Citrus Sinensis ID: 035975

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-----
Protein Sequence
ACSGSFVNIAIKKTNEVKPSQPKIEEINFDDFGVDLCPALNGNLSCSDVDDVDKNICVGSERENIDTTRTSEPHNTGCQKLEASNVNEAIRRGAVHSRIEEDLLQTESKSDVPQFMKLELVIKTNASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQAIEHFLESQILISGSENAYHRYAPDGESGIQAKDVSCAVTNLQREPELADSPSATGRGSNQIVADCDSVIRNNTGSCVNHLGADNSLKSCTLPYKVKQIDAEVHGSAQPVDFKRRPVDLDEFAECHGESQPIHVEAEFSNKRKRGLWVDTSGADKSFIESGRNRKDRTCYMCGSPNHLIRDCPAALSPNPMLQQGALRGHAPPFWNGPSLAHVRPIANIYGNHGMMPFNATMAPTTQFAVPAYMPSMFGGIPAYGFDMEASCSGYTMMGGPRTPVGVNAGRLGRSRVLHHQDCEKKQKLSNINMSEQSYDDDEDENVNIKHRYDEAERLHDKKSHFSKERERRPCYQLSEVEDMPSSSSWHGDERHKKHSRQSKKHNEREQFHSDSSWSRHAVKEKDGERKKLKSDVKRHSHKPDSCSESGLEPSYSSDRKKKQKEKDLSHGSRHSRHKSKSMDDEPSHDRWLMVKGSDEDHGEDYRYSERKSGYIKYS
Secondary Structure (PSIPRED)
cccccccHHHHccccccccccccEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHccccEEEccccccEEccccccccHHHHHHHHHHcccccccccccccccccHHHHHHHHHcccccccccHHHHHHHHHHHHcccccccccccccccccccccHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccccccccccccccccccccccccccccccccccccccccccccccHHHHHcccccccccHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHcccccccccccccccccccccccccHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccEEEEEEccccccccccccEEEEcccccccccccccccccccccccccccccccccccccccccccccccccEcEcccccccccccccccEEEccccccEEEccccccccccHHHHHccccccccccccccHHHccHHHHHHHHHcEEcccccccHHHHHHHHHHHccccccccccccccHHHccccHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccEEcccccccEccccccccccccccccccccccccccEEcccccccccEcccccccccHHHHHHHccccccEEEEEcccccccccccEcccccccccccccccccccEEEEcccccccHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHccccccccccccccccccccccccccccccccHHHHHcccccccccccccccccccccEEEcccHHHHHcccccccEEHcccccccccHHHcccccccccccHHHcccccccccccccccccccccccccccEEcccccccccHHHHccccccccccccccccccccccccccccccccccccccccccccEcccccccccEEEccccccccccccccccccccEEEEc
Coil and Loop (DISEMBL)
ACSGSFVNIAIKktnevkpsqpkieeinfddfgvdlcpalngnlscsdvddvdknicvgserenidttrtsephntgcqkleASNVNEAIRRGAVHSRIEedllqtesksdvpqFMKLELVIKTNASamengnfpselKCSLCNTLfkeavmipccqhsfceKCIRLVLVEkarcpkcfsskcrledllpnVSLRQAIEHFLESQIlisgsenayhryapdgesgiqaKDVSCAVtnlqrepeladspsatgrgsnqivADCDSvirnntgscvnhlgadnslksctlpykvkqidaevhgsaqpvdfkrrpvdldefaechgesqpihvEAEFSnkrkrglwvdtsgadksfiesgrnrkdrtcymcgspnhlirdcpaalspnpmlqqgalrghappfwngpslahvrpianiygnhgmmpfnatmapttqfavpaympsmfggipaygfdmeascsgytmmggprtpvgvnagrlgrsrvlhhqdcekkqklsninmseqsydddedenvnikhrydeaerlhdkkshfskererrpcyqlsevedmpsssswhgderhkkhsrqskkhnereqfhsdsswsrhavkekdgerkKLKSDvkrhshkpdscsesglepsyssdrkkkqkekdlshgsrhsrhksksmddepshdrwlmvkgsdedhgedyryserksgyikys
Flexible Loop (DISEMBL)
acsgsfvniaikktnevkpsqpkiEEINFDDFGVDLCPALNGNLSCSDVDDVDKNICVGSerenidttrtsephntgcqkleasnVNEAIRRGAVHSRIEEDllqtesksdvpqFMKLELVIKTNASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCfsskcrledllPNVSLRQAIEHFLESQILISGSENAYHRYAPDGESGIQAKDVSCAVTNLQRepeladspsatgrgsnQIVADCDSVIRNNTGSCVNHLGADNSLKSCTLPYKVKQIDaevhgsaqpvdfkrRPVDLDEFAEchgesqpihveaefsnkrkrglwvdtsgadksfiesgrnrkdrtCYMCGSPNHLIRDCPAALSPNPMLQQGALRGHAPPFWNGPSLAHVRPIANIYGNHGMMPFNATMAPTTQFAVPAYMPSMFGGIPAYGFDMEASCSGYTMMGGPRTPVGVNAGRLGRSRVLhhqdcekkqklsninmseqsydddedenVNIKhrydeaerlhdkkshfskererrpcyqlsevedmpsssswhgderhkkhsrqskkhnereqfhsdsswsrhavkekdgerkklksdvkrhshkpdscsesglepsyssdrkkkqkekdlshgsrhsrhksksmddepshdrwlmvkgsdedhgedyryserksgyikys
Low Complexity Region (SEG)
ACSGSFVNIAIKKTNEVKPSQPKIEEINFDDFGVDLCPALNGNLSCSDVDDVDKNICVGSERENIDTTRTSEPHNTGCQKLEASNVNEAIRRGAVHSRIEEDLLQTESKSDVPQFMKLELVIKTNASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQAIEHFLESQILISGSENAYHRYAPDGESGIQAKDVSCAVTNLQREPELADSPSATGRGSNQIVADCDSVIRNNTGSCVNHLGADNSLKSCTLPYKVKQIDAEVHGSAQPVDFKRRPVDLDEFAECHGESQPIHVEAEFSNKRKRGLWVDTSGADKSFIESGRNRKDRTCYMCGSPNHLIRDCPAALSPNPMLQQGALRGHAPPFWNGPSLAHVRPIANIYGNHGMMPFNATMAPTTQFAVPAYMPSMFGGIPAYGFDMEASCSGYTMMGGPRTPVGVNAGRLGRSRVLHHQDCEKKQKLSNINMSEQSYDDDEDENVNIKHRYDEAERLHDKKSHFSKERERRPCYQLSEVEDMPSSSSWHGDErhkkhsrqskkhNEREQFHSDSSWSRHAVKEKDGERKKLKSDVKRHSHKPDSCSESGLEPSYSSDRKKKQKEKDLshgsrhsrhksksMDDEPSHDRWLMVKGSDEDHGEDYRYSERKSGYIKYS
Disordered region (IsUnstruct)
********I**************IEEINFDDFGVDLCPALNGNLSCSDVDDVDKNICVG*******************************************************FMKLELVIKTNASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQAIEHFLESQILISGSENAYHRYA**************************************IVADCDSVIRNNTGSCVNHLGADNSLKSCTLPYKVKQIDAEVHGS***VDF****VDLDEFAEC*******************GLWVDT***************DRTCYMCGSPNHLIRDCPAALS***MLQQGALRGHAPPFWNGPSLAHVRPIANIYGNHGMMPFNATMAPTTQFAVPAYMPSMFGGIPAYGFDMEASCSGYTMMGGPRTPVGVN*******************************************************************************************************************************************************************************************************************
Disordered Region (DISOPRED)
*********************PKIEEINFDDFGVDLCPALNGNLSCSDVDDVDKNICVGSERENIDTTRTSEP*************************IEEDLLQTES*****************************LKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQAIEHFLESQI***********************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************
Disordered Region (DISEMBL)
ACSGSFVNIAIKKTNEVKPSQPKIEEINFDDFGVDLCPALNGNLSCSDVDDVDKNICVGSERENIDTTRTSEPHNTGCQKLEASNVNEAIRRGAVHSRIEEDLLQTESKSDVPQFMKLELVIKTNASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQAIEHFLESQILISGSENAYHRYAPDGESGIQAKDVSCAVTNLQREPELADSPSATGRGSNQIVADCDSVIRNNTGSCVNHLGADNSLKSCTLPYKVKQIDAEVHGSAQPVDFKRRPVDLDEFAECHGESQPIHVEAEFSNKRKRGLWVDTSGADKSFIESGRNRKDRTCYMCGSPNHLIRDCPAALSPNPMLQQGALRGHAPPFWNGPSLAHVRPIANIYGNHGMMPFNATMAPTTQFAVPAYMPSMFGGIPAYGFDMEASCSGYTMMGGPRTPVGVNAGRLGRSRVLHHQDCEKKQKLSNINMS*********ENVNIKHRYDEAERLHDKK*********RPCYQLSE************************************************************************************************************HDRWLMVKGSDEDHGEDYRYSERKSGYIKYS
Disordered Region (DISPRO)
*CSGSFVNIAIKKTNEVKPSQPKIEEINFDDFGVDLCPALNGNLSCSDVDDVDKNICVGSERENIDTTRTSEPHNTGCQKLEASNVNEAIRRGAVHSRIEEDLLQTESKSDVPQFMKL************NGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQAIEHFLESQ***************************************************************************************KQI********QPVDFKRRPVDLDEFAECHGESQPIHVEAEFSNKR**GLWVDTSGADKSFIESGRNRKDRTCYMCGSPNHLIRDCPAALSPNPMLQQGALRGHAPPFWNGPSLAHVRPIANIYGNHGMMPFNATMAPTTQFAVPAYMPSMFGGIPAYGFDMEASCSGYTMMGGPRTPVGVNAG*L*RSRVLHHQDCEKKQK*******EQSYDDDEDENVNIKHRYDEAER*******FSKERERRPCYQLSEVE*********************************************************************************************************************EDHGEDYRYSERKSGYIKYS
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
ACSGSFVNIAIKKTNEVKPSQPKIEEINFDDFGVDLCPALNGNLSCSDVDDVDKNICVGSERENIDTTRTSEPHNTGCQKLEASNVNEAIRRGAVHSRIEEDLLQTESKSDVPQFMKLELVIKTNASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQAIEHFLESQILISGSENAYHRYAPDGESGIQAKDVSCAVTNLQREPELADSPSATGRGSNQIVADCDSVIRNNTGSCVNHLGADNSLKSCTLPYKVKQIDAEVHGSAQPVDFKRRPVDLDEFAECHGESQPIHVEAEFSNKRKRGLWVDTSGADKSFIESGRNRKDRTCYMCGSPNHLIRDCPAALSPNPMLQQGALRGHAPPFWNGPSLAHVRPIANIYGNHGMMPFNATMAPTTQFAVPAYMPSMFGGIPAYGFDMEASCSGYTMMGGPRTPVGVNAGRLGRSRVLHHQDCEKKQKLSNINMSEQSxxxxxxxxxxxxxxxxxxxxxHDKKSHFSKERERRPCYQLSEVEDMPSSSSWHGDERHKKHSRQSKKHNEREQFHSDSSWSRHAVKEKDGERKKLKSDVKRHSHKPDSCSESGLEPSYSSDRKKKQKEKDLSHGSRHSRHKSKSMDDEPSHDRWLMVKGSDEDHGEDYRYSERKSGYIKYS
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	685	2.2.26 [Sep-21-2011]
P97868	1790	E3 ubiquitin-protein liga	yes	no	0.099	0.037	0.4	6e-10
Q7Z6E9	1792	E3 ubiquitin-protein liga	yes	no	0.099	0.037	0.4	6e-10
O94264	482	Uncharacterized RING fing	yes	no	0.110	0.157	0.358	3e-06
Q91431	610	Nuclear factor 7, ovary O	N/A	no	0.108	0.121	0.382	9e-05
Q9D4H7	753	LON peptidase N-terminal	no	no	0.097	0.088	0.435	0.0001
Q6CHI1	344	Postreplication repair E3	yes	no	0.090	0.180	0.369	0.0001
Q4WZJ6	418	Postreplication repair E3	yes	no	0.093	0.153	0.378	0.0002
Q9QXK2	509	E3 ubiquitin-protein liga	no	no	0.191	0.257	0.286	0.0002
Q02398	443	Postreplication repair E3	no	no	0.096	0.148	0.367	0.0002
Q803C1	485	E3 ubiquitin-protein liga	no	no	0.065	0.092	0.478	0.0002

>sp|P97868|RBBP6_MOUSE E3 ubiquitin-protein ligase RBBP6 OS=Mus musculus GN=Rbbp6 PE=1 SV=5

 Score = 66.6 bits (161), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 28/70 (40%), Positives = 43/70 (61%), Gaps = 2/70 (2%)

Query: 134 FPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVE--KARCPKCFSSKCRLEDLLPN 191
            P EL C +C  +  +AV+IPCC +S+C++CIR  L+E  +  CP C  +    + L+ N
Sbjct: 254 IPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALIAN 313

Query: 192 VSLRQAIEHF 201
             LRQA+ +F
Sbjct: 314 KFLRQAVNNF 323

E3 ubiquitin-protein ligase which promotes ubiquitination of YBX1, leading to its degradation by the proteasome (By similarity). May play a role as a scaffold protein to promote the assembly of the p53/TP53-MDM2 complex, resulting in increase of MDM2-mediated ubiquitination and degradation of p53/TP53; may function as negative regulator of p53/TP53, leading to both apoptosis and cell growth retardation.
Mus musculus (taxid: 10090)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q7Z6E9|RBBP6_HUMAN E3 ubiquitin-protein ligase RBBP6 OS=Homo sapiens GN=RBBP6 PE=1 SV=1

 Score = 66.6 bits (161), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 28/70 (40%), Positives = 43/70 (61%), Gaps = 2/70 (2%)

Query: 134 FPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVE--KARCPKCFSSKCRLEDLLPN 191
            P EL C +C  +  +AV+IPCC +S+C++CIR  L+E  +  CP C  +    + L+ N
Sbjct: 253 IPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALIAN 312

Query: 192 VSLRQAIEHF 201
             LRQA+ +F
Sbjct: 313 KFLRQAVNNF 322

E3 ubiquitin-protein ligase which promotes ubiquitination of YBX1, leading to its degradation by the proteasome. May play a role as a scaffold protein to promote the assembly of the p53/TP53-MDM2 complex, resulting in increase of MDM2-mediated ubiquitination and degradation of p53/TP53; may function as negative regulator of p53/TP53, leading to both apoptosis and cell growth.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|O94264|YORF_SCHPO Uncharacterized RING finger protein P8B7.15c OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPBP8B7.15c PE=4 SV=1

 Score = 54.3 bits (129), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 28/78 (35%), Positives = 43/78 (55%), Gaps = 2/78 (2%)

Query: 138 LKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEK-ARCPKCFSSKCRLEDLLPNVSLRQ 196
           L C+LC  L + A   PCC   FCE+CI+  L++    CP C      L+ L P+   ++
Sbjct: 280 LACTLCKKLARNACRTPCCDKLFCEECIQTALLDSDFECPNCHRKDVLLDTLNPDYQKQR 339

Query: 197 AIEHFLESQILISGSENA 214
            IE  ++S +L S S+N+
Sbjct: 340 EIEAVVKS-VLGSNSKNS 356

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

>sp|Q91431|NF7O_XENLA Nuclear factor 7, ovary OS=Xenopus laevis PE=2 SV=1

 Score = 49.3 bits (116), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 31/81 (38%), Positives = 43/81 (53%), Gaps = 7/81 (8%)

Query: 123 KTNASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKAR--CPKCFS 180
           KT AS    G+F  EL C LC  LFK+ VM+  C H+FC  CI  V   ++   CP+C  
Sbjct: 129 KTAASLGAAGDFAEELTCPLCVELFKDPVMV-ACGHNFCRSCIDKVWEGQSSFACPECKE 187

Query: 181 S----KCRLEDLLPNVSLRQA 197
           S    K  +  +L N++ + A
Sbjct: 188 SITDRKYTINRVLANLAKKAA 208

Transcription factor that determines dorsal-ventral body axis.

Xenopus laevis (taxid: 8355)

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

 Score = 49.3 bits (116), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 41/78 (52%), Gaps = 11/78 (14%)

Query: 132 GNF-PSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLP 190
           G+F  S+L+CSLC  LF E V  PC  H+FC KC+   L   A+CP C   K  L   LP
Sbjct: 452 GSFDASDLECSLCMRLFYEPVTTPC-GHTFCLKCLERCLDHNAKCPLC---KDVLLQCLP 507

Query: 191 ------NVSLRQAIEHFL 202
                 NV L + I  FL
Sbjct: 508 SRKYSKNVILEELIATFL 525

Mus musculus (taxid: 10090)

>sp|Q6CHI1|RAD18_YARLI Postreplication repair E3 ubiquitin-protein ligase RAD18 OS=Yarrowia lipolytica (strain CLIB 122 / E 150) GN=RAD18 PE=3 SV=1

 Score = 48.9 bits (115), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 24/65 (36%), Positives = 35/65 (53%), Gaps = 3/65 (4%)

Query: 138 LKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKA-RCPKCFSSKCRLEDLLPNVSLRQ 196
           L+C +C   F  A MI  C H+FC  CI+  L   + RCP C   + ++  L  NV++  
Sbjct: 26  LRCHICKEFFT-APMITGCGHTFCSLCIQRYLTNTSQRCPTCMQEQ-QISQLRKNVTVET 83

Query: 197 AIEHF 201
            +EHF
Sbjct: 84  LVEHF 88

E3 RING-finger protein, member of the UBC2/RAD6 epistasis group. Associates to the E2 ubiquitin conjugating enzyme UBC2/RAD6 to form the UBC2-RAD18 ubiquitin ligase complex involved in postreplicative repair (PRR) of damaged DNA.

Yarrowia lipolytica (strain CLIB 122 / E 150) (taxid: 284591)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q4WZJ6|RAD18_ASPFU Postreplication repair E3 ubiquitin-protein ligase rad18 OS=Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100) GN=rad18 PE=3 SV=1

 Score = 48.5 bits (114), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 25/66 (37%), Positives = 36/66 (54%), Gaps = 2/66 (3%)

Query: 136 SELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLR 195
           S L+C +C   F   V I  C H+FC  CIR  L  + +CP C SS   L+ L  N +++
Sbjct: 26  SSLRCQVCKDFFDNPV-ITSCSHTFCSLCIRRCLSTEGKCPACRSSDQELK-LRRNWAVQ 83

Query: 196 QAIEHF 201
           + +E F
Sbjct: 84  ELVEAF 89

E3 RING-finger protein, member of the UBC2/RAD6 epistasis group. Associates to the E2 ubiquitin conjugating enzyme UBC2/RAD6 to form the UBC2-RAD18 ubiquitin ligase complex involved in postreplicative repair (PRR) of damaged DNA.

Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100) (taxid: 330879)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9QXK2|RAD18_MOUSE E3 ubiquitin-protein ligase RAD18 OS=Mus musculus GN=Rad18 PE=1 SV=2

 Score = 48.1 bits (113), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 43/150 (28%), Positives = 66/150 (44%), Gaps = 19/150 (12%)

Query: 138 LKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQA 197
           L+C +C   F  AV+IP C H++C  CIR  L  K +CP C  +     DL  N  L + 
Sbjct: 23  LRCGICFEYFNIAVIIPQCSHNYCSLCIRKFLSYKTQCPTCCVAVTE-PDLRNNRLLDEL 81

Query: 198 IE--HFLESQILISGSENAYHRYAPDGESGIQAKDVSCAVTNLQREPELADSPSATGRGS 255
           ++  +F  + +L    E+      P       +K V   V N       AD+     + +
Sbjct: 82  VKSMNFARTHLLQFALES-----PPISPVSSTSKKVVVKVHN-------ADAAQHPVKQA 129

Query: 256 NQIVADCDSVIRNNTGSCV-NHLGADNSLK 284
           N+++   D  +   TG CV   LG +N  K
Sbjct: 130 NRLM---DKFLIRETGDCVFELLGKENERK 156

E3 ubiquitin-protein ligase involved in postreplication repair of UV-damaged DNA. Postreplication repair functions in gap-filling of a daughter strand on replication of damaged DNA. Associates to the E2 ubiquitin conjugating enzyme UBE2B to form the UBE2B-RAD18 ubiquitin ligase complex involved in mono-ubiquitination of DNA-associated PCNA on 'Lys-164'. Has ssDNA binding activity.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q02398|RAD18_EMENI Postreplication repair E3 ubiquitin-protein ligase rad18 OS=Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139) GN=uvsH PE=2 SV=1

 Score = 48.1 bits (113), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 25/68 (36%), Positives = 36/68 (52%), Gaps = 2/68 (2%)

Query: 134 FPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVS 193
           F + L+C +C   F   V I  C H+FC  CIR  L  + +CP C SS   L+ L  N  
Sbjct: 24  FETSLRCQVCKDFFDNPV-ITSCSHTFCSLCIRRCLSTEGKCPTCRSSDQELK-LRRNWV 81

Query: 194 LRQAIEHF 201
           +++ +E F
Sbjct: 82  VQELVEGF 89

E3 RING-finger protein, member of the UBC2/RAD6 epistasis group. Associates to the E2 ubiquitin conjugating enzyme UBC2/RAD6 to form the UBC2-RAD18 ubiquitin ligase complex involved in postreplicative repair (PRR) of damaged DNA.

Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139) (taxid: 227321)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q803C1|RNF8_DANRE E3 ubiquitin-protein ligase RNF8 OS=Danio rerio GN=rnf8 PE=2 SV=1

 Score = 48.1 bits (113), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/46 (47%), Positives = 29/46 (63%), Gaps = 1/46 (2%)

Query: 134 FPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCF 179
             SEL+CS+C+ LF EAV + C  HSFC+ CI      K +CP C+
Sbjct: 386 LESELQCSICSELFIEAVTLNCA-HSFCQHCISEWRNRKDKCPMCW 430

E3 ubiquitin-protein ligase required for assembly of repair proteins to sites of DNA damage. Catalyzes the 'Lys-63'-linked ubiquitination of histone H2A and H2AX. Following DNA double-strand breaks (DSBs), it is recruited to the sites of damage by ATM-phosphorylated mdc1, mediates the ubiquitination of histones H2A and H2AX, thereby promoting the formation of tp53bp1 and brca1 ionizing radiation-induced foci (IRIF). Promotes the formation of 'Lys-63'-linked polyubiquitin chains and functions with the specific ubiquitin-conjugating ube2n/ubc13. Substrates that are polyubiquitinated at 'Lys-63' are usually not targeted for degradation. Ubiquitination of histone H2A requires ube2n but not mms2 (ube2v2). May also ubiquitinate histone H2B.

Danio rerio (taxid: 7955)

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	685
343887318	827	hypothetical protein [Citrus unshiu]	1.0	0.828	0.917	0.0
296081706	795	unnamed protein product [Vitis vinifera]	0.927	0.798	0.461	1e-149
359475970	577	PREDICTED: uncharacterized protein LOC10	0.639	0.759	0.484	1e-103
449453057	724	PREDICTED: uncharacterized protein LOC10	0.849	0.803	0.317	2e-64
449489392	735	PREDICTED: uncharacterized LOC101204547	0.846	0.789	0.309	9e-61
357151568	886	PREDICTED: uncharacterized protein LOC10	0.725	0.560	0.299	2e-49
168039363	784	predicted protein [Physcomitrella patens	0.443	0.387	0.336	4e-36
168027868	306	predicted protein [Physcomitrella patens	0.154	0.346	0.504	2e-23
359476274	221	PREDICTED: uncharacterized protein LOC10	0.242	0.751	0.363	6e-17
440794050	983	DWNN domain containing protein [Acantham	0.102	0.071	0.4	6e-12

>gi|343887318|dbj|BAK61864.1| hypothetical protein [Citrus unshiu]

 Score = 1386 bits (3587), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 681/742 (91%), Positives = 681/742 (91%), Gaps = 57/742 (7%)

Query: 1   ACSGSFVNIAIKKTNEVKPSQPKIEEINFDDFGVDLCPALNGNLSCSDVDDVDKNICVGS 60
           ACSGSFVNIAIKKTNEVKPSQPKIEEINFDDFGVDLCPALNGNLSCSDVDDVDKNICVGS
Sbjct: 86  ACSGSFVNIAIKKTNEVKPSQPKIEEINFDDFGVDLCPALNGNLSCSDVDDVDKNICVGS 145

Query: 61  ERENIDTTRTSEPHNTGCQKLEASNVNEAIRRGAVHSRIEEDLLQTESKSDVPQFMKLEL 120
           ERENIDTTRTSEPHNTGCQKLEASNVNEAIRRGAVHSRIEEDLLQTESKSDVPQFMKLEL
Sbjct: 146 ERENIDTTRTSEPHNTGCQKLEASNVNEAIRRGAVHSRIEEDLLQTESKSDVPQFMKLEL 205

Query: 121 VIKTNASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFS 180
           VIKTNASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVL EKARCPKCFS
Sbjct: 206 VIKTNASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLAEKARCPKCFS 265

Query: 181 SKCRLEDLLPNVSLRQAIEHFLESQILISGSENAYHRYAPDGESGIQAKDVSCAVTNLQR 240
           SKCRLEDLLPNVSLRQAIEHFLESQILISGSENAYHRYAPDGESGIQAKDVSCAVTNLQR
Sbjct: 266 SKCRLEDLLPNVSLRQAIEHFLESQILISGSENAYHRYAPDGESGIQAKDVSCAVTNLQR 325

Query: 241 EPELADSPSATGRGSNQIVADCDSVIRNNTGSCVNHLGADNSLKSCTLPYKVKQIDAEVH 300
           EPELADSPSATGRGSNQIVADCDSVIRNNTGSCVNHLGADN LKSCTLPYKVKQIDAEVH
Sbjct: 326 EPELADSPSATGRGSNQIVADCDSVIRNNTGSCVNHLGADNLLKSCTLPYKVKQIDAEVH 385

Query: 301 GSAQPVDFKRRPVDLDEFAECHGESQPIHVEAEFSNKRKRGLWVDTSGADKSFIESGRNR 360
           GSAQPVDFKRRPVDLDEFAECHGESQPIHVEAEFSNKRKRGLWVDTSGADKSFIESGRNR
Sbjct: 386 GSAQPVDFKRRPVDLDEFAECHGESQPIHVEAEFSNKRKRGLWVDTSGADKSFIESGRNR 445

Query: 361 K------DRTCYMCGSPNHLIRDCPAALSPNPMLQQ------GALRGHAPPFWNGPSLAH 408
           K      DRTCYMCGSPNHLIRDCPAALSPNPMLQQ      GALRGHAPPFWNGPSLAH
Sbjct: 446 KLSCPHQDRTCYMCGSPNHLIRDCPAALSPNPMLQQGNAFFAGALRGHAPPFWNGPSLAH 505

Query: 409 VRPIANIYGNHGMMPFNATMAPTTQFAVPAYMPSMFGGIPAYGFDMEASCSGYTMMGGPR 468
           VRPIANIYGNHGMMPFN TMAPTTQFAVPAYMPSMFGGIPAYGFDMEASCSGYTMMGGPR
Sbjct: 506 VRPIANIYGNHGMMPFNTTMAPTTQFAVPAYMPSMFGGIPAYGFDMEASCSGYTMMGGPR 565

Query: 469 TPVGVNAGRLGRSRVLHHQDCEKKQKLSNINMSEQSYDDDEDENVNIKHRYDEAERLHDK 528
           TPVGVNAGRLGRSRVLHHQDCEKKQKLSNINMSEQSYDDDEDENVNIKHRYDEAER HDK
Sbjct: 566 TPVGVNAGRLGRSRVLHHQDCEKKQKLSNINMSEQSYDDDEDENVNIKHRYDEAERSHDK 625

Query: 529 KSHFSKE---------------------------------------------RERRPCYQ 543
           KSHFSKE                                             RERRPCYQ
Sbjct: 626 KSHFSKERSVSFSEGSFTHRSHKRHWCYSNLDDDRHSFDKKYKKNSSSSYPYRERRPCYQ 685

Query: 544 LSEVEDMPSSSSWHGDERHKKHSRQSKKHNEREQFHSDSSWSRHAVKEKDGERKKLKSDV 603
           LSEVEDMPSSSSWHGDERHKKHSRQSKKHNEREQFHSDSSWSRHAVKEKDGERKKLKSDV
Sbjct: 686 LSEVEDMPSSSSWHGDERHKKHSRQSKKHNEREQFHSDSSWSRHAVKEKDGERKKLKSDV 745

Query: 604 KRHSHKPDSCSESGLEPSYSSDRKKKQKEKDLSHGSRHSRHKSKSMDDEPSHDRWLMVKG 663
           KRHSHKPDSCSESGLEPSYSSDRKKKQKEKDLSHGSRHSRHKSKSMDDEPSHDRWLMVKG
Sbjct: 746 KRHSHKPDSCSESGLEPSYSSDRKKKQKEKDLSHGSRHSRHKSKSMDDEPSHDRWLMVKG 805

Query: 664 SDEDHGEDYRYSERKSGYIKYS 685
           SDEDHGEDYRYSERKSGYIKYS
Sbjct: 806 SDEDHGEDYRYSERKSGYIKYS 827

Source: Citrus unshiu

Species: Citrus unshiu

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296081706|emb|CBI20711.3| unnamed protein product [Vitis vinifera]

 Score =  534 bits (1376), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 346/749 (46%), Positives = 443/749 (59%), Gaps = 114/749 (15%)

Query: 1   ACSGSFVNIAIKKTNEVKPSQPKI-EEINFDDFGVDLCPALNGNLSCSDVDDVDKNICVG 59
           AC  S  ++  K  N V    PKI E  +FDDFG+DLCP    +   SD+D +DK  C G
Sbjct: 87  ACIDSIKHVGSKDANLV----PKIVEIDDFDDFGIDLCPVPQPSFCDSDLD-IDKMNCSG 141

Query: 60  SERENIDTTRTSEPHNTGCQKLEASNVNEAIRRGAVHSRIEEDLLQTESKSDVPQFMKLE 119
           SE +     R S+P    CQKLE+S+++EA  RG+ H +++ +  QT+SK  V +  KLE
Sbjct: 142 SEIKPSTVPRCSKPPVIVCQKLESSDLSEASPRGSTH-KVQGNAPQTKSKPKVEEQTKLE 200

Query: 120 LVIKTNASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCF 179
            V   N  A++N + PSE+KCSLCNT FK+AVMIPCCQHSFCEKCI LVLVEKA+CPKC 
Sbjct: 201 KVAHANPQAIQNVDLPSEMKCSLCNTYFKKAVMIPCCQHSFCEKCIHLVLVEKAQCPKCS 260

Query: 180 SSKCRLEDLLPNVSLRQAIEHFLESQILISGSENAYHRYAPDGESGIQAKDVSCAVTNLQ 239
           S+KCR+EDLLPN+SLRQAI+HFLESQIL+SGS++A+HRYAPDGESGIQA D S A T LQ
Sbjct: 261 STKCRVEDLLPNLSLRQAIDHFLESQILLSGSDDAFHRYAPDGESGIQANDFSFAGTILQ 320

Query: 240 REPELADSPSATGRGSNQIVADC--DSVIRNNT-----GSCVNHLGADNSLKSCTLPYKV 292
           ++ +L  SPSATG+GSN I+ +   DS  RNN      GS      A  SLKS  L  K+
Sbjct: 321 KDLDLPHSPSATGKGSNYIMTESAYDSTSRNNASMGIGGSHRFDSAAGKSLKSAPLSQKI 380

Query: 293 KQIDAEVHGSAQPVDFKRRPVDLDEFAECHGESQPIHV-------EAEFSNKRKRGLWVD 345
           KQI  E                 D+F    GE+ P ++       EA+ + K+K+ LWV+
Sbjct: 381 KQIVGEN----------------DDF---QGENIPTNLCKSRVPEEADSTLKKKKELWVN 421

Query: 346 TSGADKSFI-ESGRNRK-DRTCYMCGSPNHLIRDCPAALSPNPMLQQGAL-RGHAP---P 399
            SG  +S I  +GRN+K DR CY CGSP+HL+RDCP ALS N MLQ GA+  G  P   P
Sbjct: 422 ASGGGQSVIPNNGRNKKGDRACYTCGSPDHLMRDCPTALSQNAMLQTGAMFPGVMPGLSP 481

Query: 400 FWNGPSLAHVRPIANIYGNHGMMPFNATMAPTTQFAVPAYMPSMFGGIPAYGFDMEASCS 459
           +WNG    + R   N+YGN GMM FNATM P T FAVPAY+PSM+ G+P  G        
Sbjct: 482 YWNGTPSPYGRSSVNMYGNPGMMAFNATMVPVTPFAVPAYVPSMYCGLPVNG-------- 533

Query: 460 GYTMMGGPRTPVGVNAGR-LGRSRVLHHQDCEKKQKLSNINMSEQSYDDDEDENVNIKHR 518
           GY  MGG   PVG +A R L         DC KKQKL N NM+      DEDE++N  +R
Sbjct: 534 GYMGMGGLAPPVGTSAERPLSHPEFSELHDCRKKQKLLNRNMTR-----DEDEDLNKWYR 588

Query: 519 YDEAERLHDKKSHFSKE------------------------------------------- 535
           Y++AER H  K H  +E                                           
Sbjct: 589 YNDAERSHGHKPHIEREKSISDSEDSSTQRLKRKNRHDKRFDDDIHYGDERHEKSSRPIV 648

Query: 536 -RERRPCYQLS---EVEDMPSSSSWHGDERHKKHSRQSKKHN-EREQFHSDSSWSRHAVK 590
            R+R+P +      E++DMP SSSWH ++RHK H   SKKHN +R Q  +DSS SRH  K
Sbjct: 649 GRDRKPYHTERSSLEIDDMPYSSSWHSEDRHKNHHESSKKHNDQRGQCSNDSSRSRHHTK 708

Query: 591 -EKDGERKKLKSDVKRHSHKPDSCSESGLEPSYSSDRKKKQKEKDLSHGSRHSRHKSKSM 649
            +KD ER     ++K+ S K  S S+SG E   ++ + K+ KE+D  HG  H RH +KSM
Sbjct: 709 HQKDDER-----NIKKQSEKHYSHSQSGSEQGLATQQIKQVKERDSRHGLGHDRHNAKSM 763

Query: 650 DDEPSHDRWLMVKGSDEDHGEDYRYSERK 678
           +++  HDRW M  GSD DH +++   +RK
Sbjct: 764 NNDNEHDRWQMAIGSDHDHRDEHPRHKRK 792

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359475970|ref|XP_002279816.2| PREDICTED: uncharacterized protein LOC100252571 [Vitis vinifera]

 Score =  384 bits (985), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 244/504 (48%), Positives = 304/504 (60%), Gaps = 66/504 (13%)

Query: 1   ACSGSFVNIAIKKTNEVKPSQPKI-EEINFDDFGVDLCPALNGNLSCSDVDDVDKNICVG 59
           AC  S  ++  K  N V    PKI E  +FDDFG+DLCP    +   SD+D +DK  C G
Sbjct: 87  ACIDSIKHVGSKDANLV----PKIVEIDDFDDFGIDLCPVPQPSFCDSDLD-IDKMNCSG 141

Query: 60  SERENIDTTRTSEPHNTGCQKLEASNVNEAIRRGAVHSRIEEDLLQTESKSDVPQFMKLE 119
           SE +     R S+P    CQKLE+S+++EA  RG+ H +++ +  QT+SK  V +  KLE
Sbjct: 142 SEIKPSTVPRCSKPPVIVCQKLESSDLSEASPRGSTH-KVQGNAPQTKSKPKVEEQTKLE 200

Query: 120 LVIKTNASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCF 179
            V   N  A++N + PSE+KCSLCNT FK+AVMIPCCQHSFCEKCI LVLVEKA+CPKC 
Sbjct: 201 KVAHANPQAIQNVDLPSEMKCSLCNTYFKKAVMIPCCQHSFCEKCIHLVLVEKAQCPKCS 260

Query: 180 SSKCRLEDLLPNVSLRQAIEHFLESQILISGSENAYHRYAPDGESGIQAKDVSCAVTNLQ 239
           S+KCR+EDLLPN+SLRQAI+HFLESQIL+SGS++A+HRYAPDGESGIQA D S A T LQ
Sbjct: 261 STKCRVEDLLPNLSLRQAIDHFLESQILLSGSDDAFHRYAPDGESGIQANDFSFAGTILQ 320

Query: 240 REPELADSPSATGRGSNQIVADC--DSVIRNNT-----GSCVNHLGADNSLKSCTLPYKV 292
           ++ +L  SPSATG+GSN I+ +   DS  RNN      GS      A  SLKS  L  K+
Sbjct: 321 KDLDLPHSPSATGKGSNYIMTESAYDSTSRNNASMGIGGSHRFDSAAGKSLKSAPLSQKI 380

Query: 293 KQIDAE---VHGSAQPVDFKRRPVDLDEFAECHGESQPIHVEAEFSNKRKRGLWVDTSGA 349
           KQI  E     G   P +  +  V  +   +    S       + + K+K+ LWV+ SGA
Sbjct: 381 KQIVGENDDFQGENIPTNLCKSRVPEEGIEQLLSAS-------DSTLKKKKELWVNASGA 433

Query: 350 DKSF---IES----------------------------------GRNRK-DRTCYMCGSP 371
              F   I S                                  GRN+K DR CY CGSP
Sbjct: 434 IYIFQFYITSAETSSRDHLSLYLLSILITLMDFPGGGQSVIPNNGRNKKGDRACYTCGSP 493

Query: 372 NHLIRDCPAALSPNPMLQQGAL-RGHAP---PFWNGPSLAHVRPIANIYGNHGMMPFNAT 427
           +HL+RDCP ALS N MLQ GA+  G  P   P+WNG    + R   N+YGN GMM FNAT
Sbjct: 494 DHLMRDCPTALSQNAMLQTGAMFPGVMPGLSPYWNGTPSPYGRSSVNMYGNPGMMAFNAT 553

Query: 428 MAPTTQFAVPAYMPSMFGGIPAYG 451
           M P T FAVPAY+PSM+ G+P  G
Sbjct: 554 MVPVTPFAVPAYVPSMYCGLPVNG 577

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449453057|ref|XP_004144275.1| PREDICTED: uncharacterized protein LOC101204547 [Cucumis sativus]

 Score =  253 bits (646), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 229/721 (31%), Positives = 326/721 (45%), Gaps = 139/721 (19%)

Query: 6   FVNIAIKKTNEVKPSQP-KIEEINFDDFGVDLCPALNGNLSCSDVDDVDKNICVGSEREN 64
           F N  +K T+ VK S+P  +E  +FDDFG+DL P    N S            +    +N
Sbjct: 91  FGNFQVKDTHMVKSSRPVDVETEHFDDFGIDLYPIRKSNSS------------ISLNNKN 138

Query: 65  IDTTRTSEPHNTGCQKLEASNVNEAIRRGAVHSRIEEDLLQTESKSDVPQFMKLELVIKT 124
            D  R  +    G  + E S ++EAI+       + E+ L+T  K +V + + LE  I  
Sbjct: 139 NDAVRHYKETKRGYIQPEGSGISEAIQG------VGENDLRTNIKVNVGECIGLEKPI-- 190

Query: 125 NASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCR 184
            A  +     PSELKCSLCN+LF +AV+  CC+HSFCEKCI  VL+ K  CPKC SSK +
Sbjct: 191 -APVIHKCEIPSELKCSLCNSLFVDAVITGCCKHSFCEKCIHHVLLRKTMCPKCASSKYK 249

Query: 185 LEDLLPNVSLRQAIEHFLESQILISGSENAYHRYAPDGESGIQAKDVSCAVTNLQREPEL 244
           LEDL PN+SLRQ + HFLESQ L+  S+N +   APD ES I+ +D+ C           
Sbjct: 250 LEDLSPNLSLRQNVTHFLESQFLMGDSDNNHE--APDEESRIEGQDMCCL---------- 297

Query: 245 ADSPSATGRGSNQIVADCDSV--IRNNTGSCVNHLGADNSLKSCTLPYKVKQIDAEVHGS 302
              P+AT RG NQ V D D V  +R N                      + ++D     S
Sbjct: 298 ---PNATSRGCNQEVVDDDHVSSMRRNM---------------------MVKVDRAQFQS 333

Query: 303 AQPVDFKRRPVDLDEFAECHGESQPIHVEAEFSNKRKRGLWV---DTSGADKSFIESGRN 359
                F  +P+DL  F +C GESQP+    +F    K G  V   D  G  ++  +  R 
Sbjct: 334 CHQDKFGGKPLDLPPFDDCQGESQPVF--GDF----KHGFLVNDFDMQGRIQNLTDFRRQ 387

Query: 360 RK-DRTCYMCGSPNHLIRDCPAALSPNPMLQQGALRGHAPPFWNGPSLAHVRPIANIYGN 418
           +K  R CYMCGS +HLIRDCP A  P+PM   GAL  +A P+       HV    N+YG 
Sbjct: 388 KKRGRACYMCGSLDHLIRDCPVASKPHPMHLMGALPYYASPW------PHVSSFPNLYG- 440

Query: 419 HGMMPFNATMAPTTQFAVPAYMPSMFGGIPAYGFDMEASCSGYTMMGGPRTPVGVNAGRL 478
              M FNA M P       +Y  S++GG PA         SG+  M     P        
Sbjct: 441 -CPMAFNAPMVPDAN----SYWASVYGGYPAP--------SGFVGMRDMNAPPLRKTEEF 487

Query: 479 --GRSRVLHHQDCEKKQKLSN------INMSEQSYDDDEDENVNIKHRYDEAERLHDKKS 530
             G S  +H  D +K + +        I  S +   + +D   N + ++++  R  D + 
Sbjct: 488 CAGNSEFVHLSDTDKNRTIPENSTWRVIPFSNEDGSEGKDHAGNKRGQHEQDGRSRDYRM 547

Query: 531 HFSKERERRPCYQLS-----------------------------EVEDMPSSSSWHGDER 561
              KE  R+   Q                               E E +  S+    +ER
Sbjct: 548 FVEKEHLRKENTQDEINWLYDEKMKSSHSPKAAMMNRLNERLKLEKEGLTCSTKLPTNER 607

Query: 562 HKKHSRQSKKHNEREQ---FHSDSSWSRHAVKEKDGERKKLKSDVKRHSHKPDSCSESGL 618
              + R  ++   R      H+DS+  +   K+K+ +      D+K H+ K  S S+  L
Sbjct: 608 TGHYHRGFREFGARTDECCSHADSNEHKR-YKQKEDKIDTFDIDLKCHTKKHHSGSKPDL 666

Query: 619 EPSYSSDRKKKQKEKDLSHGSRHSRHKSKSMDDEPSHDRWLMVKGSDEDHGEDYRYSERK 678
             SYSS++K  Q +      SR+S+H      +E +     +V G+D+ H E     +RK
Sbjct: 667 ARSYSSNQKLLQNDSGFI--SRYSKH------NELTQYHHQIVGGTDDSHEEWNHKYKRK 718

Query: 679 S 679
           S
Sbjct: 719 S 719

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449489392|ref|XP_004158298.1| PREDICTED: uncharacterized LOC101204547 [Cucumis sativus]

 Score =  241 bits (615), Expect = 9e-61,   Method: Compositional matrix adjust.
 Identities = 227/734 (30%), Positives = 326/734 (44%), Gaps = 154/734 (20%)

Query: 6   FVNIAIKKTNEVKPSQP-KIEEINFDDFGVDLCPALNGNLSCSDVDDVDKNI-CVGSERE 63
           F N  +K T+ VK S+P  +E   FDDFG+DL P    N S S  + +   +  +   +E
Sbjct: 91  FGNFQVKDTHMVKSSRPVDVETEYFDDFGIDLYPIRKSNSSISLNNKITMLLDIIRKPKE 150

Query: 64  NIDTTRTSEPHNTGCQKLEASNVNEAIRRGAVHSR----IEEDLLQTESKSDVPQFMKLE 119
           +I + +            E + V        ++S     + E+ L+T  K +V + + LE
Sbjct: 151 DIYSLK------------EVALVRPFKELPCLYSNHGTTVGENDLRTNIKVNVGECIGLE 198

Query: 120 LVIKTNASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCF 179
              K  A  +     PSELKCSLCN+LF +AV+  CC+HSFCEKCI  VL+ K  CPKC 
Sbjct: 199 ---KPIAPVIHKCEIPSELKCSLCNSLFVDAVITGCCKHSFCEKCIHHVLLRKTMCPKCA 255

Query: 180 SSKCRLEDLLPNVSLRQAIEHFLESQILISGSENAYHRYAPDGESGIQAKDVSCAVTNLQ 239
           SSK +LEDL PN+SLRQ + HFLESQ L+  S+N +   APD ES I+ +D+ C      
Sbjct: 256 SSKYKLEDLSPNLSLRQNVTHFLESQFLMGDSDNNHE--APDEESRIEGQDMCCL----- 308

Query: 240 REPELADSPSATGRGSNQIVADCDSV--IRNNTGSCVNHLGADNSLKSCTLPYKVKQIDA 297
                   P+AT RG NQ V D D V  +R N                      + ++D 
Sbjct: 309 --------PNATSRGCNQEVVDDDHVSSVRRNM---------------------MVKVDR 339

Query: 298 EVHGSAQPVDFKRRPVDLDEFAECHGESQPIHVEAEFSNKRKRGLWV---DTSGADKSFI 354
               S     F  +P+DL  F +C GESQP+    +F    K G  V   D  G  ++  
Sbjct: 340 AQFQSCHQDKFGGKPLDLPPFDDCQGESQPVF--GDF----KHGFLVNDFDMQGRIQNLT 393

Query: 355 ESGRNRK-DRTCYMCGSPNHLIRDCPAALSPNPMLQQGALRGHAPPFWNGPSLAHVRPIA 413
           +  R +K  R CYMCGS +HLIRDCP A  P+PM   GAL  +A P+       HV    
Sbjct: 394 DFRRQKKRGRACYMCGSLDHLIRDCPVASKPHPMHLMGALPYYASPW------PHVSSFP 447

Query: 414 NIYGNHGMMPFNATMAPTTQFAVPAYMPSMFGGIPAYGFDMEASCSGYTMMGGPRTPVGV 473
           N+YG    M FNA M P       +Y  S++GG PA         SG+  M     P   
Sbjct: 448 NLYG--CPMAFNAPMVPDAN----SYWASVYGGYPAP--------SGFVGMRDMNAPPLR 493

Query: 474 NAGRL--GRSRVLHHQDCEKKQKLSN------INMSEQSYDDDEDENVNIKHRYDEAERL 525
                  G S  +H  D +K + +        I  S +   + +D   N + ++++  R 
Sbjct: 494 KTEEFCAGNSEFVHLSDTDKNRTIPENSTWRVIPFSNEDGSEGKDHAGNKRGQHEQDGRS 553

