Citrus Sinensis ID: 044354

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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------
Protein Sequence
MASEEPKQSLRDQKEPNPVAGNGQSTESLFSPRFKSVAAMAGWDEEAILVASLVVEDTPDRESKQKRRFDLPFKTPPSNSRRKRRLQKRSPVSIPIAVLDLDEGESSGQESGKNKVQLNEEKKTKEEKSVGGDELTEPSNDGSSSSSVLTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLFPQEVEARKAAAALNSREAEHQSPQRGFHNNVRTRSMRSSATSSGDATTRRREIPNQDEYAASTLRFERENFARLISRSVDSLEAEDQNPQRRSTRPSTVSTRDRSTRRRGIPSQDEDAALAIRLERENLTRLLSRRASTRRRDTRNENEDDAVLALRLQREEFMEAFMGTREQHSGSSLSLARANLRAMASRAINIRMRGRPL
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccHHHcccccccHHHccccccccccccHHHHHccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHcccccccccccccccccccHHHHHHHHHHHccccccccccccccccccccccHHHHHHHHHHHcccccccccccccccccccccHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHccccccHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHccccccHHHHHHHHHHHHHHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccccHHHHccHHHHHHHHHHcccHHHHHHHHHHHccccccccHccccccccccccccccccccccccccccccccEEEEccccccccccccccccEHHHHHHcccccccccccccccccccccccccccHHHHHHHHcccHHHHHHHccccccccccHHHHHHHHHHHHHcccccHHHHHHHcccccccHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHccccHHcccHHcccccccccccccccccccccccccccccHHHHHcccHHHHHHHHHHHccHHHcccccccccccccccccccccccccccccccccHHHHHHHHHHccHHHHccccccccEcccccccHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHccccc
Coil and Loop (DISEMBL)
maseepkqslrdqkepnpvagngqsteslfsprfksvaamAGWDEEAILVASLVVedtpdreskqkrrfdlpfktppsnsrrkrrlqkrspvsipiavldldegessgqesgknkVQLNEEkktkeeksvggdeltepsndgsssssVLTCIDKLREELSCAICleicfepstttcghsfcKKCLRSAAdkcgkkcpkcrqlisngrsctVNTVLWNTIQLLFPQEVEARKAAAALNSreaehqspqrgfhnnvrtrsmrssatssgdattrrreipnqdeyAASTLRFERENFARLISRSVdsleaedqnpqrrstrpstvstrdrstrrrgipsqdEDAALAIRLERENLTRLLSRRAstrrrdtrnenEDDAVLALRLQREEFMEAFMgtreqhsgssLSLARANLRAMASRAINIRMRGRPL
Flexible Loop (DISEMBL)
maseepkqslrdqkepnpvagngqsteslfsPRFKSVAAMAGWDEEAILVASLVVedtpdreskqkrrfdlpfktppsnsrrkrrlqkrspvsipiavldldegessgqesgknkvqlneekktkeeksvggdeltepsndgsssssVLTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKkcpkcrqlisngrsctVNTVLWNTIQLLFPQEVEARKAAAALNsreaehqspqrgfhnnvrtrsmrssatssgdattrrreipnqdeyaastlrfERENFARLISRsvdsleaedqnpqrrstrpstvstrdrstrrrgipsqdedaaLAIRlerenltrllsrrastrrrdtrneneddAVLALRLQREEFMEAFMgtreqhsgssLSLARANLRAMASrainirmrgrpl
Low Complexity Region (SEG)
MASEEPKQSLRDQKEPNPVAGNGQSTESLFSPRFKSVAAMAGWDEEAILVASLVVEDTPDRESKQKRRFDLPFKTPPSNSRRKRRLQKRSPVSIPIAVLDLDEGESSGQESGKNKVQLNEEKKTKEEKSVGGDELTEPSNDGSSSSSVLTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLFPQEVEARKAAAALNSREAEHQSPQRGFHNNVrtrsmrssatssGDATTRRREIPNQDEYAASTLRFERENFARLISRSVDSLEAEDQNPQrrstrpstvstrdrstrrrGIPSQDEDAALAIRLERENltrllsrrastrrrdtrneneddAVLALRLQREEFMEAFMGTREQHSGSSLSLARANLRAMASRAINIRMRGRPL
Disordered region (IsUnstruct)
