Citrus Sinensis ID: 012963

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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--
Protein Sequence
MFQALARDRLERLNASPSATPWTYFRVFSALLFVLAVDIFWIRMCLLLFKTLDSSMFLLLFFEPLSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIRNFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIALGHLHAALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGRREIEANSRPGEVSSDEQLARQLSMGLDRQNNTGQTLPTGVFPNQTQPPVEGSPWRNAGLDSSWLHAWPSQGVDGAGPSTAMRSVGLSRVQMMMRHLASVGETYAQTAIEDTSWSLWPMNPSQASASGSPVPPAVPGRHPGNTGGAHARSTSRSANENIANILAMAETVREVLPHMPEDLIFQDLQRTNSATITVNNLLQM
Secondary Structure (PSIPRED)
ccHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHccccccccccEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHccccccEEEcccccccccccccccccHHHHHHHHHcccccccccccccccccccccccccccccccccccHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHEEEHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHcccEEEEEcHHcccccccccccHHHHHHHHHHHHcccEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHcccHHHHHHHHHHHHHccccccccccHccccccccccccccccccccccccccccccccccccEcccccccccccHHHHHHHHHHHHHHcccccHHHHHHHHHHcccEEEEEcHHHcc
Coil and Loop (DISEMBL)
MFQALARDRLERlnaspsatpwTYFRVFSALLFVLAVDIFWIRMCLLLFKTLDSSMFLLLFFEPLSVAFETMQAILVHGFQLLDIWLhhsagnstncarsKFFDTLAAGSLLEWKGILIRNFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIALGHlhaalpdatseELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLnemyscptcrkplfvgrreieansrpgevssdEQLARQLSMgldrqnntgqtlptgvfpnqtqppvegspwrnagldsswlhawpsqgvdgagpstamRSVGLSRVQMMMRHLASVGETYAQTAIedtswslwpmnpsqasasgspvppavpgrhpgntggaharstsrsaNENIANILAMAETVREVlphmpedlifqdlqrtnsatITVNNLLQM
Flexible Loop (DISEMBL)
MFQALArdrlerlnaspsatpWTYFRVFSALLFVLAVDIFWIRMCLLLFKTLDSSMFLLLFFEPLSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIRNFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIALGHLHAALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGRREIEansrpgevssdeQLARQLSMGLDRQNNTGQTLPTGVFPNQTQPPVEGSPWRNAGLDSSWLHAWPSQGVDGAGPSTAMRSVGLSRVQMMMRHLASVGETYAQTAIEDTSWSLWPMNPSQASASGSPVPPAVPGRHPGNTGGAHARSTSRSANENIANILAMAETVREVLPHMPEDLifqdlqrtnsatitvnnllqm
Low Complexity Region (SEG)
MFQALARDRLERLNASPSATPWTYFRVFSALLFVLAVDIFWIRMCLLLFKTLDSSMFLLLFFEPLSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIRNFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIALGHLHAALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGRREIEANSRPGEVSSDEQLARQLSMGLDRQNNTGQTLPTGVFPNQTQPPVEGSPWRNAGLDSSWLHAWPSQGVDGAGPSTAMRSVGLSRVQMMMRHLASVGETYAQTAIEDTSWSLWPMNpsqasasgspvppavpgRHPGNTGGAHARSTSRSANENIANILAMAETVREVLPHMPEDLIFQDLQRTNSATITVNNLLQM
Disordered region (IsUnstruct)
*******************TPWTYFRVFSALLFVLAVDIFWIRMCLLLFKTLDSSMFLLLFFEPLSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIRNFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIALGHLHAALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR**********************************************************LDSSWLHAWP*****************LSRVQMMMRHLASVGETYAQTAIEDTSWSLW*****************************************IANILAMAETVREVLPHMPEDLIFQDLQRTN*ATIT*******
Disordered Region (DISOPRED)
MFQALARDRLERLNASPSATPWTYFRVFSALLFVLAVDIFWIRMCLLLFKTLDSSMFLLLFFEPLSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIRNFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIALGHLHAALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRK***********************************************************************************************************************************************************************************HMPEDLIFQDLQRTNSATITVNNLLQM
Disordered Region (DISEMBL)
MFQALARDRLERLNASPSATPWTYFRVFSALLFVLAVDIFWIRMCLLLFKTLDSSMFLLLFFEPLSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIRNFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIALGHLHAALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGRREIE**************ARQLSMGLDRQNNTGQTLPTGVFPNQTQPPVEGSPWRNAGLDSSWLHAWPSQGVDGAGPSTAMRSVGLSRVQMMMRHLASVGETYAQTAIEDTSWSLWPMNP*************VPGRH*************RSANENIANILAMAETVREVLPHMPEDLIFQDLQRTNSATITVNNLLQM
Disordered Region (DISPRO)
MFQALARDRLERLNASPSATPWTYFRVFSALLFVLAVDIFWIRMCLLLFKTLDSSMFLLLFFEPLSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIRNFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIALGHLHAALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV***************************************************************************************LSRVQMMMRHLASV*ETYAQTAIEDTSWSLWPMN*****************************STSRSANENIANILAMAETVREVLPHMPEDLIFQDLQRTNSATITVNNLLQ*
Transmembrane Helix (TMHMM)
oooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHoooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHHHoooooHHHHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHHHoooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHoooooHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MFQALARDRLERLNASPSATPWTYFRVFSALLFVLAVDIFWIRMCLLLFKTLDSSMFLLLFFEPLSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIRNFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIALGHLHAALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGRREIEANSRPGEVSSDEQLARQLSMGLDRQNNTGQTLPTGVFPNQTQPPVEGSPWRNAGLDSSWLHAWPSQGVDGAGPSTAMRSVGLSRVQMMMRHLASVGETYAQTAIEDTSWSLWPMNPSQASASGSPVPPAVPGRHPGNTGGAHARSTSRSANENIANILAMAETVREVLPHMPEDLIFQDLQRTNSATITVNNLLQM
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	452	2.2.26 [Sep-21-2011]
Q8VYC8	578	E3 ubiquitin protein liga	yes	no	0.982	0.768	0.721	0.0
Q8W4Q5	577	E3 ubiquitin protein liga	no	no	0.980	0.767	0.701	0.0
Q9R049	643	E3 ubiquitin-protein liga	yes	no	0.530	0.373	0.3	2e-22
Q9UKV5	643	E3 ubiquitin-protein liga	yes	no	0.530	0.373	0.296	3e-22
Q803I8	625	E3 ubiquitin-protein liga	no	no	0.473	0.342	0.277	7e-16
Q5XHH7	595	E3 ubiquitin-protein liga	N/A	no	0.473	0.359	0.273	2e-15
Q6NRL6	605	E3 ubiquitin-protein liga	N/A	no	0.473	0.353	0.273	3e-15
Q9DBY1	612	E3 ubiquitin-protein liga	no	no	0.517	0.382	0.275	9e-15
Q86TM6	617	E3 ubiquitin-protein liga	no	no	0.517	0.379	0.275	2e-14
Q95SP2	626	E3 ubiquitin-protein liga	yes	no	0.161	0.116	0.461	1e-12

>sp|Q8VYC8|RIN2_ARATH E3 ubiquitin protein ligase RIN2 OS=Arabidopsis thaliana GN=RIN2 PE=1 SV=1

 Score =  691 bits (1782), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 326/452 (72%), Positives = 378/452 (83%), Gaps = 8/452 (1%)

Query: 1   MFQALARDRLERLNASPSATPWTYFRVFSALLFVLAVDIFWIRMCLLLFKTLDSSMFLLL 60
           MFQALARDRLERLNASPS+TPWTYFRV+S L  VL+VD+FWI++ L+ + T+ S+++LLL
Sbjct: 135 MFQALARDRLERLNASPSSTPWTYFRVYSVLFLVLSVDMFWIKLSLMTYNTIGSAVYLLL 194

Query: 61  FFEPLSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIR 120
            FEP S+AFET+QA+L+HGFQLLD+W++H A  +++C RSKF D++ AGSLLEWKG+L R
Sbjct: 195 LFEPCSIAFETLQALLIHGFQLLDMWINHLAVKNSDCQRSKFIDSMTAGSLLEWKGLLNR 254

Query: 121 NFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIA 180
           N GFFLDMATL+MALGHY+HIWWL G+AFHLVDA+LFLNIRALLSAI+KRIKG+IKLRIA
Sbjct: 255 NLGFFLDMATLVMALGHYLHIWWLHGIAFHLVDAVLFLNIRALLSAILKRIKGYIKLRIA 314

Query: 181 LGHLHAALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYS 240
           LG LHAALPDATSEELRAYDDECAICREPMAKAK+L CNHLFHL CLRSWLDQGLNE+YS
Sbjct: 315 LGALHAALPDATSEELRAYDDECAICREPMAKAKRLHCNHLFHLGCLRSWLDQGLNEVYS 374

Query: 241 CPTCRKPLFVGRREIEANSRPGEVSSDEQLARQLSMGLDRQNNTGQTLPTGVFPNQTQPP 300
           CPTCRKPLFVGR E E N R  EVSSDEQLARQ    L+RQNN    L TG+FP +    
Sbjct: 375 CPTCRKPLFVGRTENEVNPRTVEVSSDEQLARQ----LERQNNPVHALATGLFPAEVPDS 430

Query: 301 VEGSPWRNAGLDSSWLHAWPSQGVDGAGPSTAMRSVGLSRVQMMMRHLASVGETYAQTAI 360
           VE    RN GLD SWL  W SQG D AGPST  R+VGL RVQMMMRHLASVGE+YAQTA+
Sbjct: 431 VENDTSRNLGLDPSWLQTWSSQGSDVAGPSTTSRTVGLGRVQMMMRHLASVGESYAQTAL 490

Query: 361 EDTSWSLWPMNPSQASASGSPVPPAVPGRHPGNTGGAHARSTSRSANENIANILAMAETV 420
           +D +WSLWPMNPSQAS S + VPP   GR    TGG H R+ S + NE++ NILAMAETV
Sbjct: 491 DDAAWSLWPMNPSQASTSSTTVPPGNGGR----TGGLHLRTVSNTTNESLTNILAMAETV 546

Query: 421 REVLPHMPEDLIFQDLQRTNSATITVNNLLQM 452
           REV+PH+P+++IFQDLQRTNS  +TVNNLLQM
Sbjct: 547 REVMPHVPDEIIFQDLQRTNSVAVTVNNLLQM 578

E3 ubiquitin protein ligase that acts as positive regulator of RPM1- and RPS2-dependent hypersensitive response (HR), in association with RIN3. Probably not required for RPM1 degradation during HR.
Arabidopsis thaliana (taxid: 3702)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q8W4Q5|RIN3_ARATH E3 ubiquitin protein ligase RIN3 OS=Arabidopsis thaliana GN=RIN3 PE=1 SV=2

 Score =  650 bits (1677), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 317/452 (70%), Positives = 374/452 (82%), Gaps = 9/452 (1%)

Query: 1   MFQALARDRLERLNASPSATPWTYFRVFSALLFVLAVDIFWIRMCLLLFKTLDSSMFLLL 60
           MFQALARDRL+RLNASPS+TPWTYFRV+SAL  VL+ D+ WI++ L+++ T+ SS++LLL
Sbjct: 135 MFQALARDRLDRLNASPSSTPWTYFRVYSALFMVLSTDLCWIKLSLMIYNTVGSSVYLLL 194

Query: 61  FFEPLSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIR 120
            FEP  +AFET+QA+L+HGFQLLD+W++H A  +++C RSKF+D++ AGSLLEWKG+L R
Sbjct: 195 LFEPCGIAFETLQALLIHGFQLLDMWINHLAVKNSDCQRSKFYDSMTAGSLLEWKGLLNR 254

Query: 121 NFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIA 180
           N GFFLDMATL+MALGHY+HIWWL GMAFHLVDA+LFLNIRALLS+I+KRIKG+IKLR+A
Sbjct: 255 NLGFFLDMATLVMALGHYLHIWWLHGMAFHLVDAVLFLNIRALLSSILKRIKGYIKLRVA 314

Query: 181 LGHLHAALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYS 240
           LG LHAAL DATSEELR YDDECAICREPMAKAK+L CNHLFHL CLRSWLDQGLNE+YS
Sbjct: 315 LGALHAALLDATSEELRDYDDECAICREPMAKAKRLHCNHLFHLGCLRSWLDQGLNEVYS 374

Query: 241 CPTCRKPLFVGRREIEANSRPGEVSSDEQLARQLSMGLDRQNNTGQTLPTGVFPNQTQPP 300
           CPTCRKPLFVGR E EAN   GEVSSDE LARQ     +RQNN+   L TG+FP +T   
Sbjct: 375 CPTCRKPLFVGRTESEANPSRGEVSSDEHLARQ----FERQNNSVHALTTGMFPTETPNF 430

Query: 301 VEGSPWRNAGLDSSWLHAWPSQGVDGAGPSTAMRSVGLSRVQMMMRHLASVGETYAQTAI 360
            E  PWRN+ +D SWL  W  QGVD  G S   RSVGL +VQ+MMRHLASVGE  AQT +
Sbjct: 431 TESDPWRNSEVDPSWLQTWSDQGVDVVGSSAGSRSVGLGQVQLMMRHLASVGEGSAQTTL 490

Query: 361 EDTSWSLWPMNPSQASASGSPVPPAVPGRHPGNTGGAHARSTSRSANENIANILAMAETV 420
           +D SW LWPMNPSQAS S + VPP   GR    TGG H R+ SR+AN N+A+ILAMAETV
Sbjct: 491 DDASWGLWPMNPSQASTSSTYVPPGAGGR----TGGLHLRTVSRAAN-NMASILAMAETV 545

Query: 421 REVLPHMPEDLIFQDLQRTNSATITVNNLLQM 452
           REVLPH+P+++IFQDLQRTNS ++TVNNLLQM
Sbjct: 546 REVLPHVPDEIIFQDLQRTNSVSVTVNNLLQM 577

E3 ubiquitin protein ligase that acts as positive regulator of RPM1- and RPS2-dependent hypersensitive response (HR), in association with RIN2. Probably not required for RPM1 degradation during HR.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9R049|AMFR_MOUSE E3 ubiquitin-protein ligase AMFR OS=Mus musculus GN=Amfr PE=1 SV=2

 Score =  107 bits (266), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 81/270 (30%), Positives = 118/270 (43%), Gaps = 30/270 (11%)

Query: 5   LARDRLERLNASPSATPWTYFRVFSALLFVLAVDIFWIRMCLLLFKTLDSSMFLLLFFEP 64
           L +DR E L+ SP+    ++ RV S L+ +L        +C +   T        +  E 
Sbjct: 164 LCKDRFEYLSFSPTTPMSSHGRVLSLLIAMLLSCCGLAVVCCVTGYTHGMHTLAFMAAES 223

Query: 65  LSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIRNFGF 124
           L V   T   IL +   L D  L+H                       E KG  +    F
Sbjct: 224 LLVTVRTAHVILRYVIHLWD--LNHEGT-------------------WEGKGTYVYYTDF 262

Query: 125 FLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIALGHL 184
            +++A L + L H+IH+     +   +   ++F+ +R L   + +RI+        +G++
Sbjct: 263 VMELALLSLDLMHHIHMLLFGNIWLSMASLVIFMQLRYLFHEVQRRIRRHKNYLRVVGNM 322

Query: 185 HAALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTC 244
            A    AT EEL   +D+CAIC + M  A+KL C HLFH +CLRSWL+Q      SCPTC
Sbjct: 323 EARFAVATPEELAVNNDDCAICWDSMQAARKLPCGHLFHNSCLRSWLEQD----TSCPTC 378

Query: 245 RKPLFVGRREIEANSRPGEVSSDEQLARQL 274
           R  L      I   SR  E    E L   L
Sbjct: 379 RMSL-----NIADGSRAREDHQGENLDENL 403

E3 ubiquitin-protein ligase that mediates the polyubiquitination of a number of proteins such as CD3D, CYP3A4, CFTR and APOB for proteasomal degradation. Component of a VCP/p97-AMFR/gp78 complex that participates in the final step of endoplasmic reticulum-associated degradation (ERAD). The VCP/p97-AMFR/gp78 complex is involved in the sterol-accelerated ERAD degradation of HMGCR through binding to the HMGCR-INSIG complex at the ER membrane and initiating ubiquitination of HMGCR. The ubiquitinated HMGCR is then released from the ER by the complex into the cytosol for subsequent destruction. Also acts as a scaffold protein to assemble a complex that couples ubiquitination, retranslocation and deglycosylation. Mediates tumor invasion and metastasis.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9UKV5|AMFR_HUMAN E3 ubiquitin-protein ligase AMFR OS=Homo sapiens GN=AMFR PE=1 SV=2

 Score =  107 bits (266), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 80/270 (29%), Positives = 118/270 (43%), Gaps = 30/270 (11%)

Query: 5   LARDRLERLNASPSATPWTYFRVFSALLFVLAVDIFWIRMCLLLFKTLDSSMFLLLFFEP 64
           L +DR E L+ SP+    ++ RV S L+ +L        +C +   T        +  E 
Sbjct: 164 LCKDRFEYLSFSPTTPMSSHGRVLSLLVAMLLSCCGLAAVCSITGYTHGMHTLAFMAAES 223

Query: 65  LSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIRNFGF 124
           L V   T   IL +   L D  L+H                       E KG  +    F
Sbjct: 224 LLVTVRTAHVILRYVIHLWD--LNHEGT-------------------WEGKGTYVYYTDF 262

Query: 125 FLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIALGHL 184
            +++  L + L H+IH+     +   +   ++F+ +R L   + +RI+        +G++
Sbjct: 263 VMELTLLSLDLMHHIHMLLFGNIWLSMASLVIFMQLRYLFHEVQRRIRRHKNYLRVVGNM 322

Query: 185 HAALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTC 244
            A    AT EEL   +D+CAIC + M  A+KL C HLFH +CLRSWL+Q      SCPTC
Sbjct: 323 EARFAVATPEELAVNNDDCAICWDSMQAARKLPCGHLFHNSCLRSWLEQDT----SCPTC 378

Query: 245 RKPLFVGRREIEANSRPGEVSSDEQLARQL 274
           R  L      I  N+R  E    E L   L
Sbjct: 379 RMSL-----NIADNNRVREEHQGENLDENL 403

E3 ubiquitin-protein ligase that mediates the polyubiquitination of a number of proteins such as CD3D, CYP3A4, CFTR and APOB for proteasomal degradation. Component of a VCP/p97-AMFR/gp78 complex that participates in the final step of endoplasmic reticulum-associated degradation (ERAD). The VCP/p97-AMFR/gp78 complex is involved in the sterol-accelerated ERAD degradation of HMGCR through binding to the HMGCR-INSIG complex at the ER membrane and initiating ubiquitination of HMGCR. The ubiquitinated HMGCR is then released from the ER by the complex into the cytosol for subsequent destruction. Also acts as a scaffold protein to assemble a complex that couples ubiquitination, retranslocation and deglycosylation. Mediates tumor invasion and metastasis.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q803I8|SYVN1_DANRE E3 ubiquitin-protein ligase synoviolin OS=Danio rerio GN=syvn1 PE=2 SV=2

 Score = 85.5 bits (210), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 68/245 (27%), Positives = 115/245 (46%), Gaps = 31/245 (12%)

Query: 2   FQALARDRLERLNASPSATPWTYFRVFSALLFVLAVDIFWIRMCLLLFKTLDSSMFLLLF 61
           F  LA DR++ +  SP+ +   +FRV S ++ +  +D  ++        T  +S+ L+  
Sbjct: 116 FHWLAEDRVDFMERSPNISWVFHFRVLSLMVLLGVMDFLFVNHACHSIITRGASVQLVFG 175

Query: 62  FEPLSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIRN 121
           FE   +    +   + +    +D+    S     N A    +  L  G +   K +L   
Sbjct: 176 FEYAILMTMVLTTFIKYTLHTIDL---QSENPWDNKAVYMLYTELFTGFI---KVLL--- 226

Query: 122 FGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIAL 181
              ++   T+++ + H   ++ +R M         +L +R    A+   I      R A+
Sbjct: 227 ---YMAFMTIMIKV-HTFPLFAIRPM---------YLAMRQFKKAVTDAIMS----RRAI 269

Query: 182 GHLHAALPDATSEELRAYDDECAICREPMAK-AKKLLCNHLFHLACLRSWLDQGLNEMYS 240
            +++   PDAT E+L+A D+ C ICRE M   AKKL CNH+FH +CLRSW  +      +
Sbjct: 270 RNMNTLYPDATPEDLQATDNVCIICREEMVTGAKKLPCNHIFHSSCLRSWFQR----QQT 325

Query: 241 CPTCR 245
           CPTCR
Sbjct: 326 CPTCR 330

Acts as an E3 ubiquitin-protein ligase which accepts ubiquitin specifically from endoplasmic reticulum-associated UBC7 E2 ligase and transfers it to substrates, promoting their degradation. Component of the endoplasmic reticulum quality control (ERQC) system also called ER-associated degradation (ERAD) involved in ubiquitin-dependent degradation of misfolded endoplasmic reticulum proteins. Also promotes the degradation of normal but naturally short-lived proteins. Protects cells from ER stress-induced apoptosis. Sequesters p53 in the cytoplasm and promotes its degradation, thereby negatively regulating its biological function in transcription, cell cycle regulation and apoptosis.

Danio rerio (taxid: 7955)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q5XHH7|SYVNB_XENLA E3 ubiquitin-protein ligase synoviolin B OS=Xenopus laevis GN=syvn1-b PE=2 SV=1

 Score = 84.3 bits (207), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 67/245 (27%), Positives = 118/245 (48%), Gaps = 31/245 (12%)

Query: 2   FQALARDRLERLNASPSATPWTYFRVFSALLFVLAVDIFWIRMCLLLFKTLDSSMFLLLF 61
           F  LA DR++ +  SP+ +   +FR+ + +L +  +D F++        T  +S+ L+  
Sbjct: 110 FHWLAEDRVDFMERSPNISWLFHFRILALMLLLGVLDAFFVSHAYNSLVTRGASVQLVFG 169

Query: 62  FEPLSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIRN 121
           FE     +  +  +++  F  +   LH     S N   +K    L       +  +L+  
Sbjct: 170 FE-----YAILMTMILAVF--IKYILHSVDLQSENPWDNKAVYMLYTELFTGFIKVLL-- 220

Query: 122 FGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIAL 181
              ++   T+++ + H   ++ +R M         +L +R    A+   +      R A+
Sbjct: 221 ---YMAFMTIMVKV-HTFPLFAIRPM---------YLAMRQFKKAVTDAVMS----RRAI 263

Query: 182 GHLHAALPDATSEELRAYDDECAICREPMAK-AKKLLCNHLFHLACLRSWLDQGLNEMYS 240
            +++   PDAT+EEL+A D+ C ICRE M   AK+L CNH+FH +CLRSW  +      +
Sbjct: 264 RNMNTLYPDATAEELQAMDNVCIICREEMVSGAKRLPCNHIFHTSCLRSWFQR----QQT 319

Query: 241 CPTCR 245
           CPTCR
Sbjct: 320 CPTCR 324

Acts as an E3 ubiquitin-protein ligase which accepts ubiquitin specifically from endoplasmic reticulum-associated UBC7 E2 ligase and transfers it to substrates, promoting their degradation. Component of the endoplasmic reticulum quality control (ERQC) system also called ER-associated degradation (ERAD) involved in ubiquitin-dependent degradation of misfolded endoplasmic reticulum proteins. Also promotes the degradation of normal but naturally short-lived proteins. Protects cells from ER stress-induced apoptosis. Sequesters p53 in the cytoplasm and promotes its degradation, thereby negatively regulating its biological function in transcription, cell cycle regulation and apoptosis.

Xenopus laevis (taxid: 8355)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q6NRL6|SYVNA_XENLA E3 ubiquitin-protein ligase synoviolin A OS=Xenopus laevis GN=syvn1-a PE=2 SV=1

 Score = 83.6 bits (205), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 67/245 (27%), Positives = 117/245 (47%), Gaps = 31/245 (12%)

Query: 2   FQALARDRLERLNASPSATPWTYFRVFSALLFVLAVDIFWIRMCLLLFKTLDSSMFLLLF 61
           F  LA DR++ +  SP+ +   +FR+ + +L +  +D F++           +S+ L+  
Sbjct: 110 FHWLAEDRVDFMERSPNISWLFHFRILALMLLLGVLDAFFVSHAYHSLVIRGASVQLVFG 169

Query: 62  FEPLSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIRN 121
           FE     +  +  +++  F  +   LH     S N   +K    L       +  +L+  
Sbjct: 170 FE-----YAILMTVILTVF--IKYILHSVDLQSENPWDNKAVYMLYTELFTGFIKVLL-- 220

Query: 122 FGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIAL 181
              ++   T+++ + H   ++ +R M         +L +R    A+   I      R A+
Sbjct: 221 ---YVAFMTIMVKV-HTFPLFAIRPM---------YLAMRQFKKAVTDAIMS----RRAI 263

Query: 182 GHLHAALPDATSEELRAYDDECAICREPMAK-AKKLLCNHLFHLACLRSWLDQGLNEMYS 240
            +++   PDAT+EEL+A D+ C ICRE M   AK+L CNH+FH +CLRSW  +      +
Sbjct: 264 RNMNTLYPDATAEELQAMDNVCIICREEMVTGAKRLPCNHIFHTSCLRSWFQR----QQT 319

Query: 241 CPTCR 245
           CPTCR
Sbjct: 320 CPTCR 324

Acts as an E3 ubiquitin-protein ligase which accepts ubiquitin specifically from endoplasmic reticulum-associated UBC7 E2 ligase and transfers it to substrates, promoting their degradation. Component of the endoplasmic reticulum quality control (ERQC) system also called ER-associated degradation (ERAD) involved in ubiquitin-dependent degradation of misfolded endoplasmic reticulum proteins. Also promotes the degradation of normal but naturally short-lived proteins. Protects cells from ER stress-induced apoptosis. Sequesters p53 in the cytoplasm and promotes its degradation, thereby negatively regulating its biological function in transcription, cell cycle regulation and apoptosis.

Xenopus laevis (taxid: 8355)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9DBY1|SYVN1_MOUSE E3 ubiquitin-protein ligase synoviolin OS=Mus musculus GN=Syvn1 PE=1 SV=3

 Score = 82.0 bits (201), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 74/269 (27%), Positives = 126/269 (46%), Gaps = 35/269 (13%)

Query: 2   FQALARDRLERLNASPSATPWTYFRVFSALLFVLAV-DIFWIRMCLLLFKTLDSSMFLLL 60
           F  LA DR++ +  SP+ + W +     +L+F+L + D  ++        T  +S+ L+ 
Sbjct: 116 FHWLAEDRVDFMERSPNIS-WLFHCRIVSLMFLLGILDFLFVSHAYHSILTRGASVQLVF 174

Query: 61  FFEPLSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIR 120
            FE     +  +  +++  F  +   LH     S N   +K    L       +  +L+ 
Sbjct: 175 GFE-----YAILMTMVLTIF--IKYVLHSVDLQSENPWDNKAVYMLYTELFTGFIKVLL- 226

Query: 121 NFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIA 180
               ++   T+++ + H   ++ +R M         +L +R    A+   I      R A
Sbjct: 227 ----YMAFMTIMIKV-HTFPLFAIRPM---------YLAMRQFKKAVTDAIMS----RRA 268

Query: 181 LGHLHAALPDATSEELRAYDDECAICREPMAK-AKKLLCNHLFHLACLRSWLDQGLNEMY 239
           + +++   PDAT EEL+A D+ C ICRE M   AK+L CNH+FH +CLRSW  +      
Sbjct: 269 IRNMNTLYPDATPEELQAVDNVCIICREEMVTGAKRLPCNHIFHTSCLRSWFQR----QQ 324

Query: 240 SCPTCRKPLFVGRREIEANSRPGEVSSDE 268
           +CPTCR  + V R  + A S P    +D+
Sbjct: 325 TCPTCR--MDVLRASLPAQSPPPPEPADQ 351

Acts as an E3 ubiquitin-protein ligase which accepts ubiquitin specifically from endoplasmic reticulum-associated UBC7 E2 ligase and transfers it to substrates, promoting their degradation. Component of the endoplasmic reticulum quality control (ERQC) system also called ER-associated degradation (ERAD) involved in ubiquitin-dependent degradation of misfolded endoplasmic reticulum proteins. Also promotes the degradation of normal but naturally short-lived proteins such as SGK. Protects cells from ER stress-induced apoptosis. Sequesters p53/TP53 in the cytoplasm and promotes its degradation, thereby negatively regulating its biological function in transcription, cell cycle regulation and apoptosis. Required for embryogenesis.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q86TM6|SYVN1_HUMAN E3 ubiquitin-protein ligase synoviolin OS=Homo sapiens GN=SYVN1 PE=1 SV=2

 Score = 81.3 bits (199), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 74/269 (27%), Positives = 126/269 (46%), Gaps = 35/269 (13%)

Query: 2   FQALARDRLERLNASPSATPWTYFRVFSALLFVLAV-DIFWIRMCLLLFKTLDSSMFLLL 60
           F  LA DR++ +  SP+ + W +     +L+F+L + D  ++        T  +S+ L+ 
Sbjct: 116 FHWLAEDRVDFMERSPNIS-WLFHCRIVSLMFLLGILDFLFVSHAYHSILTRGASVQLVF 174

Query: 61  FFEPLSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIR 120
            FE     +  +  +++  F  +   LH     S N   +K    L       +  +L+ 
Sbjct: 175 GFE-----YAILMTMVLTIF--IKYVLHSVDLQSENPWDNKAVYMLYTELFTGFIKVLL- 226

Query: 121 NFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIA 180
               ++   T+++ + H   ++ +R M         +L +R    A+   I      R A
Sbjct: 227 ----YMAFMTIMIKV-HTFPLFAIRPM---------YLAMRQFKKAVTDAIMS----RRA 268

Query: 181 LGHLHAALPDATSEELRAYDDECAICREPMAK-AKKLLCNHLFHLACLRSWLDQGLNEMY 239
           + +++   PDAT EEL+A D+ C ICRE M   AK+L CNH+FH +CLRSW  +      
Sbjct: 269 IRNMNTLYPDATPEELQAMDNVCIICREEMVTGAKRLPCNHIFHTSCLRSWFQR----QQ 324

Query: 240 SCPTCRKPLFVGRREIEANSRPGEVSSDE 268
           +CPTCR  + V R  + A S P    +D+
Sbjct: 325 TCPTCR--MDVLRASLPAQSPPPPEPADQ 351

Acts as an E3 ubiquitin-protein ligase which accepts ubiquitin specifically from endoplasmic reticulum-associated UBC7 E2 ligase and transfers it to substrates, promoting their degradation. Component of the endoplasmic reticulum quality control (ERQC) system also called ER-associated degradation (ERAD) involved in ubiquitin-dependent degradation of misfolded endoplasmic reticulum proteins. Also promotes the degradation of normal but naturally short-lived proteins such as SGK. Protects cells from ER stress-induced apoptosis. Protects neurons from apoptosis induced by polyglutamine-expanded huntingtin (HTT) or unfolded GPR37 by promoting their degradation. Sequesters p53/TP53 in the cytoplasm and promotes its degradation, thereby negatively regulating its biological function in transcription, cell cycle regulation and apoptosis.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q95SP2|HRD1_DROME E3 ubiquitin-protein ligase HRD1 OS=Drosophila melanogaster GN=sip3 PE=1 SV=1

 Score = 75.1 bits (183), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 36/78 (46%), Positives = 46/78 (58%), Gaps = 5/78 (6%)

Query: 169 KRIKGFIKLRIALGHLHAALPDATSEELRAYDDECAICREPMAK-AKKLLCNHLFHLACL 227
           K +   I  R A+ +++   PDAT EELR  D+ C ICRE M   +KKL C H+FH  CL
Sbjct: 255 KALNDVIMSRRAIRNMNTLYPDATPEELRQSDNICIICREDMVNHSKKLPCGHIFHTTCL 314

Query: 228 RSWLDQGLNEMYSCPTCR 245
           RSW  +      +CPTCR
Sbjct: 315 RSWFQR----QQTCPTCR 328

Acts as an E3 ubiquitin-protein ligase which accepts ubiquitin specifically from endoplasmic reticulum-associated UBC7 E2 ligase and transfers it to substrates, promoting their degradation. Component of the endoplasmic reticulum quality control (ERQC) system also called ER-associated degradation (ERAD) involved in ubiquitin-dependent degradation of misfolded endoplasmic reticulum proteins. Also promotes the degradation of normal but naturally short-lived proteins. Protects cells from ER stress-induced apoptosis. Sequesters p53 in the cytoplasm and promotes its degradation, thereby negatively regulating its biological function in transcription, cell cycle regulation and apoptosis.

Drosophila melanogaster (taxid: 7227)

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	452
255539769	585	protein binding protein, putative [Ricin	0.995	0.769	0.800	0.0
224125224	571	predicted protein [Populus trichocarpa]	0.997	0.789	0.787	0.0
225466103	587	PREDICTED: E3 ubiquitin protein ligase R	1.0	0.770	0.792	0.0
224071523	581	predicted protein [Populus trichocarpa]	0.993	0.772	0.767	0.0
357455727	589	E3 ubiquitin-protein ligase synoviolin [	1.0	0.767	0.755	0.0
356508268	586	PREDICTED: E3 ubiquitin protein ligase R	0.997	0.769	0.758	0.0
356517740	586	PREDICTED: E3 ubiquitin protein ligase R	0.997	0.769	0.761	0.0
297792453	577	predicted protein [Arabidopsis lyrata su	0.980	0.767	0.727	0.0
22328916	578	E3 ubiquitin protein ligase RIN2 [Arabid	0.982	0.768	0.721	0.0
449444639	586	PREDICTED: E3 ubiquitin protein ligase R	0.997	0.769	0.767	0.0

>gi|255539769|ref|XP_002510949.1| protein binding protein, putative [Ricinus communis] gi|223550064|gb|EEF51551.1| protein binding protein, putative [Ricinus communis]

 Score =  746 bits (1925), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 362/452 (80%), Positives = 400/452 (88%), Gaps = 2/452 (0%)

Query: 1   MFQALARDRLERLNASPSATPWTYFRVFSALLFVLAVDIFWIRMCLLLFKTLDSSMFLLL 60
           MFQALARDRLERLNASPSA PWTYFRV+S LL VL+VD FWIR+C L+++TLD+SMF+LL
Sbjct: 136 MFQALARDRLERLNASPSAMPWTYFRVYSVLLLVLSVDFFWIRLCWLIYRTLDTSMFMLL 195

Query: 61  FFEPLSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIR 120
           F+EP S+AFETMQA+LVHGFQLLDIW HHSAGN  NC R KFFD +AAGSL EWKGILIR
Sbjct: 196 FYEPFSIAFETMQAMLVHGFQLLDIWFHHSAGNDANCQRFKFFDPIAAGSLSEWKGILIR 255

Query: 121 NFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIA 180
           N GF LDMATLLMALGHY+HIWWL G+AFHLVDA+LFLNIRALLSAIIKR++GF+KLRIA
Sbjct: 256 NLGFSLDMATLLMALGHYMHIWWLHGVAFHLVDAVLFLNIRALLSAIIKRVRGFVKLRIA 315

Query: 181 LGHLHAALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYS 240
           LG LHAALPDATSEELRAYDDECAICREPMAKAKKL C+HLFHLACLRSWLDQGLNEMYS
Sbjct: 316 LGALHAALPDATSEELRAYDDECAICREPMAKAKKLHCSHLFHLACLRSWLDQGLNEMYS 375

Query: 241 CPTCRKPLFVGRREIEANSRPGEVSSDEQLARQLSMGLDRQNNTGQTLPTGVFPNQTQPP 300
           CPTCRKPLFVGR + E +    +VS+DEQLARQ+S GLD+QN    TLP GVFPNQ +  
Sbjct: 376 CPTCRKPLFVGRPDNEPSRHRRDVSADEQLARQISEGLDQQN--APTLPAGVFPNQMRNS 433

Query: 301 VEGSPWRNAGLDSSWLHAWPSQGVDGAGPSTAMRSVGLSRVQMMMRHLASVGETYAQTAI 360
           +EGSPWR+AGLDSSWLH W  QGVDGAGPSTAMRSVGL RVQMMMRHLASVGETYAQTA+
Sbjct: 434 IEGSPWRSAGLDSSWLHTWQGQGVDGAGPSTAMRSVGLGRVQMMMRHLASVGETYAQTAL 493

Query: 361 EDTSWSLWPMNPSQASASGSPVPPAVPGRHPGNTGGAHARSTSRSANENIANILAMAETV 420
           ED++WSLWPMNP Q  ASGS VPPA  GR  G TGG H RS SRSAN+N+AN+LAMAETV
Sbjct: 494 EDSAWSLWPMNPPQGVASGSLVPPATGGRSAGGTGGLHMRSPSRSANDNVANLLAMAETV 553

Query: 421 REVLPHMPEDLIFQDLQRTNSATITVNNLLQM 452
           REVLPH+P++LI QDLQRTNS T+TVNNLLQM
Sbjct: 554 REVLPHIPDELILQDLQRTNSVTVTVNNLLQM 585

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224125224|ref|XP_002329924.1| predicted protein [Populus trichocarpa] gi|222871161|gb|EEF08292.1| predicted protein [Populus trichocarpa]

 Score =  732 bits (1889), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 355/451 (78%), Positives = 395/451 (87%)

Query: 1   MFQALARDRLERLNASPSATPWTYFRVFSALLFVLAVDIFWIRMCLLLFKTLDSSMFLLL 60
           MFQALARDRLERLNASPSATPWTY RV+SALL VL+VD FWI+MC +++++  SSMFLLL
Sbjct: 120 MFQALARDRLERLNASPSATPWTYLRVYSALLLVLSVDFFWIQMCFVIYRSTGSSMFLLL 179

Query: 61  FFEPLSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIR 120
           FFEP S+AFETMQA+LVHGFQLL+IW HHSAGNSTNC R KFFD + AGSLLEWKG+LIR
Sbjct: 180 FFEPFSIAFETMQAMLVHGFQLLEIWFHHSAGNSTNCQRFKFFDAMRAGSLLEWKGVLIR 239

Query: 121 NFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIA 180
           N GF LDMATLLMALGHY++IWWL G+AFHLVDA+LFLNIRALLSAIIKRIKGFIKLRIA
Sbjct: 240 NLGFSLDMATLLMALGHYVYIWWLHGVAFHLVDAVLFLNIRALLSAIIKRIKGFIKLRIA 299

Query: 181 LGHLHAALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYS 240
           LG LHAALPDATSEELRAYDDECAICREPMAKAK+L C+H+FHL CLRSWLDQGLNE+YS
Sbjct: 300 LGALHAALPDATSEELRAYDDECAICREPMAKAKRLHCSHIFHLVCLRSWLDQGLNEIYS 359

Query: 241 CPTCRKPLFVGRREIEANSRPGEVSSDEQLARQLSMGLDRQNNTGQTLPTGVFPNQTQPP 300
           CPTCRKPLFV R E EA++  GE  +DEQLA Q++ G DRQN  G  L  GVFPNQ +  
Sbjct: 360 CPTCRKPLFVDRPENEASTHTGEALTDEQLAHQINEGRDRQNTPGHVLSAGVFPNQIRNS 419

Query: 301 VEGSPWRNAGLDSSWLHAWPSQGVDGAGPSTAMRSVGLSRVQMMMRHLASVGETYAQTAI 360
           +EGSPWR+AGLDSSWL  WPSQG DGAGPSTAMRSVGL RVQMMMRHLASVGETYAQTA+
Sbjct: 420 MEGSPWRSAGLDSSWLPTWPSQGGDGAGPSTAMRSVGLGRVQMMMRHLASVGETYAQTAL 479

Query: 361 EDTSWSLWPMNPSQASASGSPVPPAVPGRHPGNTGGAHARSTSRSANENIANILAMAETV 420
           ED +WSLWP NPS A+ S S +PPA  GR PG TGG H  +TSR+ N+NIANILAMAETV
Sbjct: 480 EDAAWSLWPTNPSHATPSTSFIPPAAGGRRPGGTGGLHVSTTSRTTNDNIANILAMAETV 539

Query: 421 REVLPHMPEDLIFQDLQRTNSATITVNNLLQ 451
           REVLPH+P++LI QDLQRTNSAT+TVNNLLQ
Sbjct: 540 REVLPHIPDELILQDLQRTNSATVTVNNLLQ 570

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225466103|ref|XP_002266334.1| PREDICTED: E3 ubiquitin protein ligase RIN2 [Vitis vinifera] gi|296084203|emb|CBI24591.3| unnamed protein product [Vitis vinifera]

 Score =  730 bits (1885), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 358/452 (79%), Positives = 395/452 (87%)

Query: 1   MFQALARDRLERLNASPSATPWTYFRVFSALLFVLAVDIFWIRMCLLLFKTLDSSMFLLL 60
           MFQALARDRLERLNASPSATPWTYFRVFS LL VL+VD+FWI +CL++++TL S MFLLL
Sbjct: 136 MFQALARDRLERLNASPSATPWTYFRVFSVLLLVLSVDLFWIWLCLVIYRTLSSPMFLLL 195

Query: 61  FFEPLSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIR 120
           FFEP S+AFET+QAI+VHGFQL+DIWLH S GNS NC  SK F     GSLLEWKGILIR
Sbjct: 196 FFEPWSIAFETLQAIVVHGFQLIDIWLHDSEGNSINCRGSKIFHISPVGSLLEWKGILIR 255

Query: 121 NFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIA 180
           N GF LDMATLLMALGHY+HIWWL GMAFHLVDAILFLNIRALLSAI+KR+KGFIKLR+A
Sbjct: 256 NLGFLLDMATLLMALGHYLHIWWLHGMAFHLVDAILFLNIRALLSAIVKRVKGFIKLRMA 315

Query: 181 LGHLHAALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYS 240
           LG LHAALPDATSEEL+AYDDECAICREPMAKAKKL CNHLFHLACLRSWLDQGL E+YS
Sbjct: 316 LGTLHAALPDATSEELQAYDDECAICREPMAKAKKLHCNHLFHLACLRSWLDQGLTEIYS 375

Query: 241 CPTCRKPLFVGRREIEANSRPGEVSSDEQLARQLSMGLDRQNNTGQTLPTGVFPNQTQPP 300
           CPTCRKPLF GR   +AN R GEVSSDEQLARQ+S GLDR       LP GVFPNQT   
Sbjct: 376 CPTCRKPLFTGRSRDDANPRTGEVSSDEQLARQISSGLDRPGPAAHALPAGVFPNQTHDA 435

Query: 301 VEGSPWRNAGLDSSWLHAWPSQGVDGAGPSTAMRSVGLSRVQMMMRHLASVGETYAQTAI 360
           +E S WR AGLD SWLH WP+QG+DGAGPSTA+RSVGL RVQMMMRHLASVGETYAQTA+
Sbjct: 436 LEISAWREAGLDPSWLHTWPNQGLDGAGPSTAIRSVGLGRVQMMMRHLASVGETYAQTAL 495

Query: 361 EDTSWSLWPMNPSQASASGSPVPPAVPGRHPGNTGGAHARSTSRSANENIANILAMAETV 420
           ED +WSLWPMNPSQA+ASG P+PPA   R+PG  GG H R+ SRSAN+N+ANILAMAETV
Sbjct: 496 EDAAWSLWPMNPSQAAASGLPIPPAAAVRYPGGNGGLHMRTASRSANDNLANILAMAETV 555

Query: 421 REVLPHMPEDLIFQDLQRTNSATITVNNLLQM 452
           REVLPH+P+++IFQDLQ+TNSAT+TVNNLLQM
Sbjct: 556 REVLPHIPDEIIFQDLQQTNSATVTVNNLLQM 587

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224071523|ref|XP_002303501.1| predicted protein [Populus trichocarpa] gi|222840933|gb|EEE78480.1| predicted protein [Populus trichocarpa]

 Score =  729 bits (1881), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 347/452 (76%), Positives = 384/452 (84%), Gaps = 3/452 (0%)

Query: 1   MFQALARDRLERLNASPSATPWTYFRVFSALLFVLAVDIFWIRMCLLLFKTLDSSMFLLL 60
           MFQALARDRLERLNASPSATPWTYFR +S LL VL+VD+FWI MC +++++  SSMFLLL
Sbjct: 133 MFQALARDRLERLNASPSATPWTYFRAYSMLLLVLSVDLFWIHMCYVIYRSTGSSMFLLL 192

Query: 61  FFEPLSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIR 120
           FFEP S+AFETMQA+LVHGFQLL+IWLHHS GNS NC R KFFD + AGSLLEWKGILIR
Sbjct: 193 FFEPFSIAFETMQAMLVHGFQLLEIWLHHSTGNSANCQRFKFFDAIRAGSLLEWKGILIR 252

Query: 121 NFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIA 180
           + GF LDMA LLMALGHY+HIWWL G+A HLVD +LF NIRALLSAIIKRIKGFIKLR+A
Sbjct: 253 DLGFSLDMAALLMALGHYVHIWWLHGVALHLVDVVLFFNIRALLSAIIKRIKGFIKLRMA 312

Query: 181 LGHLHAALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYS 240
           L  LHAAL DATSEELRAYDDECAICREPMAKAK+LLC+HLFHLACLRSWLDQGLNE+YS
Sbjct: 313 LDALHAALSDATSEELRAYDDECAICREPMAKAKRLLCSHLFHLACLRSWLDQGLNEIYS 372