Query: 526 HDKKSHFSKERERRPCYQLSEVEDMPSSSSWHGDER----HKKHSRQSKKHNEREQF--- 578
            D +    KE  R+        E+     +W  DE+    H   +    + NER +    
Sbjct: 554 RDYRMFVEKEHLRK--------ENTQDEINWLYDEKMKSSHSPKAAMMNRLNERLKLEKE 605

Query: 579 ---------------------------------HSDSSWSRHAVKEKDGERKKLKSDVKR 605
                                            H+DS+  +   K+K+ +      D+K 
Sbjct: 606 GLTCSTKLPTNERTGHYHRGFREVGARTDECCSHADSNEHKR-YKQKEDKIDTFDIDLKC 664

Query: 606 HSHKPDSCSESGLEPSYSSDRKKKQKEKDLSHGSRHSRHKSKSMDDEPSHDRWLMVKGSD 665
           H+ K  S S+  L  SYSS++K  Q   D    SR+S+H      +E +     +V G+D
Sbjct: 665 HTKKHHSGSKPDLARSYSSNQKLLQ--NDSGFISRYSKH------NELTQYHHQIVGGTD 716

Query: 666 EDHGEDYRYSERKS 679
           + H E     +RKS
Sbjct: 717 DSHEEWNHKYKRKS 730

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357151568|ref|XP_003575832.1| PREDICTED: uncharacterized protein LOC100839326 [Brachypodium distachyon]

 Score =  204 bits (518), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 185/618 (29%), Positives = 268/618 (43%), Gaps = 121/618 (19%)

Query: 29  FDDFGVDLCPALNGNLSCSD--VDDVDKNICVGSERENIDTTRTSEPHNTGCQKLEASNV 86
           FDD    LCP +  +LS S    DD DK +   SE+  ++              +E S +
Sbjct: 108 FDDTSKALCPGVEVDLSESYPYADDGDK-LARSSEKRYLN--------------IEGSGL 152

Query: 87  NEAIRRGAVHSRIEEDLLQTESKSDVPQFMKLELVIKTNASAMENGNFPSELKCSLCNTL 146
           +EA+ +  V     E L   E K ++    K   + K       N + P+EL+C LC T+
Sbjct: 153 SEAMPKEIVVDNSTEVLGLEEGKREIETSSKARELEKMEQRT--NMDSPAELRCFLCETI 210

Query: 147 FKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQAIEHFLESQI 206
           F++AVM+ CC+H+FC +CI   L E  +CPKC S++C   DLLPN+SLR+AIEHFL    
Sbjct: 211 FEDAVMMTCCRHNFCNRCIISALAEIKKCPKCSSTRCTTNDLLPNLSLRKAIEHFL---- 266

Query: 207 LISGSENAYHRYAPDGESGIQAKDVSCAVTNLQREPELADSPSATGRGSNQIVADCDSVI 266
                ++    YAPD ES I+A + SCA++  Q+E +L  SPS TG+  NQ ++    V 
Sbjct: 267 -----DDPGRMYAPDVESCIEANESSCALSIHQQEQKLPCSPSVTGKDFNQTMSPVKQV- 320

Query: 267 RNNTGSCVNHLGADNSLKSCTLPYKVKQIDAEVHGSAQPVDFKRRPVDLDEFAECHGESQ 326
                            KS ++  ++         SA P +  R                
Sbjct: 321 ----------------KKSSSIKIRLDGNKPTEAVSALPQEAPRN--------------- 349

Query: 327 PIHVEAEFSNKRKRGLWVDTSGADKSFIES-GRNRK-DRTCYMCGSPNHLIRDCPAALSP 384
            +  ++  S+K  + +  ++      F     R+RK  RTCY CGSPNHLIR CP A   
Sbjct: 350 -VDFQSASSSKMYQNIAQESDADGNRFAAPVTRDRKGGRTCYRCGSPNHLIRYCPVA--S 406

Query: 385 NPMLQQGALRGHA--PPFWNGPSLAHVRPIANIYGNHGMMPFNATMAPTTQFAVPAYMPS 442
           N   +     G A  PP W G     ++P AN YG  G++PF+  + P + F VP+YMP 
Sbjct: 407 NEQAEDSTFHGDAYGPPNWQGSMFHPLQPYANSYGTPGVIPFDPGVVPASPFGVPSYMPP 466

Query: 443 MFGGIP-AYGFDMEASCSGYTMMGGPRTPV------------GVNAGRLGRSRVLHHQDC 489
            +G +   Y F       G   M  P  PV             V +      R     DC
Sbjct: 467 FYGRMQNPYAF------MGMRGMPSPVLPVLQQSHTGLGIHDNVKSQETPSERGGREYDC 520

Query: 490 E------------KKQKLSNINMSEQSYDDDEDENVNIKHR-------------YDEAER 524
           +            +  KL     +   Y D    NV  +HR             Y   + 
Sbjct: 521 DTISEDYPDDDGRRSHKLYPTEKNSDRYYDVGSTNVKKRHRKDKYCSPTREKRTYSSEQE 580

Query: 525 LHDKKSHF-----SKERERRPCYQ-LSEVEDMPSSSSWHGDERHKKHSRQS--KKHNERE 576
           L D+K         +ER    C Q  SE   +P +S     +R K+H R +  ++     
Sbjct: 581 LVDQKHSVEFGSCGRERTNHYCKQSASEWHGIPDNSIQDSKQRSKQHDRSASGRRDESGR 640

Query: 577 QFHSD-SSWSRH-AVKEK 592
           +F SD S +SRH + KEK
Sbjct: 641 KFRSDYSDYSRHQSCKEK 658

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|168039363|ref|XP_001772167.1| predicted protein [Physcomitrella patens subsp. patens] gi|162676498|gb|EDQ62980.1| predicted protein [Physcomitrella patens subsp. patens]

 Score =  159 bits (403), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 126/375 (33%), Positives = 179/375 (47%), Gaps = 71/375 (18%)

Query: 135 PSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSL 194
           P ELKC LC T+FK+AVMIPCCQ+SFC+KCIR  L+ K +CP+C S+K + +DLLPN++L
Sbjct: 21  PPELKCPLCGTIFKDAVMIPCCQYSFCDKCIRDELIAKGKCPQCESTKFKNDDLLPNINL 80

Query: 195 RQAIEHFLESQILISGSENAYHR--YAPDGESGIQAKDVSCAVTNLQ---REPELADSPS 249
           RQAI+ FLE+Q+  SG+ +++++    PD +SG + K  + A + LQ   R+P ++    
Sbjct: 81  RQAIDRFLEAQMTTSGASDSFYKQHQLPDVDSGPR-KVAAPAGSRLQIELRKPVISTGAP 139

Query: 250 ATGRGSNQIVA--------DCDSVIRNNTGSCVNHLGADNSLKSCTLPYKVKQIDAEVHG 301
                S ++V         D         GS V  LG ++S  +   P   K+  AE  G
Sbjct: 140 VQAPPSKEVVVEDAVESSKDKKEKTEQVEGSAVLTLGDEDSGGAIEGP-PSKEYAAETSG 198

Query: 302 SAQP-VDFKRRPVDLDEFAECHGES-------QP--------IHVEAEFS---NKRKRGL 342
             +  V  K    +   F    GE+       +P        + VE+E S    K+KR  
Sbjct: 199 KEEAGVSLKEE--ERQGFVNDEGEAGMISKNIEPLFVKETDGVAVESEVSKGKKKKKRSR 256

Query: 343 WVDTSGADKSFIESGRNRK-DRTCYMCGSPNHLIRDC---------------PAALSPNP 386
            V   GA  + I  G+ RK +R CY+CGSP+H  RDC               PA   P  
Sbjct: 257 PVQADGAADN-IGGGKVRKGERVCYLCGSPDHFARDCIDHGGPGPGPYGGPHPAMFGPGG 315

Query: 387 MLQQGALRGHAPPFWNGPSL------AHVRPIANIYG------NHGMMPFNATMAPTTQF 434
           M   G      PP+    ++               YG        GMMPF+  M P   +
Sbjct: 316 MPPMG-----VPPYGGAYNMEWHGPPMPPHGGPFGYGEGMHGPGPGMMPFDRPMMPGPGY 370

Query: 435 AVPAY-MPSMFGGIP 448
             P + MP M+ GIP
Sbjct: 371 GAPPFGMPPMYPGIP 385

Source: Physcomitrella patens subsp. patens

Species: Physcomitrella patens

Genus: Physcomitrella

Family: Funariaceae

Order: Funariales

Class: Bryopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|168027868|ref|XP_001766451.1| predicted protein [Physcomitrella patens subsp. patens] gi|162682360|gb|EDQ68779.1| predicted protein [Physcomitrella patens subsp. patens]

 Score =  117 bits (294), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 55/109 (50%), Positives = 80/109 (73%), Gaps = 3/109 (2%)

Query: 135 PSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSL 194
           P ELKC LC  +F++AVMIPCCQ+SFC+KCIR  L+ K +CP+C S+K + +DLLPN++L
Sbjct: 21  PPELKCPLCGNIFRDAVMIPCCQYSFCDKCIRDQLIAKGKCPQCESTKFKNDDLLPNINL 80

Query: 195 RQAIEHFLESQILISGSENAYHR--YAPDGESGIQAKDVSCAVTNLQRE 241
           RQAI+ FLE+Q+  SG+ +++++    PD  SG +  D + A + LQ E
Sbjct: 81  RQAIDRFLETQMTTSGASDSFYKQYQLPDVGSGPRKVD-ALAGSRLQIE 128

Source: Physcomitrella patens subsp. patens

Species: Physcomitrella patens

Genus: Physcomitrella

Family: Funariaceae

Order: Funariales

Class: Bryopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359476274|ref|XP_003631810.1| PREDICTED: uncharacterized protein LOC100854580 [Vitis vinifera]

 Score = 95.9 bits (237), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 80/220 (36%), Positives = 113/220 (51%), Gaps = 54/220 (24%)

Query: 508 DEDENVNIKHRYDEAERLHDKKSHFSKE-------------------------------- 535
           DEDE++N  +RY++AER H  K H  +E                                
Sbjct: 4   DEDEDLNKWYRYNDAERSHGHKPHIEREKSISDSEDSSTQRLKRKNRHDKRFDDDIHYGD 63

Query: 536 ------------RERRPCYQLS---EVEDMPSSSSWHGDERHKKHSRQSKKHN-EREQFH 579
                       R+R+P +      E++DMP SSSWH ++RHK H   SKKHN +R Q  
Sbjct: 64  ERHEKSSRPIVGRDRKPYHTERSSLEIDDMPYSSSWHSEDRHKNHHESSKKHNDQRGQCS 123

Query: 580 SDSSWSRHAVK-EKDGERKKLKSDVKRHSHKPDSCSESGLEPSYSSDRKKKQKEKDLSHG 638
           +DSS SRH  K +KD ER     ++K+ S K  S S+SG E   ++ + K+ KE+D  HG
Sbjct: 124 NDSSRSRHHTKHQKDDER-----NIKKQSEKHYSHSQSGSEQGLATQQIKQVKERDSRHG 178

Query: 639 SRHSRHKSKSMDDEPSHDRWLMVKGSDEDHGEDYRYSERK 678
             H RH +KSM+++  HDRW M  GSD DH +++   +RK
Sbjct: 179 LGHDRHNAKSMNNDNEHDRWQMAIGSDHDHRDEHPRHKRK 218

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|440794050|gb|ELR15221.1| DWNN domain containing protein [Acanthamoeba castellanii str. Neff]

 Score = 79.3 bits (194), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 28/70 (40%), Positives = 46/70 (65%)

Query: 135 PSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSL 194
           P+EL+C +C  L ++AV++PCC +SFC +C+R  L+   RCP C  +   ++ L PN +L
Sbjct: 252 PTELQCPICELLLEDAVLVPCCGNSFCSQCVRAALLSNGRCPSCKDASVTVDSLFPNKNL 311

Query: 195 RQAIEHFLES 204
           R+A+  +  S
Sbjct: 312 REAVSAYKRS 321

Source: Acanthamoeba castellanii str. Neff

Species: Acanthamoeba castellanii

Genus: Acanthamoeba

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	685
UNIPROTKB|E1C4G3	922	E1C4G3 "Uncharacterized protei	0.129	0.096	0.357	1.1e-11
ZFIN|ZDB-GENE-040930-5	1741	rbbp6 "retinoblastoma binding	0.112	0.044	0.405	2e-11
UNIPROTKB|J9P0A5	1795	RBBP6 "Uncharacterized protein	0.129	0.049	0.357	2.6e-11
UNIPROTKB|Q7Z6E9	1792	RBBP6 "E3 ubiquitin-protein li	0.129	0.049	0.357	5.7e-11
MGI|MGI:894835	1790	Rbbp6 "retinoblastoma binding	0.129	0.049	0.357	6.6e-11
UNIPROTKB|F1M6Y5	1755	Rbbp6 "Protein Rbbp6" [Rattus	0.129	0.050	0.357	2.1e-10
UNIPROTKB|G3V953	1789	Rbbp6 "Retinoblastoma binding	0.129	0.049	0.357	2.2e-10
UNIPROTKB|F1RFD8	1728	RBBP6 "Uncharacterized protein	0.129	0.051	0.357	2.2e-09
TAIR|locus:2171569	892	AT5G47430 [Arabidopsis thalian	0.194	0.149	0.335	3.4e-09
FB|FBgn0086129	1231	snama "something that sticks l	0.108	0.060	0.407	6.1e-09

UNIPROTKB|E1C4G3 E1C4G3 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 170 (64.9 bits), Expect = 1.1e-11, Sum P(2) = 1.1e-11
 Identities = 34/95 (35%), Positives = 54/95 (56%)

Query:   109 KSDVPQFMKLELVIKTNASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLV 168
             K + P F+  E     ++S+ E+   P EL C +C  +  +AV+IPCC +S+C++CIR  
Sbjct:   232 KKEKPPFLPEE----PSSSSEEDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTA 287

Query:   169 LVEKAR--CPKCFSSKCRLEDLLPNVSLRQAIEHF 201
             L+E     CP C  +    + L+ N  LRQA+ +F
Sbjct:   288 LLESEEHTCPTCHQTDVSPDALIANKFLRQAVNNF 322

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

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

GO:0042787 "protein ubiquitination involved in ubiquitin-dependent protein catabolic process" evidence=IEA

ZFIN|ZDB-GENE-040930-5 rbbp6 "retinoblastoma binding protein 6" [Danio rerio (taxid:7955)]

 Score = 164 (62.8 bits), Expect = 2.0e-11, Sum P(2) = 2.0e-11
 Identities = 32/79 (40%), Positives = 46/79 (58%)

Query:   125 NASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKAR--CPKCFSSK 182
             ++S+ E    P EL C +C  L  +AV+IPCC +S+C+ CIR  L+E     CP C  S 
Sbjct:   242 SSSSEEEDPVPDELLCLICKDLMTDAVVIPCCGNSYCDDCIRTCLLESEEHVCPTCKQSD 301

Query:   183 CRLEDLLPNVSLRQAIEHF 201
                + L+ N  LRQA+ +F
Sbjct:   302 VSPDALIANKFLRQAVNNF 320

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

UNIPROTKB|J9P0A5 RBBP6 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 168 (64.2 bits), Expect = 2.6e-11, Sum P(2) = 2.6e-11
 Identities = 34/95 (35%), Positives = 54/95 (56%)

Query:   109 KSDVPQFMKLELVIKTNASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLV 168
             K + P F+  E     ++S+ E+   P EL C +C  +  +AV+IPCC +S+C++CIR  
Sbjct:   232 KKEKPPFLPEE----PSSSSEEDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTA 287

Query:   169 LVEKA--RCPKCFSSKCRLEDLLPNVSLRQAIEHF 201
             L+E     CP C  +    + L+ N  LRQA+ +F
Sbjct:   288 LLESDDHTCPTCHQNDVSPDALIANKFLRQAVNNF 322

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|Q7Z6E9 RBBP6 "E3 ubiquitin-protein ligase RBBP6" [Homo sapiens (taxid:9606)]

 Score = 169 (64.5 bits), Expect = 5.7e-11, Sum P(3) = 5.7e-11
 Identities = 34/95 (35%), Positives = 54/95 (56%)

Query:   109 KSDVPQFMKLELVIKTNASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLV 168
             K + P F+  E     ++S+ E+   P EL C +C  +  +AV+IPCC +S+C++CIR  
Sbjct:   232 KKEKPPFLPEE----PSSSSEEDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTA 287

Query:   169 LVEKAR--CPKCFSSKCRLEDLLPNVSLRQAIEHF 201
             L+E     CP C  +    + L+ N  LRQA+ +F
Sbjct:   288 LLESDEHTCPTCHQNDVSPDALIANKFLRQAVNNF 322

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005694 "chromosome" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0005815 "microtubule organizing center" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0042787 "protein ubiquitination involved in ubiquitin-dependent protein catabolic process" evidence=IDA

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

MGI|MGI:894835 Rbbp6 "retinoblastoma binding protein 6" [Mus musculus (taxid:10090)]

 Score = 169 (64.5 bits), Expect = 6.6e-11, Sum P(2) = 6.6e-11
 Identities = 34/95 (35%), Positives = 54/95 (56%)

Query:   109 KSDVPQFMKLELVIKTNASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLV 168
             K + P F+  E     ++S+ E+   P EL C +C  +  +AV+IPCC +S+C++CIR  
Sbjct:   233 KKEKPPFLPEE----PSSSSEEDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTA 288

Query:   169 LVEKAR--CPKCFSSKCRLEDLLPNVSLRQAIEHF 201
             L+E     CP C  +    + L+ N  LRQA+ +F
Sbjct:   289 LLESDEHTCPTCHQNDVSPDALIANKFLRQAVNNF 323

GO:0003676 "nucleic acid binding" evidence=IEA

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

GO:0005575 "cellular_component" evidence=ND

GO:0005634 "nucleus" evidence=IEA

GO:0005694 "chromosome" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005856 "cytoskeleton" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0042787 "protein ubiquitination involved in ubiquitin-dependent protein catabolic process" evidence=ISO

GO:0046872 "metal ion binding" evidence=IEA

UNIPROTKB|F1M6Y5 Rbbp6 "Protein Rbbp6" [Rattus norvegicus (taxid:10116)]

 Score = 169 (64.5 bits), Expect = 2.1e-10, Sum P(2) = 2.1e-10
 Identities = 34/95 (35%), Positives = 54/95 (56%)

Query:   109 KSDVPQFMKLELVIKTNASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLV 168
             K + P F+  E     ++S+ E+   P EL C +C  +  +AV+IPCC +S+C++CIR  
Sbjct:   233 KKEKPPFLPEE----PSSSSEEDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTA 288

Query:   169 LVEKAR--CPKCFSSKCRLEDLLPNVSLRQAIEHF 201
             L+E     CP C  +    + L+ N  LRQA+ +F
Sbjct:   289 LLESDEHTCPTCHQNDVSPDALIANKFLRQAVNNF 323

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|G3V953 Rbbp6 "Retinoblastoma binding protein 6, isoform CRA_a" [Rattus norvegicus (taxid:10116)]

 Score = 169 (64.5 bits), Expect = 2.2e-10, Sum P(2) = 2.2e-10
 Identities = 34/95 (35%), Positives = 54/95 (56%)

Query:   109 KSDVPQFMKLELVIKTNASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLV 168
             K + P F+  E     ++S+ E+   P EL C +C  +  +AV+IPCC +S+C++CIR  
Sbjct:   233 KKEKPPFLPEE----PSSSSEEDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTA 288

Query:   169 LVEKAR--CPKCFSSKCRLEDLLPNVSLRQAIEHF 201
             L+E     CP C  +    + L+ N  LRQA+ +F
Sbjct:   289 LLESDEHTCPTCHQNDVSPDALIANKFLRQAVNNF 323

GO:0003676 "nucleic acid binding" evidence=IEA

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

GO:0005634 "nucleus" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0042787 "protein ubiquitination involved in ubiquitin-dependent protein catabolic process" evidence=IEA

UNIPROTKB|F1RFD8 RBBP6 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 168 (64.2 bits), Expect = 2.2e-09, Sum P(2) = 2.2e-09
 Identities = 34/95 (35%), Positives = 54/95 (56%)

Query:   109 KSDVPQFMKLELVIKTNASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLV 168
             K + P F+  E     ++S+ E+   P EL C +C  +  +AV+IPCC +S+C++CIR  
Sbjct:   232 KKEKPPFLPEE----PSSSSEEDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTA 287

Query:   169 LVEKA--RCPKCFSSKCRLEDLLPNVSLRQAIEHF 201
             L+E     CP C  +    + L+ N  LRQA+ +F
Sbjct:   288 LLESDDHTCPTCHQNDVSPDALIANKFLRQAVNNF 322

GO:0042787 "protein ubiquitination involved in ubiquitin-dependent protein catabolic process" evidence=IEA

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

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

TAIR|locus:2171569 AT5G47430 [Arabidopsis thaliana (taxid:3702)]

 Score = 167 (63.8 bits), Expect = 3.4e-09, Sum P(3) = 3.4e-09
 Identities = 48/143 (33%), Positives = 73/143 (51%)

Query:   132 GNFPSELKCSLCNTLFKEAVMIP-CCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLP 190
             G  P ELKC LC  + K+A +   CC  SFC+KCIR  ++ K+ C  C  S    +DLLP
Sbjct:   287 GELPPELKCPLCKEVMKDAALTSKCCYKSFCDKCIRDHIISKSMCV-CGRSDVLADDLLP 345

Query:   191 NVSLRQAIEHFLESQILISGSENAYH-RYAPDGESGI----QAKDVSCAVTNL-QREPEL 244
             N +LR  I   LE+      +EN     + PD ES      +A   + +V +  +++P L
Sbjct:   346 NKTLRDTINRILEAGN--DSTENVGSVGHIPDLESARCPPPKALSPTTSVASKGEKKPVL 403

Query:   245 ADSPSATGRGSNQIVADCDSVIR 267
             +++  A+   +   VA+  S  R
Sbjct:   404 SNNNDASTLKAPMEVAEITSAPR 426

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

GO:0006470 "protein dephosphorylation" evidence=RCA

GO:0007062 "sister chromatid cohesion" evidence=RCA

GO:0031048 "chromatin silencing by small RNA" evidence=RCA

GO:0045132 "meiotic chromosome segregation" evidence=RCA

FB|FBgn0086129 snama "something that sticks like glue" [Drosophila melanogaster (taxid:7227)]

 Score = 176 (67.0 bits), Expect = 6.1e-09, Sum P(3) = 6.1e-09
 Identities = 31/76 (40%), Positives = 44/76 (57%)

Query:   128 AMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEK--ARCPKCFSSKCRL 185
             A++N   P +L C +C  +F +AVMIPCC  SFC+ C+R  L+E   + CP C    C  
Sbjct:   205 AVQNQEIPEDLICGICRDIFVDAVMIPCCGSSFCDDCVRTSLLESEDSECPDCKEKNCSP 264

Query:   186 EDLLPNVSLRQAIEHF 201
               L+PN  LR ++  F
Sbjct:   265 GSLIPNRFLRNSVNAF 280

GO:0005634 "nucleus" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0006915 "apoptotic process" evidence=IMP

GO:0035736 "cell proliferation involved in compound eye morphogenesis" evidence=IMP

GO:0022008 "neurogenesis" evidence=IMP

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	6.3.2	0.691

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: BRADI4G13220.1 annotation not avaliable (790 aa) (Brachypodium distachyon)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	685
COG5222	427	COG5222, COG5222, Uncharacterized conserved protei	2e-08
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	2e-08
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	9e-08
smart00184	40	smart00184, RING, Ring finger	2e-06
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	2e-05
TIGR00599	397	TIGR00599, rad18, DNA repair protein rad18	7e-05
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	4e-04
smart00504	63	smart00504, Ubox, Modified RING finger domain	9e-04
PTZ00368	148	PTZ00368, PTZ00368, universal minicircle sequence	0.003

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

 Score = 56.7 bits (136), Expect = 2e-08
 Identities = 25/75 (33%), Positives = 41/75 (54%), Gaps = 1/75 (1%)

Query: 138 LKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEK-ARCPKCFSSKCRLEDLLPNVSLRQ 196
           LKC LC+ L +  +  PCC H+FC++CI   L++   +CP C      L+ L P++  + 
Sbjct: 275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLLDGLTPDIDKKL 334

Query: 197 AIEHFLESQILISGS 211
            +E  L+ Q    G+
Sbjct: 335 EVEKALKKQRKKVGT 349

Length = 427

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

 Score = 50.2 bits (120), Expect = 2e-08
 Identities = 17/43 (39%), Positives = 27/43 (62%)

Query: 136 SELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKC 178
            EL+C +C  L ++ V++  C H FC +CI   L +K++CP C
Sbjct: 1   EELECPICLDLLRDPVVLTPCGHVFCRECILRYLKKKSKCPIC 43

Length = 45

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

 Score = 48.6 bits (116), Expect = 9e-08
 Identities = 15/41 (36%), Positives = 22/41 (53%), Gaps = 1/41 (2%)

Query: 139 KCSLCNTLFKEAVMIPCCQHSFCEKCI-RLVLVEKARCPKC 178
           +C +C   F+E V++  C H FC  CI + +   K  CP C
Sbjct: 1   ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLC 41

Length = 45

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

 Score = 44.8 bits (106), Expect = 2e-06
 Identities = 12/40 (30%), Positives = 19/40 (47%), Gaps = 1/40 (2%)

Query: 140 CSLCNTLFKEAVMIPCCQHSFCEKCI-RLVLVEKARCPKC 178
           C +C   + +  +I  C H+FC  CI + +      CP C
Sbjct: 1   CPICLEEYLKDPVILPCGHTFCRSCIRKWLESGNNTCPIC 40

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

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

 Score = 42.1 bits (99), Expect = 2e-05
 Identities = 15/40 (37%), Positives = 18/40 (45%), Gaps = 1/40 (2%)

Query: 140 CSLCNTLFKEAVMIPCCQHSFCEKCIR-LVLVEKARCPKC 178
           C +C    K+ V I  C H FC KCI   +      CP C
Sbjct: 1   CPICLEEPKDPVTILPCGHLFCSKCILSWLESGNVTCPLC 40

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

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

 Score = 45.4 bits (107), Expect = 7e-05
 Identities = 20/68 (29%), Positives = 32/68 (47%), Gaps = 2/68 (2%)

Query: 134 FPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVS 193
             + L+C +C   F   V+  C  H+FC  CIR  L  + +CP C +   +   L  N  
Sbjct: 23  LDTSLRCHICKDFFDVPVLTSC-SHTFCSLCIRRCLSNQPKCPLCRAED-QESKLRSNWL 80

Query: 194 LRQAIEHF 201
           + + +E F
Sbjct: 81  VSEIVESF 88

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

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

 Score = 38.1 bits (89), Expect = 4e-04
 Identities = 13/41 (31%), Positives = 20/41 (48%), Gaps = 2/41 (4%)

Query: 140 CSLCNTLFK--EAVMIPCCQHSFCEKCIRLVLVEKARCPKC 178
           C +C   F+  E V++  C H F ++C+   L     CP C
Sbjct: 3   CPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSNTCPLC 43

Length = 46

>gnl|CDD|128780 smart00504, Ubox, Modified RING finger domain

 Score = 37.6 bits (88), Expect = 9e-04
 Identities = 16/65 (24%), Positives = 30/65 (46%), Gaps = 2/65 (3%)

Query: 137 ELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQ 196
           E  C +   + K+ V++P    ++    I   L+     P         EDL+PN++L+ 
Sbjct: 1   EFLCPISLEVMKDPVILPS-GQTYERSAIEKWLLSHGTDPVT-GQPLTHEDLIPNLALKS 58

Query: 197 AIEHF 201
           AI+ +
Sbjct: 59  AIQEW 63

Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination. Length = 63

>gnl|CDD|173561 PTZ00368, PTZ00368, universal minicircle sequence binding protein (UMSBP); Provisional

 Score = 38.6 bits (90), Expect = 0.003
 Identities = 13/27 (48%), Positives = 14/27 (51%)

Query: 355 ESGRNRKDRTCYMCGSPNHLIRDCPAA 381
              R   D+TCY CG   HL RDCP  
Sbjct: 122 AGKRPGGDKTCYNCGQTGHLSRDCPDK 148

Length = 148

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	685
COG5222	427	Uncharacterized conserved protein, contains RING Z	99.32
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	99.13
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	99.1
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	99.05
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.99
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.98
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.88
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	98.73
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.67
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.63
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.62
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.59
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.51
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.45
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	98.43
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.41
PHA02929	238	N1R/p28-like protein; Provisional	98.4
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	98.29
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.25
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.23
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.15
KOG2660	331	consensus Locus-specific chromosome binding protei	98.13
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	98.13
PF14634	44	zf-RING_5: zinc-RING finger domain	98.09
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.09
KOG4367	699	consensus Predicted Zn-finger protein [Function un	98.08
PHA02926	242	zinc finger-like protein; Provisional	97.95
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	97.74
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.73
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.66
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	97.55
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	97.53
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.37
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	97.25
PF00098	18	zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc fi	97.25
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.19
COG5152	259	Uncharacterized conserved protein, contains RING a	97.17
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	97.16
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	96.88
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	96.81
PF13696	32	zf-CCHC_2: Zinc knuckle	96.79
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	95.98
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	95.74
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	95.46
KOG1002	791	consensus Nucleotide excision repair protein RAD16	95.34
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	94.78
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	94.67
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	94.58
COG5180	654	PBP1 Protein interacting with poly(A)-binding prot	94.5
KOG0825	1134	consensus PHD Zn-finger protein [General function	94.17
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	93.95
KOG1924	1102	consensus RhoA GTPase effector DIA/Diaphanous [Sig	93.77
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	93.6
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	92.99
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	92.72
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	92.49
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	92.48
KOG1924	1102	consensus RhoA GTPase effector DIA/Diaphanous [Sig	92.21
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	91.98
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	91.77
PF04641	260	Rtf2: Rtf2 RING-finger	91.31
KOG3039	303	consensus Uncharacterized conserved protein [Funct	91.19
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	90.93
KOG1001	674	consensus Helicase-like transcription factor HLTF/	90.77
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	90.69
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	90.04
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	89.12
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	88.44
smart00343	26	ZnF_C2HC zinc finger.	88.07
KOG2893	341	consensus Zn finger protein [General function pred	88.01
KOG3002	299	consensus Zn finger protein [General function pred	87.87
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	87.17
KOG0314	448	consensus Predicted E3 ubiquitin ligase [Posttrans	85.45
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	85.12
KOG4739	233	consensus Uncharacterized protein involved in syna	84.85
KOG0132	894	consensus RNA polymerase II C-terminal domain-bind	84.56
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	84.53
KOG4849	498	consensus mRNA cleavage factor I subunit/CPSF subu	84.34
KOG3039	303	consensus Uncharacterized conserved protein [Funct	83.61
PTZ00368	148	universal minicircle sequence binding protein (UMS	83.61
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	83.34
COG5219	1525	Uncharacterized conserved protein, contains RING Z	83.21
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	82.9
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	82.58
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	80.38
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	80.21

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

Probab=99.32  E-value=1e-12  Score=136.89  Aligned_cols=131  Identities=26%  Similarity=0.527  Sum_probs=99.8

Q ss_pred             cCccCCCCCCCccccccccchHHHHhcccccchhhhhhhhccCCCChhhhHhHHHHHhhccccc------ccCCCCCccc
Q 035975           66 DTTRTSEPHNTGCQKLEASNVNEAIRRGAVHSRIEEDLLQTESKSDVPQFMKLELVIKTNASAM------ENGNFPSELK  139 (685)
Q Consensus        66 RvkRSSgip~S~lqkVessdleeAl~~givV~kvd~~a~~tksqPd~qe~kk~E~~~ss~asa~------~~e~LeeeLt  139 (685)
                      |+.|+||||+.|+..|+.....  ....+++ ..++..+  ..+|+.++|++++...++.+...      ...+|  .|.
T Consensus       204 RirrttGIPk~FLk~ve~p~e~--~~a~imi-t~EG~yV--v~qpdvqsWe~Yq~r~~a~~~~~Dqv~k~~~~~i--~Lk  276 (427)
T COG5222         204 RIRRTTGIPKDFLKPVEGPNEP--SNAAIMI-TPEGGYV--VAQPDVQSWEKYQQRTKAVAEIPDQVYKMQPPNI--SLK  276 (427)
T ss_pred             eeeccCCCCHHhcccccCCCcc--cccceEE-cCCCCeE--EeccchHHHHHHHHHHHhhhhCchhhhccCCCCc--ccc
Confidence            7899999999999999975443  1233444 4444444  57899999999988665533210      01122  399


Q ss_pred             ccccccccccceeccCCCCccchhHHHHHhhc-CCCCCCCcCCCccccCCCccHHHHHHHHHHHh
Q 035975          140 CSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVE-KARCPKCFSSKCRLEDLLPNVSLRQAIEHFLE  203 (685)
Q Consensus       140 CPIClelf~dPVtLpCCGHSFC~~CI~~~lk~-~~sCPvCR~~~~~~~~L~pN~~L~nLVe~~re  203 (685)
                      ||+|..++.+|+.|+||+|+||..||...+.. .+.||.|...-...+.|.+++....-|+.+++
T Consensus       277 Cplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvlld~l~pD~dk~~EvE~~lk  341 (427)
T COG5222         277 CPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLLDGLTPDIDKKLEVEKALK  341 (427)
T ss_pred             CcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCCcccccchhhccCccHHHHHHHHHHHH
Confidence            99999999999999999999999999977765 48999999877778899998888777777655

>smart00504 Ubox Modified RING finger domain

Probab=99.13  E-value=5.1e-11  Score=96.32  Aligned_cols=62  Identities=26%  Similarity=0.501  Sum_probs=56.3

Q ss_pred             cccccccccccccceeccCCCCccchhHHHHHhhcCCCCCCCcCCCccccCCCccHHHHHHHHH
Q 035975          137 ELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQAIEH  200 (685)
Q Consensus       137 eLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~~~~~~~L~pN~~L~nLVe~  200 (685)
                      +|.||||++++.+|+.++| ||+||+.||..|+.....||.|+. .....++.+|..|++.|+.
T Consensus         1 ~~~Cpi~~~~~~~Pv~~~~-G~v~~~~~i~~~~~~~~~cP~~~~-~~~~~~l~~~~~l~~~i~~   62 (63)
T smart00504        1 EFLCPISLEVMKDPVILPS-GQTYERRAIEKWLLSHGTDPVTGQ-PLTHEDLIPNLALKSAIQE   62 (63)
T ss_pred             CcCCcCCCCcCCCCEECCC-CCEEeHHHHHHHHHHCCCCCCCcC-CCChhhceeCHHHHHHHHh
Confidence            4789999999999999998 999999999999988889999997 4567889999999998864

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

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

Probab=99.10  E-value=9.2e-11  Score=99.59  Aligned_cols=69  Identities=26%  Similarity=0.489  Sum_probs=57.7

Q ss_pred             CCcccccccccccccceeccCCCCccchhHHHHHhhc-CCCCCCCcCCCccccCCCccHHHHHHHHHHHhhc
Q 035975          135 PSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVE-KARCPKCFSSKCRLEDLLPNVSLRQAIEHFLESQ  205 (685)
Q Consensus       135 eeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~-~~sCPvCR~~~~~~~~L~pN~~L~nLVe~~redq  205 (685)
                      .++|.||||+++|.+||++++ ||+|++.||..|+.. ...||.|+. ......|.+|..|++.|+.|...+
T Consensus         2 P~~f~CpIt~~lM~dPVi~~~-G~tyer~~I~~~l~~~~~~~P~t~~-~l~~~~l~pn~~Lk~~I~~~~~~~   71 (73)
T PF04564_consen    2 PDEFLCPITGELMRDPVILPS-GHTYERSAIERWLEQNGGTDPFTRQ-PLSESDLIPNRALKSAIEEWCAEN   71 (73)
T ss_dssp             SGGGB-TTTSSB-SSEEEETT-SEEEEHHHHHHHHCTTSSB-TTT-S-B-SGGGSEE-HHHHHHHHHHHHHC
T ss_pred             CcccCCcCcCcHhhCceeCCc-CCEEcHHHHHHHHHcCCCCCCCCCC-cCCcccceECHHHHHHHHHHHHHc
Confidence            578999999999999999998 999999999999998 679999986 566789999999999999998764

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 ....

>TIGR00599 rad18 DNA repair protein rad18

Probab=99.05  E-value=1.7e-10  Score=125.61  Aligned_cols=72  Identities=28%  Similarity=0.674  Sum_probs=64.6

Q ss_pred             CCCCCcccccccccccccceeccCCCCccchhHHHHHhhcCCCCCCCcCCCccccCCCccHHHHHHHHHHHhhc
Q 035975          132 GNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQAIEHFLESQ  205 (685)
Q Consensus       132 e~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~~~~~~~L~pN~~L~nLVe~~redq  205 (685)
                      ..|+..+.|+||+++|.+|++++| ||+||..||..++.....||+|+.. +....+..|..|.+||+.|+...
T Consensus        21 ~~Le~~l~C~IC~d~~~~PvitpC-gH~FCs~CI~~~l~~~~~CP~Cr~~-~~~~~Lr~N~~L~~iVe~~~~~R   92 (397)
T TIGR00599        21 YPLDTSLRCHICKDFFDVPVLTSC-SHTFCSLCIRRCLSNQPKCPLCRAE-DQESKLRSNWLVSEIVESFKNLR   92 (397)
T ss_pred             cccccccCCCcCchhhhCccCCCC-CCchhHHHHHHHHhCCCCCCCCCCc-cccccCccchHHHHHHHHHHHhh
Confidence            668889999999999999999998 9999999999999887789999974 55668999999999999997644

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

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

Probab=98.99  E-value=2e-10  Score=88.63  Aligned_cols=38  Identities=45%  Similarity=1.180  Sum_probs=31.0

Q ss_pred             ccccccccccceeccCCCCccchhHHHHHhhcC----CCCCCC
Q 035975          140 CSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEK----ARCPKC  178 (685)
Q Consensus       140 CPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~----~sCPvC  178 (685)
                      ||||+++|.+||+|+| ||+||..||..+++..    ..||+|
T Consensus         1 CpiC~~~~~~Pv~l~C-GH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDPVSLPC-GHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSEEE-SS-SSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCccccCC-cCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            8999999999999998 9999999999999864    479987

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

Probab=98.98  E-value=2.7e-10  Score=110.14  Aligned_cols=101  Identities=26%  Similarity=0.532  Sum_probs=73.9

Q ss_pred             CCCCCcccccccccccccceeccCCCCccchhHHHHHhhcCCCCCCCcCCCccccCCCccHHHHHHHHHHHhhccccc-C
Q 035975          132 GNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQAIEHFLESQILIS-G  210 (685)
Q Consensus       132 e~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~~~~~~~L~pN~~L~nLVe~~redq~~iC-s  210 (685)
                      ..+.+++.|+||+++|.+|++++| ||+||..||..++.....||.||. ...  .+.+|..+.++++.+.......- .
T Consensus         8 ~~~~~~~~C~iC~~~~~~p~~l~C-~H~~c~~C~~~~~~~~~~Cp~cr~-~~~--~~~~n~~l~~~~~~~~~~~~~~~~~   83 (386)
T KOG2177|consen    8 EVLQEELTCPICLEYFREPVLLPC-GHNFCRACLTRSWEGPLSCPVCRP-PSR--NLRPNVLLANLVERLRQLRLSRPLG   83 (386)
T ss_pred             hhccccccChhhHHHhhcCccccc-cchHhHHHHHHhcCCCcCCcccCC-chh--ccCccHHHHHHHHHHHhcCCccccc
Confidence            456789999999999999999998 999999999999985568999995 333  88899999999999987543211 0


Q ss_pred             -c--cCCCCCCCCchhhHHHHHhhhhhhhc
Q 035975          211 -S--ENAYHRYAPDGESGIQAKDVSCAVTN  237 (685)
Q Consensus       211 -~--Eh~~H~~~paee~C~eCk~l~CaL~~  237 (685)
                       .  ....|... ...+|..|..+.|..+.
T Consensus        84 ~~~~~c~~~~~~-~~~~c~~~~~~~c~~c~  112 (386)
T KOG2177|consen   84 SKEELCEKHGEE-LKLFCEEDEKLLCVLCR  112 (386)
T ss_pred             ccchhhhhcCCc-ceEEecccccccCCCCC
Confidence             0  01112211 44567777766665544

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

Probab=98.88  E-value=6e-10  Score=118.12  Aligned_cols=69  Identities=30%  Similarity=0.679  Sum_probs=62.9

Q ss_pred             CCCCcccccccccccccceeccCCCCccchhHHHHHhhcCCCCCCCcCCCccccCCCccHHHHHHHHHHHh
Q 035975          133 NFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQAIEHFLE  203 (685)
Q Consensus       133 ~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~~~~~~~L~pN~~L~nLVe~~re  203 (685)
                      .|...|+|-||+++|.-|+++|| +|+||.-||..++.....||.|+. .+....|+.|+.|.+||..|.-
T Consensus        19 ~lD~lLRC~IC~eyf~ip~itpC-sHtfCSlCIR~~L~~~p~CP~C~~-~~~Es~Lr~n~il~Eiv~S~~~   87 (442)
T KOG0287|consen   19 TLDDLLRCGICFEYFNIPMITPC-SHTFCSLCIRKFLSYKPQCPTCCV-TVTESDLRNNRILDEIVKSLNF   87 (442)
T ss_pred             hhHHHHHHhHHHHHhcCceeccc-cchHHHHHHHHHhccCCCCCceec-ccchhhhhhhhHHHHHHHHHHH
Confidence            46678999999999999999997 999999999999999999999996 5678889999999999998855

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=98.73  E-value=5.9e-09  Score=104.11  Aligned_cols=57  Identities=26%  Similarity=0.633  Sum_probs=45.5

Q ss_pred             CCCCCcccccccccccccceeccCCCCccchhHHHHHhhc----------------CCCCCCCcCCCccccCCCc
Q 035975          132 GNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVE----------------KARCPKCFSSKCRLEDLLP  190 (685)
Q Consensus       132 e~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~----------------~~sCPvCR~~~~~~~~L~p  190 (685)
                      .++..++.|+||++.+++|++|+| ||.||..||..|+..                ...||+|+.. +....+.+
T Consensus        13 ~~~~~~~~CpICld~~~dPVvT~C-GH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~-Is~~~LvP   85 (193)
T PLN03208         13 VDSGGDFDCNICLDQVRDPVVTLC-GHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSD-VSEATLVP   85 (193)
T ss_pred             ccCCCccCCccCCCcCCCcEEcCC-CchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCc-CChhcEEE
Confidence            345568999999999999999998 999999999999742                2479999974 33444444

>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=98.67  E-value=1.1e-08  Score=76.85  Aligned_cols=38  Identities=39%  Similarity=1.125  Sum_probs=32.9

Q ss_pred             ccccccccccc-eeccCCCCccchhHHHHHhhcCCCCCCC
Q 035975          140 CSLCNTLFKEA-VMIPCCQHSFCEKCIRLVLVEKARCPKC  178 (685)
Q Consensus       140 CPIClelf~dP-VtLpCCGHSFC~~CI~~~lk~~~sCPvC  178 (685)
                      |+||++.+.+| +.++| ||+||..||.++++....||.|
T Consensus         1 C~iC~~~~~~~~~~~~C-GH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDPVVVTPC-GHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SSEEEECTT-SEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccCcCEECCC-CCchhHHHHHHHHHCcCCCcCC
Confidence            89999999999 56776 9999999999999988899987

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

Probab=98.63  E-value=7.5e-09  Score=87.12  Aligned_cols=62  Identities=34%  Similarity=0.769  Sum_probs=34.1

Q ss_pred             CCCcccccccccccccceeccCCCCccchhHHHHHhhcCCCCCCCcCCCccccCCCccHHHHHHH
Q 035975          134 FPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQAI  198 (685)
Q Consensus       134 LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~~~~~~~L~pN~~L~nLV  198 (685)
                      ++..|.|++|.++|++||.+.=|.|.||..||.+.+.  ..||+|.. .....+++.|..|.+||
T Consensus         4 le~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~-Paw~qD~~~NrqLd~~i   65 (65)
T PF14835_consen    4 LEELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIG--SECPVCHT-PAWIQDIQINRQLDSMI   65 (65)
T ss_dssp             HHHTTS-SSS-S--SS-B---SSS--B-TTTGGGGTT--TB-SSS---B-S-SS----HHHHHHH
T ss_pred             HHHhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcC--CCCCCcCC-hHHHHHHHhhhhhhccC
Confidence            3457899999999999997654599999999987654  45999996 56788999999999886

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

Probab=98.62  E-value=2.2e-08  Score=98.66  Aligned_cols=46  Identities=33%  Similarity=0.803  Sum_probs=40.6

Q ss_pred             Cccccccccccccc--ceeccCCCCccchhHHHHHhhcCCCCCCCcCCC
Q 035975          136 SELKCSLCNTLFKE--AVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSK  182 (685)
Q Consensus       136 eeLtCPIClelf~d--PVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~~  182 (685)
                      ..+.||||++-+.+  |+.+.| ||.||..||...++....||+|++.+
T Consensus       130 ~~~~CPiCl~~~sek~~vsTkC-GHvFC~~Cik~alk~~~~CP~C~kkI  177 (187)
T KOG0320|consen  130 GTYKCPICLDSVSEKVPVSTKC-GHVFCSQCIKDALKNTNKCPTCRKKI  177 (187)
T ss_pred             cccCCCceecchhhcccccccc-chhHHHHHHHHHHHhCCCCCCccccc
Confidence            35899999999964  677898 99999999999999999999999743

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

Probab=98.59  E-value=2.1e-08  Score=104.91  Aligned_cols=70  Identities=26%  Similarity=0.489  Sum_probs=61.3

Q ss_pred             CCCCcccccccccccccceeccCCCCccchhHHHHHhhcCCCCCCCcCCCccccCCCccHHHHHHHHHHHhh
Q 035975          133 NFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQAIEHFLES  204 (685)
Q Consensus       133 ~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~~~~~~~L~pN~~L~nLVe~~red  204 (685)
                      .|...+.|-||.++|..|+.|+| ||+||.-||.+++.+...||+||. .....-++.+..+..+++.|...
T Consensus        21 ~LDs~lrC~IC~~~i~ip~~TtC-gHtFCslCIR~hL~~qp~CP~Cr~-~~~esrlr~~s~~~ei~es~~~~   90 (391)
T COG5432          21 GLDSMLRCRICDCRISIPCETTC-GHTFCSLCIRRHLGTQPFCPVCRE-DPCESRLRGSSGSREINESHARN   90 (391)
T ss_pred             cchhHHHhhhhhheeecceeccc-ccchhHHHHHHHhcCCCCCccccc-cHHhhhcccchhHHHHHHhhhhc
Confidence            35567999999999999999998 999999999999999999999997 45566788889999998887653

>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=98.51  E-value=5.8e-08  Score=76.53  Aligned_cols=46  Identities=33%  Similarity=0.869  Sum_probs=40.4

Q ss_pred             CcccccccccccccceeccCCCCc-cchhHHHHHhhcCCCCCCCcCCC
Q 035975          136 SELKCSLCNTLFKEAVMIPCCQHS-FCEKCIRLVLVEKARCPKCFSSK  182 (685)
Q Consensus       136 eeLtCPIClelf~dPVtLpCCGHS-FC~~CI~~~lk~~~sCPvCR~~~  182 (685)
                      ++..|.||++.+.+++.++| ||. ||..|+.+++.....||+||+.+
T Consensus         1 ~~~~C~iC~~~~~~~~~~pC-gH~~~C~~C~~~~~~~~~~CP~Cr~~i   47 (50)
T PF13920_consen    1 EDEECPICFENPRDVVLLPC-GHLCFCEECAERLLKRKKKCPICRQPI   47 (50)
T ss_dssp             -HSB-TTTSSSBSSEEEETT-CEEEEEHHHHHHHHHTTSBBTTTTBB-
T ss_pred             CcCCCccCCccCCceEEeCC-CChHHHHHHhHHhcccCCCCCcCChhh
Confidence            35789999999999999998 999 99999999999888999999753

...

