAELALKDAEKLLNLQSNSMK  114 (469)
Q Consensus        88 ~~~~~~~~~~A~~~~~~al~l~p~~~~  114 (469)
                              ++|+..+++|+++.|....
T Consensus       117 --------eeA~~~~~~Al~l~~~~~~  135 (156)
T d2hr2a1         117 --------AEAMPEFKKVVEMIEERKG  135 (156)
T ss_dssp             --------HHHHHHHHHHHHHHHHCCS
T ss_pred             --------HHHHHHHHHHHHhhHHhhc
Confidence                    9999999999999876533

>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=97.89  E-value=1.8e-05  Score=73.32  Aligned_cols=112  Identities=13%  Similarity=-0.012  Sum_probs=94.2

Q ss_pred             HHHHHhHHHHHHhccHHHHHHHHHHHhcC-CCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHH
Q 012162           23 FDLVQKGNRAFRESNFEEAISNYSRANNI-KPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKD  101 (469)
Q Consensus        23 ~~~~~~g~~~~~~~~~~~A~~~y~~al~~-~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  101 (469)
                      ......|......+.+++|...|++|++. .|.+..+|...+..+...|++                       +.|...
T Consensus        65 ~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~-----------------------~~a~~i  121 (308)
T d2onda1          65 KLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKY-----------------------EKVHSI  121 (308)
T ss_dssp             HHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCH-----------------------HHHHHH
T ss_pred             chHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccH-----------------------HHHHHH
Confidence            34445556666778889999999999985 788888889999999999999                       999999


Q ss_pred             HHHHhhccccch-HHHHHHHHHHHHHhHHHHHHHHHhccccCCCCCchhHHHHHHHH
Q 012162          102 AEKLLNLQSNSM-KSHLLKANALILLERYDMARDAILSGLQVDPFSNPLQASLQNLE  157 (469)
Q Consensus       102 ~~~al~l~p~~~-~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~  157 (469)
                      ++++++..|.+. .+|...+......|+++.|+..|+++++..|.+.........++
T Consensus       122 ~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~~~~~~~~~a~~e  178 (308)
T d2onda1         122 YNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALME  178 (308)
T ss_dssp             HHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTCCTHHHHHHHHHH
T ss_pred             HHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCcHHHHHHHHHHH
Confidence            999999999775 47888999999999999999999999999999887665555444

>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=97.84  E-value=1.5e-05  Score=62.44  Aligned_cols=80  Identities=8%  Similarity=0.005  Sum_probs=65.7

Q ss_pred             HHHHHhHHHHHH---hccHHHHHHHHHHHhcCCCCCc-ccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHH
Q 012162           23 FDLVQKGNRAFR---ESNFEEAISNYSRANNIKPGDP-IVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELA   98 (469)
Q Consensus        23 ~~~~~~g~~~~~---~~~~~~A~~~y~~al~~~p~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A   98 (469)
                      +.-++.|-.+.+   ..+..+||..++++++.+|.+. +.++++|.+|+++|+|                       ++|
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            344455555553   3567899999999999999775 8999999999999999                       999


Q ss_pred             HHHHHHHhhccccchHHHHHHHHHHHH
Q 012162           99 LKDAEKLLNLQSNSMKSHLLKANALIL  125 (469)
Q Consensus        99 ~~~~~~al~l~p~~~~~~~~~g~~~~~  125 (469)
                      ...++++|+++|++..|...+-.+...
T Consensus        93 ~~~~~~~L~ieP~n~qA~~L~~~Ie~~  119 (124)
T d2pqrb1          93 KRYVDTLFEHERNNKQVGALKSMVEDK  119 (124)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHccCCCcHHHHHHHHHHHHH
Confidence            999999999999999887776665443

>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=97.78  E-value=7.1e-06  Score=61.84  Aligned_cols=44  Identities=30%  Similarity=0.615  Sum_probs=32.8

Q ss_pred             ccccccccccccc--c-cEEccCCCcccHHHHHHHccc----C----CCcccccc
Q 012162          176 DDFDCTLCLKLLY--E-PITTPCGHSFCRSCLFQSMDR----G----NKCPLCRA  219 (469)
Q Consensus       176 ~~~~C~ic~~~~~--~-p~~~~cgh~~C~~Ci~~~~~~----~----~~CP~Cr~  219 (469)
                      ....|+||++.+.  + ++..+|||.||..|+..|+..    +    ..||.|+.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CCCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            3558999998764  3 344689999999999998752    1    15998764

>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=97.41  E-value=7e-05  Score=63.42  Aligned_cols=62  Identities=13%  Similarity=0.059  Sum_probs=58.4

Q ss_pred             hHHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHH
Q 012162           21 HVFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALK  100 (469)
Q Consensus        21 ~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  100 (469)
                      ....+...|..+...|+|++|+..++++++++|.+..+|.+++.+|..+|++                       .+|+.
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            3567788999999999999999999999999999999999999999999999                       99999