Query: 241 CPTCRKPLFVGRREIEANSRPGEVSSDEQLARQLSMGLDRQNNTGQTLPTGVFPNQTQPP 300
           CPTCRKPLF+GR E EAN+  GEV +DEQLA Q++ G DRQN  G+ L  G FP Q Q  
Sbjct: 373 CPTCRKPLFLGRPENEANTHTGEVLADEQLAHQINEGFDRQNTPGRALLDGAFPTQIQNS 432

Query: 301 VEGSPWRNAGLDSSWLHAWPSQGVDGAGPSTAMRSVGLSRVQMMMRHLASVGETYAQTAI 360
            E SPWR+AGLDSSWL  W  QG DGAGPSTAMRSVGL  VQMMMRHLASVGETYAQTA+
Sbjct: 433 TESSPWRSAGLDSSWLPNWSGQGADGAGPSTAMRSVGLGGVQMMMRHLASVGETYAQTAL 492

Query: 361 EDTSWSLWPMNPSQASASGSPVPPAVPGRHPGNTGGAHARSTSRSANENIANILAMAETV 420
           ED +WSLWPM+PSQA+ SGS  PPA  GRHP   GG H R+ S S N+ IANILAMAETV
Sbjct: 493 EDAAWSLWPMSPSQATPSGSSTPPAAAGRHP---GGLHMRTASHSTNDFIANILAMAETV 549

Query: 421 REVLPHMPEDLIFQDLQRTNSATITVNNLLQM 452
           REVLPH+P++LI QDLQRTNSAT+TVNNLL M
Sbjct: 550 REVLPHVPDELILQDLQRTNSATVTVNNLLHM 581

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357455727|ref|XP_003598144.1| E3 ubiquitin-protein ligase synoviolin [Medicago truncatula] gi|355487192|gb|AES68395.1| E3 ubiquitin-protein ligase synoviolin [Medicago truncatula]

 Score =  724 bits (1869), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 343/454 (75%), Positives = 385/454 (84%), Gaps = 2/454 (0%)

Query: 1   MFQALARDRLERLNASPSATPWTYFRVFSALLFVLAVDIFWIRMCLLLFKTLDSSMFLLL 60
           MFQALARDRLERLNASPSATPWTY RV+SALLF+  VD+ WIR+CL ++ T  SSMFLLL
Sbjct: 136 MFQALARDRLERLNASPSATPWTYLRVYSALLFIFLVDVLWIRLCLEIYSTHGSSMFLLL 195

Query: 61  FFEPLSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIR 120
           FFEPLS+AFET+QAILVHGFQLLDIW+HHSA + ++    K  D L AGSLLEWKGILIR
Sbjct: 196 FFEPLSIAFETLQAILVHGFQLLDIWIHHSACSGSDFRTHKLLDALTAGSLLEWKGILIR 255

Query: 121 NFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIA 180
           N GFFLDMAT  MALGHY++IW L GMAFHLVDA+LFLNIRALLSA+I RIKGFI+LRIA
Sbjct: 256 NLGFFLDMATFFMALGHYLYIWRLHGMAFHLVDAVLFLNIRALLSAMINRIKGFIRLRIA 315

Query: 181 LGHLHAALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYS 240
           LG LHAALPDAT+EELR Y+DECAICREPMAKAKKL CNHLFHLACLRSWLDQGL EMY+
Sbjct: 316 LGALHAALPDATTEELRGYEDECAICREPMAKAKKLNCNHLFHLACLRSWLDQGLTEMYT 375

Query: 241 CPTCRKPLFVGRREIEANSRPGEVSSDEQLARQLSMGLDRQNNTGQTLPTGVFPNQTQPP 300
           CPTCRKPLF GR E E NS  G +SSDEQLARQ+S G DRQN+    +P G+FPN T   
Sbjct: 376 CPTCRKPLFAGRPENETNSSTGVISSDEQLARQMSAGFDRQNSARHNMPAGLFPNPTLNN 435

Query: 301 VEGSPWRNAGLDSSWLHAWPSQGVDGAGPSTAMRSVGLSRVQMMMRHLASVGETYAQTAI 360
            EG PWR+AGLDS WLH+WP+QGVDGAGPSTA+R+VGL RVQMMMRHLASVGETYAQT  
Sbjct: 436 AEGVPWRSAGLDSGWLHSWPNQGVDGAGPSTAIRTVGLGRVQMMMRHLASVGETYAQTTF 495

Query: 361 EDTSWSLWPMNPSQASASG--SPVPPAVPGRHPGNTGGAHARSTSRSANENIANILAMAE 418
           +D SW+LWP+NPSQ SASG   P  P+   R PG  GG H R+ SRSAN+N+AN+LAMAE
Sbjct: 496 DDASWNLWPINPSQTSASGPSQPTAPSPGVRLPGGNGGLHIRTASRSANDNLANVLAMAE 555

Query: 419 TVREVLPHMPEDLIFQDLQRTNSATITVNNLLQM 452
           TVREVLPH+P+D+IFQDLQRTNS T+TVNNLLQM
Sbjct: 556 TVREVLPHIPDDIIFQDLQRTNSVTVTVNNLLQM 589

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356508268|ref|XP_003522880.1| PREDICTED: E3 ubiquitin protein ligase RIN2-like [Glycine max]

 Score =  721 bits (1862), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 343/452 (75%), Positives = 385/452 (85%), Gaps = 1/452 (0%)

Query: 1   MFQALARDRLERLNASPSATPWTYFRVFSALLFVLAVDIFWIRMCLLLFKTLDSSMFLLL 60
           MFQALARDRLERLNASP+ATPWTY RV+SALLFV  VD+ WIR CL +++T  SSM+LLL
Sbjct: 136 MFQALARDRLERLNASPAATPWTYLRVYSALLFVFMVDVLWIRFCLTIYRTHGSSMYLLL 195

Query: 61  FFEPLSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIR 120
           FFEP S+ FET+QAIL+HGFQLLDIWLHHSA NS +    K  D L AGSLLE KGILIR
Sbjct: 196 FFEPFSIVFETLQAILIHGFQLLDIWLHHSACNSNDFRTPKLLDMLTAGSLLELKGILIR 255

Query: 121 NFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIA 180
           N GFFLDMAT  MALGHY++IWWL GMAFHLVDA +FLNIRALLSAII RIKGFI+LRIA
Sbjct: 256 NLGFFLDMATFFMALGHYLYIWWLHGMAFHLVDAFIFLNIRALLSAIINRIKGFIRLRIA 315

Query: 181 LGHLHAALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYS 240
           LG LHAALPDAT+EELRAYDDECAICREPMAKAK+L CNHLFHLACLRSWLDQGL EMY+
Sbjct: 316 LGTLHAALPDATTEELRAYDDECAICREPMAKAKRLNCNHLFHLACLRSWLDQGLTEMYT 375

Query: 241 CPTCRKPLFVGRREIEANSRPGEVSSDEQLARQLSMGLDRQNNTGQTLPTGVFPNQTQPP 300
           CPTCRKPLF G  E + NS  G +SSDEQLARQ+S GLDR N+   T+P G++PNQT   
Sbjct: 376 CPTCRKPLFAGVPENQTNSDVGTISSDEQLARQISAGLDRPNSARHTMPAGLYPNQTLNT 435

Query: 301 VEGSPWRNAGLDSSWLHAWPSQGVDGAGPSTAMRSVGLSRVQMMMRHLASVGETYAQTAI 360
            EG PWR AGLDS W H+WP+QGVDGAGPSTA+R+VGL RVQMMMRHLASVGETYAQTA 
Sbjct: 436 PEGVPWRGAGLDSGWWHSWPNQGVDGAGPSTAIRTVGLGRVQMMMRHLASVGETYAQTAF 495

Query: 361 EDTSWSLWPMNPSQASASGSPVPPAVPGRHPGNTGGAHARSTSRSANENIANILAMAETV 420
           EDT+W+LWP+NPSQASASGS + P   GR P  TG  H R+ S+SAN+++ANILAMAETV
Sbjct: 496 EDTAWNLWPINPSQASASGSTISPP-GGRLPERTGSLHLRNASQSANDDVANILAMAETV 554

Query: 421 REVLPHMPEDLIFQDLQRTNSATITVNNLLQM 452
           REVLPH+P+D+IFQDLQRTNS T+TVNNLLQM
Sbjct: 555 REVLPHIPDDMIFQDLQRTNSVTVTVNNLLQM 586

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356517740|ref|XP_003527544.1| PREDICTED: E3 ubiquitin protein ligase RIN2-like [Glycine max]

 Score =  721 bits (1861), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 344/452 (76%), Positives = 385/452 (85%), Gaps = 1/452 (0%)

Query: 1   MFQALARDRLERLNASPSATPWTYFRVFSALLFVLAVDIFWIRMCLLLFKTLDSSMFLLL 60
           MFQALARDRLERLNASPSATPWTY RV+SALLFV  VD+ WIR CL +++   SSM+LLL
Sbjct: 136 MFQALARDRLERLNASPSATPWTYLRVYSALLFVFMVDVLWIRFCLTIYQAHGSSMYLLL 195

Query: 61  FFEPLSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIR 120
           FFEP S+ FET+QAILVHGFQLLDIWLHHSA NS++    K  D L AGSLLE KGILIR
Sbjct: 196 FFEPFSICFETLQAILVHGFQLLDIWLHHSACNSSDFRTPKLLDMLTAGSLLELKGILIR 255

Query: 121 NFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIA 180
           N GF LDMAT  MALGHY++IW L GMAFHL+DA+LFLNIRALLSAII RIKGFI+LRIA
Sbjct: 256 NLGFLLDMATFFMALGHYLYIWRLHGMAFHLIDALLFLNIRALLSAIINRIKGFIRLRIA 315

Query: 181 LGHLHAALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYS 240
           LG LHAALPDAT+EELRAYDDECAICREPMAKAK+L CNHLFHLACLRSWLDQGL EMY+
Sbjct: 316 LGTLHAALPDATTEELRAYDDECAICREPMAKAKRLNCNHLFHLACLRSWLDQGLAEMYT 375

Query: 241 CPTCRKPLFVGRREIEANSRPGEVSSDEQLARQLSMGLDRQNNTGQTLPTGVFPNQTQPP 300
           CPTCRKPLF G    E NS  G +SSDEQLARQ+S GLDR N+   T+PTG +PNQT   
Sbjct: 376 CPTCRKPLFAGVPGNETNSDAGTISSDEQLARQISAGLDRPNSARHTMPTGFYPNQTLNT 435

Query: 301 VEGSPWRNAGLDSSWLHAWPSQGVDGAGPSTAMRSVGLSRVQMMMRHLASVGETYAQTAI 360
            EG PWR AGLDS WLH+WP+QGVDGAGPSTA+R+VGL RVQMMMRHLASVGETYAQT +
Sbjct: 436 PEGVPWRGAGLDSGWLHSWPNQGVDGAGPSTAIRTVGLGRVQMMMRHLASVGETYAQTTL 495

Query: 361 EDTSWSLWPMNPSQASASGSPVPPAVPGRHPGNTGGAHARSTSRSANENIANILAMAETV 420
           EDT+W+LWP+NPSQASASGS +PP   GR P  TG  H R+ S+S+N+N+ANILAMAETV
Sbjct: 496 EDTAWNLWPINPSQASASGSTIPPP-GGRLPERTGSLHLRTASQSSNDNVANILAMAETV 554

Query: 421 REVLPHMPEDLIFQDLQRTNSATITVNNLLQM 452
           REVLPH+P+D+IFQDLQRTNS T+TVNNLLQM
Sbjct: 555 REVLPHIPDDMIFQDLQRTNSVTVTVNNLLQM 586

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297792453|ref|XP_002864111.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|297309946|gb|EFH40370.1| predicted protein [Arabidopsis lyrata subsp. lyrata]

 Score =  697 bits (1799), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 329/452 (72%), Positives = 382/452 (84%), Gaps = 9/452 (1%)

Query: 1   MFQALARDRLERLNASPSATPWTYFRVFSALLFVLAVDIFWIRMCLLLFKTLDSSMFLLL 60
           MFQALARDRL+RLNASPS+TPWTYFRV+SAL  VL+ D+ WI++ L+++ T+ SS++LLL
Sbjct: 135 MFQALARDRLDRLNASPSSTPWTYFRVYSALFMVLSADLCWIKLSLMIYSTIGSSVYLLL 194

Query: 61  FFEPLSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIR 120
            FEP SVAFET+QA+L+HGFQLLD+W++H A  +++C RSKF+D++ AGSLLEWKG+L R
Sbjct: 195 LFEPCSVAFETLQALLIHGFQLLDMWINHFAVKNSDCQRSKFYDSMTAGSLLEWKGLLNR 254

Query: 121 NFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIA 180
           N GFFLDMATL+MALGHY+HIWWL GMAFHLVDA+LFLNIRALLSAI+KRIKG+IKLR+A
Sbjct: 255 NLGFFLDMATLVMALGHYLHIWWLHGMAFHLVDAVLFLNIRALLSAILKRIKGYIKLRVA 314

Query: 181 LGHLHAALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYS 240
           LG LHAALPDATSEELRAYDDECAICREPMAKAK+L CNHLFHL CLRSWLDQGLNE+YS
Sbjct: 315 LGALHAALPDATSEELRAYDDECAICREPMAKAKRLHCNHLFHLGCLRSWLDQGLNEVYS 374

Query: 241 CPTCRKPLFVGRREIEANSRPGEVSSDEQLARQLSMGLDRQNNTGQTLPTGVFPNQTQPP 300
           CPTCRKPLFVGR E EAN   GEVSSDE LARQ     DRQNN+   L TG+FP +T   
Sbjct: 375 CPTCRKPLFVGRAESEANPSRGEVSSDEHLARQ----FDRQNNSVHALTTGMFPTETPNS 430

Query: 301 VEGSPWRNAGLDSSWLHAWPSQGVDGAGPSTAMRSVGLSRVQMMMRHLASVGETYAQTAI 360
            E  PWRN+GLD SWL  W  QGVD AGPS   RSVGL +VQ+MMRHLASVGE Y QTA+
Sbjct: 431 TESDPWRNSGLDQSWLQTWSDQGVDVAGPSAGSRSVGLGQVQLMMRHLASVGEGYGQTAL 490

Query: 361 EDTSWSLWPMNPSQASASGSPVPPAVPGRHPGNTGGAHARSTSRSANENIANILAMAETV 420
           +D SW LWPMNPSQASAS + VPP   GR    TGG H R+ SR+AN N+A+ILAMAETV
Sbjct: 491 DDASWGLWPMNPSQASASSTYVPPGAGGR----TGGLHLRTVSRAAN-NMASILAMAETV 545

Query: 421 REVLPHMPEDLIFQDLQRTNSATITVNNLLQM 452
           REVLPH+P+++IFQDLQRTNS ++TVNNLLQM
Sbjct: 546 REVLPHVPDEIIFQDLQRTNSVSVTVNNLLQM 577

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|22328916|ref|NP_194253.2| E3 ubiquitin protein ligase RIN2 [Arabidopsis thaliana] gi|30686808|ref|NP_849552.1| E3 ubiquitin protein ligase RIN2 [Arabidopsis thaliana] gi|75304438|sp|Q8VYC8.1|RIN2_ARATH RecName: Full=E3 ubiquitin protein ligase RIN2; AltName: Full=AMF receptor-like protein 1A; AltName: Full=RPM1-interacting protein 2 gi|18176187|gb|AAL60000.1| unknown protein [Arabidopsis thaliana] gi|332659628|gb|AEE85028.1| E3 ubiquitin protein ligase RIN2 [Arabidopsis thaliana] gi|332659629|gb|AEE85029.1| E3 ubiquitin protein ligase RIN2 [Arabidopsis thaliana]

 Score =  691 bits (1782), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 326/452 (72%), Positives = 378/452 (83%), Gaps = 8/452 (1%)

Query: 1   MFQALARDRLERLNASPSATPWTYFRVFSALLFVLAVDIFWIRMCLLLFKTLDSSMFLLL 60
           MFQALARDRLERLNASPS+TPWTYFRV+S L  VL+VD+FWI++ L+ + T+ S+++LLL
Sbjct: 135 MFQALARDRLERLNASPSSTPWTYFRVYSVLFLVLSVDMFWIKLSLMTYNTIGSAVYLLL 194

Query: 61  FFEPLSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIR 120
            FEP S+AFET+QA+L+HGFQLLD+W++H A  +++C RSKF D++ AGSLLEWKG+L R
Sbjct: 195 LFEPCSIAFETLQALLIHGFQLLDMWINHLAVKNSDCQRSKFIDSMTAGSLLEWKGLLNR 254

Query: 121 NFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIA 180
           N GFFLDMATL+MALGHY+HIWWL G+AFHLVDA+LFLNIRALLSAI+KRIKG+IKLRIA
Sbjct: 255 NLGFFLDMATLVMALGHYLHIWWLHGIAFHLVDAVLFLNIRALLSAILKRIKGYIKLRIA 314

Query: 181 LGHLHAALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYS 240
           LG LHAALPDATSEELRAYDDECAICREPMAKAK+L CNHLFHL CLRSWLDQGLNE+YS
Sbjct: 315 LGALHAALPDATSEELRAYDDECAICREPMAKAKRLHCNHLFHLGCLRSWLDQGLNEVYS 374

Query: 241 CPTCRKPLFVGRREIEANSRPGEVSSDEQLARQLSMGLDRQNNTGQTLPTGVFPNQTQPP 300
           CPTCRKPLFVGR E E N R  EVSSDEQLARQ    L+RQNN    L TG+FP +    
Sbjct: 375 CPTCRKPLFVGRTENEVNPRTVEVSSDEQLARQ----LERQNNPVHALATGLFPAEVPDS 430

Query: 301 VEGSPWRNAGLDSSWLHAWPSQGVDGAGPSTAMRSVGLSRVQMMMRHLASVGETYAQTAI 360
           VE    RN GLD SWL  W SQG D AGPST  R+VGL RVQMMMRHLASVGE+YAQTA+
Sbjct: 431 VENDTSRNLGLDPSWLQTWSSQGSDVAGPSTTSRTVGLGRVQMMMRHLASVGESYAQTAL 490

Query: 361 EDTSWSLWPMNPSQASASGSPVPPAVPGRHPGNTGGAHARSTSRSANENIANILAMAETV 420
           +D +WSLWPMNPSQAS S + VPP   GR    TGG H R+ S + NE++ NILAMAETV
Sbjct: 491 DDAAWSLWPMNPSQASTSSTTVPPGNGGR----TGGLHLRTVSNTTNESLTNILAMAETV 546

Query: 421 REVLPHMPEDLIFQDLQRTNSATITVNNLLQM 452
           REV+PH+P+++IFQDLQRTNS  +TVNNLLQM
Sbjct: 547 REVMPHVPDEIIFQDLQRTNSVAVTVNNLLQM 578

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449444639|ref|XP_004140081.1| PREDICTED: E3 ubiquitin protein ligase RIN2-like [Cucumis sativus]

 Score =  681 bits (1757), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 347/452 (76%), Positives = 390/452 (86%), Gaps = 1/452 (0%)

Query: 1   MFQALARDRLERLNASPSATPWTYFRVFSALLFVLAVDIFWIRMCLLLFKTLDSSMFLLL 60
           MFQALARDRLERLNASPSAT WTYF V+S LL VL VD+  IR CL++++TL  S+FLLL
Sbjct: 136 MFQALARDRLERLNASPSATSWTYFCVYSVLLLVLIVDLSGIRFCLMIYRTLGLSLFLLL 195

Query: 61  FFEPLSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIR 120
           FFEPLS+AFET+QAILVHGFQLLDIWLHHSAGN+TNC  SKFF+    G L E KG LIR
Sbjct: 196 FFEPLSIAFETLQAILVHGFQLLDIWLHHSAGNNTNCQFSKFFNMTIPGLLWELKGTLIR 255

Query: 121 NFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIA 180
           N GFFLDMATLLMALGHY++IW L GM F+LVDA+LFLNIRALLSAI+KRI+GF+KLR A
Sbjct: 256 NLGFFLDMATLLMALGHYVYIWRLHGMTFNLVDAVLFLNIRALLSAIVKRIRGFMKLRKA 315

Query: 181 LGHLHAALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYS 240
           LG L+AALPDATSEEL+AYDDECAICREPMAKAKKL CNHLFHLACLRSWLDQGLNE YS
Sbjct: 316 LGALNAALPDATSEELQAYDDECAICREPMAKAKKLNCNHLFHLACLRSWLDQGLNEYYS 375

Query: 241 CPTCRKPLFVGRREIEANSRPGEVSSDEQLARQLSMGLDRQNNTGQTLPTGVFPNQTQPP 300
           CPTCRKPLFVGR+E + N R GE  SDEQLARQ+S GL+RQN T  TLP G+FPNQTQ P
Sbjct: 376 CPTCRKPLFVGRQENDVNPRAGETFSDEQLARQISAGLNRQNATIPTLPAGIFPNQTQNP 435

Query: 301 VEGSPWRNAGLDSSWLHAWPSQGVDGAGPSTAMRSVGLSRVQMMMRHLASVGETYAQTAI 360
           VEGSPWR+  LD SWLH W SQ +DGAGPS A RSVGLSRVQMMMRHLASVGETYAQT+I
Sbjct: 436 VEGSPWRSTSLDPSWLHDWASQSMDGAGPSNAARSVGLSRVQMMMRHLASVGETYAQTSI 495

Query: 361 EDTSWSLWPMNPSQASASGSPVPPAVPGRHPGNTGGAHARSTSRSANENIANILAMAETV 420
           ED++WSLWP+N SQ  A GS VP  V GRHPG+ GG +  + SR++N+N+ANI+AMAETV
Sbjct: 496 EDSAWSLWPLNSSQVVAGGSQVPRNVVGRHPGSMGGLNM-NVSRASNDNLANIIAMAETV 554

Query: 421 REVLPHMPEDLIFQDLQRTNSATITVNNLLQM 452
           REVLPH+P++LIFQDLQRTNS T+TVNNLLQM
Sbjct: 555 REVLPHVPDELIFQDLQRTNSVTVTVNNLLQM 586

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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	452
TAIR|locus:2122674	578	RIN2 "RPM1 interacting protein	0.982	0.768	0.699	4.3e-173
UNIPROTKB|F1MWZ9	646	AMFR "Uncharacterized protein"	0.338	0.236	0.348	1.9e-23
ZFIN|ZDB-GENE-040426-2190	620	amfr "autocrine motility facto	0.294	0.214	0.374	4.1e-23
MGI|MGI:1345634	643	Amfr "autocrine motility facto	0.338	0.237	0.348	6e-23
UNIPROTKB|F1PK72	560	AMFR "Uncharacterized protein"	0.338	0.273	0.335	1.7e-22
UNIPROTKB|Q9UKV5	643	AMFR "E3 ubiquitin-protein lig	0.338	0.237	0.341	1.7e-22
UNIPROTKB|F1NBB7	559	AMFR "Uncharacterized protein"	0.292	0.236	0.360	1e-21
UNIPROTKB|H3BRK9	288	AMFR "E3 ubiquitin-protein lig	0.254	0.399	0.375	1.1e-21
TAIR|locus:2093422	492	Hrd1A "homolog of yeast Hrd1"	0.345	0.317	0.341	1.9e-20
TAIR|locus:2014993	460	Hrd1B "homolog of yeast Hrd1"	0.380	0.373	0.305	1.1e-19

TAIR|locus:2122674 RIN2 "RPM1 interacting protein 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 1682 (597.2 bits), Expect = 4.3e-173, P = 4.3e-173
 Identities = 316/452 (69%), Positives = 368/452 (81%)

Query:     1 MFQALARDRLERLNASPSATPWTYFRVFSALLFVLAVDIFWIRMCLLLFKTLDSSMFLLL 60
             MFQALARDRLERLNASPS+TPWTYFRV+S L  VL+VD+FWI++ L+ + T+ S+++LLL
Sbjct:   135 MFQALARDRLERLNASPSSTPWTYFRVYSVLFLVLSVDMFWIKLSLMTYNTIGSAVYLLL 194

Query:    61 FFEPLSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIR 120
              FEP S+AFET+QA+L+HGFQLLD+W++H A  +++C RSKF D++ AGSLLEWKG+L R
Sbjct:   195 LFEPCSIAFETLQALLIHGFQLLDMWINHLAVKNSDCQRSKFIDSMTAGSLLEWKGLLNR 254

Query:   121 NFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIA 180
             N GFFLDMATL+MALGHY+HIWWL G+AFHLVDA+LFLNIRALLSAI+KRIKG+IKLRIA
Sbjct:   255 NLGFFLDMATLVMALGHYLHIWWLHGIAFHLVDAVLFLNIRALLSAILKRIKGYIKLRIA 314

Query:   181 LGHLHAALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYS 240
             LG LHAALPDATSEELRAYDDECAICREPMAKAK+L CNHLFHL CLRSWLDQGLNE+YS
Sbjct:   315 LGALHAALPDATSEELRAYDDECAICREPMAKAKRLHCNHLFHLGCLRSWLDQGLNEVYS 374

Query:   241 CPTCRKPLFVGRREIEANSRPGEVSSDEQLARQLSMGLDRQNNTGQTLPTGVFPNQTQPP 300
             CPTCRKPLFVGR E E N R  EVSSDEQLARQL    +RQNN    L TG+FP +    
Sbjct:   375 CPTCRKPLFVGRTENEVNPRTVEVSSDEQLARQL----ERQNNPVHALATGLFPAEVPDS 430

Query:   301 VEGSPWRNAGLDSSWLHAWPSQGVDGAGPSTAMRSVGLSRVQMMMRHLASVGETYAQTAI 360
             VE    RN GLD SWL  W SQG D AGPST  R+VGL RVQMMMRHLASVGE+YAQTA+
Sbjct:   431 VENDTSRNLGLDPSWLQTWSSQGSDVAGPSTTSRTVGLGRVQMMMRHLASVGESYAQTAL 490

Query:   361 EDTSWSLWPMNXXXXXXXXXXXXXXXXXRHPGNTGGAHARSTSRSANENIANILAMAETV 420
             +D +WSLWPMN                  + G TGG H R+ S + NE++ NILAMAETV
Sbjct:   491 DDAAWSLWPMNPSQASTSSTTVPPG----NGGRTGGLHLRTVSNTTNESLTNILAMAETV 546

Query:   421 REVLPHMPEDLIFQDLQRTNSATITVNNLLQM 452
             REV+PH+P+++IFQDLQRTNS  +TVNNLLQM
Sbjct:   547 REVMPHVPDEIIFQDLQRTNSVAVTVNNLLQM 578

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

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISS;IDA

GO:0005515 "protein binding" evidence=IPI

GO:0005886 "plasma membrane" evidence=IDA

GO:0034052 "positive regulation of plant-type hypersensitive response" evidence=IGI

UNIPROTKB|F1MWZ9 AMFR "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 249 (92.7 bits), Expect = 1.9e-23, Sum P(2) = 1.9e-23
 Identities = 55/158 (34%), Positives = 82/158 (51%)

Query:   113 EWKGILIRNFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIK 172
             E KG  +    F +++  L + L H+IH+     +   +   ++F+ +R L   + +RI+
Sbjct:   254 EGKGTYVYYTDFVMELTLLSLDLMHHIHMLLFGNIWLSMASLVIFMQLRYLFHEVQRRIR 313

Query:   173 GFIKLRIALGHLHAALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLD 232
                     +G++ A    AT EEL   +D+CAIC + M  A+KL C HLFH +CLRSWL+
Sbjct:   314 RHKNYLRVVGNMEARFAVATPEELAVNNDDCAICWDSMQAARKLPCGHLFHNSCLRSWLE 373

Query:   233 QGLNEMYSCPTCRKPLFVGRREIEANSRPGEVSSDEQL 270
             Q      SCPTCR  L +          PGE + DE L
Sbjct:   374 QDT----SCPTCRMSLNIADNNRVREDHPGE-NLDENL 406

GO:0051259 "protein oligomerization" evidence=IEA

GO:0030968 "endoplasmic reticulum unfolded protein response" evidence=IEA

GO:0030433 "ER-associated protein catabolic process" evidence=IEA

GO:0030176 "integral to endoplasmic reticulum membrane" evidence=IEA

GO:0004872 "receptor activity" evidence=IEA

GO:0000209 "protein polyubiquitination" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0004842 "ubiquitin-protein ligase activity" evidence=IEA

ZFIN|ZDB-GENE-040426-2190 amfr "autocrine motility factor receptor" [Danio rerio (taxid:7955)]

 Score = 243 (90.6 bits), Expect = 4.1e-23, Sum P(2) = 4.1e-23
 Identities = 52/139 (37%), Positives = 78/139 (56%)

Query:   124 FFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIALGH 183
             F +++A L + L H+IH+     +   +   ++F+ +R L   + +RI+        + +
Sbjct:   255 FIMELAILSLDLMHHIHMLLFGNIWLSMASLVIFMQLRHLFHEVQRRIRRHKNYLRVIDN 314

Query:   184 LHAALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPT 243
             + +    AT EEL A +D+CAIC + M  A+KL C HLFH +CLRSWL+Q      SCPT
Sbjct:   315 MESRFAVATPEELAANNDDCAICWDSMTTARKLPCGHLFHNSCLRSWLEQDT----SCPT 370

Query:   244 CRKPLFV--GRREIEANSR 260
             CR  L +  GRRE E   R
Sbjct:   371 CRMSLNIHEGRREREEGQR 389

GO:0004842 "ubiquitin-protein ligase activity" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

MGI|MGI:1345634 Amfr "autocrine motility factor receptor" [Mus musculus (taxid:10090)]

 Score = 244 (91.0 bits), Expect = 6.0e-23, Sum P(2) = 6.0e-23
 Identities = 55/158 (34%), Positives = 82/158 (51%)

Query:   113 EWKGILIRNFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIK 172
             E KG  +    F +++A L + L H+IH+     +   +   ++F+ +R L   + +RI+
Sbjct:   251 EGKGTYVYYTDFVMELALLSLDLMHHIHMLLFGNIWLSMASLVIFMQLRYLFHEVQRRIR 310

Query:   173 GFIKLRIALGHLHAALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLD 232
                     +G++ A    AT EEL   +D+CAIC + M  A+KL C HLFH +CLRSWL+
Sbjct:   311 RHKNYLRVVGNMEARFAVATPEELAVNNDDCAICWDSMQAARKLPCGHLFHNSCLRSWLE 370

Query:   233 QGLNEMYSCPTCRKPLFVGRREIEANSRPGEVSSDEQL 270
             Q      SCPTCR  L +           GE + DE L
Sbjct:   371 QDT----SCPTCRMSLNIADGSRAREDHQGE-NLDENL 403

GO:0000166 "nucleotide binding" evidence=IEA

GO:0000209 "protein polyubiquitination" evidence=ISO

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISO

GO:0004872 "receptor activity" evidence=ISO

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=ISO

GO:0005737 "cytoplasm" evidence=ISO

GO:0005783 "endoplasmic reticulum" evidence=IEA

GO:0005887 "integral to plasma membrane" evidence=ISS

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=ISO

GO:0008270 "zinc ion binding" evidence=IEA

GO:0009987 "cellular process" evidence=TAS

GO:0016020 "membrane" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0030176 "integral to endoplasmic reticulum membrane" evidence=ISO

GO:0030425 "dendrite" evidence=ISO

GO:0030426 "growth cone" evidence=ISO

GO:0030433 "ER-associated protein catabolic process" evidence=ISO

GO:0030968 "endoplasmic reticulum unfolded protein response" evidence=ISO

GO:0043025 "neuronal cell body" evidence=ISO

GO:0043234 "protein complex" evidence=ISO

GO:0046872 "metal ion binding" evidence=IEA

GO:0051259 "protein oligomerization" evidence=ISO

UNIPROTKB|F1PK72 AMFR "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 239 (89.2 bits), Expect = 1.7e-22, Sum P(2) = 1.7e-22
 Identities = 53/158 (33%), Positives = 82/158 (51%)

Query:   113 EWKGILIRNFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIK 172
             E KG  +    F +++  L + L H+IH+     +   +   ++F+ +R L   + +RI+
Sbjct:   166 EGKGTYVYYTDFVMELTLLSLDLMHHIHMLLFGNIWLSMASLVIFMQLRYLFHEVQRRIR 225

Query:   173 GFIKLRIALGHLHAALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLD 232
                     +G++ A    AT EEL   +D+CAIC + M  A+KL C HLFH +CLRSWL+
Sbjct:   226 RHKNYLRVVGNMEARFAVATPEELAVNNDDCAICWDSMQAARKLPCGHLFHNSCLRSWLE 285

Query:   233 QGLNEMYSCPTCRKPLFVGRREIEANSRPGEVSSDEQL 270
             Q      SCPTCR  L +         + G+ + DE L
Sbjct:   286 QDT----SCPTCRMSLNIADNNRVREDQQGD-NLDENL 318

GO:0051259 "protein oligomerization" evidence=IEA

GO:0030968 "endoplasmic reticulum unfolded protein response" evidence=IEA

GO:0030433 "ER-associated protein catabolic process" evidence=IEA

GO:0030176 "integral to endoplasmic reticulum membrane" evidence=IEA

GO:0004872 "receptor activity" evidence=IEA

GO:0000209 "protein polyubiquitination" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0004842 "ubiquitin-protein ligase activity" evidence=IEA

UNIPROTKB|Q9UKV5 AMFR "E3 ubiquitin-protein ligase AMFR" [Homo sapiens (taxid:9606)]

 Score = 241 (89.9 bits), Expect = 1.7e-22, Sum P(2) = 1.7e-22
 Identities = 54/158 (34%), Positives = 81/158 (51%)

Query:   113 EWKGILIRNFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIK 172
             E KG  +    F +++  L + L H+IH+     +   +   ++F+ +R L   + +RI+
Sbjct:   251 EGKGTYVYYTDFVMELTLLSLDLMHHIHMLLFGNIWLSMASLVIFMQLRYLFHEVQRRIR 310

Query:   173 GFIKLRIALGHLHAALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLD 232
                     +G++ A    AT EEL   +D+CAIC + M  A+KL C HLFH +CLRSWL+
Sbjct:   311 RHKNYLRVVGNMEARFAVATPEELAVNNDDCAICWDSMQAARKLPCGHLFHNSCLRSWLE 370

Query:   233 QGLNEMYSCPTCRKPLFVGRREIEANSRPGEVSSDEQL 270
             Q      SCPTCR  L +           GE + DE L
Sbjct:   371 QDT----SCPTCRMSLNIADNNRVREEHQGE-NLDENL 403

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0004842 "ubiquitin-protein ligase activity" evidence=IMP;IDA

GO:0030176 "integral to endoplasmic reticulum membrane" evidence=IDA

GO:0004872 "receptor activity" evidence=IPI

GO:0016021 "integral to membrane" evidence=NAS

GO:0030433 "ER-associated protein catabolic process" evidence=IMP;IDA

GO:0000209 "protein polyubiquitination" evidence=IDA

GO:0051259 "protein oligomerization" evidence=IDA

GO:0030968 "endoplasmic reticulum unfolded protein response" evidence=IMP

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IMP

GO:0006928 "cellular component movement" evidence=TAS

GO:0007165 "signal transduction" evidence=TAS

UNIPROTKB|F1NBB7 AMFR "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 235 (87.8 bits), Expect = 1.0e-21, Sum P(2) = 1.0e-21
 Identities = 49/136 (36%), Positives = 74/136 (54%)

Query:   113 EWKGILIRNFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIK 172
             E KG  +    F +++  L + L H+IH+     +   +   ++F+ +R L   + +RI+
Sbjct:   167 EGKGTYVYYTDFVMELTLLSLDLMHHIHMLLFGNIWLSMASLVIFMQLRYLFHEVQRRIR 226

Query:   173 GFIKLRIALGHLHAALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLD 232
                     +G++ A    AT EEL   +D+CAIC + M  A+KL C HLFH +CLRSWL+
Sbjct:   227 RHKNYLRVVGNMEARFAVATPEELAVNNDDCAICWDSMQSARKLPCGHLFHNSCLRSWLE 286

Query:   233 QGLNEMYSCPTCRKPL 248
             Q      SCPTCR  L
Sbjct:   287 QDT----SCPTCRMSL 298

GO:0004842 "ubiquitin-protein ligase activity" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0000209 "protein polyubiquitination" evidence=IEA

GO:0004872 "receptor activity" evidence=IEA

GO:0030176 "integral to endoplasmic reticulum membrane" evidence=IEA

GO:0030433 "ER-associated protein catabolic process" evidence=IEA

GO:0030968 "endoplasmic reticulum unfolded protein response" evidence=IEA

GO:0051259 "protein oligomerization" evidence=IEA

UNIPROTKB|H3BRK9 AMFR "E3 ubiquitin-protein ligase AMFR" [Homo sapiens (taxid:9606)]

 Score = 206 (77.6 bits), Expect = 1.1e-21, Sum P(2) = 1.1e-21
 Identities = 45/120 (37%), Positives = 64/120 (53%)

Query:   151 LVDAILFLNIRALLSAIIKRIKGFIKLRIALGHLHAALPDATSEELRAYDDECAICREPM 210
             +   ++F+ +R L   + +RI+        +G++ A    AT EEL   +D+CAIC + M
Sbjct:     4 MASLVIFMQLRYLFHEVQRRIRRHKNYLRVVGNMEARFAVATPEELAVNNDDCAICWDSM 63

Query:   211 AKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGRREIEANSRPGEVSSDEQL 270
               A+KL C HLFH +CLRSWL+Q      SCPTCR  L +           GE + DE L
Sbjct:    64 QAARKLPCGHLFHNSCLRSWLEQDT----SCPTCRMSLNIADNNRVREEHQGE-NLDENL 118

GO:0004842 "ubiquitin-protein ligase activity" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2093422 Hrd1A "homolog of yeast Hrd1" [Arabidopsis thaliana (taxid:3702)]

 Score = 222 (83.2 bits), Expect = 1.9e-20, Sum P(2) = 1.9e-20
 Identities = 59/173 (34%), Positives = 87/173 (50%)

Query:   122 FGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLNIRALLSAIIKRIKGFIKLRIAL 181
             + F+L++   L+ L  YI  +++  M +  V   L   +         R+  +++ R   
Sbjct:   212 YTFYLELIRDLLHLSMYICFFFVIFMNYG-VPLHLLRELYETFRNFQIRVSDYLRYRKIT 270

Query:   182 GHLHAALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSC 241
              +++   PDAT EEL A D  C ICRE M  AKKL+C HLFH+ CLRSWL++      +C
Sbjct:   271 SNMNDRFPDATPEELTASDATCIICREEMTNAKKLICGHLFHVHCLRSWLER----QQTC 326

Query:   242 PTCRKPLFV----------GRREIEANSRPGEVSSDEQLARQLSMGLDRQNNT 284
             PTCR  L V          G+RE+   S+ G  SS  Q   ++S      NN+
Sbjct:   327 PTCRA-LVVPPENATSAAPGQRELHQGSQQGTSSSGNQ-GSEISSSAGVSNNS 377

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

GO:0030433 "ER-associated protein catabolic process" evidence=IMP

GO:0008295 "spermidine biosynthetic process" evidence=RCA

TAIR|locus:2014993 Hrd1B "homolog of yeast Hrd1" [Arabidopsis thaliana (taxid:3702)]

 Score = 217 (81.4 bits), Expect = 1.1e-19, Sum P(2) = 1.1e-19
 Identities = 58/190 (30%), Positives = 89/190 (46%)

Query:   113 EWKGILIRNFGFFL--DMATLLMALGHYIHIWWLRGMAFHLVDAIL--FLNIRALLSAII 168
             +W+G  +  F   L  D+  L M L  ++ I+   G+  HL+  +   F N +       
Sbjct:   205 QWEGKPVYTFYLELVRDLLHLSMYLCFFLMIFMNYGLPLHLIRELYETFRNFKI------ 258

Query:   169 KRIKGFIKLRIALGHLHAALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLR 228
              R+  +++ R    +++   PDAT EEL + D  C ICRE M  AKKL+C HLFH+ CLR
Sbjct:   259 -RVTDYLRYRKITSNMNDRFPDATPEELSSNDATCIICREEMTSAKKLVCGHLFHVHCLR 317

Query:   229 SWLDQGLNEMYSCPTCRKPLFVGRREIEANSRPGEVSSDEQLARQLSMGLDRQNNTGQTL 288
             SWL++      +CPTCR  L V      + +        E L  Q   G    +  G ++
Sbjct:   318 SWLER----QNTCPTCRA-LVVPAENATSTASGNRGPHQESL--QQGTGTSSSDGQGSSV 370

Query:   289 PTGVFPNQTQ 298
                   N ++
Sbjct:   371 SAAASENMSR 380

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

GO:0005886 "plasma membrane" evidence=IDA

GO:0030433 "ER-associated protein catabolic process" evidence=IMP

GO:0006457 "protein folding" evidence=RCA

GO:0008295 "spermidine biosynthetic process" evidence=RCA

GO:0009408 "response to heat" evidence=RCA

GO:0009644 "response to high light intensity" evidence=RCA

GO:0034976 "response to endoplasmic reticulum stress" evidence=RCA

GO:0042542 "response to hydrogen peroxide" evidence=RCA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q8VYC8	RIN2_ARATH	6, ., 3, ., 2, ., -	0.7212	0.9823	0.7681	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

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

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	452
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	1e-14
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	8e-13
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	1e-12
smart00184	40	smart00184, RING, Ring finger	1e-09
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	5e-09
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	2e-08
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	2e-08
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	1e-06
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	2e-05
smart00546	43	smart00546, CUE, Domain that may be involved in bi	1e-04
pfam02845	42	pfam02845, CUE, CUE domain	1e-04
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	2e-04
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	5e-04
COG5574	271	COG5574, PEX10, RING-finger-containing E3 ubiquiti	0.003

>gnl|CDD|227568 COG5243, HRD1, HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]

 Score = 75.4 bits (185), Expect = 1e-14
 Identities = 89/438 (20%), Positives = 140/438 (31%), Gaps = 88/438 (20%)

Query: 2   FQALARDRLERLNASPSATPWTYFRVFSALLFVLAV-DIFWIRMCLLLFKTLDSSMFLLL 60
           F  +   R ERL    +   +  F  FS   F+L++ D   I +C+     +D S  L L
Sbjct: 116 FHWILSFRTERLQIQSTDQRFHIFSRFSCAYFLLSILDASLIYLCISSEHLIDKST-LFL 174

Query: 61  FFEPLSVAFETMQAILVHGFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIR 120
           F    SV    + +                   ST                         
Sbjct: 175 FVCEFSVLLLNLTSEANKLCVYNYEARDDDDERST------------------------- 209

Query: 121 NFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAI-------LFLNIRALLSAIIKRIKG 173
            + F L++         Y  +  L      +           L   +     A+ +RI+ 
Sbjct: 210 -YLFRLEVC--------YDGLTLLAYSLLFMYQFPYVRVPIYLIRQMYTCFYALFRRIRE 260

Query: 174 FIKLRIALGHLHAALPDATSEELRAYDDECAICREPM-------------AKAKKLLCNH 220
             + R A   L+A  P AT E+L   D  C IC + M                K+L C H
Sbjct: 261 HARFRRATKDLNAMYPTATEEQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGH 320

Query: 221 LFHLACLRSWLDQGLNEMYSCPTCRKPLFVGRREIEANSRPGEVSSDEQLARQLSMGLDR 280
           + HL CL++WL++      +CP CR+P+   +    + +       + Q+A Q+      
Sbjct: 321 ILHLHCLKNWLER----QQTCPICRRPVIFDQS---SPTPASPNVRNTQIATQVPN---- 369

Query: 281 QNNTGQTLPTGVFPNQTQ--PPVEGSPWRNAGLDSSWLHAWPSQGVDGAGPSTAMRSVGL 338
            +NT  T       N +    P   +            +  P+    G     A  +  L
Sbjct: 370 PDNTPTTTAVPGITNSSNQGDPQASTF-----------NGVPNANSSG----FAAHTQDL 414

Query: 339 SRVQMMMRHLASVGETYAQTAIEDTSWSLWPMNPSQASASGSPVPPAVP--GRHPG-NTG 395
           S V      L   G      +   T+ S  P      S S    P   P  G +P  N G
Sbjct: 415 SSVIPGWTMLPIPGTRRISQSTSTTNPSATPTT-GDPSNSTYGGPQTFPNSGNNPNFNRG 473

Query: 396 GAHARSTSRSANENIANI 413
            A      R  + N  ++
Sbjct: 474 IAGIVPPWRLVSSNTQSL 491

Length = 491

>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 = 62.1 bits (151), Expect = 8e-13
 Identities = 20/48 (41%), Positives = 26/48 (54%), Gaps = 4/48 (8%)

Query: 202 ECAICREPMAKAKKLL-CNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 248
           EC IC E   +   LL C H+F  +C+  WL  G N   +CP CR P+
Sbjct: 1   ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKN---TCPLCRTPI 45

Length = 45

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

 Score = 62.0 bits (151), Expect = 1e-12
 Identities = 19/50 (38%), Positives = 23/50 (46%), Gaps = 7/50 (14%)

Query: 201 DECAICREPM---AKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKP 247
           DEC IC +      +   L C H+FH  CL  WL        +CP CR P
Sbjct: 1   DECPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSS----NTCPLCRAP 46

Length = 46

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

 Score = 52.9 bits (127), Expect = 1e-09
 Identities = 18/43 (41%), Positives = 23/43 (53%), Gaps = 4/43 (9%)