>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=98.45  E-value=1e-07  Score=71.64  Aligned_cols=38  Identities=42%  Similarity=1.171  Sum_probs=34.6

Q ss_pred             ccccccccccce-eccCCCCccchhHHHHHhh--cCCCCCCC
Q 035975          140 CSLCNTLFKEAV-MIPCCQHSFCEKCIRLVLV--EKARCPKC  178 (685)
Q Consensus       140 CPIClelf~dPV-tLpCCGHSFC~~CI~~~lk--~~~sCPvC  178 (685)
                      |+||++.+.+|+ +++| ||+||..||..++.  ....||+|
T Consensus         1 C~iC~~~~~~~~~~~~C-~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPVILLPC-GHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEEEETTT-SEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCCCEEecC-CCcchHHHHHHHHHhcCCccCCcC
Confidence            899999999999 8887 99999999999998  34689988

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 ....

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

Probab=98.43  E-value=9.2e-08  Score=73.40  Aligned_cols=40  Identities=35%  Similarity=0.888  Sum_probs=35.0

Q ss_pred             cccccccccc---cceeccCCCCccchhHHHHHhhcCCCCCCCc
Q 035975          139 KCSLCNTLFK---EAVMIPCCQHSFCEKCIRLVLVEKARCPKCF  179 (685)
Q Consensus       139 tCPIClelf~---dPVtLpCCGHSFC~~CI~~~lk~~~sCPvCR  179 (685)
                      .|+||++.|.   .++.++| ||.||..||..|+.....||+||
T Consensus         2 ~C~IC~~~~~~~~~~~~l~C-~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    2 ECPICLEEFEDGEKVVKLPC-GHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             CETTTTCBHHTTSCEEEETT-SEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCcCCChhhcCCCeEEEccC-CCeeCHHHHHHHHHhCCcCCccC
Confidence            5999999994   5677886 99999999999999989999997

...

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

Probab=98.41  E-value=1.1e-07  Score=97.04  Aligned_cols=53  Identities=28%  Similarity=0.739  Sum_probs=43.5

Q ss_pred             CcccccccccccccceeccCCCCccchhHHHHHhhcC---CCCCCCcCCCccccCCCc
Q 035975          136 SELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEK---ARCPKCFSSKCRLEDLLP  190 (685)
Q Consensus       136 eeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~---~sCPvCR~~~~~~~~L~p  190 (685)
                      ..+.|.||+++-++||+|.| ||.||..||.+|+...   ..||+|+.. ...+.+.|
T Consensus        46 ~~FdCNICLd~akdPVvTlC-GHLFCWpClyqWl~~~~~~~~cPVCK~~-Vs~~~vvP  101 (230)
T KOG0823|consen   46 GFFDCNICLDLAKDPVVTLC-GHLFCWPCLYQWLQTRPNSKECPVCKAE-VSIDTVVP  101 (230)
T ss_pred             CceeeeeeccccCCCEEeec-ccceehHHHHHHHhhcCCCeeCCccccc-cccceEEe
Confidence            37899999999999999998 9999999999999865   469999963 33344433

>PHA02929 N1R/p28-like protein; Provisional

Probab=98.40  E-value=1.8e-07  Score=96.39  Aligned_cols=48  Identities=27%  Similarity=0.705  Sum_probs=40.2

Q ss_pred             CCCcccccccccccccc--------eeccCCCCccchhHHHHHhhcCCCCCCCcCCC
Q 035975          134 FPSELKCSLCNTLFKEA--------VMIPCCQHSFCEKCIRLVLVEKARCPKCFSSK  182 (685)
Q Consensus       134 LeeeLtCPIClelf~dP--------VtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~~  182 (685)
                      ...+..|+||++.+.++        +.++| +|.||..||.+|+....+||+||..+
T Consensus       171 ~~~~~eC~ICle~~~~~~~~~~~~~vl~~C-~H~FC~~CI~~Wl~~~~tCPlCR~~~  226 (238)
T PHA02929        171 RSKDKECAICMEKVYDKEIKNMYFGILSNC-NHVFCIECIDIWKKEKNTCPVCRTPF  226 (238)
T ss_pred             CCCCCCCccCCcccccCccccccceecCCC-CCcccHHHHHHHHhcCCCCCCCCCEe
Confidence            34578999999987764        45566 99999999999999888999999753

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

Probab=98.29  E-value=3.8e-07  Score=95.59  Aligned_cols=46  Identities=39%  Similarity=0.707  Sum_probs=42.5

Q ss_pred             CCcccccccccccccceeccCCCCccchhHHHHHhhcCCCCCCCcCC
Q 035975          135 PSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSS  181 (685)
Q Consensus       135 eeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~  181 (685)
                      +....|.||++...+|..||| ||.||..||..|......||+||..
T Consensus       237 ~a~~kC~LCLe~~~~pSaTpC-GHiFCWsCI~~w~~ek~eCPlCR~~  282 (293)
T KOG0317|consen  237 EATRKCSLCLENRSNPSATPC-GHIFCWSCILEWCSEKAECPLCREK  282 (293)
T ss_pred             CCCCceEEEecCCCCCCcCcC-cchHHHHHHHHHHccccCCCccccc
Confidence            345899999999999999998 9999999999999988899999974

>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=98.25  E-value=7.8e-07  Score=65.54  Aligned_cols=42  Identities=38%  Similarity=0.908  Sum_probs=36.6

Q ss_pred             cccccccccccceeccCCCCccchhHHHHHhhc-CCCCCCCcC
Q 035975          139 KCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVE-KARCPKCFS  180 (685)
Q Consensus       139 tCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~-~~sCPvCR~  180 (685)
                      .|+||++.+.+++.++-|||.||..|+..|+.. ...||.|+.
T Consensus         1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~   43 (45)
T cd00162           1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRT   43 (45)
T ss_pred             CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCC
Confidence            599999999888887733999999999999987 568999985

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

Probab=98.23  E-value=5.2e-07  Score=70.49  Aligned_cols=35  Identities=31%  Similarity=1.103  Sum_probs=22.6

Q ss_pred             cccccccccc----ceeccCCCCccchhHHHHHhhcC----CCCC
Q 035975          140 CSLCNTLFKE----AVMIPCCQHSFCEKCIRLVLVEK----ARCP  176 (685)
Q Consensus       140 CPIClelf~d----PVtLpCCGHSFC~~CI~~~lk~~----~sCP  176 (685)
                      ||||.+ |.+    |+.|+| ||+||..||.+++...    ++||
T Consensus         1 CpIc~e-~~~~~n~P~~L~C-GH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPC-GHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-SS-S-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEeC-ccHHHHHHHHHHHhcCCCCeeeCc
Confidence            999999 888    999997 9999999999998743    4677

>smart00184 RING Ring finger

Probab=98.15  E-value=1.6e-06  Score=61.74  Aligned_cols=38  Identities=42%  Similarity=1.110  Sum_probs=34.4

Q ss_pred             ccccccccccceeccCCCCccchhHHHHHhh-cCCCCCCC
Q 035975          140 CSLCNTLFKEAVMIPCCQHSFCEKCIRLVLV-EKARCPKC  178 (685)
Q Consensus       140 CPIClelf~dPVtLpCCGHSFC~~CI~~~lk-~~~sCPvC  178 (685)
                      |+||++....++.++| ||.||..|+..|+. ....||.|
T Consensus         1 C~iC~~~~~~~~~~~C-~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELKDPVVLPC-GHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCCCCcEEecC-CChHHHHHHHHHHHhCcCCCCCC
Confidence            8999999999999998 99999999999988 44679987

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)

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

Probab=98.13  E-value=9.9e-07  Score=93.92  Aligned_cols=71  Identities=25%  Similarity=0.577  Sum_probs=60.4

Q ss_pred             CCCCCcccccccccccccceeccCCCCccchhHHHHHhhcCCCCCCCcCCCc---cccCCCccHHHHHHHHHHH
Q 035975          132 GNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKC---RLEDLLPNVSLRQAIEHFL  202 (685)
Q Consensus       132 e~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~~~---~~~~L~pN~~L~nLVe~~r  202 (685)
                      .++...++|.+|..+|.|++++.=|.||||+.||..++.....||.|...+-   ...+++.+.+|+.||-.|.
T Consensus        10 ~~~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~pl~ni~~DrtlqdiVyKLV   83 (331)
T KOG2660|consen   10 TELNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKTHPLLNIRSDRTLQDIVYKLV   83 (331)
T ss_pred             hhcccceehhhccceeecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccCccccccCCcchHHHHHHHHHc
Confidence            4577789999999999999988766999999999999999889999986322   2457888999999987764

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

Probab=98.13  E-value=4.5e-07  Score=97.16  Aligned_cols=72  Identities=24%  Similarity=0.514  Sum_probs=61.2

Q ss_pred             CCCCCcccccccccccccceeccCCCCccchhHHHHHhhcC-CCCCCCcCCCccccCCCccHHHHHHHHHHHh
Q 035975          132 GNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEK-ARCPKCFSSKCRLEDLLPNVSLRQAIEHFLE  203 (685)
Q Consensus       132 e~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~-~sCPvCR~~~~~~~~L~pN~~L~nLVe~~re  203 (685)
                      ..|.-+|.|+||+++++..++++=|+|.||..||...+... ..||.||+.......|+++...-.||..+..
T Consensus        38 ~~~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsLr~Dp~fdaLis~i~~  110 (381)
T KOG0311|consen   38 AMFDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSLRIDPNFDALISKIYP  110 (381)
T ss_pred             HHhhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccCCCCccHHHHHHHHhc
Confidence            34667899999999999999998779999999999888765 5899999988888889888777777766644

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.09  E-value=1.8e-06  Score=66.71  Aligned_cols=41  Identities=29%  Similarity=0.909  Sum_probs=34.9

Q ss_pred             ccccccccc---ccceeccCCCCccchhHHHHHhhcCCCCCCCcC
Q 035975          139 KCSLCNTLF---KEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFS  180 (685)
Q Consensus       139 tCPIClelf---~dPVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~  180 (685)
                      .|+||.+.+   ..|++|+| ||+||..||.........||+|++
T Consensus         1 ~C~~C~~~~~~~~~~~l~~C-gH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSC-GHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEccc-CCHHHHHHHHhhcCCCCCCcCCCC
Confidence            489999999   35788888 999999999998855578999984

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

Probab=98.09  E-value=2e-06  Score=95.81  Aligned_cols=52  Identities=35%  Similarity=0.725  Sum_probs=43.3

Q ss_pred             cccccccccccccceeccCCCCccchhHHHHHhhcC-----CCCCCCcCCCccccCCCc
Q 035975          137 ELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEK-----ARCPKCFSSKCRLEDLLP  190 (685)
Q Consensus       137 eLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~-----~sCPvCR~~~~~~~~L~p  190 (685)
                      +..||||++...-|+.|.| ||.||..||.++|...     ..||.|+.. ....+|.+
T Consensus       186 ~~~CPICL~~~~~p~~t~C-GHiFC~~CiLqy~~~s~~~~~~~CPiC~s~-I~~kdl~p  242 (513)
T KOG2164|consen  186 DMQCPICLEPPSVPVRTNC-GHIFCGPCILQYWNYSAIKGPCSCPICRST-ITLKDLLP  242 (513)
T ss_pred             CCcCCcccCCCCccccccc-CceeeHHHHHHHHhhhcccCCccCCchhhh-ccccceee
Confidence            7899999999999999997 9999999999999765     379999964 44444433

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

Probab=98.08  E-value=1.4e-06  Score=95.38  Aligned_cols=102  Identities=25%  Similarity=0.566  Sum_probs=76.6

Q ss_pred             CCCcccccccccccccceeccCCCCccchhHHHHHhh-------------------------------------------
Q 035975          134 FPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLV-------------------------------------------  170 (685)
Q Consensus       134 LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk-------------------------------------------  170 (685)
                      ++++|.||||..+|.+|++|+| +|+.|+.|....+.                                           
T Consensus         1 meeelkc~vc~~f~~epiil~c-~h~lc~~ca~~~~~~tp~~~spq~~~aa~s~vs~~~~~~~d~msl~~~ad~g~~~~~   79 (699)
T KOG4367|consen    1 MEEELKCPVCGSFYREPIILPC-SHNLCQACARNILVQTPESESPQSHRAAGSGVSDYDYLDLDKMSLYSEADSGYGSYG   79 (699)
T ss_pred             CcccccCceehhhccCceEeec-ccHHHHHHHHhhcccCCCCCCchhhhhcCCCCCccccccccceeeEeeccCCCCccC
Confidence            3679999999999999999998 99999999865442                                           


Q ss_pred             --------------------------------------cC---CCCCCCcCCCcc----ccCCCccHHHHHHHHHHHhhc
Q 035975          171 --------------------------------------EK---ARCPKCFSSKCR----LEDLLPNVSLRQAIEHFLESQ  205 (685)
Q Consensus       171 --------------------------------------~~---~sCPvCR~~~~~----~~~L~pN~~L~nLVe~~redq  205 (685)
                                                            ..   ..||.|.+.++.    ...++.|..|.+.|++|....
T Consensus        80 ~~a~~~~t~~~~~~~g~~~~p~am~pp~t~l~~~lap~~~~~~i~c~~c~rs~~~dd~~l~~~p~n~~le~vi~ryq~s~  159 (699)
T KOG4367|consen   80 GFASAPTTPCQKSPNGVRVFPPAMPPPATHLSPALAPVPRNSCITCPQCHRSLILDDRGLRGFPKNRVLEGVIDRYQQSK  159 (699)
T ss_pred             CeeecCCCccccCCCCceeCCCCCCCchhhccccccCCCCCceEEcchhhhheEecccccccCchhhHHHHHHHHHhhhh
Confidence                                                  00   168999875442    567899999999999997754


Q ss_pred             cc--ccCccCCCCCC--CCchhhHHHHHhhhhhhhcccc
Q 035975          206 IL--ISGSENAYHRY--APDGESGIQAKDVSCAVTNLQR  240 (685)
Q Consensus       206 ~~--iCs~Eh~~H~~--~paee~C~eCk~l~CaL~~Lqe  240 (685)
                      ..  .|    ..|..  ..+..+|++|..++|+-+++.=
T Consensus       160 ~aa~kc----qlce~a~k~a~v~ceqcdv~yc~pc~~~~  194 (699)
T KOG4367|consen  160 AAALKC----QLCEKAPKEATVMCEQCDVFYCDPCRLRC  194 (699)
T ss_pred             HHhhhh----hhhcCChhhhhhhHhhCceEEechHHhcc
Confidence            32  23    22222  3467789999999998766543

>PHA02926 zinc finger-like protein; Provisional

Probab=97.95  E-value=4.6e-06  Score=85.26  Aligned_cols=48  Identities=25%  Similarity=0.715  Sum_probs=36.8

Q ss_pred             CCCcccccccccccccc--------eeccCCCCccchhHHHHHhhcC------CCCCCCcCC
Q 035975          134 FPSELKCSLCNTLFKEA--------VMIPCCQHSFCEKCIRLVLVEK------ARCPKCFSS  181 (685)
Q Consensus       134 LeeeLtCPIClelf~dP--------VtLpCCGHSFC~~CI~~~lk~~------~sCPvCR~~  181 (685)
                      ...+..|+||++...++        -.|+.|+|+||..||..|....      ..||.||..
T Consensus       167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~  228 (242)
T PHA02926        167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTR  228 (242)
T ss_pred             ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcce
Confidence            45589999999987543        1344459999999999998753      359999974

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

Probab=97.74  E-value=1.3e-05  Score=83.58  Aligned_cols=46  Identities=30%  Similarity=0.649  Sum_probs=39.8

Q ss_pred             CcccccccccccccceeccCCCCccchhHHHH-HhhcCC-CCCCCcCCC
Q 035975          136 SELKCSLCNTLFKEAVMIPCCQHSFCEKCIRL-VLVEKA-RCPKCFSSK  182 (685)
Q Consensus       136 eeLtCPIClelf~dPVtLpCCGHSFC~~CI~~-~lk~~~-sCPvCR~~~  182 (685)
                      .++.|+||++....|..++| ||.||..||.. |-.... .||+||+..
T Consensus       214 ~d~kC~lC~e~~~~ps~t~C-gHlFC~~Cl~~~~t~~k~~~CplCRak~  261 (271)
T COG5574         214 ADYKCFLCLEEPEVPSCTPC-GHLFCLSCLLISWTKKKYEFCPLCRAKV  261 (271)
T ss_pred             cccceeeeecccCCcccccc-cchhhHHHHHHHHHhhccccCchhhhhc
Confidence            47899999999999999998 99999999998 555454 599999843

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

Probab=97.73  E-value=2e-05  Score=86.75  Aligned_cols=71  Identities=34%  Similarity=0.679  Sum_probs=55.0

Q ss_pred             CCCCCcccccccccccccceeccCCCCccchhHHHHHhhcCCCCCCCcCCCccccC----CCccHHHHHHHHHHHh
Q 035975          132 GNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLED----LLPNVSLRQAIEHFLE  203 (685)
Q Consensus       132 e~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~~~~~~~----L~pN~~L~nLVe~~re  203 (685)
                      ..+..+|.|.||..+|..||+++| ||+||..||.+.+.....||.||..+.....    +.+|..+..++..|+.
T Consensus        79 ~~~~sef~c~vc~~~l~~pv~tpc-ghs~c~~Cl~r~ld~~~~cp~Cr~~l~e~~~~~~~~~~~r~~~~li~~F~~  153 (398)
T KOG4159|consen   79 EEIRSEFECCVCSRALYPPVVTPC-GHSFCLECLDRSLDQETECPLCRDELVELPALEQALSLNRLLCKLITKFLE  153 (398)
T ss_pred             ccccchhhhhhhHhhcCCCccccc-cccccHHHHHHHhccCCCCcccccccccchHHHHHHHHHHHHHHHHHHhhh
Confidence            456789999999999999999998 9999999999988877899999975432111    1135555566666655

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

Probab=97.66  E-value=1.3e-05  Score=92.90  Aligned_cols=54  Identities=39%  Similarity=0.922  Sum_probs=45.5

Q ss_pred             CCCCcccccccccccccceeccCCCCccchhHHHHHhhcC-CCCCCCcCCCccccCC
Q 035975          133 NFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEK-ARCPKCFSSKCRLEDL  188 (685)
Q Consensus       133 ~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~-~sCPvCR~~~~~~~~L  188 (685)
                      .+..-|+||+|..-+++.|++.| ||.||..||...+... .+||.|... +.+.++
T Consensus       639 ~yK~~LkCs~Cn~R~Kd~vI~kC-~H~FC~~Cvq~r~etRqRKCP~Cn~a-FganDv  693 (698)
T KOG0978|consen  639 EYKELLKCSVCNTRWKDAVITKC-GHVFCEECVQTRYETRQRKCPKCNAA-FGANDV  693 (698)
T ss_pred             HHHhceeCCCccCchhhHHHHhc-chHHHHHHHHHHHHHhcCCCCCCCCC-CCcccc
Confidence            45678999999999999999998 9999999999988765 589999974 444444

>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=97.55  E-value=5.7e-05  Score=64.68  Aligned_cols=44  Identities=27%  Similarity=0.743  Sum_probs=34.3

Q ss_pred             CCCcccccccccccccc------------ee-ccCCCCccchhHHHHHhhcCCCCCCCc
Q 035975          134 FPSELKCSLCNTLFKEA------------VM-IPCCQHSFCEKCIRLVLVEKARCPKCF  179 (685)
Q Consensus       134 LeeeLtCPIClelf~dP------------Vt-LpCCGHSFC~~CI~~~lk~~~sCPvCR  179 (685)
                      +.++. |+||++.|.++            +. .+| ||.|-..||.+|+.....||+||
T Consensus        17 ~~~d~-C~IC~~~l~~~~~~~~~~~~~~~i~~~~C-~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   17 IADDN-CAICREPLEDPCPECQAPQDECPIVWGPC-GHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             SCCSB-ETTTTSBTTSTTCCHHHCTTTS-EEEETT-SEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             CcCCc-ccccChhhhChhhhhcCCccccceEeccc-CCCEEHHHHHHHHhcCCcCCCCC
Confidence            33443 99999999433            33 356 99999999999999889999997

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 ....

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=97.53  E-value=0.00012  Score=78.31  Aligned_cols=61  Identities=26%  Similarity=0.800  Sum_probs=40.8

Q ss_pred             cccccccccc-cccce---ec-cCCCCccchhHHHHHhhcC-CCCCCCcCCCccccC----CCccHHHHHHHH
Q 035975          137 ELKCSLCNTL-FKEAV---MI-PCCQHSFCEKCIRLVLVEK-ARCPKCFSSKCRLED----LLPNVSLRQAIE  199 (685)
Q Consensus       137 eLtCPIClel-f~dPV---tL-pCCGHSFC~~CI~~~lk~~-~sCPvCR~~~~~~~~----L~pN~~L~nLVe  199 (685)
                      +..||||+.. +..|-   .+ +| ||.||..||...|... ..||.|+. .+...+    +..+..+..-|+
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~C-GH~~C~sCv~~l~~~~~~~CP~C~~-~lrk~~fr~q~F~D~~vekEV~   73 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNVC-GHTLCESCVDLLFVRGSGSCPECDT-PLRKNNFRVQLFEDPTVEKEVD   73 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCCC-CCcccHHHHHHHhcCCCCCCCCCCC-ccchhhccccccccHHHHHHHH
Confidence            4689999983 33443   22 56 9999999999988654 57999997 444444    334444444443

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).

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

Probab=97.37  E-value=0.00012  Score=80.51  Aligned_cols=66  Identities=26%  Similarity=0.654  Sum_probs=52.8

Q ss_pred             CCCCCcccccccccccccceec-cCCCCccchhHHHHHhhcCCCCCCCcCCCccccCCCccHHHHHHH
Q 035975          132 GNFPSELKCSLCNTLFKEAVMI-PCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQAI  198 (685)
Q Consensus       132 e~LeeeLtCPIClelf~dPVtL-pCCGHSFC~~CI~~~lk~~~sCPvCR~~~~~~~~L~pN~~L~nLV  198 (685)
                      ..+++.+.|++|..++.+|+.+ .| ||.||..|+..|+.....||.|+........+.....+...+
T Consensus        16 ~~~~~~l~C~~C~~vl~~p~~~~~c-gh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~~~~~~~~~~~   82 (391)
T KOG0297|consen   16 RPLDENLLCPICMSVLRDPVQTTTC-GHRFCAGCLLESLSNHQKCPVCRQELTQAEELPVPRALRREL   82 (391)
T ss_pred             CCCcccccCccccccccCCCCCCCC-CCcccccccchhhccCcCCcccccccchhhccCchHHHHHHH
Confidence            3478899999999999999995 87 999999999999998889999987665555555333344443

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

Probab=97.25  E-value=0.00021  Score=75.14  Aligned_cols=49  Identities=24%  Similarity=0.526  Sum_probs=42.0

Q ss_pred             CCCCcccccccccccccceeccCCCCccchhHHHHHhh--cCCCCCCCcCC
Q 035975          133 NFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLV--EKARCPKCFSS  181 (685)
Q Consensus       133 ~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk--~~~sCPvCR~~  181 (685)
                      ......+||+|.+..+.|.+..||||.||..||.....  ..+.||.|...
T Consensus       235 ~~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~  285 (298)
T KOG2879|consen  235 TGTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGEN  285 (298)
T ss_pred             cccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCC
Confidence            34568899999999999999998899999999987665  34899999864

>PF00098 zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=97.25  E-value=0.00015  Score=47.20  Aligned_cols=18  Identities=56%  Similarity=1.508  Sum_probs=16.8

Q ss_pred             ccccccCCCCcccccCCC
Q 035975          363 RTCYMCGSPNHLIRDCPA  380 (685)
Q Consensus       363 ~~~~~~~~~~~~~~~~~~  380 (685)
                      |+||.||.++|++++||.
T Consensus         1 ~~C~~C~~~GH~~~~Cp~   18 (18)
T PF00098_consen    1 RKCFNCGEPGHIARDCPK   18 (18)
T ss_dssp             SBCTTTSCSSSCGCTSSS
T ss_pred             CcCcCCCCcCcccccCcc
Confidence            689999999999999994

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the CysCysHisCys (CCHC) type zinc finger domains, and have the sequence: C-X2-C-X4-H-X4-C where X can be any amino acid, and number indicates the number of residues. These 18 residues CCHC zinc finger domains are mainly found in the nucleocapsid protein of retroviruses. It is required for viral genome packaging and for early infection process [, , ]. It is also found in eukaryotic proteins involved in RNA binding or single-stranded DNA binding []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 2L44_A 1A1T_A 1WWG_A 1U6P_A 1WWD_A 1WWE_A 1A6B_B 1F6U_A 1MFS_A 1NCP_C ....

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

Probab=97.19  E-value=0.00018  Score=59.45  Aligned_cols=43  Identities=28%  Similarity=0.544  Sum_probs=29.7

Q ss_pred             CCcccccccccccccceeccCCCCccchhHHHHHhhc--CCCCCC
Q 035975          135 PSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVE--KARCPK  177 (685)
Q Consensus       135 eeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~--~~sCPv  177 (685)
                      ...+.|||.+..|.+||...-|||+|.+..|.+++..  ...||+
T Consensus         9 ~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen    9 TISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             B--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             EeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            3468999999999999986444999999999999943  347998

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

Probab=97.17  E-value=0.00018  Score=72.71  Aligned_cols=59  Identities=20%  Similarity=0.522  Sum_probs=46.6

Q ss_pred             cccccccccccccceeccCCCCccchhHHHHHhhcCCCCCCCcCCCccccCCCccHHHHHHH
Q 035975          137 ELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQAI  198 (685)
Q Consensus       137 eLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~~~~~~~L~pN~~L~nLV  198 (685)
                      .|.|.||.+.|..||.+.| ||+||..|...-+.....|-+|.+..  ...+.+.-.+..|+
T Consensus       196 PF~C~iCKkdy~spvvt~C-GH~FC~~Cai~~y~kg~~C~~Cgk~t--~G~f~V~~d~~kmL  254 (259)
T COG5152         196 PFLCGICKKDYESPVVTEC-GHSFCSLCAIRKYQKGDECGVCGKAT--YGRFWVVSDLQKML  254 (259)
T ss_pred             ceeehhchhhccchhhhhc-chhHHHHHHHHHhccCCcceecchhh--ccceeHHhhHHHHH
Confidence            5899999999999999998 99999999998888888999998642  23333433444444

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

Probab=97.16  E-value=0.00017  Score=82.00  Aligned_cols=45  Identities=27%  Similarity=0.696  Sum_probs=41.8

Q ss_pred             CCccccccccccccc-----ceeccCCCCccchhHHHHHhhcCCCCCCCcC
Q 035975          135 PSELKCSLCNTLFKE-----AVMIPCCQHSFCEKCIRLVLVEKARCPKCFS  180 (685)
Q Consensus       135 eeeLtCPIClelf~d-----PVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~  180 (685)
                      ..+..|+||.+.+..     |..++| +|.||..|+..|++...+||.||.
T Consensus       289 ~~~~~C~IC~e~l~~~~~~~~~rL~C-~Hifh~~CL~~W~er~qtCP~CR~  338 (543)
T KOG0802|consen  289 LSDELCIICLEELHSGHNITPKRLPC-GHIFHDSCLRSWFERQQTCPTCRT  338 (543)
T ss_pred             hcCCeeeeechhhccccccccceeec-ccchHHHHHHHHHHHhCcCCcchh
Confidence            347899999999998     899998 999999999999999999999995

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

Probab=96.88  E-value=0.00053  Score=72.76  Aligned_cols=59  Identities=24%  Similarity=0.519  Sum_probs=46.2

Q ss_pred             cccccccccccccceeccCCCCccchhHHHHHhhcCCCCCCCcCCCccccCCCccHHHHHHH
Q 035975          137 ELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQAI  198 (685)
Q Consensus       137 eLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~~~~~~~L~pN~~L~nLV  198 (685)
                      .+.|-||.+.|.+||.+.| +|+||..|....+.....|++|.+..  ...+.+...|..++
T Consensus       241 Pf~c~icr~~f~~pVvt~c-~h~fc~~ca~~~~qk~~~c~vC~~~t--~g~~~~akeL~~~L  299 (313)
T KOG1813|consen  241 PFKCFICRKYFYRPVVTKC-GHYFCEVCALKPYQKGEKCYVCSQQT--HGSFNVAKELLVSL  299 (313)
T ss_pred             CccccccccccccchhhcC-CceeehhhhccccccCCcceeccccc--ccccchHHHHHHHH
Confidence            4679999999999999998 99999999998888788999998632  33344444444333

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

Probab=96.81  E-value=0.00058  Score=72.66  Aligned_cols=45  Identities=24%  Similarity=0.520  Sum_probs=39.4

Q ss_pred             cccccccccccccceeccCCCCccchhHHHHHhhcCC-CCCCCcCCC
Q 035975          137 ELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKA-RCPKCFSSK  182 (685)
Q Consensus       137 eLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~~-sCPvCR~~~  182 (685)
                      .-.|+||+....-|+.++| +|.||.-||.......+ .|++||..+
T Consensus         7 ~~eC~IC~nt~n~Pv~l~C-~HkFCyiCiKGsy~ndk~~CavCR~pi   52 (324)
T KOG0824|consen    7 KKECLICYNTGNCPVNLYC-FHKFCYICIKGSYKNDKKTCAVCRFPI   52 (324)
T ss_pred             CCcceeeeccCCcCccccc-cchhhhhhhcchhhcCCCCCceecCCC
Confidence            3469999999999999998 99999999998877665 599999754

>PF13696 zf-CCHC_2: Zinc knuckle

Probab=96.79  E-value=0.00059  Score=50.74  Aligned_cols=22  Identities=36%  Similarity=0.866  Sum_probs=19.7

Q ss_pred             CccccccCCCCcccccCCCCCC
Q 035975          362 DRTCYMCGSPNHLIRDCPAALS  383 (685)
Q Consensus       362 ~~~~~~~~~~~~~~~~~~~~~~  383 (685)
                      +.+|++||.+.|+|+|||...|
T Consensus         8 ~Y~C~~C~~~GH~i~dCP~~~P   29 (32)
T PF13696_consen    8 GYVCHRCGQKGHWIQDCPTNKP   29 (32)
T ss_pred             CCEeecCCCCCccHhHCCCCCC
Confidence            7899999999999999999544

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

Probab=95.98  E-value=0.0045  Score=67.73  Aligned_cols=46  Identities=24%  Similarity=0.630  Sum_probs=39.9

Q ss_pred             CCccccccccccc-cc------------ceeccCCCCccchhHHHHHhhcCCCCCCCcCC
Q 035975          135 PSELKCSLCNTLF-KE------------AVMIPCCQHSFCEKCIRLVLVEKARCPKCFSS  181 (685)
Q Consensus       135 eeeLtCPIClelf-~d------------PVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~  181 (685)
                      ..+-+|.||.+-+ ..            |..+|| ||.|=..|+..|++.+.+||.||.+
T Consensus       285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpC-GHilHl~CLknW~ERqQTCPICr~p  343 (491)
T COG5243         285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPC-GHILHLHCLKNWLERQQTCPICRRP  343 (491)
T ss_pred             CCCCeEEEecccccCCCCccCcccccCCcccccc-cceeeHHHHHHHHHhccCCCcccCc
Confidence            4578999999974 32            478998 9999999999999999999999974

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

Probab=95.74  E-value=0.0061  Score=66.46  Aligned_cols=44  Identities=27%  Similarity=0.694  Sum_probs=37.3

Q ss_pred             cccccccccccc---ceeccCCCCccchhHHHHHhhcCC-CCCCCcCCC
Q 035975          138 LKCSLCNTLFKE---AVMIPCCQHSFCEKCIRLVLVEKA-RCPKCFSSK  182 (685)
Q Consensus       138 LtCPIClelf~d---PVtLpCCGHSFC~~CI~~~lk~~~-sCPvCR~~~  182 (685)
                      .+|.||++.|.+   =+.||| .|.|=..||..|+.... .||+|+...
T Consensus       230 ~~CaIClEdY~~GdklRiLPC-~H~FH~~CIDpWL~~~r~~CPvCK~di  277 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRILPC-SHKFHVNCIDPWLTQTRTFCPVCKRDI  277 (348)
T ss_pred             ceEEEeecccccCCeeeEecC-CCchhhccchhhHhhcCccCCCCCCcC
Confidence            599999999974   356898 99999999999998774 599999743

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

Probab=95.46  E-value=0.0069  Score=66.04  Aligned_cols=45  Identities=36%  Similarity=0.771  Sum_probs=37.0

Q ss_pred             CCcccccccccccccce-----e---ccCCCCccchhHHHHHhh--c-----CCCCCCCcC
Q 035975          135 PSELKCSLCNTLFKEAV-----M---IPCCQHSFCEKCIRLVLV--E-----KARCPKCFS  180 (685)
Q Consensus       135 eeeLtCPIClelf~dPV-----t---LpCCGHSFC~~CI~~~lk--~-----~~sCPvCR~  180 (685)
                      ..+..|-||++...+..     .   .+| -|+||..||..|-.  .     ...||.||.
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC-~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv  218 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNC-NHSFCLNCIRKWRQATQFESKTSKSCPFCRV  218 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCc-chhhhhcHhHhhhhhhccccccccCCCcccC
Confidence            44889999999998877     3   456 99999999999973  2     357999996

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

Probab=95.34  E-value=0.0068  Score=68.68  Aligned_cols=48  Identities=27%  Similarity=0.746  Sum_probs=41.2

Q ss_pred             CCCCCcccccccccccccceeccCCCCccchhHHHHHhhc-----CCCCCCCcC
Q 035975          132 GNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVE-----KARCPKCFS  180 (685)
Q Consensus       132 e~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~-----~~sCPvCR~  180 (685)
                      .+-..+..|.+|.+.-.+++.+.| -|+||+.||.++...     ..+||+|..
T Consensus       531 ~enk~~~~C~lc~d~aed~i~s~C-hH~FCrlCi~eyv~~f~~~~nvtCP~C~i  583 (791)
T KOG1002|consen  531 DENKGEVECGLCHDPAEDYIESSC-HHKFCRLCIKEYVESFMENNNVTCPVCHI  583 (791)
T ss_pred             ccccCceeecccCChhhhhHhhhh-hHHHHHHHHHHHHHhhhcccCCCCccccc
Confidence            344568899999999999999998 999999999988763     258999986

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

Probab=94.78  E-value=0.015  Score=63.33  Aligned_cols=46  Identities=30%  Similarity=0.624  Sum_probs=41.8

Q ss_pred             CCcccccccccccccceeccCCCCccchhHHHHHhhcCCCCCCCcCC
Q 035975          135 PSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSS  181 (685)
Q Consensus       135 eeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~  181 (685)
                      .++-.||||.---..+|..|| +|.-|+.||.+++-+.+.|-.|++.
T Consensus       420 sEd~lCpICyA~pi~Avf~PC-~H~SC~~CI~qHlmN~k~CFfCktT  465 (489)
T KOG4692|consen  420 SEDNLCPICYAGPINAVFAPC-SHRSCYGCITQHLMNCKRCFFCKTT  465 (489)
T ss_pred             cccccCcceecccchhhccCC-CCchHHHHHHHHHhcCCeeeEecce
Confidence            457889999999999999998 9999999999999999999999863

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

Probab=94.67  E-value=0.017  Score=64.52  Aligned_cols=108  Identities=17%  Similarity=0.278  Sum_probs=62.6

Q ss_pred             ccccCccCCCCCCCccccccccchHHHHhc-----ccccchhhhhhhhccCCCChhhhHhHHHHHhhcccccccCCCCCc
Q 035975           63 ENIDTTRTSEPHNTGCQKLEASNVNEAIRR-----GAVHSRIEEDLLQTESKSDVPQFMKLELVIKTNASAMENGNFPSE  137 (685)
Q Consensus        63 k~~RvkRSSgip~S~lqkVessdleeAl~~-----givV~kvd~~a~~tksqPd~qe~kk~E~~~ss~asa~~~e~Leee  137 (685)
                      .-+|+-| .+.|+.+-..|.-.+.++|...     |-....++...-...-... .+....+     ..++.....+.+.
T Consensus       103 ~~irivR-d~~pnrymvLIkFr~q~da~~Fy~efNGk~Fn~le~e~Chll~V~~-ve~~~s~-----d~as~~~~~~tEL  175 (493)
T KOG0804|consen  103 SDIRIVR-DGMPNRYMVLIKFRDQADADTFYEEFNGKQFNSLEPEVCHLLYVDR-VEVTESE-----DGASEPPTGLTEL  175 (493)
T ss_pred             heeEEee-cCCCceEEEEEEeccchhHHHHHHHcCCCcCCCCCccceeEEEEEE-EEEEecc-----cCCCCCCCCcccC
Confidence            3455666 7888877777776666666542     2222222221100000000 0001011     1111233456677


Q ss_pred             ccccccccccccce----eccCCCCccchhHHHHHhhcCCCCCCCcC
Q 035975          138 LKCSLCNTLFKEAV----MIPCCQHSFCEKCIRLVLVEKARCPKCFS  180 (685)
Q Consensus       138 LtCPIClelf~dPV----tLpCCGHSFC~~CI~~~lk~~~sCPvCR~  180 (685)
                      -+||||++-+-.-+    ++.| .|+|=..|+..|+  ..+||+||.
T Consensus       176 PTCpVCLERMD~s~~gi~t~~c-~Hsfh~~cl~~w~--~~scpvcR~  219 (493)
T KOG0804|consen  176 PTCPVCLERMDSSTTGILTILC-NHSFHCSCLMKWW--DSSCPVCRY  219 (493)
T ss_pred             CCcchhHhhcCccccceeeeec-ccccchHHHhhcc--cCcChhhhh
Confidence            89999999997665    5677 9999999999997  468999995

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

Probab=94.58  E-value=0.023  Score=61.04  Aligned_cols=44  Identities=27%  Similarity=0.807  Sum_probs=37.2

Q ss_pred             ccccccccccccc---ceeccCCCCccchhHHHHHhhc-CCCCCCCcCC
Q 035975          137 ELKCSLCNTLFKE---AVMIPCCQHSFCEKCIRLVLVE-KARCPKCFSS  181 (685)
Q Consensus       137 eLtCPIClelf~d---PVtLpCCGHSFC~~CI~~~lk~-~~sCPvCR~~  181 (685)
                      ...|.||+.-|..   -+.||| .|.|=..|+..|+.. ...||+||..
T Consensus       323 GveCaICms~fiK~d~~~vlPC-~H~FH~~Cv~kW~~~y~~~CPvCrt~  370 (374)
T COG5540         323 GVECAICMSNFIKNDRLRVLPC-DHRFHVGCVDKWLLGYSNKCPVCRTA  370 (374)
T ss_pred             CceEEEEhhhhcccceEEEecc-CceechhHHHHHHhhhcccCCccCCC
Confidence            5889999998863   367888 999999999999984 5689999974

>COG5180 PBP1 Protein interacting with poly(A)-binding protein [RNA processing and modification]

Probab=94.50  E-value=0.064  Score=60.40  Aligned_cols=26  Identities=19%  Similarity=0.229  Sum_probs=11.9

Q ss_pred             CCCCcc-CCCCCCCCCCCCCCcCCCcc
Q 035975          418 NHGMMP-FNATMAPTTQFAVPAYMPSM  443 (685)
Q Consensus       418 ~~gmmp-f~~~~~p~~~~~~p~ymp~~  443 (685)
                      .|.||| ++--..|+-|+-+|+++|+.
T Consensus       563 SP~~~P~~Gs~Ga~~~G~~~~~~vP~~  589 (654)
T COG5180         563 SPQMMPVMGSNGAEEGGGNISPHVPAG  589 (654)
T ss_pred             CCCCCcccCCCCCcccCCcCCCCCCcc
Confidence            455666 33333444444444444443

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

Probab=94.17  E-value=0.032  Score=65.79  Aligned_cols=46  Identities=22%  Similarity=0.368  Sum_probs=38.1

Q ss_pred             ccccccccccccccee---ccCCCCccchhHHHHHhhcCCCCCCCcCCCc
Q 035975          137 ELKCSLCNTLFKEAVM---IPCCQHSFCEKCIRLVLVEKARCPKCFSSKC  183 (685)
Q Consensus       137 eLtCPIClelf~dPVt---LpCCGHSFC~~CI~~~lk~~~sCPvCR~~~~  183 (685)
                      .-.||+|+.-+.+-..   .+| +|.||..||..|.+...+||+||..+.
T Consensus       123 ~~~CP~Ci~s~~DqL~~~~k~c-~H~FC~~Ci~sWsR~aqTCPiDR~EF~  171 (1134)
T KOG0825|consen  123 ENQCPNCLKSCNDQLEESEKHT-AHYFCEECVGSWSRCAQTCPVDRGEFG  171 (1134)
T ss_pred             hhhhhHHHHHHHHHhhcccccc-ccccHHHHhhhhhhhcccCchhhhhhh
Confidence            5679999988876543   356 999999999999998899999998544

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

Probab=93.95  E-value=0.032  Score=60.83  Aligned_cols=46  Identities=26%  Similarity=0.769  Sum_probs=39.2

Q ss_pred             CCcccccccccccccceeccCCCCc-cchhHHHHHhhcCCCCCCCcCC
Q 035975          135 PSELKCSLCNTLFKEAVMIPCCQHS-FCEKCIRLVLVEKARCPKCFSS  181 (685)
Q Consensus       135 eeeLtCPIClelf~dPVtLpCCGHS-FC~~CI~~~lk~~~sCPvCR~~  181 (685)
                      .....|-||+.-.++-+.||| -|. .|..|.....-....||+||..
T Consensus       288 ~~gkeCVIClse~rdt~vLPC-RHLCLCs~Ca~~Lr~q~n~CPICRqp  334 (349)
T KOG4265|consen  288 ESGKECVICLSESRDTVVLPC-RHLCLCSGCAKSLRYQTNNCPICRQP  334 (349)
T ss_pred             cCCCeeEEEecCCcceEEecc-hhhehhHhHHHHHHHhhcCCCccccc
Confidence            336789999999999999998 997 7999998766455689999974

>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]

Probab=93.77  E-value=0.16  Score=60.32  Aligned_cols=18  Identities=33%  Similarity=0.333  Sum_probs=8.2

Q ss_pred             CCcccCCCCCCCCCCCCc
Q 035975           31 DFGVDLCPALNGNLSCSD   48 (685)
Q Consensus        31 D~~~~~~p~~~~~~~~S~   48 (685)
                      |+..-..|++..+.|.|+
T Consensus        50 ~~~sk~~~~H~~~ss~sn   67 (1102)
T KOG1924|consen   50 DFKSKPSPAHLRSSSASN   67 (1102)
T ss_pred             ccccCCCcccCCCccccc
Confidence            444444455444444443

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

Probab=93.60  E-value=0.019  Score=47.86  Aligned_cols=43  Identities=23%  Similarity=0.593  Sum_probs=37.2

Q ss_pred             ccccccccccccceeccCCCCc-cchhHHHHHhhc-CCCCCCCcCC
Q 035975          138 LKCSLCNTLFKEAVMIPCCQHS-FCEKCIRLVLVE-KARCPKCFSS  181 (685)
Q Consensus       138 LtCPIClelf~dPVtLpCCGHS-FC~~CI~~~lk~-~~sCPvCR~~  181 (685)
                      -.|.||.+-..+.|...| ||- .|..|-.+.++. ...||.||.+
T Consensus         8 dECTICye~pvdsVlYtC-GHMCmCy~Cg~rl~~~~~g~CPiCRap   52 (62)
T KOG4172|consen    8 DECTICYEHPVDSVLYTC-GHMCMCYACGLRLKKALHGCCPICRAP   52 (62)
T ss_pred             cceeeeccCcchHHHHHc-chHHhHHHHHHHHHHccCCcCcchhhH
Confidence            569999999999999998 996 799999998885 4589999963

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

Probab=92.99  E-value=0.079  Score=55.51  Aligned_cols=64  Identities=30%  Similarity=0.642  Sum_probs=50.3

Q ss_pred             cccccccccccc------cceeccCCCCccchhHHHHHhhcC-CCCCCCcCCC----ccccCCCccHHHHHHHHHH
Q 035975          137 ELKCSLCNTLFK------EAVMIPCCQHSFCEKCIRLVLVEK-ARCPKCFSSK----CRLEDLLPNVSLRQAIEHF  201 (685)
Q Consensus       137 eLtCPIClelf~------dPVtLpCCGHSFC~~CI~~~lk~~-~sCPvCR~~~----~~~~~L~pN~~L~nLVe~~  201 (685)
                      .+.|-||.+.|.      -|..+.| ||+||..|+...+... ..||.||...    .....+..|+.+..++...
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l~c-~h~~c~~c~~~l~~~~~i~cpfcR~~~~~~~~~~~~l~kNf~ll~~~~~~   77 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVLKC-GHTICQNCASKLLGNSRILCPFCRETTEIPDGDVKSLQKNFALLQAIEHM   77 (296)
T ss_pred             CCceeecCccccccCcccCCccccc-CceehHhHHHHHhcCceeeccCCCCcccCCchhHhhhhhhHHHHHHHHHH
Confidence            467889988774      5888887 9999999999888765 3799999742    1256788888888888776

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

Probab=92.72  E-value=0.047  Score=63.31  Aligned_cols=57  Identities=32%  Similarity=0.681  Sum_probs=40.3