*********************************FKSVAAMAGWDEEAILVASLVV********************************************************************************************VLTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLFPQEV*******************************************************************************************************************************************************************************************************
Disordered Region (DISOPRED)
***************************SLFSPRFKSVAAMAGWDEEAILVAS*****************************************************************************************************KLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQL*************************QRGFHNNVRTRSMRSSAT***********************************************************************************************************************************************************RM*GR**
Disordered Region (DISEMBL)
***************************SLFSPRFKSVAAMAGWDEEAILVASLVVE*********KRRFDLPFKTP*************SPVSIPIAVLDLD**********************************************LTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLFPQEVEAR******************GFHNNVR*****************RREIPNQDEYAASTLRFERENFARLISRSVD*********************************QDEDAALAIRLERENLTRLLSR**************DDAVLALRLQREEFMEAFMG***********LARANLRAMASRAINIRMRGRPL
Disordered Region (DISPRO)
***************************SLFSPRFKSVAAMAGWDEEAILVASLVVEDTP********************************VSIPIAVLDLDE*******************************************SVLTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLFPQEVEARKAAAALNSRE*************************************************************V*********************************************************************EDDAVLALRLQREEFMEAFMG**********************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MASEEPKQSLRDQKEPNPVAGNGQSTESLFSPRFKSVAAMAGWDEEAILVASLVVEDTPDRESKQKRRFDLPFKTPPSNSRRKRRLQKRSPVSIPIAVLDLDEGESSGQESGKNKVQLNEEKKTKEEKSVGGDELTEPSNDGSSSSSVLTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLFPQEVEARKAAAALNSREAEHQSPQRGFHNNVRTRSMRSSATSSGDATTRRREIPNQDEYAASTLRFERENFARLISRSVDSLEAEDQNPQRRSTRPSTVSTRDRSTRRRGIPSQDEDAALAIRLERENLTRLLSRRASTRRRDTRNENEDDAVLALRLQREEFMEAFMGTREQHSGSSLSLARANLRAMASRAINIRMRGRPL
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	426	2.2.26 [Sep-21-2011]
Q6PJ69	517	Tripartite motif-containi	yes	no	0.159	0.131	0.411	2e-10
Q0IIM1	573	E3 ubiquitin-protein liga	yes	no	0.178	0.132	0.414	2e-10
Q8IYW5	571	E3 ubiquitin-protein liga	no	no	0.178	0.133	0.378	2e-10
Q7T308	474	E3 ubiquitin-protein liga	yes	no	0.176	0.158	0.432	4e-10
Q80XJ2	565	E3 ubiquitin-protein liga	yes	no	0.171	0.129	0.379	2e-09
B2RYR0	564	E3 ubiquitin-protein liga	yes	no	0.171	0.129	0.379	3e-09
Q9D4H7	753	LON peptidase N-terminal	no	no	0.281	0.159	0.293	5e-09
Q8HXH0	718	LON peptidase N-terminal	N/A	no	0.218	0.129	0.319	2e-08
Q496Y0	759	LON peptidase N-terminal	no	no	0.218	0.122	0.319	2e-08
Q62191	470	E3 ubiquitin-protein liga	no	no	0.117	0.106	0.44	2e-08