Query: 203 CAICREPMAKAKKLL-CNHLFHLACLRSWLDQGLNEMYSCPTC 244
           C IC E   K   +L C H F  +C+R WL+ G N   +CP C
Sbjct: 1   CPICLEEYLKDPVILPCGHTFCRSCIRKWLESGNN---TCPIC 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|221705 pfam12678, zf-rbx1, RING-H2 zinc finger

 Score = 52.0 bits (125), Expect = 5e-09
 Identities = 19/61 (31%), Positives = 21/61 (34%), Gaps = 17/61 (27%)

Query: 198 AYDDECAICREPMAKA-------------KKLLCNHLFHLACLRSWLDQGLNEMYSCPTC 244
             DD CAICR                       C H FHL C+  WL        +CP C
Sbjct: 17  IEDDVCAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRN----TCPLC 72

Query: 245 R 245
           R
Sbjct: 73  R 73

There are 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding. The protein, of which this domain is the conserved region, participates in diverse functions relevant to chromosome metabolism and cell cycle control. Length = 73

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

 Score = 49.8 bits (119), Expect = 2e-08
 Identities = 14/48 (29%), Positives = 21/48 (43%), Gaps = 5/48 (10%)

Query: 200 DDECAICREPMAKAKKLL-CNHLFHLACLRSWLDQGLNEMYSCPTCRK 246
           + EC IC + +     L  C H+F   C+  +L +       CP CR 
Sbjct: 2   ELECPICLDLLRDPVVLTPCGHVFCRECILRYLKKK----SKCPICRT 45

Length = 45

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

 Score = 49.4 bits (118), Expect = 2e-08
 Identities = 16/43 (37%), Positives = 21/43 (48%), Gaps = 4/43 (9%)

Query: 203 CAICREPMAKAKKLL-CNHLFHLACLRSWLDQGLNEMYSCPTC 244
           C IC E       +L C HLF   C+ SWL+   +   +CP C
Sbjct: 1   CPICLEEPKDPVTILPCGHLFCSKCILSWLE---SGNVTCPLC 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|227827 COG5540, COG5540, RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

 Score = 50.0 bits (119), Expect = 1e-06
 Identities = 19/50 (38%), Positives = 24/50 (48%), Gaps = 6/50 (12%)

Query: 202 ECAICREPMAKAKKLL---CNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 248
           ECAIC     K  +L    C+H FH+ C+  WL   L     CP CR  +
Sbjct: 325 ECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWL---LGYSNKCPVCRTAI 371

Length = 374

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

 Score = 45.2 bits (107), Expect = 2e-05
 Identities = 22/62 (35%), Positives = 30/62 (48%), Gaps = 12/62 (19%)

Query: 196 LRAYDDECAICREPM-AKAKK-----LL--CNHLFHLACLRSWLDQGLNEMYSCPTCRKP 247
            R+ D ECAIC E +  K  K     +L  CNH+F + C+  W  +      +CP CR P
Sbjct: 170 NRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEK----NTCPVCRTP 225

Query: 248 LF 249
             
Sbjct: 226 FI 227

Length = 238

>gnl|CDD|214715 smart00546, CUE, Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs)

 Score = 39.0 bits (92), Expect = 1e-04
 Identities = 11/38 (28%), Positives = 21/38 (55%), Gaps = 1/38 (2%)

Query: 416 MAETVREVLPHMPEDLIFQDL-QRTNSATITVNNLLQM 452
               ++E+ P++ E++I   L   T +   T+NNLL+ 
Sbjct: 5   ALHDLKEMFPNLDEEVIEAVLEANTGNVEATINNLLEG 42

CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press). Length = 43

>gnl|CDD|202430 pfam02845, CUE, CUE domain

 Score = 38.6 bits (91), Expect = 1e-04
 Identities = 12/39 (30%), Positives = 22/39 (56%), Gaps = 1/39 (2%)

Query: 415 AMAETVREVLPHMPEDLIFQDLQRTNSAT-ITVNNLLQM 452
            M ET++E+ P + E++I   LQ +N      ++ LL+ 
Sbjct: 3   EMLETLKEMFPDLDEEVIRAVLQASNGNVEAAIDALLEG 41

CUE domains have been shown to bind ubiquitin. It has been suggested that CUE domains are related to pfam00627 and this has been confirmed by the structure of the domain. CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Length = 42

>gnl|CDD|227521 COG5194, APC11, Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]

 Score = 39.4 bits (92), Expect = 2e-04
 Identities = 19/69 (27%), Positives = 27/69 (39%), Gaps = 22/69 (31%)

Query: 201 DECAICREPM------AKAKKL----------LCNHLFHLACLRSWLD-QGLNEMYSCPT 243
           D CAICR  +       +              +CNH FH  C+  WLD +G+     CP 
Sbjct: 21  DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGV-----CPL 75

Query: 244 CRKPLFVGR 252
            R+   +  
Sbjct: 76  DRQTWVLAD 84

Length = 88

>gnl|CDD|193335 pfam12861, zf-Apc11, Anaphase-promoting complex subunit 11 RING-H2 finger

 Score = 38.6 bits (90), Expect = 5e-04
 Identities = 17/55 (30%), Positives = 25/55 (45%), Gaps = 11/55 (20%)

Query: 198 AYDDECAICREPMAKAKKLL--CNHLFHLACLRSWLD----QGLNEMYSCPTCRK 246
           ++D  C  C+ P      +   C H FH+ C+  WL     +GL     CP CR+
Sbjct: 30  SFDGTCPQCKFPGDDCPLVWGKCKHNFHMHCILKWLATETSKGL-----CPMCRQ 79

Apc11 is one of the subunits of the anaphase-promoting complex or cyclosome. The APC subunits are cullin family proteins with ubiquitin ligase activity. Polyubiquitination marks proteins for degradation by the 26S proteasome and is carried out by a cascade of enzymes that includes ubiquitin-activating enzymes (E1s), ubiquitin-conjugating enzymes (E2s), and ubiquitin ligases (E3s). Apc11 acts as an E3 enzyme and is responsible for recruiting E2s to the APC and for mediating the subsequent transfer of ubiquitin to APC substrates in vivo. In Saccharomyces cerevisiae this RING-H2 finger protein defines the minimal ubiquitin ligase activity of the APC, and the integrity of the RING-H2 finger is essential for budding yeast cell viability. Length = 85

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

 Score = 38.7 bits (90), Expect = 0.003
 Identities = 15/46 (32%), Positives = 19/46 (41%), Gaps = 2/46 (4%)

Query: 200 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCR 245
           D +C +C E         C HLF L+CL         +   CP CR
Sbjct: 215 DYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWT--KKKYEFCPLCR 258

Length = 271

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	452
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.95
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	99.92
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	99.87
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.37
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.21
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.06
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	99.01
PHA02929	238	N1R/p28-like protein; Provisional	99.01
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	98.96
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	98.95
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.88
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	98.85
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.78
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.77
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.71
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.71
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.71
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.65
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.62
PHA02926	242	zinc finger-like protein; Provisional	98.61
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.57
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.52
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.49
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.45
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.43
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.41
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.39
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.38
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.29
PF14634	44	zf-RING_5: zinc-RING finger domain	98.29
smart00546	43	CUE Domain that may be involved in binding ubiquit	98.2
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.18
PF02845	42	CUE: CUE domain; InterPro: IPR003892 This domain m	98.16
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	98.08
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.06
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.03
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.95
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	97.9
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.81
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.73
COG5219	1525	Uncharacterized conserved protein, contains RING Z	97.72
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	97.7
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	97.69
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.67
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	97.6
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	97.58
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.57
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.57
PF13705	508	TRC8_N: TRC8 N-terminal domain	97.48
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	97.39
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.31
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.13
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.01
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	96.98
KOG4445	368	consensus Uncharacterized conserved protein, conta	96.92
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	96.88
KOG1002	791	consensus Nucleotide excision repair protein RAD16	96.84
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	96.82
COG5152	259	Uncharacterized conserved protein, contains RING a	96.68
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.56
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	96.52
KOG0297	391	consensus TNF receptor-associated factor [Signal t	96.3
KOG2660	331	consensus Locus-specific chromosome binding protei	96.24
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.2
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	96.19
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	96.03
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	95.75
COG5222	427	Uncharacterized conserved protein, contains RING Z	95.61
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	95.51
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	95.29
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	94.97
PHA02825	162	LAP/PHD finger-like protein; Provisional	94.75
PHA02862	156	5L protein; Provisional	94.69
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	94.68
PF11547	53	E3_UbLigase_EDD: E3 ubiquitin ligase EDD; InterPro	94.54
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	94.53
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	94.35
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	94.16
PHA03096	284	p28-like protein; Provisional	94.04
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	94.0
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	93.47
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	93.29
COG5236	493	Uncharacterized conserved protein, contains RING Z	93.16
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	93.16
COG5175	480	MOT2 Transcriptional repressor [Transcription]	93.14
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	93.13
KOG3039	303	consensus Uncharacterized conserved protein [Funct	92.73
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	92.36
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	92.32
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	91.94
KOG1001	674	consensus Helicase-like transcription factor HLTF/	91.86
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	91.67
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	90.96
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	90.66
KOG1940	276	consensus Zn-finger protein [General function pred	90.41
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	89.85
KOG4739	233	consensus Uncharacterized protein involved in syna	88.78
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	88.44
KOG3899	381	consensus Uncharacterized conserved protein [Funct	87.61
KOG0298	1394	consensus DEAD box-containing helicase-like transc	87.42
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	85.91
KOG3002	299	consensus Zn finger protein [General function pred	85.71
PF04641	260	Rtf2: Rtf2 RING-finger	85.29
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	85.16
KOG3053	293	consensus Uncharacterized conserved protein [Funct	84.07
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	83.89
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	83.47
KOG4367	699	consensus Predicted Zn-finger protein [Function un	83.16
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	82.32
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	81.34

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

Probab=99.95  E-value=7.7e-27  Score=227.86  Aligned_cols=218  Identities=24%  Similarity=0.449  Sum_probs=154.9

Q ss_pred             ChhhhHhHHHhhhcCCCCCCCch--HHHHHHHHHHHHHHHHHHHHHHHHHHhhcCccchhhhhhccchhhHHHHHHHHHh
Q 012963            1 MFQALARDRLERLNASPSATPWT--YFRVFSALLFVLAVDIFWIRMCLLLFKTLDSSMFLLLFFEPLSVAFETMQAILVH   78 (452)
Q Consensus         1 ~Fh~L~~dR~e~l~~sp~~~~~~--h~R~~~lL~~ll~~d~~~i~~~~~~~~~~g~s~~ll~~fe~~~l~~~~l~~ll~y   78 (452)
                      +|||++++|.|.+. --++...+  ..|+.+++.++.++|..+|..|+......+.+...++.+|+..+ ...++..   
T Consensus       115 vfhwil~~R~er~~-~~st~~~~~ifSrfS~~~~lL~ild~~li~~CiSs~~liD~~~lfL~~c~F~~~-ll~l~s~---  189 (491)
T COG5243         115 VFHWILSFRTERLQ-IQSTDQRFHIFSRFSCAYFLLSILDASLIYLCISSEHLIDKSTLFLFVCEFSVL-LLNLTSE---  189 (491)
T ss_pred             HHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHhhhHhhhhhhHHHHHHHHHHHH-HHHHHHh---
Confidence            59999999999773 23344444  47999999999999999999999754444444333444443221 1111111   


Q ss_pred             hhhhhhHhhhccCCCCCCCCcccccccccccchhhhhhhhhhhhhhhhhHHHHHHHHhHHHHHHHHhhhhHHHHHHHHHH
Q 012963           79 GFQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIRNFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFL  158 (452)
Q Consensus        79 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~g~~we~kg~~i~y~~f~~~l~~l~~~l~~~l~~~~~~g~~l~lv~~vl~~  158 (452)
                                    .+..+.-.  ++..+.+   +.|..+.++.++..|=++++.+...++..+..+-+|+.+++.++. 
T Consensus       190 --------------~n~~cV~n--~~~~ddD---d~rs~~~f~~~v~y~g~tllays~l~~~~~~~~r~Pi~l~r~~~t-  249 (491)
T COG5243         190 --------------ANKLCVYN--YEARDDD---DERSTYLFRLEVCYDGLTLLAYSLLFMYQFPYVRVPIYLIRQMYT-  249 (491)
T ss_pred             --------------hcccceee--ccccccc---ccceeeeeeeehHHHHHHHHHHHHHHHhhccchhchHHHHHHHHH-
Confidence                          01111000  0001111   345666677777777777777776666666666788887766433 


Q ss_pred             hHHHHHHHHHHhhhhhhHHHHHhhhhhhhCCCCChHHhhccccccccccchh-h------------hhhhcccchhhHHH
Q 012963          159 NIRALLSAIIKRIKGFIKLRIALGHLHAALPDATSEELRAYDDECAICREPM-A------------KAKKLLCNHLFHLA  225 (452)
Q Consensus       159 ~ir~l~~~~~~~~~~~~~~r~~~~~~~~~l~~~~~~~l~~~~~~C~ICl~~~-~------------~~~~l~C~H~Fh~~  225 (452)
                          .+.++.++++.+.+++++.|++++.+|.++.|++.+.|..|.||+|++ .            .|++|||||.||.+
T Consensus       250 ----~~~AL~~~i~~~~~~~r~~kdl~~~~~t~t~eql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~  325 (491)
T COG5243         250 ----CFYALFRRIREHARFRRATKDLNAMYPTATEEQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLH  325 (491)
T ss_pred             ----HHHHHHHHHHHHHHHHHHhhHHHhhcchhhhhhhcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHH
Confidence                344677889999999999999999999999999999999999999995 3            25899999999999


Q ss_pred             HHHHHHhhcccccccCCCCCCccccc
Q 012963          226 CLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       226 Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      |++.|+++    +++||+||.++..+
T Consensus       326 CLknW~ER----qQTCPICr~p~ifd  347 (491)
T COG5243         326 CLKNWLER----QQTCPICRRPVIFD  347 (491)
T ss_pred             HHHHHHHh----ccCCCcccCccccc
Confidence            99999999    79999999996543

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

Probab=99.92  E-value=6.1e-25  Score=235.71  Aligned_cols=221  Identities=33%  Similarity=0.454  Sum_probs=179.5

Q ss_pred             ChhhhHhHHHhhhcCCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHh-hcCccchhhhhhccchhhHHHHHHHHHhh
Q 012963            1 MFQALARDRLERLNASPSATPWTYFRVFSALLFVLAVDIFWIRMCLLLFK-TLDSSMFLLLFFEPLSVAFETMQAILVHG   79 (452)
Q Consensus         1 ~Fh~L~~dR~e~l~~sp~~~~~~h~R~~~lL~~ll~~d~~~i~~~~~~~~-~~g~s~~ll~~fe~~~l~~~~l~~ll~y~   79 (452)
                      +||||++||+++|+++|..+.+.|.|+...+..+...|..++..++...+ ..+.++.+.+.++++++.+.+....+.|.
T Consensus       113 ~~~~l~~~~~~~l~~~~~~~~~~~~~v~~~~~~l~~~~~~~~~~s~~~~~~t~~~~~l~~~~~~~~~~~~~~~~~~~~y~  192 (543)
T KOG0802|consen  113 VFHLLASDRLPRLFFSPLITTLNHFRVVSVLFALLIVDGHLVYNSLKTAYRTYGLSMLIELTFPSLLVVFWTALVILQYV  192 (543)
T ss_pred             HHHHHHHhHHHHHHhCcchhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhheeccchHHHHHHHHHHHHHHHHH
Confidence            59999999999999999999999999999999999999999988876655 77888888888998887777776666655


Q ss_pred             hhhhhHhhhccCCCCCCCCcccccccccccchhhhhhhhhhhhhhhhhHHHHHHHHhHHHHHHHHhhhhHHHHHHHHHHh
Q 012963           80 FQLLDIWLHHSAGNSTNCARSKFFDTLAAGSLLEWKGILIRNFGFFLDMATLLMALGHYIHIWWLRGMAFHLVDAILFLN  159 (452)
Q Consensus        80 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~g~~we~kg~~i~y~~f~~~l~~l~~~l~~~l~~~~~~g~~l~lv~~vl~~~  159 (452)
                      +....           +.          .-..|+++..+..+.+...+...+...+.++.+.+.++++++++...+....
T Consensus       193 l~~~~-----------~~----------~~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~  251 (543)
T KOG0802|consen  193 LHSTA-----------DH----------IHIRSEDLSLLTFTLIIFGCMTLLVLLIMSAVISLVVHGILLGLVADLYNTP  251 (543)
T ss_pred             Hhcch-----------hh----------cCcccCccceeechhHHHhhhhHHHHHhhhHHHHHHHhHhhhhhhHHHhhhh
Confidence            43221           00          0123577888888888888888888888888888888888888887644433


Q ss_pred             HHHHHHHHHHhhhhhhHHHHHhhh-hhhhCCCCChHH--hhccccccccccchhhh-----hhhcccchhhHHHHHHHHH
Q 012963          160 IRALLSAIIKRIKGFIKLRIALGH-LHAALPDATSEE--LRAYDDECAICREPMAK-----AKKLLCNHLFHLACLRSWL  231 (452)
Q Consensus       160 ir~l~~~~~~~~~~~~~~r~~~~~-~~~~l~~~~~~~--l~~~~~~C~ICl~~~~~-----~~~l~C~H~Fh~~Cl~~Wl  231 (452)
                          +....++.....+.++.... +...++.++.++  +.+.++.|+||+|.+..     +++++|+|+||..|+++|+
T Consensus       252 ----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~  327 (543)
T KOG0802|consen  252 ----FLEVERRLRELAPLRRVILATLQTGLPGATLEERGLALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWF  327 (543)
T ss_pred             ----hhhHHHHccchHHHHHHhhccccccccccChHHhhhhhcCCeeeeechhhccccccccceeecccchHHHHHHHHH
Confidence                34566677777788887777 888889999887  77889999999999988     7899999999999999999


Q ss_pred             hhcccccccCCCCCCcccc
Q 012963          232 DQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       232 ~~~~~~~~~CP~CR~~~~~  250 (452)
                      ++    .++||+||..+..
T Consensus       328 er----~qtCP~CR~~~~~  342 (543)
T KOG0802|consen  328 ER----QQTCPTCRTVLYD  342 (543)
T ss_pred             HH----hCcCCcchhhhhc
Confidence            99    6999999995544

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=99.87  E-value=4e-24  Score=213.99  Aligned_cols=113  Identities=27%  Similarity=0.553  Sum_probs=100.9

Q ss_pred             cccccccchhhhhh----hcccchhhHHHHHHHHHhhcccccccCCCCCCcccccccCcccCCCCcccCchHHH-----H
Q 012963          201 DECAICREPMAKAK----KLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGRREIEANSRPGEVSSDEQL-----A  271 (452)
Q Consensus       201 ~~C~ICl~~~~~~~----~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~~~~~~~~~~~~~~~~~~~~-----~  271 (452)
                      ++||||+|.|++.+    .+.|+|.||..|+.+|-..      +||+||....   +.......|..|+..+++     |
T Consensus       176 PTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~------scpvcR~~q~---p~~ve~~~c~~c~~~~~LwicliC  246 (493)
T KOG0804|consen  176 PTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDS------SCPVCRYCQS---PSVVESSLCLACGCTEDLWICLIC  246 (493)
T ss_pred             CCcchhHhhcCccccceeeeecccccchHHHhhcccC------cChhhhhhcC---cchhhhhhhhhhcccccEEEEEEc
Confidence            69999999998753    5689999999999999984      9999999665   344456678888877774     9


Q ss_pred             HHHhcccCCCCCCC-Ccc-cCCCCCCCCCCCCCCCCcccCCCCCcccccCCCCCCCCC
Q 012963          272 RQLSMGLDRQNNTG-QTL-PTGVFPNQTQPPVEGSPWRNAGLDSSWLHAWPSQGVDGA  327 (452)
Q Consensus       272 ~~~~~g~~~~~~~~-~~~-~~~~~p~~~~~~~~~~~wd~aG~~~s~~~~~~~~~~dg~  327 (452)
                      +.++||||.++||. ||. +.|+|+++++   ++|||||||  |+||||+++++.|||
T Consensus       247 g~vgcgrY~eghA~rHweet~H~yalel~---tqrVWDYAG--DnYVhRl~~~~~dGk  299 (493)
T KOG0804|consen  247 GNVGCGRYKEGHARRHWEETGHCYALELE---TQRVWDYAG--DNYVHRLPQSKTDGK  299 (493)
T ss_pred             cceecccccchhHHHHHHhhcceEEEeec---ceeeeeccc--chhhhhccccCCCCc
Confidence            99999999999998 999 9999999999   999999999  999999999999997

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

Probab=99.37  E-value=3.5e-13  Score=134.56  Aligned_cols=75  Identities=31%  Similarity=0.617  Sum_probs=57.6

Q ss_pred             hHHHHHhhhhhhhCCCCChHHhhcc--ccccccccchhhhh---hhcccchhhHHHHHHHHHhhcccccccCCCCCCccc
Q 012963          175 IKLRIALGHLHAALPDATSEELRAY--DDECAICREPMAKA---KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF  249 (452)
Q Consensus       175 ~~~r~~~~~~~~~l~~~~~~~l~~~--~~~C~ICl~~~~~~---~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~  249 (452)
                      .+.++..++..+++|..+..+..+.  .++|+||+|+|.++   +.|||+|.||..||++|+.+.   ...||+||+++.
T Consensus       202 ~~~~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~---r~~CPvCK~di~  278 (348)
T KOG4628|consen  202 LRRNRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQT---RTFCPVCKRDIR  278 (348)
T ss_pred             hhhhhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEecCCCchhhccchhhHhhc---CccCCCCCCcCC
Confidence            4555666777777877776554322  14899999999876   457999999999999999884   467999999876


Q ss_pred             ccc
Q 012963          250 VGR  252 (452)
Q Consensus       250 ~~~  252 (452)
                      ...
T Consensus       279 ~~~  281 (348)
T KOG4628|consen  279 TDS  281 (348)
T ss_pred             CCC
Confidence            543

>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=99.21  E-value=2.6e-12  Score=91.48  Aligned_cols=41  Identities=49%  Similarity=1.176  Sum_probs=35.1

Q ss_pred             cccccccchhhh---hhhcccchhhHHHHHHHHHhhcccccccCCCCC
Q 012963          201 DECAICREPMAK---AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCR  245 (452)
Q Consensus       201 ~~C~ICl~~~~~---~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR  245 (452)
                      ++|+||++++..   ...++|+|.||.+||.+|+++    +.+||+||
T Consensus         1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~----~~~CP~CR   44 (44)
T PF13639_consen    1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKR----NNSCPVCR   44 (44)
T ss_dssp             -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHH----SSB-TTTH
T ss_pred             CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHh----CCcCCccC
Confidence            479999999974   356799999999999999998    57999997

...

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

Probab=99.06  E-value=8.3e-11  Score=113.35  Aligned_cols=51  Identities=24%  Similarity=0.710  Sum_probs=45.6

Q ss_pred             ccccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCcccccc
Q 012963          198 AYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR  252 (452)
Q Consensus       198 ~~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~~  252 (452)
                      +....|.+|+|....+..+||||+||+.||.+|+..    ...||+||..+.+.+
T Consensus       237 ~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~e----k~eCPlCR~~~~psk  287 (293)
T KOG0317|consen  237 EATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSE----KAECPLCREKFQPSK  287 (293)
T ss_pred             CCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHcc----ccCCCcccccCCCcc
Confidence            445789999999999999999999999999999998    578999999887654

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

Probab=99.01  E-value=7.9e-11  Score=110.45  Aligned_cols=53  Identities=30%  Similarity=0.663  Sum_probs=46.8

Q ss_pred             cccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCcccccc
Q 012963          199 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR  252 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~~  252 (452)
                      ...+|.||+|.-++++.+.|||.||+.||.+|++.... .+.||+||..+..++
T Consensus        46 ~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~-~~~cPVCK~~Vs~~~   98 (230)
T KOG0823|consen   46 GFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPN-SKECPVCKAEVSIDT   98 (230)
T ss_pred             CceeeeeeccccCCCEEeecccceehHHHHHHHhhcCC-CeeCCccccccccce
Confidence            45689999999999999999999999999999987544 588999999987654

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.01  E-value=1.9e-10  Score=110.32  Aligned_cols=66  Identities=33%  Similarity=0.753  Sum_probs=48.0

Q ss_pred             hhhhhhhCCCCChH--Hhh--ccccccccccchhhhh--------hhcccchhhHHHHHHHHHhhcccccccCCCCCCcc
Q 012963          181 LGHLHAALPDATSE--ELR--AYDDECAICREPMAKA--------KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL  248 (452)
Q Consensus       181 ~~~~~~~l~~~~~~--~l~--~~~~~C~ICl~~~~~~--------~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~  248 (452)
                      .+.+...+|....+  ++.  ..+.+|+||++.+.++        +.++|+|.||..||.+|+.+    +.+||+||.++
T Consensus       151 ~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~----~~tCPlCR~~~  226 (238)
T PHA02929        151 YKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKE----KNTCPVCRTPF  226 (238)
T ss_pred             hHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhc----CCCCCCCCCEe
Confidence            34444556655432  111  2467999999997653        34589999999999999987    68999999987


Q ss_pred             cc
Q 012963          249 FV  250 (452)
Q Consensus       249 ~~  250 (452)
                      ..
T Consensus       227 ~~  228 (238)
T PHA02929        227 IS  228 (238)
T ss_pred             eE
Confidence            53

>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=98.96  E-value=1.5e-10  Score=91.58  Aligned_cols=43  Identities=49%  Similarity=1.143  Sum_probs=34.8

Q ss_pred             cccccccccchhhhh-------------hhcccchhhHHHHHHHHHhhcccccccCCCCC
Q 012963          199 YDDECAICREPMAKA-------------KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCR  245 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~-------------~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR  245 (452)
                      .++.|+||++.+.++             ...+|||.||..||.+|++.    +.+||+||
T Consensus        18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~----~~~CP~CR   73 (73)
T PF12678_consen   18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQ----NNTCPLCR   73 (73)
T ss_dssp             CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTT----SSB-TTSS
T ss_pred             cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhc----CCcCCCCC
Confidence            355799999999431             23489999999999999998    57999998

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 ....

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=98.95  E-value=2.7e-10  Score=105.10  Aligned_cols=54  Identities=28%  Similarity=0.655  Sum_probs=44.6

Q ss_pred             cccccccccchhhhhhhcccchhhHHHHHHHHHhhc------------ccccccCCCCCCcccccc
Q 012963          199 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQG------------LNEMYSCPTCRKPLFVGR  252 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~------------~~~~~~CP~CR~~~~~~~  252 (452)
                      .+.+|+||++.+.+++.++|||.||+.||.+|+...            ......||+||..+...+
T Consensus        17 ~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~   82 (193)
T PLN03208         17 GDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEAT   82 (193)
T ss_pred             CccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhc
Confidence            456899999999999999999999999999998632            112468999999997644

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

Probab=98.88  E-value=3.4e-10  Score=79.69  Aligned_cols=42  Identities=31%  Similarity=0.759  Sum_probs=32.8

Q ss_pred             cccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCC
Q 012963          203 CAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTC  244 (452)
Q Consensus       203 C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~C  244 (452)
                      |+||++.|.+|+.|+|||+||..||.+|.++.......||.|
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            899999999999999999999999999987754333689988

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

Probab=98.85  E-value=8.5e-10  Score=106.58  Aligned_cols=49  Identities=37%  Similarity=0.798  Sum_probs=41.5

Q ss_pred             cccccccccchhhhh---hhcccchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          199 YDDECAICREPMAKA---KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~---~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      .+-+|+||++.|.+.   +.|||+|.||..|+.+|+...   +..||+||.++++
T Consensus       322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y---~~~CPvCrt~iPP  373 (374)
T COG5540         322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGY---SNKCPVCRTAIPP  373 (374)
T ss_pred             CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhh---cccCCccCCCCCC
Confidence            356899999999654   467999999999999999843   5899999998864

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

Probab=98.78  E-value=3e-09  Score=85.38  Aligned_cols=51  Identities=37%  Similarity=0.828  Sum_probs=40.1

Q ss_pred             cccccccccchhhhh-------------hhcccchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          199 YDDECAICREPMAKA-------------KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~-------------~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      .++.|.||+..|+..             +.-.|+|.||..||.+|++++.. +..||+||++...
T Consensus        20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~-~~~CPmCR~~w~~   83 (85)
T PF12861_consen   20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSS-KGQCPMCRQPWKF   83 (85)
T ss_pred             CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccC-CCCCCCcCCeeee
Confidence            367899999998731             12279999999999999987533 5799999998754

>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=98.77  E-value=1.5e-09  Score=79.30  Aligned_cols=46  Identities=39%  Similarity=0.820  Sum_probs=40.2

Q ss_pred             ccccccccchhhhhhhcccchh-hHHHHHHHHHhhcccccccCCCCCCccc
Q 012963          200 DDECAICREPMAKAKKLLCNHL-FHLACLRSWLDQGLNEMYSCPTCRKPLF  249 (452)
Q Consensus       200 ~~~C~ICl~~~~~~~~l~C~H~-Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~  249 (452)
                      +..|.||++...+...+||||. ||..|..+|++.    ...||+||+++.
T Consensus         2 ~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~~----~~~CP~Cr~~i~   48 (50)
T PF13920_consen    2 DEECPICFENPRDVVLLPCGHLCFCEECAERLLKR----KKKCPICRQPIE   48 (50)
T ss_dssp             HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHHT----TSBBTTTTBB-S
T ss_pred             cCCCccCCccCCceEEeCCCChHHHHHHhHHhccc----CCCCCcCChhhc
Confidence            4589999999988888999999 999999999986    689999999874

...

>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=98.71  E-value=2.7e-09  Score=73.82  Aligned_cols=38  Identities=29%  Similarity=0.835  Sum_probs=33.3

Q ss_pred             cccccchhhhh-hhcccchhhHHHHHHHHHhhcccccccCCCC
Q 012963          203 CAICREPMAKA-KKLLCNHLFHLACLRSWLDQGLNEMYSCPTC  244 (452)
Q Consensus       203 C~ICl~~~~~~-~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~C  244 (452)
                      |+||++.+.++ +.++|||.||.+|+.+|+++    +..||+|
T Consensus         1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~----~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEK----NPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHC----TSB-TTT
T ss_pred             CCCCCCcccCcCEECCCCCchhHHHHHHHHHC----cCCCcCC
Confidence            89999999998 57899999999999999998    5899998

>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=98.71  E-value=6.9e-09  Score=72.78  Aligned_cols=44  Identities=41%  Similarity=1.057  Sum_probs=36.8

Q ss_pred             ccccccchhhhhhhc-ccchhhHHHHHHHHHhhcccccccCCCCCCcc
Q 012963          202 ECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL  248 (452)
Q Consensus       202 ~C~ICl~~~~~~~~l-~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~  248 (452)
                      +|+||++.+..+..+ +|+|.||..|+..|+.++   ...||.||..+
T Consensus         1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~---~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSG---KNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhhCceEecCCCChhcHHHHHHHHHhC---cCCCCCCCCcC
Confidence            599999999666555 599999999999999873   47899999753

>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.71  E-value=5.4e-08  Score=99.56  Aligned_cols=50  Identities=36%  Similarity=0.850  Sum_probs=39.7

Q ss_pred             ccccccccccchhhh------h-----------hhcccchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          198 AYDDECAICREPMAK------A-----------KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       198 ~~~~~C~ICl~~~~~------~-----------~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      +...+|+||+.+.+-      +           ..+||.|+||..|+.+|.+..   +..||+||++++.
T Consensus       569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~y---kl~CPvCR~pLPp  635 (636)
T KOG0828|consen  569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTY---KLICPVCRCPLPP  635 (636)
T ss_pred             hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhh---cccCCccCCCCCC
Confidence            345689999998751      1           235999999999999999953   4699999998864

>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.65  E-value=4.1e-07  Score=86.92  Aligned_cols=52  Identities=35%  Similarity=0.795  Sum_probs=42.0

Q ss_pred             ccccccccccchhhh----------hhhcccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          198 AYDDECAICREPMAK----------AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       198 ~~~~~C~ICl~~~~~----------~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      .+|..|+||-..+..          ..+|.|+|+||..||+.|...++  .++||.|+..+..+
T Consensus       222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGK--kqtCPYCKekVdl~  283 (328)
T KOG1734|consen  222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGK--KQTCPYCKEKVDLK  283 (328)
T ss_pred             CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecC--CCCCchHHHHhhHh
Confidence            356789999988753          23689999999999999986543  58999999988654

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

Probab=98.62  E-value=1.7e-08  Score=91.05  Aligned_cols=47  Identities=30%  Similarity=0.733  Sum_probs=40.8

Q ss_pred             cccccccchhhhh--hhcccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          201 DECAICREPMAKA--KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       201 ~~C~ICl~~~~~~--~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      ..|+|||+.+.+.  +.+.|||+||..||+.-++.    ...||+||+.+..+
T Consensus       132 ~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~----~~~CP~C~kkIt~k  180 (187)
T KOG0320|consen  132 YKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKN----TNKCPTCRKKITHK  180 (187)
T ss_pred             cCCCceecchhhccccccccchhHHHHHHHHHHHh----CCCCCCcccccchh
Confidence            5799999999764  45799999999999999988    68999999977653

>PHA02926 zinc finger-like protein; Provisional

Probab=98.61  E-value=2.2e-08  Score=93.53  Aligned_cols=53  Identities=28%  Similarity=0.628  Sum_probs=40.2

Q ss_pred             cccccccccchhhh---------hhhcccchhhHHHHHHHHHhhcc--cccccCCCCCCccccc
Q 012963          199 YDDECAICREPMAK---------AKKLLCNHLFHLACLRSWLDQGL--NEMYSCPTCRKPLFVG  251 (452)
Q Consensus       199 ~~~~C~ICl~~~~~---------~~~l~C~H~Fh~~Cl~~Wl~~~~--~~~~~CP~CR~~~~~~  251 (452)
                      .+.+|+||+|..-+         +...+|+|.||..||++|.+.+.  ....+||+||..+..-
T Consensus       169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I  232 (242)
T PHA02926        169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNI  232 (242)
T ss_pred             CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeee
Confidence            46799999998632         23458999999999999998531  1235799999987643

>smart00504 Ubox Modified RING finger domain

Probab=98.57  E-value=2.1e-08  Score=76.52  Aligned_cols=45  Identities=22%  Similarity=0.332  Sum_probs=41.5

Q ss_pred             ccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          202 ECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       202 ~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      .|+||.+.+.+++.++|||+|+..||.+|+++    +.+||.|+.++..
T Consensus         3 ~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~----~~~cP~~~~~~~~   47 (63)
T smart00504        3 LCPISLEVMKDPVILPSGQTYERRAIEKWLLS----HGTDPVTGQPLTH   47 (63)
T ss_pred             CCcCCCCcCCCCEECCCCCEEeHHHHHHHHHH----CCCCCCCcCCCCh
Confidence            69999999999999999999999999999987    5799999998754

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

>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=98.52  E-value=2.2e-08  Score=69.90  Aligned_cols=40  Identities=43%  Similarity=1.032  Sum_probs=35.6

Q ss_pred             cccccchhhhhh-hcccchhhHHHHHHHHHhhcccccccCCCC
Q 012963          203 CAICREPMAKAK-KLLCNHLFHLACLRSWLDQGLNEMYSCPTC  244 (452)
Q Consensus       203 C~ICl~~~~~~~-~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~C  244 (452)
                      |+||++.+.++. .++|||.||..|+.+|++..  ....||.|
T Consensus         1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~--~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENS--GSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHT--SSSBTTTT
T ss_pred             CCcCCccccCCCEEecCCCcchHHHHHHHHHhc--CCccCCcC
Confidence            899999999988 88999999999999999842  26789998

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 ....

>smart00184 RING Ring finger

Probab=98.49  E-value=5.8e-08  Score=65.62  Aligned_cols=39  Identities=41%  Similarity=1.054  Sum_probs=34.4

Q ss_pred             cccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCC
Q 012963          203 CAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTC  244 (452)
Q Consensus       203 C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~C  244 (452)
                      |+||++.......++|+|.||..|+..|++..   ...||+|
T Consensus         1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~---~~~CP~C   39 (39)
T smart00184        1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSG---NNTCPIC   39 (39)
T ss_pred             CCcCccCCCCcEEecCCChHHHHHHHHHHHhC---cCCCCCC
Confidence            88999997778889999999999999999832   5789988

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)

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

Probab=98.45  E-value=6.4e-08  Score=92.51  Aligned_cols=50  Identities=32%  Similarity=0.697  Sum_probs=43.6

Q ss_pred             cccccccccchhhhhhhcccchhhHHHHHHH-HHhhcccccccCCCCCCccccc
Q 012963          199 YDDECAICREPMAKAKKLLCNHLFHLACLRS-WLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~-Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      .+..|+||++....+..++|||+||+.||.. |-.++   ...||+||+.+..+
T Consensus       214 ~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k---~~~CplCRak~~pk  264 (271)
T COG5574         214 ADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKK---YEFCPLCRAKVYPK  264 (271)
T ss_pred             cccceeeeecccCCcccccccchhhHHHHHHHHHhhc---cccCchhhhhccch
Confidence            4678999999999999999999999999998 98774   34599999987654

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.43  E-value=1e-07  Score=97.94  Aligned_cols=48  Identities=27%  Similarity=0.546  Sum_probs=43.1

Q ss_pred             cccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          199 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      ....|+||++.+..++.++|+|.||..||..|+..    ...||+||..+..
T Consensus        25 ~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~----~~~CP~Cr~~~~~   72 (397)
T TIGR00599        25 TSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSN----QPKCPLCRAEDQE   72 (397)
T ss_pred             cccCCCcCchhhhCccCCCCCCchhHHHHHHHHhC----CCCCCCCCCcccc
Confidence            45689999999999999999999999999999987    4689999998764

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

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

Probab=98.41  E-value=6.2e-08  Score=68.40  Aligned_cols=39  Identities=31%  Similarity=0.810  Sum_probs=23.5

Q ss_pred             cccccchhhh----hhhcccchhhHHHHHHHHHhhcccccccCC
Q 012963          203 CAICREPMAK----AKKLLCNHLFHLACLRSWLDQGLNEMYSCP  242 (452)
Q Consensus       203 C~ICl~~~~~----~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP  242 (452)
                      |+||+| |.+    |+.|+|||+|+.+||.++..++......||
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 877    789999999999999999986422246776

>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]

Probab=98.39  E-value=1.4e-07  Score=73.81  Aligned_cols=33  Identities=36%  Similarity=0.810  Sum_probs=29.2

Q ss_pred             ccchhhHHHHHHHHHhhcccccccCCCCCCccccccc
Q 012963          217 LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGRR  253 (452)
Q Consensus       217 ~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~~~  253 (452)
                      .|+|.||..||.+||..    +..||+||++....+.
T Consensus        53 ~CnHaFH~HCI~rWL~T----k~~CPld~q~w~~~~~   85 (88)
T COG5194          53 VCNHAFHDHCIYRWLDT----KGVCPLDRQTWVLADG   85 (88)
T ss_pred             ecchHHHHHHHHHHHhh----CCCCCCCCceeEEecc
Confidence            79999999999999998    6899999998876543

>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=98.38  E-value=1.3e-07  Score=73.47  Aligned_cols=50  Identities=34%  Similarity=0.828  Sum_probs=39.2

Q ss_pred             ccccccccchhhh------------hhhc-ccchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          200 DDECAICREPMAK------------AKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       200 ~~~C~ICl~~~~~------------~~~l-~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      +++|.||+-.|+.            |..+ -|.|.||..||.+|+....+ +..||+||+....
T Consensus        20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~ts-q~~CPmcRq~~~~   82 (84)
T KOG1493|consen   20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTS-QGQCPMCRQTWQF   82 (84)
T ss_pred             CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccc-cccCCcchheeEe
Confidence            4589999988863            1222 79999999999999987644 5899999997653

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

Probab=98.29  E-value=2e-07  Score=96.49  Aligned_cols=54  Identities=28%  Similarity=0.669  Sum_probs=45.1

Q ss_pred             ccccccccchhhhhhhcccchhhHHHHHHHHHhhc-ccccccCCCCCCccccccc
Q 012963          200 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQG-LNEMYSCPTCRKPLFVGRR  253 (452)
Q Consensus       200 ~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~-~~~~~~CP~CR~~~~~~~~  253 (452)
                      +..||||++....++.+.|||+||..||-+.+... ......||+||..+..++.
T Consensus       186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl  240 (513)
T KOG2164|consen  186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDL  240 (513)
T ss_pred             CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccce
Confidence            67899999999999999999999999998876553 2335799999999887543

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.29  E-value=2.7e-07  Score=65.59  Aligned_cols=41  Identities=34%  Similarity=0.844  Sum_probs=34.2

Q ss_pred             ccccccchhh---hhhhcccchhhHHHHHHHHHhhcccccccCCCCCC
Q 012963          202 ECAICREPMA---KAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRK  246 (452)
Q Consensus       202 ~C~ICl~~~~---~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~  246 (452)
                      .|+||++.+.   .+..++|||+||..|+.++...    ...||+||+
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~----~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGK----SVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCC----CCCCcCCCC
Confidence            4999999993   3456799999999999998833    589999985

>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs)

Probab=98.20  E-value=4.6e-07  Score=64.04  Aligned_cols=39  Identities=23%  Similarity=0.414  Sum_probs=36.8

Q ss_pred             HHHHHHHHHHcCCCChhhHHhhhh-cccceeeeecccccC
Q 012963          414 LAMAETVREVLPHMPEDLIFQDLQ-RTNSATITVNNLLQM  452 (452)
Q Consensus       414 ~~~~~~v~~~~p~~p~~~~~~~~~-~~~~~~~t~~~~l~~  452 (452)
                      ..+++++++|||+++...|.++|. .+|+||.||++||++
T Consensus         3 ~~~v~~L~~mFP~l~~~~I~~~L~~~~g~ve~~i~~LL~~   42 (43)
T smart00546        3 DEALHDLKDMFPNLDEEVIKAVLEANNGNVEATINNLLEG   42 (43)
T ss_pred             HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence            468999999999999999999999 799999999999985

CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)

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

Probab=98.18  E-value=4.9e-07  Score=88.88  Aligned_cols=47  Identities=30%  Similarity=0.606  Sum_probs=43.3

Q ss_pred             ccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCcccccc
Q 012963          202 ECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR  252 (452)
Q Consensus       202 ~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~~  252 (452)
                      .|.||.|.|..+..+||+|.||.-||+..|..    +..||.|+.++.+..
T Consensus        25 RC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~----~p~CP~C~~~~~Es~   71 (442)
T KOG0287|consen   25 RCGICFEYFNIPMITPCSHTFCSLCIRKFLSY----KPQCPTCCVTVTESD   71 (442)
T ss_pred             HHhHHHHHhcCceeccccchHHHHHHHHHhcc----CCCCCceecccchhh
Confidence            79999999999999999999999999999988    689999999886543

>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs)

Probab=98.16  E-value=4.6e-07  Score=63.75  Aligned_cols=38  Identities=21%  Similarity=0.465  Sum_probs=34.2

Q ss_pred             HHHHHHHHHcCCCChhhHHhhh-hcccceeeeecccccC
Q 012963          415 AMAETVREVLPHMPEDLIFQDL-QRTNSATITVNNLLQM  452 (452)
Q Consensus       415 ~~~~~v~~~~p~~p~~~~~~~~-~~~~~~~~t~~~~l~~  452 (452)
                      .|++++++|||+++.+.|.++| ...|+||.||++||++
T Consensus         3 ~~v~~L~~mFP~~~~~~I~~~L~~~~~~ve~ai~~LL~~   41 (42)
T PF02845_consen    3 EMVQQLQEMFPDLDREVIEAVLQANNGDVEAAIDALLEM   41 (42)
T ss_dssp             HHHHHHHHHSSSS-HHHHHHHHHHTTTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence            5899999999999999999999 5588999999999974

CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.

>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]

Probab=98.08  E-value=1.6e-06  Score=71.30  Aligned_cols=47  Identities=36%  Similarity=0.817  Sum_probs=37.2

Q ss_pred             cccccccchhhhh---------------hh--cccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          201 DECAICREPMAKA---------------KK--LLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       201 ~~C~ICl~~~~~~---------------~~--l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      +.|+||+..+-+.               ..  -.|+|.||..||.+|+++    +..||+|.++...+
T Consensus        47 DnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlkt----r~vCPLdn~eW~~q  110 (114)
T KOG2930|consen   47 DNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKT----RNVCPLDNKEWVFQ  110 (114)
T ss_pred             chhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhh----cCcCCCcCcceeEe
Confidence            6899998776321               11  279999999999999999    69999998876544

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

Probab=98.06  E-value=1.3e-06  Score=69.09  Aligned_cols=48  Identities=27%  Similarity=0.397  Sum_probs=38.9

Q ss_pred             cccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          201 DECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       201 ~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      ..|+||.+-|.+|+.++|||.|.+.||.+|+.+.   +.+||.|+.++...
T Consensus         5 f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~---~~~~P~t~~~l~~~   52 (73)
T PF04564_consen    5 FLCPITGELMRDPVILPSGHTYERSAIERWLEQN---GGTDPFTRQPLSES   52 (73)
T ss_dssp             GB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTT---SSB-TTT-SB-SGG
T ss_pred             cCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcC---CCCCCCCCCcCCcc
Confidence            4799999999999999999999999999999984   58999999988654

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 ....