Q ss_pred             CCCcccccccccccc----cceeccCCCCccchhHHHHHhhcCCCCCCCcCC----CccccCCCccHHH
Q 035975          134 FPSELKCSLCNTLFK----EAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSS----KCRLEDLLPNVSL  194 (685)
Q Consensus       134 LeeeLtCPIClelf~----dPVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~----~~~~~~L~pN~~L  194 (685)
                      +.+.|.|+||+.+|.    .||++-| ||+.|..|++....  ..|| |...    +...+.+..|+.|
T Consensus         8 w~~~l~c~ic~n~f~~~~~~Pvsl~c-ghtic~~c~~~lyn--~scp-~~~De~~~~~~~~e~p~n~al   72 (861)
T KOG3161|consen    8 WVLLLLCDICLNLFVVQRLEPVSLQC-GHTICGHCVQLLYN--ASCP-TKRDEDSSLMQLKEEPRNYAL   72 (861)
T ss_pred             hHHHhhchHHHHHHHHHhcCcccccc-cchHHHHHHHhHhh--ccCC-CCccccchhcChhhcchhHHH
Confidence            556789999988874    7999998 99999999987764  4566 4331    1234455555544

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

Probab=92.49  E-value=0.076  Score=51.24  Aligned_cols=46  Identities=26%  Similarity=0.647  Sum_probs=40.5

Q ss_pred             Ccccccccccccccceecc---CCCCccchhHHHHHhhcC---CCCCCCcCC
Q 035975          136 SELKCSLCNTLFKEAVMIP---CCQHSFCEKCIRLVLVEK---ARCPKCFSS  181 (685)
Q Consensus       136 eeLtCPIClelf~dPVtLp---CCGHSFC~~CI~~~lk~~---~sCPvCR~~  181 (685)
                      ....|-||.+...+...|.   |||-+.|..|--..|+..   ..||+|+++
T Consensus        79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTS  130 (140)
T PF05290_consen   79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTS  130 (140)
T ss_pred             CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccc
Confidence            4678999999999998884   999999999999999864   589999974

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

Probab=92.48  E-value=0.11  Score=46.65  Aligned_cols=46  Identities=26%  Similarity=0.679  Sum_probs=33.0

Q ss_pred             Ccccccccccccc-----------c-ceeccCCCCccchhHHHHHhhcC---CCCCCCcCC
Q 035975          136 SELKCSLCNTLFK-----------E-AVMIPCCQHSFCEKCIRLVLVEK---ARCPKCFSS  181 (685)
Q Consensus       136 eeLtCPIClelf~-----------d-PVtLpCCGHSFC~~CI~~~lk~~---~sCPvCR~~  181 (685)
                      .+-.|.||...|.           + |+.+.-|+|.|=..||.+|+...   ..||.||+.
T Consensus        20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~   80 (85)
T PF12861_consen   20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQP   80 (85)
T ss_pred             CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCe
Confidence            3555666666553           2 44443359999999999999863   589999974

>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]

Probab=92.21  E-value=0.45  Score=56.77  Aligned_cols=10  Identities=40%  Similarity=0.491  Sum_probs=5.2

Q ss_pred             CCccCCCCCC
Q 035975          440 MPSMFGGIPA  449 (685)
Q Consensus       440 mp~~~~g~~~  449 (685)
                      +|+||.|.|.
T Consensus       587 pp~g~~Gg~p  596 (1102)
T KOG1924|consen  587 PPGGFLGGPP  596 (1102)
T ss_pred             CCCCCCCCCC
Confidence            6666644333

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

Probab=91.98  E-value=0.1  Score=58.13  Aligned_cols=57  Identities=32%  Similarity=0.679  Sum_probs=42.8

Q ss_pred             cccccccccccccc-----eeccCCCCccchhHHHHHhhcC--CCCCCCcCCCccccCCCccHHHH
Q 035975          137 ELKCSLCNTLFKEA-----VMIPCCQHSFCEKCIRLVLVEK--ARCPKCFSSKCRLEDLLPNVSLR  195 (685)
Q Consensus       137 eLtCPIClelf~dP-----VtLpCCGHSFC~~CI~~~lk~~--~sCPvCR~~~~~~~~L~pN~~L~  195 (685)
                      ..+||||++-+.-|     +++.| ||.|-..||+.|+-..  ..||.|.. ......+++-+.++
T Consensus         4 g~tcpiclds~~~~g~hr~vsl~c-ghlFgs~cie~wl~k~~~~~cp~c~~-katkr~i~~e~alR   67 (463)
T KOG1645|consen    4 GTTCPICLDSYTTAGNHRIVSLQC-GHLFGSQCIEKWLGKKTKMQCPLCSG-KATKRQIRPEYALR   67 (463)
T ss_pred             cccCceeeeeeeecCceEEeeecc-cccccHHHHHHHHhhhhhhhCcccCC-hhHHHHHHHHHHHH
Confidence            56899999998876     45677 9999999999999532  47999985 34455566555544

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

Probab=91.77  E-value=0.066  Score=59.35  Aligned_cols=44  Identities=25%  Similarity=0.600  Sum_probs=36.7

Q ss_pred             ccccccccccccceeccCCCCccchhHHHHHhhc--CCCCCCCcCCC
Q 035975          138 LKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVE--KARCPKCFSSK  182 (685)
Q Consensus       138 LtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~--~~sCPvCR~~~  182 (685)
                      -.|.||-+-=++=.+-|| ||..|..|+..|...  ...||.||..+
T Consensus       370 eLCKICaendKdvkIEPC-GHLlCt~CLa~WQ~sd~gq~CPFCRcEI  415 (563)
T KOG1785|consen  370 ELCKICAENDKDVKIEPC-GHLLCTSCLAAWQDSDEGQTCPFCRCEI  415 (563)
T ss_pred             HHHHHhhccCCCcccccc-cchHHHHHHHhhcccCCCCCCCceeeEe
Confidence            369999998888777787 999999999999754  36899999743

>PF04641 Rtf2: Rtf2 RING-finger

Probab=91.31  E-value=0.14  Score=53.51  Aligned_cols=53  Identities=21%  Similarity=0.472  Sum_probs=39.2

Q ss_pred             CCCccccccccccccc---ceec-cCCCCccchhHHHHHhhcCCCCCCCcCCCccccCC
Q 035975          134 FPSELKCSLCNTLFKE---AVMI-PCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDL  188 (685)
Q Consensus       134 LeeeLtCPIClelf~d---PVtL-pCCGHSFC~~CI~~~lk~~~sCPvCR~~~~~~~~L  188 (685)
                      -...+.|||+...|..   -|.+ +| ||.|+..+|.+.- ....||+|...+...+.+
T Consensus       110 ~~~~~~CPvt~~~~~~~~~fv~l~~c-G~V~s~~alke~k-~~~~Cp~c~~~f~~~DiI  166 (260)
T PF04641_consen  110 SEGRFICPVTGKEFNGKHKFVYLRPC-GCVFSEKALKELK-KSKKCPVCGKPFTEEDII  166 (260)
T ss_pred             CCceeECCCCCcccCCceeEEEEcCC-CCEeeHHHHHhhc-ccccccccCCccccCCEE
Confidence            4567999999998853   2333 66 9999999999874 345799999865544333

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.19  E-value=0.14  Score=53.83  Aligned_cols=45  Identities=11%  Similarity=0.305  Sum_probs=38.8

Q ss_pred             Ccccccccccccccce----eccCCCCccchhHHHHHhhcCCCCCCCcCC
Q 035975          136 SELKCSLCNTLFKEAV----MIPCCQHSFCEKCIRLVLVEKARCPKCFSS  181 (685)
Q Consensus       136 eeLtCPIClelf~dPV----tLpCCGHSFC~~CI~~~lk~~~sCPvCR~~  181 (685)
                      ..+.||||.+.|.+.+    .-+| ||.||..|++.++.....||+|...
T Consensus       220 ~ryiCpvtrd~LtNt~~ca~Lr~s-g~Vv~~ecvEklir~D~v~pv~d~p  268 (303)
T KOG3039|consen  220 KRYICPVTRDTLTNTTPCAVLRPS-GHVVTKECVEKLIRKDMVDPVTDKP  268 (303)
T ss_pred             cceecccchhhhcCccceEEeccC-CcEeeHHHHHHhccccccccCCCCc
Confidence            4689999999998864    3366 9999999999999888999999864

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

Probab=90.93  E-value=0.071  Score=57.16  Aligned_cols=40  Identities=28%  Similarity=0.744  Sum_probs=33.8

Q ss_pred             cccccccccccccceeccCCCCc-cchhHHHHHhhcCCCCCCCcCC
Q 035975          137 ELKCSLCNTLFKEAVMIPCCQHS-FCEKCIRLVLVEKARCPKCFSS  181 (685)
Q Consensus       137 eLtCPIClelf~dPVtLpCCGHS-FC~~CI~~~lk~~~sCPvCR~~  181 (685)
                      ...|.||++...+-+.|+| ||. -|..|-.+.    ..||+||+.
T Consensus       300 ~~LC~ICmDaP~DCvfLeC-GHmVtCt~CGkrm----~eCPICRqy  340 (350)
T KOG4275|consen  300 RRLCAICMDAPRDCVFLEC-GHMVTCTKCGKRM----NECPICRQY  340 (350)
T ss_pred             HHHHHHHhcCCcceEEeec-CcEEeehhhcccc----ccCchHHHH
Confidence            6789999999999999998 996 488886543    279999973

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

Probab=90.77  E-value=0.1  Score=61.51  Aligned_cols=41  Identities=27%  Similarity=0.808  Sum_probs=36.7

Q ss_pred             ccccccccccccceeccCCCCccchhHHHHHhhcC--CCCCCCcC
Q 035975          138 LKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEK--ARCPKCFS  180 (685)
Q Consensus       138 LtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~--~sCPvCR~  180 (685)
                      ..|.||.+ ...++.+.| +|.||..|+...+...  ..||.|+.
T Consensus       455 ~~c~ic~~-~~~~~it~c-~h~~c~~c~~~~i~~~~~~~~~~cr~  497 (674)
T KOG1001|consen  455 HWCHICCD-LDSFFITRC-GHDFCVECLKKSIQQSENAPCPLCRN  497 (674)
T ss_pred             cccccccc-cccceeecc-cchHHHHHHHhccccccCCCCcHHHH
Confidence            89999999 889999998 9999999999988754  36999996

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

Probab=90.69  E-value=0.13  Score=56.01  Aligned_cols=45  Identities=20%  Similarity=0.409  Sum_probs=39.3

Q ss_pred             CcccccccccccccceeccCCCCccchhHHHHHhhcCCCCCCCcC
Q 035975          136 SELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFS  180 (685)
Q Consensus       136 eeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~  180 (685)
                      +.-.||||+.-..+|..+.--|-.||..||..++.+...||+-..
T Consensus       299 ~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~  343 (357)
T KOG0826|consen  299 DREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGY  343 (357)
T ss_pred             ccccChhHHhccCCCceEEecceEEeHHHHHHHHHhcCCCCccCC
Confidence            456799999999999877655999999999999998889998765

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

Probab=90.04  E-value=0.17  Score=55.54  Aligned_cols=47  Identities=30%  Similarity=0.651  Sum_probs=36.5

Q ss_pred             cCCCCCcccccccccccccceeccCCCCccchhHHHHHhhcCCCCCCCcCC
Q 035975          131 NGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSS  181 (685)
Q Consensus       131 ~e~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~  181 (685)
                      ..++.....|-||++-..+.+.++| ||.-|  |+.-.. ....||+||..
T Consensus       299 ~~~~~~p~lcVVcl~e~~~~~fvpc-Gh~cc--ct~cs~-~l~~CPvCR~r  345 (355)
T KOG1571|consen  299 FRELPQPDLCVVCLDEPKSAVFVPC-GHVCC--CTLCSK-HLPQCPVCRQR  345 (355)
T ss_pred             ccccCCCCceEEecCCccceeeecC-CcEEE--chHHHh-hCCCCchhHHH
Confidence            3456667889999999999999998 99866  765332 23469999963

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

Probab=89.12  E-value=0.33  Score=39.41  Aligned_cols=42  Identities=31%  Similarity=0.899  Sum_probs=20.6

Q ss_pred             ccccccccc--cceeccC-CCCccchhHHHHHhhc-CCCCCCCcCC
Q 035975          140 CSLCNTLFK--EAVMIPC-CQHSFCEKCIRLVLVE-KARCPKCFSS  181 (685)
Q Consensus       140 CPIClelf~--dPVtLpC-CGHSFC~~CI~~~lk~-~~sCPvCR~~  181 (685)
                      ||+|.+.+.  +--.+|| ||.-+|+.|..+.+.. ...||.||+.
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~   46 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREP   46 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCC
Confidence            788888772  2233443 4889999999998864 5789999963

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

Probab=88.44  E-value=0.32  Score=54.36  Aligned_cols=108  Identities=13%  Similarity=0.309  Sum_probs=63.2

Q ss_pred             CCCccccccccccccc---ceeccCCCCccchhHHHHHhhcC--------CCCCCCcCCCccccCCCccHHHHHHHH---
Q 035975          134 FPSELKCSLCNTLFKE---AVMIPCCQHSFCEKCIRLVLVEK--------ARCPKCFSSKCRLEDLLPNVSLRQAIE---  199 (685)
Q Consensus       134 LeeeLtCPIClelf~d---PVtLpCCGHSFC~~CI~~~lk~~--------~sCPvCR~~~~~~~~L~pN~~L~nLVe---  199 (685)
                      +...+.|.||++...-   =+.+|| +|.||+.|+..++...        ..||.|.-.     ...+--.|.++|.   
T Consensus       181 ~~slf~C~ICf~e~~G~~c~~~lpC-~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~-----~~a~~g~vKelvg~EL  254 (445)
T KOG1814|consen  181 VNSLFDCCICFEEQMGQHCFKFLPC-SHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCG-----SVAPPGQVKELVGDEL  254 (445)
T ss_pred             HhhcccceeeehhhcCcceeeeccc-chHHHHHHHHHHHHHhhhcceeeeecCCCCCCc-----ccCCchHHHHHHHHHH
Confidence            4557899999998754   356787 9999999999987631        368765431     1122224555543   


Q ss_pred             --HHHh---h-------cccccCccCCCCCC------CCchhhHHHHHhhhhhhhcccccccccCCCC
Q 035975          200 --HFLE---S-------QILISGSENAYHRY------APDGESGIQAKDVSCAVTNLQREPELADSPS  249 (685)
Q Consensus       200 --~~re---d-------q~~iCs~Eh~~H~~------~paee~C~eCk~l~CaL~~Lqe~~qkie~~s  249 (685)
                        +|..   .       ...-|...  .++.      --+-..|..|.-..|.++++.-|--..++..
T Consensus       255 ~arYe~l~lqk~l~~msdv~yCPr~--~Cq~p~~~d~~~~l~~CskCnFaFCtlCk~t~HG~s~Ck~~  320 (445)
T KOG1814|consen  255 FARYEKLMLQKTLELMSDVVYCPRA--CCQLPVKQDPGRALAICSKCNFAFCTLCKLTWHGVSPCKVK  320 (445)
T ss_pred             HHHHHHHHHHHHHHhhcccccCChh--hccCccccCchhhhhhhccCccHHHHHHHHhhcCCCcccCc
Confidence              2211   1       11123111  1111      1223458888888888888888875545443

>smart00343 ZnF_C2HC zinc finger

Probab=88.07  E-value=0.23  Score=34.50  Aligned_cols=17  Identities=53%  Similarity=1.398  Sum_probs=15.7

Q ss_pred             cccccCCCCcccccCCC
Q 035975          364 TCYMCGSPNHLIRDCPA  380 (685)
Q Consensus       364 ~~~~~~~~~~~~~~~~~  380 (685)
                      .||.||...|++++||.
T Consensus         1 ~C~~CG~~GH~~~~C~~   17 (26)
T smart00343        1 KCYNCGKEGHIARDCPK   17 (26)
T ss_pred             CCccCCCCCcchhhCCc
Confidence            49999999999999994

>KOG2893 consensus Zn finger protein [General function prediction only]

Probab=88.01  E-value=1.6  Score=46.14  Aligned_cols=8  Identities=38%  Similarity=0.468  Sum_probs=4.2

Q ss_pred             cchhhhhH
Q 035975          483 VLHHQDCE  490 (685)
Q Consensus       483 ~~~~~~~~  490 (685)
                      -+++|+-|
T Consensus       235 ~~~~~~~q  242 (341)
T KOG2893|consen  235 EHEHQDYQ  242 (341)
T ss_pred             cccccccc
Confidence            34555555

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

Probab=87.87  E-value=0.4  Score=51.73  Aligned_cols=60  Identities=18%  Similarity=0.407  Sum_probs=42.5

Q ss_pred             CCCcccccccccccccceec-cCCCCccchhHHHHHhhcCCCCCCCcCCCccccCCCccHHHHHHHHHH
Q 035975          134 FPSELKCSLCNTLFKEAVMI-PCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQAIEHF  201 (685)
Q Consensus       134 LeeeLtCPIClelf~dPVtL-pCCGHSFC~~CI~~~lk~~~sCPvCR~~~~~~~~L~pN~~L~nLVe~~  201 (685)
                      +.+.|.||||.+.+..|+.- .= ||.-|..|-...   ...||.|+..+.   ++ .++.+..+++..
T Consensus        45 ~~~lleCPvC~~~l~~Pi~QC~n-GHlaCssC~~~~---~~~CP~Cr~~~g---~~-R~~amEkV~e~~  105 (299)
T KOG3002|consen   45 DLDLLDCPVCFNPLSPPIFQCDN-GHLACSSCRTKV---SNKCPTCRLPIG---NI-RCRAMEKVAEAV  105 (299)
T ss_pred             chhhccCchhhccCcccceecCC-CcEehhhhhhhh---cccCCccccccc---cH-HHHHHHHHHHhc
Confidence            45578999999999999854 34 899999998643   468999996432   22 455555555443

>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=87.17  E-value=0.57  Score=46.56  Aligned_cols=20  Identities=25%  Similarity=0.752  Sum_probs=18.4

Q ss_pred             CcccccccccccccceeccC
Q 035975          136 SELKCSLCNTLFKEAVMIPC  155 (685)
Q Consensus       136 eeLtCPIClelf~dPVtLpC  155 (685)
                      ++.+||||++...++|.|.|
T Consensus         1 ed~~CpICme~PHNAVLLlC   20 (162)
T PF07800_consen    1 EDVTCPICMEHPHNAVLLLC   20 (162)
T ss_pred             CCccCceeccCCCceEEEEe
Confidence            47899999999999999987

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.

>KOG0314 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=85.45  E-value=0.47  Score=53.69  Aligned_cols=72  Identities=38%  Similarity=0.809  Sum_probs=52.9

Q ss_pred             cCCCCCccccccc-ccccccceec-cCCCCccchhHHHHHhhcCCCCCCCcCCCccccCCCccHHHHHHHHHHHh
Q 035975          131 NGNFPSELKCSLC-NTLFKEAVMI-PCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQAIEHFLE  203 (685)
Q Consensus       131 ~e~LeeeLtCPIC-lelf~dPVtL-pCCGHSFC~~CI~~~lk~~~sCPvCR~~~~~~~~L~pN~~L~nLVe~~re  203 (685)
                      ...+.+++.|++| .+.|.+...+ .||..+||..||.+.+.. ..|+.|.+.......+.++..+.......+.
T Consensus       213 v~~~~e~~~c~~~~~~~~~~~~l~~~~~~~~~~~~~i~~~l~~-~~~~~c~~~~~~~~~~~~p~~~r~~~n~~~a  286 (448)
T KOG0314|consen  213 VGELPEGLQCPLCGKEVMLDAALLSKCCLKSFCDKCIRDALIS-KSMCVCGASNVLADDLLPPKTLRDTINRILA  286 (448)
T ss_pred             hccCCccccCceecchhhHHHHHhhhhhcccCCcccccccccc-ccCCcchhhcccccccCCchhhHHHHHHHHh
Confidence            3567889999999 8899988887 899999999999887753 4455665534445666677666665555444

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=85.12  E-value=0.51  Score=39.38  Aligned_cols=45  Identities=24%  Similarity=0.649  Sum_probs=35.6

Q ss_pred             CCcccccccccccccceeccCCCCccchhHHHHHhhcCCCCCCCcCCC
Q 035975          135 PSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSK  182 (685)
Q Consensus       135 eeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~~  182 (685)
                      ..+..|-.|...-...++++| ||..|..|..-.  .-..||.|.+.+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~pC-gH~I~~~~f~~~--rYngCPfC~~~~   49 (55)
T PF14447_consen    5 QPEQPCVFCGFVGTKGTVLPC-GHLICDNCFPGE--RYNGCPFCGTPF   49 (55)
T ss_pred             ccceeEEEccccccccccccc-cceeeccccChh--hccCCCCCCCcc
Confidence            446778889888888999998 999999997532  235799999743

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

Probab=84.85  E-value=0.32  Score=50.85  Aligned_cols=61  Identities=26%  Similarity=0.682  Sum_probs=35.7

Q ss_pred             cccccccccc-ccceeccCCCCccchhHHHHHhhcCCCCCCCcCCCccccCCCccHHHHHHHHHHHh
Q 035975          138 LKCSLCNTLF-KEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQAIEHFLE  203 (685)
Q Consensus       138 LtCPIClelf-~dPVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~~~~~~~L~pN~~L~nLVe~~re  203 (685)
                      +.|-.|...- .+|..|.-|+|.||..|......  ..||+|++. .....+..|  |-.-|..|+.
T Consensus         4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~~--~~C~lCkk~-ir~i~l~~s--lp~~ik~~F~   65 (233)
T KOG4739|consen    4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKASSP--DVCPLCKKS-IRIIQLNRS--LPTDIKSYFA   65 (233)
T ss_pred             EEeccccccCCCCceeeeechhhhhhhhcccCCc--cccccccce-eeeeecccc--cchhHHHHcc
Confidence            5577776533 35554443499999999865432  289999974 333333332  4444444443

>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]

Probab=84.56  E-value=5.4  Score=47.98  Aligned_cols=22  Identities=27%  Similarity=0.218  Sum_probs=17.2

Q ss_pred             ccccCCCCCCCCccCCcCCCcc
Q 035975          460 GYTMMGGPRTPVGVNAGRLGRS  481 (685)
Q Consensus       460 ~~~~m~g~~~~~~~~~~~~~~~  481 (685)
                      |.+|||++++|..--.|+++-+
T Consensus       704 ~pg~~~~PPPP~~~~~gpgG~~  725 (894)
T KOG0132|consen  704 GPGGHGIPPPPFFDRGGPGGPP  725 (894)
T ss_pred             CCCCCCCCCCccccCCCCCCCC
Confidence            7889999999887766766644

>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=84.53  E-value=0.79  Score=49.30  Aligned_cols=50  Identities=26%  Similarity=0.698  Sum_probs=35.3

Q ss_pred             ccccccc-ccccce----eccCCCCccchhHHHHHhhcC-CCCCCCcCCCccccCCCc
Q 035975          139 KCSLCNT-LFKEAV----MIPCCQHSFCEKCIRLVLVEK-ARCPKCFSSKCRLEDLLP  190 (685)
Q Consensus       139 tCPICle-lf~dPV----tLpCCGHSFC~~CI~~~lk~~-~sCPvCR~~~~~~~~L~p  190 (685)
                      .||+|.. .+.+|-    +-+| +|+.|..|+...+... ..||.|.. +....+++.
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C-~H~lCEsCvd~iF~~g~~~CpeC~~-iLRk~nfr~   57 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINEC-GHRLCESCVDRIFSLGPAQCPECMV-ILRKNNFRV   57 (300)
T ss_pred             CCcccccceecCccceeeeccc-cchHHHHHHHHHHhcCCCCCCcccc-hhhhcccch
Confidence            4899965 344442    2266 9999999999888755 57999985 555555543

>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]

Probab=84.34  E-value=3.1  Score=46.13  Aligned_cols=26  Identities=12%  Similarity=-0.009  Sum_probs=17.6

Q ss_pred             CCCCCCccCCcCCCccccchhhhhHH
Q 035975          466 GPRTPVGVNAGRLGRSRVLHHQDCEK  491 (685)
Q Consensus       466 g~~~~~~~~~~~~~~~~~~~~~~~~~  491 (685)
                      +..+=|++.--+||..||-++-.+.+
T Consensus       345 ~~~r~~~p~~~plSeAEFEdiM~RNr  370 (498)
T KOG4849|consen  345 LPPRHVNPQMFPLSEAEFEDIMTRNR  370 (498)
T ss_pred             CCcccCCCCCccchHHHHHHHHhhcc
Confidence            33444666666799999988766544

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=83.61  E-value=0.71  Score=48.83  Aligned_cols=38  Identities=18%  Similarity=0.183  Sum_probs=33.8

Q ss_pred             CCCCCcccccccccccccceeccCCCCccchhHHHHHhh
Q 035975          132 GNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLV  170 (685)
Q Consensus       132 e~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk  170 (685)
                      +.+.+.-.|.+|+..+.+||+++- ||.||+.||.+++.
T Consensus        38 DsiK~FdcCsLtLqPc~dPvit~~-GylfdrEaILe~il   75 (303)
T KOG3039|consen   38 DSIKPFDCCSLTLQPCRDPVITPD-GYLFDREAILEYIL   75 (303)
T ss_pred             cccCCcceeeeecccccCCccCCC-CeeeeHHHHHHHHH
Confidence            456777789999999999999999 99999999998764

>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional

Probab=83.61  E-value=0.63  Score=44.42  Aligned_cols=19  Identities=63%  Similarity=1.440  Sum_probs=16.8

Q ss_pred             CccccccCCCCcccccCCC
Q 035975          362 DRTCYMCGSPNHLIRDCPA  380 (685)
Q Consensus       362 ~~~~~~~~~~~~~~~~~~~  380 (685)
                      ..+||.||+.+||++|||.
T Consensus       129 ~~~C~~Cg~~gH~~~dCp~  147 (148)
T PTZ00368        129 DKTCYNCGQTGHLSRDCPD  147 (148)
T ss_pred             CCccccCCCcCcccccCCC
Confidence            5689999999999999985

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

Probab=83.34  E-value=0.41  Score=56.45  Aligned_cols=66  Identities=23%  Similarity=0.478  Sum_probs=47.6

Q ss_pred             CCCcccccccccccccceeccCCCCccchhHHHHHhhcC---CCCCCCcCCCccccCCCccHHHHHHHHHH
Q 035975          134 FPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEK---ARCPKCFSSKCRLEDLLPNVSLRQAIEHF  201 (685)
Q Consensus       134 LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~---~sCPvCR~~~~~~~~L~pN~~L~nLVe~~  201 (685)
                      +...+.|+||...+.+|+.+.| .|.||..|+...+...   ..||+|+. ......++--.....++..+
T Consensus        18 ~~k~lEc~ic~~~~~~p~~~kc-~~~~l~~~~n~~f~~~~~~~~~~lc~~-~~eK~s~~Es~r~sq~vqe~   86 (684)
T KOG4362|consen   18 MQKILECPICLEHVKEPSLLKC-DHIFLKFCLNKLFESKKGPKQCALCKS-DIEKRSLRESPRFSQLSKES   86 (684)
T ss_pred             HhhhccCCceeEEeeccchhhh-hHHHHhhhhhceeeccCccccchhhhh-hhhhhhccccchHHHHHHHh
Confidence            5668999999999999999998 9999999998766543   46999985 33333333333444444433

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

Probab=83.21  E-value=0.54  Score=57.06  Aligned_cols=48  Identities=21%  Similarity=0.648  Sum_probs=35.9

Q ss_pred             CCCcccccccccccc-----cce-eccCCCCccchhHHHHHhhcC--CCCCCCcCC
Q 035975          134 FPSELKCSLCNTLFK-----EAV-MIPCCQHSFCEKCIRLVLVEK--ARCPKCFSS  181 (685)
Q Consensus       134 LeeeLtCPIClelf~-----dPV-tLpCCGHSFC~~CI~~~lk~~--~sCPvCR~~  181 (685)
                      +.-.-.|+||..++.     =|- +.+.|.|.|=.+|+..|++..  ..||+||..
T Consensus      1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRse 1521 (1525)
T COG5219        1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSE 1521 (1525)
T ss_pred             cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccc
Confidence            444567999999886     121 223359999999999999875  589999964

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

Probab=82.90  E-value=0.81  Score=50.96  Aligned_cols=45  Identities=18%  Similarity=0.414  Sum_probs=36.4

Q ss_pred             CCcccccccccccc---cceeccCCCCccchhHHHHHhhcC---CCCCCCcC
Q 035975          135 PSELKCSLCNTLFK---EAVMIPCCQHSFCEKCIRLVLVEK---ARCPKCFS  180 (685)
Q Consensus       135 eeeLtCPIClelf~---dPVtLpCCGHSFC~~CI~~~lk~~---~sCPvCR~  180 (685)
                      ..-|.|||=.+.-.   .|+.+.| ||..|+.-|.+..++.   ++||.|-.
T Consensus       332 HSvF~CPVlKeqtsdeNPPm~L~C-GHVISkdAlnrLS~ng~~sfKCPYCP~  382 (394)
T KOG2817|consen  332 HSVFICPVLKEQTSDENPPMMLIC-GHVISKDALNRLSKNGSQSFKCPYCPV  382 (394)
T ss_pred             cceeecccchhhccCCCCCeeeec-cceecHHHHHHHhhCCCeeeeCCCCCc
Confidence            34589999766554   5899998 9999999999888764   68999975

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

Probab=82.58  E-value=0.71  Score=52.75  Aligned_cols=47  Identities=23%  Similarity=0.593  Sum_probs=36.0

Q ss_pred             CCCcccccccccccc-----------------cceeccCCCCccchhHHHHHhhcC-CCCCCCcCC
Q 035975          134 FPSELKCSLCNTLFK-----------------EAVMIPCCQHSFCEKCIRLVLVEK-ARCPKCFSS  181 (685)
Q Consensus       134 LeeeLtCPIClelf~-----------------dPVtLpCCGHSFC~~CI~~~lk~~-~sCPvCR~~  181 (685)
                      .+...-|+||...+.                 +-+.+|| -|.|=..|+.+|...- ..||+||..
T Consensus       568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC-~HifH~~CL~~WMd~ykl~CPvCR~p  632 (636)
T KOG0828|consen  568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPC-HHIFHRQCLLQWMDTYKLICPVCRCP  632 (636)
T ss_pred             hhccccceEeccccceeeccCcchhhhhhhhccccccch-HHHHHHHHHHHHHhhhcccCCccCCC
Confidence            345567999987542                 2345687 9999999999999854 489999964

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

Probab=80.38  E-value=0.52  Score=50.36  Aligned_cols=47  Identities=28%  Similarity=0.591  Sum_probs=37.3

Q ss_pred             CCcccccccccccccc----------eeccCCCCccchhHHHHHhhcC--CCCCCCcCCC
Q 035975          135 PSELKCSLCNTLFKEA----------VMIPCCQHSFCEKCIRLVLVEK--ARCPKCFSSK  182 (685)
Q Consensus       135 eeeLtCPIClelf~dP----------VtLpCCGHSFC~~CI~~~lk~~--~sCPvCR~~~  182 (685)
                      .++-.|.||..-+..-          ..|.| +|+|=..||..|....  .+||.|++.+
T Consensus       222 l~d~vCaVCg~~~~~s~~eegvienty~LsC-nHvFHEfCIrGWcivGKkqtCPYCKekV  280 (328)
T KOG1734|consen  222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSC-NHVFHEFCIRGWCIVGKKQTCPYCKEKV  280 (328)
T ss_pred             CCcchhHhhcchheeecchhhhhhhheeeec-ccchHHHhhhhheeecCCCCCchHHHHh
Confidence            3467899998876543          47888 9999999999998754  4899999743

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

Probab=80.21  E-value=0.87  Score=50.75  Aligned_cols=42  Identities=24%  Similarity=0.523  Sum_probs=31.0

Q ss_pred             ccccccccccccc---eeccCCCCccchhHHHHHhhcC---CCCCCCc
Q 035975          138 LKCSLCNTLFKEA---VMIPCCQHSFCEKCIRLVLVEK---ARCPKCF  179 (685)
Q Consensus       138 LtCPIClelf~dP---VtLpCCGHSFC~~CI~~~lk~~---~sCPvCR  179 (685)
                      ..|.||.+.+-.-   -.+.-|||+|=..|+++|+...   ..||.|+
T Consensus         5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~   52 (465)
T KOG0827|consen    5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQ   52 (465)
T ss_pred             ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence            4699996665321   2233249999999999999864   3799999

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	685
3ztg_A	92	Solution Structure Of The Ring Finger-Like Domain O		3e-09
2yur_A	74	Solution Structure Of The Ring Finger Of Human Reti		7e-07
2y43_A	99	Rad18 Ubiquitin Ligase Ring Domain Structure Length		2e-05

>pdb|3ZTG|A Chain A, Solution Structure Of The Ring Finger-Like Domain Of Retinoblastoma Binding Protein-6 (Rbbp6) Length = 92

Iteration: 1
 Score = 60.5 bits (145), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 29/74 (39%), Positives = 45/74 (60%), Gaps = 2/74 (2%)
Query: 130 ENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVE--KARCPKCFSSKCRLED 187
           E+   P EL C +C  +  +AV+IPCC +S+C++CIR  L+E  +  CP C  +    + 
Sbjct: 6   EDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDA 65
Query: 188 LLPNVSLRQAIEHF 201
           L+ N  LRQA+ +F
Sbjct: 66  LIANKFLRQAVNNF 79

>pdb|2YUR|A Chain A, Solution Structure Of The Ring Finger Of Human Retinoblastoma-Binding Protein 6 Length = 74

Iteration: 1
 Score = 52.8 bits (125), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 23/57 (40%), Positives = 37/57 (64%), Gaps = 2/57 (3%)
Query: 124 TNASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVE--KARCPKC 178
           ++ S+ E+   P EL C +C  +  +AV+IPCC +S+C++CIR  L+E  +  CP C
Sbjct: 2   SSGSSGEDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTC 58

>pdb|2Y43|A Chain A, Rad18 Ubiquitin Ligase Ring Domain Structure Length = 99

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/41 (43%), Positives = 25/41 (60%)
Query: 138 LKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKC 178
           L+C +C   F  A++IP C H++C  CIR  L  K +CP C
Sbjct: 23  LRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTC 63

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	685
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	5e-23
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	1e-18
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	5e-17
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	6e-15
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	2e-13
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	3e-12
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	5e-12
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	7e-12
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	1e-11
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	2e-11
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	4e-11
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	6e-11
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	1e-10
1z6u_A	150	NP95-like ring finger protein isoform B; structura	2e-10
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	2e-10
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	1e-09
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	1e-09
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	1e-09
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	2e-09
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	4e-09
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	7e-09
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	8e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-05
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	2e-08
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	4e-08
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	5e-08
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	5e-08
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	6e-08
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	8e-08
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	1e-07
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	6e-07
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	1e-06
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	1e-06
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	1e-06
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	2e-06
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	2e-06
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	2e-06
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	4e-06
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	5e-06
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	3e-05
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	4e-05
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	5e-05
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	1e-04
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	6e-04

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

 Score = 92.5 bits (230), Expect = 5e-23
 Identities = 29/81 (35%), Positives = 44/81 (54%), Gaps = 2/81 (2%)

Query: 127 SAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKAR--CPKCFSSKCR 184
              E+   P EL C +C  +  +AV+IPCC +S+C++CIR  L+E     CP C  +   
Sbjct: 3   LGSEDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVS 62

Query: 185 LEDLLPNVSLRQAIEHFLESQ 205
            + L+ N  LRQA+ +F    
Sbjct: 63  PDALIANKFLRQAVNNFKNET 83

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

 Score = 80.2 bits (198), Expect = 1e-18
 Identities = 22/73 (30%), Positives = 34/73 (46%), Gaps = 1/73 (1%)

Query: 133 NFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNV 192
                L+C +C   F  A++IP C H++C  CIR  L  K +CP C        DL  N 
Sbjct: 18  TIDDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTC-CVTVTEPDLKNNR 76

Query: 193 SLRQAIEHFLESQ 205
            L + ++    ++
Sbjct: 77  ILDELVKSLNFAR 89

>2yur_A Retinoblastoma-binding protein 6; P53-associated cellular protein of testis, proliferation potential-related protein, protein P2P-R; NMR {Homo sapiens} Length = 74

 Score = 75.2 bits (185), Expect = 5e-17
 Identities = 25/72 (34%), Positives = 40/72 (55%), Gaps = 2/72 (2%)

Query: 124 TNASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEK--ARCPKCFSS 181
           ++ S+ E+   P EL C +C  +  +AV+IPCC +S+C++CIR  L+E     CP C  +
Sbjct: 2   SSGSSGEDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQN 61

Query: 182 KCRLEDLLPNVS 193
               + L    S
Sbjct: 62  DVSPDALSGPSS 73

>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 = 70.2 bits (172), Expect = 6e-15
 Identities = 20/75 (26%), Positives = 29/75 (38%), Gaps = 3/75 (4%)

Query: 133 NFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKC---FSSKCRLEDLL 189
                L C LC   F +A  I  C HSFC+ CI   L     CP C         L ++ 
Sbjct: 11  ELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLLNIR 70

Query: 190 PNVSLRQAIEHFLES 204
            + +L+  +   +  
Sbjct: 71  SDKTLQDIVYKLVPG 85

>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 = 62.6 bits (152), Expect = 3e-12
 Identities = 18/81 (22%), Positives = 33/81 (40%), Gaps = 2/81 (2%)

Query: 133 NFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVE-KARCPKCFSSKCRLEDLLPN 191
           +     +C +C    ++A + P C    C  CIR  L E +A+CP C +   +L +L+  
Sbjct: 18  SIAEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAP-LQLRELVNC 76

Query: 192 VSLRQAIEHFLESQILISGSE 212
               +  +     Q+      
Sbjct: 77  RWAEEVTQQLDTLQLCSLTKH 97

>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 = 63.8 bits (155), Expect = 5e-12
 Identities = 25/108 (23%), Positives = 35/108 (32%), Gaps = 8/108 (7%)

Query: 98  RIEEDLLQTESKSDVPQFMKLELVIKTNASAMENGNFPSELKCSLCNTLFKEAVMIPCCQ 157
             E  L + +          LE+V+          +  SEL C +C  + K  +    C 
Sbjct: 22  TWELSLYELQRTPQEAITDGLEIVVSPR-------SLHSELMCPICLDMLKNTMTTKECL 74

Query: 158 HSFCEKCIRLVL-VEKARCPKCFSSKCRLEDLLPNVSLRQAIEHFLES 204
           H FC  CI   L      CP C         L P+ +    I     S
Sbjct: 75  HRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFDALISKIYPS 122

>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 = 60.4 bits (147), Expect = 7e-12
 Identities = 24/81 (29%), Positives = 33/81 (40%), Gaps = 9/81 (11%)

Query: 126 ASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVE-------KARCPKC 178
            S+  +GN   E+ C +C  L  E + +  C HS C  CI +   E       K+ CP C
Sbjct: 1   GSSGSSGNVQEEVTCPICLELLTEPLSLD-CGHSLCRACITVSNKEAVTSMGGKSSCPVC 59

Query: 179 FSSKCRLEDLLPNVSLRQAIE 199
                  E L  N  L   +E
Sbjct: 60  -GISYSFEHLQANQHLANIVE 79

>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 = 61.5 bits (149), Expect = 1e-11
 Identities = 19/105 (18%), Positives = 34/105 (32%), Gaps = 3/105 (2%)

Query: 99  IEEDLLQTESKSDVPQFMKLELVIKTNASAMENGNFPSELKCSLCNTLFKEAVMIPCCQH 158
           I ED    +  ++V   +K      +      +       +C  C  L    +    CQH
Sbjct: 15  IREDKSNAKLWNEVLASLKDRPASGSPFQLFLS-KVEETFQCICCQELVFRPITTV-CQH 72

Query: 159 SFCEKCIRLVLVEKA-RCPKCFSSKCRLEDLLPNVSLRQAIEHFL 202
           + C+ C+      +   CP C     R   +  N  L+  +    
Sbjct: 73  NVCKDCLDRSFRAQVFSCPACRYDLGRSYAMQVNQPLQTVLNQLF 117

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

 Score = 59.0 bits (143), Expect = 2e-11
 Identities = 17/55 (30%), Positives = 25/55 (45%)

Query: 124 TNASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKC 178
           ++ S+         + CS+C     +A  I  C H+FC+ CI        RCPKC
Sbjct: 2   SSGSSGNLSELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYSNRCPKC 56

>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 = 59.5 bits (144), Expect = 4e-11
 Identities = 23/105 (21%), Positives = 41/105 (39%), Gaps = 8/105 (7%)

Query: 126 ASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKAR-CPKC------ 178
           A   +     SE +C +C  +  E V +P C H+ C+ C +  + + +  CP C      
Sbjct: 4   ALPKDAIPSLSECQCGICMEILVEPVTLP-CNHTLCKPCFQSTVEKASLCCPFCRRRVSS 62

Query: 179 FSSKCRLEDLLPNVSLRQAIEHFLESQILISGSENAYHRYAPDGE 223
           ++      + L NV L   I+     +  +  S       A D +
Sbjct: 63  WTRYHTRRNSLVNVELWTIIQKHYPRECKLRASGQESEEVADDYQ 107

>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 = 59.0 bits (143), Expect = 6e-11
 Identities = 21/74 (28%), Positives = 33/74 (44%), Gaps = 5/74 (6%)

Query: 133 NFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEK---ARCPKCFSSKCRLEDLL 189
                L+C +C  L KE V   C  H FC+ C+  +L +K   ++CP C  +      L 
Sbjct: 17  AMQKILECPICLELIKEPVSTKCD-HIFCKFCMLKLLNQKKGPSQCPLC-KNDITKRSLQ 74

Query: 190 PNVSLRQAIEHFLE 203
            +    Q +E  L+
Sbjct: 75  ESTRFSQLVEELLK 88

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

 Score = 59.7 bits (144), Expect = 1e-10
 Identities = 26/106 (24%), Positives = 46/106 (43%), Gaps = 7/106 (6%)

Query: 99  IEEDLLQTESKSDVPQFMKLELVIKTNASAMENGNFPSELKCSLCNTLFKEAVMIPCCQH 158
           I+    + E   +  + M+ +   K    +  N    +EL+C +C+  F EAV + C  H
Sbjct: 29  IQAKNKELEQTKEEKEKMQAQ---KEEVLSHMNDVLENELQCIICSEYFIEAVTLNCA-H 84

Query: 159 SFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQAIEHFLES 204
           SFC  CI   +  K  CP C   +  ++    ++ L   I   + +
Sbjct: 85  SFCSYCINEWMKRKIECPIC---RKDIKSKTYSLVLDNCINKMVNN 127

>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 = 58.5 bits (141), Expect = 2e-10
 Identities = 24/145 (16%), Positives = 52/145 (35%), Gaps = 13/145 (8%)

Query: 67  TTRTSEPHNTGCQKLEASNVNEAIRR----GAVHSRIEEDLLQTESKSDVPQFMKLELVI 122
           ++     H++G     + + ++  +      A+ +       Q   + D       + V+
Sbjct: 3   SSHHHHHHSSGLVPRGSPSASKVYKASDSAEAIEAFQLTPQQQHLIREDCQNQKLWDEVL 62

Query: 123 KTNASAMENGNFPS----ELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVL-VEKARCPK 177
              +  +E  NF         C  C  L  + V    C H+ C+ C++     +   CP 
Sbjct: 63  ---SHLVEGPNFLKKLEQSFMCVCCQELVYQPVTTE-CFHNVCKDCLQRSFKAQVFSCPA 118

Query: 178 CFSSKCRLEDLLPNVSLRQAIEHFL 202
           C     +   ++PN  L+  ++ F 
Sbjct: 119 CRHDLGQNYIMIPNEILQTLLDLFF 143

>2ecv_A Tripartite motif-containing protein 5; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 85

 Score = 56.5 bits (137), Expect = 2e-10
 Identities = 21/83 (25%), Positives = 36/83 (43%), Gaps = 11/83 (13%)

Query: 126 ASAMENG---NFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKA------RCP 176
           +S M +G   N   E+ C +C  L  + + +  C HSFC+ C+     +         CP
Sbjct: 5   SSGMASGILVNVKEEVTCPICLELLTQPLSLD-CGHSFCQACLTANHKKSMLDKGESSCP 63

Query: 177 KCFSSKCRLEDLLPNVSLRQAIE 199
            C     + E++ PN  +   +E
Sbjct: 64  VC-RISYQPENIRPNRHVANIVE 85

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

 Score = 54.1 bits (130), Expect = 1e-09
 Identities = 13/55 (23%), Positives = 24/55 (43%), Gaps = 1/55 (1%)

Query: 124 TNASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKC 178
           ++ S+       +  +C++C       V +PC +H FC  C++       RC  C
Sbjct: 2   SSGSSGNTAPSLTVPECAICLQTCVHPVSLPC-KHVFCYLCVKGASWLGKRCALC 55

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

 Score = 53.9 bits (130), Expect = 1e-09
 Identities = 17/56 (30%), Positives = 25/56 (44%), Gaps = 4/56 (7%)

Query: 126 ASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEK---ARCPKC 178
           AS         E+ C +C  + ++ V I  C H+FC KCI  +        +CP C
Sbjct: 9   ASGQFVNKLQEEVICPICLDILQKPVTID-CGHNFCLKCITQIGETSCGFFKCPLC 63

>2ysj_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 63

 Score = 53.5 bits (129), Expect = 1e-09
 Identities = 17/56 (30%), Positives = 25/56 (44%), Gaps = 4/56 (7%)

Query: 126 ASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEK---ARCPKC 178
           AS         E+ C +C  + ++ V I  C H+FC KCI  +        +CP C
Sbjct: 9   ASGQFVNKLQEEVICPICLDILQKPVTID-CGHNFCLKCITQIGETSCGFFKCPLC 63

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

 Score = 53.5 bits (129), Expect = 2e-09
 Identities = 22/73 (30%), Positives = 28/73 (38%), Gaps = 8/73 (10%)

Query: 133 NFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEK------ARCPKCFSSKCRLE 186
               E+ C +C  L KE V    C HSFC  CI L             CP C        
Sbjct: 15  MIKEEVTCPICLELLKEPVSAD-CNHSFCRACITLNYESNRNTDGKGNCPVC-RVPYPFG 72

Query: 187 DLLPNVSLRQAIE 199
           +L PN+ +   +E
Sbjct: 73  NLKPNLHVANIVE 85

>2ecj_A Tripartite motif-containing protein 39; TRIM39, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 58

 Score = 52.3 bits (126), Expect = 4e-09
 Identities = 19/58 (32%), Positives = 27/58 (46%), Gaps = 4/58 (6%)