>sp|Q6PJ69|TRI65_HUMAN Tripartite motif-containing protein 65 OS=Homo sapiens GN=TRIM65 PE=2 SV=3

 Score = 67.8 bits (164), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 28/68 (41%), Positives = 42/68 (61%)

Query: 155 LREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTV 214
           L E+L+CAICL +  +P T  CGH+FC  C+R   D+CGK CP+CR+   +G     N  
Sbjct: 6   LEEKLTCAICLGLYQDPVTLPCGHNFCGACIRDWWDRCGKACPECREPFPDGAELRRNVA 65

Query: 215 LWNTIQLL 222
           L   ++++
Sbjct: 66  LSGVLEVV 73

Homo sapiens (taxid: 9606)

>sp|Q0IIM1|RN168_BOVIN E3 ubiquitin-protein ligase RNF168 OS=Bos taurus GN=RNF168 PE=2 SV=2

 Score = 67.4 bits (163), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 34/82 (41%), Positives = 44/82 (53%), Gaps = 6/82 (7%)

Query: 158 ELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNG---RSCT---V 211
           E  C IC+EI FEP T  C H+ CK C  S  +K    CP CR+ +S+    RS T   V
Sbjct: 13  ECQCQICVEILFEPVTLPCNHTLCKPCFESTVEKASLCCPFCRRRVSSWARYRSRTNSLV 72

Query: 212 NTVLWNTIQLLFPQEVEARKAA 233
           N  LW  IQ  +P+E + R + 
Sbjct: 73  NMELWEIIQKHYPKECKLRASG 94

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

Bos taurus (taxid: 9913)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

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

 Score = 67.4 bits (163), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 31/82 (37%), Positives = 43/82 (52%), Gaps = 6/82 (7%)

Query: 158 ELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNG------RSCTV 211
           E  C IC+EI  EP T  C H+ CK C +S  +K    CP CR+ +S+       R+  V
Sbjct: 13  ECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRRNSLV 72

Query: 212 NTVLWNTIQLLFPQEVEARKAA 233
           N  LW  IQ  +P+E + R + 
Sbjct: 73  NVELWTIIQKHYPRECKLRASG 94

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

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q7T308|RN168_DANRE E3 ubiquitin-protein ligase RNF168 OS=Danio rerio GN=rnf168 PE=2 SV=1

 Score = 66.2 bits (160), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 35/81 (43%), Positives = 42/81 (51%), Gaps = 6/81 (7%)

Query: 156 REELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLIS-----NGRSCT 210
           R +  C +CLEI  EP T  C H+FCK C     DK    CP CR+ +S     N R+ T
Sbjct: 21  RSDCVCPVCLEIFLEPVTLPCMHTFCKPCFLETVDKSNMCCPLCRKRVSTWARLNSRNKT 80

Query: 211 -VNTVLWNTIQLLFPQEVEAR 230
            VN  LW  IQ  FP + E R
Sbjct: 81  LVNMELWRRIQDAFPSQCERR 101

E3 ubiquitin-protein ligase required for accumulation of repair proteins to sites of DNA damage. Acts with ube2n/ubc13 to amplify the rnf8-dependent histone ubiquitination. Recruited to sites of DNA damage at double-strand breaks (DSBs) by binding to ubiquitinated histone H2A and ubiquitinates histone H2A and H2AX, leading to amplify the rnf8-dependent H2A ubiquitination and promoting the formation of 'Lys-63'-linked ubiquitin conjugates. This leads to concentrate ubiquitinated histones H2A and H2AX at DNA lesions to the threshold required for recruitment of tp53bp1 and brca1.

Danio rerio (taxid: 7955)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q80XJ2|RN168_MOUSE E3 ubiquitin-protein ligase RNF168 OS=Mus musculus GN=Rnf168 PE=2 SV=3

 Score = 64.3 bits (155), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 30/79 (37%), Positives = 41/79 (51%), Gaps = 6/79 (7%)

Query: 158 ELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNG------RSCTV 211
           E  C IC+EI  EP T  C H+ C  C +S  +K    CP CR+ +S+       R+  V
Sbjct: 13  ECQCGICMEILLEPVTLPCNHTLCNPCFQSTVEKANLCCPFCRRRVSSWTRYHTRRNSLV 72

Query: 212 NTVLWNTIQLLFPQEVEAR 230
           NT LW  IQ  + +E + R
Sbjct: 73  NTDLWEIIQKHYAKECKLR 91

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

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|B2RYR0|RN168_RAT E3 ubiquitin-protein ligase RNF168 OS=Rattus norvegicus GN=Rnf168 PE=2 SV=1

 Score = 63.5 bits (153), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 30/79 (37%), Positives = 41/79 (51%), Gaps = 6/79 (7%)