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

Probab=98.03  E-value=1.6e-06  Score=83.72  Aligned_cols=47  Identities=28%  Similarity=0.579  Sum_probs=42.8

Q ss_pred             cccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          201 DECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       201 ~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      ..|-||-+.+..+..++|||.||.-||+..|..    +..||+||.+....
T Consensus        26 lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~----qp~CP~Cr~~~~es   72 (391)
T COG5432          26 LRCRICDCRISIPCETTCGHTFCSLCIRRHLGT----QPFCPVCREDPCES   72 (391)
T ss_pred             HHhhhhhheeecceecccccchhHHHHHHHhcC----CCCCccccccHHhh
Confidence            479999999999999999999999999999988    79999999976543

>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]

Probab=97.95  E-value=1.4e-05  Score=80.19  Aligned_cols=48  Identities=33%  Similarity=0.676  Sum_probs=40.6

Q ss_pred             cccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          201 DECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       201 ~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      ..|-||-|.=++.+.=||||..|..|+..|-....  .++||.||..+..
T Consensus       370 eLCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~--gq~CPFCRcEIKG  417 (563)
T KOG1785|consen  370 ELCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDE--GQTCPFCRCEIKG  417 (563)
T ss_pred             HHHHHhhccCCCcccccccchHHHHHHHhhcccCC--CCCCCceeeEecc
Confidence            46999999877777779999999999999986532  5899999998864

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

Probab=97.90  E-value=5e-06  Score=81.26  Aligned_cols=44  Identities=36%  Similarity=0.682  Sum_probs=39.1

Q ss_pred             cccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCC
Q 012963          199 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRK  246 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~  246 (452)
                      ..-.|+||++.|..++.++|+|.||..|+..+...    ...||.||.
T Consensus        12 ~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~~----~~~Cp~cr~   55 (386)
T KOG2177|consen   12 EELTCPICLEYFREPVLLPCGHNFCRACLTRSWEG----PLSCPVCRP   55 (386)
T ss_pred             ccccChhhHHHhhcCccccccchHhHHHHHHhcCC----CcCCcccCC
Confidence            44589999999999988899999999999998872    589999993

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

Probab=97.81  E-value=6.4e-06  Score=80.26  Aligned_cols=49  Identities=27%  Similarity=0.575  Sum_probs=41.4

Q ss_pred             cccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          199 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      ...+|+||+....-++.++|+|.||..||+.=...+   ..+|++||.++..
T Consensus         6 ~~~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~nd---k~~CavCR~pids   54 (324)
T KOG0824|consen    6 KKKECLICYNTGNCPVNLYCFHKFCYICIKGSYKND---KKTCAVCRFPIDS   54 (324)
T ss_pred             cCCcceeeeccCCcCccccccchhhhhhhcchhhcC---CCCCceecCCCCc
Confidence            346899999999999999999999999997654443   4789999999864

>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.73  E-value=1.6e-05  Score=58.01  Aligned_cols=46  Identities=33%  Similarity=0.625  Sum_probs=37.6

Q ss_pred             ccccccccchhhhhhhcccchh-hHHHHHH-HHHhhcccccccCCCCCCccc
Q 012963          200 DDECAICREPMAKAKKLLCNHL-FHLACLR-SWLDQGLNEMYSCPTCRKPLF  249 (452)
Q Consensus       200 ~~~C~ICl~~~~~~~~l~C~H~-Fh~~Cl~-~Wl~~~~~~~~~CP~CR~~~~  249 (452)
                      +++|.||+|.-.+.+.-.|||. .|..|-. .|-..    +..||+||+++.
T Consensus         7 ~dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~----~g~CPiCRapi~   54 (62)
T KOG4172|consen    7 SDECTICYEHPVDSVLYTCGHMCMCYACGLRLKKAL----HGCCPICRAPIK   54 (62)
T ss_pred             ccceeeeccCcchHHHHHcchHHhHHHHHHHHHHcc----CCcCcchhhHHH
Confidence            4789999999888888899997 7888854 44433    689999999874

>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=97.72  E-value=1.6e-05  Score=87.11  Aligned_cols=47  Identities=32%  Similarity=0.829  Sum_probs=37.9

Q ss_pred             cccccccchhhhh-hh------cccchhhHHHHHHHHHhhcccccccCCCCCCccc
Q 012963          201 DECAICREPMAKA-KK------LLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF  249 (452)
Q Consensus       201 ~~C~ICl~~~~~~-~~------l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~  249 (452)
                      .+|+||+.-+... ++      -.|.|-||..|+.+|+....  +.+||+||..+.
T Consensus      1470 eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~--~s~CPlCRseit 1523 (1525)
T COG5219        1470 EECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSA--RSNCPLCRSEIT 1523 (1525)
T ss_pred             chhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcC--CCCCCccccccc
Confidence            6899999887632 22      26999999999999998754  689999998764

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=97.70  E-value=1.6e-05  Score=78.86  Aligned_cols=50  Identities=28%  Similarity=0.672  Sum_probs=37.0

Q ss_pred             ccccccccchh-hhh-hh-c--ccchhhHHHHHHHHHhhcccccccCCCCCCcccccc
Q 012963          200 DDECAICREPM-AKA-KK-L--LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR  252 (452)
Q Consensus       200 ~~~C~ICl~~~-~~~-~~-l--~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~~  252 (452)
                      +..||+|...- ..+ .+ +  +|||.||.+|+...+..+   ...||.|+..+...+
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~---~~~CP~C~~~lrk~~   57 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRG---SGSCPECDTPLRKNN   57 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCC---CCCCCCCCCccchhh
Confidence            35799999853 222 11 2  799999999999966543   468999999887654

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).

>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A

Probab=97.69  E-value=8.8e-06  Score=63.79  Aligned_cols=50  Identities=30%  Similarity=0.596  Sum_probs=25.5

Q ss_pred             cccccccchhh-h---hhh----cccchhhHHHHHHHHHhhcc-------cccccCCCCCCcccc
Q 012963          201 DECAICREPMA-K---AKK----LLCNHLFHLACLRSWLDQGL-------NEMYSCPTCRKPLFV  250 (452)
Q Consensus       201 ~~C~ICl~~~~-~---~~~----l~C~H~Fh~~Cl~~Wl~~~~-------~~~~~CP~CR~~~~~  250 (452)
                      .+|.||++... .   +..    -.|++.||..||.+|+....       +-...||.|+.++..
T Consensus         3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~   67 (70)
T PF11793_consen    3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW   67 (70)
T ss_dssp             -S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred             CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence            47999998765 2   221    27999999999999997542       113469999998754

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

Probab=97.67  E-value=2.8e-05  Score=84.44  Aligned_cols=49  Identities=20%  Similarity=0.560  Sum_probs=43.6

Q ss_pred             cccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCcccccc
Q 012963          201 DECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR  252 (452)
Q Consensus       201 ~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~~  252 (452)
                      -.|++|-..+.+.+.+.|+|+||..|+..-+...   +..||.|-..+...+
T Consensus       644 LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etR---qRKCP~Cn~aFganD  692 (698)
T KOG0978|consen  644 LKCSVCNTRWKDAVITKCGHVFCEECVQTRYETR---QRKCPKCNAAFGAND  692 (698)
T ss_pred             eeCCCccCchhhHHHHhcchHHHHHHHHHHHHHh---cCCCCCCCCCCCccc
Confidence            4799999999999999999999999999999775   789999998876543

>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.60  E-value=2.3e-05  Score=78.31  Aligned_cols=49  Identities=33%  Similarity=0.661  Sum_probs=41.6

Q ss_pred             ccccccccccchhhhhhhcccchh-hHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          198 AYDDECAICREPMAKAKKLLCNHL-FHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       198 ~~~~~C~ICl~~~~~~~~l~C~H~-Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      +...+|.||+.+-.+...|||.|. .|..|-+...-+    +..||+||+++..
T Consensus       288 ~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr~q----~n~CPICRqpi~~  337 (349)
T KOG4265|consen  288 ESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLRYQ----TNNCPICRQPIEE  337 (349)
T ss_pred             cCCCeeEEEecCCcceEEecchhhehhHhHHHHHHHh----hcCCCccccchHh
Confidence            346799999999999999999998 888998776544    5799999998854

>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins

Probab=97.58  E-value=3.9e-05  Score=55.79  Aligned_cols=42  Identities=24%  Similarity=0.694  Sum_probs=31.7

Q ss_pred             ccccccchh--hhhhhcccc-----hhhHHHHHHHHHhhcccccccCCCCC
Q 012963          202 ECAICREPM--AKAKKLLCN-----HLFHLACLRSWLDQGLNEMYSCPTCR  245 (452)
Q Consensus       202 ~C~ICl~~~--~~~~~l~C~-----H~Fh~~Cl~~Wl~~~~~~~~~CP~CR  245 (452)
                      .|-||++..  +++...||.     |.+|..||.+|+....  ..+||+|+
T Consensus         1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~--~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESG--NKTCEICK   49 (49)
T ss_pred             CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcC--CCcCCCCC
Confidence            489999822  234456885     8999999999997642  35899995

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

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

Probab=97.57  E-value=3e-05  Score=77.17  Aligned_cols=50  Identities=34%  Similarity=0.646  Sum_probs=42.2

Q ss_pred             cccccccccchhhhhhhc-ccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          199 YDDECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l-~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      .+-.|+||++-++....+ .|.|.||.+||..=+...   +..||.||+.+..+
T Consensus        42 ~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~g---n~ecptcRk~l~Sk   92 (381)
T KOG0311|consen   42 IQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSG---NNECPTCRKKLVSK   92 (381)
T ss_pred             hhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhc---CCCCchHHhhcccc
Confidence            345899999999888766 599999999998877765   68999999988654

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

Probab=97.57  E-value=1.3e-05  Score=60.82  Aligned_cols=45  Identities=29%  Similarity=0.837  Sum_probs=24.9

Q ss_pred             ccccccchhhhhhhc-ccchhhHHHHHHHHHhhcccccccCCCCCCcccccc
Q 012963          202 ECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR  252 (452)
Q Consensus       202 ~C~ICl~~~~~~~~l-~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~~  252 (452)
                      .|++|.+.+++|+.+ .|.|+||..|+..-+.      ..||+|+.+...++
T Consensus         9 rCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~------~~CPvC~~Paw~qD   54 (65)
T PF14835_consen    9 RCSICFDILKEPVCLGGCEHIFCSSCIRDCIG------SECPVCHTPAWIQD   54 (65)
T ss_dssp             S-SSS-S--SS-B---SSS--B-TTTGGGGTT------TB-SSS--B-S-SS
T ss_pred             CCcHHHHHhcCCceeccCccHHHHHHhHHhcC------CCCCCcCChHHHHH
Confidence            799999999999764 8999999999977554      46999999876654

>PF13705 TRC8_N: TRC8 N-terminal domain

Probab=97.48  E-value=0.00059  Score=71.86  Aligned_cols=89  Identities=17%  Similarity=0.288  Sum_probs=69.4

Q ss_pred             hhhHhHHHhhhcCCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCccchhhhhhc-cchhhHHHHHHHHHhhhh
Q 012963            3 QALARDRLERLNASPSATPWTYFRVFSALLFVLAVDIFWIRMCLLLFKTLDSSMFLLLFFE-PLSVAFETMQAILVHGFQ   81 (452)
Q Consensus         3 h~L~~dR~e~l~~sp~~~~~~h~R~~~lL~~ll~~d~~~i~~~~~~~~~~g~s~~ll~~fe-~~~l~~~~l~~ll~y~~~   81 (452)
                      |-+.+..+-.|.+|.+.+.++|+|.+++.++++++++++   .|.+...+..+++++...- |+...+.++.++++|+++
T Consensus       360 ~ei~~pvLmsL~As~~~s~~rH~R~L~v~~~Ll~~P~~~---~y~l~~~~~i~tWll~v~s~~~~t~vkv~~sl~iY~Lf  436 (508)
T PF13705_consen  360 HEIVDPVLMSLSASHNRSFWRHFRALSVCLFLLVFPLYL---SYYLWSFFPIDTWLLIVTSFCVETIVKVLGSLAIYILF  436 (508)
T ss_pred             HHHhHHHHHhccCCCCchHHHHHHHHHHHHHHHHHHHHH---HHHHHHhCChHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456677788899999999999999999999999999885   4555666777777654433 444567889999999999


Q ss_pred             hhhHhhhccCCCC
Q 012963           82 LLDIWLHHSAGNS   94 (452)
Q Consensus        82 l~~~~~~~~~~~~   94 (452)
                      ++|.+....|++-
T Consensus       437 ~vd~~~~~~WE~L  449 (508)
T PF13705_consen  437 MVDARREEPWEKL  449 (508)
T ss_pred             HHHhhcccchhhc
Confidence            9999776555543

>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.39  E-value=6.9e-05  Score=75.29  Aligned_cols=47  Identities=32%  Similarity=0.885  Sum_probs=34.2

Q ss_pred             cccccccchhhhhhh---c-ccchhhHHHHHHHHHhhcccccccCCCCCCcc
Q 012963          201 DECAICREPMAKAKK---L-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL  248 (452)
Q Consensus       201 ~~C~ICl~~~~~~~~---l-~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~  248 (452)
                      ..|.||-+-+.....   + .|||+||..|+.+|+..... ...||.||-.+
T Consensus         5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps-~R~cpic~ik~   55 (465)
T KOG0827|consen    5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPS-NRGCPICQIKL   55 (465)
T ss_pred             ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCc-cCCCCceeecc
Confidence            479999444433222   2 59999999999999987542 36999999433

>KOG0825 consensus PHD Zn-finger protein [General function prediction only]

Probab=97.31  E-value=0.00013  Score=78.72  Aligned_cols=48  Identities=21%  Similarity=0.450  Sum_probs=38.1

Q ss_pred             cccccccchhhhh---hhcccchhhHHHHHHHHHhhcccccccCCCCCCcccccc
Q 012963          201 DECAICREPMAKA---KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR  252 (452)
Q Consensus       201 ~~C~ICl~~~~~~---~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~~  252 (452)
                      ..|++|+..+.+.   ...+|+|.||..|+..|...    .++||+||..+....
T Consensus       124 ~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~----aqTCPiDR~EF~~v~  174 (1134)
T KOG0825|consen  124 NQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRC----AQTCPVDRGEFGEVK  174 (1134)
T ss_pred             hhhhHHHHHHHHHhhccccccccccHHHHhhhhhhh----cccCchhhhhhheee
Confidence            3577777776654   24589999999999999998    589999999876543

>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.13  E-value=0.00018  Score=72.79  Aligned_cols=54  Identities=35%  Similarity=0.720  Sum_probs=40.4

Q ss_pred             cccccccccchhhhhh-----h---cccchhhHHHHHHHHHhhcc---cccccCCCCCCcccccc
Q 012963          199 YDDECAICREPMAKAK-----K---LLCNHLFHLACLRSWLDQGL---NEMYSCPTCRKPLFVGR  252 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~-----~---l~C~H~Fh~~Cl~~Wl~~~~---~~~~~CP~CR~~~~~~~  252 (452)
                      .+.+|.||++...+..     .   .+|.|.||..|++.|-+...   .-.+.||.||.......
T Consensus       160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~  224 (344)
T KOG1039|consen  160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVN  224 (344)
T ss_pred             ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccccc
Confidence            4568999999876543     2   46999999999999985431   11479999999765443

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

Probab=97.01  E-value=0.00024  Score=73.34  Aligned_cols=49  Identities=35%  Similarity=0.686  Sum_probs=43.6

Q ss_pred             ccccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          198 AYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       198 ~~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      ..+..|.||+..+..++.+||||.||..||.+-+.+    ...||.||..+..
T Consensus        82 ~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld~----~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   82 RSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLDQ----ETECPLCRDELVE  130 (398)
T ss_pred             cchhhhhhhHhhcCCCccccccccccHHHHHHHhcc----CCCCccccccccc
Confidence            456689999999999999999999999999887776    6899999998875

>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.98  E-value=0.00045  Score=64.78  Aligned_cols=54  Identities=33%  Similarity=0.853  Sum_probs=44.2

Q ss_pred             ccccccccccchhhh--hhhcccchhhHHHHHHHHHhhc----ccccccCCCCCCccccc
Q 012963          198 AYDDECAICREPMAK--AKKLLCNHLFHLACLRSWLDQG----LNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       198 ~~~~~C~ICl~~~~~--~~~l~C~H~Fh~~Cl~~Wl~~~----~~~~~~CP~CR~~~~~~  251 (452)
                      +++..|..|-..+..  ..+|.|-|+||+.|+.+|..+-    .+....||.|..++++.
T Consensus        48 DY~pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp  107 (299)
T KOG3970|consen   48 DYNPNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPP  107 (299)
T ss_pred             CCCCCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCC
Confidence            466789999998875  4678999999999999997652    34468999999998863

>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]

Probab=96.92  E-value=0.00044  Score=67.50  Aligned_cols=52  Identities=29%  Similarity=0.693  Sum_probs=39.9

Q ss_pred             ccccccccchhhhh---hhcccchhhHHHHHHHHHhhc-------------------ccccccCCCCCCccccc
Q 012963          200 DDECAICREPMAKA---KKLLCNHLFHLACLRSWLDQG-------------------LNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       200 ~~~C~ICl~~~~~~---~~l~C~H~Fh~~Cl~~Wl~~~-------------------~~~~~~CP~CR~~~~~~  251 (452)
                      ...|.||+..|.+.   .+++|.|.||..|+...+..-                   ......||+||..+...
T Consensus       115 ~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e  188 (368)
T KOG4445|consen  115 NGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIE  188 (368)
T ss_pred             CCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccc
Confidence            45899999999865   467999999999998775421                   12245799999998754

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

Probab=96.88  E-value=0.0071  Score=58.69  Aligned_cols=51  Identities=24%  Similarity=0.618  Sum_probs=40.0

Q ss_pred             hccccccccccchhhhhhhc-ccchhhHHHHHHHHHhhcccccccCCCCCCccc
Q 012963          197 RAYDDECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF  249 (452)
Q Consensus       197 ~~~~~~C~ICl~~~~~~~~l-~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~  249 (452)
                      ...+.+|++|-+.-..|-.. +|+|+||.-|+..=+..+.  ..+||.|-.++.
T Consensus       236 ~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~a--sf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  236 GTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDA--SFTCPLCGENVE  287 (298)
T ss_pred             ccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchh--hcccCccCCCCc
Confidence            35678999999988777554 7999999999987554321  479999988765

>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]

Probab=96.84  E-value=0.00085  Score=69.94  Aligned_cols=53  Identities=25%  Similarity=0.646  Sum_probs=44.1

Q ss_pred             ccccccccchhhhhhhcccchhhHHHHHHHHHhhc-ccccccCCCCCCcccccc
Q 012963          200 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQG-LNEMYSCPTCRKPLFVGR  252 (452)
Q Consensus       200 ~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~-~~~~~~CP~CR~~~~~~~  252 (452)
                      +-+|.+|-++-++.....|.|.||+.|+.+....- ...+.+||+|...+..+.
T Consensus       536 ~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDl  589 (791)
T KOG1002|consen  536 EVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDL  589 (791)
T ss_pred             ceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccc
Confidence            34799999999999999999999999999887653 123689999998887653

>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.82  E-value=0.00041  Score=70.38  Aligned_cols=48  Identities=31%  Similarity=0.797  Sum_probs=39.0

Q ss_pred             cccccccccchhhhh-----hhcccchhhHHHHHHHHHhhcccccccCCCCCCcc
Q 012963          199 YDDECAICREPMAKA-----KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL  248 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~-----~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~  248 (452)
                      ...+|+||++.+..+     +.+.|||.|-.+||++|+.+.  ....||.|...-
T Consensus         3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~--~~~~cp~c~~ka   55 (463)
T KOG1645|consen    3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKK--TKMQCPLCSGKA   55 (463)
T ss_pred             ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhh--hhhhCcccCChh
Confidence            356899999998764     456899999999999999643  258999997753

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

Probab=96.68  E-value=0.00074  Score=62.22  Aligned_cols=43  Identities=23%  Similarity=0.456  Sum_probs=38.4

Q ss_pred             cccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCc
Q 012963          201 DECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKP  247 (452)
Q Consensus       201 ~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~  247 (452)
                      ..|.||.++++.|+.+.|||.||..|...-.+.    ...|-+|-+.
T Consensus       197 F~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~k----g~~C~~Cgk~  239 (259)
T COG5152         197 FLCGICKKDYESPVVTECGHSFCSLCAIRKYQK----GDECGVCGKA  239 (259)
T ss_pred             eeehhchhhccchhhhhcchhHHHHHHHHHhcc----CCcceecchh
Confidence            479999999999999999999999998777776    5899999764

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

Probab=96.56  E-value=0.0017  Score=65.49  Aligned_cols=46  Identities=39%  Similarity=0.874  Sum_probs=37.1

Q ss_pred             ccccccccchhhh----hhhcccchhhHHHHHHHHHhhcccccccCCCCCCc
Q 012963          200 DDECAICREPMAK----AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKP  247 (452)
Q Consensus       200 ~~~C~ICl~~~~~----~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~  247 (452)
                      +--|..|-|.+..    -..|||.|+||..|+.+.+.++.  ..+||.||+-
T Consensus       365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~--~rsCP~Crkl  414 (518)
T KOG1941|consen  365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNG--TRSCPNCRKL  414 (518)
T ss_pred             hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCC--CCCCccHHHH
Confidence            4579999988753    24579999999999999997754  4799999943

>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.52  E-value=0.00036  Score=69.97  Aligned_cols=45  Identities=24%  Similarity=0.577  Sum_probs=34.7

Q ss_pred             cccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          199 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      ..+.|.||+++..+.+.+||||.-|  |..--..     ..+||+||+.+..
T Consensus       304 ~p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs~~-----l~~CPvCR~rI~~  348 (355)
T KOG1571|consen  304 QPDLCVVCLDEPKSAVFVPCGHVCC--CTLCSKH-----LPQCPVCRQRIRL  348 (355)
T ss_pred             CCCceEEecCCccceeeecCCcEEE--chHHHhh-----CCCCchhHHHHHH
Confidence            4578999999999999999999854  5543333     3579999997743

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

Probab=96.30  E-value=0.0011  Score=68.91  Aligned_cols=50  Identities=28%  Similarity=0.580  Sum_probs=43.5

Q ss_pred             ccccccccccchhhhhhh-cccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          198 AYDDECAICREPMAKAKK-LLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       198 ~~~~~C~ICl~~~~~~~~-l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      ..+..|++|...+.++.. +.|||.||..|+.+|+..    +..||.|+..+...
T Consensus        19 ~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~----~~~cp~~~~~~~~~   69 (391)
T KOG0297|consen   19 DENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSN----HQKCPVCRQELTQA   69 (391)
T ss_pred             cccccCccccccccCCCCCCCCCCcccccccchhhcc----CcCCcccccccchh
Confidence            345689999999999988 599999999999999998    68999998877543

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

Probab=96.24  E-value=0.0019  Score=64.22  Aligned_cols=48  Identities=25%  Similarity=0.612  Sum_probs=41.1

Q ss_pred             ccccccccchhhhhhhc-ccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          200 DDECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       200 ~~~C~ICl~~~~~~~~l-~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      -.+|.+|-..|.++.++ -|-|.||++||.+.+..    ...||+|...+-..
T Consensus        15 ~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~----~~~CP~C~i~ih~t   63 (331)
T KOG2660|consen   15 HITCRLCGGYLIDATTITECLHTFCKSCIVKYLEE----SKYCPTCDIVIHKT   63 (331)
T ss_pred             ceehhhccceeecchhHHHHHHHHHHHHHHHHHHH----hccCCccceeccCc
Confidence            35899999999887655 69999999999999988    68999998877543

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.20  E-value=0.0032  Score=69.25  Aligned_cols=40  Identities=30%  Similarity=0.816  Sum_probs=33.6

Q ss_pred             cccccccchhhhhh-hcccchhhHHHHHHHHHhhcccccccCCCCCCc
Q 012963          201 DECAICREPMAKAK-KLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKP  247 (452)
Q Consensus       201 ~~C~ICl~~~~~~~-~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~  247 (452)
                      ..|..|-..++-|. ...|||.||..|+.   +.    ...||.|+..
T Consensus       841 skCs~C~~~LdlP~VhF~CgHsyHqhC~e---~~----~~~CP~C~~e  881 (933)
T KOG2114|consen  841 SKCSACEGTLDLPFVHFLCGHSYHQHCLE---DK----EDKCPKCLPE  881 (933)
T ss_pred             eeecccCCccccceeeeecccHHHHHhhc---cC----cccCCccchh
Confidence            48999999998874 56999999999997   33    5899999883

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

Probab=96.19  E-value=0.0011  Score=49.67  Aligned_cols=43  Identities=21%  Similarity=0.517  Sum_probs=29.9

Q ss_pred             cccccccccchhhhhhh-cccchhhHHHHHHHHHhhcccccccCCC
Q 012963          199 YDDECAICREPMAKAKK-LLCNHLFHLACLRSWLDQGLNEMYSCPT  243 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~-l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~  243 (452)
                      .+..|||.+..|++|++ ..|+|+|-++.|.+|++++  ....||+
T Consensus        10 ~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~--~~~~CPv   53 (57)
T PF11789_consen   10 ISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRN--GSKRCPV   53 (57)
T ss_dssp             --SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTT--S-EE-SC
T ss_pred             eccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhc--CCCCCCC
Confidence            34689999999999976 4899999999999999432  2689998

>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.03  E-value=0.0037  Score=62.39  Aligned_cols=49  Identities=22%  Similarity=0.425  Sum_probs=42.9

Q ss_pred             ccccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          198 AYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       198 ~~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      .+|+.|+||...--..+..||+|.=|+.||.+-+.+    .+.|=.|+..+..
T Consensus       420 sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN----~k~CFfCktTv~~  468 (489)
T KOG4692|consen  420 SEDNLCPICYAGPINAVFAPCSHRSCYGCITQHLMN----CKRCFFCKTTVID  468 (489)
T ss_pred             cccccCcceecccchhhccCCCCchHHHHHHHHHhc----CCeeeEecceeee
Confidence            356799999988777888899999999999999887    6899999998764

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

Probab=95.75  E-value=0.0022  Score=62.75  Aligned_cols=45  Identities=22%  Similarity=0.439  Sum_probs=40.0

Q ss_pred             ccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCcc
Q 012963          200 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL  248 (452)
Q Consensus       200 ~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~  248 (452)
                      ...|-||...|..++++.|+|.||..|-.+-+++    ...|++|-+..
T Consensus       241 Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk----~~~c~vC~~~t  285 (313)
T KOG1813|consen  241 PFKCFICRKYFYRPVVTKCGHYFCEVCALKPYQK----GEKCYVCSQQT  285 (313)
T ss_pred             CccccccccccccchhhcCCceeehhhhcccccc----CCcceeccccc
Confidence            3569999999999999999999999998887877    58999997754

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

Probab=95.61  E-value=0.01  Score=58.01  Aligned_cols=47  Identities=28%  Similarity=0.688  Sum_probs=36.9

Q ss_pred             cccccccchhhhhhhcc-cchhhHHHHHHHHHhhcccccccCCCC-CCcccc
Q 012963          201 DECAICREPMAKAKKLL-CNHLFHLACLRSWLDQGLNEMYSCPTC-RKPLFV  250 (452)
Q Consensus       201 ~~C~ICl~~~~~~~~l~-C~H~Fh~~Cl~~Wl~~~~~~~~~CP~C-R~~~~~  250 (452)
                      -.|+.|..-+..+.++| |+|.||.+||..-|...   ...||.| |+++..
T Consensus       275 LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~ds---Df~CpnC~rkdvll  323 (427)
T COG5222         275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDS---DFKCPNCSRKDVLL  323 (427)
T ss_pred             ccCcchhhhhhCcccCccccchHHHHHHhhhhhhc---cccCCCcccccchh
Confidence            47999999999998885 88999999998655332   5899999 445443

>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]

Probab=95.51  E-value=0.0064  Score=69.72  Aligned_cols=53  Identities=36%  Similarity=0.706  Sum_probs=41.1

Q ss_pred             ccccccccccchhh---hhhhcccchhhHHHHHHHHHhhccc------ccccCCCCCCcccc
Q 012963          198 AYDDECAICREPMA---KAKKLLCNHLFHLACLRSWLDQGLN------EMYSCPTCRKPLFV  250 (452)
Q Consensus       198 ~~~~~C~ICl~~~~---~~~~l~C~H~Fh~~Cl~~Wl~~~~~------~~~~CP~CR~~~~~  250 (452)
                      +.|+.|.||+.+--   .++.|.|+|.||..|.+.-|++...      .-.+||+|+.++..
T Consensus      3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred             ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence            45789999987653   3578999999999999888776511      13589999998865

>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=95.29  E-value=0.0094  Score=49.93  Aligned_cols=30  Identities=23%  Similarity=0.882  Sum_probs=24.7

Q ss_pred             cccccccccchhhhhh--hcccchhhHHHHHH
Q 012963          199 YDDECAICREPMAKAK--KLLCNHLFHLACLR  228 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~--~l~C~H~Fh~~Cl~  228 (452)
                      .+..|++|...+....  ..||||+||..|++
T Consensus        77 ~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   77 ESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence            4568999999997653  45999999999975

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 [].

>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=94.97  E-value=0.025  Score=57.91  Aligned_cols=53  Identities=26%  Similarity=0.498  Sum_probs=38.1

Q ss_pred             HHhhccccccccccchhhh---hhhcccchhhHHHHHHHHHhhc----ccccccCCCCCC
Q 012963          194 EELRAYDDECAICREPMAK---AKKLLCNHLFHLACLRSWLDQG----LNEMYSCPTCRK  246 (452)
Q Consensus       194 ~~l~~~~~~C~ICl~~~~~---~~~l~C~H~Fh~~Cl~~Wl~~~----~~~~~~CP~CR~  246 (452)
                      +........|.||++...-   -+.+||+|+||+.|+.......    ......||-|..
T Consensus       178 ~~F~~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C  237 (445)
T KOG1814|consen  178 EKFVNSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC  237 (445)
T ss_pred             HHHHhhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence            3444556789999998754   3678999999999999987543    222457776654

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=94.75  E-value=0.017  Score=51.83  Aligned_cols=51  Identities=27%  Similarity=0.668  Sum_probs=38.8

Q ss_pred             ccccccccccchhhhhhhcccch-----hhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          198 AYDDECAICREPMAKAKKLLCNH-----LFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       198 ~~~~~C~ICl~~~~~~~~l~C~H-----~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      ..+..|-||.++-.+ ..-||.-     .-|.+|+..|+....  ...|+.|+.+....
T Consensus         6 ~~~~~CRIC~~~~~~-~~~PC~CkGs~k~VH~sCL~rWi~~s~--~~~CeiC~~~Y~i~   61 (162)
T PHA02825          6 LMDKCCWICKDEYDV-VTNYCNCKNENKIVHKECLEEWINTSK--NKSCKICNGPYNIK   61 (162)
T ss_pred             CCCCeeEecCCCCCC-ccCCcccCCCchHHHHHHHHHHHhcCC--CCcccccCCeEEEE
Confidence            456789999988543 3347663     569999999998753  57999999987654

>PHA02862 5L protein; Provisional

Probab=94.69  E-value=0.021  Score=50.42  Aligned_cols=49  Identities=20%  Similarity=0.684  Sum_probs=37.6

Q ss_pred             ccccccccchhhhhhhcccc-----hhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          200 DDECAICREPMAKAKKLLCN-----HLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       200 ~~~C~ICl~~~~~~~~l~C~-----H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      ++.|=||+++-++. .-||.     ..-|.+||.+|+...  ....||.|+.+...+
T Consensus         2 ~diCWIC~~~~~e~-~~PC~C~GS~K~VHq~CL~~WIn~S--~k~~CeLCkteY~Ik   55 (156)
T PHA02862          2 SDICWICNDVCDER-NNFCGCNEEYKVVHIKCMQLWINYS--KKKECNLCKTKYNIK   55 (156)
T ss_pred             CCEEEEecCcCCCC-cccccccCcchhHHHHHHHHHHhcC--CCcCccCCCCeEEEE
Confidence            46899999986443 45775     468999999999653  368999999987643

>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]

Probab=94.68  E-value=0.019  Score=63.34  Aligned_cols=54  Identities=31%  Similarity=0.821  Sum_probs=39.1

Q ss_pred             HHhhccccccccccchhhhhh-hc---ccchhhHHHHHHHHHhhc---ccccccCCCCCCc
Q 012963          194 EELRAYDDECAICREPMAKAK-KL---LCNHLFHLACLRSWLDQG---LNEMYSCPTCRKP  247 (452)
Q Consensus       194 ~~l~~~~~~C~ICl~~~~~~~-~l---~C~H~Fh~~Cl~~Wl~~~---~~~~~~CP~CR~~  247 (452)
                      +++.....+|.||.+.+.... .+   .|-|+||..||++|..+.   ....-.||.|+..
T Consensus       185 ~~l~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv  245 (950)
T KOG1952|consen  185 EQLSNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV  245 (950)
T ss_pred             HHHhcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence            344455679999999987532 22   588999999999998653   1235689999843

>PF11547 E3_UbLigase_EDD: E3 ubiquitin ligase EDD; InterPro: IPR024725 EDD, the ER ubiquitin ligase from the HECT ligases, contains an N-terminal ubiquitin-associated (UBA) domain which binds ubiquitin

Probab=94.54  E-value=0.011  Score=42.08  Aligned_cols=38  Identities=34%  Similarity=0.531  Sum_probs=32.3

Q ss_pred             HHHHHHHHHcCCCChhhHHhhhhccc-ceeeeecccccC
Q 012963          415 AMAETVREVLPHMPEDLIFQDLQRTN-SATITVNNLLQM  452 (452)
Q Consensus       415 ~~~~~v~~~~p~~p~~~~~~~~~~~~-~~~~t~~~~l~~  452 (452)
                      .++.|++.|++.-+.++|++.|+||+ .|...+||||-|
T Consensus        11 dlI~q~q~VLqgksR~vIirELqrTnLdVN~AvNNlLsR   49 (53)
T PF11547_consen   11 DLINQAQVVLQGKSRNVIIRELQRTNLDVNLAVNNLLSR   49 (53)
T ss_dssp             HHHHHHHHHSTTS-HHHHHHHHHHTTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCcHHHHHHHHHHhcccHHHHHHHHhcc
Confidence            38899999999999999999999987 688889998853

Ubiquitin is recognised by helices alpha-1 and -3 in in the UBA domain. EDD is involved in DNA damage repair pathways and binds to mono-ubiquitinated proteins [].; GO: 0043130 ubiquitin binding; PDB: 2QHO_H.

>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]

Probab=94.53  E-value=0.07  Score=53.17  Aligned_cols=48  Identities=19%  Similarity=0.445  Sum_probs=38.9

Q ss_pred             ccccccccccchhhhhhhc-ccchhhHHHHHHHHHhhcccccccCCCCCCccc
Q 012963          198 AYDDECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF  249 (452)
Q Consensus       198 ~~~~~C~ICl~~~~~~~~l-~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~  249 (452)
                      .....|++|+..-.++..+ .-|-+||..|+-+.+.+    ...||+--.+..
T Consensus       298 ~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~----~~~CPVT~~p~~  346 (357)
T KOG0826|consen  298 PDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVN----YGHCPVTGYPAS  346 (357)
T ss_pred             CccccChhHHhccCCCceEEecceEEeHHHHHHHHHh----cCCCCccCCcch
Confidence            3457899999988877666 45999999999999987    789998766543

>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=94.35  E-value=0.0045  Score=60.42  Aligned_cols=43  Identities=30%  Similarity=0.649  Sum_probs=34.6

Q ss_pred             ccccccccchhhhhhhcccchh-hHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          200 DDECAICREPMAKAKKLLCNHL-FHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       200 ~~~C~ICl~~~~~~~~l~C~H~-Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      +..|.||++.-.+++.|+|||. -|.+|-..        -..||+||+.+..
T Consensus       300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkr--------m~eCPICRqyi~r  343 (350)
T KOG4275|consen  300 RRLCAICMDAPRDCVFLECGHMVTCTKCGKR--------MNECPICRQYIVR  343 (350)
T ss_pred             HHHHHHHhcCCcceEEeecCcEEeehhhccc--------cccCchHHHHHHH
Confidence            5679999999999999999996 56677532        3589999997653

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=94.16  E-value=0.014  Score=43.12  Aligned_cols=46  Identities=26%  Similarity=0.521  Sum_probs=36.0

Q ss_pred             cccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCcccccc
Q 012963          201 DECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR  252 (452)
Q Consensus       201 ~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~~  252 (452)
                      ..|..|...-.....+||+|..+..|..-+-.      .-||.|-+++...+
T Consensus         8 ~~~~~~~~~~~~~~~~pCgH~I~~~~f~~~rY------ngCPfC~~~~~~~~   53 (55)
T PF14447_consen    8 QPCVFCGFVGTKGTVLPCGHLICDNCFPGERY------NGCPFCGTPFEFDD   53 (55)
T ss_pred             eeEEEccccccccccccccceeeccccChhhc------cCCCCCCCcccCCC
Confidence            36777877766778899999999999765443      58999999887654

>PHA03096 p28-like protein; Provisional

Probab=94.04  E-value=0.035  Score=55.19  Aligned_cols=46  Identities=26%  Similarity=0.564  Sum_probs=33.6

Q ss_pred             cccccccchhhhhh-------hc-ccchhhHHHHHHHHHhhcccccccCCCCCCc
Q 012963          201 DECAICREPMAKAK-------KL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKP  247 (452)
Q Consensus       201 ~~C~ICl~~~~~~~-------~l-~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~  247 (452)
                      -.|.||++......       .| .|.|.||..|++.|...... ..+||.||..
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~-~e~~~~c~~~  232 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLY-KETEPENRRL  232 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhh-cccCccccch
Confidence            57999999875421       23 79999999999999876532 4566666553

>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B

Probab=94.00  E-value=0.029  Score=40.42  Aligned_cols=43  Identities=26%  Similarity=0.665  Sum_probs=20.6

Q ss_pred             cccccchhhhh--hhc--ccchhhHHHHHHHHHhhcccccccCCCCCCcc
Q 012963          203 CAICREPMAKA--KKL--LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL  248 (452)
Q Consensus       203 C~ICl~~~~~~--~~l--~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~  248 (452)
                      |++|.++++..  ...  +|++..|..|...-+...   ...||-||++.
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~---~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENE---GGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS----SB-TTT--B-
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHhcc---CCCCCCCCCCC
Confidence            78999999543  223  688888888977766532   58999999863

>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans

Probab=93.47  E-value=0.061  Score=55.02  Aligned_cols=33  Identities=30%  Similarity=0.929  Sum_probs=25.5

Q ss_pred             cchhhHHHHHHHHHhhc---------ccccccCCCCCCcccc
Q 012963          218 CNHLFHLACLRSWLDQG---------LNEMYSCPTCRKPLFV  250 (452)
Q Consensus       218 C~H~Fh~~Cl~~Wl~~~---------~~~~~~CP~CR~~~~~  250 (452)
                      |...+|.+|+-+|+..+         ..++.+||+||+.+..
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi  352 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI  352 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence            45778999999998654         1236799999998764

They are purported to be transmembrane protein-precursors but their function is unknown.

>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=93.29  E-value=0.035  Score=48.67  Aligned_cols=32  Identities=22%  Similarity=0.551  Sum_probs=25.9

Q ss_pred             cccccccchhhh--hh-hcccc------hhhHHHHHHHHHh
Q 012963          201 DECAICREPMAK--AK-KLLCN------HLFHLACLRSWLD  232 (452)
Q Consensus       201 ~~C~ICl~~~~~--~~-~l~C~------H~Fh~~Cl~~Wl~  232 (452)
                      -+|.||++...+  ++ .++|+      |.||.+|+.+|-+
T Consensus        27 ~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~   67 (134)
T PF05883_consen   27 VECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRR   67 (134)
T ss_pred             eeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHh
Confidence            479999999987  43 35676      9999999999953

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.