Query: 124 TNASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEK---ARCPKC 178
           ++ S+    N   E  CS+C    KE V+I  C H+FC+ CI     +      CP C
Sbjct: 2   SSGSSGALENLQVEASCSVCLEYLKEPVIIE-CGHNFCKACITRWWEDLERDFPCPVC 58

>3m62_A Ubiquitin conjugation factor E4; armadillo-like repeats, UBL conjugation pathway, DNA damage, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae} PDB: 3m63_A* 2qiz_A 2qj0_A Length = 968

 Score = 58.2 bits (140), Expect = 7e-09
 Identities = 25/113 (22%), Positives = 44/113 (38%), Gaps = 6/113 (5%)

Query: 98  RIEEDLLQTESKSDVPQFMKLELVIKTNASA-----MENGNFPSELKCSLCNTLFKEAVM 152
            I        S   + + +      +    A     +E G+ P E    L  T+ K+ V+
Sbjct: 847 DILGRKTGLASPEFIEKLLNFANKAEEQRKADEEEDLEYGDVPDEFLDPLMYTIMKDPVI 906

Query: 153 IPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQAIEHFLESQ 205
           +P  + +     I+  L+  +  P       +LED+ PN  LRQ I  F + +
Sbjct: 907 LPASKMNIDRSTIKAHLLSDSTDPFN-RMPLKLEDVTPNEELRQKILCFKKQK 958

>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 = 52.9 bits (127), Expect = 8e-09
 Identities = 18/69 (26%), Positives = 30/69 (43%), Gaps = 3/69 (4%)

Query: 132 GNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEK-ARCPKCFSSKCRLEDLLP 190
               S+ +C +C    +EAV  P C H FC+ CI   + +   +CP   +       L P
Sbjct: 13  PPLESKYECPICLMALREAVQTP-CGHRFCKACIIKSIRDAGHKCPVD-NEILLENQLFP 70

Query: 191 NVSLRQAIE 199
           +   ++ I 
Sbjct: 71  DNFAKREIL 79

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 57.2 bits (137), Expect = 2e-08
 Identities = 68/468 (14%), Positives = 124/468 (26%), Gaps = 162/468 (34%)

Query: 13  KTNEVKPSQPKIEEINFDDFGVDLCPALNGNLSCSDVDDVDKNICVGSERENIDTTRTSE 72
           +T E +     I  +  D F  +          C DV D+ K+I    E ++I       
Sbjct: 10  ETGEHQYQYKDILSVFEDAFVDNF--------DCKDVQDMPKSILSKEEIDHI----IMS 57

Query: 73  PHNT-------GCQKLEASN-----VNEAIRR--GAVHSRIEEDLLQTESK--------- 109
                           +        V E +R     + S I+ +  Q             
Sbjct: 58  KDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRD 117

Query: 110 ---SDVPQFMKL-----ELVIKTNASAME---------NG-------------------- 132
              +D   F K      +  +K   + +E         +G                    
Sbjct: 118 RLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQ 177

Query: 133 -NFPSE---LKCSLCNTLFKEAVMIP----CCQ--HSFCEKC-----IRLVLVE-KARCP 176
                +   L    CN+   E V+        Q   ++  +      I+L +   +A   
Sbjct: 178 CKMDFKIFWLNLKNCNS--PETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELR 235

Query: 177 KCFSSKCRLEDL--LPNVSLRQAIEHF-LESQILIS----------GSENAYHRYAPDGE 223
           +   SK     L  L NV   +A   F L  +IL++           +    H       
Sbjct: 236 RLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHS 295

Query: 224 SG--------IQAKDVSCAVTNLQREPELAD--SPSATGRGSNQIVADC-DSVIRNNTGS 272
                     +  K + C   +L   P      +P         I     D +   +   
Sbjct: 296 MTLTPDEVKSLLLKYLDCRPQDL---PREVLTTNPRRLS----IIAESIRDGLATWDN-- 346

Query: 273 CVNHLGAD---NSLKSCTLPYKVKQIDAEVHGSAQPVDFKRRPVDLDEFAECHGESQPIH 329
              H+  D     ++S      +  ++        P ++++    L  F      S  I 
Sbjct: 347 -WKHVNCDKLTTIIESS-----LNVLE--------PAEYRKMFDRLSVFP----PSAHI- 387

Query: 330 VEAEFSNKRKRGLWVDTSGAD----------KSFIESGRNRKDRTCYM 367
                       +W D   +D           S +E  +  K+ T  +
Sbjct: 388 -----PTILLSLIWFDVIKSDVMVVVNKLHKYSLVE--KQPKESTISI 428

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 45.2 bits (106), Expect = 8e-05
 Identities = 82/599 (13%), Positives = 161/599 (26%), Gaps = 150/599 (25%)

Query: 157 QHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQAIEHFLESQ----------- 205
           +H +  K I  V  +       F  K  ++D+  ++  ++ I+H + S+           
Sbjct: 13  EHQYQYKDILSVFEDAFV--DNFDCK-DVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFW 69

Query: 206 ILISGSENAYHRYAPDGESGIQAKDVSCAVTNLQREPELADSPSATGRGSNQIVADCDSV 265
            L+S  E    ++  +        +    ++ ++ E      PS                
Sbjct: 70  TLLSKQEEMVQKFVEEVL----RINYKFLMSPIKTEQR---QPSM--------------- 107

Query: 266 IRNNTGSCVNHLGADNSLKSCTLPYKVKQIDAEVHGSAQPVDFKRRP---VDLDEFAECH 322
           +        + L  DN + +    Y V ++  + +   +    + RP   V +D      
Sbjct: 108 MTRMYIEQRDRLYNDNQVFA---KYNVSRL--QPYLKLRQALLELRPAKNVLIDGVLGS- 161

Query: 323 GES-------QPIHVEAEFSNKRKRGLWVDTSGADKSFIESGRNRKDRTCYMCGSPNHLI 375
           G++           V+ +   K     W+       S  E+      +  Y    PN   
Sbjct: 162 GKTWVALDVCLSYKVQCKMDFK---IFWL-NLKNCNS-PETVLEMLQKLLYQI-DPNWTS 215

Query: 376 RDCPAALSPNPMLQQGALRGHAPPFWNGPSLAHVRPI-ANIYGNHGMMPFNA---TMAPT 431
           R   +  S N  L+  +++             +   +  N+        FN     +  T
Sbjct: 216 R---SDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTT 272

Query: 432 -----TQFAVPAYMPSMFGGIPAYGFDME------ASCSGYTMMGGPRTPVGVN------ 474
                T F   A    +     +     +                 PR  +  N      
Sbjct: 273 RFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSI 332

Query: 475 AGRLGRSRVLH-----HQDCEKKQKLSNINMSEQSYDDDE-----------DENVNI--- 515
                R  +       H +C+K   +  I  S    +  E             + +I   
Sbjct: 333 IAESIRDGLATWDNWKHVNCDKLTTI--IESSLNVLEPAEYRKMFDRLSVFPPSAHIPTI 390

Query: 516 -------KHRYDEAERLHDKKSHFSKER--ERRPCYQLSEVEDMPSSSSWHGDERHKKHS 566
                       +   + +K     K    E++P      +  +        +  +  H 
Sbjct: 391 LLSLIWFDVIKSDVMVVVNK---LHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHR 447

Query: 567 RQSKKHNEREQFHS--------DSSW----SRHAVKEKDGERKKLKSDV---------K- 604
                +N  + F S        D  +      H    +  ER  L   V         K 
Sbjct: 448 SIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKI 507

Query: 605 RHSHKPDSCSESGLE-----PSYS-----SDRKKKQKEKDLSH---GSRHSRHKSKSMD 650
           RH     + S S L        Y      +D K ++    +         +   SK  D
Sbjct: 508 RHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTD 566

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

 Score = 50.6 bits (121), Expect = 2e-08
 Identities = 13/41 (31%), Positives = 18/41 (43%), Gaps = 1/41 (2%)

Query: 138 LKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKC 178
            +C +C   F+  V+  C +H FCE C         RC  C
Sbjct: 16  FRCFICRQAFQNPVVTKC-RHYFCESCALEHFRATPRCYIC 55

>2yu4_A E3 SUMO-protein ligase NSE2; SP-ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 94

 Score = 50.3 bits (120), Expect = 4e-08
 Identities = 21/79 (26%), Positives = 37/79 (46%), Gaps = 8/79 (10%)

Query: 135 PSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVL------VEKARCPK--CFSSKCRLE 186
            S   C +     K+ V    C H++ E  I  ++       +KA CP+  C  +  R  
Sbjct: 5   SSGFTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKS 64

Query: 187 DLLPNVSLRQAIEHFLESQ 205
           DL+ + +LR+AIE+  + +
Sbjct: 65  DLIQDEALRRAIENHNKKR 83

>2kr4_A Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ring, E3 ligase, UBL conjugation pathway; NMR {Mus musculus} Length = 85

 Score = 50.0 bits (120), Expect = 5e-08
 Identities = 14/80 (17%), Positives = 30/80 (37%), Gaps = 2/80 (2%)

Query: 126 ASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRL 185
           ++ ++  + P E +  L +TL  + V +P          I   L+     P         
Sbjct: 3   SAEIDYSDAPDEFRDPLMDTLMTDPVRLPS-GTVMDRSIILRHLLNSPTDPFN-RQMLTE 60

Query: 186 EDLLPNVSLRQAIEHFLESQ 205
             L P   L++ I+ ++  +
Sbjct: 61  SMLEPVPELKEQIQAWMREK 80

>2kre_A Ubiquitin conjugation factor E4 B; U-box domain, E3 ubiquitin ligase, E4 polyubiquitin chain EL factor, phosphoprotein, UBL conjugation pathway; NMR {Homo sapiens} PDB: 3l1x_A 3l1z_B Length = 100

 Score = 50.1 bits (120), Expect = 5e-08
 Identities = 17/87 (19%), Positives = 33/87 (37%), Gaps = 2/87 (2%)

Query: 119 ELVIKTNASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKC 178
           E+V K   + ++  + P E +  L +TL  + V +P          I   L+     P  
Sbjct: 11  EIVAKNARAEIDYSDAPDEFRDPLMDTLMTDPVRLPS-GTIMDRSIILRHLLNSPTDPFN 69

Query: 179 FSSKCRLEDLLPNVSLRQAIEHFLESQ 205
                    L P   L++ I+ ++  +
Sbjct: 70  -RQTLTESMLEPVPELKEQIQAWMREK 95

>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 Length = 98

 Score = 49.8 bits (119), Expect = 6e-08
 Identities = 14/77 (18%), Positives = 31/77 (40%), Gaps = 1/77 (1%)

Query: 129 MENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDL 188
               +   E    + +TL  + V++P  + +     I   L+     P    S   ++ +
Sbjct: 14  ETYADACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSDQTDPFN-RSPLTMDQI 72

Query: 189 LPNVSLRQAIEHFLESQ 205
            PN  L++ I+ +L  +
Sbjct: 73  RPNTELKEKIQRWLAER 89

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

 Score = 49.3 bits (118), Expect = 8e-08
 Identities = 21/85 (24%), Positives = 36/85 (42%), Gaps = 11/85 (12%)

Query: 126 ASAMENGN---FPSELKCSLCNTLFKEAVMIP---CCQHSFCEKCIRLVLVEKA---RCP 176
            S+  +GN       L+C +C   F E  + P    C H+ C +C+  +L       RCP
Sbjct: 1   GSSGSSGNLDALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCP 60

Query: 177 KC--FSSKCRLEDLLPNVSLRQAIE 199
            C   +    L  L  N+++ ++  
Sbjct: 61  FCSKITRITSLTQLTDNLTVLKSGP 85

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

 Score = 47.7 bits (114), Expect = 1e-07
 Identities = 12/42 (28%), Positives = 18/42 (42%), Gaps = 4/42 (9%)

Query: 137 ELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKC 178
            L+C  C    K   ++P C H+ C  C+        +CP C
Sbjct: 6   FLRCQQCQAEAKCPKLLP-CLHTLCSGCLE---ASGMQCPIC 43

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

 Score = 46.3 bits (110), Expect = 6e-07
 Identities = 12/46 (26%), Positives = 19/46 (41%), Gaps = 2/46 (4%)

Query: 134 FPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKA-RCPKC 178
              + KC  C+ +        C  H FCE C+  +L   + +C  C
Sbjct: 12  VEDKYKCEKCHLVLCSPKQTEC-GHRFCESCMAALLSSSSPKCTAC 56

>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 = 47.2 bits (112), Expect = 1e-06
 Identities = 19/62 (30%), Positives = 26/62 (41%), Gaps = 3/62 (4%)

Query: 132 GNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVL-VEKARCPKCFSSKCRLEDLLP 190
            +F   + C +C  +  + V    C+H FC  CI   L V  + CP C    C   DL  
Sbjct: 18  AHFVKSISCQICEHILADPVET-SCKHLFCRICILRCLKVMGSYCPSC-RYPCFPTDLES 75

Query: 191 NV 192
            V
Sbjct: 76  PV 77

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

 Score = 45.5 bits (108), Expect = 1e-06
 Identities = 14/61 (22%), Positives = 23/61 (37%), Gaps = 3/61 (4%)

Query: 139 KCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQAI 198
           +C +C        M   C H+FC  CI   + +   CP C   K  +E ++  +      
Sbjct: 7   RCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLC---KVPVESVVHTIESDSEF 63

Query: 199 E 199
            
Sbjct: 64  G 64

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

 Score = 45.1 bits (107), Expect = 1e-06
 Identities = 16/62 (25%), Positives = 23/62 (37%), Gaps = 7/62 (11%)

Query: 136 SELKCSLCNTLFKEAVMIPC------CQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLL 189
           + + C +C   + E V          C H FC +C+R  L     CP C   K   +   
Sbjct: 2   AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTC-RKKINHKRYH 60

Query: 190 PN 191
           P 
Sbjct: 61  PI 62

>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 = 45.2 bits (107), Expect = 2e-06
 Identities = 16/62 (25%), Positives = 22/62 (35%), Gaps = 7/62 (11%)

Query: 136 SELKCSLCNTLFKEAVMIPC------CQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLL 189
             + C +C   + E V          C H FC +C+R  L     CP C   K   +   
Sbjct: 9   GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTC-RKKINHKRYH 67

Query: 190 PN 191
           P 
Sbjct: 68  PI 69

>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 = 48.8 bits (115), Expect = 2e-06
 Identities = 20/147 (13%), Positives = 45/147 (30%), Gaps = 3/147 (2%)

Query: 62  RENIDTTRTSEPHNTGCQKLEASNVNEAIRRGAVHSRIEEDLLQTESKSDVPQFMKLELV 121
               D  RT E       +L  +           ++   + L       + P  +  +L 
Sbjct: 106 LSTWDKYRTGELTAPKLSELYLNMPTPEPATMVNNTDTLKILKVLPYIWNDPTCVIPDLQ 165

Query: 122 IKTNASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVE--KARCPKCF 179
              +   ++      EL C +    ++  ++   C H F    I+  L       CP+  
Sbjct: 166 NPADEDDLQIEGGKIELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAA 225

Query: 180 SSK-CRLEDLLPNVSLRQAIEHFLESQ 205
            S+   + D + +  +    +     +
Sbjct: 226 CSQVVSMRDFVRDPIMELRCKIAKMKE 252

>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 = 46.6 bits (110), Expect = 2e-06
 Identities = 11/74 (14%), Positives = 24/74 (32%), Gaps = 2/74 (2%)

Query: 135 PSELKCSLCNTLFKEAVMIPCCQHSFCEKCIR-LVLVEKARCPKCFSSKCRLEDLLPNVS 193
            ++  CS C  + +      C  H +C  C+  ++      C  C       E +    S
Sbjct: 29  EAKYLCSACRNVLRRPFQAQCG-HRYCSFCLASILSSGPQNCAACVHEGIYEEGISILES 87

Query: 194 LRQAIEHFLESQIL 207
                ++    ++ 
Sbjct: 88  SSAFPDNAARREVE 101

>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 = 46.6 bits (110), Expect = 4e-06
 Identities = 18/69 (26%), Positives = 30/69 (43%), Gaps = 3/69 (4%)

Query: 132 GNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCI-RLVLVEKARCPKCFSSKCRLEDLLP 190
               S+ +C +C    +EAV  PC  H FC+ CI + +     +CP   +       L P
Sbjct: 13  PPLESKYECPICLMALREAVQTPC-GHRFCKACIIKSIRDAGHKCPVD-NEILLENQLFP 70

Query: 191 NVSLRQAIE 199
           +   ++ I 
Sbjct: 71  DNFAKREIL 79

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2 Length = 281

 Score = 47.6 bits (113), Expect = 5e-06
 Identities = 16/91 (17%), Positives = 36/91 (39%), Gaps = 9/91 (9%)

Query: 117 KLELVIKTNASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCP 176
            ++ +        +  + P  L   +   L +E  + P    ++  K I     E  +  
Sbjct: 188 DMDELFSQVDEKRKKRDIPDYLCGKISFELMREPCITPSG-ITYDRKDIE----EHLQRV 242

Query: 177 KCFS----SKCRLEDLLPNVSLRQAIEHFLE 203
             F+    S    E L+PN+++++ I+ F+ 
Sbjct: 243 GHFNPVTRSPLTQEQLIPNLAMKEVIDAFIS 273

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

 Score = 41.2 bits (97), Expect = 3e-05
 Identities = 16/43 (37%), Positives = 21/43 (48%), Gaps = 2/43 (4%)

Query: 136 SELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKC 178
            E +C +C  +   A +I  C HSFC+KCI         CP C
Sbjct: 14  DEEECCIC--MDGRADLILPCAHSFCQKCIDKWSDRHRNCPIC 54

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

 Score = 41.4 bits (97), Expect = 4e-05
 Identities = 14/61 (22%), Positives = 24/61 (39%), Gaps = 6/61 (9%)

Query: 124 TNASAMENGNFPSELKCSLCNTLFKE------AVMIPCCQHSFCEKCIRLVLVEKARCPK 177
           ++ S+         + C +C   + E       ++   C H FC +C+R  L     CP 
Sbjct: 2   SSGSSGTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPT 61

Query: 178 C 178
           C
Sbjct: 62  C 62

>2bay_A PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin ligase, E3 ligase; 1.50A {Saccharomyces cerevisiae} SCOP: g.44.1.2 PDB: 1n87_A Length = 61

 Score = 40.4 bits (95), Expect = 5e-05
 Identities = 9/61 (14%), Positives = 25/61 (40%), Gaps = 1/61 (1%)

Query: 136 SELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLR 195
           S + C++   + +  V+ P  +  F +  +   + +    P   +    +E+++  V   
Sbjct: 2   SHMLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPIT-NEPLSIEEIVEIVPSA 60

Query: 196 Q 196
           Q
Sbjct: 61  Q 61

>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 = 44.0 bits (103), Expect = 1e-04
 Identities = 12/58 (20%), Positives = 19/58 (32%), Gaps = 2/58 (3%)

Query: 122 IKTNASAMENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIR-LVLVEKARCPKC 178
           +      +      +   C +C    K+  + PC  H  C  C+      E   CP C
Sbjct: 317 VTQEQYELYCEMGSTFQLCKICAENDKDVKIEPCG-HLMCTSCLTSWQESEGQGCPFC 373

>2f42_A STIP1 homology and U-box containing protein 1; chaperone; 2.50A {Danio rerio} PDB: 2c2v_S 2oxq_C Length = 179

 Score = 40.4 bits (94), Expect = 6e-04
 Identities = 22/129 (17%), Positives = 50/129 (38%), Gaps = 8/129 (6%)

Query: 78  CQKLEASNVNEAIRRGAVHSRIEEDLLQTESKSDVPQFMKLELVIKTNASAMENGNFPSE 137
               E     +   + +  S+   D+ + +SK D    M ++ +        +    P  
Sbjct: 48  LILAEKERELDDRVKQSDDSQNGGDISKMKSKHDK-YLMDMDELFSQVDEKRKKREIPDY 106

Query: 138 LKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKAR-CPKCFSSKCRL--EDLLPNVSL 194
           L   +   L +E  + P    ++  K I   L       P    ++  L  + L+PN+++
Sbjct: 107 LCGKISFELMREPCITPS-GITYDRKDIEEHLQRVGHFDPV---TRSPLTQDQLIPNLAM 162

Query: 195 RQAIEHFLE 203
           ++ I+ F++
Sbjct: 163 KEVIDAFIQ 171

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	685
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.56
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.47
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.47
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.45
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.45
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.36
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.35
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	99.35
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.33
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.31
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.3
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.29
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.29
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	99.28
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.27
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.27
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.27
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.26
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.24
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.24
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.23
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.21
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.19
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.16
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.14
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.14
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.13
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.12
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.11
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.1
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.05
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.03
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.03
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.02
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.01
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	99.0
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	99.0
2ect_A	78	Ring finger protein 126; metal binding protein, st	98.92
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	98.91
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	98.91
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	98.91
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.86
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	98.85
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.84
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	98.82
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	98.8
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	98.79
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.78
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	98.77
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	98.75
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	98.72
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	98.69
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.59
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.54
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.52
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.5
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.44
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.43
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	98.38
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.34
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.31
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.29
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.27
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	98.16
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.16
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	97.83
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	97.73
1dsq_A	26	Nucleic acid binding protein P14; CCHC type zinc f	97.15
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	97.13
2ysa_A	55	Retinoblastoma-binding protein 6; zinc finger, CCH	96.74
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	96.49
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	95.82
3nyb_B	83	Protein AIR2; polya RNA polymerase, zinc knuckle p	95.43
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	95.41
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	95.04
1nc8_A	29	Nucleocapsid protein; HIV-2, RNA recognition, zinc	94.89
1u6p_A	56	GAG polyprotein; MLV, A-minor K-turn, stem loop, b	94.37
2a51_A	39	Nucleocapsid protein; sivlhoest, structure, NCP8,	94.34
1a6b_B	40	Momulv, zinc finger protein NCP10; nucleocapsid pr	94.12
2lli_A	124	Protein AIR2; RNA surveillance, RNA degradation, R	94.1
1cl4_A	60	Protein (GAG polyprotein); nucleocapsid protein, R	94.09
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	94.07
2li8_A	74	Protein LIN-28 homolog A; zinc finger, micro RNA,	93.58
2bl6_A	37	Nucleocapsid protein P11; lentivirus, polyprotein,	93.56
3nyb_B	83	Protein AIR2; polya RNA polymerase, zinc knuckle p	93.41
2ihx_A	61	Nucleocapsid (NC) protein; protein-RNA complex, vi	93.33
1a1t_A	55	Nucleocapsid protein; stem-loop RNA, viral protein	93.28
2bl6_A	37	Nucleocapsid protein P11; lentivirus, polyprotein,	93.26
2ec7_A	49	GAG polyprotein (PR55GAG); nucleocapsid protein, H	93.14
1cl4_A	60	Protein (GAG polyprotein); nucleocapsid protein, R	93.05
2ec7_A	49	GAG polyprotein (PR55GAG); nucleocapsid protein, H	92.99
1a1t_A	55	Nucleocapsid protein; stem-loop RNA, viral protein	92.36
3ts2_A	148	Protein LIN-28 homolog A; microrna biogenesis, pro	92.33
2ihx_A	61	Nucleocapsid (NC) protein; protein-RNA complex, vi	92.32
2a51_A	39	Nucleocapsid protein; sivlhoest, structure, NCP8,	91.85
2cqf_A	63	RNA-binding protein LIN-28; CCHC zinc-finger, stru	91.85
2li8_A	74	Protein LIN-28 homolog A; zinc finger, micro RNA,	90.31
2cqf_A	63	RNA-binding protein LIN-28; CCHC zinc-finger, stru	89.76
3ts2_A	148	Protein LIN-28 homolog A; microrna biogenesis, pro	88.56
2lli_A	124	Protein AIR2; RNA surveillance, RNA degradation, R	84.7
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	82.72
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	82.39
3nw0_A	238	Non-structural maintenance of chromosomes element	81.05
4fo9_A	360	E3 SUMO-protein ligase PIAS2; E3 ligase, pinit dom	80.13

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

Probab=99.56  E-value=4e-15  Score=126.90  Aligned_cols=76  Identities=38%  Similarity=0.908  Sum_probs=66.7

Q ss_pred             ccCCCCCcccccccccccccceeccCCCCccchhHHHHHhhcC--CCCCCCcCCCccccCCCccHHHHHHHHHHHhhc
Q 035975          130 ENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEK--ARCPKCFSSKCRLEDLLPNVSLRQAIEHFLESQ  205 (685)
Q Consensus       130 ~~e~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~--~sCPvCR~~~~~~~~L~pN~~L~nLVe~~redq  205 (685)
                      ..+.+.++++|+||+++|.+|++++||||+||..||..|+...  ..||+||..+.....+.+|..|.++|+.++...
T Consensus         6 ~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~n~~l~~~i~~~~~~~   83 (92)
T 3ztg_A            6 EDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALIANKFLRQAVNNFKNET   83 (92)
T ss_dssp             SCCCCCTTTEETTTTEECSSCEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSCCTTSCEECHHHHHHHHHHHHHH
T ss_pred             ccccCCcCCCCCCCChhhcCceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCCCccccCcCHHHHHHHHHHHHHH
Confidence            3467888999999999999999999459999999999999754  589999986556789999999999999998754

>2kr4_A Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ring, E3 ligase, UBL conjugation pathway; NMR {Mus musculus}

Probab=99.47  E-value=3.8e-14  Score=121.42  Aligned_cols=73  Identities=19%  Similarity=0.255  Sum_probs=65.7

Q ss_pred             cCCCCCcccccccccccccceeccCCCCccchhHHHHHhhcCCCCCCCcCCCccccCCCccHHHHHHHHHHHhhc
Q 035975          131 NGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQAIEHFLESQ  205 (685)
Q Consensus       131 ~e~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~~~~~~~L~pN~~L~nLVe~~redq  205 (685)
                      ...+.++|.||||+++|.+||+++| ||+||+.||..|+....+||+|+. ......|.+|..|+++|+.++..+
T Consensus         8 ~~~~p~~~~CpI~~~~m~dPV~~~c-Ghtf~r~~I~~~l~~~~~cP~~~~-~l~~~~l~pn~~L~~~i~~~~~~~   80 (85)
T 2kr4_A            8 YSDAPDEFRDPLMDTLMTDPVRLPS-GTVMDRSIILRHLLNSPTDPFNRQ-MLTESMLEPVPELKEQIQAWMREK   80 (85)
T ss_dssp             CTTCCTTTBCTTTCSBCSSEEECTT-SCEEEHHHHHHHHHHCSBCTTTCC-BCCGGGCEECHHHHHHHHHHHHHH
T ss_pred             hhcCchheECcccCchhcCCeECCC-CCEECHHHHHHHHhcCCCCCCCcC-CCChHhcchHHHHHHHHHHHHHHh
Confidence            3567889999999999999999997 999999999999998889999997 456679999999999999997654

>1t1h_A Gspef-atpub14, armadillo repeat containing protein; ubiquitin ligase, E3 ligase, U-BOX,; NMR {Arabidopsis thaliana} SCOP: g.44.1.2

Probab=99.47  E-value=2.5e-14  Score=118.56  Aligned_cols=72  Identities=25%  Similarity=0.454  Sum_probs=64.2

Q ss_pred             CCCCCcccccccccccccceeccCCCCccchhHHHHHhhc-CCCCCCCcCCCccccCCCccHHHHHHHHHHHhhc
Q 035975          132 GNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVE-KARCPKCFSSKCRLEDLLPNVSLRQAIEHFLESQ  205 (685)
Q Consensus       132 e~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~-~~sCPvCR~~~~~~~~L~pN~~L~nLVe~~redq  205 (685)
                      ..+.+++.|+||+++|.+|++++| ||+||..||..|+.. ...||+|+. ......+.+|..|.++|+.++...
T Consensus         3 ~~~~~~~~C~IC~~~~~~Pv~~~C-gH~fc~~Ci~~~~~~~~~~CP~C~~-~~~~~~l~~n~~l~~~i~~~~~~~   75 (78)
T 1t1h_A            3 PEFPEYFRCPISLELMKDPVIVST-GQTYERSSIQKWLDAGHKTCPKSQE-TLLHAGLTPNYVLKSLIALWCESN   75 (78)
T ss_dssp             CCCSSSSSCTTTSCCCSSEEEETT-TEEEEHHHHHHHHTTTCCBCTTTCC-BCSSCCCEECTTTHHHHHHHHHHS
T ss_pred             cCCcccCCCCCccccccCCEEcCC-CCeecHHHHHHHHHHCcCCCCCCcC-CCChhhCccCHHHHHHHHHHHHHc
Confidence            457889999999999999999997 999999999999986 578999997 455678999999999999998754

>1wgm_A Ubiquitin conjugation factor E4A; ubiquitinating enzyme, KIAA0126, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.44.1.2

Probab=99.45  E-value=7.1e-14  Score=123.23  Aligned_cols=73  Identities=19%  Similarity=0.290  Sum_probs=65.9

Q ss_pred             CCCCCcccccccccccccceeccCCC-CccchhHHHHHhhcCCCCCCCcCCCccccCCCccHHHHHHHHHHHhhcc
Q 035975          132 GNFPSELKCSLCNTLFKEAVMIPCCQ-HSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQAIEHFLESQI  206 (685)
Q Consensus       132 e~LeeeLtCPIClelf~dPVtLpCCG-HSFC~~CI~~~lk~~~sCPvCR~~~~~~~~L~pN~~L~nLVe~~redq~  206 (685)
                      ..++++|.||||+++|.+||+++| | |+||+.||..||.....||+|+. .+....|.+|..|+++|+.++..+.
T Consensus        17 ~~~p~~~~CpI~~~~m~dPV~~~c-G~htf~r~cI~~~l~~~~~cP~~~~-~l~~~~L~pn~~Lk~~I~~~~~~~~   90 (98)
T 1wgm_A           17 ADACDEFLDPIMSTLMCDPVVLPS-SRVTVDRSTIARHLLSDQTDPFNRS-PLTMDQIRPNTELKEKIQRWLAERK   90 (98)
T ss_dssp             CSCCTTTBCTTTCSBCSSEEECTT-TCCEEEHHHHHHHTTTSCBCTTTCS-BCCTTTSEECHHHHHHHHHHHHHST
T ss_pred             hcCcHhcCCcCccccccCCeECCC-CCeEECHHHHHHHHHhCCCCCCCCC-CCChhhceEcHHHHHHHHHHHHHcc
Confidence            567889999999999999999998 8 99999999999988889999997 4556799999999999999987653

>2kre_A Ubiquitin conjugation factor E4 B; U-box domain, E3 ubiquitin ligase, E4 polyubiquitin chain EL factor, phosphoprotein, UBL conjugation pathway; NMR {Homo sapiens} PDB: 3l1x_A 3l1z_B

Probab=99.45  E-value=7.6e-14  Score=123.47  Aligned_cols=72  Identities=19%  Similarity=0.268  Sum_probs=65.5

Q ss_pred             CCCCCcccccccccccccceeccCCCCccchhHHHHHhhcCCCCCCCcCCCccccCCCccHHHHHHHHHHHhhc
Q 035975          132 GNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQAIEHFLESQ  205 (685)
Q Consensus       132 e~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~~~~~~~L~pN~~L~nLVe~~redq  205 (685)
                      ..++++|.||||+++|.+||+++| ||+||+.||..||....+||.|+. ......|.+|..|+++|+.++..+
T Consensus        24 ~~~p~~~~CpI~~~~m~dPV~~~c-Ghtf~r~~I~~~l~~~~~cP~~~~-~l~~~~L~pn~~Lk~~I~~~~~~~   95 (100)
T 2kre_A           24 SDAPDEFRDPLMDTLMTDPVRLPS-GTIMDRSIILRHLLNSPTDPFNRQ-TLTESMLEPVPELKEQIQAWMREK   95 (100)
T ss_dssp             SSCSTTTBCTTTCSBCSSEEEETT-TEEEEHHHHHHHTTSCSBCSSSCC-BCCTTSSEECHHHHHHHHHHHHTT
T ss_pred             ccCcHhhCCcCccCcccCCeECCC-CCEEchHHHHHHHHcCCCCCCCCC-CCChhhceECHHHHHHHHHHHHHh
Confidence            467889999999999999999997 999999999999998789999997 455689999999999999998754

>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=99.36  E-value=2.7e-13  Score=122.11  Aligned_cols=71  Identities=20%  Similarity=0.506  Sum_probs=61.9

Q ss_pred             CCCCcccccccccccccceeccCCCCccchhHHHHHhhcC-CCCCCCcCCCccccCCCccHHHHHHHHHHHhh
Q 035975          133 NFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEK-ARCPKCFSSKCRLEDLLPNVSLRQAIEHFLES  204 (685)
Q Consensus       133 ~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~-~sCPvCR~~~~~~~~L~pN~~L~nLVe~~red  204 (685)
                      .+.++++|+||+++|.+|++++| ||+||..||..|+... ..||+||..+.....+.+|..|.++++.+...
T Consensus        48 ~~~~~~~C~IC~~~~~~p~~~~C-gH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~n~~l~~~i~~~~p~  119 (124)
T 3fl2_A           48 KVEETFQCICCQELVFRPITTVC-QHNVCKDCLDRSFRAQVFSCPACRYDLGRSYAMQVNQPLQTVLNQLFPG  119 (124)
T ss_dssp             HHHHHTBCTTTSSBCSSEEECTT-SCEEEHHHHHHHHHTTCCBCTTTCCBCCTTCCCCCCHHHHHHHHHHSTT
T ss_pred             hCccCCCCCcCChHHcCcEEeeC-CCcccHHHHHHHHhHCcCCCCCCCccCCCCCCCCCCHHHHHHHHHHccc
Confidence            35668999999999999999998 9999999999999854 48999998655557899999999999988653

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=99.35  E-value=8.9e-13  Score=130.65  Aligned_cols=73  Identities=22%  Similarity=0.344  Sum_probs=64.3

Q ss_pred             cCCCCCcccccccccccccceeccCCCCccchhHHHHHhhcC-CCCCCCcCCCccccCCCccHHHHHHHHHHHhhc
Q 035975          131 NGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEK-ARCPKCFSSKCRLEDLLPNVSLRQAIEHFLESQ  205 (685)
Q Consensus       131 ~e~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~-~sCPvCR~~~~~~~~L~pN~~L~nLVe~~redq  205 (685)
                      ...+.+.+.||||+++|.+||+++| ||+||+.||..|+... ..||+|+. ......|.+|..|.++|+.|....
T Consensus       202 ~~~~~~~~~c~i~~~~~~dPv~~~~-gh~f~~~~i~~~~~~~~~~cP~~~~-~~~~~~l~~n~~l~~~i~~~~~~~  275 (281)
T 2c2l_A          202 KRDIPDYLCGKISFELMREPCITPS-GITYDRKDIEEHLQRVGHFNPVTRS-PLTQEQLIPNLAMKEVIDAFISEN  275 (281)
T ss_dssp             CCCCCSTTBCTTTCSBCSSEEECSS-CCEEETTHHHHHHHHTCSSCTTTCC-CCCGGGCEECHHHHHHHHHHHTTC
T ss_pred             CCCCCcccCCcCcCCHhcCCeECCC-CCEECHHHHHHHHHHCCCCCcCCCC-CCchhcCcccHHHHHHHHHHHHHC
Confidence            3467789999999999999999997 9999999999999864 45999997 456778999999999999998754

>2yu4_A E3 SUMO-protein ligase NSE2; SP-ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.35  E-value=5.8e-13  Score=115.79  Aligned_cols=72  Identities=28%  Similarity=0.513  Sum_probs=62.8

Q ss_pred             CCCcccccccccccccceecc-CCCCccchhHHHHHhhcC------CCCCC--CcCCCccccCCCccHHHHHHHHHHHhh
Q 035975          134 FPSELKCSLCNTLFKEAVMIP-CCQHSFCEKCIRLVLVEK------ARCPK--CFSSKCRLEDLLPNVSLRQAIEHFLES  204 (685)
Q Consensus       134 LeeeLtCPIClelf~dPVtLp-CCGHSFC~~CI~~~lk~~------~sCPv--CR~~~~~~~~L~pN~~L~nLVe~~red  204 (685)
                      ..++|.||||+++|.+||+++ | ||+||+.||..||...      ..||+  |+.......+|.+|..|.++|+.++..
T Consensus         4 ~~~~~~CPI~~~~~~dPV~~~~c-Gh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~~~L~pn~~L~~~I~~~~~~   82 (94)
T 2yu4_A            4 GSSGFTCPITKEEMKKPVKNKVC-GHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKSDLIQDEALRRAIENHNKK   82 (94)
T ss_dssp             CSSCCBCTTTCSBCSSEEEESSS-CCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCGGGEEECHHHHHHHHHHHTT
T ss_pred             CCcEeECcCcCchhcCCEEcCCC-CCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCHhhCcCCHHHHHHHHHHHHH
Confidence            567899999999999999996 7 9999999999999863      58999  986336678999999999999999875


Q ss_pred             cc
Q 035975          205 QI  206 (685)
Q Consensus       205 q~  206 (685)
                      ..
T Consensus        83 ~~   84 (94)
T 2yu4_A           83 RH   84 (94)
T ss_dssp             CC
T ss_pred             hc
Confidence            43

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

Probab=99.33  E-value=3.7e-13  Score=116.63  Aligned_cols=71  Identities=30%  Similarity=0.648  Sum_probs=62.6

Q ss_pred             CCCCcccccccccccccceec-cCCCCccchhHHHHHhhcCCCCCCCcCCCccccCCCccHHHHHHHHHHHhhc
Q 035975          133 NFPSELKCSLCNTLFKEAVMI-PCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQAIEHFLESQ  205 (685)
Q Consensus       133 ~LeeeLtCPIClelf~dPVtL-pCCGHSFC~~CI~~~lk~~~sCPvCR~~~~~~~~L~pN~~L~nLVe~~redq  205 (685)
                      .+.+.+.|+||++.|.+|+++ +| ||+||..||..|+.....||+||. ......+.+|..|.++++.++...
T Consensus        18 ~~~~~~~C~IC~~~~~~p~~~~~C-gH~fC~~Ci~~~~~~~~~CP~Cr~-~~~~~~l~~n~~l~~~i~~~~~~~   89 (99)
T 2y43_A           18 TIDDLLRCGICFEYFNIAMIIPQC-SHNYCSLCIRKFLSYKTQCPTCCV-TVTEPDLKNNRILDELVKSLNFAR   89 (99)
T ss_dssp             HHHHHTBCTTTCSBCSSEEECTTT-CCEEEHHHHHHHHTTCCBCTTTCC-BCCGGGCEECHHHHHHHHHHHHHH
T ss_pred             hCCCCCCcccCChhhCCcCEECCC-CCHhhHHHHHHHHHCCCCCCCCCC-cCChhhCCcCHHHHHHHHHHHHHH
Confidence            345689999999999999998 66 999999999999998889999997 455678999999999999998754

>1z6u_A NP95-like ring finger protein isoform B; structural genomics consortium, ligase, ubiquitin-protein ligase, cell cycle regulation, SGC; 2.10A {Homo sapiens}

Probab=99.31  E-value=1e-12  Score=123.49  Aligned_cols=71  Identities=21%  Similarity=0.547  Sum_probs=61.5

Q ss_pred             CCCCcccccccccccccceeccCCCCccchhHHHHHhhcC-CCCCCCcCCCccccCCCccHHHHHHHHHHHhh
Q 035975          133 NFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEK-ARCPKCFSSKCRLEDLLPNVSLRQAIEHFLES  204 (685)
Q Consensus       133 ~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~-~sCPvCR~~~~~~~~L~pN~~L~nLVe~~red  204 (685)
                      .+.+.+.|+||+++|.+|++|+| ||+||..||..|+... ..||+||..+.....+.+|..|.++|+.++..
T Consensus        74 ~l~~~~~C~IC~~~~~~pv~~~C-gH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~l~~n~~l~~lv~~~~p~  145 (150)
T 1z6u_A           74 KLEQSFMCVCCQELVYQPVTTEC-FHNVCKDCLQRSFKAQVFSCPACRHDLGQNYIMIPNEILQTLLDLFFPG  145 (150)
T ss_dssp             HHHHHTBCTTTSSBCSSEEECTT-SCEEEHHHHHHHHHTTCCBCTTTCCBCCTTCCCCBCHHHHHHHHHHSTT
T ss_pred             hCccCCEeecCChhhcCCEEcCC-CCchhHHHHHHHHHhCCCcCCCCCccCCCCCCCCCCHHHHHHHHHHhhH
Confidence            35668999999999999999998 9999999999999865 48999998554444899999999999988653

>2egp_A Tripartite motif-containing protein 34; ZF-C3HC4 domain, tripartite motif protein 34, interferon- responsive finger protein 1; NMR {Homo sapiens}

Probab=99.30  E-value=1.1e-13  Score=114.15  Aligned_cols=66  Identities=35%  Similarity=0.729  Sum_probs=55.5

Q ss_pred             cCCCCCcccccccccccccceeccCCCCccchhHHHHHhhc-------CCCCCCCcCCCccccCCCccHHHHHHH
Q 035975          131 NGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVE-------KARCPKCFSSKCRLEDLLPNVSLRQAI  198 (685)
Q Consensus       131 ~e~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~-------~~sCPvCR~~~~~~~~L~pN~~L~nLV  198 (685)
                      .+.+.+++.|+||++.|.+|++++| ||+||..||..|+..       ...||+||.. .....+.+|..|.++|
T Consensus         6 ~~~~~~~~~C~IC~~~~~~p~~l~C-gH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~-~~~~~l~~n~~l~~lv   78 (79)
T 2egp_A            6 SGNVQEEVTCPICLELLTEPLSLDC-GHSLCRACITVSNKEAVTSMGGKSSCPVCGIS-YSFEHLQANQHLANIV   78 (79)
T ss_dssp             SCCCCCCCEETTTTEECSSCCCCSS-SCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCC-CCSSGGGTCSSSCCCC
T ss_pred             HhhcccCCCCcCCCcccCCeeECCC-CCHHHHHHHHHHHHhcccCCCCCCcCCCCCCc-CCHhhCCcCHHHHHhh
Confidence            4668889999999999999999998 999999999999876       4689999974 5556788887665543

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

Probab=99.29  E-value=3.7e-13  Score=111.60  Aligned_cols=67  Identities=33%  Similarity=0.689  Sum_probs=56.3

Q ss_pred             ccCCCCCcccccccccccccceeccCCCCccchhHHHHHhhc------CCCCCCCcCCCccccCCCccHHHHHHH
Q 035975          130 ENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVE------KARCPKCFSSKCRLEDLLPNVSLRQAI  198 (685)
Q Consensus       130 ~~e~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~------~~sCPvCR~~~~~~~~L~pN~~L~nLV  198 (685)
                      ..+.+.+.+.|+||++.|.+|++++| ||+||..||..|+..      ...||.||. ......+.+|..|.++|
T Consensus        12 ~~~~~~~~~~C~IC~~~~~~p~~~~C-gH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~-~~~~~~~~~n~~l~~~v   84 (85)
T 2ecw_A           12 VLEMIKEEVTCPICLELLKEPVSADC-NHSFCRACITLNYESNRNTDGKGNCPVCRV-PYPFGNLKPNLHVANIV   84 (85)
T ss_dssp             CCCCCCTTTSCTTTCSCCSSCEECTT-SCCBCHHHHHHHHHHSBCTTSCBCCTTTCC-CCCTTCCEECSCCCSSC
T ss_pred             HHHhCccCCCCcCCChhhCcceeCCC-CCHHHHHHHHHHHHhccCCCCCCCCCCCCC-cCCHHhCCcCHHHHHhh
Confidence            34667889999999999999999997 999999999999987      568999997 45566788887665543

>2yur_A Retinoblastoma-binding protein 6; P53-associated cellular protein of testis, proliferation potential-related protein, protein P2P-R; NMR {Homo sapiens}

Probab=99.29  E-value=2e-12  Score=107.05  Aligned_cols=63  Identities=37%  Similarity=0.908  Sum_probs=52.1

Q ss_pred             cccCCCCCcccccccccccccceeccCCCCccchhHHHHHhhcC--CCCCCCcCCCccccCCCcc
Q 035975          129 MENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEK--ARCPKCFSSKCRLEDLLPN  191 (685)
Q Consensus       129 ~~~e~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~--~sCPvCR~~~~~~~~L~pN  191 (685)
                      ...+.+.+++.|+||+++|.+|+++++|||+||..||..|+...  ..||+||+.+...+.+.+|
T Consensus         7 ~~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~n   71 (74)
T 2yur_A            7 GEDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALSGP   71 (74)
T ss_dssp             SCCCCSCGGGSCSSSCCCCTTCEECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCTTTTTCT
T ss_pred             cccccCCCCCCCcCCChHHhCCeEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCccccccC
Confidence            34567888999999999999999999449999999999999865  6899999865555555544

>2f42_A STIP1 homology and U-box containing protein 1; chaperone; 2.50A {Danio rerio} PDB: 2c2v_S 2oxq_C

Probab=99.28  E-value=3.7e-12  Score=124.08  Aligned_cols=75  Identities=20%  Similarity=0.323  Sum_probs=66.0

Q ss_pred             cccCCCCCcccccccccccccceeccCCCCccchhHHHHHhhcC-CCCCCCcCCCccccCCCccHHHHHHHHHHHhhc
Q 035975          129 MENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEK-ARCPKCFSSKCRLEDLLPNVSLRQAIEHFLESQ  205 (685)
Q Consensus       129 ~~~e~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~-~sCPvCR~~~~~~~~L~pN~~L~nLVe~~redq  205 (685)
                      .....++++|.||||+++|.+||+++| ||+||+.||..|+... .+||+|+. .+....|.+|..|.++|+.+....
T Consensus        98 ~~~~~ip~~f~CPI~~elm~DPV~~~~-Ghtfer~~I~~~l~~~~~tcP~t~~-~l~~~~L~pN~~Lk~~Ie~~~~~~  173 (179)
T 2f42_A           98 RKKREIPDYLCGKISFELMREPCITPS-GITYDRKDIEEHLQRVGHFDPVTRS-PLTQDQLIPNLAMKEVIDAFIQEN  173 (179)
T ss_dssp             GGCCCCCGGGBCTTTCSBCSSEEECTT-SCEEEHHHHHHHHHHTCSBCTTTCC-BCCGGGCEECHHHHHHHHHHHHHC
T ss_pred             ccccCCcHhhcccCccccCCCCeECCC-CCEECHHHHHHHHHhCCCCCCCCcC-CCChhhCcchHHHHHHHHHHHHHC
Confidence            335678899999999999999999997 9999999999999864 46999997 456679999999999999998754

>2ckl_A Polycomb group ring finger protein 4; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_B 2h0d_A

Probab=99.27  E-value=1.7e-12  Score=114.24  Aligned_cols=70  Identities=27%  Similarity=0.598  Sum_probs=60.7