Q ss_pred             HHHHH
Q 012162          101 DAEKL  105 (469)
Q Consensus       101 ~~~~a  105 (469)
                      .|+++
T Consensus       123 ~y~~~  127 (179)
T d2ff4a2         123 AYRRV  127 (179)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            99887

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=97.30  E-value=0.00021  Score=63.87  Aligned_cols=97  Identities=15%  Similarity=0.119  Sum_probs=80.3

Q ss_pred             HHHHHHhHHHHHHhccHHHHHHHHHHHhcCCCCCcccccchhHHHHH----HHhhhccCCCCCcccCccCCCCCchhHHH
Q 012162           22 VFDLVQKGNRAFRESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIR----ISQFLKHRPPSASEYRPLNGLDPTTHAEL   97 (469)
Q Consensus        22 ~~~~~~~g~~~~~~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (469)
                      +.++...|..++++|||.+|+.+|++|.+.  +++.+++++|.+|..    ..++                       ..
T Consensus         2 p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~--g~~~A~~~Lg~~y~~G~~~~~d~-----------------------~~   56 (265)
T d1ouva_           2 PKELVGLGAKSYKEKDFTQAKKYFEKACDL--KENSGCFNLGVLYYQGQGVEKNL-----------------------KK   56 (265)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHTSSSCCCH-----------------------HH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHC--CCHHHHHHHHHHHHcCCCcchhH-----------------------HH
Confidence            568899999999999999999999999875  588899999999876    2344                       88


Q ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHH----HhHHHHHHHHHhccccCCCC
Q 012162           98 ALKDAEKLLNLQSNSMKSHLLKANALIL----LERYDMARDAILSGLQVDPF  145 (469)
Q Consensus        98 A~~~~~~al~l~p~~~~~~~~~g~~~~~----~~~~~~A~~~~~~al~~~p~  145 (469)
                      |...+..+.+.+  ++.+...+|..+..    .++++.|...|+++....+.
T Consensus        57 a~~~~~~a~~~~--~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~  106 (265)
T d1ouva_          57 AASFYAKACDLN--YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLKYA  106 (265)
T ss_dssp             HHHHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHhhccccccc--ccchhhccccccccccccchhhHHHHHHHhhhhhhhhh
Confidence            889988887655  67888888888764    56789999999999876553

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=96.62  E-value=0.0012  Score=52.44  Aligned_cols=86  Identities=12%  Similarity=0.046  Sum_probs=64.6

Q ss_pred             hccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchH
Q 012162           35 ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMK  114 (469)
Q Consensus        35 ~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~  114 (469)
                      ..++++|+..|++|.+.  +++.+.+++|..|.. |..                  ...+..+|+..++++.+.  .++.
T Consensus        36 ~~~~~~a~~~~~~aa~~--g~~~a~~~Lg~~y~~-g~~------------------~~~d~~~A~~~~~~aa~~--g~~~   92 (133)
T d1klxa_          36 QINKQKLFQYLSKACEL--NSGNGCRFLGDFYEN-GKY------------------VKKDLRKAAQYYSKACGL--NDQD   92 (133)
T ss_dssp             TSCHHHHHHHHHHHHHT--TCHHHHHHHHHHHHH-CSS------------------SCCCHHHHHHHHHHHHHT--TCHH
T ss_pred             ccCHHHHHHHHhhhhcc--cchhhhhhHHHhhhh-ccc------------------cchhhHHHHHHHhhhhcc--Ccch
Confidence            45788999999998875  577888888887754 221                  001127899999999876  4678


Q ss_pred             HHHHHHHHHHH----HhHHHHHHHHHhccccCC
Q 012162          115 SHLLKANALIL----LERYDMARDAILSGLQVD  143 (469)
Q Consensus       115 ~~~~~g~~~~~----~~~~~~A~~~~~~al~~~  143 (469)
                      +.+.+|.+|..    ..++.+|+.+|++|.++.
T Consensus        93 a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          93 GCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            89999998876    467899999999988764

>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=96.41  E-value=0.00088  Score=59.62  Aligned_cols=108  Identities=15%  Similarity=0.075  Sum_probs=80.8

Q ss_pred             HHHHHHhHHHHHH----hccHHHHHHHHHHHhcCCCCCcccccchhHHHHH----HHhhhccCCCCCcccCccCCCCCch
Q 012162           22 VFDLVQKGNRAFR----ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIR----ISQFLKHRPPSASEYRPLNGLDPTT   93 (469)
Q Consensus        22 ~~~~~~~g~~~~~----~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~   93 (469)
                      ...+...|..+..    ..+...+...+..+.+  +.++.+++++|.+|..    ..++                     
T Consensus       142 ~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~--~g~~~A~~~lg~~y~~g~~~~~d~---------------------  198 (265)
T d1ouva_         142 GDGCTILGSLYDAGRGTPKDLKKALASYDKACD--LKDSPGCFNAGNMYHHGEGATKNF---------------------  198 (265)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH--TTCHHHHHHHHHHHHHTCSSCCCH---------------------
T ss_pred             cchhhhhhhhhccCCCcccccccchhhhhcccc--ccccccccchhhhcccCcccccch---------------------
Confidence            3445556666664    4567778888888875  4578888899988876    3345                     