>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=93.16  E-value=0.048  Score=54.57  Aligned_cols=54  Identities=22%  Similarity=0.485  Sum_probs=40.5

Q ss_pred             ChHHhhccccccccccchhhhhhhcccchhhHHHHHHHH--HhhcccccccCCCCCCccc
Q 012963          192 TSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSW--LDQGLNEMYSCPTCRKPLF  249 (452)
Q Consensus       192 ~~~~l~~~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~W--l~~~~~~~~~CP~CR~~~~  249 (452)
                      +.++-.+.+..|.||-+...-...+||+|..|-.|-..-  |..    .+.||.||....
T Consensus        53 SaddtDEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~----~K~C~~CrTE~e  108 (493)
T COG5236          53 SADDTDEENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYM----QKGCPLCRTETE  108 (493)
T ss_pred             cccccccccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHh----ccCCCccccccc
Confidence            344444566789999999887788999999999995332  333    589999998753

>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function

Probab=93.16  E-value=0.16  Score=45.78  Aligned_cols=75  Identities=23%  Similarity=0.385  Sum_probs=47.4

Q ss_pred             ccccccccchhhhhhhccc------------ch-hhHHHHHHHHHhhcc---------------------------cccc
Q 012963          200 DDECAICREPMAKAKKLLC------------NH-LFHLACLRSWLDQGL---------------------------NEMY  239 (452)
Q Consensus       200 ~~~C~ICl~~~~~~~~l~C------------~H-~Fh~~Cl~~Wl~~~~---------------------------~~~~  239 (452)
                      +.+|+||+|.-.+.+.|.|            +- .-|..||++..+...                           ....
T Consensus         2 d~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L   81 (162)
T PF07800_consen    2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQPEL   81 (162)
T ss_pred             CccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCcccccccccccccc
Confidence            4589999999888776654            31 247889998865430                           0146


Q ss_pred             cCCCCCCcccc------------cccCcccCCCCcccCchHHHHHHH
Q 012963          240 SCPTCRKPLFV------------GRREIEANSRPGEVSSDEQLARQL  274 (452)
Q Consensus       240 ~CP~CR~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~~  274 (452)
                      .||+||..|..            .++.......|.-.++-.++..+.
T Consensus        82 ~CPLCRG~V~GWtvve~AR~~LN~K~RsC~~e~C~F~GtY~eLrKHa  128 (162)
T PF07800_consen   82 ACPLCRGEVKGWTVVEPARRFLNAKKRSCSQESCSFSGTYSELRKHA  128 (162)
T ss_pred             cCccccCceeceEEchHHHHHhccCCccCcccccccccCHHHHHHHH
Confidence            89999999853            122333344455556666665544

The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=93.14  E-value=0.049  Score=54.29  Aligned_cols=50  Identities=26%  Similarity=0.495  Sum_probs=34.5

Q ss_pred             cccccccccchhhhhhh----cccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          199 YDDECAICREPMAKAKK----LLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~----l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      +++-|+.|+|+|+...+    -|||-..|.-|...--+.   .+..||-||+.....
T Consensus        13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~---lngrcpacrr~y~de   66 (480)
T COG5175          13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQN---LNGRCPACRRKYDDE   66 (480)
T ss_pred             ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhh---ccCCChHhhhhcccc
Confidence            45569999999986533    378877777775443322   257999999976543

>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A

Probab=93.13  E-value=0.02  Score=41.21  Aligned_cols=40  Identities=28%  Similarity=0.711  Sum_probs=26.5

Q ss_pred             cccccchhhhhh--hcccc-----hhhHHHHHHHHHhhcccccccCCCC
Q 012963          203 CAICREPMAKAK--KLLCN-----HLFHLACLRSWLDQGLNEMYSCPTC  244 (452)
Q Consensus       203 C~ICl~~~~~~~--~l~C~-----H~Fh~~Cl~~Wl~~~~~~~~~CP~C  244 (452)
                      |-||++.-.+..  ..||+     -.-|..||.+|+....  ..+|++|
T Consensus         1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~~~--~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRESG--NRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHHHT---SB-TTT
T ss_pred             CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHhcC--CCcCCCC
Confidence            678888766533  44775     3579999999998632  4689988

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.73  E-value=0.069  Score=51.16  Aligned_cols=52  Identities=17%  Similarity=0.281  Sum_probs=42.2

Q ss_pred             cccccccccchhhhhh---hc-ccchhhHHHHHHHHHhhcccccccCCCCCCcccccccC
Q 012963          199 YDDECAICREPMAKAK---KL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGRRE  254 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~---~l-~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~~~~  254 (452)
                      ....||+|.+.+.+..   .| ||||+|+.+|..+....    ...||+|-.++...+..
T Consensus       220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~----D~v~pv~d~plkdrdiI  275 (303)
T KOG3039|consen  220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRK----DMVDPVTDKPLKDRDII  275 (303)
T ss_pred             cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccc----cccccCCCCcCcccceE
Confidence            3468999999997642   33 99999999999998887    48999999988765543

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

Probab=92.36  E-value=0.096  Score=56.96  Aligned_cols=60  Identities=37%  Similarity=0.694  Sum_probs=50.7

Q ss_pred             hhCCCCChHHhhccccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCccccccc
Q 012963          186 AALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGRR  253 (452)
Q Consensus       186 ~~l~~~~~~~l~~~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~~~  253 (452)
                      ..++.++.+++.+..+.|.+|++.+ ..+..+|.   |..|+.+|+..    +..||.|+..+..++.
T Consensus       465 ~~~s~~~~~~l~~~~~~~~~~~~~~-~~~~~~~~---~~~~l~~~~~~----~~~~pl~~~~~~~~~~  524 (543)
T KOG0802|consen  465 NSLSEATPSQLREPNDVCAICYQEM-SARITPCS---HALCLRKWLYV----QEVCPLCHTYMKEDDF  524 (543)
T ss_pred             CCCCCCChhhhhcccCcchHHHHHH-Hhcccccc---chhHHHhhhhh----ccccCCCchhhhcccc
Confidence            4567778888888899999999999 66677898   89999999998    5899999998876543

>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=92.32  E-value=0.06  Score=53.75  Aligned_cols=45  Identities=31%  Similarity=0.704  Sum_probs=38.3

Q ss_pred             cccccccchhhh------hhhcccchhhHHHHHHHHHhhcccccccCCCCCCcc
Q 012963          201 DECAICREPMAK------AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL  248 (452)
Q Consensus       201 ~~C~ICl~~~~~------~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~  248 (452)
                      ..|-||-+++..      |+.|.|||.||..|+.+-+...   ...||.||...
T Consensus         4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~---~i~cpfcR~~~   54 (296)
T KOG4185|consen    4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNS---RILCPFCRETT   54 (296)
T ss_pred             CceeecCccccccCcccCCcccccCceehHhHHHHHhcCc---eeeccCCCCcc
Confidence            479999999964      5678899999999998877764   67899999985

>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=91.94  E-value=0.044  Score=55.64  Aligned_cols=47  Identities=28%  Similarity=0.673  Sum_probs=40.5

Q ss_pred             cccccccchhhh----hhhcccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          201 DECAICREPMAK----AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       201 ~~C~ICl~~~~~----~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      ..|+||.+.+..    ...+-|||..|..||.+|+..    ...||.||+.+...
T Consensus       197 ~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~----~~kl~~~~rel~~~  247 (465)
T KOG0827|consen  197 GSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLAT----KRKLPSCRRELPKN  247 (465)
T ss_pred             hhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHH----HHHhHHHHhhhhhh
Confidence            479999988864    456799999999999999998    58999999998754

>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]

Probab=91.86  E-value=0.039  Score=61.18  Aligned_cols=49  Identities=29%  Similarity=0.572  Sum_probs=40.2

Q ss_pred             cccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCcccccc
Q 012963          201 DECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR  252 (452)
Q Consensus       201 ~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~~  252 (452)
                      ..|.+|.+ .+.+..++|+|.||.+|+.+-++...  ...||.||..+...+
T Consensus       455 ~~c~ic~~-~~~~~it~c~h~~c~~c~~~~i~~~~--~~~~~~cr~~l~~~~  503 (674)
T KOG1001|consen  455 HWCHICCD-LDSFFITRCGHDFCVECLKKSIQQSE--NAPCPLCRNVLKEKK  503 (674)
T ss_pred             cccccccc-cccceeecccchHHHHHHHhcccccc--CCCCcHHHHHHHHHH
Confidence            68999999 66677889999999999988776543  348999999886544

>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=91.67  E-value=0.12  Score=47.17  Aligned_cols=51  Identities=29%  Similarity=0.740  Sum_probs=36.3

Q ss_pred             cccccccchhhh-------hhhcccchhhHHHHHHHHHhhcccc-------cccCCCCCCccccc
Q 012963          201 DECAICREPMAK-------AKKLLCNHLFHLACLRSWLDQGLNE-------MYSCPTCRKPLFVG  251 (452)
Q Consensus       201 ~~C~ICl~~~~~-------~~~l~C~H~Fh~~Cl~~Wl~~~~~~-------~~~CP~CR~~~~~~  251 (452)
                      ..|.||+..--+       +.-..||..||.-|+..||+.-...       -..||.|..++..+
T Consensus       166 ~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK  230 (234)
T KOG3268|consen  166 GACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK  230 (234)
T ss_pred             hcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence            468888765432       2346899999999999999753111       24799999988654

>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0

Probab=90.96  E-value=0.64  Score=40.69  Aligned_cols=49  Identities=29%  Similarity=0.592  Sum_probs=37.9

Q ss_pred             cccccccchhhhhhhc----ccchhhHHHHHHH-HHhhcccccccCCCCCCccccc
Q 012963          201 DECAICREPMAKAKKL----LCNHLFHLACLRS-WLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       201 ~~C~ICl~~~~~~~~l----~C~H~Fh~~Cl~~-Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      .+|.||.|...+...|    -||-..|..|-.. |---.  ....||+|+.++...
T Consensus        81 YeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~--~ypvCPvCkTSFKss  134 (140)
T PF05290_consen   81 YECNICKETSAEERFLKPNECCGYSICNACYANLWKFCN--LYPVCPVCKTSFKSS  134 (140)
T ss_pred             eeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcc--cCCCCCccccccccc
Confidence            4899999998887666    4999999999765 54332  268999999987643

>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=90.66  E-value=0.15  Score=55.01  Aligned_cols=39  Identities=26%  Similarity=0.599  Sum_probs=31.6

Q ss_pred             ccccccchhhh----hhhcccchhhHHHHHHHHHhhcccccccCCCCCCc
Q 012963          202 ECAICREPMAK----AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKP  247 (452)
Q Consensus       202 ~C~ICl~~~~~----~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~  247 (452)
                      .|.||+..|..    ++.+-|||..|..|+..-..      .+|| |+.+
T Consensus        13 ~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn------~scp-~~~D   55 (861)
T KOG3161|consen   13 LCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN------ASCP-TKRD   55 (861)
T ss_pred             hchHHHHHHHHHhcCcccccccchHHHHHHHhHhh------ccCC-CCcc
Confidence            69999988864    56789999999999977554      5899 7654

>KOG1940 consensus Zn-finger protein [General function prediction only]

Probab=90.41  E-value=0.14  Score=50.51  Aligned_cols=42  Identities=36%  Similarity=0.815  Sum_probs=36.0

Q ss_pred             cccccccchhhh----hhhcccchhhHHHHHHHHHhhcccccccCCCCCC
Q 012963          201 DECAICREPMAK----AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRK  246 (452)
Q Consensus       201 ~~C~ICl~~~~~----~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~  246 (452)
                      ..||||.+.+-.    +..++|||.-|..|+.+....    +.+||+|.+
T Consensus       159 ~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~----~y~CP~C~~  204 (276)
T KOG1940|consen  159 FNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICE----GYTCPICSK  204 (276)
T ss_pred             CCCchhHHHhccccccCCccCcccchHHHHHHHHhcc----CCCCCcccc
Confidence            459999998754    567899999999999998877    589999988

>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.85  E-value=0.32  Score=54.44  Aligned_cols=34  Identities=29%  Similarity=0.608  Sum_probs=26.8

Q ss_pred             cccccccccchhhhh--hhcccchhhHHHHHHHHHh
Q 012963          199 YDDECAICREPMAKA--KKLLCNHLFHLACLRSWLD  232 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~--~~l~C~H~Fh~~Cl~~Wl~  232 (452)
                      .++.|.+|...+-..  ..-||||.||++|+.+-..
T Consensus       816 p~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v~  851 (911)
T KOG2034|consen  816 PQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHVL  851 (911)
T ss_pred             CccchHHhcchhhcCcceeeeccchHHHHHHHHHHH
Confidence            467999998887543  4569999999999976543

>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=88.78  E-value=0.12  Score=49.70  Aligned_cols=44  Identities=25%  Similarity=0.533  Sum_probs=29.6

Q ss_pred             ccccccchhh-hh-hhcccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          202 ECAICREPMA-KA-KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       202 ~C~ICl~~~~-~~-~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      .|..|...-. ++ ..+.|.|+||..|...=.      ...||.||+++...
T Consensus         5 hCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~------~~~C~lCkk~ir~i   50 (233)
T KOG4739|consen    5 HCNKCFRFPSQDPFFLTACRHVFCEPCLKASS------PDVCPLCKKSIRII   50 (233)
T ss_pred             EeccccccCCCCceeeeechhhhhhhhcccCC------ccccccccceeeee
Confidence            4776755433 12 245899999999974421      24999999997543

>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]

Probab=88.44  E-value=0.15  Score=50.49  Aligned_cols=42  Identities=36%  Similarity=0.775  Sum_probs=29.6

Q ss_pred             ccccccchhhh-hhhcccchhhHHHHHHHHHhhcccccccCCCCCCccc
Q 012963          202 ECAICREPMAK-AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF  249 (452)
Q Consensus       202 ~C~ICl~~~~~-~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~  249 (452)
                      .|--|--.+.. .+.+||.|+||.+|-+.  +.    .+.||.|-..+.
T Consensus        92 fCd~Cd~PI~IYGRmIPCkHvFCl~CAr~--~~----dK~Cp~C~d~Vq  134 (389)
T KOG2932|consen   92 FCDRCDFPIAIYGRMIPCKHVFCLECARS--DS----DKICPLCDDRVQ  134 (389)
T ss_pred             eecccCCcceeeecccccchhhhhhhhhc--Cc----cccCcCcccHHH
Confidence            57667544433 45679999999999754  22    369999977664

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=87.61  E-value=0.33  Score=47.73  Aligned_cols=35  Identities=29%  Similarity=0.627  Sum_probs=26.8

Q ss_pred             ccchhhHHHHHHHHHhhc---------ccccccCCCCCCccccc
Q 012963          217 LCNHLFHLACLRSWLDQG---------LNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       217 ~C~H~Fh~~Cl~~Wl~~~---------~~~~~~CP~CR~~~~~~  251 (452)
                      -|...+|.+|+.+|+...         ..++.+||+||+.+...
T Consensus       324 ~crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~  367 (381)
T KOG3899|consen  324 ICRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIR  367 (381)
T ss_pred             ccccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEe
Confidence            466889999999997543         22367999999998754

>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]

Probab=87.42  E-value=0.26  Score=57.19  Aligned_cols=44  Identities=25%  Similarity=0.506  Sum_probs=38.2

Q ss_pred             cccccccchhhh-hhhcccchhhHHHHHHHHHhhcccccccCCCCCCcc
Q 012963          201 DECAICREPMAK-AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL  248 (452)
Q Consensus       201 ~~C~ICl~~~~~-~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~  248 (452)
                      ..|.||++.+.. +-...|||.+|..|...|+..    +..||.|+...
T Consensus      1154 ~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~----~s~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1154 FVCEICLDILRNQGGIAGCGHEPCCRCDELWLYA----SSRCPICKSIK 1198 (1394)
T ss_pred             cchHHHHHHHHhcCCeeeechhHhhhHHHHHHHH----hccCcchhhhh
Confidence            489999999984 456689999999999999998    79999998644

>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]

Probab=85.91  E-value=0.38  Score=53.21  Aligned_cols=52  Identities=21%  Similarity=0.467  Sum_probs=38.5

Q ss_pred             cccccccccchhhhh--hhcccch-----hhHHHHHHHHHhhcccccccCCCCCCcccccc
Q 012963          199 YDDECAICREPMAKA--KKLLCNH-----LFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR  252 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~--~~l~C~H-----~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~~  252 (452)
                      .+..|-||..+-...  ..-||..     .-|.+|+.+|+.-..  ...|-+|+.+...++
T Consensus        11 d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~--~~kCdiChy~~~Fk~   69 (1175)
T COG5183          11 DKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSG--TKKCDICHYEYKFKD   69 (1175)
T ss_pred             cchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCC--Ccceeeecceeeeee
Confidence            346899999875443  3347763     489999999998542  579999999886543

>KOG3002 consensus Zn finger protein [General function prediction only]

Probab=85.71  E-value=0.34  Score=48.59  Aligned_cols=42  Identities=31%  Similarity=0.740  Sum_probs=33.0

Q ss_pred             cccccccchhhhhhhccc--chhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          201 DECAICREPMAKAKKLLC--NHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       201 ~~C~ICl~~~~~~~~l~C--~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      -+||||.+.+..|. ..|  ||.-|..|=.+   .    ...||.||.++..
T Consensus        49 leCPvC~~~l~~Pi-~QC~nGHlaCssC~~~---~----~~~CP~Cr~~~g~   92 (299)
T KOG3002|consen   49 LDCPVCFNPLSPPI-FQCDNGHLACSSCRTK---V----SNKCPTCRLPIGN   92 (299)
T ss_pred             ccCchhhccCcccc-eecCCCcEehhhhhhh---h----cccCCcccccccc
Confidence            38999999998874 456  59999999642   2    4789999999863

>PF04641 Rtf2: Rtf2 RING-finger

Probab=85.29  E-value=0.39  Score=47.23  Aligned_cols=50  Identities=18%  Similarity=0.335  Sum_probs=38.3

Q ss_pred             ccccccccccchhhhh---h-hcccchhhHHHHHHHHHhhcccccccCCCCCCcccccc
Q 012963          198 AYDDECAICREPMAKA---K-KLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR  252 (452)
Q Consensus       198 ~~~~~C~ICl~~~~~~---~-~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~~  252 (452)
                      .....|||+...|...   + ..||||+|...|+.+-- .    ...||+|-.++...+
T Consensus       111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~----~~~Cp~c~~~f~~~D  164 (260)
T PF04641_consen  111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-K----SKKCPVCGKPFTEED  164 (260)
T ss_pred             CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-c----cccccccCCccccCC
Confidence            3456899999999542   2 34999999999998874 2    468999999887543

>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=85.16  E-value=0.51  Score=46.49  Aligned_cols=46  Identities=26%  Similarity=0.544  Sum_probs=34.7

Q ss_pred             ccccccchhh-hh-hhc---ccchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          202 ECAICREPMA-KA-KKL---LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       202 ~C~ICl~~~~-~~-~~l---~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      .|++|..+-- .+ .++   +|+|..|.+|...-+..+   ...||.|-..+-.
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g---~~~CpeC~~iLRk   52 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLG---PAQCPECMVILRK   52 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcC---CCCCCcccchhhh
Confidence            5899986542 22 222   999999999999988876   6899999776644

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=84.07  E-value=0.63  Score=45.04  Aligned_cols=52  Identities=25%  Similarity=0.650  Sum_probs=38.0

Q ss_pred             cccccccccchhhhhhh----cccc-----hhhHHHHHHHHHhhcc----cccccCCCCCCcccc
Q 012963          199 YDDECAICREPMAKAKK----LLCN-----HLFHLACLRSWLDQGL----NEMYSCPTCRKPLFV  250 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~----l~C~-----H~Fh~~Cl~~Wl~~~~----~~~~~CP~CR~~~~~  250 (452)
                      .+..|=||+..=++...    -||.     |--|..||..|.+.+.    .....||-|+.....
T Consensus        19 ~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYii   83 (293)
T KOG3053|consen   19 LERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYII   83 (293)
T ss_pred             cceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhee
Confidence            34579999987665432    2774     8899999999997752    235689999987644

>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]

Probab=83.89  E-value=0.31  Score=53.54  Aligned_cols=50  Identities=26%  Similarity=0.557  Sum_probs=40.3

Q ss_pred             ccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          200 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       200 ~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      ..+|+||.+.+.++..+.|.|.|+..|+..-+..... ...||+|+..+..
T Consensus        21 ~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f~~~~~-~~~~~lc~~~~eK   70 (684)
T KOG4362|consen   21 ILECPICLEHVKEPSLLKCDHIFLKFCLNKLFESKKG-PKQCALCKSDIEK   70 (684)
T ss_pred             hccCCceeEEeeccchhhhhHHHHhhhhhceeeccCc-cccchhhhhhhhh
Confidence            3479999999999989999999999998765554322 4799999977653

>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=83.47  E-value=0.51  Score=48.43  Aligned_cols=45  Identities=22%  Similarity=0.539  Sum_probs=35.2

Q ss_pred             cccccccchhh---hhhhcccchhhHHHHHHHHHhhcccccccCCCCCC
Q 012963          201 DECAICREPMA---KAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRK  246 (452)
Q Consensus       201 ~~C~ICl~~~~---~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~  246 (452)
                      ..|||=.+.-.   +|.+|.|||+..++-+.+.-+.+.. ...||.|=.
T Consensus       335 F~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~-sfKCPYCP~  382 (394)
T KOG2817|consen  335 FICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQ-SFKCPYCPV  382 (394)
T ss_pred             eecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCe-eeeCCCCCc
Confidence            57999777654   3789999999999999987766422 478999944

>KOG4367 consensus Predicted Zn-finger protein [Function unknown]

Probab=83.16  E-value=0.46  Score=49.08  Aligned_cols=34  Identities=29%  Similarity=0.537  Sum_probs=29.4

Q ss_pred             ccccccccchhhhhhhcccchhhHHHHHHHHHhh
Q 012963          200 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQ  233 (452)
Q Consensus       200 ~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~  233 (452)
                      +-.|+||-.-|++|+.|||+|..|..|-..-+.+
T Consensus         4 elkc~vc~~f~~epiil~c~h~lc~~ca~~~~~~   37 (699)
T KOG4367|consen    4 ELKCPVCGSFYREPIILPCSHNLCQACARNILVQ   37 (699)
T ss_pred             cccCceehhhccCceEeecccHHHHHHHHhhccc
Confidence            3479999999999999999999999998765544

>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=82.32  E-value=0.28  Score=46.67  Aligned_cols=40  Identities=38%  Similarity=0.708  Sum_probs=30.2

Q ss_pred             ccccccchhhhhhhcccchh-hHHHHHHHHHhhcccccccCCCCCCccc
Q 012963          202 ECAICREPMAKAKKLLCNHL-FHLACLRSWLDQGLNEMYSCPTCRKPLF  249 (452)
Q Consensus       202 ~C~ICl~~~~~~~~l~C~H~-Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~  249 (452)
                      .|-.|.+.-.....+||.|. +|..|=..        -..||+|+....
T Consensus       160 ~Cr~C~~~~~~VlllPCrHl~lC~~C~~~--------~~~CPiC~~~~~  200 (207)
T KOG1100|consen  160 SCRKCGEREATVLLLPCRHLCLCGICDES--------LRICPICRSPKT  200 (207)
T ss_pred             cceecCcCCceEEeecccceEeccccccc--------CccCCCCcChhh
Confidence            39999888777777899986 66777543        257999988654

>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO)

Probab=81.34  E-value=0.6  Score=32.86  Aligned_cols=40  Identities=25%  Similarity=0.742  Sum_probs=20.3

Q ss_pred             cccccchhhhhhh---cccchhhHHHHHHHHHhhcccccccCCCC
Q 012963          203 CAICREPMAKAKK---LLCNHLFHLACLRSWLDQGLNEMYSCPTC  244 (452)
Q Consensus       203 C~ICl~~~~~~~~---l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~C  244 (452)
                      |.+|.+-...+.+   -.|+=.+|..|+..++....  ...||.|
T Consensus         1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~--~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRS--NPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-S--S-B-TTT
T ss_pred             CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCC--CCCCcCC
Confidence            5566555444332   24777899999999987742  2379988

; PDB: 3NW0_A 2CT0_A.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	452
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		1e-06
4g3o_A	58	Crystal Structure Of The Cue Domain Of The E3 Ubiqu		8e-04

>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring Finger) Domain Of Ring Finger Protein 126 Length = 78

Iteration: 1
 Score = 51.2 bits (121), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 23/50 (46%), Positives = 30/50 (60%), Gaps = 7/50 (14%)
Query: 202 ECAICREPMA---KAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 248
           EC +C+E  A     ++L CNHLFH +C+  WL+Q      SCP CRK L
Sbjct: 17  ECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQ----HDSCPVCRKSL 62

>pdb|4G3O|A Chain A, Crystal Structure Of The Cue Domain Of The E3 Ubiquitin Ligase Amfr (Gp78) Length = 58

Iteration: 1
 Score = 41.6 bits (96), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 17/37 (45%), Positives = 25/37 (67%)
Query: 415 AMAETVREVLPHMPEDLIFQDLQRTNSATITVNNLLQ 451
           AMA  ++E+ P +P  L+ QDLQ T S  IT +N+L+
Sbjct: 19  AMAHQIQEMFPQVPYHLVLQDLQLTRSVEITTDNILE 55

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	452
2ejs_A	58	Autocrine motility factor receptor, isoform 2; CUE	4e-15
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	4e-14
2ekf_A	61	Ancient ubiquitous protein 1; CUE, ubiquitin ligas	8e-14
4g3o_A	58	E3 ubiquitin-protein ligase AMFR; all-helical stru	2e-13
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	3e-13
2ect_A	78	Ring finger protein 126; metal binding protein, st	6e-13
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	7e-13
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	6e-12
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	6e-12
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	2e-11
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	4e-11
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	6e-11
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	1e-10
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	2e-10
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	2e-10
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	4e-10
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	6e-10
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	1e-09
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	2e-09
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	2e-09
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	5e-09
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	7e-09
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	9e-09
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	1e-08
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	1e-08
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	1e-08
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	2e-08
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	5e-08
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	7e-08
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	9e-08
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	2e-07
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	2e-07
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	2e-07
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	3e-07
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	3e-07
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	3e-07
1z6u_A	150	NP95-like ring finger protein isoform B; structura	4e-07
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	6e-07
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	9e-07
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	1e-06
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	2e-06
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	3e-06
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	4e-06
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	5e-06
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	5e-06
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	8e-06
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	6e-06
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	7e-06
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	7e-06
1fp0_A	88	KAP-1 corepressor; PHD domain, C3HC4 type zinc bin	9e-06
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	1e-05
3nw0_A	238	Non-structural maintenance of chromosomes element	2e-05
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	3e-05
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	5e-05
1xwh_A	66	Autoimmune regulator; PHD domain, Zn binding domai	1e-04
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	2e-04
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	2e-04
2puy_A	60	PHD finger protein 21A; PHD finger, histone CODE,	2e-04
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	2e-04
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	3e-04
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	4e-04
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	4e-04
2lbm_A	142	Transcriptional regulator ATRX; metal binding prot	5e-04
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	5e-04
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	6e-04
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	7e-04

>2ejs_A Autocrine motility factor receptor, isoform 2; CUE, ubiquitin ligase complex, ubiquitin-conjugating enzyme, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 58

 Score = 68.4 bits (167), Expect = 4e-15
 Identities = 19/50 (38%), Positives = 32/50 (64%)

Query: 402 TSRSANENIANILAMAETVREVLPHMPEDLIFQDLQRTNSATITVNNLLQ 451
           +S S+  + + + AMA  ++E+ P +P  L+ QDLQ T S  IT +N+L+
Sbjct: 2   SSGSSGASNSQLNAMAHQIQEMFPQVPYHLVLQDLQLTRSVEITTDNILE 51

>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 = 65.8 bits (161), Expect = 4e-14
 Identities = 18/54 (33%), Positives = 20/54 (37%), Gaps = 8/54 (14%)

Query: 200 DDECAICREPMA----KAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 249
              C IC E +      A  L C HL H  C    L +G    Y CP C  P  
Sbjct: 5   SSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEG----YRCPLCSGPSS 54

>2ekf_A Ancient ubiquitous protein 1; CUE, ubiquitin ligase complex, ubiquitin-conjugating enzyme, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 61

 Score = 64.9 bits (158), Expect = 8e-14
 Identities = 18/50 (36%), Positives = 31/50 (62%)

Query: 402 TSRSANENIANILAMAETVREVLPHMPEDLIFQDLQRTNSATITVNNLLQ 451
           +S S+      +  +A+ V+EVLPH+P  +I +DL +T    +T+ NLL+
Sbjct: 2   SSGSSGSPDVQLATLAQRVKEVLPHVPLGVIQRDLAKTGCVDLTITNLLE 51

>4g3o_A E3 ubiquitin-protein ligase AMFR; all-helical structure, BAG6; 1.60A {Homo sapiens} Length = 58

 Score = 63.8 bits (155), Expect = 2e-13
 Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 2/57 (3%)

Query: 395 GGAHARSTSRSANENIANILAMAETVREVLPHMPEDLIFQDLQRTNSATITVNNLLQ 451
           G    R +     +    + AMA  ++E+ P +P  L+ QDLQ T S  IT +N+L+
Sbjct: 1   GSMGYRGSENLYFQG--QLNAMAHQIQEMFPQVPYHLVLQDLQLTRSVEITTDNILE 55

>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 = 64.9 bits (157), Expect = 3e-13
 Identities = 20/80 (25%), Positives = 30/80 (37%), Gaps = 19/80 (23%)

Query: 192 TSEELRAYDDECAICREPMAKA------------------KKLLCNHLFHLACLRSWLDQ 233
           T E   A +++C IC E +A A                  +   C+H FHL CL +    
Sbjct: 17  TEELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCN 76

Query: 234 GLNEMY-SCPTCRKPLFVGR 252
           G  +    CP+C+       
Sbjct: 77  GNKDGSLQCPSCKTIYGEKT 96

>2ect_A Ring finger protein 126; metal binding protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} Length = 78

 Score = 62.8 bits (153), Expect = 6e-13
 Identities = 25/59 (42%), Positives = 33/59 (55%), Gaps = 7/59 (11%)

Query: 193 SEELRAYDDECAICREPMA---KAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 248
           +EE      EC +C+E  A     ++L CNHLFH +C+  WL+Q      SCP CRK L
Sbjct: 8   TEEHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQ----HDSCPVCRKSL 62

>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid herpesvirus 1} SCOP: g.44.1.1 Length = 68

 Score = 62.4 bits (152), Expect = 7e-13
 Identities = 18/61 (29%), Positives = 28/61 (45%), Gaps = 5/61 (8%)

Query: 200 DDECAICREPMA-KAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGRREIEAN 258
            + C IC E  +  +  L C H F   C+  W+ Q      +CP C+ P+      IE++
Sbjct: 5   AERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQ----NPTCPLCKVPVESVVHTIESD 60

Query: 259 S 259
           S
Sbjct: 61  S 61

>2ea6_A Ring finger protein 4; RNF4, RES4-26, ring domain, zinc- binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 69

 Score = 59.9 bits (145), Expect = 6e-12
 Identities = 18/67 (26%), Positives = 27/67 (40%), Gaps = 12/67 (17%)

Query: 190 DATSEELRAYDD-ECAICREPMAKAKK-------LLCNHLFHLACLRSWLDQGLNEMYSC 241
            ++   LR      C IC +  ++  +         C H+F   CLR  L        +C
Sbjct: 4   GSSGTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA----NTC 59

Query: 242 PTCRKPL 248
           PTCRK +
Sbjct: 60  PTCRKKI 66

>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 = 59.9 bits (145), Expect = 6e-12
 Identities = 10/49 (20%), Positives = 15/49 (30%), Gaps = 3/49 (6%)

Query: 201 DECAICREPMAKAKKLL-CNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 248
             C IC   + + +    C    HL C+  +          CP C    
Sbjct: 16  KICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEP--RCPHCNDYW 62

>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 = 59.5 bits (144), Expect = 2e-11
 Identities = 25/105 (23%), Positives = 43/105 (40%), Gaps = 8/105 (7%)

Query: 181 LGHLHAALPDATSEELRAYDD--ECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNE 237
           +GH H        + + +  +   C IC E +  A+    C+ L   +C+R WL +   +
Sbjct: 1   MGHHHHHHSHMDEQSVESIAEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQ 60

Query: 238 MYSCPTCRKPLFVGRREIEANSRPGEVSSDEQLARQLSMGLDRQN 282
              CP CR P  +  RE+       EV+      +  S+    +N
Sbjct: 61  ---CPHCRAP--LQLRELVNCRWAEEVTQQLDTLQLCSLTKHEEN 100

>2ecn_A Ring finger protein 141; RNF141, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 70

 Score = 57.8 bits (140), Expect = 4e-11
 Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 5/49 (10%)

Query: 200 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 248
           ++EC IC +  A    L C H F   C+  W D+  +   +CP CR  +
Sbjct: 15  EEECCICMDGRAD-LILPCAHSFCQKCIDKWSDR--HR--NCPICRLQM 58

>2csy_A Zinc finger protein 183-like 1; ring finger protein 161, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 81

 Score = 57.5 bits (139), Expect = 6e-11
 Identities = 12/62 (19%), Positives = 17/62 (27%), Gaps = 4/62 (6%)

Query: 186 AALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCR 245
            +   +   E       C ICR+         C H F  +C              C  C 
Sbjct: 1   GSSGSSGGSEEEEIPFRCFICRQAFQNPVVTKCRHYFCESCALEH----FRATPRCYICD 56

Query: 246 KP 247
           +P
Sbjct: 57  QP 58

>2l0b_A E3 ubiquitin-protein ligase praja-1; zinc finger, NESG, structural genomics, PSI-2, protein struc initiative; NMR {Homo sapiens} Length = 91

 Score = 57.0 bits (138), Expect = 1e-10
 Identities = 19/69 (27%), Positives = 26/69 (37%), Gaps = 10/69 (14%)

Query: 186 AALPDAT---SEELRAYDDECAICREPMA---KAKKLLCNHLFHLACLRSWLDQGLNEMY 239
            ALP+            +  C IC         A +L C+H FH  C+  W    L +  
Sbjct: 23  DALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIW----LQKSG 78

Query: 240 SCPTCRKPL 248
           +CP CR   
Sbjct: 79  TCPVCRCMF 87

>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 71

 Score = 56.0 bits (135), Expect = 2e-10
 Identities = 14/59 (23%), Positives = 23/59 (38%), Gaps = 5/59 (8%)

Query: 191 ATSEELRAYDD-ECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 248
           ++     +    ECAIC +       L C H+F   C++     G      C  CR+ +
Sbjct: 5   SSGNTAPSLTVPECAICLQTCVHPVSLPCKHVFCYLCVKGASWLG----KRCALCRQEI 59

>2xeu_A Ring finger protein 4; transcription, zinc-finger, metal-binding; HET: SUC; 1.50A {Homo sapiens} Length = 64

 Score = 55.5 bits (134), Expect = 2e-10
 Identities = 16/54 (29%), Positives = 21/54 (38%), Gaps = 11/54 (20%)

Query: 202 ECAICREPMA-------KAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 248
            C IC +  +             C H+F   CLR  L        +CPTCRK +
Sbjct: 5   SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA----NTCPTCRKKI 54

>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 = 54.8 bits (132), Expect = 4e-10
 Identities = 16/54 (29%), Positives = 23/54 (42%), Gaps = 11/54 (20%)

Query: 202 ECAICREPMAKAKK-------LLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 248
            C IC +  ++  +         C H+F   CLR  L        +CPTCRK +
Sbjct: 12  SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA----NTCPTCRKKI 61

>2ep4_A Ring finger protein 24; zinc binding, ubiquitin, E3 enzyme, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 74

 Score = 54.4 bits (131), Expect = 6e-10
 Identities = 16/53 (30%), Positives = 21/53 (39%), Gaps = 7/53 (13%)

Query: 200 DDECAICREPMA---KAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 249
            + CA+C E      +     C H FH  CL  WL+        CP C  P+ 
Sbjct: 15  HELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEV----RKVCPLCNMPVL 63

>3ztg_A E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mRNA processing, mRNA splicing; NMR {Homo sapiens} Length = 92

 Score = 54.0 bits (130), Expect = 1e-09
 Identities = 19/74 (25%), Positives = 35/74 (47%), Gaps = 9/74 (12%)

Query: 186 AALPDATSEELRAYDDECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTC 244
            +  D   +EL      C IC++ M  A  +  C + +   C+R+ L +  ++ ++CPTC
Sbjct: 4   GSEDDPIPDELL-----CLICKDIMTDAVVIPCCGNSYCDECIRTALLE--SDEHTCPTC 56

Query: 245 RKPLFVGRREIEAN 258
            +   V    + AN
Sbjct: 57  HQN-DVSPDALIAN 69

>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 = 58.2 bits (140), Expect = 2e-09
 Identities = 17/57 (29%), Positives = 22/57 (38%), Gaps = 3/57 (5%)

Query: 192 TSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 248
              E+ +    C IC E     K   C HL   +CL SW +        CP CR  +
Sbjct: 324 LYCEMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQG---CPFCRCEI 377

>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} Length = 69

 Score = 52.4 bits (126), Expect = 2e-09
 Identities = 17/52 (32%), Positives = 26/52 (50%), Gaps = 7/52 (13%)

Query: 200 DDECAICREPMA---KAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 248
           +++C IC   +      ++L C HLFH  C+  WL    N+   CP CR  +
Sbjct: 14  EEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLIT--NK--KCPICRVDI 61

>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 = 51.7 bits (124), Expect = 5e-09
 Identities = 18/75 (24%), Positives = 34/75 (45%), Gaps = 9/75 (12%)

Query: 186 AALPDATSEELRAYDDECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTC 244
           +   D   +EL      C IC++ M  A  +  C + +   C+R+ L +  ++ ++CPTC
Sbjct: 6   SGEDDPIPDELL-----CLICKDIMTDAVVIPCCGNSYCDECIRTALLE--SDEHTCPTC 58

Query: 245 RKPLFVGRREIEANS 259
            +   V    +   S
Sbjct: 59  HQN-DVSPDALSGPS 72

>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 = 52.6 bits (126), Expect = 7e-09
 Identities = 19/76 (25%), Positives = 29/76 (38%), Gaps = 5/76 (6%)

Query: 186 AALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCR 245
            ALP      L     +C IC E + +   L CNH     C +S +++       CP CR
Sbjct: 3   MALPKDAIPSLSEC--QCGICMEILVEPVTLPCNHTLCKPCFQSTVEKA---SLCCPFCR 57

Query: 246 KPLFVGRREIEANSRP 261
           + +    R     +  
Sbjct: 58  RRVSSWTRYHTRRNSL 73

>4epo_C E3 ubiquitin-protein ligase RNF8; coiled-coil, E3 ubiquitin ligase, protein binding complex; 4.80A {Homo sapiens} Length = 149

 Score = 53.1 bits (127), Expect = 9e-09
 Identities = 16/49 (32%), Positives = 23/49 (46%), Gaps = 4/49 (8%)

Query: 200 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 248
           + +C IC E   +A  L C H F   C+  W+ +       CP CRK +
Sbjct: 64  ELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRK----IECPICRKDI 108

>1x4j_A Ring finger protein 38; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 75

 Score = 50.8 bits (122), Expect = 1e-08
 Identities = 17/60 (28%), Positives = 23/60 (38%), Gaps = 7/60 (11%)

Query: 192 TSEELRAYDDECAICR---EPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 248
                ++    C +C    E     + L CNH FH  C+  WL    N   +CP CR   
Sbjct: 15  NPNNHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKA--NR--TCPICRADS 70

>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 72

 Score = 50.9 bits (122), Expect = 1e-08
 Identities = 13/63 (20%), Positives = 21/63 (33%), Gaps = 7/63 (11%)

Query: 190 DATSEELRAYDDE--CAICREPMAKAKKLL-CNHLFHLACLRSWLDQGLNEMYSCPTCRK 246
             +S  L        C+IC+  +  A  +  C H F  +C+             CP C  
Sbjct: 3   SGSSGNLSELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYS----NRCPKCNI 58

Query: 247 PLF 249
            + 
Sbjct: 59  VVH 61

>2ecy_A TNF receptor-associated factor 3; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 66

 Score = 50.2 bits (120), Expect = 1e-08
 Identities = 10/48 (20%), Positives = 19/48 (39%), Gaps = 3/48 (6%)

Query: 202 ECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 249
           +C  C   +   K+  C H F  +C+ + L         C  C++ + 
Sbjct: 17  KCEKCHLVLCSPKQTECGHRFCESCMAALLSSS---SPKCTACQESIV 61

>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 = 51.9 bits (124), Expect = 2e-08
 Identities = 13/57 (22%), Positives = 22/57 (38%), Gaps = 4/57 (7%)

Query: 202 ECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGRREIEAN 258
           +C  C+E + +    +C H     CL          ++SCP CR         ++ N
Sbjct: 54  QCICCQELVFRPITTVCQHNVCKDCLDRSFRAQ---VFSCPACRYD-LGRSYAMQVN 106

>2ecl_A Ring-box protein 2; RNF7, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 81

 Score = 49.1 bits (117), Expect = 5e-08
 Identities = 16/59 (27%), Positives = 24/59 (40%), Gaps = 8/59 (13%)

Query: 198 AYDDECAICREPMAKAKKLL----CNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 252
              D C  C+    +   ++    CNH FH  C+  W+ Q       CP C++   V R
Sbjct: 24  QVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNR----CPLCQQDWVVQR 78

>1iym_A EL5; ring-H2 finger, ubiquitin ligase, DNA binding protein; NMR {Oryza sativa} SCOP: g.44.1.1 Length = 55

 Score = 48.0 bits (115), Expect = 7e-08
 Identities = 16/55 (29%), Positives = 23/55 (41%), Gaps = 8/55 (14%)

Query: 200 DDECAICREPMAKAKKL----LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 250
             ECA+C   +   ++      C H FH  C+  WL        +CP CR  + V
Sbjct: 5   GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSH----STCPLCRLTVVV 55

>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 = 49.4 bits (118), Expect = 9e-08
 Identities = 15/74 (20%), Positives = 27/74 (36%), Gaps = 14/74 (18%)

Query: 202 ECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGRREIEANSRP 261
           EC IC   + +A +  C H F  AC+   +    ++   CP   + L             
Sbjct: 20  ECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHK---CPVDNEILL-----------E 65

Query: 262 GEVSSDEQLARQLS 275
            ++  D    R++ 
Sbjct: 66  NQLFPDNFAKREIL 79

>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 = 48.8 bits (116), Expect = 2e-07
 Identities = 20/65 (30%), Positives = 26/65 (40%), Gaps = 11/65 (16%)

Query: 193 SEELRAYDD--------ECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTC 244
           S +L A D          C IC   +A   +  C HLF   C+   L    +    CP+C
Sbjct: 8   STKLLAVDFPAHFVKSISCQICEHILADPVETSCKHLFCRICILRCLKVMGS---YCPSC 64

Query: 245 RKPLF 249
           R P F
Sbjct: 65  RYPCF 69

>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 = 50.1 bits (119), Expect = 2e-07
 Identities = 13/48 (27%), Positives = 20/48 (41%), Gaps = 3/48 (6%)

Query: 202 ECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 249
           EC IC   + +A +  C H F  AC+   +    +    CP   + L 
Sbjct: 20  ECPICLMALREAVQTPCGHRFCKACIIKSIRDAGH---KCPVDNEILL 64

>4a0k_B E3 ubiquitin-protein ligase RBX1; ligase-DNA-binding protein-DNA complex, DNA-binding protein- complex; HET: DNA 3DR; 5.93A {Mus musculus} Length = 117

 Score = 48.3 bits (114), Expect = 2e-07
 Identities = 16/66 (24%), Positives = 20/66 (30%), Gaps = 22/66 (33%)

Query: 200 DDECAICREPMAK------------------AKKLLCNHLFHLACLRSWLDQGLNEMYSC 241
            D CAICR  +                        +CNH FH  C+  WL         C
Sbjct: 48  VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQ----VC 103

Query: 242 PTCRKP 247
           P   + 
Sbjct: 104 PLDNRE 109

>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 = 47.5 bits (113), Expect = 3e-07
 Identities = 12/60 (20%), Positives = 22/60 (36%), Gaps = 7/60 (11%)

Query: 192 TSEELRAYDDE--CAICREPMAKAKKLL-CNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 248
           T  ++   +    C +C      A  ++ C H F   C+  +L+        CP C   +
Sbjct: 5   TRIKITELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLE----TSKYCPICDVQV 60

>3k1l_B Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A {Drosophila melanogaster} Length = 381

 Score = 51.0 bits (121), Expect = 3e-07
 Identities = 17/93 (18%), Positives = 25/93 (26%), Gaps = 19/93 (20%)

Query: 177 LRIALGHLHAALPDATSEELRAYDD----ECAIC--------REPMAKAKKLLCNHLFHL 224
           L       +  +PD +       +D     C IC          P+       C    H 
Sbjct: 281 LLRMFDLCYFPMPDWSDGPKLDEEDNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHA 340

Query: 225 ACLRSWLDQGLNEMYS-------CPTCRKPLFV 250
            CL  W    ++           CP C+  L  
Sbjct: 341 VCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLST 373

>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 1u6g_B 2hye_D* 4a0c_D 4a0l_F* 1ldj_B 1ldk_C 2lgv_A Length = 106

 Score = 47.5 bits (112), Expect = 3e-07
 Identities = 16/66 (24%), Positives = 20/66 (30%), Gaps = 22/66 (33%)

Query: 200 DDECAICREPMAKAK------------------KLLCNHLFHLACLRSWLDQGLNEMYSC 241
            D CAICR  +                        +CNH FH  C+  WL         C
Sbjct: 37  VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQ----VC 92

Query: 242 PTCRKP 247
           P   + 
Sbjct: 93  PLDNRE 98

>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 = 48.5 bits (115), Expect = 4e-07
 Identities = 13/47 (27%), Positives = 20/47 (42%), Gaps = 3/47 (6%)

Query: 202 ECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 248
            C  C+E + +     C H     CL+        +++SCP CR  L
Sbjct: 80  MCVCCQELVYQPVTTECFHNVCKDCLQRSFK---AQVFSCPACRHDL 123

>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 = 47.8 bits (113), Expect = 6e-07
 Identities = 15/74 (20%), Positives = 24/74 (32%), Gaps = 5/74 (6%)

Query: 202 ECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGRREIEANSRP 261
            C+ CR  + +  +  C H +   CL S L  G     +C  C         E  +    
Sbjct: 33  LCSACRNVLRRPFQAQCGHRYCSFCLASILSSG---PQNCAACVHEGI--YEEGISILES 87

Query: 262 GEVSSDEQLARQLS 275
                D    R++ 
Sbjct: 88  SSAFPDNAARREVE 101

>1e4u_A Transcriptional repressor NOT4; gene regulation, transcriptional control; NMR {Homo sapiens} SCOP: g.44.1.1 PDB: 1ur6_B Length = 78

 Score = 45.5 bits (107), Expect = 9e-07
 Identities = 13/52 (25%), Positives = 16/52 (30%), Gaps = 7/52 (13%)

Query: 200 DDECAICREPM----AKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKP 247
             EC +C EP+           C +     C              CP CRKP
Sbjct: 11  PVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENG---LCPACRKP 59

>2ysl_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 73

 Score = 45.0 bits (107), Expect = 1e-06
 Identities = 14/60 (23%), Positives = 25/60 (41%), Gaps = 5/60 (8%)

Query: 191 ATSEELRAYDDE--CAICREPMAKAKKLLCNHLFHLACL-RSWLDQGLNEMYSCPTCRKP 247
           A+ + +    +E  C IC + + K   + C H F L C+ +          + CP C+  
Sbjct: 9   ASGQFVNKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSC--GFFKCPLCKTS 66

>1bor_A Transcription factor PML; proto-oncogene, nuclear bodies (PODS), leukemia, transcription regulation; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 56

 Score = 43.9 bits (104), Expect = 2e-06
 Identities = 12/47 (25%), Positives = 15/47 (31%), Gaps = 7/47 (14%)

Query: 202 ECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 248
            C  C+      K L C H     CL +           CP C+ P 
Sbjct: 8   RCQQCQAEAKCPKLLPCLHTLCSGCLEA-------SGMQCPICQAPW 47

>2ecw_A Tripartite motif-containing protein 30; metal binding protein, structural genomics, NPPSFA; NMR {Mus musculus} Length = 85

 Score = 44.3 bits (105), Expect = 3e-06
 Identities = 17/64 (26%), Positives = 29/64 (45%), Gaps = 7/64 (10%)

Query: 186 AALPDATSEELRAYDDECAICREPMAKAKKLLCNHLFHLACLRSWLD--QGLNEMYSCPT 243
           +++ +   EE+      C IC E + +     CNH F  AC+    +  +  +   +CP 
Sbjct: 10  SSVLEMIKEEV-----TCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPV 64

Query: 244 CRKP 247
           CR P
Sbjct: 65  CRVP 68

>2ct2_A Tripartite motif protein 32; zinc-finger protein HT2A, TAT- interacting protein, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 88

 Score = 43.9 bits (104), Expect = 4e-06
 Identities = 21/67 (31%), Positives = 25/67 (37%), Gaps = 10/67 (14%)

Query: 185 HAALPDATSEELRAYDDECAICREP----MAKAKKLLCNHLFHLACLRSWLDQGLNEMYS 240
            +   DA  E L     EC IC E       + K L C H     CL   L   +N +  
Sbjct: 5   SSGNLDALREVL-----ECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGV-R 58

Query: 241 CPTCRKP 247
           CP C K 
Sbjct: 59  CPFCSKI 65

>2y43_A E3 ubiquitin-protein ligase RAD18; DNA repair, metal-binding, translesion synthesis, UB conjugation pathway; 1.80A {Homo sapiens} Length = 99

 Score = 44.0 bits (104), Expect = 5e-06
 Identities = 20/90 (22%), Positives = 35/90 (38%), Gaps = 12/90 (13%)

Query: 194 EELRAYDDECAICREPMAKAKKLL-CNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 252
           + LR     C IC E    A  +  C+H +   C+R +L    +    CPTC   +    
Sbjct: 21  DLLR-----CGICFEYFNIAMIIPQCSHNYCSLCIRKFL----SYKTQCPTCCVTVT--E 69

Query: 253 REIEANSRPGEVSSDEQLARQLSMGLDRQN 282
            +++ N    E+      AR   +    ++
Sbjct: 70  PDLKNNRILDELVKSLNFARNHLLQFALES 99

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus} Length = 133

 Score = 44.8 bits (105), Expect = 5e-06
 Identities = 16/54 (29%), Positives = 23/54 (42%), Gaps = 11/54 (20%)