Q ss_pred             CCCCcccccccccccccceec-cCCCCccchhHHHHHhhcCCCCCCCcCCCccc---cCCCccHHHHHHHHHHHh
Q 035975          133 NFPSELKCSLCNTLFKEAVMI-PCCQHSFCEKCIRLVLVEKARCPKCFSSKCRL---EDLLPNVSLRQAIEHFLE  203 (685)
Q Consensus       133 ~LeeeLtCPIClelf~dPVtL-pCCGHSFC~~CI~~~lk~~~sCPvCR~~~~~~---~~L~pN~~L~nLVe~~re  203 (685)
                      .+.+++.|+||+++|.+|+++ +| ||+||..||..|+.....||+|+..+...   ..+.+|..|.++++.+..
T Consensus        11 ~~~~~~~C~IC~~~~~~p~~~~~C-gH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~l~~n~~l~~~i~~~~~   84 (108)
T 2ckl_A           11 ELNPHLMCVLCGGYFIDATTIIEC-LHSFCKTCIVRYLETSKYCPICDVQVHKTRPLLNIRSDKTLQDIVYKLVP   84 (108)
T ss_dssp             HHGGGTBCTTTSSBCSSEEEETTT-CCEEEHHHHHHHHTSCSBCTTTCCBSCSSCGGGGEEECHHHHHHHHHHST
T ss_pred             ccCCcCCCccCChHHhCcCEeCCC-CChhhHHHHHHHHHhCCcCcCCCccccccCcccccCcCHHHHHHHHHHhh
Confidence            457789999999999999998 77 99999999999999888999999854432   278899999999998765

>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=99.27  E-value=9.5e-13  Score=115.13  Aligned_cols=71  Identities=24%  Similarity=0.524  Sum_probs=62.1

Q ss_pred             CCCCccccccccccccccee-ccCCCCccchhHHHHHhhcC-CCCCCCcCCCccccCCCccHHHHHHHHHHHhhc
Q 035975          133 NFPSELKCSLCNTLFKEAVM-IPCCQHSFCEKCIRLVLVEK-ARCPKCFSSKCRLEDLLPNVSLRQAIEHFLESQ  205 (685)
Q Consensus       133 ~LeeeLtCPIClelf~dPVt-LpCCGHSFC~~CI~~~lk~~-~sCPvCR~~~~~~~~L~pN~~L~nLVe~~redq  205 (685)
                      .+.+++.|+||+++|.+|++ ++| ||+||..||..|+... ..||+||. .+....+..|..+.++++.+..-+
T Consensus        18 ~l~~~~~C~IC~~~~~~p~~~~~C-gH~FC~~Ci~~~~~~~~~~CP~Cr~-~~~~~~l~~~~~~~~i~~~~~~l~   90 (100)
T 3lrq_A           18 SIAEVFRCFICMEKLRDARLCPHC-SKLCCFSCIRRWLTEQRAQCPHCRA-PLQLRELVNCRWAEEVTQQLDTLQ   90 (100)
T ss_dssp             HHHHHTBCTTTCSBCSSEEECTTT-CCEEEHHHHHHHHHHTCSBCTTTCC-BCCGGGCEECTTHHHHHHHHHHHC
T ss_pred             cCCCCCCCccCCccccCccccCCC-CChhhHHHHHHHHHHCcCCCCCCCC-cCCHHHhHhhHHHHHHHHHHHHHH
Confidence            46778999999999999999 887 9999999999999987 69999997 456788999999999888876643

>2ecv_A Tripartite motif-containing protein 5; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.27  E-value=5.3e-13  Score=110.68  Aligned_cols=66  Identities=26%  Similarity=0.646  Sum_probs=55.9

Q ss_pred             cCCCCCcccccccccccccceeccCCCCccchhHHHHHhhc------CCCCCCCcCCCccccCCCccHHHHHHH
Q 035975          131 NGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVE------KARCPKCFSSKCRLEDLLPNVSLRQAI  198 (685)
Q Consensus       131 ~e~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~------~~sCPvCR~~~~~~~~L~pN~~L~nLV  198 (685)
                      ...+.+.+.|+||++.|.+|++++| ||+||..||..|+..      ...||.||. ......+.+|..|.++|
T Consensus        13 ~~~~~~~~~C~IC~~~~~~p~~~~C-gH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~-~~~~~~~~~n~~l~~~v   84 (85)
T 2ecv_A           13 LVNVKEEVTCPICLELLTQPLSLDC-GHSFCQACLTANHKKSMLDKGESSCPVCRI-SYQPENIRPNRHVANIV   84 (85)
T ss_dssp             CCCCCCCCCCTTTCSCCSSCBCCSS-SCCBCTTHHHHHHHHHHHTTSCCCCTTTCC-SSCSSSCCCSCCCCCCC
T ss_pred             HHHccCCCCCCCCCcccCCceeCCC-CCHHHHHHHHHHHHHhhcCCCCCcCCCCCC-ccCHHhcCccHHHHHhh
Confidence            4667889999999999999999998 999999999999987      578999997 45567788887665543

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

Probab=99.26  E-value=4.7e-12  Score=105.91  Aligned_cols=62  Identities=24%  Similarity=0.523  Sum_probs=52.8

Q ss_pred             cCCCCCcccccccccccccceeccCCCCccchhHHHHHhhcCCCCCCCcCCCccccCCCccHHHH
Q 035975          131 NGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLR  195 (685)
Q Consensus       131 ~e~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~~~~~~~L~pN~~L~  195 (685)
                      .++..+.+.|+||++.|.+|++++| ||+||..||..|+.....||+||..+.  ..+.+|..|.
T Consensus         9 ~~~~~~~~~C~IC~~~~~~p~~~~C-gH~fC~~Ci~~~~~~~~~CP~Cr~~~~--~~~~~~~~l~   70 (81)
T 2csy_A            9 SEEEEIPFRCFICRQAFQNPVVTKC-RHYFCESCALEHFRATPRCYICDQPTG--GIFNPAKELM   70 (81)
T ss_dssp             SSCCCCCSBCSSSCSBCCSEEECTT-SCEEEHHHHHHHHHHCSBCSSSCCBCC--SCCEECHHHH
T ss_pred             cccCCCCCCCcCCCchhcCeeEccC-CCHhHHHHHHHHHHCCCcCCCcCcccc--ccCCcHHHHH
Confidence            3556778999999999999999998 999999999999988889999997542  6677775443

>2ckl_B Ubiquitin ligase protein RING2; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_C 2h0d_B

Probab=99.24  E-value=2.6e-12  Score=120.98  Aligned_cols=72  Identities=28%  Similarity=0.621  Sum_probs=61.9

Q ss_pred             CCCCCcccccccccccccceec-cCCCCccchhHHHHHhhc-CCCCCCCcCCCccccCCCccHHHHHHHHHHHhh
Q 035975          132 GNFPSELKCSLCNTLFKEAVMI-PCCQHSFCEKCIRLVLVE-KARCPKCFSSKCRLEDLLPNVSLRQAIEHFLES  204 (685)
Q Consensus       132 e~LeeeLtCPIClelf~dPVtL-pCCGHSFC~~CI~~~lk~-~~sCPvCR~~~~~~~~L~pN~~L~nLVe~~red  204 (685)
                      ..+.+.+.|+||+++|.+|+++ +| ||+||..||..|+.. ...||+||..+.....+.+|..|.++|+.+...
T Consensus        49 ~~~~~~~~C~IC~~~~~~p~~~~~C-gH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~l~~~~~l~~~i~~~~~~  122 (165)
T 2ckl_B           49 RSLHSELMCPICLDMLKNTMTTKEC-LHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFDALISKIYPS  122 (165)
T ss_dssp             -CCHHHHBCTTTSSBCSSEEEETTT-CCEEEHHHHHHHHHTTCCBCTTTCCBCCSGGGEEECHHHHHHHHHHC--
T ss_pred             hhCCCCCCCcccChHhhCcCEeCCC-CChhHHHHHHHHHHhCcCCCCCCCCcCCCcccCCcCHHHHHHHHHHHcc
Confidence            4566789999999999999998 76 999999999999987 578999998766678899999999999988653

>1jm7_B BARD1, BRCA1-associated ring domain protein 1; ring finger, zinc-binding protein, heterodimer, ubiquitin ligase, antitumor; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=99.24  E-value=2.1e-12  Score=115.49  Aligned_cols=69  Identities=28%  Similarity=0.683  Sum_probs=60.9

Q ss_pred             CCCCcccccccccccccceec-cCCCCccchhHHHHHhhcCCCCCCCcCCCccccCCCccHHHHHHHHHHHhhc
Q 035975          133 NFPSELKCSLCNTLFKEAVMI-PCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQAIEHFLESQ  205 (685)
Q Consensus       133 ~LeeeLtCPIClelf~dPVtL-pCCGHSFC~~CI~~~lk~~~sCPvCR~~~~~~~~L~pN~~L~nLVe~~redq  205 (685)
                      .+.+.+.|+||+++|.+|+++ +| ||+||..||..|+.  ..||+||.. +....+.+|..|.++++.+....
T Consensus        18 ~l~~~~~C~IC~~~~~~pv~~~~C-gH~fC~~Ci~~~~~--~~CP~Cr~~-~~~~~~~~n~~l~~l~~~~~~~~   87 (117)
T 1jm7_B           18 RLEKLLRCSRCTNILREPVCLGGC-EHIFCSNCVSDCIG--TGCPVCYTP-AWIQDLKINRQLDSMIQLCSKLR   87 (117)
T ss_dssp             HHHHTTSCSSSCSCCSSCBCCCSS-SCCBCTTTGGGGTT--TBCSSSCCB-CSCSSCCCCHHHHHHHHHHHHHH
T ss_pred             hchhCCCCCCCChHhhCccEeCCC-CCHHHHHHHHHHhc--CCCcCCCCc-CccccccccHHHHHHHHHHHHHH
Confidence            356689999999999999999 87 99999999999987  789999974 56788999999999999887644

>3l11_A E3 ubiquitin-protein ligase RNF168; E3 ligase, ring domain, DNA damage, chromatin regulator, CHR protein, DNA repair, metal-binding, nucleus; 2.12A {Homo sapiens}

Probab=99.23  E-value=1.7e-12  Score=115.25  Aligned_cols=72  Identities=26%  Similarity=0.555  Sum_probs=60.8

Q ss_pred             cCCCCCcccccccccccccceeccCCCCccchhHHHHHhhc-CCCCCCCcCCCcc------ccCCCccHHHHHHHHHHHh
Q 035975          131 NGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVE-KARCPKCFSSKCR------LEDLLPNVSLRQAIEHFLE  203 (685)
Q Consensus       131 ~e~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~-~~sCPvCR~~~~~------~~~L~pN~~L~nLVe~~re  203 (685)
                      ...+.+++.|+||+++|.+|++++| ||+||..||..|+.. ...||+||..+..      ..++.+|..|.+++..+..
T Consensus         9 ~~~~~~~~~C~iC~~~~~~p~~~~C-gH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~n~~l~~~i~~~~p   87 (115)
T 3l11_A            9 AIPSLSECQCGICMEILVEPVTLPC-NHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRRNSLVNVELWTIIQKHYP   87 (115)
T ss_dssp             CCCCHHHHBCTTTCSBCSSCEECTT-SCEECHHHHCCCCCTTTSBCTTTCCBCHHHHHHHHHTTCCBCHHHHHHHHHHSH
T ss_pred             ccCCCCCCCCccCCcccCceeEcCC-CCHHhHHHHHHHHhHCcCCCCCCCcccCccccccccccchhhHHHHHHHHHHCC
Confidence            3456678999999999999999998 999999999999876 4689999985432      4678889999999988754

>4ayc_A E3 ubiquitin-protein ligase RNF8; DNA damage, K63 chains; HET: CPQ; 1.90A {Homo sapiens} PDB: 4epo_C

Probab=99.21  E-value=3.3e-12  Score=117.52  Aligned_cols=66  Identities=32%  Similarity=0.677  Sum_probs=53.4

Q ss_pred             CCCcccccccccccccceeccCCCCccchhHHHHHhhcCCCCCCCcCCCccccCCCccHHHHHHHHHHHh
Q 035975          134 FPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQAIEHFLE  203 (685)
Q Consensus       134 LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~~~~~~~L~pN~~L~nLVe~~re  203 (685)
                      ++++++|+||+++|.+|++++| ||+||..||..|+.....||+||..+.   ....+..+.++|..+..
T Consensus        50 ~~~~~~C~iC~~~~~~~~~~~C-gH~fc~~Ci~~~~~~~~~CP~Cr~~~~---~~~~~~~~~~~i~~~~~  115 (138)
T 4ayc_A           50 LENELQCIICSEYFIEAVTLNC-AHSFCSYCINEWMKRKIECPICRKDIK---SKTYSLVLDNCINKMVN  115 (138)
T ss_dssp             HHHHSBCTTTCSBCSSEEEETT-SCEEEHHHHHHHTTTCSBCTTTCCBCC---CEEECHHHHHHHHHHHT
T ss_pred             ccccCCCcccCcccCCceECCC-CCCccHHHHHHHHHcCCcCCCCCCcCC---CCCCccchhHHHHHHHH
Confidence            4567899999999999999998 999999999999998889999997532   23345666666665543

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

Probab=99.19  E-value=1.3e-11  Score=101.27  Aligned_cols=59  Identities=29%  Similarity=0.624  Sum_probs=49.5

Q ss_pred             cccCCCCCcccccccccccccceec-cCCCCccchhHHHHHhhcCCCCCCCcCCCccccCCC
Q 035975          129 MENGNFPSELKCSLCNTLFKEAVMI-PCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLL  189 (685)
Q Consensus       129 ~~~e~LeeeLtCPIClelf~dPVtL-pCCGHSFC~~CI~~~lk~~~sCPvCR~~~~~~~~L~  189 (685)
                      ...+.+++.+.|+||++.|.+|+++ +| ||+||..||..|+.....||+||.. +...++.
T Consensus         7 ~~~~~~~~~~~C~IC~~~~~~p~~~~~C-gH~fC~~Ci~~~~~~~~~CP~Cr~~-~~~~~~~   66 (72)
T 2djb_A            7 GNLSELTPYILCSICKGYLIDATTITEC-LHTFCKSCIVRHFYYSNRCPKCNIV-VHQTQPL   66 (72)
T ss_dssp             CCCCCCCGGGSCTTTSSCCSSCEECSSS-CCEECHHHHHHHHHHCSSCTTTCCC-CCSSCSC
T ss_pred             hhHhhcCCCCCCCCCChHHHCcCEECCC-CCHHHHHHHHHHHHcCCcCCCcCcc-cCccccc
Confidence            3456788899999999999999998 76 9999999999999888899999974 3334443

>1jm7_A BRCA1, breast cancer type 1 susceptibility protein; ring finger, zinc-binding protein, heterodimer, ubiquitin ligase, antitumor; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=99.16  E-value=5.3e-12  Score=110.59  Aligned_cols=68  Identities=31%  Similarity=0.677  Sum_probs=56.6

Q ss_pred             CCCcccccccccccccceeccCCCCccchhHHHHHhhcC---CCCCCCcCCCccccCCCccHHHHHHHHHHHh
Q 035975          134 FPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEK---ARCPKCFSSKCRLEDLLPNVSLRQAIEHFLE  203 (685)
Q Consensus       134 LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~---~sCPvCR~~~~~~~~L~pN~~L~nLVe~~re  203 (685)
                      +.+.+.|+||++.|.+|++++| ||+||..||..|+...   ..||+||. ......+.+|..+.++++.++.
T Consensus        18 ~~~~~~C~IC~~~~~~p~~~~C-gH~fC~~Ci~~~~~~~~~~~~CP~Cr~-~~~~~~~~~~~~l~~~~~~~~~   88 (112)
T 1jm7_A           18 MQKILECPICLELIKEPVSTKC-DHIFCKFCMLKLLNQKKGPSQCPLCKN-DITKRSLQESTRFSQLVEELLK   88 (112)
T ss_dssp             HHHHTSCSSSCCCCSSCCBCTT-SCCCCSHHHHHHHHSSSSSCCCTTTSC-CCCTTTCBCCCSSSHHHHHHHH
T ss_pred             ccCCCCCcccChhhcCeEECCC-CCHHHHHHHHHHHHhCCCCCCCcCCCC-cCCHhhcCccHHHHHHHHHHHH
Confidence            4557899999999999999998 9999999999999865   48999997 4556777788777777776654

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

Probab=99.14  E-value=1.2e-11  Score=103.85  Aligned_cols=65  Identities=26%  Similarity=0.638  Sum_probs=52.0

Q ss_pred             cccCCCCCccccccccccccc----ceeccCCCCccchhHHHHHhhcC---CCCCCCcCCCcc--ccCCCccHHH
Q 035975          129 MENGNFPSELKCSLCNTLFKE----AVMIPCCQHSFCEKCIRLVLVEK---ARCPKCFSSKCR--LEDLLPNVSL  194 (685)
Q Consensus       129 ~~~e~LeeeLtCPIClelf~d----PVtLpCCGHSFC~~CI~~~lk~~---~sCPvCR~~~~~--~~~L~pN~~L  194 (685)
                      ...+.+.+.+.|+||++.|.+    |+.++| ||+||..||..|+...   ..||.||..+..  ...|..|+.+
T Consensus         7 ~~~~~~~~~~~C~IC~~~~~~~~~~~~~~~C-gH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~i~~l~~n~~~   80 (88)
T 2ct2_A            7 GNLDALREVLECPICMESFTEEQLRPKLLHC-GHTICRQCLEKLLASSINGVRCPFCSKITRITSLTQLTDNLTV   80 (88)
T ss_dssp             CSCCCCCSCCBCTTTCCBCCTTSSCEEECSS-SCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCSSTTTSEECTTT
T ss_pred             cChhhccCCCCCccCCccccccCCCeEECCC-CChhhHHHHHHHHHcCCCCcCCCCCCCcccchhHHHHHHHHHH
Confidence            445678889999999999999    999998 9999999999999875   689999984322  2445555433

>3hct_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 3hcu_A 2eci_A 2jmd_A

Probab=99.14  E-value=1.9e-11  Score=109.45  Aligned_cols=68  Identities=26%  Similarity=0.583  Sum_probs=57.9

Q ss_pred             cCCCCCcccccccccccccceeccCCCCccchhHHHHHhhcCC-CCCCCcCCCccccCCCccHHHHHHHHH
Q 035975          131 NGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKA-RCPKCFSSKCRLEDLLPNVSLRQAIEH  200 (685)
Q Consensus       131 ~e~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~~-sCPvCR~~~~~~~~L~pN~~L~nLVe~  200 (685)
                      ...+.+.+.|+||+++|.+|++++| ||+||..||..|+.... .||+||.. .....+.++..+.++|..
T Consensus        12 ~~~~~~~~~C~IC~~~~~~p~~~~C-gH~fC~~Ci~~~~~~~~~~CP~Cr~~-~~~~~~~~~~~l~~~i~~   80 (118)
T 3hct_A           12 DPPLESKYECPICLMALREAVQTPC-GHRFCKACIIKSIRDAGHKCPVDNEI-LLENQLFPDNFAKREILS   80 (118)
T ss_dssp             SSCCCGGGBCTTTCSBCSSEEECTT-SCEEEHHHHHHHHHHHCSBCTTTCCB-CCGGGCEECHHHHHHHHT
T ss_pred             ccCCCCCCCCCcCChhhcCeEECCc-CChhhHHHHHHHHhhCCCCCCCCCCC-cCHHhcccCHHHHHHHcc
Confidence            4568889999999999999999997 99999999999998765 89999974 555677788877777654

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

Probab=99.13  E-value=4.4e-11  Score=96.35  Aligned_cols=51  Identities=25%  Similarity=0.651  Sum_probs=45.1

Q ss_pred             cCCCCCcccccccccccccceeccCCCCccchhHHHHHhh-cCCCCCCCcCCC
Q 035975          131 NGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLV-EKARCPKCFSSK  182 (685)
Q Consensus       131 ~e~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk-~~~sCPvCR~~~  182 (685)
                      .+.+.+.+.|+||++.+.+|+.++| ||+||..||..|+. ....||+||..+
T Consensus         9 ~~~~~~~~~C~IC~~~~~~p~~~~C-gH~fC~~Ci~~~~~~~~~~CP~Cr~~~   60 (66)
T 2ecy_A            9 VKTVEDKYKCEKCHLVLCSPKQTEC-GHRFCESCMAALLSSSSPKCTACQESI   60 (66)
T ss_dssp             CCSCCCCEECTTTCCEESSCCCCSS-SCCCCHHHHHHHHTTSSCCCTTTCCCC
T ss_pred             hhcCCcCCCCCCCChHhcCeeECCC-CCHHHHHHHHHHHHhCcCCCCCCCcCC
Confidence            4567889999999999999999998 99999999999995 456899999743

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

Probab=99.12  E-value=4.4e-11  Score=97.40  Aligned_cols=50  Identities=32%  Similarity=0.760  Sum_probs=44.6

Q ss_pred             cCCCCCcccccccccccccceeccCCCCccchhHHHHHhhc---CCCCCCCcCC
Q 035975          131 NGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVE---KARCPKCFSS  181 (685)
Q Consensus       131 ~e~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~---~~sCPvCR~~  181 (685)
                      .+.+.+.+.|+||++.|.+|++++| ||+||..||..|+..   ...||+||..
T Consensus        14 ~~~~~~~~~C~IC~~~~~~~~~~~C-gH~fC~~Ci~~~~~~~~~~~~CP~Cr~~   66 (73)
T 2ysl_A           14 VNKLQEEVICPICLDILQKPVTIDC-GHNFCLKCITQIGETSCGFFKCPLCKTS   66 (73)
T ss_dssp             CCCCCCCCBCTTTCSBCSSEEECTT-CCEEEHHHHHHHCSSSCSCCCCSSSCCC
T ss_pred             HHhCccCCEeccCCcccCCeEEcCC-CChhhHHHHHHHHHcCCCCCCCCCCCCc
Confidence            4567889999999999999999998 999999999999973   4589999974

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

Probab=99.11  E-value=4.4e-11  Score=95.35  Aligned_cols=48  Identities=31%  Similarity=0.762  Sum_probs=42.8

Q ss_pred             ccCCCCCcccccccccccccceeccCCCCccchhHHHHHhhc---CCCCCCC
Q 035975          130 ENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVE---KARCPKC  178 (685)
Q Consensus       130 ~~e~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~---~~sCPvC  178 (685)
                      ..+.+.+++.|+||++.|.+|++++| ||+||..||..|+..   ...||+|
T Consensus        13 ~~~~~~~~~~C~IC~~~~~~p~~~~C-gH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           13 FVNKLQEEVICPICLDILQKPVTIDC-GHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCCCCCBCTTTCSBCSSCEECTT-SSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             HHHhCccCCCCCcCCchhCCeEEeCC-CCcchHHHHHHHHHcCCCCCcCcCC
Confidence            34668889999999999999999998 999999999999984   4589998

>1rmd_A RAG1; V(D)J recombination, antibody, MAD, ring finger, zinc binuclear cluster, zinc finger, DNA-binding protein; 2.10A {Mus musculus} SCOP: g.37.1.1 g.44.1.1

Probab=99.10  E-value=1.9e-11  Score=108.62  Aligned_cols=66  Identities=24%  Similarity=0.557  Sum_probs=51.8

Q ss_pred             CCCcccccccccccccceeccCCCCccchhHHHHHhhc-CCCCCCCcCCCccccCCCccHHHHHHHHH
Q 035975          134 FPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVE-KARCPKCFSSKCRLEDLLPNVSLRQAIEH  200 (685)
Q Consensus       134 LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~-~~sCPvCR~~~~~~~~L~pN~~L~nLVe~  200 (685)
                      +.+.+.|+||+++|.+|++++| ||+||..||..|+.. ...||+||..+.......++..+.+++..
T Consensus        20 ~~~~~~C~IC~~~~~~p~~~~C-gH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~l~~~i~~   86 (116)
T 1rmd_A           20 FVKSISCQICEHILADPVETSC-KHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESPVKSFLNILNS   86 (116)
T ss_dssp             HHHHTBCTTTCSBCSSEEECTT-SCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCBCCCHHHHHHHHH
T ss_pred             ccCCCCCCCCCcHhcCcEEcCC-CCcccHHHHHHHHhHCcCcCCCCCCCCCHhhccccHHHHHHHHHH
Confidence            4567899999999999999998 999999999999987 57899999854433333455555555533

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

Probab=99.05  E-value=5.6e-11  Score=97.22  Aligned_cols=50  Identities=24%  Similarity=0.553  Sum_probs=44.7

Q ss_pred             CCCCCcccccccccccccceeccCCCCccchhHHHHHhhcCCCCCCCcCCC
Q 035975          132 GNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSK  182 (685)
Q Consensus       132 e~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~~  182 (685)
                      ....+.+.|+||++.|.+|+.++| ||+||..||..|+.....||+||..+
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~~C-gH~fC~~Ci~~~~~~~~~CP~Cr~~~   59 (71)
T 2d8t_A           10 APSLTVPECAICLQTCVHPVSLPC-KHVFCYLCVKGASWLGKRCALCRQEI   59 (71)
T ss_dssp             CSSSSCCBCSSSSSBCSSEEEETT-TEEEEHHHHHHCTTCSSBCSSSCCBC
T ss_pred             ccCCCCCCCccCCcccCCCEEccC-CCHHHHHHHHHHHHCCCcCcCcCchh
Confidence            345668999999999999999997 99999999999998888999999743

>2ecj_A Tripartite motif-containing protein 39; TRIM39, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.03  E-value=1.4e-10  Score=90.30  Aligned_cols=48  Identities=38%  Similarity=0.827  Sum_probs=42.1

Q ss_pred             ccCCCCCcccccccccccccceeccCCCCccchhHHHHHhhc---CCCCCCC
Q 035975          130 ENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVE---KARCPKC  178 (685)
Q Consensus       130 ~~e~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~---~~sCPvC  178 (685)
                      ..+.+.+.+.|+||++.+.+|++++| ||+||..||..|+..   ...||+|
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~p~~~~C-gH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A            8 ALENLQVEASCSVCLEYLKEPVIIEC-GHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CSSCSCCCCBCSSSCCBCSSCCCCSS-CCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             HhhccccCCCCccCCcccCccEeCCC-CCccCHHHHHHHHHhcCCCCCCCCC
Confidence            34667889999999999999999998 999999999999653   4689998

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

Probab=99.03  E-value=1.3e-10  Score=93.09  Aligned_cols=50  Identities=28%  Similarity=0.689  Sum_probs=45.3

Q ss_pred             cCCCCCcccccccccccccc-------eeccCCCCccchhHHHHHhhcCCCCCCCcCC
Q 035975          131 NGNFPSELKCSLCNTLFKEA-------VMIPCCQHSFCEKCIRLVLVEKARCPKCFSS  181 (685)
Q Consensus       131 ~e~LeeeLtCPIClelf~dP-------VtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~  181 (685)
                      ...+.+.+.|+||++.|.+|       +.++| ||.||..||..|+.....||+||..
T Consensus         9 ~~~~~~~~~C~IC~~~~~~~~~~~~~~~~~~C-gH~fc~~Ci~~~~~~~~~CP~Cr~~   65 (69)
T 2ea6_A            9 GLRPSGTVSCPICMDGYSEIVQNGRLIVSTEC-GHVFCSQCLRDSLKNANTCPTCRKK   65 (69)
T ss_dssp             CCCTTCCCCCTTTCCCHHHHTTTTCCEEECSS-SCEEEHHHHHHHHHHCSSCTTTCCC
T ss_pred             ccCCCCCCCCcccCccccccccccCCeEeCCC-CChhcHHHHHHHHHcCCCCCCCCCc
Confidence            45677899999999999998       88898 9999999999999988899999974

>3ng2_A RNF4, snurf, ring finger protein 4; ring domain, E3 ligase, ubiquitylation, sumoylation, zinc-FI metal binding protein; 1.80A {Rattus norvegicus}

Probab=99.02  E-value=1.2e-10  Score=94.19  Aligned_cols=56  Identities=27%  Similarity=0.644  Sum_probs=47.3

Q ss_pred             CCCcccccccccccccc-------eeccCCCCccchhHHHHHhhcCCCCCCCcCCCccccCCCcc
Q 035975          134 FPSELKCSLCNTLFKEA-------VMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPN  191 (685)
Q Consensus       134 LeeeLtCPIClelf~dP-------VtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~~~~~~~L~pN  191 (685)
                      ..+++.|+||++.|.+|       +.++| ||+||..||..|+.....||+||.. .....+.++
T Consensus         7 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~C-gH~fc~~Ci~~~~~~~~~CP~Cr~~-~~~~~~~~~   69 (71)
T 3ng2_A            7 PSGTVSCPICMDGYSEIVQNGRLIVSTEC-GHVFCSQCLRDSLKNANTCPTCRKK-INHKRYHPI   69 (71)
T ss_dssp             CTTCCBCTTTCCBHHHHHTTTCCEEECTT-SCEEEHHHHHHHHHHCSBCTTTCCB-CCCCSCCCC
T ss_pred             CCCCCCCcccChhhhccccccCCeEeCCC-CChHhHHHHHHHHHcCCCCCCCCCc-cChhheeec
Confidence            45689999999999998       88898 9999999999999988999999974 444555443

>3knv_A TNF receptor-associated factor 2; cross-brace, alternative splicing, apoptosis, cytoplasm, metal-binding, UBL conjugation, zinc, zinc-finger; 1.90A {Homo sapiens}

Probab=99.01  E-value=5.2e-11  Score=110.99  Aligned_cols=67  Identities=19%  Similarity=0.596  Sum_probs=53.3

Q ss_pred             CCCCCcccccccccccccceeccCCCCccchhHHHHHhhcCC-CCCCCcCCCc--------cccCCCccHHHHHHHH
Q 035975          132 GNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKA-RCPKCFSSKC--------RLEDLLPNVSLRQAIE  199 (685)
Q Consensus       132 e~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~~-sCPvCR~~~~--------~~~~L~pN~~L~nLVe  199 (685)
                      +.+++.+.|+||+++|.+|++++| ||+||..||..|+.... .||+||..+.        ....+.++..+.++|.
T Consensus        26 ~~l~~~~~C~IC~~~~~~pv~~~C-gH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~l~~~~~~~d~~~~~~i~  101 (141)
T 3knv_A           26 TKLEAKYLCSACRNVLRRPFQAQC-GHRYCSFCLASILSSGPQNCAACVHEGIYEEGISILESSSAFPDNAARREVE  101 (141)
T ss_dssp             GGCCGGGBCTTTCSBCSSEEECTT-SCEEEHHHHHHHGGGSCEECHHHHHTTCCCTTTTEECGGGCEECHHHHHHHH
T ss_pred             ccCCcCcCCCCCChhhcCcEECCC-CCccCHHHHHHHHhcCCCCCCCCCCcccccccccccchhhhcccHHHHHHHc
Confidence            457889999999999999999998 99999999999998664 8999997432        1234556666665554

>3htk_C E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-ring, ring, ATP-binding, chromosomal protein, coiled coil, DNA damage; 2.31A {Saccharomyces cerevisiae}

Probab=99.00  E-value=1.5e-10  Score=118.80  Aligned_cols=70  Identities=17%  Similarity=0.325  Sum_probs=61.1

Q ss_pred             CCCCCcccccccccccccceec-cCCCCccchhHHHHHhhcC--CCCCC--CcCCCccccCCCccHHHHHHHHHHHh
Q 035975          132 GNFPSELKCSLCNTLFKEAVMI-PCCQHSFCEKCIRLVLVEK--ARCPK--CFSSKCRLEDLLPNVSLRQAIEHFLE  203 (685)
Q Consensus       132 e~LeeeLtCPIClelf~dPVtL-pCCGHSFC~~CI~~~lk~~--~sCPv--CR~~~~~~~~L~pN~~L~nLVe~~re  203 (685)
                      .....+++||||+++|.+||++ .| ||+||+.||..||...  ..||+  |++ .+...+|.+|..|.++|+.++.
T Consensus       176 ~~~~~el~CPIcl~~f~DPVts~~C-GHsFcR~cI~~~~~~~~~~~CPvtGCr~-~l~~~dL~pN~~L~~lve~~k~  250 (267)
T 3htk_C          176 EGGKIELTCPITCKPYEAPLISRKC-NHVFDRDGIQNYLQGYTTRDCPQAACSQ-VVSMRDFVRDPIMELRCKIAKM  250 (267)
T ss_dssp             CSSBCCSBCTTTSSBCSSEEEESSS-CCEEEHHHHHHHSTTCSCEECSGGGCSC-EECGGGEEECHHHHHHHHHHHH
T ss_pred             cCCceeeECcCccCcccCCeeeCCC-CCcccHHHHHHHHHhCCCCCCCcccccC-cCchhhCCcCHHHHHHHHHHHH
Confidence            3456789999999999999986 66 9999999999999764  47999  997 5678899999999999988765

>3hcs_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.20A {Homo sapiens}

Probab=99.00  E-value=1.6e-10  Score=109.03  Aligned_cols=68  Identities=26%  Similarity=0.576  Sum_probs=57.1

Q ss_pred             cCCCCCcccccccccccccceeccCCCCccchhHHHHHhhcC-CCCCCCcCCCccccCCCccHHHHHHHHH
Q 035975          131 NGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEK-ARCPKCFSSKCRLEDLLPNVSLRQAIEH  200 (685)
Q Consensus       131 ~e~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~-~sCPvCR~~~~~~~~L~pN~~L~nLVe~  200 (685)
                      ...+.+.|.|+||+++|.+|++++| ||+||..||..|+... ..||+||.. +....+.++..+.++|..
T Consensus        12 ~~~~~~~~~C~IC~~~~~~pv~~~C-gH~fC~~Ci~~~~~~~~~~CP~Cr~~-~~~~~~~~~~~~~~~i~~   80 (170)
T 3hcs_A           12 DPPLESKYECPICLMALREAVQTPC-GHRFCKACIIKSIRDAGHKCPVDNEI-LLENQLFPDNFAKREILS   80 (170)
T ss_dssp             SSCCCGGGBCTTTCSBCSSEEECTT-SCEEEHHHHHHHHHHHCSBCTTTCCB-CCGGGCEECHHHHHHHHT
T ss_pred             ccCCCCCCCCCCCChhhcCcEECCC-CCHHHHHHHHHHHHhCCCCCCCCccC-cchhhhhhhHHHHHHHhh
Confidence            4568889999999999999999998 9999999999999765 489999974 455667788777776654

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

Probab=98.92  E-value=6.2e-10  Score=92.02  Aligned_cols=53  Identities=28%  Similarity=0.632  Sum_probs=44.6

Q ss_pred             ccCCCCCcccccccccccccc---eeccCCCCccchhHHHHHhhcCCCCCCCcCCCc
Q 035975          130 ENGNFPSELKCSLCNTLFKEA---VMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKC  183 (685)
Q Consensus       130 ~~e~LeeeLtCPIClelf~dP---VtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~~~  183 (685)
                      ..+.+...+.|+||++.|.++   +.++| ||.||..||..|+.....||+||..+.
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~~~~~~~~~C-~H~fc~~Ci~~~~~~~~~CP~Cr~~~~   63 (78)
T 2ect_A            8 TEEHVGSGLECPVCKEDYALGESVRQLPC-NHLFHDSCIVPWLEQHDSCPVCRKSLT   63 (78)
T ss_dssp             CCTTSSSSCCCTTTTSCCCTTSCEEECTT-SCEEETTTTHHHHTTTCSCTTTCCCCC
T ss_pred             CcccCCCCCCCeeCCccccCCCCEEEeCC-CCeecHHHHHHHHHcCCcCcCcCCccC
Confidence            345567789999999999876   45687 999999999999988889999998543

>1g25_A CDK-activating kinase assembly factor MAT1; ring finger (C3HC4), metal binding protein; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=98.91  E-value=6.5e-10  Score=89.23  Aligned_cols=54  Identities=26%  Similarity=0.753  Sum_probs=43.6

Q ss_pred             Cccccccccc-ccccc----eeccCCCCccchhHHHHHhhcC-CCCCCCcCCCccccCCCcc
Q 035975          136 SELKCSLCNT-LFKEA----VMIPCCQHSFCEKCIRLVLVEK-ARCPKCFSSKCRLEDLLPN  191 (685)
Q Consensus       136 eeLtCPICle-lf~dP----VtLpCCGHSFC~~CI~~~lk~~-~sCPvCR~~~~~~~~L~pN  191 (685)
                      +++.|+||++ +|.+|    ++++| ||+||..||..|+... ..||+||.. ....++.++
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~C-gH~fC~~Ci~~~~~~~~~~CP~Cr~~-~~~~~~~~~   61 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNVC-GHTLCESCVDLLFVRGAGNCPECGTP-LRKSNFRVQ   61 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTT-CCCEEHHHHHHHHHTTSSSCTTTCCC-CSSCCCEEE
T ss_pred             CCCcCCcCCCCccCCCccCeecCCC-CCHhHHHHHHHHHHcCCCcCCCCCCc-cccccceee
Confidence            4688999999 99999    46887 9999999999997654 579999974 445555544

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

Probab=98.91  E-value=8.3e-10  Score=90.41  Aligned_cols=55  Identities=27%  Similarity=0.549  Sum_probs=46.6

Q ss_pred             ccCCCCCcccccccccccccceec---cCCCCccchhHHHHHhhcCCCCCCCcCCCccc
Q 035975          130 ENGNFPSELKCSLCNTLFKEAVMI---PCCQHSFCEKCIRLVLVEKARCPKCFSSKCRL  185 (685)
Q Consensus       130 ~~e~LeeeLtCPIClelf~dPVtL---pCCGHSFC~~CI~~~lk~~~sCPvCR~~~~~~  185 (685)
                      ...++.++..|+||++.|.++..+   +| +|.||..||..|+.....||+||..+...
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~~~~~~~~~C-~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~   65 (74)
T 2ep4_A            8 KVKELNLHELCAVCLEDFKPRDELGICPC-KHAFHRKCLIKWLEVRKVCPLCNMPVLQL   65 (74)
T ss_dssp             CCCCCCCSCBCSSSCCBCCSSSCEEEETT-TEEEEHHHHHHHHHHCSBCTTTCCBCSSC
T ss_pred             ccccCCCCCCCcCCCcccCCCCcEEEcCC-CCEecHHHHHHHHHcCCcCCCcCcccccc
Confidence            345677889999999999887655   87 99999999999999888999999865443

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

Probab=98.91  E-value=3.4e-10  Score=89.35  Aligned_cols=52  Identities=27%  Similarity=0.677  Sum_probs=43.9

Q ss_pred             Ccccccccccccccc-------eeccCCCCccchhHHHHHhhcCCCCCCCcCCCccccCCC
Q 035975          136 SELKCSLCNTLFKEA-------VMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLL  189 (685)
Q Consensus       136 eeLtCPIClelf~dP-------VtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~~~~~~~L~  189 (685)
                      +.+.|+||++.|.+|       +.++| ||.||..||..|+.....||+||.. ....++.
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~C-gH~fc~~Ci~~~~~~~~~CP~Cr~~-~~~~~~~   60 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTEC-GHVFCSQCLRDSLKNANTCPTCRKK-INHKRYH   60 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETT-SCEEEHHHHHHHHHHCSBCTTTCCB-CTTTCEE
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCC-CCchhHHHHHHHHHcCCCCCCCCcc-CCcccee
Confidence            468899999999998       78898 9999999999999988899999974 3333433

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

Probab=98.86  E-value=1.9e-09  Score=91.47  Aligned_cols=52  Identities=19%  Similarity=0.547  Sum_probs=42.3

Q ss_pred             cCCCCCcccccccccccc--cceecc--CCCCccchhHHHHHhhc-CCCCCCCcCCCc
Q 035975          131 NGNFPSELKCSLCNTLFK--EAVMIP--CCQHSFCEKCIRLVLVE-KARCPKCFSSKC  183 (685)
Q Consensus       131 ~e~LeeeLtCPIClelf~--dPVtLp--CCGHSFC~~CI~~~lk~-~~sCPvCR~~~~  183 (685)
                      ...++++++||||++.+.  ++++++  | ||+||..||..++.. ...||.||+.+.
T Consensus         5 ~~~~~~~~~CpICle~~~~~d~~~~p~~C-GH~fC~~Cl~~~~~~~~~~CP~CR~~~~   61 (78)
T 1e4u_A            5 PDAKEDPVECPLCMEPLEIDDINFFPCTC-GYQICRFCWHRIRTDENGLCPACRKPYP   61 (78)
T ss_dssp             SCCCCCCCBCTTTCCBCCTTTTTCCSSTT-SCCCCHHHHHHHTTSSCSBCTTTCCBCS
T ss_pred             ccccccCCcCCccCccCccccccccccCC-CCCcCHHHHHHHHhcCCCCCCCCCCccC
Confidence            356788999999999884  566666  6 999999999999854 468999998543

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

Probab=98.85  E-value=6.8e-10  Score=90.03  Aligned_cols=51  Identities=29%  Similarity=0.691  Sum_probs=45.2

Q ss_pred             cCCCCCcccccccccccccceeccCCCCccchhHHHHHhhcCCCCCCCcCCCc
Q 035975          131 NGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKC  183 (685)
Q Consensus       131 ~e~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~~~  183 (685)
                      ...+.+.+.|+||++.+.+ +.++| ||+||..||..|+.....||+||..+.
T Consensus         9 ~~~~~~~~~C~IC~~~~~~-~~~~C-gH~fc~~Ci~~~~~~~~~CP~Cr~~~~   59 (70)
T 2ecn_A            9 VKQLTDEEECCICMDGRAD-LILPC-AHSFCQKCIDKWSDRHRNCPICRLQMT   59 (70)
T ss_dssp             CCCCCCCCCCSSSCCSCCS-EEETT-TEEECHHHHHHSSCCCSSCHHHHHCTT
T ss_pred             hhcCCCCCCCeeCCcCccC-cccCC-CCcccHHHHHHHHHCcCcCCCcCCccc
Confidence            3567788999999999999 99998 999999999999988889999997543

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

Probab=98.84  E-value=9.6e-10  Score=86.87  Aligned_cols=45  Identities=27%  Similarity=0.690  Sum_probs=39.2

Q ss_pred             CCcccccccccccccceeccCCCCccchhHHHHHhhcCCCCCCCcCCCc
Q 035975          135 PSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKC  183 (685)
Q Consensus       135 eeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~~~  183 (685)
                      .+.++|+||++.|.+|++|+| ||+||..||..   ....||+||+.+.
T Consensus         4 ~~~~~C~IC~~~~~~p~~l~C-gH~fC~~Ci~~---~~~~CP~Cr~~~~   48 (56)
T 1bor_A            4 FQFLRCQQCQAEAKCPKLLPC-LHTLCSGCLEA---SGMQCPICQAPWP   48 (56)
T ss_dssp             CCCSSCSSSCSSCBCCSCSTT-SCCSBTTTCSS---SSSSCSSCCSSSS
T ss_pred             ccCCCceEeCCccCCeEEcCC-CCcccHHHHcc---CCCCCCcCCcEee
Confidence            568999999999999999998 99999999976   2568999998543

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

Probab=98.82  E-value=2.3e-09  Score=82.87  Aligned_cols=47  Identities=26%  Similarity=0.766  Sum_probs=42.2

Q ss_pred             CCCccccccccccccc---ceecc-CCCCccchhHHHHHhhcCCCCCCCcCC
Q 035975          134 FPSELKCSLCNTLFKE---AVMIP-CCQHSFCEKCIRLVLVEKARCPKCFSS  181 (685)
Q Consensus       134 LeeeLtCPIClelf~d---PVtLp-CCGHSFC~~CI~~~lk~~~sCPvCR~~  181 (685)
                      +.+...|+||++.|.+   ++.++ | ||.||..||..|+.....||+||+.
T Consensus         2 ~~~~~~C~IC~~~~~~~~~~~~~~~C-~H~f~~~Ci~~w~~~~~~CP~Cr~~   52 (55)
T 1iym_A            2 MDDGVECAVCLAELEDGEEARFLPRC-GHGFHAECVDMWLGSHSTCPLCRLT   52 (55)
T ss_dssp             CCCSCCCTTTCCCCCTTSCCEECSSS-CCEECTTHHHHTTTTCCSCSSSCCC
T ss_pred             CCCCCcCccCCccccCCCceEECCCC-CCcccHHHHHHHHHcCCcCcCCCCE
Confidence            4678899999999988   78887 6 9999999999999988899999974

>2kiz_A E3 ubiquitin-protein ligase arkadia; ring-H2 finger, E3 ligase, Zn binding domain, metal zinc, zinc-finger, metal binding protein; NMR {Homo sapiens}

Probab=98.80  E-value=3.7e-09  Score=85.42  Aligned_cols=50  Identities=26%  Similarity=0.700  Sum_probs=42.7

Q ss_pred             CCCCCcccccccccccc---cceeccCCCCccchhHHHHHhhcCCCCCCCcCCC
Q 035975          132 GNFPSELKCSLCNTLFK---EAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSK  182 (685)
Q Consensus       132 e~LeeeLtCPIClelf~---dPVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~~  182 (685)
                      ........|+||++.|.   .++.++| ||.||..||..|+.....||+||..+
T Consensus         9 ~~~~~~~~C~IC~~~~~~~~~~~~~~C-~H~fc~~Ci~~~~~~~~~CP~Cr~~~   61 (69)
T 2kiz_A            9 TEEDTEEKCTICLSILEEGEDVRRLPC-MHLFHQVCVDQWLITNKKCPICRVDI   61 (69)
T ss_dssp             CSTTCCCSBTTTTBCCCSSSCEEECTT-SCEEEHHHHHHHHHHCSBCTTTCSBS
T ss_pred             CcCCCCCCCeeCCccccCCCcEEEeCC-CCHHHHHHHHHHHHcCCCCcCcCccc
Confidence            44566889999999885   4678897 99999999999999888999999743

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

Probab=98.79  E-value=2.5e-09  Score=86.02  Aligned_cols=47  Identities=26%  Similarity=0.655  Sum_probs=41.6

Q ss_pred             CCcccccccccccccc-eeccCCCCccchhHHHHHhhcCCCCCCCcCCC
Q 035975          135 PSELKCSLCNTLFKEA-VMIPCCQHSFCEKCIRLVLVEKARCPKCFSSK  182 (685)
Q Consensus       135 eeeLtCPIClelf~dP-VtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~~  182 (685)
                      .....|+||++.+.+| +.++| ||+||..||..|+.....||.||..+
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~C-~H~fc~~Ci~~~~~~~~~CP~Cr~~~   50 (68)
T 1chc_A            3 TVAERCPICLEDPSNYSMALPC-LHAFCYVCITRWIRQNPTCPLCKVPV   50 (68)
T ss_dssp             CCCCCCSSCCSCCCSCEEETTT-TEEESTTHHHHHHHHSCSTTTTCCCC
T ss_pred             CCCCCCeeCCccccCCcEecCC-CCeeHHHHHHHHHhCcCcCcCCChhh
Confidence            3467899999999997 77887 99999999999998889999999754