Query: 158 ELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNG------RSCTV 211
           E  C IC+EI  EP T  C H+ C  C +S  +K    CP CR+ +S+       R+  V
Sbjct: 13  ECQCGICMEILVEPVTLPCNHTLCNPCFQSTVEKANLCCPFCRRRVSSWTRYHTRRNSLV 72

Query: 212 NTVLWNTIQLLFPQEVEAR 230
           NT LW  IQ  + +E + R
Sbjct: 73  NTDLWEIIQKHYAKECKLR 91

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

Rattus norvegicus (taxid: 10116)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

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

 Score = 62.8 bits (151), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 37/126 (29%), Positives = 59/126 (46%), Gaps = 6/126 (4%)

Query: 109 QESGKNKVQLNEEKKTKEEKSVGGDELTEPSNDGSSSSSVLTCIDKLREELSCAICLEIC 168
           QE  +N+ Q+  ++ T+    V   +           S+ L   D    +L C++C+ + 
Sbjct: 411 QEKKRNRCQIETQEDTELPNKVSKQDFPAEQGAKPDLSNPLGSFDA--SDLECSLCMRLF 468

Query: 169 FEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISN---GRSCTVNTVLWNTIQLLFPQ 225
           +EP TT CGH+FC KCL    D    KCP C+ ++      R  + N +L   I    P+
Sbjct: 469 YEPVTTPCGHTFCLKCLERCLDH-NAKCPLCKDVLLQCLPSRKYSKNVILEELIATFLPE 527

Query: 226 EVEARK 231
           E + RK
Sbjct: 528 EFKERK 533

Mus musculus (taxid: 10090)

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

 Score = 60.8 bits (146), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 31/97 (31%), Positives = 49/97 (50%), Gaps = 4/97 (4%)

Query: 138 PSNDGSSSSSVLTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCP 197
           P++ G   +  L        +L CA+C+ + +EP TT CGH+FC KCL    D    KCP
Sbjct: 403 PTDQGDKPALSLPLASFDASDLECALCMRLFYEPVTTPCGHTFCLKCLERCLDH-NAKCP 461

Query: 198 KCRQLISN---GRSCTVNTVLWNTIQLLFPQEVEARK 231
            C+  +S     R  + N ++   I    P+E++ R+
Sbjct: 462 LCKDGLSQCLASRKYSKNVIMEELIAKFLPEELKERR 498

Macaca fascicularis (taxid: 9541)

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

 Score = 60.8 bits (146), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 31/97 (31%), Positives = 49/97 (50%), Gaps = 4/97 (4%)

Query: 138 PSNDGSSSSSVLTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCP 197
           P++ G   +  L        +L CA+C+ + +EP TT CGH+FC KCL    D    KCP
Sbjct: 444 PTDQGDKPALSLPLASFDASDLECALCMRLFYEPVTTPCGHTFCLKCLERCLDH-NAKCP 502

Query: 198 KCRQLISN---GRSCTVNTVLWNTIQLLFPQEVEARK 231
            C+  +S     R  + N ++   I    P+E++ R+
Sbjct: 503 LCKDGLSQCLASRKYSKNVIMEELIAKFLPEELKERR 539

Homo sapiens (taxid: 9606)

>sp|Q62191|RO52_MOUSE E3 ubiquitin-protein ligase TRIM21 OS=Mus musculus GN=Trim21 PE=1 SV=1

 Score = 60.5 bits (145), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 22/50 (44%), Positives = 33/50 (66%)

Query: 152 IDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQ 201
           ++K+ EE++C+ICL+   EP +  CGH FCK+C+       G  CP+CRQ
Sbjct: 11  LEKMWEEVTCSICLDPMVEPMSIECGHCFCKECIFEVGKNGGSSCPECRQ 60