Query: 202 ECAICREPMAKAKK-------LLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 248
            C IC +  ++  +         C H+F   CLR  L        +CPTCRK +
Sbjct: 74  SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK----NANTCPTCRKKI 123

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus} Length = 133

 Score = 44.4 bits (104), Expect = 8e-06
 Identities = 16/54 (29%), Positives = 23/54 (42%), Gaps = 11/54 (20%)

Query: 202 ECAICREPMAKAKK-------LLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 248
            C IC +  ++  +         C H+F   CLR  L        +CPTCRK +
Sbjct: 9   SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK----NANTCPTCRKKI 58

>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 = 43.0 bits (102), Expect = 6e-06
 Identities = 17/73 (23%), Positives = 26/73 (35%), Gaps = 7/73 (9%)

Query: 191 ATSEELRAYDDE--CAICREPMAKAKKLLCNHLFHLACLRSWLDQ---GLNEMYSCPTCR 245
            +S       +E  C IC E + +   L C H    AC+     +    +    SCP C 
Sbjct: 1   GSSGSSGNVQEEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCG 60

Query: 246 KPLFVGRREIEAN 258
                    ++AN
Sbjct: 61  IS--YSFEHLQAN 71

>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 = 44.1 bits (104), Expect = 7e-06
 Identities = 13/55 (23%), Positives = 20/55 (36%), Gaps = 12/55 (21%)

Query: 194 EELRAYDDECAICREPMAKAKKLL-CNHLFHLACLRSWLDQGLNEMYSCPTCRKP 247
           + LR     C+ C   + +   L  C H+F   C+   +         CP C  P
Sbjct: 21  KLLR-----CSRCTNILREPVCLGGCEHIFCSNCVSDCIG------TGCPVCYTP 64

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 56

 Score = 42.4 bits (100), Expect = 7e-06
 Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 8/58 (13%)

Query: 193 SEELRAYDDECAICREPMAKAKKLL----CNHLFHLACLRSWLDQGLNEMYSCPTCRK 246
           S     ++D C++CR+      +LL    C+ ++HL CL   L      M+ CP C+ 
Sbjct: 2   SSGSSGHEDFCSVCRKS----GQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQD 55

>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain, -structure, transcription; NMR {Homo sapiens} SCOP: g.50.1.2 Length = 88

 Score = 43.0 bits (101), Expect = 9e-06
 Identities = 17/78 (21%), Positives = 27/78 (34%), Gaps = 8/78 (10%)

Query: 183 HLHAALPDATSEELRAYDDECAICREPMAKAKKLL----CNHLFHLACLRSWLDQGLNEM 238
           H H +        L      C +C++P      L+    C   FHL C    L     E 
Sbjct: 8   HHHGSDIIDEFGTLDDSATICRVCQKP----GDLVMCNQCEFCFHLDCHLPALQDVPGEE 63

Query: 239 YSCPTCRKPLFVGRREIE 256
           +SC  C     +   +++
Sbjct: 64  WSCSLCHVLPDLKEEDVD 81

>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 = 43.2 bits (102), Expect = 1e-05
 Identities = 25/108 (23%), Positives = 45/108 (41%), Gaps = 16/108 (14%)

Query: 184 LHAALPDATSEELRAYDDE--CAIC----REPMAKAKKLLCNHLFHLACLRSWLDQGLNE 237
           L A   +     + A      C IC    +EP++      C+H+F   C+   L+Q    
Sbjct: 3   LSALRVEEVQNVINAMQKILECPICLELIKEPVS----TKCDHIFCKFCMLKLLNQ-KKG 57

Query: 238 MYSCPTCRKPLFVGRREIEANSRPGEVSSD---EQLARQLSMGLDRQN 282
              CP C+    + +R ++ ++R  ++  +      A QL  GL+  N
Sbjct: 58  PSQCPLCKND--ITKRSLQESTRFSQLVEELLKIICAFQLDTGLEYAN 103

>3nw0_A Non-structural maintenance of chromosomes element homolog; E3 ligase, Zn, metal binding protein; 2.92A {Homo sapiens} Length = 238

 Score = 45.1 bits (106), Expect = 2e-05
 Identities = 13/66 (19%), Positives = 20/66 (30%), Gaps = 6/66 (9%)

Query: 187 ALPDATSEELRAYDDE---CAICREPMAKAKK-LLCNHLFHLACLRSWLDQGLNEMYSCP 242
           A+ +        Y D    C IC   + + +    C    HL C+  +          CP
Sbjct: 164 AILEMEQYIRETYPDAVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEP--RCP 221

Query: 243 TCRKPL 248
            C    
Sbjct: 222 HCNDYW 227

>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 = 43.4 bits (102), Expect = 3e-05
 Identities = 17/57 (29%), Positives = 24/57 (42%), Gaps = 5/57 (8%)

Query: 203 CAICREPMAKAKKLL-CNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGRREIEAN 258
           C IC + +        C H F   C+ + L  G      CPTCRK   V +R +  +
Sbjct: 57  CPICLDMLKNTMTTKECLHRFCADCIITALRSG---NKECPTCRKK-LVSKRSLRPD 109

>2ecv_A Tripartite motif-containing protein 5; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 85

 Score = 40.7 bits (96), Expect = 5e-05
 Identities = 16/47 (34%), Positives = 19/47 (40%), Gaps = 2/47 (4%)

Query: 203 CAICREPMAKAKKLLCNHLFHLACLRSWLD--QGLNEMYSCPTCRKP 247
           C IC E + +   L C H F  ACL +            SCP CR  
Sbjct: 22  CPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRIS 68

>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced, nucleosome, E3 ligase, transcription; NMR {Homo sapiens} PDB: 2ke1_A 2kft_A Length = 66

 Score = 39.4 bits (92), Expect = 1e-04
 Identities = 17/50 (34%), Positives = 26/50 (52%), Gaps = 8/50 (16%)

Query: 200 DDECAICREPMAKAKKLL----CNHLFHLACLRSWLDQGLNEMYSCPTCR 245
           +DECA+CR+      +L+    C   FHLACL   L +  +  + C +C 
Sbjct: 8   EDECAVCRDG----GELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCL 53

>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 Length = 94

 Score = 39.8 bits (93), Expect = 2e-04
 Identities = 16/65 (24%), Positives = 27/65 (41%), Gaps = 9/65 (13%)

Query: 202 ECAICRE--PMAKAKKLL-CNHLFHLACLRSWLDQGLNE----MYSCP--TCRKPLFVGR 252
            C +C    P+ +   +  C  +F   CL+ +++  + E      SCP   C K   +  
Sbjct: 7   GCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQE 66

Query: 253 REIEA 257
            EIE 
Sbjct: 67  NEIEC 71

>2ysj_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 63

 Score = 38.5 bits (90), Expect = 2e-04
 Identities = 14/57 (24%), Positives = 24/57 (42%), Gaps = 5/57 (8%)

Query: 191 ATSEELRAYDDE--CAICREPMAKAKKLLCNHLFHLACL-RSWLDQGLNEMYSCPTC 244
           A+ + +    +E  C IC + + K   + C H F L C+ +          + CP C
Sbjct: 9   ASGQFVNKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSC--GFFKCPLC 63

>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC complex, transcription; 1.43A {Homo sapiens} Length = 60

 Score = 38.6 bits (90), Expect = 2e-04
 Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 8/52 (15%)

Query: 199 YDDECAICREPMAKAKKLL----CNHLFHLACLRSWLDQGLNEMYSCPTCRK 246
           ++D C++CR+      +LL    C+ ++HL CL   L      M+ CP C+ 
Sbjct: 4   HEDFCSVCRKS----GQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQD 51

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens} Length = 61

 Score = 38.6 bits (90), Expect = 2e-04
 Identities = 14/62 (22%), Positives = 28/62 (45%), Gaps = 10/62 (16%)

Query: 189 PDATSEELRAYDDECAICREPMAKAKKLL----CNHLFHLACLRSWLDQGLNEMYSCPTC 244
           P  + E    + D C +C++      +++    C   +H+ CL   +++     +SCP C
Sbjct: 2   PLGSYET--DHQDYCEVCQQG----GEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHC 55

Query: 245 RK 246
            K
Sbjct: 56  EK 57

>1mm2_A MI2-beta; PHD, zinc finger, protein scaffold, DNA binding protein; NMR {Homo sapiens} SCOP: g.50.1.2 PDB: 2l75_A* 1mm3_A Length = 61

 Score = 37.8 bits (88), Expect = 3e-04
 Identities = 15/58 (25%), Positives = 26/58 (44%), Gaps = 8/58 (13%)

Query: 199 YDDECAICREPMAKAKKLL----CNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 252
           + + C +C++      +LL    C   +H+ CL   L +  N  + CP C  P   G+
Sbjct: 8   HMEFCRVCKDG----GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPALKGK 61

>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 = 37.6 bits (87), Expect = 4e-04
 Identities = 13/54 (24%), Positives = 19/54 (35%), Gaps = 8/54 (14%)

Query: 200 DDECAICREPMAKAKKLL-----CNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 248
           D  C  C+    +   L      C H    +C+     +G     +CP C  PL
Sbjct: 3   DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAG---NCPECGTPL 53

>2d8s_A Cellular modulator of immune recognition; C-MIR, march8, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 80

 Score = 38.0 bits (88), Expect = 4e-04
 Identities = 14/66 (21%), Positives = 24/66 (36%), Gaps = 9/66 (13%)

Query: 189 PDATSEELRAYDDECAICREPMAKAKKLL--CN-----HLFHLACLRSWLDQGLNEMYSC 241
             + +    +  D C IC         L+  C+     H  H ACL+ W+    ++   C
Sbjct: 4   GSSGTSITPSSQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKS--SDTRCC 61

Query: 242 PTCRKP 247
             C+  
Sbjct: 62  ELCKYE 67

>2lbm_A Transcriptional regulator ATRX; metal binding protein-structural protein compl; HET: M3L; NMR {Homo sapiens} PDB: 2ld1_A Length = 142

 Score = 39.4 bits (91), Expect = 5e-04
 Identities = 16/73 (21%), Positives = 27/73 (36%), Gaps = 16/73 (21%)

Query: 188 LPDATSEELRAYDDECAICREPMAKAKKLL----CNHLFHLACLRSWLDQGL-------N 236
           + D  S +    D++C  C E       L+    C++ F   C+   L +         N
Sbjct: 51  MSDDISRDSDGMDEQCRWCAEG----GNLICCDFCHNAFCKKCILRNLGRKELSTIMDEN 106

Query: 237 EMYSCPTCR-KPL 248
             + C  C  +PL
Sbjct: 107 NQWYCYICHPEPL 119

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A Length = 112

 Score = 38.5 bits (89), Expect = 5e-04
 Identities = 14/51 (27%), Positives = 21/51 (41%), Gaps = 4/51 (7%)

Query: 199 YDDECAICREPMAKAKKLL----CNHLFHLACLRSWLDQGLNEMYSCPTCR 245
               C+ CR+    A  +L    C+  FH+ C    L +    M+ C  CR
Sbjct: 60  ECKTCSSCRDQGKNADNMLFCDSCDRGFHMECCDPPLTRMPKGMWICQICR 110

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus} Length = 101

 Score = 38.3 bits (88), Expect = 6e-04
 Identities = 12/47 (25%), Positives = 19/47 (40%), Gaps = 4/47 (8%)

Query: 203 CAICREPMAKAKKLL-CNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 248
           C  C  P+    +++ C H+F   C      +G      CP C  P+
Sbjct: 4   CDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKG---DKMCPGCSDPV 47

>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 = 40.3 bits (93), Expect = 7e-04
 Identities = 16/95 (16%), Positives = 29/95 (30%), Gaps = 19/95 (20%)

Query: 168 IKRIKGFIKLRIALGHLHAALPDATSEELRAYDDE-----------CAICREPMAK-AKK 215
              +K    L          +PD  +      +D+           C I  +P       
Sbjct: 141 TDTLKILKVLPYIWNDPTCVIPDLQNPAD---EDDLQIEGGKIELTCPITCKPYEAPLIS 197

Query: 216 LLCNHLFHLACLRSWLDQGLNEMYSCPT--CRKPL 248
             CNH+F    ++++L         CP   C + +
Sbjct: 198 RKCNHVFDRDGIQNYLQG--YTTRDCPQAACSQVV 230

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	452
2ejs_A	58	Autocrine motility factor receptor, isoform 2; CUE	99.66
2ekf_A	61	Ancient ubiquitous protein 1; CUE, ubiquitin ligas	99.65
4g3o_A	58	E3 ubiquitin-protein ligase AMFR; all-helical stru	99.58
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.24
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.22
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.21
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.2
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.2
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.2
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.2
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.19
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.19
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.17
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.16
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.15
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.14
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.14
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.13
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.12
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.11
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.1
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.07
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.06
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.06
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.05
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.05
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.04
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.03
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.03
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.0
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.0
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	98.98
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	98.96
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	98.95
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	98.95
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	98.95
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.93
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	98.93
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	98.93
1z6u_A	150	NP95-like ring finger protein isoform B; structura	98.91
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	98.9
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	98.89
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	98.88
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	98.88
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.87
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	98.87
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	98.85
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.85
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	98.82
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.81
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	98.79
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.77
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.77
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	98.75
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	98.74
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.74
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.73
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.7
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.7
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.64
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.61
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.56
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.55
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.54
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.51
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.42
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.34
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.29
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.25
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.25
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.25
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.11
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.1
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.72
3nw0_A	238	Non-structural maintenance of chromosomes element	97.15
2dhy_A	67	CUE domain-containing protein 1; structural genomi	97.13
2di0_A	71	Activating signal cointegrator 1 complex subunit 2	96.18
2qho_B	53	E3 ubiquitin-protein ligase EDD1; protein-protein	95.34
2g45_A	129	Ubiquitin carboxyl-terminal hydrolase 5; zinc fing	94.83
1p3q_Q	54	VPS9P, vacuolar protein sorting-associated protein	94.58
2i50_A	126	Ubiquitin carboxyl-terminal hydrolase 16; alpha/be	94.32
3ihp_A	854	Ubiquitin carboxyl-terminal hydrolase 5; hydrolase	94.22
1wgl_A	59	TOLL-interacting protein; CUE domain, structural g	94.03
1otr_A	49	Protein CUE2; protein-protein complex, cell cycle;	92.52
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	91.82
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	90.84
3c5k_A	109	HD6, histone deacetylase 6; HDAC6, zinc finger, ac	90.54
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	87.4
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	86.22

>2ejs_A Autocrine motility factor receptor, isoform 2; CUE, ubiquitin ligase complex, ubiquitin-conjugating enzyme, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.66  E-value=5.6e-18  Score=124.73  Aligned_cols=49  Identities=39%  Similarity=0.603  Sum_probs=45.4

Q ss_pred             ccccchhHHHHHHHHHHHHHHcCCCChhhHHhhhhcccceeeeeccccc
Q 012963          403 SRSANENIANILAMAETVREVLPHMPEDLIFQDLQRTNSATITVNNLLQ  451 (452)
Q Consensus       403 ~~~~~~~~~~~~~~~~~v~~~~p~~p~~~~~~~~~~~~~~~~t~~~~l~  451 (452)
                      ++.++.+++|+.+||++|++||||+|.+.|++||++||||++|++||||
T Consensus         3 ~~~~~~~~~q~~~mv~~V~~mfP~vp~~~I~~DL~~TgsVe~TienILe   51 (58)
T 2ejs_A            3 SGSSGASNSQLNAMAHQIQEMFPQVPYHLVLQDLQLTRSVEITTDNILE   51 (58)
T ss_dssp             CCCSSCCCCHHHHHHHHHHHHCCSSCHHHHHHHHHHHCSHHHHHHHHHH
T ss_pred             CCcCCcchHHHHHHHHHHHHHcCCCCHHHHHHHHHHhCCHHHHHHHHHh
Confidence            4456667799999999999999999999999999999999999999997

>2ekf_A Ancient ubiquitous protein 1; CUE, ubiquitin ligase complex, ubiquitin-conjugating enzyme, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.65  E-value=8.3e-18  Score=124.79  Aligned_cols=48  Identities=35%  Similarity=0.601  Sum_probs=44.1

Q ss_pred             cccchhHHHHHHHHHHHHHHcCCCChhhHHhhhhcccceeeeeccccc
Q 012963          404 RSANENIANILAMAETVREVLPHMPEDLIFQDLQRTNSATITVNNLLQ  451 (452)
Q Consensus       404 ~~~~~~~~~~~~~~~~v~~~~p~~p~~~~~~~~~~~~~~~~t~~~~l~  451 (452)
                      ++++.+++|+.+||++|++||||||.+.|++||++||||++|++||||
T Consensus         4 ~~~~~~~~ql~~mv~~V~~mfP~vp~~~I~~DL~~TgsVe~TienILe   51 (61)
T 2ekf_A            4 GSSGSPDVQLATLAQRVKEVLPHVPLGVIQRDLAKTGCVDLTITNLLE   51 (61)
T ss_dssp             SSSCCCCCCHHHHHHHHHHHCSSSCHHHHHHHHHTSCCHHHHHHHHHS
T ss_pred             CCCCCccHHHHHHHHHHHHHcCCCCHHHHHHHHHHhCCHHHHHHHHHc
Confidence            345555689999999999999999999999999999999999999997

>4g3o_A E3 ubiquitin-protein ligase AMFR; all-helical structure, BAG6; 1.60A {Homo sapiens}

Probab=99.58  E-value=2.4e-16  Score=115.34  Aligned_cols=42  Identities=40%  Similarity=0.660  Sum_probs=41.1

Q ss_pred             HHHHHHHHHHHHHHcCCCChhhHHhhhhcccceeeeeccccc
Q 012963          410 IANILAMAETVREVLPHMPEDLIFQDLQRTNSATITVNNLLQ  451 (452)
Q Consensus       410 ~~~~~~~~~~v~~~~p~~p~~~~~~~~~~~~~~~~t~~~~l~  451 (452)
                      ++|+.+||++|++||||+|.+.|++||++||||++|++||||
T Consensus        14 ~sql~~Mve~V~~mFPqv~~~~I~~DL~rTgSVe~TienILe   55 (58)
T 4g3o_A           14 QGQLNAMAHQIQEMFPQVPYHLVLQDLQLTRSVEITTDNILE   55 (58)
T ss_dssp             HHHHHHHHHHHHHHCTTSCHHHHHHHHHHHCCHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHHcCCCCHHHHHHHHHHhCCHHHHHHHHHc
Confidence            589999999999999999999999999999999999999997

>2l0b_A E3 ubiquitin-protein ligase praja-1; zinc finger, NESG, structural genomics, PSI-2, protein struc initiative; NMR {Homo sapiens}

Probab=99.24  E-value=5.5e-13  Score=108.76  Aligned_cols=48  Identities=35%  Similarity=0.782  Sum_probs=42.1

Q ss_pred             cccccccccchhhh---hhhcccchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          199 YDDECAICREPMAK---AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       199 ~~~~C~ICl~~~~~---~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      .+..|+||++.+..   .+.++|+|.||..||.+|+..    +.+||+||+.+..
T Consensus        39 ~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~----~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           39 QEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQK----SGTCPVCRCMFPP   89 (91)
T ss_dssp             SCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTT----TCBCTTTCCBSSC
T ss_pred             CCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHc----CCcCcCcCccCCC
Confidence            45689999999977   567899999999999999987    5899999998754

>3ng2_A RNF4, snurf, ring finger protein 4; ring domain, E3 ligase, ubiquitylation, sumoylation, zinc-FI metal binding protein; 1.80A {Rattus norvegicus}

Probab=99.22  E-value=3.1e-12  Score=98.73  Aligned_cols=49  Identities=33%  Similarity=0.665  Sum_probs=43.5

Q ss_pred             cccccccccchhhhh-------hhcccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          199 YDDECAICREPMAKA-------KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~-------~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      .+..|+||++.+.++       +.++|||.||..|+.+|+.+    +.+||+||..+...
T Consensus         9 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~----~~~CP~Cr~~~~~~   64 (71)
T 3ng2_A            9 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN----ANTCPTCRKKINHK   64 (71)
T ss_dssp             TCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHH----CSBCTTTCCBCCCC
T ss_pred             CCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHc----CCCCCCCCCccChh
Confidence            456899999999987       67899999999999999988    58999999988754

>2ecl_A Ring-box protein 2; RNF7, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.21  E-value=1.9e-12  Score=103.30  Aligned_cols=49  Identities=37%  Similarity=0.788  Sum_probs=40.2

Q ss_pred             cccccccccchhhh--------------hhhc-ccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          199 YDDECAICREPMAK--------------AKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       199 ~~~~C~ICl~~~~~--------------~~~l-~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      .+++|+||++.+.+              .+.+ +|+|.||..||.+|+.+    +.+||+||+++...
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~----~~~CP~CR~~~~~~   77 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQ----NNRCPLCQQDWVVQ   77 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTT----CCBCTTTCCBCCEE
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHh----CCCCCCcCCCcchh
Confidence            45679999998865              2345 49999999999999998    58999999988654

>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=99.20  E-value=3.1e-12  Score=98.40  Aligned_cols=51  Identities=31%  Similarity=0.790  Sum_probs=43.0

Q ss_pred             ccccccccccchhhh---hhhcccchhhHHHHHHHHHhhcccccccCCCCCCcccccc
Q 012963          198 AYDDECAICREPMAK---AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR  252 (452)
Q Consensus       198 ~~~~~C~ICl~~~~~---~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~~  252 (452)
                      ..+..|+||++.+..   ++.++|+|.||..||.+|+.+    +.+||+||..+....
T Consensus        12 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~----~~~CP~Cr~~~~~~~   65 (69)
T 2kiz_A           12 DTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLIT----NKKCPICRVDIEAQL   65 (69)
T ss_dssp             TCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHH----CSBCTTTCSBSCSCC
T ss_pred             CCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHc----CCCCcCcCccccCcC
Confidence            345789999999853   467899999999999999998    578999999987643

>1x4j_A Ring finger protein 38; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.20  E-value=1.6e-12  Score=101.80  Aligned_cols=49  Identities=31%  Similarity=0.712  Sum_probs=43.0

Q ss_pred             ccccccccccchhhhh---hhcccchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          198 AYDDECAICREPMAKA---KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       198 ~~~~~C~ICl~~~~~~---~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      ..+..|+||++.+..+   ..++|+|.||..||.+|+..    +.+||+||+.+..
T Consensus        21 ~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~----~~~CP~Cr~~~~~   72 (75)
T 1x4j_A           21 SEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKA----NRTCPICRADSGP   72 (75)
T ss_dssp             SSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHH----CSSCTTTCCCCCC
T ss_pred             CCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHc----CCcCcCcCCcCCC
Confidence            3467899999999876   67899999999999999988    5899999998865

>2ea6_A Ring finger protein 4; RNF4, RES4-26, ring domain, zinc- binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.20  E-value=4.4e-12  Score=97.17  Aligned_cols=48  Identities=33%  Similarity=0.708  Sum_probs=42.6

Q ss_pred             ccccccccccchhhhh-------hhcccchhhHHHHHHHHHhhcccccccCCCCCCccc
Q 012963          198 AYDDECAICREPMAKA-------KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF  249 (452)
Q Consensus       198 ~~~~~C~ICl~~~~~~-------~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~  249 (452)
                      ..+..|+||++.+.++       +.++|||.||..||.+|+..    +.+||+||..+.
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~----~~~CP~Cr~~~~   67 (69)
T 2ea6_A           13 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN----ANTCPTCRKKIN   67 (69)
T ss_dssp             TCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHH----CSSCTTTCCCCC
T ss_pred             CCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHc----CCCCCCCCCccC
Confidence            3456899999999987       67899999999999999988    589999999875

>1iym_A EL5; ring-H2 finger, ubiquitin ligase, DNA binding protein; NMR {Oryza sativa} SCOP: g.44.1.1

Probab=99.20  E-value=1.3e-12  Score=95.80  Aligned_cols=47  Identities=36%  Similarity=0.838  Sum_probs=40.8

Q ss_pred             cccccccccchhhh---hhhcc-cchhhHHHHHHHHHhhcccccccCCCCCCccc
Q 012963          199 YDDECAICREPMAK---AKKLL-CNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF  249 (452)
Q Consensus       199 ~~~~C~ICl~~~~~---~~~l~-C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~  249 (452)
                      .+.+|+||++.+.+   ...++ |+|.||..|+.+|+++    +.+||+||+++.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~----~~~CP~Cr~~~~   54 (55)
T 1iym_A            4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGS----HSTCPLCRLTVV   54 (55)
T ss_dssp             CSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTT----CCSCSSSCCCSC
T ss_pred             CCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHc----CCcCcCCCCEeE
Confidence            45689999999987   45676 9999999999999988    689999999764

>2xeu_A Ring finger protein 4; transcription, zinc-finger, metal-binding; HET: SUC; 1.50A {Homo sapiens}

Probab=99.19  E-value=5.5e-12  Score=95.13  Aligned_cols=48  Identities=33%  Similarity=0.686  Sum_probs=42.7

Q ss_pred             ccccccccchhhhh-------hhcccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          200 DDECAICREPMAKA-------KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       200 ~~~C~ICl~~~~~~-------~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      +.+|+||++.+.++       ..++|||.||..|+.+|+.+    +.+||+||.++...
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~----~~~CP~Cr~~~~~~   57 (64)
T 2xeu_A            3 MVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN----ANTCPTCRKKINHK   57 (64)
T ss_dssp             CCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHH----CSBCTTTCCBCTTT
T ss_pred             CCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHc----CCCCCCCCccCCcc
Confidence            45899999999887       57899999999999999988    58999999988754

>2ep4_A Ring finger protein 24; zinc binding, ubiquitin, E3 enzyme, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.19  E-value=5.4e-12  Score=98.43  Aligned_cols=49  Identities=33%  Similarity=0.792  Sum_probs=42.2

Q ss_pred             cccccccccchhhhhhh---cccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          199 YDDECAICREPMAKAKK---LLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~---l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      .+..|+||++.+..+..   ++|+|.||..||.+|++.    +.+||+||+.+...
T Consensus        14 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~----~~~CP~Cr~~~~~~   65 (74)
T 2ep4_A           14 LHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEV----RKVCPLCNMPVLQL   65 (74)
T ss_dssp             CSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHH----CSBCTTTCCBCSSC
T ss_pred             CCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHc----CCcCCCcCcccccc
Confidence            45689999999987644   499999999999999988    57999999998653

>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.17  E-value=7e-12  Score=97.40  Aligned_cols=51  Identities=22%  Similarity=0.458  Sum_probs=45.0

Q ss_pred             cccccccccchhhhhhhc-ccchhhHHHHHHHHHhhcccccccCCCCCCccccccc
Q 012963          199 YDDECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGRR  253 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l-~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~~~  253 (452)
                      .+..|+||++.+.+++.+ +|+|.||..||.+|++.    +..||+||..+...++
T Consensus        14 ~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~----~~~CP~Cr~~~~~~~~   65 (72)
T 2djb_A           14 PYILCSICKGYLIDATTITECLHTFCKSCIVRHFYY----SNRCPKCNIVVHQTQP   65 (72)
T ss_dssp             GGGSCTTTSSCCSSCEECSSSCCEECHHHHHHHHHH----CSSCTTTCCCCCSSCS
T ss_pred             CCCCCCCCChHHHCcCEECCCCCHHHHHHHHHHHHc----CCcCCCcCcccCcccc
Confidence            456899999999999887 99999999999999987    5899999999876544

>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=99.16  E-value=3.3e-12  Score=93.60  Aligned_cols=47  Identities=36%  Similarity=0.776  Sum_probs=40.9

Q ss_pred             cccccccccchhhh----hhhcccchhhHHHHHHHHHhhcccccccCCCCCCccc
Q 012963          199 YDDECAICREPMAK----AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF  249 (452)
Q Consensus       199 ~~~~C~ICl~~~~~----~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~  249 (452)
                      .+..|+||++.+.+    ++.++|+|.||..|+.+|++.    ..+||+||+.+.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~----~~~CP~Cr~~~~   54 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKE----GYRCPLCSGPSS   54 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHH----TCCCTTSCCSSC
T ss_pred             CCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHc----CCcCCCCCCcCC
Confidence            35689999999865    567899999999999999998    589999999764

>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.15  E-value=3.2e-12  Score=99.05  Aligned_cols=49  Identities=27%  Similarity=0.510  Sum_probs=44.4

Q ss_pred             cccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          199 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      .+..|+||++.+.+++.++|+|.||..|+.+|+..    ...||+||..+...
T Consensus        14 ~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~----~~~CP~Cr~~~~~~   62 (71)
T 2d8t_A           14 TVPECAICLQTCVHPVSLPCKHVFCYLCVKGASWL----GKRCALCRQEIPED   62 (71)
T ss_dssp             SCCBCSSSSSBCSSEEEETTTEEEEHHHHHHCTTC----SSBCSSSCCBCCHH
T ss_pred             CCCCCccCCcccCCCEEccCCCHHHHHHHHHHHHC----CCcCcCcCchhCHh
Confidence            45689999999999999999999999999999987    58999999998754

>2ect_A Ring finger protein 126; metal binding protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=99.14  E-value=6.3e-12  Score=99.03  Aligned_cols=52  Identities=44%  Similarity=0.917  Sum_probs=44.0

Q ss_pred             ccccccccccchhhhh---hhcccchhhHHHHHHHHHhhcccccccCCCCCCccccccc
Q 012963          198 AYDDECAICREPMAKA---KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGRR  253 (452)
Q Consensus       198 ~~~~~C~ICl~~~~~~---~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~~~  253 (452)
                      ..+..|+||++.+..+   ..++|+|.||..||.+|+++    +.+||+||+.+...+.
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~----~~~CP~Cr~~~~~~~~   67 (78)
T 2ect_A           13 GSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQ----HDSCPVCRKSLTGQNT   67 (78)
T ss_dssp             SSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTT----TCSCTTTCCCCCCSCS
T ss_pred             CCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHc----CCcCcCcCCccCCccc
Confidence            4567899999999765   44699999999999999987    5899999999876543

>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=99.14  E-value=8.8e-12  Score=105.47  Aligned_cols=52  Identities=33%  Similarity=0.692  Sum_probs=41.0

Q ss_pred             ccccccccchhhhhh------------------hcccchhhHHHHHHHHHhhcc-cccccCCCCCCccccc
Q 012963          200 DDECAICREPMAKAK------------------KLLCNHLFHLACLRSWLDQGL-NEMYSCPTCRKPLFVG  251 (452)
Q Consensus       200 ~~~C~ICl~~~~~~~------------------~l~C~H~Fh~~Cl~~Wl~~~~-~~~~~CP~CR~~~~~~  251 (452)
                      ++.|+||++.|..+.                  .++|+|.||..||.+|+.... ..+.+||+||..+...
T Consensus        25 ~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T 1v87_A           25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             CCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCC
Confidence            468999999996543                  579999999999999995321 1157999999988654

>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid herpesvirus 1} SCOP: g.44.1.1

Probab=99.13  E-value=7.3e-12  Score=95.94  Aligned_cols=48  Identities=31%  Similarity=0.766  Sum_probs=42.7

Q ss_pred             cccccccccchhhhh-hhcccchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          199 YDDECAICREPMAKA-KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~-~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      .+..|+||++.+.++ +.++|||.||..|+.+|+.+    +.+||+||..+..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~C~H~fc~~Ci~~~~~~----~~~CP~Cr~~~~~   52 (68)
T 1chc_A            4 VAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQ----NPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHH----SCSTTTTCCCCCC
T ss_pred             CCCCCeeCCccccCCcEecCCCCeeHHHHHHHHHhC----cCcCcCCChhhHh
Confidence            456899999999885 77899999999999999987    5899999998864

>4ayc_A E3 ubiquitin-protein ligase RNF8; DNA damage, K63 chains; HET: CPQ; 1.90A {Homo sapiens} PDB: 4epo_C

Probab=99.12  E-value=9.8e-12  Score=109.08  Aligned_cols=48  Identities=33%  Similarity=0.787  Sum_probs=43.5

Q ss_pred             cccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          199 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      .+..|+||++.+.+++.+||||.||..||..|+..    +.+||+||.++..
T Consensus        52 ~~~~C~iC~~~~~~~~~~~CgH~fc~~Ci~~~~~~----~~~CP~Cr~~~~~   99 (138)
T 4ayc_A           52 NELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKR----KIECPICRKDIKS   99 (138)
T ss_dssp             HHSBCTTTCSBCSSEEEETTSCEEEHHHHHHHTTT----CSBCTTTCCBCCC
T ss_pred             ccCCCcccCcccCCceECCCCCCccHHHHHHHHHc----CCcCCCCCCcCCC
Confidence            34579999999999999999999999999999988    6899999998854

>2ecy_A TNF receptor-associated factor 3; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.11  E-value=1.3e-11  Score=94.14  Aligned_cols=50  Identities=20%  Similarity=0.533  Sum_probs=43.6

Q ss_pred             cccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          199 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      .+..|+||++.+.+++.++|||.||..|+.+|+.+.   ...||+||..+...
T Consensus        14 ~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~---~~~CP~Cr~~~~~~   63 (66)
T 2ecy_A           14 DKYKCEKCHLVLCSPKQTECGHRFCESCMAALLSSS---SPKCTACQESIVKD   63 (66)
T ss_dssp             CCEECTTTCCEESSCCCCSSSCCCCHHHHHHHHTTS---SCCCTTTCCCCCTT
T ss_pred             cCCCCCCCChHhcCeeECCCCCHHHHHHHHHHHHhC---cCCCCCCCcCCChh
Confidence            356899999999999999999999999999999642   57999999988653

>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=99.10  E-value=1.4e-11  Score=103.36  Aligned_cols=48  Identities=33%  Similarity=0.731  Sum_probs=40.9

Q ss_pred             cccccccccchhhhh------------------hhcccchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          199 YDDECAICREPMAKA------------------KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~------------------~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      .++.|+||++.|..+                  ..++|+|.||..||.+|+.+    +.+||+||+++..
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~----~~~CP~Cr~~~~~  101 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT----RQVCPLDNREWEF  101 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTT----CSBCSSSCSBCCE
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHc----CCcCcCCCCccee
Confidence            467899999999753                  23699999999999999998    6899999998654

>2ysl_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.07  E-value=2.1e-11  Score=94.58  Aligned_cols=52  Identities=23%  Similarity=0.594  Sum_probs=44.0

Q ss_pred             cccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          199 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      .+..|+||++.+.+++.++|||.||..|+.+|++... ....||+||..+...
T Consensus        19 ~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~-~~~~CP~Cr~~~~~~   70 (73)
T 2ysl_A           19 EEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSC-GFFKCPLCKTSVRKN   70 (73)
T ss_dssp             CCCBCTTTCSBCSSEEECTTCCEEEHHHHHHHCSSSC-SCCCCSSSCCCCCCC
T ss_pred             cCCEeccCCcccCCeEEcCCCChhhHHHHHHHHHcCC-CCCCCCCCCCcCCcc
Confidence            4568999999999999999999999999999997311 157999999988654

>2csy_A Zinc finger protein 183-like 1; ring finger protein 161, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.06  E-value=1.9e-11  Score=97.08  Aligned_cols=47  Identities=23%  Similarity=0.498  Sum_probs=43.0

Q ss_pred             cccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCccc
Q 012963          199 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF  249 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~  249 (452)
                      .+..|+||++.+.+++.++|||.||..|+.+|+..    ...||+||..+.
T Consensus        14 ~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~----~~~CP~Cr~~~~   60 (81)
T 2csy_A           14 IPFRCFICRQAFQNPVVTKCRHYFCESCALEHFRA----TPRCYICDQPTG   60 (81)
T ss_dssp             CCSBCSSSCSBCCSEEECTTSCEEEHHHHHHHHHH----CSBCSSSCCBCC
T ss_pred             CCCCCcCCCchhcCeeEccCCCHhHHHHHHHHHHC----CCcCCCcCcccc
Confidence            45689999999999999999999999999999987    589999999885

>2yur_A Retinoblastoma-binding protein 6; P53-associated cellular protein of testis, proliferation potential-related protein, protein P2P-R; NMR {Homo sapiens}

Probab=99.06  E-value=2.9e-11  Score=94.46  Aligned_cols=50  Identities=26%  Similarity=0.528  Sum_probs=43.0

Q ss_pred             cccccccccchhhhhhhcc-cchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          199 YDDECAICREPMAKAKKLL-CNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~-C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      .+..|+||++.+.+++.++ |||.||..||.+|+....  ...||+||+.+..
T Consensus        14 ~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~--~~~CP~Cr~~~~~   64 (74)
T 2yur_A           14 DELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESD--EHTCPTCHQNDVS   64 (74)
T ss_dssp             GGGSCSSSCCCCTTCEECSSSCCEECTTHHHHHHHHSS--SSCCSSSCCSSCC
T ss_pred             CCCCCcCCChHHhCCeEcCCCCCHHHHHHHHHHHHhcC--CCcCCCCCCcCCC
Confidence            4568999999999999999 999999999999998631  2699999997654

>1t1h_A Gspef-atpub14, armadillo repeat containing protein; ubiquitin ligase, E3 ligase, U-BOX,; NMR {Arabidopsis thaliana} SCOP: g.44.1.2

Probab=99.05  E-value=3e-11  Score=95.11  Aligned_cols=50  Identities=22%  Similarity=0.459  Sum_probs=44.1

Q ss_pred             cccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          199 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      .+..|+||++.|.+++.++|||.||..||.+|+.++   +.+||+||..+...
T Consensus         7 ~~~~C~IC~~~~~~Pv~~~CgH~fc~~Ci~~~~~~~---~~~CP~C~~~~~~~   56 (78)
T 1t1h_A            7 EYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAG---HKTCPKSQETLLHA   56 (78)
T ss_dssp             SSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTT---CCBCTTTCCBCSSC
T ss_pred             ccCCCCCccccccCCEEcCCCCeecHHHHHHHHHHC---cCCCCCCcCCCChh
Confidence            345899999999999999999999999999999863   57999999988643

>2ecn_A Ring finger protein 141; RNF141, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.05  E-value=9.5e-12  Score=95.92  Aligned_cols=49  Identities=33%  Similarity=0.757  Sum_probs=43.5

Q ss_pred             cccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCcccccc
Q 012963          199 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR  252 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~~  252 (452)
                      .+..|+||++.+.+ +.++|+|.||..|+.+|+.+    +..||+||..+...+
T Consensus        14 ~~~~C~IC~~~~~~-~~~~CgH~fc~~Ci~~~~~~----~~~CP~Cr~~~~~~~   62 (70)
T 2ecn_A           14 DEEECCICMDGRAD-LILPCAHSFCQKCIDKWSDR----HRNCPICRLQMTGAN   62 (70)
T ss_dssp             CCCCCSSSCCSCCS-EEETTTEEECHHHHHHSSCC----CSSCHHHHHCTTCCC
T ss_pred             CCCCCeeCCcCccC-cccCCCCcccHHHHHHHHHC----cCcCCCcCCcccCCC
Confidence            45689999999998 88899999999999999986    689999999887543

>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=99.04  E-value=3e-11  Score=100.12  Aligned_cols=50  Identities=34%  Similarity=0.761  Sum_probs=43.9

Q ss_pred             cccccccccchhhhhhh-cccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          199 YDDECAICREPMAKAKK-LLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~-l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      .+..|+||++.+.+++. ++|||.||..||.+|+...   ...||+||.++...
T Consensus        21 ~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~---~~~CP~Cr~~~~~~   71 (100)
T 3lrq_A           21 EVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQ---RAQCPHCRAPLQLR   71 (100)
T ss_dssp             HHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHHHT---CSBCTTTCCBCCGG
T ss_pred             CCCCCccCCccccCccccCCCCChhhHHHHHHHHHHC---cCCCCCCCCcCCHH
Confidence            34589999999999998 9999999999999999973   26999999998653

>2ct2_A Tripartite motif protein 32; zinc-finger protein HT2A, TAT- interacting protein, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.03  E-value=4.1e-11  Score=96.28  Aligned_cols=52  Identities=31%  Similarity=0.572  Sum_probs=43.9

Q ss_pred             cccccccccchhhh----hhhcccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          199 YDDECAICREPMAK----AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       199 ~~~~C~ICl~~~~~----~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      .+..|+||++.+.+    ++.++|||.||..|+.+|+.... ....||+||..+...
T Consensus        14 ~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~-~~~~CP~Cr~~~~~~   69 (88)
T 2ct2_A           14 EVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSI-NGVRCPFCSKITRIT   69 (88)
T ss_dssp             SCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCS-SCBCCTTTCCCBCCS
T ss_pred             CCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCC-CCcCCCCCCCcccch
Confidence            45689999999998    88899999999999999998731 137999999987653

>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=99.03  E-value=9.1e-11  Score=100.83  Aligned_cols=49  Identities=27%  Similarity=0.557  Sum_probs=43.5

Q ss_pred             cccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          199 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      .+..|+||++.+.+++.++|||.||..||..|+..+   ...||+||..+..
T Consensus        51 ~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~---~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           51 ETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQ---VFSCPACRYDLGR   99 (124)
T ss_dssp             HHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTT---CCBCTTTCCBCCT
T ss_pred             cCCCCCcCChHHcCcEEeeCCCcccHHHHHHHHhHC---cCCCCCCCccCCC
Confidence            456899999999999999999999999999999853   4599999998864

>1g25_A CDK-activating kinase assembly factor MAT1; ring finger (C3HC4), metal binding protein; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=99.00  E-value=9e-11  Score=89.15  Aligned_cols=49  Identities=24%  Similarity=0.620  Sum_probs=41.2

Q ss_pred             ccccccccc-hhhhhh----hcccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          200 DDECAICRE-PMAKAK----KLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       200 ~~~C~ICl~-~~~~~~----~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      +..|+||++ .+.++.    .++|||.||..|+.+|+.++   ...||+||+.+...
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~---~~~CP~Cr~~~~~~   56 (65)
T 1g25_A            3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRG---AGNCPECGTPLRKS   56 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTT---SSSCTTTCCCCSSC
T ss_pred             CCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcC---CCcCCCCCCccccc
Confidence            457999999 888774    57999999999999998763   57899999998654

>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=99.00  E-value=3.9e-11  Score=102.19  Aligned_cols=48  Identities=33%  Similarity=0.731  Sum_probs=0.9

Q ss_pred             cccccccccchhhhh------------------hhcccchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          199 YDDECAICREPMAKA------------------KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~------------------~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      .++.|+||++.|.++                  ..++|+|.||..||.+|+..    +.+||+||+++..
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~----~~~CP~Cr~~~~~  112 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT----RQVCPLDNREWEF  112 (117)
T ss_dssp             CC--------------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHc----CCcCCCCCCeeee
Confidence            357899999999752                  12589999999999999998    6899999998654

>2y43_A E3 ubiquitin-protein ligase RAD18; DNA repair, metal-binding, translesion synthesis, UB conjugation pathway; 1.80A {Homo sapiens}

Probab=98.98  E-value=7e-11  Score=97.44  Aligned_cols=48  Identities=29%  Similarity=0.549  Sum_probs=43.3

Q ss_pred             cccccccccchhhhhhhc-ccchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          199 YDDECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l-~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      .+..|+||++.+.+++.+ +|||.||..|+.+|+..    +..||+||..+..
T Consensus        21 ~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~----~~~CP~Cr~~~~~   69 (99)
T 2y43_A           21 DLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSY----KTQCPTCCVTVTE   69 (99)
T ss_dssp             HHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTT----CCBCTTTCCBCCG
T ss_pred             CCCCcccCChhhCCcCEECCCCCHhhHHHHHHHHHC----CCCCCCCCCcCCh
Confidence            456899999999999887 89999999999999997    5899999998865

>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=98.96  E-value=1.2e-10  Score=97.55  Aligned_cols=50  Identities=22%  Similarity=0.512  Sum_probs=44.6

Q ss_pred             ccccccccccchhhhhhhc-ccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          198 AYDDECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       198 ~~~~~C~ICl~~~~~~~~l-~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      ..+..|+||++.+.+++.+ +|||.||..||.+|+..    +..||+||..+...
T Consensus        13 ~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~----~~~CP~Cr~~~~~~   63 (108)
T 2ckl_A           13 NPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLET----SKYCPICDVQVHKT   63 (108)
T ss_dssp             GGGTBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHTS----CSBCTTTCCBSCSS
T ss_pred             CCcCCCccCChHHhCcCEeCCCCChhhHHHHHHHHHh----CCcCcCCCcccccc
Confidence            3456899999999999987 99999999999999987    58999999988754

>2ysj_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.95  E-value=1.1e-10  Score=88.11  Aligned_cols=46  Identities=26%  Similarity=0.666  Sum_probs=39.3

Q ss_pred             ccccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCC
Q 012963          198 AYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTC  244 (452)
Q Consensus       198 ~~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~C  244 (452)
                      ..+..|+||++.+.+++.++|||.||..||.+|++... ....||+|
T Consensus        18 ~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~-~~~~CP~C   63 (63)
T 2ysj_A           18 QEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSC-GFFKCPLC   63 (63)
T ss_dssp             CCCCBCTTTCSBCSSCEECTTSSEECHHHHHHHHHHCS-SCCCCSCC
T ss_pred             ccCCCCCcCCchhCCeEEeCCCCcchHHHHHHHHHcCC-CCCcCcCC
Confidence            34568999999999999999999999999999998521 14699998

>2ecw_A Tripartite motif-containing protein 30; metal binding protein, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=98.95  E-value=1.5e-10  Score=91.98  Aligned_cols=53  Identities=30%  Similarity=0.605  Sum_probs=44.6