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

Probab=98.78  E-value=2e-09  Score=95.59  Aligned_cols=47  Identities=30%  Similarity=0.771  Sum_probs=43.2

Q ss_pred             CCcccccccccccccc-------eeccCCCCccchhHHHHHhhcCCCCCCCcCCC
Q 035975          135 PSELKCSLCNTLFKEA-------VMIPCCQHSFCEKCIRLVLVEKARCPKCFSSK  182 (685)
Q Consensus       135 eeeLtCPIClelf~dP-------VtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~~  182 (685)
                      .+++.|+||++.|.+|       +.++| ||+||..||.+|+.....||+||+.+
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~C-gH~fc~~Ci~~~~~~~~~CP~Cr~~~   58 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTEC-GHVFCSQCLRDSLKNANTCPTCRKKI   58 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEETT-CCEEEHHHHHHHHTTCSBCTTTCCBC
T ss_pred             CCCCCCcccChhhhCccccccCeEecCC-CChhhHHHHHHHHHhCCCCCCCCCcC
Confidence            5689999999999999       99998 99999999999999888999999743

>2ecm_A Ring finger and CHY zinc finger domain- containing protein 1; RCHY1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2jrj_A

Probab=98.77  E-value=3.6e-09  Score=81.58  Aligned_cols=45  Identities=29%  Similarity=0.665  Sum_probs=40.4

Q ss_pred             Cccccccccccccc----ceeccCCCCccchhHHHHHhhcCCCCCCCcCC
Q 035975          136 SELKCSLCNTLFKE----AVMIPCCQHSFCEKCIRLVLVEKARCPKCFSS  181 (685)
Q Consensus       136 eeLtCPIClelf~d----PVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~  181 (685)
                      ....|+||++.|.+    ++.++| ||.||..||..|+.....||+||..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~C-gH~fc~~Ci~~~~~~~~~CP~Cr~~   52 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAHVLPC-GHLLHRTCYEEMLKEGYRCPLCSGP   52 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEEECTT-SCEEETTHHHHHHHHTCCCTTSCCS
T ss_pred             CCCcCcccChhhcCCCcCeEecCC-CCcccHHHHHHHHHcCCcCCCCCCc
Confidence            46789999999976    788887 9999999999999988999999974

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

Probab=98.75  E-value=4.8e-09  Score=86.38  Aligned_cols=48  Identities=27%  Similarity=0.677  Sum_probs=42.7

Q ss_pred             CCCcccccccccccccc---eeccCCCCccchhHHHHHhhcCCCCCCCcCCC
Q 035975          134 FPSELKCSLCNTLFKEA---VMIPCCQHSFCEKCIRLVLVEKARCPKCFSSK  182 (685)
Q Consensus       134 LeeeLtCPIClelf~dP---VtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~~  182 (685)
                      ..+...|+||++.|.++   +.++| +|.||..||..|+.....||+||+.+
T Consensus        20 ~~~~~~C~IC~~~~~~~~~~~~l~C-~H~fh~~Ci~~w~~~~~~CP~Cr~~~   70 (75)
T 1x4j_A           20 QSEQTLCVVCMCDFESRQLLRVLPC-NHEFHAKCVDKWLKANRTCPICRADS   70 (75)
T ss_dssp             SSSCCEETTTTEECCBTCEEEEETT-TEEEETTHHHHHHHHCSSCTTTCCCC
T ss_pred             cCCCCCCeECCcccCCCCeEEEECC-CCHhHHHHHHHHHHcCCcCcCcCCcC
Confidence            45678999999999988   78897 99999999999999889999999753

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

Probab=98.72  E-value=5.4e-09  Score=89.86  Aligned_cols=47  Identities=28%  Similarity=0.759  Sum_probs=42.4

Q ss_pred             CCCccccccccccccc---ceeccCCCCccchhHHHHHhhcCCCCCCCcCC
Q 035975          134 FPSELKCSLCNTLFKE---AVMIPCCQHSFCEKCIRLVLVEKARCPKCFSS  181 (685)
Q Consensus       134 LeeeLtCPIClelf~d---PVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~  181 (685)
                      ..++..|+||++.|.+   ++.++| ||.||..||..|+.....||+||..
T Consensus        37 ~~~~~~C~IC~~~~~~~~~~~~l~C-~H~Fh~~Ci~~wl~~~~~CP~Cr~~   86 (91)
T 2l0b_A           37 VGQEMCCPICCSEYVKGDVATELPC-HHYFHKPCVSIWLQKSGTCPVCRCM   86 (91)
T ss_dssp             SSSCSEETTTTEECCTTCEEEEETT-TEEEEHHHHHHHHTTTCBCTTTCCB
T ss_pred             cCCCCCCcccChhhcCCCcEEecCC-CChHHHHHHHHHHHcCCcCcCcCcc
Confidence            4567899999999987   888997 9999999999999988899999974

>1v87_A Deltex protein 2; ring-H2 domain, zinc-binding domain, notch signaling, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: g.44.1.1

Probab=98.69  E-value=1.1e-08  Score=90.23  Aligned_cols=47  Identities=23%  Similarity=0.559  Sum_probs=39.1

Q ss_pred             Ccccccccccccccce------------------eccCCCCccchhHHHHHhh-----cCCCCCCCcCCCc
Q 035975          136 SELKCSLCNTLFKEAV------------------MIPCCQHSFCEKCIRLVLV-----EKARCPKCFSSKC  183 (685)
Q Consensus       136 eeLtCPIClelf~dPV------------------tLpCCGHSFC~~CI~~~lk-----~~~sCPvCR~~~~  183 (685)
                      .+..|+||++.|.+|.                  .++| +|.||..||..|+.     ....||+||..+.
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C-~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~   93 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKC-SHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYG   93 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSS-CCEECHHHHHHHHHHTCCSSCCBCTTTCCBSS
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCCC-CCcccHHHHHHHHHcccCCCCCcCCCCCCccC
Confidence            4569999999998775                  6787 99999999999994     3468999997543

>4ic3_A E3 ubiquitin-protein ligase XIAP; ring domain, zinc-finger, E3 ligase; 1.78A {Homo sapiens} PDB: 4ic2_A

Probab=98.59  E-value=5.9e-09  Score=86.66  Aligned_cols=44  Identities=30%  Similarity=0.813  Sum_probs=39.2

Q ss_pred             CCCcccccccccccccceeccCCCCc-cchhHHHHHhhcCCCCCCCcCCC
Q 035975          134 FPSELKCSLCNTLFKEAVMIPCCQHS-FCEKCIRLVLVEKARCPKCFSSK  182 (685)
Q Consensus       134 LeeeLtCPIClelf~dPVtLpCCGHS-FC~~CI~~~lk~~~sCPvCR~~~  182 (685)
                      +.+++.|+||++.+.+|++++| ||+ ||..|+..|    ..||+||..+
T Consensus        21 ~~~~~~C~iC~~~~~~~~~~pC-gH~~~C~~C~~~~----~~CP~Cr~~i   65 (74)
T 4ic3_A           21 LQEEKLCKICMDRNIAIVFVPC-GHLVTCKQCAEAV----DKCPMCYTVI   65 (74)
T ss_dssp             HHHHTBCTTTSSSBCCEEEETT-CCBCCCHHHHTTC----SBCTTTCCBC
T ss_pred             CccCCCCCCCCCCCCCEEEcCC-CChhHHHHhhhcC----ccCCCcCcCc
Confidence            4457899999999999999998 999 999999876    7899999754

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

Probab=98.54  E-value=2e-08  Score=89.23  Aligned_cols=54  Identities=28%  Similarity=0.708  Sum_probs=45.6

Q ss_pred             CCcccccccccccccc-------eeccCCCCccchhHHHHHhhcCCCCCCCcCCCccccCCCc
Q 035975          135 PSELKCSLCNTLFKEA-------VMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLP  190 (685)
Q Consensus       135 eeeLtCPIClelf~dP-------VtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~~~~~~~L~p  190 (685)
                      .+.+.|+||++.|.+|       +.++| ||+||..||.+|+.....||+||.. .....+.+
T Consensus        70 ~~~~~C~iC~~~~~~~~~~~~~~~~~~C-gH~fc~~Ci~~~~~~~~~CP~Cr~~-~~~~~~~~  130 (133)
T 4ap4_A           70 SGTVSCPICMDGYSEIVQNGRLIVSTEC-GHVFCSQCLRDSLKNANTCPTCRKK-INHKRYHP  130 (133)
T ss_dssp             SSSCBCTTTCCBHHHHHHTTCCEEEETT-SBEEEHHHHHHHHHHCSBCTTTCCB-CCGGGEEE
T ss_pred             CCCCCCCCCCCccccccccCcceEeCCC-CChhhHHHHHHHHHcCCCCCCCCCc-CChhccee
Confidence            4578899999999998       88898 9999999999999999999999974 33444443

>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.52  E-value=1.8e-08  Score=83.63  Aligned_cols=43  Identities=28%  Similarity=0.777  Sum_probs=37.5

Q ss_pred             CCcccccccccccccceeccCCCCc-cchhHHHHHhhcCCCCCCCcCCC
Q 035975          135 PSELKCSLCNTLFKEAVMIPCCQHS-FCEKCIRLVLVEKARCPKCFSSK  182 (685)
Q Consensus       135 eeeLtCPIClelf~dPVtLpCCGHS-FC~~CI~~~lk~~~sCPvCR~~~  182 (685)
                      .+.+.|+||++.+.+|++++| ||. ||..|+..    ...||+||..+
T Consensus        23 ~~~~~C~IC~~~~~~~~~~pC-gH~~~C~~C~~~----~~~CP~Cr~~i   66 (75)
T 2ecg_A           23 QEEKLCKICMDRNIAIVFVPC-GHLVTCKQCAEA----VDKCPMCYTVI   66 (75)
T ss_dssp             HHHHSCSSSCSSCCCBCCSSS-CCCCBCHHHHHH----CSBCTTTCCBC
T ss_pred             CCCCCCCcCCCCCCCEEEecC-CCHHHHHHHhhC----CCCCccCCcee
Confidence            446789999999999999998 999 99999964    36899999754

>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=98.50  E-value=3.8e-08  Score=80.03  Aligned_cols=53  Identities=9%  Similarity=0.233  Sum_probs=45.4

Q ss_pred             cccccccccccccceec-cCCCCccchhHHHHHhhcCCCCCCCcCCCccccCCCcc
Q 035975          137 ELKCSLCNTLFKEAVMI-PCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPN  191 (685)
Q Consensus       137 eLtCPIClelf~dPVtL-pCCGHSFC~~CI~~~lk~~~sCPvCR~~~~~~~~L~pN  191 (685)
                      .+.||||++++.+||.+ +| ||+||+.||..|+....+||+++. .....+|.++
T Consensus         3 ~~~CpIs~~~m~dPV~~~~s-G~~yer~~I~~~l~~~~~cP~t~~-~L~~~~Lip~   56 (61)
T 2bay_A            3 HMLCAISGKVPRRPVLSPKS-RTIFEKSLLEQYVKDTGNDPITNE-PLSIEEIVEI   56 (61)
T ss_dssp             -CCCTTTCSCCSSEEEETTT-TEEEEHHHHHHHHHHHSBCTTTCC-BCCGGGCEEC
T ss_pred             eEEecCCCCCCCCCEEeCCC-CcEEcHHHHHHHHHhCCCCcCCcC-CCChhhcEEC
Confidence            47899999999999999 76 999999999999987778999997 4555666655

>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=98.44  E-value=6.6e-08  Score=104.10  Aligned_cols=49  Identities=24%  Similarity=0.497  Sum_probs=43.1

Q ss_pred             CCCcccccccccccccceeccCCCCccchhHHHHHhh-cCCCCCCCcCCCc
Q 035975          134 FPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLV-EKARCPKCFSSKC  183 (685)
Q Consensus       134 LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk-~~~sCPvCR~~~~  183 (685)
                      ......|+||++.+.+|+.++| ||.||..||..|+. ....||.||..+.
T Consensus       329 ~~~~~~C~ICle~~~~pv~lpC-GH~FC~~Ci~~wl~~~~~~CP~CR~~i~  378 (389)
T 2y1n_A          329 GSTFQLCKICAENDKDVKIEPC-GHLMCTSCLTSWQESEGQGCPFCRCEIK  378 (389)
T ss_dssp             TTSSSBCTTTSSSBCCEEEETT-CCEECHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             cCCCCCCCccCcCCCCeEEeCC-CChhhHHHHHHHHhcCCCCCCCCCCccC
Confidence            4456899999999999999998 99999999999988 5678999998544

>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=98.43  E-value=4e-08  Score=84.59  Aligned_cols=45  Identities=27%  Similarity=0.634  Sum_probs=37.9

Q ss_pred             Ccccccccccccccceec---cCCCCccchhHHHHHhhcC--------CCCCC--CcCC
Q 035975          136 SELKCSLCNTLFKEAVMI---PCCQHSFCEKCIRLVLVEK--------ARCPK--CFSS  181 (685)
Q Consensus       136 eeLtCPIClelf~dPVtL---pCCGHSFC~~CI~~~lk~~--------~sCPv--CR~~  181 (685)
                      +.++|+||++.+..|+++   +| ||+||..||..++...        ..||.  |+..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~l~~C-gH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMTTIAQC-QCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTT-TEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCcCCcccCcccccccceEcCCC-CCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            478999999999998765   57 9999999999998741        37999  9963

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

Probab=98.38  E-value=1.7e-07  Score=79.17  Aligned_cols=45  Identities=29%  Similarity=0.704  Sum_probs=38.8

Q ss_pred             Cccccccccccccc--------------ceecc-CCCCccchhHHHHHhhcCCCCCCCcCC
Q 035975          136 SELKCSLCNTLFKE--------------AVMIP-CCQHSFCEKCIRLVLVEKARCPKCFSS  181 (685)
Q Consensus       136 eeLtCPIClelf~d--------------PVtLp-CCGHSFC~~CI~~~lk~~~sCPvCR~~  181 (685)
                      ++..|+||++.|.+              ++.++ | +|.|+..||.+|+.....||+||+.
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C-~H~FH~~Ci~~Wl~~~~~CP~CR~~   73 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGEC-NHSFHNCCMSLWVKQNNRCPLCQQD   73 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETT-SCEEEHHHHHHHTTTCCBCTTTCCB
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCC-CCccChHHHHHHHHhCCCCCCcCCC
Confidence            46779999999977              45555 6 9999999999999988999999974

>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=98.34  E-value=1.4e-07  Score=76.65  Aligned_cols=46  Identities=20%  Similarity=0.466  Sum_probs=41.3

Q ss_pred             Ccccccccccccccceec--cCCCCc-cchhHHHHHhhcCCCCCCCcCCC
Q 035975          136 SELKCSLCNTLFKEAVMI--PCCQHS-FCEKCIRLVLVEKARCPKCFSSK  182 (685)
Q Consensus       136 eeLtCPIClelf~dPVtL--pCCGHS-FC~~CI~~~lk~~~sCPvCR~~~  182 (685)
                      ++..|+||++.+.+++.+  +| ||. ||..|+..++.....||+||..+
T Consensus         7 ~~~~C~IC~~~~~~~~~~~~pC-gH~~~C~~C~~~~~~~~~~CPiCR~~i   55 (64)
T 2vje_A            7 AIEPCVICQGRPKNGCIVHGKT-GHLMACFTCAKKLKKRNKPCPVCRQPI   55 (64)
T ss_dssp             GGSCCTTTSSSCSCEEEEETTE-EEEEECHHHHHHHHHTTCCCTTTCCCC
T ss_pred             CcCCCCcCCCCCCCEEEECCCC-CChhhHHHHHHHHHHcCCcCCCcCcch
Confidence            467899999999999987  98 999 89999999998778999999753

>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.31  E-value=4.9e-07  Score=74.53  Aligned_cols=45  Identities=24%  Similarity=0.710  Sum_probs=38.9

Q ss_pred             CCCcccccccccccccceeccCCCCc-cchhHHHHHhhcCCCCCCCcCCCc
Q 035975          134 FPSELKCSLCNTLFKEAVMIPCCQHS-FCEKCIRLVLVEKARCPKCFSSKC  183 (685)
Q Consensus       134 LeeeLtCPIClelf~dPVtLpCCGHS-FC~~CI~~~lk~~~sCPvCR~~~~  183 (685)
                      ..+...|+||++.+.+++++|| ||. ||..|+..    ...||+||..+.
T Consensus        12 ~~~~~~C~IC~~~~~~~v~~pC-gH~~~C~~C~~~----~~~CP~CR~~i~   57 (68)
T 2ea5_A           12 EENSKDCVVCQNGTVNWVLLPC-RHTCLCDGCVKY----FQQCPMCRQFVQ   57 (68)
T ss_dssp             CCCSSCCSSSSSSCCCCEETTT-TBCCSCTTHHHH----CSSCTTTCCCCC
T ss_pred             CCCCCCCCCcCcCCCCEEEECC-CChhhhHHHHhc----CCCCCCCCcchh
Confidence            3457899999999999999998 999 99999984    368999998543

>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=6e-08  Score=82.11  Aligned_cols=45  Identities=27%  Similarity=0.670  Sum_probs=38.6

Q ss_pred             CCCcccccccccccccceeccCCCCc-cchhHHHHHhhcCCCCCCCcCCCc
Q 035975          134 FPSELKCSLCNTLFKEAVMIPCCQHS-FCEKCIRLVLVEKARCPKCFSSKC  183 (685)
Q Consensus       134 LeeeLtCPIClelf~dPVtLpCCGHS-FC~~CI~~~lk~~~sCPvCR~~~~  183 (685)
                      +.+...|+||++.+.+++++|| ||. ||..|+..+    ..||+||..+.
T Consensus        15 l~~~~~C~IC~~~~~~~v~~pC-gH~~~C~~C~~~~----~~CP~Cr~~i~   60 (79)
T 2yho_A           15 LKEAMLCMVCCEEEINSTFCPC-GHTVCCESCAAQL----QSCPVCRSRVE   60 (79)
T ss_dssp             HHHHTBCTTTSSSBCCEEEETT-CBCCBCHHHHTTC----SBCTTTCCBCC
T ss_pred             CCCCCEeEEeCcccCcEEEECC-CCHHHHHHHHHhc----CcCCCCCchhh
Confidence            3456789999999999999998 999 999999865    38999998543

>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=98.27  E-value=2.5e-07  Score=74.94  Aligned_cols=45  Identities=29%  Similarity=0.535  Sum_probs=40.4

Q ss_pred             cccccccccccccceec--cCCCCc-cchhHHHHHhhcCCCCCCCcCCC
Q 035975          137 ELKCSLCNTLFKEAVMI--PCCQHS-FCEKCIRLVLVEKARCPKCFSSK  182 (685)
Q Consensus       137 eLtCPIClelf~dPVtL--pCCGHS-FC~~CI~~~lk~~~sCPvCR~~~  182 (685)
                      ...|+||++.+.+++++  || ||. ||..|+..++.....||+||..+
T Consensus         7 ~~~C~IC~~~~~~~~~~~~pC-gH~~~C~~C~~~~~~~~~~CPiCR~~i   54 (63)
T 2vje_B            7 LKPCSLCEKRPRDGNIIHGRT-GHLVTCFHCARRLKKAGASCPICKKEI   54 (63)
T ss_dssp             GSBCTTTSSSBSCEEEEETTE-EEEEECHHHHHHHHHTTCBCTTTCCBC
T ss_pred             CCCCcccCCcCCCeEEEecCC-CCHhHHHHHHHHHHHhCCcCCCcCchh
Confidence            56799999999999888  98 998 99999999988778999999753

>3dpl_R Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST-virus interaction, receptor, UBL conjugation, UBL conjugation pathway, acetylation, cytoplasm; 2.60A {Homo sapiens} SCOP: g.44.1.1 PDB: 3dqv_R 3rtr_B 4f52_B 1u6g_B 2hye_D* 4a0c_D 4a0l_F* 1ldj_B 1ldk_C 2lgv_A

Probab=98.16  E-value=1e-06  Score=78.85  Aligned_cols=44  Identities=23%  Similarity=0.457  Sum_probs=38.6

Q ss_pred             cccccccccccccc------------------eeccCCCCccchhHHHHHhhcCCCCCCCcCC
Q 035975          137 ELKCSLCNTLFKEA------------------VMIPCCQHSFCEKCIRLVLVEKARCPKCFSS  181 (685)
Q Consensus       137 eLtCPIClelf~dP------------------VtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~  181 (685)
                      +-.|+||++.|.++                  +.++| +|.|+..||..|+.....||+||+.
T Consensus        37 ~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C-~H~FH~~Ci~~Wl~~~~~CP~Cr~~   98 (106)
T 3dpl_R           37 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVC-NHAFHFHCISRWLKTRQVCPLDNRE   98 (106)
T ss_dssp             SCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETT-SCEEEHHHHHHHHTTCSBCSSSCSB
T ss_pred             CCCCccCChhHhCcCchhhccccccCCccceEeeccc-CcEECHHHHHHHHHcCCcCcCCCCc
Confidence            56799999999876                  34677 9999999999999988999999974

>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=98.16  E-value=2.6e-07  Score=97.95  Aligned_cols=45  Identities=29%  Similarity=0.726  Sum_probs=39.7

Q ss_pred             CCCCcccccccccccccceeccCCCCc-cchhHHHHHhhcCCCCCCCcCCC
Q 035975          133 NFPSELKCSLCNTLFKEAVMIPCCQHS-FCEKCIRLVLVEKARCPKCFSSK  182 (685)
Q Consensus       133 ~LeeeLtCPIClelf~dPVtLpCCGHS-FC~~CI~~~lk~~~sCPvCR~~~  182 (685)
                      .+++++.|+||++.+.+|++++| ||+ ||..|+..+    ..||+||..+
T Consensus       291 ~l~~~~~C~IC~~~~~~~v~lpC-gH~~fC~~C~~~~----~~CP~CR~~i  336 (345)
T 3t6p_A          291 RLQEERTCKVCMDKEVSVVFIPC-GHLVVCQECAPSL----RKCPICRGII  336 (345)
T ss_dssp             HHHTTCBCTTTSSSBCCEEEETT-CCEEECTTTGGGC----SBCTTTCCBC
T ss_pred             hCcCCCCCCccCCcCCceEEcCC-CChhHhHHHHhcC----CcCCCCCCCc
Confidence            34567999999999999999998 999 999999866    6899999754

>2d8s_A Cellular modulator of immune recognition; C-MIR, march8, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.83  E-value=1.5e-05  Score=67.95  Aligned_cols=54  Identities=19%  Similarity=0.399  Sum_probs=42.7

Q ss_pred             CCccccccccccc--ccceeccCCC-----CccchhHHHHHhhcC--CCCCCCcCCCccccCCC
Q 035975          135 PSELKCSLCNTLF--KEAVMIPCCQ-----HSFCEKCIRLVLVEK--ARCPKCFSSKCRLEDLL  189 (685)
Q Consensus       135 eeeLtCPIClelf--~dPVtLpCCG-----HSFC~~CI~~~lk~~--~sCPvCR~~~~~~~~L~  189 (685)
                      .++..|.||++.+  .+++++|| .     |.|...||.+|+...  ..||+|+..+.....+.
T Consensus        13 ~~~~~C~IC~~~~~~~~~l~~pC-~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~~~~   75 (80)
T 2d8s_A           13 SSQDICRICHCEGDDESPLITPC-HCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMETKLS   75 (80)
T ss_dssp             TTSCCCSSSCCCCCSSSCEECSS-SCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCCCCSC
T ss_pred             CCCCCCeEcCccccCCCeeEecc-ccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecCcccC
Confidence            4567899999877  46888897 5     999999999999875  48999998654444443

>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=97.73  E-value=4.3e-06  Score=76.43  Aligned_cols=44  Identities=23%  Similarity=0.458  Sum_probs=0.4

Q ss_pred             cccccccccccccce-----------------e-ccCCCCccchhHHHHHhhcCCCCCCCcCC
Q 035975          137 ELKCSLCNTLFKEAV-----------------M-IPCCQHSFCEKCIRLVLVEKARCPKCFSS  181 (685)
Q Consensus       137 eLtCPIClelf~dPV-----------------t-LpCCGHSFC~~CI~~~lk~~~sCPvCR~~  181 (685)
                      +-.|+||++.|.++.                 . ++| +|.|+..||..|+.....||+||+.
T Consensus        48 ~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C-~H~FH~~CI~~Wl~~~~~CP~Cr~~  109 (117)
T 4a0k_B           48 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVC-NHAFHFHCISRWLKTRQVCPLDNRE  109 (117)
T ss_dssp             C--------------------------------------------------------------
T ss_pred             CCcCeECChhhcCcChhhhcccccccccccccccCCc-CceEcHHHHHHHHHcCCcCCCCCCe
Confidence            457999999998742                 2 466 9999999999999988899999974

>1dsq_A Nucleic acid binding protein P14; CCHC type zinc finger, virus/viral protein; NMR {Mouse mammary tumor virus} SCOP: g.40.1.1

Probab=97.15  E-value=0.00013  Score=50.18  Aligned_cols=21  Identities=38%  Similarity=1.004  Sum_probs=18.9

Q ss_pred             CCccccccCCCCcccccCCCC
Q 035975          361 KDRTCYMCGSPNHLIRDCPAA  381 (685)
Q Consensus       361 ~~~~~~~~~~~~~~~~~~~~~  381 (685)
                      |+.+||.||.+.|++|+||..
T Consensus         1 ~~~~Cf~CG~~GH~ardC~~~   21 (26)
T 1dsq_A            1 KGPVCFSCGKTGHIKRDCKEE   21 (26)
T ss_dssp             CCCBCTTTCCBSSCTTTTTCC
T ss_pred             CCCeeEeCCCCCcccccCCCc
Confidence            467899999999999999974

>3m62_A Ubiquitin conjugation factor E4; armadillo-like repeats, UBL conjugation pathway, DNA damage, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae} PDB: 3m63_A* 2qiz_A 2qj0_A

Probab=97.13  E-value=0.00038  Score=82.19  Aligned_cols=74  Identities=28%  Similarity=0.410  Sum_probs=66.2

Q ss_pred             cCCCCCcccccccccccccceeccCCC-CccchhHHHHHhhcCCCCCCCcCCCccccCCCccHHHHHHHHHHHhhcc
Q 035975          131 NGNFPSELKCSLCNTLFKEAVMIPCCQ-HSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQAIEHFLESQI  206 (685)
Q Consensus       131 ~e~LeeeLtCPIClelf~dPVtLpCCG-HSFC~~CI~~~lk~~~sCPvCR~~~~~~~~L~pN~~L~nLVe~~redq~  206 (685)
                      ..++++++.|||-++++.|||+++. | +||-+.+|.+|+....+||.-|. ......+.||..|+..|+.+...+.
T Consensus       885 ~~~iP~~F~cPIs~~lM~DPVilps-G~~TydR~~I~~wl~~~~tdP~Tr~-~L~~~~liPN~~Lk~~I~~w~~~~~  959 (968)
T 3m62_A          885 YGDVPDEFLDPLMYTIMKDPVILPA-SKMNIDRSTIKAHLLSDSTDPFNRM-PLKLEDVTPNEELRQKILCFKKQKK  959 (968)
T ss_dssp             HCCSCGGGBCTTTCSBCSSEEECTT-TCCEEEHHHHHHHHTTCCBCTTTCC-BCCGGGCEECHHHHHHHHHHHHHHH
T ss_pred             ccCCcHHhCCcchhhHHhCCeEcCC-CCEEECHHHHHHHHhcCCCCCCCCC-CCCcccccccHHHHHHHHHHHHHHH
Confidence            3678999999999999999999998 8 69999999999988889999997 4557789999999999999987654

>2ysa_A Retinoblastoma-binding protein 6; zinc finger, CCHC, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=96.74  E-value=0.0013  Score=53.17  Aligned_cols=22  Identities=41%  Similarity=1.088  Sum_probs=19.1

Q ss_pred             CCccccccCCCCcccccCCCCC
Q 035975          361 KDRTCYMCGSPNHLIRDCPAAL  382 (685)
Q Consensus       361 ~~~~~~~~~~~~~~~~~~~~~~  382 (685)
                      ...+||.||-+.|+|++||...
T Consensus         6 ~~~~C~kCGk~GH~~k~Cp~~~   27 (55)
T 2ysa_A            6 SGYTCFRCGKPGHYIKNCPTNG   27 (55)
T ss_dssp             SSCCCTTTCCTTSCGGGCSGGG
T ss_pred             CCCccccCCCcCcccccCCCCC
Confidence            3678999999999999999643

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=96.49  E-value=0.0016  Score=56.18  Aligned_cols=82  Identities=18%  Similarity=0.397  Sum_probs=49.5

Q ss_pred             Cccccccccc-cccccee--ccCCCCccchhHHHHHhhcCCCCCCCcCCCcc-ccCCCccHHHHHHHHHHHhhcccccCc
Q 035975          136 SELKCSLCNT-LFKEAVM--IPCCQHSFCEKCIRLVLVEKARCPKCFSSKCR-LEDLLPNVSLRQAIEHFLESQILISGS  211 (685)
Q Consensus       136 eeLtCPICle-lf~dPVt--LpCCGHSFC~~CI~~~lk~~~sCPvCR~~~~~-~~~L~pN~~L~nLVe~~redq~~iCs~  211 (685)
                      +++.|+||.+ ++.+|+.  +.| +|+||..|+..+......=..-+  +.. ...+              ..+...|  
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~C-~~~~C~~Cl~~~h~~~~~~~~h~--l~~~~~~~--------------~~~~~~C--   62 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVTC-EVSYCDECLKATHPNKKPFTGHR--LIEPIPDS--------------HIRGLMC--   62 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETTT-TEEECHHHHHHHSCSCSSSTTCC--BSSCCCSC--------------CSSCCCC--
T ss_pred             CCCCCcCCCCCCCCCceEECCcC-ChHHhHHHCHHHhccCCccCCCe--eecccccc--------------CccCCcC--
Confidence            4689999996 4789998  898 99999999998433211000111  110 0100              0012233  


Q ss_pred             cCCCCCCCCchhhHHHHHhhhhhhhcc
Q 035975          212 ENAYHRYAPDGESGIQAKDVSCAVTNL  238 (685)
Q Consensus       212 Eh~~H~~~paee~C~eCk~l~CaL~~L  238 (685)
                        ..|...+...+|.+|+.++|....+
T Consensus        63 --~~H~~e~l~~fC~~~~~~iC~~C~~   87 (101)
T 2jun_A           63 --LEHEDEKVNMYCVTDDQLICALCKL   87 (101)
T ss_dssp             --SSCSSSCCCEEETTTTEEECHHHHH
T ss_pred             --cCcCCCcceEECCCCCCccchhcCC
Confidence              3455566778899999877766554

>2ct0_A Non-SMC element 1 homolog; ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=95.82  E-value=0.0058  Score=51.72  Aligned_cols=45  Identities=20%  Similarity=0.544  Sum_probs=36.8

Q ss_pred             cccccccccccccceeccCCCCccchhHHHHHhhcC--CCCCCCcCC
Q 035975          137 ELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEK--ARCPKCFSS  181 (685)
Q Consensus       137 eLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~--~sCPvCR~~  181 (685)
                      .-.|.||.++|..-..-.-|+|.|=..||.+|++..  ..||+|+..
T Consensus        15 i~~C~IC~~~i~~g~~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~   61 (74)
T 2ct0_A           15 VKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDY   61 (74)
T ss_dssp             SCBCSSSCCBCSSSEECSSSCCEECHHHHHHHSTTCSSCCCTTTCSC
T ss_pred             CCcCcchhhHcccCCccCCCCchhhHHHHHHHHHhcCCCCCCCCcCc
Confidence            467999999998544332259999999999999877  789999974

>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}

Probab=95.43  E-value=0.0087  Score=51.76  Aligned_cols=22  Identities=32%  Similarity=0.726  Sum_probs=19.7

Q ss_pred             CCccccccCCCCcccccCCCCC
Q 035975          361 KDRTCYMCGSPNHLIRDCPAAL  382 (685)
Q Consensus       361 ~~~~~~~~~~~~~~~~~~~~~~  382 (685)
                      ++..||.||...||.||||..-
T Consensus        45 ~~~~CYnCG~~GH~~rdC~~~r   66 (83)
T 3nyb_B           45 HTIYCYNCGGKGHFGDDCKEKR   66 (83)
T ss_dssp             CCCBCSSSSCBSSCGGGCSSCC
T ss_pred             CCCeecccCCCCcCcccCCccc
Confidence            3689999999999999999864

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus}

Probab=95.41  E-value=0.0079  Score=54.05  Aligned_cols=47  Identities=36%  Similarity=0.751  Sum_probs=36.6

Q ss_pred             ccccccccccc-ceeccCCCCccchhHHHHHhhc-CCCCCCCcCCCcccc
Q 035975          139 KCSLCNTLFKE-AVMIPCCQHSFCEKCIRLVLVE-KARCPKCFSSKCRLE  186 (685)
Q Consensus       139 tCPIClelf~d-PVtLpCCGHSFC~~CI~~~lk~-~~sCPvCR~~~~~~~  186 (685)
                      .|++|.-.+.. -.++|| .|.||..|+..|.+. ...||.|+..+..++
T Consensus         3 fC~~C~~Pi~iygRmIPC-kHvFCydCa~~~~~~~~k~Cp~C~~~V~rVe   51 (101)
T 3vk6_A            3 FCDKCGLPIKVYGRMIPC-KHVFCYDCAILHEKKGDKMCPGCSDPVQRIE   51 (101)
T ss_dssp             BCTTTCSBCSEEEEEETT-CCEEEHHHHHHHHHTTCCBCTTTCCBCSEEE
T ss_pred             ecCccCCCeEEEeeeccc-cccHHHHHHHHHHhccCCCCcCcCCeeeeeE
Confidence            58889877764 456787 999999999998865 478999998654444

>1vyx_A ORF K3, K3RING; zinc-binding protein, ring domain, cross-brace motif; NMR {Human herpesvirus 8} SCOP: g.44.1.3

Probab=95.04  E-value=0.022  Score=45.98  Aligned_cols=47  Identities=19%  Similarity=0.458  Sum_probs=36.8

Q ss_pred             CCcccccccccccccceeccC-CCC---ccchhHHHHHhhc--CCCCCCCcCC
Q 035975          135 PSELKCSLCNTLFKEAVMIPC-CQH---SFCEKCIRLVLVE--KARCPKCFSS  181 (685)
Q Consensus       135 eeeLtCPIClelf~dPVtLpC-CGH---SFC~~CI~~~lk~--~~sCPvCR~~  181 (685)
                      .+...|.||++-..++..+|| |.+   .|=..||.+|+..  ...||+|+..
T Consensus         4 ~~~~~CrIC~~~~~~~l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~   56 (60)
T 1vyx_A            4 EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVV   56 (60)
T ss_dssp             CSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCB
T ss_pred             CCCCEeEEeecCCCCceecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCe
Confidence            346789999998888888897 233   5667899999975  4689999974

>1nc8_A Nucleocapsid protein; HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus 2} SCOP: g.40.1.1 PDB: 2di2_A

Probab=94.89  E-value=0.01  Score=41.62  Aligned_cols=21  Identities=43%  Similarity=0.882  Sum_probs=18.7

Q ss_pred             cCCccccccCCCCcccccCCC
Q 035975          360 RKDRTCYMCGSPNHLIRDCPA  380 (685)
Q Consensus       360 ~~~~~~~~~~~~~~~~~~~~~  380 (685)
                      |+...||.||-+.|++|+||.
T Consensus         4 r~~~~C~nCgk~GH~ar~C~~   24 (29)
T 1nc8_A            4 RKVIRCWNCGKEGHSARQCRA   24 (29)
T ss_dssp             CCCCBCTTTSCBSSCGGGCCS
T ss_pred             CCCCEEEECCccccCHhHCcc
Confidence            456789999999999999985

>1u6p_A GAG polyprotein; MLV, A-minor K-turn, stem loop, bulge, G-U mismatch, G-A MIS U mismatch, A-C mismatch, zinc finger, NC, viral protein-RN; HET: AP7; NMR {Moloney murine leukemia virus} SCOP: g.40.1.1 PDB: 1wwd_A 1wwe_A 1wwf_A 1wwg_A

Probab=94.37  E-value=0.017  Score=46.76  Aligned_cols=25  Identities=24%  Similarity=0.608  Sum_probs=20.4

Q ss_pred             CCcCCccccccCCCCcccccCCCCC
Q 035975          358 RNRKDRTCYMCGSPNHLIRDCPAAL  382 (685)
Q Consensus       358 ~~~~~~~~~~~~~~~~~~~~~~~~~  382 (685)
                      +....-.||.||..+|++||||...
T Consensus        19 ~~~~~~~C~~Cge~GH~ardCp~~~   43 (56)
T 1u6p_A           19 SQLDRDQCAYCKEKGHWAKDCPKKP   43 (56)
T ss_dssp             TTCCTTBCSSSCCBSSCGGGCTTCC
T ss_pred             CCCCCCcceeCCCCCcccccCcCCc
Confidence            3333678999999999999999843

>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}

Probab=94.34  E-value=0.015  Score=43.02  Aligned_cols=19  Identities=37%  Similarity=1.017  Sum_probs=16.8

Q ss_pred             CccccccCCCCcccccCCC
Q 035975          362 DRTCYMCGSPNHLIRDCPA  380 (685)
Q Consensus       362 ~~~~~~~~~~~~~~~~~~~  380 (685)
                      ...||.||.+.|++|+||.
T Consensus        21 ~~~C~~Cg~~GH~~~~C~~   39 (39)
T 2a51_A           21 QEGCWNCGSKEHRFAQCPK   39 (39)
T ss_dssp             CSSCTTTCCSSSCTTTSCC
T ss_pred             CCccccCCCCCCccCcCcC
Confidence            4689999999999999984

>1a6b_B Momulv, zinc finger protein NCP10; nucleocapsid protein, intercalation, nucleic acid, retrovirus, viral protein/DNA complex; HET: DNA; NMR {Synthetic} SCOP: g.40.1.1

Probab=94.12  E-value=0.023  Score=43.13  Aligned_cols=22  Identities=27%  Similarity=0.706  Sum_probs=19.6

Q ss_pred             CccccccCCCCcccccCCCCCC
Q 035975          362 DRTCYMCGSPNHLIRDCPAALS  383 (685)
Q Consensus       362 ~~~~~~~~~~~~~~~~~~~~~~  383 (685)
                      .-.||.||-.+|++|+||....
T Consensus        10 ~~~C~~Cgk~GH~ardCP~~~~   31 (40)
T 1a6b_B           10 RDQCAYCKEKGHWAKDCPKKPR   31 (40)
T ss_dssp             SSSCSSSCCTTCCTTSCSSSCC
T ss_pred             CCeeeECCCCCcchhhCcCCcc
Confidence            7789999999999999998543

>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}

Probab=94.10  E-value=0.02  Score=51.80  Aligned_cols=23  Identities=30%  Similarity=0.667  Sum_probs=20.1

Q ss_pred             CcCCccccccCCCCcccccCCCC
Q 035975          359 NRKDRTCYMCGSPNHLIRDCPAA  381 (685)
Q Consensus       359 ~~~~~~~~~~~~~~~~~~~~~~~  381 (685)
                      .....+||.||...||+||||.+
T Consensus       102 ~~~~~~Cy~Cg~~GH~a~dCp~~  124 (124)
T 2lli_A          102 PFHTIYCYNCGGKGHFGDDCKEK  124 (124)
T ss_dssp             CCCCCCTTTTSSSCTTTTTSCCC
T ss_pred             CCCCCCcCCCCCCCcCcccCcCC
Confidence            34578999999999999999974

>1cl4_A Protein (GAG polyprotein); nucleocapsid protein, RNA binding protein, retrovirus, viral protein; NMR {Mason-pfizer monkey virus} SCOP: g.40.1.1 PDB: 1dsv_A

Probab=94.09  E-value=0.022  Score=45.63  Aligned_cols=22  Identities=18%  Similarity=0.477  Sum_probs=19.2

Q ss_pred             CccccccCCCCcccccCCCCCC
Q 035975          362 DRTCYMCGSPNHLIRDCPAALS  383 (685)
Q Consensus       362 ~~~~~~~~~~~~~~~~~~~~~~  383 (685)
                      ..+||.||.+.|++|+||....
T Consensus        30 ~~~C~~Cg~~GH~ar~C~~~~~   51 (60)
T 1cl4_A           30 PGLCPRCKRGKHWANECKSKTD   51 (60)
T ss_dssp             CCSCSSCSSCSSCSTTCCCTTS
T ss_pred             CcceeECCCCCCccCcCCCccc
Confidence            5789999999999999998653

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

Probab=94.07  E-value=0.016  Score=62.07  Aligned_cols=47  Identities=19%  Similarity=0.500  Sum_probs=36.0

Q ss_pred             CCccccccccccccc----cee----ccCCCCccchhHHHHHhhcC-----------CCCCCCcCCC
Q 035975          135 PSELKCSLCNTLFKE----AVM----IPCCQHSFCEKCIRLVLVEK-----------ARCPKCFSSK  182 (685)
Q Consensus       135 eeeLtCPIClelf~d----PVt----LpCCGHSFC~~CI~~~lk~~-----------~sCPvCR~~~  182 (685)
                      .....|+||+..+.+    |..    ..| +|.|-..||.+|+...           ..||.|+..+
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C-~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pI  371 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKC-VLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKL  371 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTC-CCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEE
T ss_pred             cCCccCcccceeecCCCCCccccccCCcc-CCccchHHHHHHHHhCCCccccccccCCCCCCCCCcC
Confidence            346789999999886    321    245 9999999999999742           2699999743

>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}

Probab=93.58  E-value=0.028  Score=47.49  Aligned_cols=19  Identities=32%  Similarity=0.938  Sum_probs=10.6

Q ss_pred             CccccccCCCCcccccCCC
Q 035975          362 DRTCYMCGSPNHLIRDCPA  380 (685)
Q Consensus       362 ~~~~~~~~~~~~~~~~~~~  380 (685)
                      ...||.||.+.|++++||.
T Consensus        24 ~~~C~~Cg~~GH~a~~C~~   42 (74)
T 2li8_A           24 GDRCYNCGGLDHHAKECKL   42 (74)
T ss_dssp             TSCCTTTCCSSSCTTTCSS
T ss_pred             CCcccccCCcCcCcccCCC
Confidence            3445555555555555553

>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}

Probab=93.56  E-value=0.027  Score=41.21  Aligned_cols=19  Identities=26%  Similarity=1.004  Sum_probs=15.2

Q ss_pred             CccccccCCCCcccccCCC
Q 035975          362 DRTCYMCGSPNHLIRDCPA  380 (685)
Q Consensus       362 ~~~~~~~~~~~~~~~~~~~  380 (685)
                      ...||.||.+.|++|+||.
T Consensus        19 ~~~C~~Cg~~GH~a~~C~~   37 (37)
T 2bl6_A           19 PKVCFKCKQPGHFSKQCRS   37 (37)
T ss_dssp             BTTCSSCCCTTGGGGTTCC
T ss_pred             cCeEccCCCcCCccCcCcC
Confidence            3678888888888888874

>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}

Probab=93.41  E-value=0.022  Score=49.25  Aligned_cols=21  Identities=33%  Similarity=0.765  Sum_probs=17.1

Q ss_pred             CCccccccCCCCcccccCCCC
Q 035975          361 KDRTCYMCGSPNHLIRDCPAA  381 (685)
Q Consensus       361 ~~~~~~~~~~~~~~~~~~~~~  381 (685)
                      |...||+||++.|+.++||..
T Consensus         4 k~~~C~~Cg~~GH~~~~Cp~~   24 (83)
T 3nyb_B            4 KKVQCTLCKSKKHSKERCPSI   24 (83)
T ss_dssp             ---CCSSSCCSSSCGGGCGGG
T ss_pred             ccCCCCCCCCCCCccccCCCc
Confidence            577899999999999999974

>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}

Probab=93.33  E-value=0.03  Score=45.28  Aligned_cols=22  Identities=45%  Similarity=1.081  Sum_probs=14.8

Q ss_pred             cCCccccccCCCCcccccCCCC
Q 035975          360 RKDRTCYMCGSPNHLIRDCPAA  381 (685)
Q Consensus       360 ~~~~~~~~~~~~~~~~~~~~~~  381 (685)
                      |+...||.||.+.|++|+||..
T Consensus         2 r~~~~C~~Cg~~GH~a~~C~~~   23 (61)
T 2ihx_A            2 RARGLCYTCGSPGHYQAQCPKK   23 (61)
T ss_dssp             CCTTBCSSSCCBTCCGGGCTTT
T ss_pred             CCCCcccccCCCCeehhhCcCC
Confidence            3445677777777777777664

>1a1t_A Nucleocapsid protein; stem-loop RNA, viral protein/RNA complex; NMR {Human immunodeficiency virus 1} SCOP: g.40.1.1 PDB: 1mfs_A 1f6u_A* 1aaf_A 2l4l_A 2exf_A 2jzw_A* 1bj6_A* 1esk_A 1q3y_A 1q3z_A 2e1x_A 2iwj_A

Probab=93.28  E-value=0.031  Score=44.03  Aligned_cols=19  Identities=32%  Similarity=1.057  Sum_probs=13.4

Q ss_pred             CccccccCCCCcccccCCC
Q 035975          362 DRTCYMCGSPNHLIRDCPA  380 (685)
Q Consensus       362 ~~~~~~~~~~~~~~~~~~~  380 (685)
                      ...||.||.+.|++|+||.
T Consensus        33 ~~~C~~Cg~~GH~~~~C~~   51 (55)
T 1a1t_A           33 KKGCWKCGKEGHQMKDCTE   51 (55)
T ss_dssp             CCBCTTTCCBSSCGGGCSS
T ss_pred             CCEeCCCCCcCCccCCCcC
Confidence            3567777777777777775

>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}

Probab=93.26  E-value=0.031  Score=40.85  Aligned_cols=18  Identities=56%  Similarity=1.258  Sum_probs=16.5

Q ss_pred             cccccCCCCcccccCCCC
Q 035975          364 TCYMCGSPNHLIRDCPAA  381 (685)
Q Consensus       364 ~~~~~~~~~~~~~~~~~~  381 (685)
                      .||.||.+.|++|+||..
T Consensus         2 ~C~~Cg~~GH~~~~C~~~   19 (37)
T 2bl6_A            2 TCYNCGKPGHLSSQCRAP   19 (37)
T ss_dssp             CBSSSCCSSCCTTTSSCB
T ss_pred             cccccCCCCcchhhCcCc
Confidence            699999999999999963

>2ec7_A GAG polyprotein (PR55GAG); nucleocapsid protein, HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus type 2} SCOP: g.40.1.1

Probab=93.14  E-value=0.033  Score=43.19  Aligned_cols=20  Identities=40%  Similarity=0.848  Sum_probs=14.7