E3 ubiquitin-protein ligase whose activity is dependent on E2 enzymes, UBE2D1, UBE2D2, UBE2E1 and UBE2E2. Forms a ubiquitin ligase complex in cooperation with the E2 UBE2D2 that is used not only for the ubiquitination of USP4 and IKBKB but also for its self-ubiquitination. Component of cullin-RING-based SCF (SKP1-CUL1-F-box protein) E3 ubiquitin-protein ligase complexes such as SCF(SKP2)-like complexes. A TRIM21-containing SCF(SKP2)-like complex is shown to mediate ubiquitination of CDKN1B ('Thr-187' phosphorylated-form), thereby promoting its degradation by the proteasome. Monoubiquitinates IKBKB that will negatively regulates Tax-induced NF-kappa-B signaling. Negatively regulates IFN-beta production post-pathogen recognition by polyubiquitin-mediated degradation of IRF3. Mediates the ubiquitin-mediated proteasomal degradation of IgG1 heavy chain, which is linked to the VCP-mediated ER-associated degradation (ERAD) pathway. Promotes IRF8 ubiquitination, which enhanced the ability of IRF8 to stimulate cytokine genes transcription in macrophages. Plays a role in the regulation of the cell cycle progression. Enhances the decapping activity of DCP2. Exists as a ribonucleoprotein particle present in all mammalian cells studied and composed of a single polypeptide and one of four small RNA molecules. At least two isoforms are present in nucleated and red blood cells, and tissue specific differences in RO/SSA proteins have been identified. The common feature of these proteins is their ability to bind HY RNAs.2.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	426
255571976	400	conserved hypothetical protein [Ricinus	0.899	0.957	0.563	1e-113
449455962	382	PREDICTED: uncharacterized protein LOC10	0.845	0.942	0.533	1e-101
449492947	381	PREDICTED: uncharacterized protein LOC10	0.833	0.931	0.528	1e-97
296081314	1019	unnamed protein product [Vitis vinifera]	0.678	0.283	0.654	1e-88
224060199	915	predicted protein [Populus trichocarpa]	0.673	0.313	0.585	1e-88
225452208	908	PREDICTED: UPF0392 protein RCOM_0530710-	0.678	0.318	0.651	3e-88
356574020	937	PREDICTED: UPF0392 protein RCOM_0530710-	0.788	0.358	0.506	1e-87
326516306	395	predicted protein [Hordeum vulgare subsp	0.868	0.936	0.434	2e-68
242051378	388	hypothetical protein SORBIDRAFT_02g04373	0.816	0.896	0.428	3e-65
212276242	372	uncharacterized protein LOC100191180 [Ze	0.854	0.978	0.401	5e-65

>gi|255571976|ref|XP_002526929.1| conserved hypothetical protein [Ricinus communis] gi|223533681|gb|EEF35416.1| conserved hypothetical protein [Ricinus communis]

 Score =  415 bits (1067), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 239/424 (56%), Positives = 291/424 (68%), Gaps = 41/424 (9%)

Query: 4   EEPKQ-SLRDQKEPNPVAGNGQSTESLFSPRFKSVAAMAGWDEEAILVASLVVEDTPDRE 62
           +EPKQ SL D   P     NGQ+ +++FSPRFKS+AAMAGWDEE+IL ASL+VEDTPDR 
Sbjct: 6   QEPKQKSLLD---PKNTVENGQNMDNMFSPRFKSLAAMAGWDEESILTASLIVEDTPDRL 62

Query: 63  SKQKRRFDLPFKTPPSNSRRKRRLQKRSPVSIPIAVLDLDEGESSGQESGKNKVQLNEEK 122
            K K+R DL F+TPPSNS   RR Q++SPVS+ + V++LDE E   ++  + KV++  E 
Sbjct: 63  FKHKKRSDLHFQTPPSNS--SRRAQRKSPVSVSVPVINLDEEEEPRKQEIQ-KVKIEPEI 119

Query: 123 KTKEEKSVGGDELTEPSNDGSSSSSVLTCIDKLREELSCAICLEICFEPSTTTCGHSFCK 182
              EE     DEL + S+  S S+S L C+DKLREELSCAICLEIC+EPSTT+CGHSFCK
Sbjct: 120 IDTEE-----DELKKESSGVSCSNSGLPCMDKLREELSCAICLEICYEPSTTSCGHSFCK 174

Query: 183 KCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLFPQEVEARKAAAALNSREAE 242
           KCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNT+QLLFPQEVEARKAA A NSREAE
Sbjct: 175 KCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTVQLLFPQEVEARKAAGASNSREAE 234