Q ss_pred             cccccccccchhhhhhhcccchhhHHHHHHHHHhhcc--cccccCCCCCCccccc
Q 012963          199 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGL--NEMYSCPTCRKPLFVG  251 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~--~~~~~CP~CR~~~~~~  251 (452)
                      .+..|+||++.+.+++.++|+|.||..|+.+|+....  .....||+||..+...
T Consensus        18 ~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~   72 (85)
T 2ecw_A           18 EEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFG   72 (85)
T ss_dssp             TTTSCTTTCSCCSSCEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTT
T ss_pred             cCCCCcCCChhhCcceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHH
Confidence            4568999999999999999999999999999998731  1147999999988654

>2egp_A Tripartite motif-containing protein 34; ZF-C3HC4 domain, tripartite motif protein 34, interferon- responsive finger protein 1; NMR {Homo sapiens}

Probab=98.95  E-value=5.5e-11  Score=93.61  Aligned_cols=53  Identities=25%  Similarity=0.486  Sum_probs=44.5

Q ss_pred             cccccccccchhhhhhhcccchhhHHHHHHHHHhhcc---cccccCCCCCCccccc
Q 012963          199 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGL---NEMYSCPTCRKPLFVG  251 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~---~~~~~CP~CR~~~~~~  251 (452)
                      .+..|+||++.+.+++.++|||.||..|+.+|+....   .....||+||..+...
T Consensus        11 ~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~   66 (79)
T 2egp_A           11 EEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFE   66 (79)
T ss_dssp             CCCEETTTTEECSSCCCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSS
T ss_pred             cCCCCcCCCcccCCeeECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHh
Confidence            4568999999999999999999999999999997621   1247999999998653

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus}

Probab=98.93  E-value=2.6e-10  Score=98.21  Aligned_cols=50  Identities=34%  Similarity=0.683  Sum_probs=44.2

Q ss_pred             cccccccccchhhhh-------hhcccchhhHHHHHHHHHhhcccccccCCCCCCcccccc
Q 012963          199 YDDECAICREPMAKA-------KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR  252 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~-------~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~~  252 (452)
                      .+.+|+||++.+.++       +.++|||.||..||.+|++.    +.+||+||+.+....
T Consensus         6 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~----~~~CP~Cr~~~~~~~   62 (133)
T 4ap4_A            6 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN----ANTCPTCRKKINHKR   62 (133)
T ss_dssp             CSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTT----CSBCTTTCCBCTTTC
T ss_pred             CCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHh----CCCCCCCCCcCcccc
Confidence            346899999999988       78899999999999999988    579999999987543

>2ecv_A Tripartite motif-containing protein 5; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.93  E-value=1.9e-10  Score=91.43  Aligned_cols=53  Identities=30%  Similarity=0.535  Sum_probs=44.7

Q ss_pred             cccccccccchhhhhhhcccchhhHHHHHHHHHhhc--ccccccCCCCCCccccc
Q 012963          199 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQG--LNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~--~~~~~~CP~CR~~~~~~  251 (452)
                      .+..|+||++.+.+++.++|||.||..|+.+|+...  ......||+||..+...
T Consensus        18 ~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~   72 (85)
T 2ecv_A           18 EEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPE   72 (85)
T ss_dssp             CCCCCTTTCSCCSSCBCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSS
T ss_pred             CCCCCCCCCcccCCceeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHH
Confidence            456899999999999999999999999999999762  11247999999998753

>3ztg_A E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mRNA processing, mRNA splicing; NMR {Homo sapiens}

Probab=98.93  E-value=1.4e-10  Score=94.22  Aligned_cols=49  Identities=27%  Similarity=0.546  Sum_probs=42.4

Q ss_pred             cccccccccchhhhhhhcc-cchhhHHHHHHHHHhhcccccccCCCCCCccc
Q 012963          199 YDDECAICREPMAKAKKLL-CNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF  249 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~-C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~  249 (452)
                      .+..|+||++.|.+++.++ |||.||..||.+|+....  ...||+||..+.
T Consensus        12 ~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~--~~~CP~Cr~~~~   61 (92)
T 3ztg_A           12 DELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESD--EHTCPTCHQNDV   61 (92)
T ss_dssp             TTTEETTTTEECSSCEECTTTCCEECHHHHHHHHHHCT--TCCCTTTCCSSC
T ss_pred             cCCCCCCCChhhcCceECCCCCCHHHHHHHHHHHHhcC--CCcCcCCCCcCC
Confidence            3458999999999999999 999999999999997531  369999999863

>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=98.91  E-value=4e-10  Score=100.29  Aligned_cols=50  Identities=26%  Similarity=0.518  Sum_probs=44.1

Q ss_pred             cccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          199 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      .+..|+||++.+.+++.++|||.||..||..|+...   ...||+||..+...
T Consensus        77 ~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~---~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           77 QSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQ---VFSCPACRHDLGQN  126 (150)
T ss_dssp             HHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTT---CCBCTTTCCBCCTT
T ss_pred             cCCEeecCChhhcCCEEcCCCCchhHHHHHHHHHhC---CCcCCCCCccCCCC
Confidence            346899999999999999999999999999999863   35899999988653

>2ecj_A Tripartite motif-containing protein 39; TRIM39, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.90  E-value=1.8e-10  Score=85.15  Aligned_cols=45  Identities=27%  Similarity=0.780  Sum_probs=38.2

Q ss_pred             cccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCC
Q 012963          199 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTC  244 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~C  244 (452)
                      .+..|+||++.+.+++.++|||.||..||.+|+.... ....||+|
T Consensus        14 ~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~-~~~~CP~C   58 (58)
T 2ecj_A           14 VEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLE-RDFPCPVC   58 (58)
T ss_dssp             CCCBCSSSCCBCSSCCCCSSCCCCCHHHHHHHTTSSC-CSCCCSCC
T ss_pred             cCCCCccCCcccCccEeCCCCCccCHHHHHHHHHhcC-CCCCCCCC
Confidence            4568999999999999999999999999999965311 15899998

>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=98.89  E-value=7.9e-11  Score=99.84  Aligned_cols=48  Identities=29%  Similarity=0.717  Sum_probs=43.0

Q ss_pred             ccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          200 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       200 ~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      +..|+||++.+.+++.++|||.||..||.+|+..+   ...||+||..+..
T Consensus        15 ~~~C~iC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~---~~~CP~Cr~~~~~   62 (115)
T 3l11_A           15 ECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKA---SLCCPFCRRRVSS   62 (115)
T ss_dssp             HHBCTTTCSBCSSCEECTTSCEECHHHHCCCCCTT---TSBCTTTCCBCHH
T ss_pred             CCCCccCCcccCceeEcCCCCHHhHHHHHHHHhHC---cCCCCCCCcccCc
Confidence            45899999999999999999999999999999764   4799999998864

>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=98.88  E-value=2.9e-10  Score=95.53  Aligned_cols=51  Identities=27%  Similarity=0.576  Sum_probs=43.4

Q ss_pred             ccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          200 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       200 ~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      +..|+||++.+.+++.++|||.||..|+.+|+..... ...||+||..+...
T Consensus        21 ~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~-~~~CP~Cr~~~~~~   71 (112)
T 1jm7_A           21 ILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKG-PSQCPLCKNDITKR   71 (112)
T ss_dssp             HTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSSS-SCCCTTTSCCCCTT
T ss_pred             CCCCcccChhhcCeEECCCCCHHHHHHHHHHHHhCCC-CCCCcCCCCcCCHh
Confidence            4589999999999999999999999999999986311 25899999988754

>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=98.88  E-value=2.6e-10  Score=102.83  Aligned_cols=49  Identities=33%  Similarity=0.645  Sum_probs=43.0

Q ss_pred             cccccccccchhhhhhhc-ccchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          199 YDDECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l-~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      .+..|+||++.+.+++.+ +|||.||..||.+|+..+   ...||+||..+..
T Consensus        53 ~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~---~~~CP~Cr~~~~~  102 (165)
T 2ckl_B           53 SELMCPICLDMLKNTMTTKECLHRFCADCIITALRSG---NKECPTCRKKLVS  102 (165)
T ss_dssp             HHHBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHHTT---CCBCTTTCCBCCS
T ss_pred             CCCCCcccChHhhCcCEeCCCCChhHHHHHHHHHHhC---cCCCCCCCCcCCC
Confidence            345899999999999887 999999999999999864   5789999998854

>1rmd_A RAG1; V(D)J recombination, antibody, MAD, ring finger, zinc binuclear cluster, zinc finger, DNA-binding protein; 2.10A {Mus musculus} SCOP: g.37.1.1 g.44.1.1

Probab=98.87  E-value=3.4e-10  Score=95.99  Aligned_cols=50  Identities=32%  Similarity=0.633  Sum_probs=44.4

Q ss_pred             cccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          199 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      .+..|+||++.+.+++.++|||.||..||.+|+...   ...||+||..+...
T Consensus        22 ~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~---~~~CP~Cr~~~~~~   71 (116)
T 1rmd_A           22 KSISCQICEHILADPVETSCKHLFCRICILRCLKVM---GSYCPSCRYPCFPT   71 (116)
T ss_dssp             HHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHT---CSBCTTTCCBCCGG
T ss_pred             CCCCCCCCCcHhcCcEEcCCCCcccHHHHHHHHhHC---cCcCCCCCCCCCHh
Confidence            456899999999999999999999999999999863   46899999998754

>2d8s_A Cellular modulator of immune recognition; C-MIR, march8, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.87  E-value=3.8e-10  Score=89.68  Aligned_cols=52  Identities=25%  Similarity=0.611  Sum_probs=41.7

Q ss_pred             cccccccccchhhh--hhhcccc-----hhhHHHHHHHHHhhcccccccCCCCCCcccccc
Q 012963          199 YDDECAICREPMAK--AKKLLCN-----HLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR  252 (452)
Q Consensus       199 ~~~~C~ICl~~~~~--~~~l~C~-----H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~~  252 (452)
                      .++.|.||++++++  ...+||+     |.||..||.+|+....  ..+||+||..+....
T Consensus        14 ~~~~C~IC~~~~~~~~~l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~--~~~CplCr~~~~~~~   72 (80)
T 2d8s_A           14 SQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSD--TRCCELCKYEFIMET   72 (80)
T ss_dssp             TSCCCSSSCCCCCSSSCEECSSSCCSSSCCEETTHHHHHHHHHC--CSBCSSSCCBCCCCC
T ss_pred             CCCCCeEcCccccCCCeeEeccccCCcCCeeCHHHHHHHHhhCC--CCCCCCCCCeeecCc
Confidence            45689999998853  4557997     9999999999998731  259999999987543

>3hct_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 3hcu_A 2eci_A 2jmd_A

Probab=98.85  E-value=4.8e-10  Score=95.56  Aligned_cols=50  Identities=26%  Similarity=0.486  Sum_probs=43.8

Q ss_pred             cccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          199 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      .+..|+||++.+.+++.++|||.||..||.+|+...   ...||+||..+...
T Consensus        17 ~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~---~~~CP~Cr~~~~~~   66 (118)
T 3hct_A           17 SKYECPICLMALREAVQTPCGHRFCKACIIKSIRDA---GHKCPVDNEILLEN   66 (118)
T ss_dssp             GGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHH---CSBCTTTCCBCCGG
T ss_pred             CCCCCCcCChhhcCeEECCcCChhhHHHHHHHHhhC---CCCCCCCCCCcCHH
Confidence            345899999999999999999999999999999874   34999999988653

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus}

Probab=98.85  E-value=7.8e-10  Score=95.22  Aligned_cols=51  Identities=33%  Similarity=0.677  Sum_probs=44.4

Q ss_pred             ccccccccccchhhhh-------hhcccchhhHHHHHHHHHhhcccccccCCCCCCcccccc
Q 012963          198 AYDDECAICREPMAKA-------KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR  252 (452)
Q Consensus       198 ~~~~~C~ICl~~~~~~-------~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~~  252 (452)
                      +.+..|+||++.+.++       +.++|||.||..|+.+|++.    +.+||+||.++..++
T Consensus        70 ~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~----~~~CP~Cr~~~~~~~  127 (133)
T 4ap4_A           70 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN----ANTCPTCRKKINHKR  127 (133)
T ss_dssp             SSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHH----CSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHc----CCCCCCCCCcCChhc
Confidence            3456899999999886       67799999999999999998    689999999987543

>2kr4_A Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ring, E3 ligase, UBL conjugation pathway; NMR {Mus musculus}

Probab=98.82  E-value=7.2e-10  Score=89.09  Aligned_cols=48  Identities=13%  Similarity=0.028  Sum_probs=43.6

Q ss_pred             cccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          199 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      .+..|+||++.|.+|+.++|||+|+..||.+|+..    +.+||+||.++..
T Consensus        13 ~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~----~~~cP~~~~~l~~   60 (85)
T 2kr4_A           13 DEFRDPLMDTLMTDPVRLPSGTVMDRSIILRHLLN----SPTDPFNRQMLTE   60 (85)
T ss_dssp             TTTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHH----CSBCTTTCCBCCG
T ss_pred             hheECcccCchhcCCeECCCCCEECHHHHHHHHhc----CCCCCCCcCCCCh
Confidence            34589999999999999999999999999999986    5899999998764

>1e4u_A Transcriptional repressor NOT4; gene regulation, transcriptional control; NMR {Homo sapiens} SCOP: g.44.1.1 PDB: 1ur6_B

Probab=98.81  E-value=1.9e-09  Score=85.24  Aligned_cols=51  Identities=25%  Similarity=0.491  Sum_probs=40.2

Q ss_pred             cccccccccchhh--hhhhcc--cchhhHHHHHHHHHhhcccccccCCCCCCcccccc
Q 012963          199 YDDECAICREPMA--KAKKLL--CNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR  252 (452)
Q Consensus       199 ~~~~C~ICl~~~~--~~~~l~--C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~~  252 (452)
                      .+.+|+||++.+.  +...+|  |||.||..|+..++...   ...||.||+.+....
T Consensus        10 ~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~---~~~CP~CR~~~~~~~   64 (78)
T 1e4u_A           10 DPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDE---NGLCPACRKPYPEDP   64 (78)
T ss_dssp             CCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTSS---CSBCTTTCCBCSSCS
T ss_pred             cCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhcC---CCCCCCCCCccCCCc
Confidence            4568999999884  334445  99999999999987543   579999999987543

>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=98.79  E-value=8.9e-10  Score=91.34  Aligned_cols=48  Identities=13%  Similarity=0.052  Sum_probs=43.6

Q ss_pred             cccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          199 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      .+..|+||++.|.+|+.++|||+||..||.+|+..    +.+||+||.++..
T Consensus        28 ~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~----~~~cP~~~~~l~~   75 (100)
T 2kre_A           28 DEFRDPLMDTLMTDPVRLPSGTIMDRSIILRHLLN----SPTDPFNRQTLTE   75 (100)
T ss_dssp             TTTBCTTTCSBCSSEEEETTTEEEEHHHHHHHTTS----CSBCSSSCCBCCT
T ss_pred             HhhCCcCccCcccCCeECCCCCEEchHHHHHHHHc----CCCCCCCCCCCCh
Confidence            34689999999999999999999999999999986    5899999998764

>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=98.77  E-value=1.2e-09  Score=82.63  Aligned_cols=48  Identities=23%  Similarity=0.505  Sum_probs=41.8

Q ss_pred             ccccccccccchhhhhhhc--ccchh-hHHHHHHHHHhhcccccccCCCCCCccc
Q 012963          198 AYDDECAICREPMAKAKKL--LCNHL-FHLACLRSWLDQGLNEMYSCPTCRKPLF  249 (452)
Q Consensus       198 ~~~~~C~ICl~~~~~~~~l--~C~H~-Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~  249 (452)
                      +.+..|+||++...++..+  ||||. ||..|+.+|.++    +..||+||+++.
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~----~~~CPiCR~~i~   55 (63)
T 2vje_B            5 NLLKPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKA----GASCPICKKEIQ   55 (63)
T ss_dssp             GGGSBCTTTSSSBSCEEEEETTEEEEEECHHHHHHHHHT----TCBCTTTCCBCC
T ss_pred             CcCCCCcccCCcCCCeEEEecCCCCHhHHHHHHHHHHHh----CCcCCCcCchhh
Confidence            4467899999998887766  99998 999999999877    579999999875

>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=98.77  E-value=1.2e-09  Score=82.95  Aligned_cols=47  Identities=23%  Similarity=0.556  Sum_probs=41.5

Q ss_pred             cccccccccchhhhhhhc--ccchh-hHHHHHHHHHhhcccccccCCCCCCccc
Q 012963          199 YDDECAICREPMAKAKKL--LCNHL-FHLACLRSWLDQGLNEMYSCPTCRKPLF  249 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l--~C~H~-Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~  249 (452)
                      .+..|+||++...+++.+  ||||. ||..|+.+|..+    +..||+||+++.
T Consensus         7 ~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~----~~~CPiCR~~i~   56 (64)
T 2vje_A            7 AIEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKR----NKPCPVCRQPIQ   56 (64)
T ss_dssp             GGSCCTTTSSSCSCEEEEETTEEEEEECHHHHHHHHHT----TCCCTTTCCCCC
T ss_pred             CcCCCCcCCCCCCCEEEECCCCCChhhHHHHHHHHHHc----CCcCCCcCcchh
Confidence            456899999999988866  99999 899999999987    579999999875

>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=98.75  E-value=1.4e-09  Score=89.75  Aligned_cols=48  Identities=17%  Similarity=0.038  Sum_probs=43.6

Q ss_pred             cccccccccchhhhhhhcccc-hhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          199 YDDECAICREPMAKAKKLLCN-HLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~-H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      .+..|+||++.|.+|+.++|| |.||..||.+|+..    +.+||+||.++..
T Consensus        21 ~~~~CpI~~~~m~dPV~~~cG~htf~r~cI~~~l~~----~~~cP~~~~~l~~   69 (98)
T 1wgm_A           21 DEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLS----DQTDPFNRSPLTM   69 (98)
T ss_dssp             TTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTT----SCBCTTTCSBCCT
T ss_pred             HhcCCcCccccccCCeECCCCCeEECHHHHHHHHHh----CCCCCCCCCCCCh
Confidence            345899999999999999999 99999999999987    5799999998864

>2ct0_A Non-SMC element 1 homolog; ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.74  E-value=1.8e-09  Score=84.37  Aligned_cols=54  Identities=19%  Similarity=0.441  Sum_probs=42.6

Q ss_pred             cccccccccchhhhhhh-cccchhhHHHHHHHHHhhcccccccCCCCCCcccccccC
Q 012963          199 YDDECAICREPMAKAKK-LLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGRRE  254 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~-l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~~~~  254 (452)
                      ..++|+||++.+...++ ..|+|.||..||.+|++...  ..+||+||.++..+.++
T Consensus        14 ~i~~C~IC~~~i~~g~~C~~C~h~fH~~Ci~kWl~~~~--~~~CP~Cr~~w~~~~~~   68 (74)
T 2ct0_A           14 AVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNA--EPRCPHCNDYWPHEIPK   68 (74)
T ss_dssp             SSCBCSSSCCBCSSSEECSSSCCEECHHHHHHHSTTCS--SCCCTTTCSCCCSCCCC
T ss_pred             CCCcCcchhhHcccCCccCCCCchhhHHHHHHHHHhcC--CCCCCCCcCcCCCCCCC
Confidence            34689999999975433 28999999999999998721  27999999998765443

>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=98.74  E-value=1.9e-09  Score=109.32  Aligned_cols=48  Identities=33%  Similarity=0.655  Sum_probs=43.2

Q ss_pred             cccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          201 DECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       201 ~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      ..|+||++.+.+++.+||||.||..|+.+|+...   ...||+||.++...
T Consensus       333 ~~C~ICle~~~~pv~lpCGH~FC~~Ci~~wl~~~---~~~CP~CR~~i~~~  380 (389)
T 2y1n_A          333 QLCKICAENDKDVKIEPCGHLMCTSCLTSWQESE---GQGCPFCRCEIKGT  380 (389)
T ss_dssp             SBCTTTSSSBCCEEEETTCCEECHHHHHHHHHHT---CSBCTTTCCBCCEE
T ss_pred             CCCCccCcCCCCeEEeCCCChhhHHHHHHHHhcC---CCCCCCCCCccCCc
Confidence            5899999999999999999999999999999842   58999999988654

>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=98.73  E-value=3.1e-09  Score=102.97  Aligned_cols=49  Identities=16%  Similarity=-0.026  Sum_probs=43.1

Q ss_pred             cccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          199 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      ....|+||++.|.+|+.++|||+||..||..|+..+   ..+||+||.++..
T Consensus       207 ~~~~c~i~~~~~~dPv~~~~gh~f~~~~i~~~~~~~---~~~cP~~~~~~~~  255 (281)
T 2c2l_A          207 DYLCGKISFELMREPCITPSGITYDRKDIEEHLQRV---GHFNPVTRSPLTQ  255 (281)
T ss_dssp             STTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHT---CSSCTTTCCCCCG
T ss_pred             cccCCcCcCCHhcCCeECCCCCEECHHHHHHHHHHC---CCCCcCCCCCCch
Confidence            345899999999999999999999999999999874   3459999998864

>1bor_A Transcription factor PML; proto-oncogene, nuclear bodies (PODS), leukemia, transcription regulation; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=98.70  E-value=1e-09  Score=81.01  Aligned_cols=46  Identities=28%  Similarity=0.554  Sum_probs=39.8

Q ss_pred             cccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          199 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      .+..|+||++.+.+++.++|||.||..|+.+|       ...||+||+.+...
T Consensus         5 ~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~-------~~~CP~Cr~~~~~~   50 (56)
T 1bor_A            5 QFLRCQQCQAEAKCPKLLPCLHTLCSGCLEAS-------GMQCPICQAPWPLG   50 (56)
T ss_dssp             CCSSCSSSCSSCBCCSCSTTSCCSBTTTCSSS-------SSSCSSCCSSSSCC
T ss_pred             cCCCceEeCCccCCeEEcCCCCcccHHHHccC-------CCCCCcCCcEeecC
Confidence            34589999999999999999999999999773       36899999988653

>3knv_A TNF receptor-associated factor 2; cross-brace, alternative splicing, apoptosis, cytoplasm, metal-binding, UBL conjugation, zinc, zinc-finger; 1.90A {Homo sapiens}

Probab=98.70  E-value=9.9e-10  Score=96.73  Aligned_cols=50  Identities=24%  Similarity=0.510  Sum_probs=43.5

Q ss_pred             ccccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          198 AYDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       198 ~~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      ..+..|+||++.+.+++.++|||.||..||.+|+..+   ...||+||.++..
T Consensus        29 ~~~~~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~---~~~CP~Cr~~~~~   78 (141)
T 3knv_A           29 EAKYLCSACRNVLRRPFQAQCGHRYCSFCLASILSSG---PQNCAACVHEGIY   78 (141)
T ss_dssp             CGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHGGGS---CEECHHHHHTTCC
T ss_pred             CcCcCCCCCChhhcCcEECCCCCccCHHHHHHHHhcC---CCCCCCCCCcccc
Confidence            3456899999999999999999999999999999863   4699999998643

>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=98.64  E-value=2.7e-09  Score=90.67  Aligned_cols=46  Identities=24%  Similarity=0.648  Sum_probs=41.2

Q ss_pred             cccccccccchhhhhhhc-ccchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          199 YDDECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l-~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      .+..|+||++.+.+++.+ +|||.||..||..|+.      ..||+||..+..
T Consensus        21 ~~~~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~------~~CP~Cr~~~~~   67 (117)
T 1jm7_B           21 KLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG------TGCPVCYTPAWI   67 (117)
T ss_dssp             HTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT------TBCSSSCCBCSC
T ss_pred             hCCCCCCCChHhhCccEeCCCCCHHHHHHHHHHhc------CCCcCCCCcCcc
Confidence            356899999999999999 9999999999999987      489999998753

>4ic3_A E3 ubiquitin-protein ligase XIAP; ring domain, zinc-finger, E3 ligase; 1.78A {Homo sapiens} PDB: 4ic2_A

Probab=98.61  E-value=3e-09  Score=83.05  Aligned_cols=44  Identities=23%  Similarity=0.489  Sum_probs=39.2

Q ss_pred             cccccccccchhhhhhhcccchh-hHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          199 YDDECAICREPMAKAKKLLCNHL-FHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~H~-Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      .+..|+||++.+.+++.+||||. ||..|+..|        ..||+||..+..
T Consensus        23 ~~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~--------~~CP~Cr~~i~~   67 (74)
T 4ic3_A           23 EEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAV--------DKCPMCYTVITF   67 (74)
T ss_dssp             HHTBCTTTSSSBCCEEEETTCCBCCCHHHHTTC--------SBCTTTCCBCSE
T ss_pred             cCCCCCCCCCCCCCEEEcCCCChhHHHHhhhcC--------ccCCCcCcCccC
Confidence            34689999999999999999999 999999887        389999998764

>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=98.56  E-value=1.1e-08  Score=83.64  Aligned_cols=50  Identities=22%  Similarity=0.466  Sum_probs=41.3

Q ss_pred             ccccccccchhhhhhhcc-cchhhHHHHHHHHHhhcc--cccccCCC--CCCc-cc
Q 012963          200 DDECAICREPMAKAKKLL-CNHLFHLACLRSWLDQGL--NEMYSCPT--CRKP-LF  249 (452)
Q Consensus       200 ~~~C~ICl~~~~~~~~l~-C~H~Fh~~Cl~~Wl~~~~--~~~~~CP~--CR~~-~~  249 (452)
                      +..|+||++.|.+|+.++ |||+|+..||.+|+..+.  ....+||+  |+.. +.
T Consensus         7 ~~~CPI~~~~~~dPV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~   62 (94)
T 2yu4_A            7 GFTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIR   62 (94)
T ss_dssp             CCBCTTTCSBCSSEEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBC
T ss_pred             EeECcCcCchhcCCEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccC
Confidence            457999999999999996 999999999999998631  11359999  9876 54

>2f42_A STIP1 homology and U-box containing protein 1; chaperone; 2.50A {Danio rerio} PDB: 2c2v_S 2oxq_C

Probab=98.55  E-value=1.4e-08  Score=92.57  Aligned_cols=48  Identities=17%  Similarity=-0.017  Sum_probs=42.5

Q ss_pred             ccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          200 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       200 ~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      ...||||++.|.+|+.++|||+||..||..|+..+   +.+||+||.++..
T Consensus       106 ~f~CPI~~elm~DPV~~~~Ghtfer~~I~~~l~~~---~~tcP~t~~~l~~  153 (179)
T 2f42_A          106 YLCGKISFELMREPCITPSGITYDRKDIEEHLQRV---GHFDPVTRSPLTQ  153 (179)
T ss_dssp             GGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHT---CSBCTTTCCBCCG
T ss_pred             hhcccCccccCCCCeECCCCCEECHHHHHHHHHhC---CCCCCCCcCCCCh
Confidence            45899999999999999999999999999999873   2479999998764

>3hcs_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.20A {Homo sapiens}

Probab=98.54  E-value=1.5e-08  Score=91.53  Aligned_cols=50  Identities=26%  Similarity=0.486  Sum_probs=43.8

Q ss_pred             cccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          199 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      .+..|+||++.+.+++.++|||.||..|+.+|+..+   ...||+||..+...
T Consensus        17 ~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~---~~~CP~Cr~~~~~~   66 (170)
T 3hcs_A           17 SKYECPICLMALREAVQTPCGHRFCKACIIKSIRDA---GHKCPVDNEILLEN   66 (170)
T ss_dssp             GGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHH---CSBCTTTCCBCCGG
T ss_pred             CCCCCCCCChhhcCcEECCCCCHHHHHHHHHHHHhC---CCCCCCCccCcchh
Confidence            345899999999999999999999999999999874   35999999988653

>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.51  E-value=1.5e-08  Score=79.16  Aligned_cols=44  Identities=23%  Similarity=0.521  Sum_probs=38.3

Q ss_pred             cccccccccchhhhhhhcccchh-hHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          199 YDDECAICREPMAKAKKLLCNHL-FHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~H~-Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      .+..|+||++.+.+++.+||||. ||..|+..        ...||+||.++..
T Consensus        24 ~~~~C~IC~~~~~~~~~~pCgH~~~C~~C~~~--------~~~CP~Cr~~i~~   68 (75)
T 2ecg_A           24 EEKLCKICMDRNIAIVFVPCGHLVTCKQCAEA--------VDKCPMCYTVITF   68 (75)
T ss_dssp             HHHSCSSSCSSCCCBCCSSSCCCCBCHHHHHH--------CSBCTTTCCBCCC
T ss_pred             CCCCCCcCCCCCCCEEEecCCCHHHHHHHhhC--------CCCCccCCceecC
Confidence            34589999999999999999999 99999953        4699999998854

>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.42  E-value=3.2e-08  Score=76.00  Aligned_cols=46  Identities=22%  Similarity=0.594  Sum_probs=39.7

Q ss_pred             ccccccccccchhhhhhhcccchh-hHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          198 AYDDECAICREPMAKAKKLLCNHL-FHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       198 ~~~~~C~ICl~~~~~~~~l~C~H~-Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      ..+..|.||++...+++.+||+|. ||..|+..        ...||+||..+...
T Consensus        13 ~~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~--------~~~CP~CR~~i~~~   59 (68)
T 2ea5_A           13 ENSKDCVVCQNGTVNWVLLPCRHTCLCDGCVKY--------FQQCPMCRQFVQES   59 (68)
T ss_dssp             CCSSCCSSSSSSCCCCEETTTTBCCSCTTHHHH--------CSSCTTTCCCCCCE
T ss_pred             CCCCCCCCcCcCCCCEEEECCCChhhhHHHHhc--------CCCCCCCCcchhce
Confidence            456789999999999999999999 99999973        47999999988653

>3k1l_B Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A {Drosophila melanogaster}

Probab=98.34  E-value=1.4e-07  Score=93.28  Aligned_cols=52  Identities=23%  Similarity=0.535  Sum_probs=39.8

Q ss_pred             cccccccccchhhhhh--------hcccchhhHHHHHHHHHhhccc-------ccccCCCCCCcccc
Q 012963          199 YDDECAICREPMAKAK--------KLLCNHLFHLACLRSWLDQGLN-------EMYSCPTCRKPLFV  250 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~--------~l~C~H~Fh~~Cl~~Wl~~~~~-------~~~~CP~CR~~~~~  250 (452)
                      ...+|+||++.+.+..        ...|+|.||..||.+|++....       ....||.||+++..
T Consensus       307 ~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~  373 (381)
T 3k1l_B          307 EELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLST  373 (381)
T ss_dssp             SCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEG
T ss_pred             CCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCc
Confidence            4568999999887621        2479999999999999986311       02579999998864

>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=98.29  E-value=5.6e-08  Score=76.86  Aligned_cols=45  Identities=24%  Similarity=0.439  Sum_probs=38.9

Q ss_pred             cccccccccchhhhhhhcccchh-hHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          199 YDDECAICREPMAKAKKLLCNHL-FHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~H~-Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      .+..|+||++.+.+++.+||||. ||..|+..|        ..||+||..+...
T Consensus        17 ~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~~--------~~CP~Cr~~i~~~   62 (79)
T 2yho_A           17 EAMLCMVCCEEEINSTFCPCGHTVCCESCAAQL--------QSCPVCRSRVEHV   62 (79)
T ss_dssp             HHTBCTTTSSSBCCEEEETTCBCCBCHHHHTTC--------SBCTTTCCBCCEE
T ss_pred             CCCEeEEeCcccCcEEEECCCCHHHHHHHHHhc--------CcCCCCCchhhCe
Confidence            34589999999999999999999 999999764        4899999988653

>3htk_C E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-ring, ring, ATP-binding, chromosomal protein, coiled coil, DNA damage; 2.31A {Saccharomyces cerevisiae}

Probab=98.25  E-value=2e-07  Score=89.35  Aligned_cols=51  Identities=22%  Similarity=0.477  Sum_probs=43.1

Q ss_pred             cccccccccchhhhhhhc-ccchhhHHHHHHHHHhhcccccccCCC--CCCccccc
Q 012963          199 YDDECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPT--CRKPLFVG  251 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l-~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~--CR~~~~~~  251 (452)
                      .+-.||||++.|.+|++. .|||+||+.||.+|+..+.  ...||+  ||+.+...
T Consensus       180 ~el~CPIcl~~f~DPVts~~CGHsFcR~cI~~~~~~~~--~~~CPvtGCr~~l~~~  233 (267)
T 3htk_C          180 IELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGYT--TRDCPQAACSQVVSMR  233 (267)
T ss_dssp             CCSBCTTTSSBCSSEEEESSSCCEEEHHHHHHHSTTCS--CEECSGGGCSCEECGG
T ss_pred             eeeECcCccCcccCCeeeCCCCCcccHHHHHHHHHhCC--CCCCCcccccCcCchh
Confidence            346899999999999985 9999999999999997631  368999  99987653

>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=98.25  E-value=1.7e-07  Score=70.37  Aligned_cols=48  Identities=17%  Similarity=0.244  Sum_probs=43.2

Q ss_pred             cccccccchhhhhhhc-ccchhhHHHHHHHHHhhcccccccCCCCCCcccccc
Q 012963          201 DECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR  252 (452)
Q Consensus       201 ~~C~ICl~~~~~~~~l-~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~~  252 (452)
                      ..|+||++.|.+++.+ +|||+|.+.||.+|+.+    +.+||+++.++...+
T Consensus         4 ~~CpIs~~~m~dPV~~~~sG~~yer~~I~~~l~~----~~~cP~t~~~L~~~~   52 (61)
T 2bay_A            4 MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKD----TGNDPITNEPLSIEE   52 (61)
T ss_dssp             CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHH----HSBCTTTCCBCCGGG
T ss_pred             EEecCCCCCCCCCEEeCCCCcEEcHHHHHHHHHh----CCCCcCCcCCCChhh
Confidence            4799999999999999 89999999999999987    468999999987654

>1vyx_A ORF K3, K3RING; zinc-binding protein, ring domain, cross-brace motif; NMR {Human herpesvirus 8} SCOP: g.44.1.3

Probab=98.25  E-value=2.4e-07  Score=69.31  Aligned_cols=49  Identities=24%  Similarity=0.504  Sum_probs=38.8

Q ss_pred             cccccccccchhhhhhhcccc--h---hhHHHHHHHHHhhcccccccCCCCCCccc
Q 012963          199 YDDECAICREPMAKAKKLLCN--H---LFHLACLRSWLDQGLNEMYSCPTCRKPLF  249 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~--H---~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~  249 (452)
                      .+..|.||+++..++..+||.  |   .||..||.+|+....  +.+||+||..+.
T Consensus         5 ~~~~CrIC~~~~~~~l~~PC~C~gs~~~~H~~Cl~~W~~~~~--~~~C~~C~~~~~   58 (60)
T 1vyx_A            5 DVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISR--NTACQICGVVYN   58 (60)
T ss_dssp             SCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHT--CSBCTTTCCBCC
T ss_pred             CCCEeEEeecCCCCceecCcCCCCchhhhHHHHHHHHHHhCC--CCccCCCCCeee
Confidence            456899999986655567865  4   899999999997532  479999999764

>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=98.11  E-value=5.2e-07  Score=73.39  Aligned_cols=48  Identities=23%  Similarity=0.643  Sum_probs=38.2

Q ss_pred             ccccccccchhhhhhhc---ccchhhHHHHHHHHHhhccc----ccccCCC--CCCc
Q 012963          200 DDECAICREPMAKAKKL---LCNHLFHLACLRSWLDQGLN----EMYSCPT--CRKP  247 (452)
Q Consensus       200 ~~~C~ICl~~~~~~~~l---~C~H~Fh~~Cl~~Wl~~~~~----~~~~CP~--CR~~  247 (452)
                      ..+|+||++.+..+..+   +|||.||..|+.+++..+..    ....||.  |+..
T Consensus         5 ~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            5 SSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             BCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            45899999999877543   79999999999999875311    1358999  9998

>3t6p_A Baculoviral IAP repeat-containing protein 2; ring, BIR, CARD, UBA, apoptosis, ubiquitin ligase, SMAC/ ubiquitin, caspase, IAP family, SMAC mimetic; 1.90A {Homo sapiens} PDB: 1qbh_A 2l9m_A 3eb5_A 3eb6_A 4auq_B

Probab=98.10  E-value=2.2e-07  Score=93.32  Aligned_cols=44  Identities=25%  Similarity=0.569  Sum_probs=39.4

Q ss_pred             cccccccccchhhhhhhcccchh-hHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          199 YDDECAICREPMAKAKKLLCNHL-FHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~H~-Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      .+..|+||++.+.+++.+||||. ||..|+..|        ..||+||.++..
T Consensus       294 ~~~~C~IC~~~~~~~v~lpCgH~~fC~~C~~~~--------~~CP~CR~~i~~  338 (345)
T 3t6p_A          294 EERTCKVCMDKEVSVVFIPCGHLVVCQECAPSL--------RKCPICRGIIKG  338 (345)
T ss_dssp             TTCBCTTTSSSBCCEEEETTCCEEECTTTGGGC--------SBCTTTCCBCCE
T ss_pred             CCCCCCccCCcCCceEEcCCCChhHhHHHHhcC--------CcCCCCCCCccC
Confidence            45789999999999999999999 999999877        389999998854

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus}

Probab=97.72  E-value=6.4e-06  Score=67.02  Aligned_cols=47  Identities=26%  Similarity=0.590  Sum_probs=38.2

Q ss_pred             ccccccchhhh-hhhcccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          202 ECAICREPMAK-AKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       202 ~C~ICl~~~~~-~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      .|.+|--++.. ++.+||+|+||.+|...|.+++   .++||.|+.++..-
T Consensus         3 fC~~C~~Pi~iygRmIPCkHvFCydCa~~~~~~~---~k~Cp~C~~~V~rV   50 (101)
T 3vk6_A            3 FCDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKG---DKMCPGCSDPVQRI   50 (101)
T ss_dssp             BCTTTCSBCSEEEEEETTCCEEEHHHHHHHHHTT---CCBCTTTCCBCSEE
T ss_pred             ecCccCCCeEEEeeeccccccHHHHHHHHHHhcc---CCCCcCcCCeeeee
Confidence            47888777654 4567999999999999998664   58999999998653

>3nw0_A Non-structural maintenance of chromosomes element homolog; E3 ligase, Zn, metal binding protein; 2.92A {Homo sapiens}

Probab=97.15  E-value=0.00012  Score=69.71  Aligned_cols=52  Identities=19%  Similarity=0.473  Sum_probs=40.5

Q ss_pred             ccccccccchhhhhhhc-ccchhhHHHHHHHHHhhcccccccCCCCCCccccccc
Q 012963          200 DDECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGRR  253 (452)
Q Consensus       200 ~~~C~ICl~~~~~~~~l-~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~~~  253 (452)
                      -..|.||.+-...+++= .|+|.||..|+..|++...  +..||.|+..+....+
T Consensus       180 i~~C~iC~~iv~~g~~C~~C~~~~H~~C~~~~~~~~~--~~~CP~C~~~W~~~~~  232 (238)
T 3nw0_A          180 VKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNA--EPRCPHCNDYWPHEIP  232 (238)
T ss_dssp             CCBCTTTCSBCSSCEECSSSCCEECHHHHHHHTTTCS--SCBCTTTCCBCCSCCC
T ss_pred             CCcCcchhhHHhCCcccCccChHHHHHHHHHHHHhCC--CCCCCCCCCCCCCCCC
Confidence            45899999987655432 3999999999999997631  3599999999876544

>2dhy_A CUE domain-containing protein 1; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.13  E-value=0.00019  Score=54.43  Aligned_cols=39  Identities=26%  Similarity=0.395  Sum_probs=34.8

Q ss_pred             HHHHHHHHHHcCCCChhhHHhhhhcc-cceeeeecccccC
Q 012963          414 LAMAETVREVLPHMPEDLIFQDLQRT-NSATITVNNLLQM  452 (452)
Q Consensus       414 ~~~~~~v~~~~p~~p~~~~~~~~~~~-~~~~~t~~~~l~~  452 (452)
                      ...++++++|||++...+|...|... |+||.||+.||+|
T Consensus        19 ~~~v~~L~~MFP~lD~~vI~~vL~a~~G~vd~aId~LL~m   58 (67)
T 2dhy_A           19 NQAMDDFKTMFPNMDYDIIECVLRANSGAVDATIDQLLQM   58 (67)
T ss_dssp             HHHHHHHHHHCSSSCHHHHHHHHHHHTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHhc
Confidence            34788999999999999999999885 5999999999974

>2di0_A Activating signal cointegrator 1 complex subunit 2; ASCC2, CUE domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.4

Probab=96.18  E-value=0.0015  Score=49.79  Aligned_cols=41  Identities=22%  Similarity=0.451  Sum_probs=37.9

Q ss_pred             HHHHHHHHHHHHHcCCCChhhHHhhhhc-ccceeeeeccccc
Q 012963          411 ANILAMAETVREVLPHMPEDLIFQDLQR-TNSATITVNNLLQ  451 (452)
Q Consensus       411 ~~~~~~~~~v~~~~p~~p~~~~~~~~~~-~~~~~~t~~~~l~  451 (452)
                      ..+..++.||+++||+.-..-|.+=|.. .++||.+|++|||
T Consensus        11 ~~l~s~I~qV~DLfPdLG~gfi~~~L~~y~~nvE~vin~LLE   52 (71)
T 2di0_A           11 VELDSLISQVKDLLPDLGEGFILACLEYYHYDPEQVINNILE   52 (71)
T ss_dssp             HHHHHHHHHHHHHCCSSCHHHHHHHHHHTTTCHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHcccCCHHHHHHHHHHhCCCHHHHHHHHHc
Confidence            7899999999999999999999997777 4799999999998

>2qho_B E3 ubiquitin-protein ligase EDD1; protein-protein complex, protein binding/ligase complex; 1.85A {Homo sapiens}

Probab=95.34  E-value=0.005  Score=42.90  Aligned_cols=38  Identities=34%  Similarity=0.512  Sum_probs=33.9

Q ss_pred             HHHHHHHHHcCCCChhhHHhhhhccc-ceeeeecccccC
Q 012963          415 AMAETVREVLPHMPEDLIFQDLQRTN-SATITVNNLLQM  452 (452)
Q Consensus       415 ~~~~~v~~~~p~~p~~~~~~~~~~~~-~~~~t~~~~l~~  452 (452)
                      .++.|++.|++.-|.++|++.|+||+ .|...+||||-|
T Consensus        11 ~li~q~q~VLqgksR~vIirELqrTnLdVN~AvNNlLsR   49 (53)
T 2qho_B           11 ELISQAQVVLQGKSRSVIIRELQRTNLDVNLAVNNLLSR   49 (53)
T ss_dssp             HHHHHHHHHSTTCCHHHHHHHHHHTTTCHHHHHHHHHC-
T ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHhCccHHHHHHHHhcc
Confidence            38899999999999999999999998 688889999864

>2g45_A Ubiquitin carboxyl-terminal hydrolase 5; zinc finger, hydrolase; 1.99A {Homo sapiens} SCOP: g.44.1.5 PDB: 2g43_A 2l80_A

Probab=94.83  E-value=0.00083  Score=57.73  Aligned_cols=86  Identities=7%  Similarity=0.037  Sum_probs=50.8

Q ss_pred             HHHHHHHHhhcccccccCCCCCCccccccc-----CcccCCCCcccCchHHH-----HHHHhcccCC------CCCCC-C
Q 012963          224 LACLRSWLDQGLNEMYSCPTCRKPLFVGRR-----EIEANSRPGEVSSDEQL-----ARQLSMGLDR------QNNTG-Q  286 (452)
Q Consensus       224 ~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~~~-----~~~~~~~~~~~~~~~~~-----~~~~~~g~~~------~~~~~-~  286 (452)
                      .+|+.+|-+.      .||.|+........     .......|.++...+++     |+.++|||+.      .+|+. |
T Consensus         1 ~~~~~~W~~e------~~~~C~h~~~l~q~~~~~~~~~~~~~C~~C~~~~~LwlCL~CG~vgCgr~~~~g~g~~~HA~~H   74 (129)
T 2g45_A            1 KQEVQAWDGE------VRQVSKHAFSLKQLDNPARIPPCGWKCSKCDMRENLWLNLTDGSILCGRRYFDGSGGNNHAVEH   74 (129)
T ss_dssp             ----------------CCEECTTTTTCCCCSSCCCCCCCBCCCSSSSCCSSEEEETTTCCEEECCBCTTSCBCCSHHHHH
T ss_pred             ChHHHhhcCC------CCCCCCCcCcccccccccccCCCCCcCccccCcCceEEeccCCccccCccccCCCCcCcHHHHH
Confidence            3688999754      56666665322111     11223467777776664     8999999986      56665 8


Q ss_pred             cc-cCCCCCCCCCC--CCCCCCcccCCCCCcccc
Q 012963          287 TL-PTGVFPNQTQP--PVEGSPWRNAGLDSSWLH  317 (452)
Q Consensus       287 ~~-~~~~~p~~~~~--~~~~~~wd~aG~~~s~~~  317 (452)
                      +. +.|.....+..  ++++++|.|+.  +.||.
T Consensus        75 ~~~t~H~l~v~l~t~~~~~~~vwcY~c--d~~V~  106 (129)
T 2g45_A           75 YRETGYPLAVKLGTITPDGADVYSYDE--DDMVL  106 (129)
T ss_dssp             HHHHCCCEEEETTCCBTTBCCEEETTT--TEEEE
T ss_pred             hhhcCCCEEEECCCCCCCCCeEEECCC--CCEeE
Confidence            77 88888886553  23489999998  88875