Q ss_pred             CCccccccCCCCcccccCCC
Q 035975          361 KDRTCYMCGSPNHLIRDCPA  380 (685)
Q Consensus       361 ~~~~~~~~~~~~~~~~~~~~  380 (685)
                      +...||.||.+.|++++||.
T Consensus         5 r~~~C~~Cg~~GH~a~~C~~   24 (49)
T 2ec7_A            5 KVIRCWNCGKEGHSARQCRA   24 (49)
T ss_dssp             CCCBCTTTCCBTCCTTTCCC
T ss_pred             CcCeeeecCCCCcChhhCcC
Confidence            35667777777777777776

>1cl4_A Protein (GAG polyprotein); nucleocapsid protein, RNA binding protein, retrovirus, viral protein; NMR {Mason-pfizer monkey virus} SCOP: g.40.1.1 PDB: 1dsv_A

Probab=93.05  E-value=0.017  Score=46.26  Aligned_cols=21  Identities=24%  Similarity=0.861  Sum_probs=0.0

Q ss_pred             CccccccCCCCcccccCCCCC
Q 035975          362 DRTCYMCGSPNHLIRDCPAAL  382 (685)
Q Consensus       362 ~~~~~~~~~~~~~~~~~~~~~  382 (685)
                      ++.||.||.+.|++|+||...
T Consensus         1 G~~Cf~Cg~~GH~a~~C~~~~   21 (60)
T 1cl4_A            1 GGSCFKCGKKGHFAKNCHEHA   21 (60)
T ss_dssp             ---------------------
T ss_pred             CCccccCCCCCcCHhhCcCCC
Confidence            368999999999999999854

>2ec7_A GAG polyprotein (PR55GAG); nucleocapsid protein, HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus type 2} SCOP: g.40.1.1

Probab=92.99  E-value=0.037  Score=42.91  Aligned_cols=20  Identities=30%  Similarity=1.027  Sum_probs=17.7

Q ss_pred             CccccccCCCCcccccCCCC
Q 035975          362 DRTCYMCGSPNHLIRDCPAA  381 (685)
Q Consensus       362 ~~~~~~~~~~~~~~~~~~~~  381 (685)
                      ...||.||.+.|++|+||..
T Consensus        27 ~~~C~~Cg~~GH~~~~C~~~   46 (49)
T 2ec7_A           27 RQGCWKCGKTGHVMAKCPER   46 (49)
T ss_dssp             CCSCSSSCCSSCCGGGCCSS
T ss_pred             CCeeCcCCCcCCccCCCcCC
Confidence            45799999999999999963

>1a1t_A Nucleocapsid protein; stem-loop RNA, viral protein/RNA complex; NMR {Human immunodeficiency virus 1} SCOP: g.40.1.1 PDB: 1mfs_A 1f6u_A* 1aaf_A 2l4l_A 2exf_A 2jzw_A* 1bj6_A* 1esk_A 1q3y_A 1q3z_A 2e1x_A 2iwj_A

Probab=92.36  E-value=0.047  Score=42.96  Aligned_cols=22  Identities=36%  Similarity=0.980  Sum_probs=19.3

Q ss_pred             cCCccccccCCCCcccccCCCC
Q 035975          360 RKDRTCYMCGSPNHLIRDCPAA  381 (685)
Q Consensus       360 ~~~~~~~~~~~~~~~~~~~~~~  381 (685)
                      ++...||.||.+.|++++||..
T Consensus        10 ~~~~~C~~Cg~~GH~a~~C~~~   31 (55)
T 1a1t_A           10 RKTVKCFNCGKEGHIAKNCRAP   31 (55)
T ss_dssp             GGTCBCTTTCCBSSCGGGCSSC
T ss_pred             CCCcceeeeCCCCcChhhcCCC
Confidence            4467899999999999999874

>3ts2_A Protein LIN-28 homolog A; microrna biogenesis, protein-RNA complex, PRE-element, CCHC knuckle; HET: GMP; 2.01A {Mus musculus} PDB: 3trz_A* 3ts0_A*

Probab=92.33  E-value=0.051  Score=51.25  Aligned_cols=20  Identities=35%  Similarity=0.936  Sum_probs=11.2

Q ss_pred             CccccccCCCCcccccCCCC
Q 035975          362 DRTCYMCGSPNHLIRDCPAA  381 (685)
Q Consensus       362 ~~~~~~~~~~~~~~~~~~~~  381 (685)
                      ...||.||.+.|++|+||..
T Consensus       119 ~~~C~~Cg~~GH~~r~Cp~~  138 (148)
T 3ts2_A          119 PKKCHFCQSINHMVASCPLK  138 (148)
T ss_dssp             CCCCTTTCCSSCCGGGCTTT
T ss_pred             CCcccccCCcCCEeccCcCC
Confidence            34555555555555555554

>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}

Probab=92.32  E-value=0.046  Score=44.16  Aligned_cols=21  Identities=19%  Similarity=0.543  Sum_probs=18.6

Q ss_pred             CccccccCCCCcccccCCCCC
Q 035975          362 DRTCYMCGSPNHLIRDCPAAL  382 (685)
Q Consensus       362 ~~~~~~~~~~~~~~~~~~~~~  382 (685)
                      ..+||.||.+.|++|+||..-
T Consensus        30 ~~~C~~Cg~~GH~ar~C~~~~   50 (61)
T 2ihx_A           30 RERCQLCNGMGHNAKQCRKRD   50 (61)
T ss_dssp             CSBCTTTCCBSSCGGGCCCCC
T ss_pred             CCeeCCCCCCCCCcCCCcCCC
Confidence            468999999999999999754

>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}

Probab=91.85  E-value=0.054  Score=40.03  Aligned_cols=18  Identities=44%  Similarity=1.099  Sum_probs=16.6

Q ss_pred             cccccCCCCcccccCCCC
Q 035975          364 TCYMCGSPNHLIRDCPAA  381 (685)
Q Consensus       364 ~~~~~~~~~~~~~~~~~~  381 (685)
                      .||.||.+.|++++||..
T Consensus         2 ~C~~Cg~~GH~a~~C~~~   19 (39)
T 2a51_A            2 TCFNCGKPGHTARMCRQP   19 (39)
T ss_dssp             BCTTTCCBSSCTTTCCSC
T ss_pred             eeeccCCCCcccccCCCC
Confidence            699999999999999964

>2cqf_A RNA-binding protein LIN-28; CCHC zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=91.85  E-value=0.056  Score=44.06  Aligned_cols=21  Identities=29%  Similarity=0.827  Sum_probs=17.3

Q ss_pred             CccccccCCCCcccccCCCCC
Q 035975          362 DRTCYMCGSPNHLIRDCPAAL  382 (685)
Q Consensus       362 ~~~~~~~~~~~~~~~~~~~~~  382 (685)
                      ...||.||.+.|++|+||...
T Consensus        29 ~~~C~~Cg~~GH~ar~Cp~~~   49 (63)
T 2cqf_A           29 PKKCHFCQSISHMVASCPLKA   49 (63)
T ss_dssp             SSCCTTTCCSSSCTTTCTGGG
T ss_pred             CCccCCcCCcCCccCcCCCcc
Confidence            578999999999999998753

>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}

Probab=90.31  E-value=0.11  Score=43.79  Aligned_cols=26  Identities=27%  Similarity=0.789  Sum_probs=21.7

Q ss_pred             CCccccccCCCCcccccCCCCCCCCc
Q 035975          361 KDRTCYMCGSPNHLIRDCPAALSPNP  386 (685)
Q Consensus       361 ~~~~~~~~~~~~~~~~~~~~~~~~~~  386 (685)
                      +...||.||.+.|++|+||.....++
T Consensus        45 ~~~~C~~Cg~~GH~ar~Cp~~~~~~p   70 (74)
T 2li8_A           45 QPKKCHFCQSISHMVASCPLKAQQGP   70 (74)
T ss_dssp             CCCCCTTTCCTTSCGGGCTTGGGTCC
T ss_pred             CCCccCCcCCcCCccCcCcCCcCCCC
Confidence            36899999999999999998664444

>2cqf_A RNA-binding protein LIN-28; CCHC zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=89.76  E-value=0.12  Score=42.14  Aligned_cols=20  Identities=30%  Similarity=0.896  Sum_probs=17.7

Q ss_pred             CccccccCCCCcccccCCCC
Q 035975          362 DRTCYMCGSPNHLIRDCPAA  381 (685)
Q Consensus       362 ~~~~~~~~~~~~~~~~~~~~  381 (685)
                      ...||.||.+.|++++||..
T Consensus         7 ~~~C~~Cg~~GH~a~~C~~~   26 (63)
T 2cqf_A            7 GDRCYNCGGLDHHAKECKLP   26 (63)
T ss_dssp             CCCCSSSCCSSSCTTTCCSC
T ss_pred             CCcccccCCCCcChhhCCCC
Confidence            36799999999999999964

>3ts2_A Protein LIN-28 homolog A; microrna biogenesis, protein-RNA complex, PRE-element, CCHC knuckle; HET: GMP; 2.01A {Mus musculus} PDB: 3trz_A* 3ts0_A*

Probab=88.56  E-value=0.18  Score=47.52  Aligned_cols=20  Identities=30%  Similarity=0.896  Sum_probs=18.0

Q ss_pred             CccccccCCCCcccccCCCC
Q 035975          362 DRTCYMCGSPNHLIRDCPAA  381 (685)
Q Consensus       362 ~~~~~~~~~~~~~~~~~~~~  381 (685)
                      ...||.||.+.|++|+||..
T Consensus        97 ~~~C~~Cg~~GH~a~~C~~~  116 (148)
T 3ts2_A           97 GDRCYNCGGLDHHAKECKLP  116 (148)
T ss_dssp             SCCCTTTCCSSCCGGGCCSC
T ss_pred             CCcccEeCCccchhhhCCCC
Confidence            56899999999999999973

>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}

Probab=84.70  E-value=0.34  Score=43.68  Aligned_cols=20  Identities=30%  Similarity=0.750  Sum_probs=16.7

Q ss_pred             CccccccCCCCcccccCCCC
Q 035975          362 DRTCYMCGSPNHLIRDCPAA  381 (685)
Q Consensus       362 ~~~~~~~~~~~~~~~~~~~~  381 (685)
                      ...||.||.+.|++|+||..
T Consensus        64 ~~~C~~Cg~~GH~~~~Cp~~   83 (124)
T 2lli_A           64 KVQCTLCKSKKHSKERCPSI   83 (124)
T ss_dssp             CCSSSSSCSSCCCTTTCCCS
T ss_pred             CccCCCCCcCCcchhhCCCc
Confidence            46799999999999999864

>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication, ring E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus; 2.60A {Saccharomyces cerevisiae}

Probab=82.72  E-value=1.1  Score=48.43  Aligned_cols=65  Identities=20%  Similarity=0.342  Sum_probs=48.8

Q ss_pred             CcccccccccccccceeccCCCCccchhH--HHHHhhc--CCCCCCCcCCCccccCCCccHHHHHHHHHH
Q 035975          136 SELKCSLCNTLFKEAVMIPCCQHSFCEKC--IRLVLVE--KARCPKCFSSKCRLEDLLPNVSLRQAIEHF  201 (685)
Q Consensus       136 eeLtCPIClelf~dPVtLpCCGHSFC~~C--I~~~lk~--~~sCPvCR~~~~~~~~L~pN~~L~nLVe~~  201 (685)
                      -.|.|||-+..+..|+.-.-|.|.-|..-  +......  ...||+|.+ .....+|..+..+..++...
T Consensus       248 vSL~CPlS~~ri~~PvRg~~C~HlQCFDl~sfL~~~~~~~~W~CPIC~k-~~~~~dL~ID~~~~~IL~~~  316 (371)
T 3i2d_A          248 MSLQCPISYTRMKYPSKSINCKHLQCFDALWFLHSQLQIPTWQCPVCQI-DIALENLAISEFVDDILQNC  316 (371)
T ss_dssp             EESBCTTTSSBCSSEEEETTCCSSCCEEHHHHHHHHHHSCCCBCTTTCC-BCCGGGEEEBHHHHHHHTTS
T ss_pred             EeecCCCccccccccCcCCcCCCcceECHHHHHHHhhcCCceeCCCCCc-ccCHHHeeEcHHHHHHHHhc
Confidence            46999999999999998765699966554  2232222  248999996 67789999999988887543

>3nw0_A Non-structural maintenance of chromosomes element homolog; E3 ligase, Zn, metal binding protein; 2.92A {Homo sapiens}

Probab=81.05  E-value=0.99  Score=45.49  Aligned_cols=45  Identities=20%  Similarity=0.544  Sum_probs=36.4

Q ss_pred             cccccccccccccceeccCCCCccchhHHHHHhhcC--CCCCCCcCC
Q 035975          137 ELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEK--ARCPKCFSS  181 (685)
Q Consensus       137 eLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~--~sCPvCR~~  181 (685)
                      -..|.||.+++..-+.-+-|++.|=..|+..|++..  ..||.|+..
T Consensus       180 i~~C~iC~~iv~~g~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~  226 (238)
T 3nw0_A          180 VKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDY  226 (238)
T ss_dssp             CCBCTTTCSBCSSCEECSSSCCEECHHHHHHHTTTCSSCBCTTTCCB
T ss_pred             CCcCcchhhHHhCCcccCccChHHHHHHHHHHHHhCCCCCCCCCCCC
Confidence            567999999998655544359999999999999765  489999963

>4fo9_A E3 SUMO-protein ligase PIAS2; E3 ligase, pinit domain, SP-ring domain, structural GE consortium, SGC; 2.39A {Homo sapiens} PDB: 2asq_B

Probab=80.13  E-value=1.5  Score=47.12  Aligned_cols=66  Identities=18%  Similarity=0.288  Sum_probs=49.3

Q ss_pred             CCCcccccccccccccceeccCCCCccchhHH--HHHhhc--CCCCCCCcCCCccccCCCccHHHHHHHHH
Q 035975          134 FPSELKCSLCNTLFKEAVMIPCCQHSFCEKCI--RLVLVE--KARCPKCFSSKCRLEDLLPNVSLRQAIEH  200 (685)
Q Consensus       134 LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI--~~~lk~--~~sCPvCR~~~~~~~~L~pN~~L~nLVe~  200 (685)
                      +.-.|.|||-+..+..|+...-|.|.-|..-.  ......  ...||+|.+ .....+|..+..+..++..
T Consensus       212 ~~vSL~CPlS~~ri~~P~Rg~~C~HlqCFDl~sfL~~~~~~~~W~CPiC~k-~~~~~dL~ID~~~~~IL~~  281 (360)
T 4fo9_A          212 LRVSLMCPLGKMRLTIPCRAVTCTHLQCFDAALYLQMNEKKPTWICPVCDK-KAAYESLILDGLFMEILND  281 (360)
T ss_dssp             EEEESBCTTTCSBCSSEEEETTCCCCCCEEHHHHHHHHHHSCCCBCTTTCS-BCCGGGEEEBHHHHHHHTT
T ss_pred             eEEeeeCCCccceeccCCcCCCCCCCccCCHHHHHHHHhhCCCeECCCCCc-ccCHHHeEEcHHHHHHHHh
Confidence            34468999999999999987656999665433  232222  248999997 6778899999999888764

---

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	685
d1t1ha_	78	g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cre	1e-11
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	3e-09
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	4e-09
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	3e-08
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	5e-08
d2c2la2	80	g.44.1.2 (A:225-304) STIP1 homology and U box-cont	1e-07
d1wgma_	98	g.44.1.2 (A:) Ubiquitin conjugation factor E4A {Hu	8e-07
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	9e-07
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	1e-06
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	2e-05
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	2e-05
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	0.001

>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 = 58.6 bits (141), Expect = 1e-11
 Identities = 14/70 (20%), Positives = 25/70 (35%), Gaps = 1/70 (1%)

Query: 135 PSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSL 194
           P   +C +   L K+ V++     ++    I+  L    +             L PN  L
Sbjct: 6   PEYFRCPISLELMKDPVIVSTG-QTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNYVL 64

Query: 195 RQAIEHFLES 204
           +  I  + ES
Sbjct: 65  KSLIALWCES 74

>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 = 3e-09
 Identities = 21/74 (28%), Positives = 33/74 (44%), Gaps = 5/74 (6%)

Query: 133 NFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEK---ARCPKCFSSKCRLEDLL 189
                L+C +C  L KE V   C  H FC+ C+  +L +K   ++CP C  +      L 
Sbjct: 17  AMQKILECPICLELIKEPVSTKCD-HIFCKFCMLKLLNQKKGPSQCPLC-KNDITKRSLQ 74

Query: 190 PNVSLRQAIEHFLE 203
            +    Q +E  L+
Sbjct: 75  ESTRFSQLVEELLK 88

>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 = 52.1 bits (124), Expect = 4e-09
 Identities = 21/80 (26%), Positives = 36/80 (45%), Gaps = 3/80 (3%)

Query: 133 NFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNV 192
                L+CS C  + +E V +  C+H FC  C+   +     CP C  +   ++DL  N 
Sbjct: 18  RLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCI--GTGCPVC-YTPAWIQDLKINR 74

Query: 193 SLRQAIEHFLESQILISGSE 212
            L   I+   + + L+  +E
Sbjct: 75  QLDSMIQLCSKLRNLLHDNE 94

>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 = 49.1 bits (117), Expect = 3e-08
 Identities = 19/61 (31%), Positives = 26/61 (42%), Gaps = 3/61 (4%)

Query: 133 NFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVL-VEKARCPKCFSSKCRLEDLLPN 191
           +F   + C +C  +  + V    C+H FC  CI   L V  + CP C    C   DL   
Sbjct: 19  HFVKSISCQICEHILADPVET-SCKHLFCRICILRCLKVMGSYCPSCRYP-CFPTDLESP 76

Query: 192 V 192
           V
Sbjct: 77  V 77

>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 = 48.0 bits (114), Expect = 5e-08
 Identities = 12/40 (30%), Positives = 17/40 (42%)

Query: 139 KCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKC 178
           +C +C        M   C H+FC  CI   + +   CP C
Sbjct: 7   RCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLC 46

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 80

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 47.2 bits (111), Expect = 1e-07
 Identities = 15/69 (21%), Positives = 27/69 (39%), Gaps = 1/69 (1%)

Query: 135 PSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSL 194
           P  L   +   L +E   I     ++  K I   L           S    E L+PN+++
Sbjct: 5   PDYLCGKISFELMRE-PCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPNLAM 63

Query: 195 RQAIEHFLE 203
           ++ I+ F+ 
Sbjct: 64  KEVIDAFIS 72

>d1wgma_ g.44.1.2 (A:) Ubiquitin conjugation factor E4A {Human (Homo sapiens) [TaxId: 9606]} Length = 98

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]

 Score = 45.6 bits (107), Expect = 8e-07
 Identities = 14/76 (18%), Positives = 30/76 (39%), Gaps = 1/76 (1%)

Query: 130 ENGNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLL 189
              +   E    + +TL  + V++P  + +     I   L+     P   S     + + 
Sbjct: 15  TYADACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTM-DQIR 73

Query: 190 PNVSLRQAIEHFLESQ 205
           PN  L++ I+ +L  +
Sbjct: 74  PNTELKEKIQRWLAER 89

>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 = 44.1 bits (104), Expect = 9e-07
 Identities = 15/54 (27%), Positives = 28/54 (51%), Gaps = 8/54 (14%)

Query: 128 AMENGNFPSELKCSLCNTLFKE---AVMIPCCQHSFCEKCIRLVLVEKARCPKC 178
           AM++G     ++C++C    ++   A  +P C H F  +C+ + L   + CP C
Sbjct: 1   AMDDG-----VECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLC 49

>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 = 43.7 bits (103), Expect = 1e-06
 Identities = 12/42 (28%), Positives = 18/42 (42%), Gaps = 4/42 (9%)

Query: 137 ELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKC 178
            L+C  C    K   ++PC  H+ C  C+        +CP C
Sbjct: 6   FLRCQQCQAEAKCPKLLPCL-HTLCSGCLE---ASGMQCPIC 43

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 40.5 bits (94), Expect = 2e-05
 Identities = 6/53 (11%), Positives = 22/53 (41%), Gaps = 1/53 (1%)

Query: 138 LKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLP 190
           + C++   + +  V+ P  +  F +  +   + +    P   +    +E+++ 
Sbjct: 1   MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPIT-NEPLSIEEIVE 52

>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 = 40.8 bits (95), Expect = 2e-05
 Identities = 11/40 (27%), Positives = 17/40 (42%), Gaps = 2/40 (5%)

Query: 140 CSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKAR-CPKC 178
           C +C    K+  + P C H  C  C+      + + CP C
Sbjct: 26  CKICAENDKDVKIEP-CGHLMCTSCLTSWQESEGQGCPFC 64

>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 = 35.5 bits (81), Expect = 0.001
 Identities = 14/47 (29%), Positives = 21/47 (44%), Gaps = 5/47 (10%)

Query: 137 ELKCSLCNTLFKEA----VMIPCCQHSFCEKCIRLVLVEK-ARCPKC 178
           +  C  C T         +M+  C H+ CE C+ L+ V     CP+C
Sbjct: 3   DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPEC 49

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	685
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.5
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	99.47
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.46
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.35
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.32
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.23
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.12
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	98.98
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	98.88
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	98.86
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	98.79
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	98.73
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	98.47
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	98.36
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	98.08
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	97.91
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	97.5
d2exfa1	42	HIV nucleocapsid {Human immunodeficiency virus typ	94.81
d1nc8a_	29	HIV nucleocapsid {Human immunodeficiency virus typ	91.13
d2exfa1	42	HIV nucleocapsid {Human immunodeficiency virus typ	89.02
d1dsqa_	26	Nucleic acid binding protein p14 {Mouse mammary tu	85.83

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.50  E-value=9.2e-15  Score=121.79  Aligned_cols=73  Identities=22%  Similarity=0.320  Sum_probs=64.4

Q ss_pred             CCCCCcccccccccccccceeccCCCCccchhHHHHHhhcC-CCCCCCcCCCccccCCCccHHHHHHHHHHHhhcc
Q 035975          132 GNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEK-ARCPKCFSSKCRLEDLLPNVSLRQAIEHFLESQI  206 (685)
Q Consensus       132 e~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~-~sCPvCR~~~~~~~~L~pN~~L~nLVe~~redq~  206 (685)
                      .+++++|.||||+++|.+||+++| ||+||+.||..|+... ..||.|+. ......+.+|..|+++|+.|++...
T Consensus         2 ~eiP~~l~CpIc~~l~~dPv~~~c-Ghtfc~~ci~~~l~~~~~~cP~c~~-~l~~~~l~pN~~L~~~I~~~l~~~~   75 (80)
T d2c2la2           2 RDIPDYLCGKISFELMREPCITPS-GITYDRKDIEEHLQRVGHFNPVTRS-PLTQEQLIPNLAMKEVIDAFISENG   75 (80)
T ss_dssp             CCCCSTTBCTTTCSBCSSEEECSS-CCEEETTHHHHHHHHTCSSCTTTCC-CCCGGGCEECHHHHHHHHHHHTTCS
T ss_pred             CCCCccccCcCcCchhhhhcccCC-cCeecHHHHHHHHhcCCccCCCccc-cccccccccHHHHHHHHHHHHHHCC
Confidence            357899999999999999999998 9999999999999754 57999997 4567789999999999999987643

>d1wgma_ g.44.1.2 (A:) Ubiquitin conjugation factor E4A {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Ubiquitin conjugation factor E4A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.47  E-value=2.1e-14  Score=124.78  Aligned_cols=75  Identities=19%  Similarity=0.281  Sum_probs=67.6

Q ss_pred             CCCCCcccccccccccccceeccCCCCccchhHHHHHhhcCCCCCCCcCCCccccCCCccHHHHHHHHHHHhhccc
Q 035975          132 GNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQAIEHFLESQIL  207 (685)
Q Consensus       132 e~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~~~~~~~L~pN~~L~nLVe~~redq~~  207 (685)
                      .++.++|.||||+++|.+||+++||+|+||+.||.+|+.....||.|+. .+...+|.+|..|+++|+.|+..+..
T Consensus        17 ~~~P~~f~CPI~~~lm~dPV~~~~~~~ty~r~~I~~~l~~~~~~P~~~~-~l~~~~L~pN~~Lr~~I~~~~~~~~~   91 (98)
T d1wgma_          17 ADACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSDQTDPFNRS-PLTMDQIRPNTELKEKIQRWLAERKQ   91 (98)
T ss_dssp             CSCCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTTSCBCTTTCS-BCCTTTSEECHHHHHHHHHHHHHSTT
T ss_pred             cCCcHHhCCcCchhHHHHHHhcccccchhhHHHHHHHHHhcCCcccccc-cccchhhcchHHHHHHHHHHHHHHHH
Confidence            4678899999999999999999997789999999999998889999997 56678999999999999999886543

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.46  E-value=1.4e-14  Score=120.03  Aligned_cols=72  Identities=25%  Similarity=0.446  Sum_probs=64.0

Q ss_pred             CCCCCcccccccccccccceeccCCCCccchhHHHHHhhcC-CCCCCCcCCCccccCCCccHHHHHHHHHHHhhc
Q 035975          132 GNFPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEK-ARCPKCFSSKCRLEDLLPNVSLRQAIEHFLESQ  205 (685)
Q Consensus       132 e~LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~-~sCPvCR~~~~~~~~L~pN~~L~nLVe~~redq  205 (685)
                      .++.++|.||||+++|.+||+++| ||+||+.||..|+... ..||.|+. ......+.+|..|+++|+.|+...
T Consensus         3 peiP~~l~CpIc~~~m~dPV~~~c-gh~fc~~ci~~~~~~~~~~cP~~~~-~l~~~~l~pN~~L~~~I~~~~~~~   75 (78)
T d1t1ha_           3 PEFPEYFRCPISLELMKDPVIVST-GQTYERSSIQKWLDAGHKTCPKSQE-TLLHAGLTPNYVLKSLIALWCESN   75 (78)
T ss_dssp             CCCSSSSSCTTTSCCCSSEEEETT-TEEEEHHHHHHHHTTTCCBCTTTCC-BCSSCCCEECTTTHHHHHHHHHHS
T ss_pred             CCCCccCCCcCcCchhhCceEccC-CCcchHHHHHHHHHHCCCCCCcccc-cCCcccccchHHHHHHHHHHHHHh
Confidence            358899999999999999999997 9999999999999765 57999997 456788999999999999998754

>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=99.35  E-value=6e-14  Score=121.77  Aligned_cols=68  Identities=31%  Similarity=0.677  Sum_probs=58.8

Q ss_pred             CCCcccccccccccccceeccCCCCccchhHHHHHhhcC---CCCCCCcCCCccccCCCccHHHHHHHHHHHh
Q 035975          134 FPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEK---ARCPKCFSSKCRLEDLLPNVSLRQAIEHFLE  203 (685)
Q Consensus       134 LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~---~sCPvCR~~~~~~~~L~pN~~L~nLVe~~re  203 (685)
                      +++.|.||||+++|.+|++++| ||+||..||..|+...   ..||.||. .+...++.+|..+.++|+.+++
T Consensus        18 l~~~l~CpIC~~~~~~pv~~~C-gH~fC~~Ci~~~~~~~~~~~~CP~Cr~-~~~~~~l~~n~~l~~~ve~l~~   88 (103)
T d1jm7a_          18 MQKILECPICLELIKEPVSTKC-DHIFCKFCMLKLLNQKKGPSQCPLCKN-DITKRSLQESTRFSQLVEELLK   88 (103)
T ss_dssp             HHHHTSCSSSCCCCSSCCBCTT-SCCCCSHHHHHHHHSSSSSCCCTTTSC-CCCTTTCBCCCSSSHHHHHHHH
T ss_pred             cccCcCCCccCchhCCeEEcCC-CCchhhHHHHHHHHHCCCCCcCcCCCC-cCChhhCCcCHHHHHHHHHHHH
Confidence            4567899999999999999997 9999999999999764   47999997 4566789999988888888764

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.32  E-value=1.9e-13  Score=117.41  Aligned_cols=69  Identities=28%  Similarity=0.667  Sum_probs=58.6

Q ss_pred             CCCcccccccccccccceeccCCCCccchhHHHHHhhcCCCCCCCcCCCccccCCCccHHHHHHHHHHHhhc
Q 035975          134 FPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLLPNVSLRQAIEHFLESQ  205 (685)
Q Consensus       134 LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~~~~~~~L~pN~~L~nLVe~~redq  205 (685)
                      +.+.|+|+||+++|.+|+++..|||+||..||..|+.  ..||.||. .....++.+|..|.++|+.+...+
T Consensus        19 l~~~l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~-~~~~~~l~~n~~l~~lv~~~~~~~   87 (97)
T d1jm7b_          19 LEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG--TGCPVCYT-PAWIQDLKINRQLDSMIQLCSKLR   87 (97)
T ss_dssp             HHHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT--TBCSSSCC-BCSCSSCCCCHHHHHHHHHHHHHH
T ss_pred             hhhcCCCccCCchhhcCceeCCCCCchhHHHHHHHHh--ccccccCC-cCchhhCcccHHHHHHHHHHHHHH
Confidence            5668899999999999998744499999999999984  46999996 456788999999999999886643

>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=99.23  E-value=1.3e-12  Score=111.48  Aligned_cols=65  Identities=25%  Similarity=0.565  Sum_probs=51.0

Q ss_pred             CCCcccccccccccccceeccCCCCccchhHHHHHhhcC-CCCCCCcCCCccccCCCccHHHHHHHH
Q 035975          134 FPSELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEK-ARCPKCFSSKCRLEDLLPNVSLRQAIE  199 (685)
Q Consensus       134 LeeeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~-~sCPvCR~~~~~~~~L~pN~~L~nLVe  199 (685)
                      +.+.++|+||+++|.+|++|+| ||+||+.||.+|++.. ..||.||..+...+-..|...+.+++.
T Consensus        20 ~~~~l~C~IC~~~~~~pv~~~C-gH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~l~~P~~~~l~~l~   85 (86)
T d1rmda2          20 FVKSISCQICEHILADPVETSC-KHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESPVKSFLNILN   85 (86)
T ss_dssp             HHHHTBCTTTCSBCSSEEECTT-SCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCBCCCHHHHHHHH
T ss_pred             hccCcCCccCCcchhcceecCC-CChhhHHHHHHHHhhCCCcCcccCCCCChhhccCHHHHHHHHhc
Confidence            3356899999999999999998 9999999999999754 589999985443333446666666654

>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=99.12  E-value=8.2e-12  Score=97.90  Aligned_cols=51  Identities=12%  Similarity=0.303  Sum_probs=43.9

Q ss_pred             ccccccccccccceeccCCCCccchhHHHHHhhcCCCCCCCcCCCccccCCC
Q 035975          138 LKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKCRLEDLL  189 (685)
Q Consensus       138 LtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~~~~~~~L~  189 (685)
                      |.|+||+++|++||.++.|||+||+.||.+|+.....||+||+. ....+|.
T Consensus         1 l~C~Ic~~~~~~Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~-l~~~dLi   51 (56)
T d2baya1           1 MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEP-LSIEEIV   51 (56)
T ss_dssp             CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCB-CCGGGCE
T ss_pred             CCCccCCchHHhcCccCCCCCcccHHHHHHHHhhccCCCccCCc-CCHHhce
Confidence            67999999999999987569999999999999998999999974 4444443

>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=98.98  E-value=1.7e-10  Score=96.03  Aligned_cols=52  Identities=23%  Similarity=0.516  Sum_probs=43.7

Q ss_pred             cccccccccccccceeccCCCCccchhHHHHHhhcC-CCCCCCcCCCccccCCC
Q 035975          137 ELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEK-ARCPKCFSSKCRLEDLL  189 (685)
Q Consensus       137 eLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~-~sCPvCR~~~~~~~~L~  189 (685)
                      ...|+||++.+.+|++++| ||+||..||..|+... ..||+||..+.....+.
T Consensus        23 ~~~C~IC~~~~~~~~~~~C-gH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~~i~   75 (79)
T d1fbva4          23 FQLCKICAENDKDVKIEPC-GHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPIV   75 (79)
T ss_dssp             TTBCTTTSSSBCCEECSSS-CCEECHHHHHHHHHTTCCSCTTTCCCCCCCCCSS
T ss_pred             CCCCccCCCcCCCeEEeCC-CCeeeHHHHHHHHHHCcCcCCCCCcCccCCceee
Confidence            4569999999999999998 9999999999999754 67999998665544443

>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=98.88  E-value=2.5e-10  Score=89.94  Aligned_cols=44  Identities=27%  Similarity=0.726  Sum_probs=38.3

Q ss_pred             CcccccccccccccceeccCCCCccchhHHHHHhhcCCCCCCCcCCCc
Q 035975          136 SELKCSLCNTLFKEAVMIPCCQHSFCEKCIRLVLVEKARCPKCFSSKC  183 (685)
Q Consensus       136 eeLtCPIClelf~dPVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~~~  183 (685)
                      +.|.|+||++.|.+|++++| ||+||..||.++   ...||+||..+.
T Consensus         5 ~~l~C~IC~~~~~~p~~lpC-gH~fC~~Ci~~~---~~~CP~Cr~~~~   48 (56)
T d1bora_           5 QFLRCQQCQAEAKCPKLLPC-LHTLCSGCLEAS---GMQCPICQAPWP   48 (56)
T ss_dssp             CCSSCSSSCSSCBCCSCSTT-SCCSBTTTCSSS---SSSCSSCCSSSS
T ss_pred             CCCCCcccCcccCCCEEecC-CCHHhHHHHHcC---CCcCcCCCCccc
Confidence            46899999999999999997 999999999653   568999998544

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

Probab=98.86  E-value=6.7e-10  Score=86.90  Aligned_cols=48  Identities=25%  Similarity=0.735  Sum_probs=41.3

Q ss_pred             CCCccccccccccccc---ceeccCCCCccchhHHHHHhhcCCCCCCCcCC
Q 035975          134 FPSELKCSLCNTLFKE---AVMIPCCQHSFCEKCIRLVLVEKARCPKCFSS  181 (685)
Q Consensus       134 LeeeLtCPIClelf~d---PVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~  181 (685)
                      ++++..|+||++.|.+   .+.+++|+|.||..||.+|+.....||+||+.
T Consensus         2 ~ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~   52 (55)
T d1iyma_           2 MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLT   52 (55)
T ss_dssp             CCCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCC
T ss_pred             CCCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCE
Confidence            5677889999999974   45566669999999999999998999999974

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

Probab=98.79  E-value=9.7e-10  Score=88.69  Aligned_cols=43  Identities=30%  Similarity=0.763  Sum_probs=38.4

Q ss_pred             ccccccccccccee-ccCCCCccchhHHHHHhhcCCCCCCCcCCC
Q 035975          139 KCSLCNTLFKEAVM-IPCCQHSFCEKCIRLVLVEKARCPKCFSSK  182 (685)
Q Consensus       139 tCPIClelf~dPVt-LpCCGHSFC~~CI~~~lk~~~sCPvCR~~~  182 (685)
                      .|+||++.|.+++. ++| ||+||..||.+|+.....||+||+.+
T Consensus         7 ~C~IC~~~~~~~~~~~~C-~H~Fc~~Ci~~w~~~~~~CP~CR~~i   50 (68)
T d1chca_           7 RCPICLEDPSNYSMALPC-LHAFCYVCITRWIRQNPTCPLCKVPV   50 (68)
T ss_dssp             CCSSCCSCCCSCEEETTT-TEEESTTHHHHHHHHSCSTTTTCCCC
T ss_pred             CCccCCcCccCCcEEeCC-CCcCcHHHHHHHHHhCCcCCCCCcch
Confidence            59999999988866 676 99999999999999989999999753

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.73  E-value=2.5e-09  Score=85.69  Aligned_cols=45  Identities=29%  Similarity=0.787  Sum_probs=36.2

Q ss_pred             Ccccccccccccccc-----eeccCCCCccchhHHHHHhhcC-CCCCCCcCC
Q 035975          136 SELKCSLCNTLFKEA-----VMIPCCQHSFCEKCIRLVLVEK-ARCPKCFSS  181 (685)
Q Consensus       136 eeLtCPIClelf~dP-----VtLpCCGHSFC~~CI~~~lk~~-~sCPvCR~~  181 (685)
                      ++..||||++.+..+     ++++| ||+||..||..|+... ..||+||+.
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C-~H~fc~~Ci~~~~~~~~~~CP~CR~~   52 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVC-GHTLCESCVDLLFVRGAGNCPECGTP   52 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTT-CCCEEHHHHHHHHHTTSSSCTTTCCC
T ss_pred             CCCCCCcCCceeecCCceEEEeCcc-ChHhhHHHHHHHhCcCcCCCCCCCcC
Confidence            478999999876432     45676 9999999999999654 579999974

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.47  E-value=3.8e-08  Score=75.65  Aligned_cols=43  Identities=21%  Similarity=0.601  Sum_probs=35.2

Q ss_pred             cccccccccccc----ceeccCCCCccchhHHHHHhhcC-CCCCCCcCC
Q 035975          138 LKCSLCNTLFKE----AVMIPCCQHSFCEKCIRLVLVEK-ARCPKCFSS  181 (685)
Q Consensus       138 LtCPIClelf~d----PVtLpCCGHSFC~~CI~~~lk~~-~sCPvCR~~  181 (685)
                      +.||||++.|..    ++.++| ||.||..||.+|+... ..||+||+.
T Consensus         1 leCpICl~~~~~~~~~~~~~~C-gH~~c~~C~~~w~~~~~~~CP~CR~~   48 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCTC-GYQICRFCWHRIRTDENGLCPACRKP   48 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSSS-SCCCCHHHHHHHTTTSCCBCTTTCCB
T ss_pred             CCCcCCChhhhCCCceEEecCC-CCccchHHHHHHHhhcCCCCCccCCc
Confidence            579999998854    344577 9999999999999864 579999974

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.36  E-value=1.3e-07  Score=82.08  Aligned_cols=46  Identities=24%  Similarity=0.582  Sum_probs=36.8

Q ss_pred             Ccccccccccccccc------------------eeccCCCCccchhHHHHHhhcC-----CCCCCCcCCC
Q 035975          136 SELKCSLCNTLFKEA------------------VMIPCCQHSFCEKCIRLVLVEK-----ARCPKCFSSK  182 (685)
Q Consensus       136 eeLtCPIClelf~dP------------------VtLpCCGHSFC~~CI~~~lk~~-----~sCPvCR~~~  182 (685)
                      .+-.|+||++.|..+                  ..++| +|.||..||..|+...     .+||+||..+
T Consensus        24 ~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~C-gH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~   92 (114)
T d1v87a_          24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKC-SHAFHLLCLLAMYCNGNKDGSLQCPSCKTIY   92 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSS-CCEECHHHHHHHHHHTCCSSCCBCTTTCCBS
T ss_pred             ccccccchhheecccccccccccccccccccceEECCC-CChhhHHHHHHHHHhcCcCCCCccccccchh
Confidence            355799999988654                  35677 9999999999999753     3799999754

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.08  E-value=8e-07  Score=74.57  Aligned_cols=42  Identities=24%  Similarity=0.536  Sum_probs=34.8

Q ss_pred             ccccccccccc------------------ceeccCCCCccchhHHHHHhhcCCCCCCCcCC
Q 035975          139 KCSLCNTLFKE------------------AVMIPCCQHSFCEKCIRLVLVEKARCPKCFSS  181 (685)
Q Consensus       139 tCPIClelf~d------------------PVtLpCCGHSFC~~CI~~~lk~~~sCPvCR~~  181 (685)
                      .|+||++.+.+                  ++.++| ||.|+..||.+|+....+||+||+.
T Consensus        23 ~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C-~H~FH~~Ci~~Wl~~~~~CP~CR~~   82 (88)
T d3dplr1          23 NCAICRNHIMDLCIECQANQASATSEECTVAWGVC-NHAFHFHCISRWLKTRQVCPLDNRE   82 (88)
T ss_dssp             CCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETT-SCEEEHHHHHHHHTTCSBCSSSCSB
T ss_pred             cCEEccchhhCccccccccccccccccCCeEEccc-cCcccHHHHHHHHHHCCcCCCCCCc
Confidence            48999877754                  234566 9999999999999999999999974

>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=97.91  E-value=3.2e-06  Score=65.97  Aligned_cols=47  Identities=17%  Similarity=0.357  Sum_probs=39.2

Q ss_pred             CCcccccccccccccceeccC----CCCccchhHHHHHhhc--CCCCCCCcCC
Q 035975          135 PSELKCSLCNTLFKEAVMIPC----CQHSFCEKCIRLVLVE--KARCPKCFSS  181 (685)
Q Consensus       135 eeeLtCPIClelf~dPVtLpC----CGHSFC~~CI~~~lk~--~~sCPvCR~~  181 (685)
                      ++...|+||++.+.++..++|    |+|.|+..||..|+..  ..+||+||+.
T Consensus         4 ed~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~   56 (60)
T d1vyxa_           4 EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVV   56 (60)
T ss_dssp             CSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCB
T ss_pred             CCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCe
Confidence            456789999999998888876    3599999999999864  3589999974

>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=97.50  E-value=8.5e-06  Score=68.08  Aligned_cols=42  Identities=24%  Similarity=0.627  Sum_probs=31.9

Q ss_pred             cccccccccccc--c-ceeccCCCCccchhHHHHHhhcC--------CCCCCCc
Q 035975          137 ELKCSLCNTLFK--E-AVMIPCCQHSFCEKCIRLVLVEK--------ARCPKCF  179 (685)
Q Consensus       137 eLtCPIClelf~--d-PVtLpCCGHSFC~~CI~~~lk~~--------~sCPvCR  179 (685)
                      ...|+||++.+.  + ++.++| +|.||..||..++...        ..||.|.
T Consensus         5 ~~~C~IC~~~~~~~~~~~~~~C-~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~   57 (94)
T d1wima_           5 SSGCKLCLGEYPVEQMTTIAQC-QCIFCTLCLKQYVELLIKEGLETAISCPDAA   57 (94)
T ss_dssp             BCCCSSSCCCCBGGGEEEETTT-TEEEEHHHHHHHHHHHHHHCSCCCEECSCTT
T ss_pred             CCcCccCCCcccCCceEEECCC-CCEeCCcCHHHHHHHHHhcCCccccCCcCCC
Confidence            467999999875  3 344466 9999999999998632        2699864

>d2exfa1 g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunodeficiency virus type 1, different isolates [TaxId: 11676]}

class: Small proteins
fold: Retrovirus zinc finger-like domains
superfamily: Retrovirus zinc finger-like domains
family: Retrovirus zinc finger-like domains
domain: HIV nucleocapsid
species: Human immunodeficiency virus type 1, different isolates [TaxId: 11676]

Probab=94.81  E-value=0.006  Score=44.70  Aligned_cols=19  Identities=32%  Similarity=1.057  Sum_probs=14.9

Q ss_pred             CccccccCCCCcccccCCC
Q 035975          362 DRTCYMCGSPNHLIRDCPA  380 (685)
Q Consensus       362 ~~~~~~~~~~~~~~~~~~~  380 (685)
                      ..+||.||.+.|++++||.
T Consensus        22 ~~~C~~Cg~~GH~~~~Cp~   40 (42)
T d2exfa1          22 KKGCWKCGKEGHQMKDCTE   40 (42)
T ss_dssp             CSSCSSSCCSSSCTTTCCS
T ss_pred             cCccccCCCCCeecccCCC
Confidence            4578888888888888875

>d1nc8a_ g.40.1.1 (A:) HIV nucleocapsid {Human immunodeficiency virus type 2 [TaxId: 11709]}

class: Small proteins
fold: Retrovirus zinc finger-like domains
superfamily: Retrovirus zinc finger-like domains
family: Retrovirus zinc finger-like domains
domain: HIV nucleocapsid
species: Human immunodeficiency virus type 2 [TaxId: 11709]

Probab=91.13  E-value=0.044  Score=37.16  Aligned_cols=22  Identities=41%  Similarity=0.853  Sum_probs=19.6

Q ss_pred             CcCCccccccCCCCcccccCCC
Q 035975          359 NRKDRTCYMCGSPNHLIRDCPA  380 (685)
Q Consensus       359 ~~~~~~~~~~~~~~~~~~~~~~  380 (685)
                      .||-..||.||-..|++|+|-+
T Consensus         3 qr~~ikCfNCGkeGH~ar~CrA   24 (29)
T d1nc8a_           3 QRKVIRCWNCGKEGHSARQCRA   24 (29)
T ss_dssp             CCCCCBCTTTSCBSSCGGGCCS
T ss_pred             CcceeEeecCCccchhhhhccC
Confidence            4778899999999999999964

>d2exfa1 g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunodeficiency virus type 1, different isolates [TaxId: 11676]}

class: Small proteins
fold: Retrovirus zinc finger-like domains
superfamily: Retrovirus zinc finger-like domains
family: Retrovirus zinc finger-like domains
domain: HIV nucleocapsid
species: Human immunodeficiency virus type 1, different isolates [TaxId: 11676]

Probab=89.02  E-value=0.074  Score=38.65  Aligned_cols=18  Identities=39%  Similarity=1.007  Sum_probs=16.6

Q ss_pred             ccccccCCCCcccccCCC
Q 035975          363 RTCYMCGSPNHLIRDCPA  380 (685)
Q Consensus       363 ~~~~~~~~~~~~~~~~~~  380 (685)
                      ..||.||...|++++||.
T Consensus         2 i~C~~Cg~~GH~~~~Cp~   19 (42)
T d2exfa1           2 VKCFNCGKEGHTARNCRA   19 (42)
T ss_dssp             CCCTTTCCSSSCTTTCSS
T ss_pred             CccccCCCcCcCcccCcC
Confidence            469999999999999995

>d1dsqa_ g.40.1.1 (A:) Nucleic acid binding protein p14 {Mouse mammary tumor virus [TaxId: 11757]}

class: Small proteins
fold: Retrovirus zinc finger-like domains
superfamily: Retrovirus zinc finger-like domains
family: Retrovirus zinc finger-like domains
domain: Nucleic acid binding protein p14
species: Mouse mammary tumor virus [TaxId: 11757]

Probab=85.83  E-value=0.14  Score=33.43  Aligned_cols=21  Identities=38%  Similarity=1.004  Sum_probs=18.5

Q ss_pred             CCccccccCCCCcccccCCCC
Q 035975          361 KDRTCYMCGSPNHLIRDCPAA  381 (685)
Q Consensus       361 ~~~~~~~~~~~~~~~~~~~~~  381 (685)
                      |+-+|+.||-..|+-+||-.-
T Consensus         1 kgpvcfscgktghikkdck~e   21 (26)
T d1dsqa_           1 KGPVCFSCGKTGHIKRDCKEE   21 (26)
T ss_dssp             CCCBCTTTCCBSSCTTTTTCC
T ss_pred             CCCEEEecCCcccchhhhhhh
Confidence            467999999999999999764