Query: 243 HQSPQRGFHNNVRTRSMRSS--ATSSGDATTRRREIPNQDEYAASTLRFERENFARLISR 300
            Q+P      ++R + +R    + SS D T RRR   +QDE + S LR +R++ +RL+S 
Sbjct: 235 RQTPPTRSSTDMRNQIVRPYMVSASSRDVTARRRGGQSQDEDSLSALRTQRDDVSRLLSS 294

Query: 301 SVDSLEAEDQNPQRRSTRPSTVSTRDRSTRRRGIPSQDEDAALAIRLERENL--TRLLSR 358
               +                         RR   SQD  A     L+RENL  +RLLSR
Sbjct: 295 YASGMS------------------------RRAASSQDGGAYFPRNLQRENLNLSRLLSR 330

Query: 359 RASTRRRDTRNENEDDAVLALRLQREEFMEAFMGTREQHSGSSLSLARANLRAMASRAIN 418
            A+ RRR      ++DA LALRLQREEFMEAF GT EQ S SS+S AR N RAMA+RA++
Sbjct: 331 DANGRRRRETPSQDEDAALALRLQREEFMEAFRGTNEQ-SESSISSARGNFRAMAARAVS 389

Query: 419 IRMR 422
           +RMR
Sbjct: 390 LRMR 393

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449455962|ref|XP_004145719.1| PREDICTED: uncharacterized protein LOC101209296 [Cucumis sativus]

 Score =  375 bits (964), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 222/416 (53%), Positives = 272/416 (65%), Gaps = 56/416 (13%)

Query: 15  EPNPVAGNGQSTESLFSPRFKSVAAMAGWDEEAILVASLVVEDTPDRESKQKRRFDLPFK 74
           E  P+ G     +S  SPRFKS AAMAGWDEEA+L+ASLVV+DTP+RE +QK+R  L  K
Sbjct: 12  ESKPL-GIANDADSFLSPRFKSAAAMAGWDEEALLIASLVVDDTPEREFQQKKRSVLQRK 70

Query: 75  TPPSNSRRKRRLQKRSPVSIPIAVLDLDEGESSGQESGKNKVQLNEEKKTKEEKSVGGDE 134
           +P S SRRKRR    S +SIP+AVLDLDE E + ++ G       +E K+ E ++   D 
Sbjct: 71  SPASGSRRKRRTLT-SIISIPVAVLDLDETEPTVKDDGPK-----QEPKSAEAEAKKSDS 124

Query: 135 LTEPSNDGSS-SSSVLTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCG 193
           + E   D SS +SS L C+DKLREELSCAICLEICFEPSTT CGHSFCKKCLRSAADKCG
Sbjct: 125 MVEQKADASSLTSSTLPCMDKLREELSCAICLEICFEPSTTPCGHSFCKKCLRSAADKCG 184

Query: 194 KKCPKCRQLISNGRSCTVNTVLWNTIQLLFPQEVEARKAAAALNSREAEHQSPQRGFHNN 253
           K+CPKCRQLISNGRSCTVNTVLWNTIQLLFP+EVEARK A   NSRE + Q P++ F+++
Sbjct: 185 KRCPKCRQLISNGRSCTVNTVLWNTIQLLFPKEVEARKEAKECNSREKKIQDPEKAFYSS 244

Query: 254 VRTRSMRSSATSSGDATTRRR-EIPNQDEYAASTLRFERENFARLISRSVDS-LEAEDQN 311
           ++    R   TSS  A+TRRR EI  Q+E          E  +R+  R+V S  E+  Q+
Sbjct: 245 LQNYDTRPIGTSSRHASTRRRGEITVQEENG--------EWDSRVTQRAVSSNAESRVQS 296

Query: 312 -PQRRSTRPSTVSTR--DRSTRRRGIPSQDEDAALAIRLERENLTRLLSRRASTRRRDTR 368
              RRS RP  ++TR  D  + RRG P QD+DAALA+R                      
Sbjct: 297 RMHRRSIRPMRMATRGVDVRSSRRGTPDQDQDAALALR---------------------- 334