>1p3q_Q VPS9P, vacuolar protein sorting-associated protein VPS9; trafficking, post translational modification, mono- ubiquitination; 1.70A {Saccharomyces cerevisiae} SCOP: a.5.2.4 PDB: 1mn3_A

Probab=94.58  E-value=0.022  Score=41.03  Aligned_cols=42  Identities=19%  Similarity=0.220  Sum_probs=29.5

Q ss_pred             HHHHHHHHHHHHHcCCCChhhHHhhhhc-ccceeeeecccccC
Q 012963          411 ANILAMAETVREVLPHMPEDLIFQDLQR-TNSATITVNNLLQM  452 (452)
Q Consensus       411 ~~~~~~~~~v~~~~p~~p~~~~~~~~~~-~~~~~~t~~~~l~~  452 (452)
                      .+....++++++|||.+-.++|..=|.. -|.++.||+.+|+|
T Consensus        10 ~e~~~~~~~L~~MFP~lD~evI~~Vl~a~~G~~~~~IdaLLqm   52 (54)
T 1p3q_Q           10 NERKDTLNTLQNMFPDMDPSLIEDVCIAAASRIGPCVDALLSL   52 (54)
T ss_dssp             HHHHHHHHHHHHHSTTSCHHHHHHHHHHSCC--CGGGC-----
T ss_pred             HHHHHHHHHHHHHcccCCHHHHHHHHHHcCCCHHHHHHHHHhh
Confidence            5667789999999999999988775544 67899999999986

>2i50_A Ubiquitin carboxyl-terminal hydrolase 16; alpha/beta zinc-finger, ring-finger, ZNF-UBP, metalloprotein, ubiquitin-binding protein, USP; NMR {Homo sapiens}

Probab=94.32  E-value=0.00096  Score=57.13  Aligned_cols=92  Identities=13%  Similarity=0.126  Sum_probs=61.1

Q ss_pred             hcccchhhHHHHHHHHHhhccc-ccccCCCCCCcccccccCcccCCCCcccCchHH-----HHHHHhcccCC-CCCCC-C
Q 012963          215 KLLCNHLFHLACLRSWLDQGLN-EMYSCPTCRKPLFVGRREIEANSRPGEVSSDEQ-----LARQLSMGLDR-QNNTG-Q  286 (452)
Q Consensus       215 ~l~C~H~Fh~~Cl~~Wl~~~~~-~~~~CP~CR~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~g~~~-~~~~~-~  286 (452)
                      ..+|.|+++..++..|-..-.+ ....|+.|+..-...+      ....++...++     .|+.++||++. .+|+. |
T Consensus         4 ~~~C~H~~~~~~l~~~~~~~~~~~~~~C~~C~~~~~~~~------~~~~~~~~~~~Lw~CL~CG~vgCgr~~~~~Ha~~H   77 (126)
T 2i50_A            4 MPVCRHIRKGLEQGNLKKALVNVEWNICQDCKTDNKVKD------KAEEETEEKPSVWLCLKCGHQGCGRNSQEQHALKH   77 (126)
T ss_dssp             -CCCSCHHHHCCHHHHHHHHSSCCSSSCHHHHTCTTSSC------SSCTTTCCCCCEEEETTTCCEEECTTSSSCHHHHH
T ss_pred             CCCCcChhhccccccccccccCCCCCcCccccccccccc------cccccccccccceeeeeCCccccCCCCcchHHHHH
Confidence            4589999999998887643211 1257999977421110      01112222222     38899999984 56765 7


Q ss_pred             cc----cCCCCCCCCCCCCCCCCcccCCCCCcccc
Q 012963          287 TL----PTGVFPNQTQPPVEGSPWRNAGLDSSWLH  317 (452)
Q Consensus       287 ~~----~~~~~p~~~~~~~~~~~wd~aG~~~s~~~  317 (452)
                      +.    +.|.+.+.++   +.++|.|+.  +.||+
T Consensus        78 ~~~~~~t~H~l~~~l~---t~~vwCY~c--d~~V~  107 (126)
T 2i50_A           78 YLTPRSEPHCLVLSLD---NWSVWCYVC--DNEVQ  107 (126)
T ss_dssp             HHSCCSSCCCEEEETT---TCCEEETTT--TEEEC
T ss_pred             HhCcCCCCCcEEEECC---CCeEEeCCC--CcEEE
Confidence            77    4788888877   778999999  99997

>3ihp_A Ubiquitin carboxyl-terminal hydrolase 5; hydrolase, protease, thiol protease, UBL conjugation pathway, metal-binding, zinc-finger,structural genomics; 2.80A {Homo sapiens}

Probab=94.22  E-value=0.0031  Score=70.48  Aligned_cols=103  Identities=10%  Similarity=0.091  Sum_probs=56.1

Q ss_pred             ccchhhhh--hhcccchhhHHHHHHHHHhhcccccccCCCCCCcccccc-----cCcccCCCCcccCchHHH-----HHH
Q 012963          206 CREPMAKA--KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR-----REIEANSRPGEVSSDEQL-----ARQ  273 (452)
Q Consensus       206 Cl~~~~~~--~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~~-----~~~~~~~~~~~~~~~~~~-----~~~  273 (452)
                      |++++...  ..+.+.+.++..|+.+|-..      .||.|+.......     ........|.+|...+++     |+.
T Consensus       162 ~~~~~~~~~~~i~~~~~~~~~~~~~~w~~~------~~~~c~h~~~~~~~~~~~~~~~~~~~C~~c~~~~~lw~CL~Cg~  235 (854)
T 3ihp_A          162 VRDRVTSAVEALLSADSASRKQEVQAWDGE------VRQVSKHAFSLKQLDNPARIPPCGWKCSKCDMRENLWLNLTDGS  235 (854)
T ss_dssp             HHHHHHHHHHHHTC----------------------CCCBCTTTTTCCCCSSCCCCCSSCCCCSSSCCCSSEEEETTTCC
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHhhcCc------cCCCCcCccccccccccccCCCCCCcCcCcCCcCceEEEecCCC
Confidence            44444433  24578899999999999864      5888888643321     111233568888776664     999


Q ss_pred             HhcccCC------CCCCC-Ccc-cCCCCCCCCCC--CCCCCCcccCCCCCccc
Q 012963          274 LSMGLDR------QNNTG-QTL-PTGVFPNQTQP--PVEGSPWRNAGLDSSWL  316 (452)
Q Consensus       274 ~~~g~~~------~~~~~-~~~-~~~~~p~~~~~--~~~~~~wd~aG~~~s~~  316 (452)
                      ++|||+.      .+|+. |+. +.|.....+..  ++++.+|.|+.  +.+|
T Consensus       236 vgC~r~~~~~~~~~~ha~~H~~~~~H~~~~~l~t~~~~~~~~~cy~~--~~~v  286 (854)
T 3ihp_A          236 ILCGRRYFDGSGGNNHAVEHYRETGYPLAVKLGTITPDGADVYSYDE--DDMV  286 (854)
T ss_dssp             EEECCBC-CCCBCCSHHHHHHHHHCCCEEEETTCCBTTBCCEEETTT--TEEC
T ss_pred             ccccccccCCCCCchHHHHHHhhcCCcEEEEcCCcCCCCCeEEEccC--CCee
Confidence            9999875      45665 777 88888886653  23489999997  7776

>1wgl_A TOLL-interacting protein; CUE domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, immune system; NMR {Homo sapiens} SCOP: a.5.2.4

Probab=94.03  E-value=0.016  Score=42.80  Aligned_cols=38  Identities=24%  Similarity=0.471  Sum_probs=33.6

Q ss_pred             HHHHHHHHHcCCCChhhHHhhhhc-ccceeeeecccccC
Q 012963          415 AMAETVREVLPHMPEDLIFQDLQR-TNSATITVNNLLQM  452 (452)
Q Consensus       415 ~~~~~v~~~~p~~p~~~~~~~~~~-~~~~~~t~~~~l~~  452 (452)
                      .-+++.++|||++...+|.+=|.. .|.||.||+.||+|
T Consensus        11 e~l~~L~emFP~ld~~~I~~vL~a~~gdvd~aI~~LL~m   49 (59)
T 1wgl_A           11 EDLKAIQDMFPNMDQEVIRSVLEAQRGNKDAAINSLLQM   49 (59)
T ss_dssp             HHHHHHHHHCSSSCHHHHHHHHTTTTTCHHHHHHHHHHS
T ss_pred             HHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence            367899999999999999997766 67899999999985

>1otr_A Protein CUE2; protein-protein complex, cell cycle; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.4

Probab=92.52  E-value=0.023  Score=40.26  Aligned_cols=37  Identities=16%  Similarity=0.285  Sum_probs=32.4

Q ss_pred             HHHHHHHHcCCCChhhHHhhhhc-ccceeeeecccccC
Q 012963          416 MAETVREVLPHMPEDLIFQDLQR-TNSATITVNNLLQM  452 (452)
Q Consensus       416 ~~~~v~~~~p~~p~~~~~~~~~~-~~~~~~t~~~~l~~  452 (452)
                      =+++.+||||.+....|+.=|.. -|.+|.+++-||+|
T Consensus         7 ~v~~L~EMFP~~~~~~ik~~L~~~~Gd~d~Ai~~LL~~   44 (49)
T 1otr_A            7 KLSILMDMFPAISKSKLQVHLLENNNDLDLTIGLLLKE   44 (49)
T ss_dssp             HHHHHHHHCSSSCHHHHHHHHHHTTTCSHHHHHHHHHH
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHhc
Confidence            46778899999999999998887 78899999988864

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=90.84  E-value=0.036  Score=44.86  Aligned_cols=31  Identities=23%  Similarity=0.508  Sum_probs=25.7

Q ss_pred             ccccccccch-hhhhhh--cccchhhHHHHHHHH
Q 012963          200 DDECAICREP-MAKAKK--LLCNHLFHLACLRSW  230 (452)
Q Consensus       200 ~~~C~ICl~~-~~~~~~--l~C~H~Fh~~Cl~~W  230 (452)
                      +..|.||.+. +.++++  +.|+|.||..|+..+
T Consensus         3 e~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~~   36 (101)
T 2jun_A            3 KVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKAT   36 (101)
T ss_dssp             CCBCTTCCSSSCCBCCEEETTTTEEECHHHHHHH
T ss_pred             CCCCcCCCCCCCCCceEECCcCChHHhHHHCHHH
Confidence            4579999976 566666  899999999999983

>3c5k_A HD6, histone deacetylase 6; HDAC6, zinc finger, actin-binding, chromatin regulator, cytoplasm, hydrolase, metal-binding, nucleus, phosphoprotein; 1.55A {Homo sapiens} PDB: 3gv4_A 3phd_A

Probab=90.54  E-value=0.011  Score=49.09  Aligned_cols=55  Identities=11%  Similarity=0.048  Sum_probs=44.2

Q ss_pred             CCCcccCchHH-----HHHHHhcccCCCCCCC-Ccc-cCCCCCCCCCCCCCCCCcccCCCCCccccc
Q 012963          259 SRPGEVSSDEQ-----LARQLSMGLDRQNNTG-QTL-PTGVFPNQTQPPVEGSPWRNAGLDSSWLHA  318 (452)
Q Consensus       259 ~~~~~~~~~~~-----~~~~~~~g~~~~~~~~-~~~-~~~~~p~~~~~~~~~~~wd~aG~~~s~~~~  318 (452)
                      ..|.++...++     .|+.++|||+..+|+. |+. +.|...+.++   ++++|.|+.  +.||++
T Consensus        25 ~~C~~C~~~~~~W~CL~CG~vgCgr~~~~HA~~H~~~t~H~~~~~l~---~~~vwCy~c--d~~V~~   86 (109)
T 3c5k_A           25 QPCGDCGTIQENWVCLSCYQVYCGRYINGHMLQHHGNSGHPLVLSYI---DLSAWCYYC--QAYVHH   86 (109)
T ss_dssp             CCCTTTCCCSSEEEETTTCCEEECTTTTCHHHHHHHHHCCCEEEETT---TCCEEETTT--TEEBCC
T ss_pred             CcCccccCCCCeeeeeecCccccCCCcChHHHHHhcccCCCEEEECC---CCCEEECCC--CCEEec
Confidence            34566655544     3888999999999887 888 9999999888   679999998  888874

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=87.40  E-value=0.12  Score=38.93  Aligned_cols=46  Identities=20%  Similarity=0.437  Sum_probs=34.1

Q ss_pred             cccccccccchhhhhhhc---ccchhhHHHHHHHHHhhcccccccCCCCCCc
Q 012963          199 YDDECAICREPMAKAKKL---LCNHLFHLACLRSWLDQGLNEMYSCPTCRKP  247 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l---~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~  247 (452)
                      .+..|.||.+.   ...|   .|...||..|+...+.......-.||.|+..
T Consensus        11 ~~~~C~vC~~~---~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~   59 (66)
T 2lri_C           11 PGARCGVCGDG---TDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGD   59 (66)
T ss_dssp             TTCCCTTTSCC---TTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTC
T ss_pred             CCCCcCCCCCC---CeEEECCCCCCceecccCCCccCcCCCCCEECccccCC
Confidence            45679999864   2233   6889999999988887644445799999764

>1wil_A KIAA1045 protein; ring finger domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: g.50.1.3

Probab=86.22  E-value=0.16  Score=39.78  Aligned_cols=47  Identities=26%  Similarity=0.617  Sum_probs=30.7

Q ss_pred             ccccccccccchhhhhhhc---ccchhhHHHHHHHH------------HhhcccccccCCCCC
Q 012963          198 AYDDECAICREPMAKAKKL---LCNHLFHLACLRSW------------LDQGLNEMYSCPTCR  245 (452)
Q Consensus       198 ~~~~~C~ICl~~~~~~~~l---~C~H~Fh~~Cl~~W------------l~~~~~~~~~CP~CR  245 (452)
                      ..|+.|.||- .+.....+   .|+-+||..||++-            +..+....-+||.|.
T Consensus        13 ~~D~~C~VC~-~~t~~~l~pCRvC~RvfH~~CL~r~gy~~~~~a~e~~l~A~T~~GWSC~~Ce   74 (89)
T 1wil_A           13 VNDEMCDVCE-VWTAESLFPCRVCTRVFHDGCLRRMGYIQGDSAAEVTEMAHTETGWSCHYCD   74 (89)
T ss_dssp             CCSCCCTTTC-CCCSSCCSSCSSSSSCCCHHHHHHHTSCCCCCCCSCSCCCSSSSSCCCTTTC
T ss_pred             CCCcccCccc-cccccceeccccccccccHhhcccccccccHHHHHHHHccCCCCCccccccc
Confidence            4678999995 23333444   47899999999886            111122246899994

---

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	452
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	8e-13
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	1e-12
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	2e-12
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	1e-11
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	7e-10
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	9e-10
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	1e-09
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	4e-09
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	4e-09
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	2e-08
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	3e-08
d1mm2a_	61	g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens	4e-07
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	7e-07
d1fp0a1	70	g.50.1.2 (A:19-88) Nuclear corepressor KAP-1 (TIF-	3e-06
d1we9a_	64	g.50.1.2 (A:) PHD finger protein At5g26210 {Thale	8e-06
d1f62a_	51	g.50.1.2 (A:) Williams-Beuren syndrome transcripti	1e-05
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	2e-05
d1weea_	72	g.50.1.2 (A:) PHD finger protein At1g33420 {Thale	5e-05
d1weva_	88	g.50.1.2 (A:) PHD finger protein 22 {Mouse (Mus mu	6e-05
d1t1ha_	78	g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cre	2e-04
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	5e-04

>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 = 61.6 bits (149), Expect = 8e-13
 Identities = 19/64 (29%), Positives = 23/64 (35%), Gaps = 9/64 (14%)

Query: 191 ATSEELRAY------DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTC 244
            T E+   Y         C IC E     K   C HL   +CL SW +        CP C
Sbjct: 8   VTQEQYELYCEMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQ---GCPFC 64

Query: 245 RKPL 248
           R  +
Sbjct: 65  RCEI 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 = 60.7 bits (147), Expect = 1e-12
 Identities = 18/61 (29%), Positives = 27/61 (44%), Gaps = 5/61 (8%)

Query: 200 DDECAICREPMAKAKKLL-CNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGRREIEAN 258
            + C IC E  +     L C H F   C+  W+ Q      +CP C+ P+      IE++
Sbjct: 5   AERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQN----PTCPLCKVPVESVVHTIESD 60

Query: 259 S 259
           S
Sbjct: 61  S 61

>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 = 59.5 bits (144), Expect = 2e-12
 Identities = 16/55 (29%), Positives = 23/55 (41%), Gaps = 8/55 (14%)

Query: 200 DDECAICREPMAKAKKLL----CNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV 250
             ECA+C   +   ++      C H FH  C+  W    L    +CP CR  + V
Sbjct: 5   GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMW----LGSHSTCPLCRLTVVV 55

>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 = 57.6 bits (139), Expect = 1e-11
 Identities = 12/47 (25%), Positives = 15/47 (31%), Gaps = 7/47 (14%)

Query: 202 ECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 248
            C  C+      K L C H     CL +           CP C+ P 
Sbjct: 8   RCQQCQAEAKCPKLLPCLHTLCSGCLEAS-------GMQCPICQAPW 47

>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 = 52.9 bits (126), Expect = 7e-10
 Identities = 13/54 (24%), Positives = 20/54 (37%), Gaps = 8/54 (14%)

Query: 200 DDECAICREPMAKAKKL-----LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 248
           D  C  C+    +   L     +C H    +C+     +G     +CP C  PL
Sbjct: 3   DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAG---NCPECGTPL 53

>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 = 53.2 bits (127), Expect = 9e-10
 Identities = 16/66 (24%), Positives = 20/66 (30%), Gaps = 22/66 (33%)

Query: 200 DDECAICREPMAKAKK------------------LLCNHLFHLACLRSWLDQGLNEMYSC 241
            D CAICR  +                        +CNH FH  C+  WL         C
Sbjct: 21  VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR----QVC 76

Query: 242 PTCRKP 247
           P   + 
Sbjct: 77  PLDNRE 82

>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 = 52.8 bits (126), Expect = 1e-09
 Identities = 14/47 (29%), Positives = 22/47 (46%), Gaps = 1/47 (2%)

Query: 202 ECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 248
           EC IC E + +     C+H+F   C+   L+Q       CP C+  +
Sbjct: 23  ECPICLELIKEPVSTKCDHIFCKFCMLKLLNQK-KGPSQCPLCKNDI 68

>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 = 50.6 bits (120), Expect = 4e-09
 Identities = 11/53 (20%), Positives = 17/53 (32%), Gaps = 7/53 (13%)

Query: 200 DDECAICREPMAKAKKLL-----CNHLFHLACLRSWLDQGLNEMYSCPTCRKP 247
              C IC E +   +             H +CL +WL    +   +C  C   
Sbjct: 6   VPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTI--SRNTACQICGVV 56

>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 = 51.1 bits (122), Expect = 4e-09
 Identities = 16/47 (34%), Positives = 20/47 (42%), Gaps = 3/47 (6%)

Query: 203 CAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF 249
           C IC   +A   +  C HLF   C+   L         CP+CR P F
Sbjct: 26  CQICEHILADPVETSCKHLFCRICILRCLKVM---GSYCPSCRYPCF 69

>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 = 48.2 bits (114), Expect = 2e-08
 Identities = 13/51 (25%), Positives = 16/51 (31%), Gaps = 7/51 (13%)

Query: 202 ECAICREPMAKAKKLL----CNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 248
           EC +C EP+           C +     C              CP CRKP 
Sbjct: 2   ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDE---NGLCPACRKPY 49

>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 = 49.6 bits (117), Expect = 3e-08
 Identities = 18/75 (24%), Positives = 28/75 (37%), Gaps = 19/75 (25%)

Query: 192 TSEELRAYDDECAICREPM------------------AKAKKLLCNHLFHLACLRSWLDQ 233
           T E   A +++C IC E +                     +   C+H FHL CL +    
Sbjct: 17  TEELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCN 76

Query: 234 GLNEM-YSCPTCRKP 247
           G  +    CP+C+  
Sbjct: 77  GNKDGSLQCPSCKTI 91

>d1mm2a_ g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606]} Length = 61

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Mi2-beta (CHD4)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.9 bits (106), Expect = 4e-07
 Identities = 15/58 (25%), Positives = 26/58 (44%), Gaps = 8/58 (13%)

Query: 199 YDDECAICREPMAKAKKLL----CNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR 252
           + + C +C++      +LL    C   +H+ CL   L +  N  + CP C  P   G+
Sbjct: 8   HMEFCRVCKDG----GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPALKGK 61

>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 = 45.2 bits (106), Expect = 7e-07
 Identities = 15/91 (16%), Positives = 31/91 (34%), Gaps = 11/91 (12%)

Query: 187 ALPDATSEELRAYDDE--CAICREPMAKAKKLL-CNHLFHLACLRSWLDQGLNEMYSCPT 243
                +   L   +    C+ C   + +   L  C H+F   C+   +         CP 
Sbjct: 7   GAWAHSRAALDRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG------TGCPV 60

Query: 244 CRKPLFVGRREIEANSRPGEVSSDEQLARQL 274
           C  P ++  ++++ N +   +       R L
Sbjct: 61  CYTPAWI--QDLKINRQLDSMIQLCSKLRNL 89

>d1fp0a1 g.50.1.2 (A:19-88) Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo sapiens) [TaxId: 9606]} Length = 70

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Nuclear corepressor KAP-1 (TIF-1beta)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.7 bits (100), Expect = 3e-06
 Identities = 15/52 (28%), Positives = 18/52 (34%), Gaps = 3/52 (5%)

Query: 198 AYDDECAICREPMAKAKKLLC---NHLFHLACLRSWLDQGLNEMYSCPTCRK 246
             DD   ICR        ++C      FHL C    L     E +SC  C  
Sbjct: 2   TLDDSATICRVCQKPGDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHV 53

>d1we9a_ g.50.1.2 (A:) PHD finger protein At5g26210 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 64

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At5g26210
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 41.2 bits (96), Expect = 8e-06
 Identities = 12/54 (22%), Positives = 20/54 (37%), Gaps = 5/54 (9%)

Query: 198 AYDDECAICREPMAKAKKLL----CNHLFHLACLRSWLDQG-LNEMYSCPTCRK 246
               +C  C E  A  +  +    C   FH  C++    +    + Y CP+C  
Sbjct: 4   GSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSN 57

>d1f62a_ g.50.1.2 (A:) Williams-Beuren syndrome transcription factor, WSTF {Human (Homo sapiens) [TaxId: 9606]} Length = 51

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Williams-Beuren syndrome transcription factor, WSTF
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.3 bits (94), Expect = 1e-05
 Identities = 17/46 (36%), Positives = 24/46 (52%), Gaps = 3/46 (6%)

Query: 203 CAICREPMAKAKKLL---CNHLFHLACLRSWLDQGLNEMYSCPTCR 245
           C +CR+     K +L   CN  FHL CLR  L +  +  + CP C+
Sbjct: 3   CKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQ 48

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]} Length = 94

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]

 Score = 40.8 bits (95), Expect = 2e-05
 Identities = 18/90 (20%), Positives = 32/90 (35%), Gaps = 15/90 (16%)

Query: 200 DDECAICREPMAKAKKLL---CNHLFHLACLRSWLDQGLNE----MYSCP--TCRKPLFV 250
              C +C       +      C  +F   CL+ +++  + E      SCP   C K   +
Sbjct: 5   SSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHL 64

Query: 251 GRREIEANSRPGEVSSDEQLARQLSMGLDR 280
              EIE       + + E + R   +  +R
Sbjct: 65  QENEIE------CMVAAEIMQRYKKLQFER 88

>d1weea_ g.50.1.2 (A:) PHD finger protein At1g33420 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 72

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At1g33420
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 39.3 bits (91), Expect = 5e-05
 Identities = 11/63 (17%), Positives = 19/63 (30%), Gaps = 6/63 (9%)

Query: 190 DATSEELRAYDDECA--ICREPMAKAKKLL----CNHLFHLACLRSWLDQGLNEMYSCPT 243
             +S   R  D+      C       +++L    C    H  C+       L   + C  
Sbjct: 3   SGSSGMERGVDNWKVDCKCGTKDDDGERMLACDGCGVWHHTRCIGINNADALPSKFLCFR 62

Query: 244 CRK 246
           C +
Sbjct: 63  CIE 65

>d1weva_ g.50.1.2 (A:) PHD finger protein 22 {Mouse (Mus musculus) [TaxId: 10090]} Length = 88

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 22
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 39.4 bits (91), Expect = 6e-05
 Identities = 15/82 (18%), Positives = 30/82 (36%), Gaps = 15/82 (18%)

Query: 190 DATSEELRAYDDECAICREPMAKAKKLL-----CNHLFHLACLRSWLDQGLNEMYS---- 240
           D  + E+      C +CR+    +   L     C++L+H  C +  +             
Sbjct: 9   DDFAMEM---GLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWY 65

Query: 241 CPTCRKPLFVGRREIEANSRPG 262
           C  C + +   +R  + N + G
Sbjct: 66  CARCTRQM---KRMAQKNQKSG 84

>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 = 37.8 bits (87), Expect = 2e-04
 Identities = 11/46 (23%), Positives = 19/46 (41%), Gaps = 3/46 (6%)

Query: 203 CAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 248
           C I  E M     +     +  + ++ WLD G     +CP  ++ L
Sbjct: 11  CPISLELMKDPVIVSTGQTYERSSIQKWLDAG---HKTCPKSQETL 53

>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 = 35.9 bits (82), Expect = 5e-04
 Identities = 8/47 (17%), Positives = 16/47 (34%), Gaps = 5/47 (10%)

Query: 203 CAICREPM-AKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPL 248
           CAI  +             +F  + L  ++     +  + P   +PL
Sbjct: 3   CAISGKVPRRPVLSPKSRTIFEKSLLEQYV----KDTGNDPITNEPL 45

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	452
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.28
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.25
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.25
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.22
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.18
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.15
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.13
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.1
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.1
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.02
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	98.95
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	98.89
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.88
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.81
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.8
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.47
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	97.88
d2di0a1	63	Activating signal cointegrator 1 complex subunit 2	95.59
d1mn3a_	54	Vacuolar protein sorting-associated protein vps9 {	94.51
d1wgla_	59	Toll-interacting protein {Human (Homo sapiens) [Ta	94.29
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	84.41

>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=99.28  E-value=2.4e-13  Score=103.11  Aligned_cols=48  Identities=31%  Similarity=0.766  Sum_probs=41.8

Q ss_pred             cccccccccchhhhh-hhcccchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          199 YDDECAICREPMAKA-KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~-~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      ..+.|+||++.+.++ +.++|||.||..|+.+|+++    +.+||+||+++..
T Consensus         4 ~~d~C~IC~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~----~~~CP~CR~~i~~   52 (68)
T d1chca_           4 VAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQ----NPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHH----SCSTTTTCCCCCC
T ss_pred             CCCCCccCCcCccCCcEEeCCCCcCcHHHHHHHHHh----CCcCCCCCcchHh
Confidence            456899999999775 45799999999999999998    6899999998753

>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=99.25  E-value=2.4e-13  Score=98.66  Aligned_cols=47  Identities=34%  Similarity=0.825  Sum_probs=39.8

Q ss_pred             cccccccccchhhhh---hhc-ccchhhHHHHHHHHHhhcccccccCCCCCCccc
Q 012963          199 YDDECAICREPMAKA---KKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLF  249 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~---~~l-~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~  249 (452)
                      .+.+|+||++++.+.   .++ +|+|.||..|+.+|+++    +.+||+||+++.
T Consensus         4 d~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~----~~~CP~CR~~i~   54 (55)
T d1iyma_           4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGS----HSTCPLCRLTVV   54 (55)
T ss_dssp             CSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTT----CCSCSSSCCCSC
T ss_pred             CCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHh----CCcCCCCCCEeE
Confidence            455799999999764   344 69999999999999998    689999999874

>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=99.25  E-value=6.3e-13  Score=103.74  Aligned_cols=48  Identities=33%  Similarity=0.655  Sum_probs=42.9

Q ss_pred             cccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          201 DECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       201 ~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      ..|+||++.+.+++.++|||.||..||.+|+..+   +.+||+||..+...
T Consensus        24 ~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~wl~~~---~~~CP~Cr~~i~~~   71 (79)
T d1fbva4          24 QLCKICAENDKDVKIEPCGHLMCTSCLTSWQESE---GQGCPFCRCEIKGT   71 (79)
T ss_dssp             TBCTTTSSSBCCEECSSSCCEECHHHHHHHHHTT---CCSCTTTCCCCCCC
T ss_pred             CCCccCCCcCCCeEEeCCCCeeeHHHHHHHHHHC---cCcCCCCCcCccCC
Confidence            4699999999999999999999999999999753   46899999998754

>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=99.22  E-value=9.7e-13  Score=94.33  Aligned_cols=46  Identities=28%  Similarity=0.553  Sum_probs=38.4

Q ss_pred             ccccccchhhhh----hhcccchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          202 ECAICREPMAKA----KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       202 ~C~ICl~~~~~~----~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      +|+||++++...    +.++|||.||..|+.+|++..   +.+||+||+++..
T Consensus         2 eCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~---~~~CP~CR~~~~~   51 (52)
T d1ur6b_           2 ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDE---NGLCPACRKPYPE   51 (52)
T ss_dssp             EETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTS---CCBCTTTCCBCSC
T ss_pred             CCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhc---CCCCCccCCcCCC
Confidence            699999999654    235899999999999999864   4689999998754

>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=99.18  E-value=2.7e-12  Score=96.27  Aligned_cols=49  Identities=24%  Similarity=0.604  Sum_probs=39.8

Q ss_pred             ccccccccchhhhh-----hhcccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          200 DDECAICREPMAKA-----KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       200 ~~~C~ICl~~~~~~-----~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      +.+|+||++.+...     ..++|||.||..||.+|+.++   +.+||+||+++...
T Consensus         3 d~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~---~~~CP~CR~~i~~~   56 (65)
T d1g25a_           3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRG---AGNCPECGTPLRKS   56 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTT---SSSCTTTCCCCSSC
T ss_pred             CCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcC---cCCCCCCCcCcccc
Confidence            46899999987543     345899999999999999764   46899999988653

>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=99.15  E-value=4.3e-12  Score=100.30  Aligned_cols=50  Identities=32%  Similarity=0.633  Sum_probs=43.9

Q ss_pred             cccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          199 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      .+-.|+||++.+.+++.++|||.||..||.+|++.+   +..||+||.++...
T Consensus        22 ~~l~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~---~~~CP~Cr~p~~~~   71 (86)
T d1rmda2          22 KSISCQICEHILADPVETSCKHLFCRICILRCLKVM---GSYCPSCRYPCFPT   71 (86)
T ss_dssp             HHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHT---CSBCTTTCCBCCGG
T ss_pred             cCcCCccCCcchhcceecCCCChhhHHHHHHHHhhC---CCcCcccCCCCChh
Confidence            345899999999999999999999999999999763   46899999988654

>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=99.13  E-value=3.4e-12  Score=101.53  Aligned_cols=48  Identities=33%  Similarity=0.731  Sum_probs=40.0

Q ss_pred             cccccccccchhhhh------------------hhcccchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          199 YDDECAICREPMAKA------------------KKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~------------------~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      .++.|+||++.+.++                  ..++|+|.||..||.+|++.    +.+||+||+++..
T Consensus        20 ~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~----~~~CP~CR~~~~~   85 (88)
T d3dplr1          20 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT----RQVCPLDNREWEF   85 (88)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTT----CSBCSSSCSBCCE
T ss_pred             CCCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHH----CCcCCCCCCcccc
Confidence            356799999988531                  24689999999999999998    6899999998754

>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=99.10  E-value=9.2e-12  Score=103.62  Aligned_cols=52  Identities=33%  Similarity=0.708  Sum_probs=40.3

Q ss_pred             ccccccccchhhhh------------------hhcccchhhHHHHHHHHHhhcc-cccccCCCCCCccccc
Q 012963          200 DDECAICREPMAKA------------------KKLLCNHLFHLACLRSWLDQGL-NEMYSCPTCRKPLFVG  251 (452)
Q Consensus       200 ~~~C~ICl~~~~~~------------------~~l~C~H~Fh~~Cl~~Wl~~~~-~~~~~CP~CR~~~~~~  251 (452)
                      ++.|+||++++...                  ..++|+|.||..||.+|+.... ..+.+||+||..+..+
T Consensus        25 ~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T d1v87a_          25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             cccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhccC
Confidence            45799999998531                  3468999999999999998632 1235899999987654

>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=99.10  E-value=6.7e-12  Score=91.26  Aligned_cols=47  Identities=17%  Similarity=0.270  Sum_probs=42.6

Q ss_pred             ccccccchhhhhhhc-ccchhhHHHHHHHHHhhcccccccCCCCCCcccccc
Q 012963          202 ECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVGR  252 (452)
Q Consensus       202 ~C~ICl~~~~~~~~l-~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~~  252 (452)
                      .|+||++.+.+++.+ .|||+||++||.+|+++    +.+||+||+++..++
T Consensus         2 ~C~Ic~~~~~~Pv~~~~cGh~fc~~cI~~~l~~----~~~CP~c~~~l~~~d   49 (56)
T d2baya1           2 LCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKD----TGNDPITNEPLSIEE   49 (56)
T ss_dssp             CCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHH----HSBCTTTCCBCCGGG
T ss_pred             CCccCCchHHhcCccCCCCCcccHHHHHHHHhh----ccCCCccCCcCCHHh
Confidence            599999999999887 59999999999999998    689999999987654

>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=99.02  E-value=1.8e-11  Score=100.04  Aligned_cols=50  Identities=28%  Similarity=0.613  Sum_probs=42.8

Q ss_pred             cccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          201 DECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       201 ~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      -.|+||++.+.+|+.++|||.||..||.+|+.+... ...||+||.++...
T Consensus        22 l~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~-~~~CP~Cr~~~~~~   71 (103)
T d1jm7a_          22 LECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKG-PSQCPLCKNDITKR   71 (103)
T ss_dssp             TSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSSS-SCCCTTTSCCCCTT
T ss_pred             cCCCccCchhCCeEEcCCCCchhhHHHHHHHHHCCC-CCcCcCCCCcCChh
Confidence            379999999999999999999999999999976422 25899999988643

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.95  E-value=1.8e-11  Score=88.90  Aligned_cols=44  Identities=30%  Similarity=0.626  Sum_probs=39.0

Q ss_pred             cccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          201 DECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       201 ~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      -.|+||++.+.+++.+||||.||..||.+|       +.+||+||+++...
T Consensus         7 l~C~IC~~~~~~p~~lpCgH~fC~~Ci~~~-------~~~CP~Cr~~~~~~   50 (56)
T d1bora_           7 LRCQQCQAEAKCPKLLPCLHTLCSGCLEAS-------GMQCPICQAPWPLG   50 (56)
T ss_dssp             SSCSSSCSSCBCCSCSTTSCCSBTTTCSSS-------SSSCSSCCSSSSCC
T ss_pred             CCCcccCcccCCCEEecCCCHHhHHHHHcC-------CCcCcCCCCcccCC
Confidence            379999999999999999999999999764       36899999998754

>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=98.89  E-value=9.7e-11  Score=91.20  Aligned_cols=49  Identities=16%  Similarity=-0.012  Sum_probs=43.4

Q ss_pred             ccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          200 DDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       200 ~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      +..|+||++-|.+|+.++|||.||..||.+|+.++   +.+||.||.++...
T Consensus         7 ~l~CpIc~~l~~dPv~~~cGhtfc~~ci~~~l~~~---~~~cP~c~~~l~~~   55 (80)
T d2c2la2           7 YLCGKISFELMREPCITPSGITYDRKDIEEHLQRV---GHFNPVTRSPLTQE   55 (80)
T ss_dssp             TTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHT---CSSCTTTCCCCCGG
T ss_pred             cccCcCcCchhhhhcccCCcCeecHHHHHHHHhcC---CccCCCcccccccc
Confidence            34799999999999999999999999999999864   56899999987643

>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=98.88  E-value=1.5e-10  Score=89.61  Aligned_cols=50  Identities=22%  Similarity=0.459  Sum_probs=44.1

Q ss_pred             cccccccccchhhhhhhcccchhhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          199 YDDECAICREPMAKAKKLLCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      .+..|+||++.|.+++.++|||.||..||.+|+..+   ...||.|+.++...
T Consensus         7 ~~l~CpIc~~~m~dPV~~~cgh~fc~~ci~~~~~~~---~~~cP~~~~~l~~~   56 (78)
T d1t1ha_           7 EYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAG---HKTCPKSQETLLHA   56 (78)
T ss_dssp             SSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTT---CCBCTTTCCBCSSC
T ss_pred             ccCCCcCcCchhhCceEccCCCcchHHHHHHHHHHC---CCCCCcccccCCcc
Confidence            345899999999999999999999999999999874   46899999988653

>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=98.81  E-value=4.3e-10  Score=82.58  Aligned_cols=49  Identities=24%  Similarity=0.493  Sum_probs=39.2

Q ss_pred             cccccccccchhhhhhhccc-----chhhHHHHHHHHHhhcccccccCCCCCCccc
Q 012963          199 YDDECAICREPMAKAKKLLC-----NHLFHLACLRSWLDQGLNEMYSCPTCRKPLF  249 (452)
Q Consensus       199 ~~~~C~ICl~~~~~~~~l~C-----~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~  249 (452)
                      ....|.||++.+......||     +|.||..||.+|+....  +.+||+||+++.
T Consensus         5 d~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~--~~~CP~Cr~~~~   58 (60)
T d1vyxa_           5 DVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISR--NTACQICGVVYN   58 (60)
T ss_dssp             SCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHT--CSBCTTTCCBCC
T ss_pred             CCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCC--CCCCcccCCeee
Confidence            45689999999877655555     59999999999996532  468999999864

>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=98.80  E-value=1.7e-10  Score=93.02  Aligned_cols=44  Identities=25%  Similarity=0.738  Sum_probs=39.0

Q ss_pred             cccccccchhhhhhhc-ccchhhHHHHHHHHHhhcccccccCCCCCCcccc
Q 012963          201 DECAICREPMAKAKKL-LCNHLFHLACLRSWLDQGLNEMYSCPTCRKPLFV  250 (452)
Q Consensus       201 ~~C~ICl~~~~~~~~l-~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~  250 (452)
                      -.|+||++.|.+++.+ +|||.||..||.+|+..      .||.||.++..
T Consensus        23 l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~~------~CP~Cr~~~~~   67 (97)
T d1jm7b_          23 LRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGT------GCPVCYTPAWI   67 (97)
T ss_dssp             TSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTTT------BCSSSCCBCSC
T ss_pred             CCCccCCchhhcCceeCCCCCchhHHHHHHHHhc------cccccCCcCch
Confidence            4799999999999876 89999999999999864      69999988754

>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=98.47  E-value=1.2e-08  Score=82.16  Aligned_cols=48  Identities=17%  Similarity=0.076  Sum_probs=42.6

Q ss_pred             ccccccccchhhhhhhcccch-hhHHHHHHHHHhhcccccccCCCCCCccccc
Q 012963          200 DDECAICREPMAKAKKLLCNH-LFHLACLRSWLDQGLNEMYSCPTCRKPLFVG  251 (452)
Q Consensus       200 ~~~C~ICl~~~~~~~~l~C~H-~Fh~~Cl~~Wl~~~~~~~~~CP~CR~~~~~~  251 (452)
                      +..||||.+-|.+|+.++|+| .|++.||.+|+.+    +..||.||.++...
T Consensus        22 ~f~CPI~~~lm~dPV~~~~~~~ty~r~~I~~~l~~----~~~~P~~~~~l~~~   70 (98)
T d1wgma_          22 EFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLS----DQTDPFNRSPLTMD   70 (98)
T ss_dssp             TTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTT----SCBCTTTCSBCCTT
T ss_pred             HhCCcCchhHHHHHHhcccccchhhHHHHHHHHHh----cCCcccccccccch
Confidence            468999999999999999775 8999999999987    57999999988653

>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=97.88  E-value=1.2e-06  Score=69.21  Aligned_cols=47  Identities=19%  Similarity=0.527  Sum_probs=35.0

Q ss_pred             ccccccccchhhhh---hhcccchhhHHHHHHHHHhhcc----cccccCCCCCC
Q 012963          200 DDECAICREPMAKA---KKLLCNHLFHLACLRSWLDQGL----NEMYSCPTCRK  246 (452)
Q Consensus       200 ~~~C~ICl~~~~~~---~~l~C~H~Fh~~Cl~~Wl~~~~----~~~~~CP~CR~  246 (452)
                      ...|+||++++...   ..++|+|.||.+|+..|+..+-    .....||.|+.
T Consensus         5 ~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           5 SSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             BCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            45899999998542   3458999999999999997541    11347998654

>d2di0a1 a.5.2.4 (A:8-70) Activating signal cointegrator 1 complex subunit 2 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: CUE domain
domain: Activating signal cointegrator 1 complex subunit 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.59  E-value=0.002  Score=46.06  Aligned_cols=41  Identities=22%  Similarity=0.459  Sum_probs=37.9

Q ss_pred             HHHHHHHHHHHHHcCCCChhhHHhhhhccc-ceeeeeccccc
Q 012963          411 ANILAMAETVREVLPHMPEDLIFQDLQRTN-SATITVNNLLQ  451 (452)
Q Consensus       411 ~~~~~~~~~v~~~~p~~p~~~~~~~~~~~~-~~~~t~~~~l~  451 (452)
                      .++.+++.|||++|||....-|.+=|..-+ ++|..|++|||
T Consensus         4 vel~s~I~qV~Dl~PdLG~GFi~~~L~~Y~~n~E~vI~~lLe   45 (63)
T d2di0a1           4 VELDSLISQVKDLLPDLGEGFILACLEYYHYDPEQVINNILE   45 (63)
T ss_dssp             HHHHHHHHHHHHHCCSSCHHHHHHHHHHTTTCHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHcCCCcHHHHHHHHHHhCCCHHHHHHHHHc
Confidence            688999999999999999999999888854 99999999997

>d1mn3a_ a.5.2.4 (A:) Vacuolar protein sorting-associated protein vps9 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: CUE domain
domain: Vacuolar protein sorting-associated protein vps9
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.51  E-value=0.0048  Score=42.81  Aligned_cols=42  Identities=19%  Similarity=0.224  Sum_probs=35.5

Q ss_pred             HHHHHHHHHHHHHcCCCChhhHHhhhhc-ccceeeeecccccC
Q 012963          411 ANILAMAETVREVLPHMPEDLIFQDLQR-TNSATITVNNLLQM  452 (452)
Q Consensus       411 ~~~~~~~~~v~~~~p~~p~~~~~~~~~~-~~~~~~t~~~~l~~  452 (452)
                      .+.....++.++|||++..++|..=|.- .|+||.+|+-+|+|
T Consensus        10 ~e~~e~~~~Lk~MFP~~D~~VI~~VL~a~~G~vd~aidaLL~M   52 (54)
T d1mn3a_          10 NERKDTLNTLQNMFPDMDPSLIEDVCIAKKSRIEPCVDALLSL   52 (54)
T ss_dssp             HHHHHHHHHHHHHCTTSCHHHHHHHHSCSSCSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHhc
Confidence            5667789999999999999998875544 78999999999975

>d1wgla_ a.5.2.4 (A:) Toll-interacting protein {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: CUE domain
domain: Toll-interacting protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.29  E-value=0.006  Score=43.07  Aligned_cols=37  Identities=24%  Similarity=0.484  Sum_probs=33.1

Q ss_pred             HHHHHHHHcCCCChhhHHhhhhc-ccceeeeecccccC
Q 012963          416 MAETVREVLPHMPEDLIFQDLQR-TNSATITVNNLLQM  452 (452)
Q Consensus       416 ~~~~v~~~~p~~p~~~~~~~~~~-~~~~~~t~~~~l~~  452 (452)
                      .+++.++|||.+..++|..=|.. -++||.+++-||+|
T Consensus        12 ~i~~LkeMFP~~D~~vI~~VL~a~~G~vd~aid~LL~M   49 (59)
T d1wgla_          12 DLKAIQDMFPNMDQEVIRSVLEAQRGNKDAAINSLLQM   49 (59)
T ss_dssp             HHHHHHHHCSSSCHHHHHHHHTTTTTCHHHHHHHHHHS
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHhc
Confidence            58899999999999999987766 78999999999986

>d1f62a_ g.50.1.2 (A:) Williams-Beuren syndrome transcription factor, WSTF {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Williams-Beuren syndrome transcription factor, WSTF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.41  E-value=0.055  Score=36.56  Aligned_cols=45  Identities=36%  Similarity=0.805  Sum_probs=31.4

Q ss_pred             ccccccchhhhhhhc---ccchhhHHHHHHHHHhhcccccccCCCCCC
Q 012963          202 ECAICREPMAKAKKL---LCNHLFHLACLRSWLDQGLNEMYSCPTCRK  246 (452)
Q Consensus       202 ~C~ICl~~~~~~~~l---~C~H~Fh~~Cl~~Wl~~~~~~~~~CP~CR~  246 (452)
                      .|.||...-.....+   .|...||..|+..-+.......-.||.||.
T Consensus         2 ~C~vC~~~~~~~~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCCCCCEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            588887654433333   688999999998766543333568999975