Q ss_pred             hHHHHHHHHHHHhhccccchHHHHHHHHHHHH----HhHHHHHHHHHhccccCCCCCchhHHHHHHHHH
Q 012162           94 HAELALKDAEKLLNLQSNSMKSHLLKANALIL----LERYDMARDAILSGLQVDPFSNPLQASLQNLER  158 (469)
Q Consensus        94 ~~~~A~~~~~~al~l~p~~~~~~~~~g~~~~~----~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~  158 (469)
                        .+|+..++++.+.+  ++.+++.+|.+|..    .+++++|+.+|++|....  +..+...+..++.
T Consensus       199 --~~A~~~~~~aa~~g--~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g--~~~A~~~l~~l~~  261 (265)
T d1ouva_         199 --KEALARYSKACELE--NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLG--AKGACDILKQLKI  261 (265)
T ss_dssp             --HHHHHHHHHHHHTT--CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHT--CHHHHHHHHTCCC
T ss_pred             --hhhhhhHhhhhccc--CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCc--CHHHHHHHHHHHH
Confidence              89999999998884  68899999999975    347999999999998765  4555566655544

>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=95.94  E-value=0.0038  Score=49.31  Aligned_cols=91  Identities=12%  Similarity=-0.023  Sum_probs=65.9

Q ss_pred             hccHHHHHHHHHHHhcCCCCCcccccchhHHHHHHHhhhccCCCCCcccCccCCCCCchhHHHHHHHHHHHhhccccchH
Q 012162           35 ESNFEEAISNYSRANNIKPGDPIVLGNRSSAYIRISQFLKHRPPSASEYRPLNGLDPTTHAELALKDAEKLLNLQSNSMK  114 (469)
Q Consensus        35 ~~~~~~A~~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~l~p~~~~  114 (469)
                      ..|+++|+.+|.+|.+..  ++.+.++++..  ...++                       ++|+..++++.+.  +++.
T Consensus         6 ~kd~~~A~~~~~kaa~~g--~~~a~~~l~~~--~~~~~-----------------------~~a~~~~~~aa~~--g~~~   56 (133)
T d1klxa_           6 KKDLKKAIQYYVKACELN--EMFGCLSLVSN--SQINK-----------------------QKLFQYLSKACEL--NSGN   56 (133)
T ss_dssp             HHHHHHHHHHHHHHHHTT--CTTHHHHHHTC--TTSCH-----------------------HHHHHHHHHHHHT--TCHH
T ss_pred             ccCHHHHHHHHHHHHHCC--Chhhhhhhccc--cccCH-----------------------HHHHHHHhhhhcc--cchh
Confidence            358999999999998874  44444433321  11223                       8999999999876  5789


Q ss_pred             HHHHHHHHHHH----HhHHHHHHHHHhccccCCCCCchhHHHHHHH
Q 012162          115 SHLLKANALIL----LERYDMARDAILSGLQVDPFSNPLQASLQNL  156 (469)
Q Consensus       115 ~~~~~g~~~~~----~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~  156 (469)
                      +.+.+|..|..    ..++++|+.+|+++.+.  .++.+...+..+
T Consensus        57 a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~--g~~~a~~~Lg~~  100 (133)
T d1klxa_          57 GCRFLGDFYENGKYVKKDLRKAAQYYSKACGL--NDQDGCLILGYK  100 (133)
T ss_dssp             HHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT--TCHHHHHHHHHH
T ss_pred             hhhhHHHhhhhccccchhhHHHHHHHhhhhcc--CcchHHHHHHHH
Confidence            99999999875    56789999999999875  455555555443

>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=84.13  E-value=0.64  Score=33.39  Aligned_cols=38  Identities=13%  Similarity=0.161  Sum_probs=32.6

Q ss_pred             CChhhhhhHHHHHHhHHHHHHhccHHHHHHHHHHHhcC
Q 012162           14 LPWDRYTHVFDLVQKGNRAFRESNFEEAISNYSRANNI   51 (469)
Q Consensus        14 ~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~y~~al~~   51 (469)
                      ........|-.+..+|..+-..|+|++|+.+|.+|++.
T Consensus         7 ~~~~~~~~A~~l~~~Av~~D~~g~y~eA~~~Y~~aie~   44 (93)
T d1wfda_           7 GQDSDSTAAVAVLKRAVELDAESRYQQALVCYQEGIDM   44 (93)
T ss_dssp             CCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            33456667889999999999999999999999999874