Query: 369 NENEDDAVLALRLQREEFMEAFMGTREQHSGSSLSLARANLRAMASR-AINIRMRG 423
                       LQREEF+EAF  T + H+ SSLSL RAN+RA+ASR AIN+R+ G
Sbjct: 335 ------------LQREEFLEAFRDTTQVHTRSSLSLTRANIRAIASRAAINLRISG 378

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449492947|ref|XP_004159149.1| PREDICTED: uncharacterized protein LOC101225295 [Cucumis sativus]

 Score =  363 bits (931), Expect = 1e-97,   Method: Compositional matrix adjust.
 Identities = 216/409 (52%), Positives = 263/409 (64%), Gaps = 54/409 (13%)

Query: 21  GNGQSTESLFSPRFKSVAAMAGWDEEAILVASLVVEDTPDRESKQKRRFDLPFKTPPSNS 80
           G     +S  SPRFKS AAMAGWDEEA+L ASLVV+DTP+RE +QK+R  L  K+P S S
Sbjct: 17  GIANDADSFLSPRFKSAAAMAGWDEEALLFASLVVDDTPEREFQQKKRSVLQRKSPASGS 76

Query: 81  RRKRRLQKRSPVSIPIAVLDLDEGESSGQESGKNKVQLNEEKKTKEEKSVGGDELTEPSN 140
           RRKRR    S +SIP+AVLDLDE E + ++ G       +E K+ E ++   D + E   
Sbjct: 77  RRKRRTLT-SIISIPVAVLDLDETEPTVKDDGPK-----QEPKSAEAEAKKSDSMVEQKA 130

Query: 141 DGSSSSSVLTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCR 200
           D SS +S    +DKLREELSCAICLEICFEPSTT CGHSFCKKCLRSAADKCGK+CPKCR
Sbjct: 131 DASSLTSSTLPLDKLREELSCAICLEICFEPSTTPCGHSFCKKCLRSAADKCGKRCPKCR 190

Query: 201 QLISNGRSCTVNTVLWNTIQLLFPQEVEARKAAAALNSREAEHQSPQRGFHNNVRTRSMR 260
           QLISNGRSCTVNTVLWNTIQLLFP+EVEARK A   NSRE + Q P++ F+++++    R
Sbjct: 191 QLISNGRSCTVNTVLWNTIQLLFPKEVEARKEARECNSREKKIQDPEKAFYSSLQNYDTR 250

Query: 261 SSATSSGDATTRRR-EIPNQDEYAASTLRFERENFARLISRSVDS-LEAEDQN-PQRRST 317
              TSS  A+TRRR EI  Q+E          E  +R+  R+V S  E+  Q    RRS 
Sbjct: 251 PIGTSSRHASTRRRGEITVQEENG--------EWDSRVTQRAVPSNAESRVQTRMHRRSI 302

Query: 318 RPSTVSTR--DRSTRRRGIPSQDEDAALAIRLERENLTRLLSRRASTRRRDTRNENEDDA 375
           RP  ++TR  D  + RRG P QD+DAALA+R                             
Sbjct: 303 RPMRMATRGVDVRSSRRGTPDQDQDAALALR----------------------------- 333

Query: 376 VLALRLQREEFMEAFMGTREQHSGSSLSLARANLRAMASR-AINIRMRG 423
                LQREEF+EAF  T +  + SSLSL RAN+RA+ASR AIN+R+ G
Sbjct: 334 -----LQREEFLEAFRDTTQVDTRSSLSLTRANIRAIASRAAINLRISG 377

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296081314|emb|CBI17696.3| unnamed protein product [Vitis vinifera]

 Score =  333 bits (854), Expect = 1e-88,   Method: Compositional matrix adjust.
 Identities = 197/301 (65%), Positives = 229/301 (76%), Gaps = 12/301 (3%)

Query: 1   MASEEPKQSLRDQKEPNPVAGNGQSTESLFSPRFKSVAAMAGWDEEAILVASLVVEDTPD 60
           M  +E KQS   Q E      N  S E +FSPRFKSVAA+AGWDEEA+L+ASLVVEDTPD
Sbjct: 617 MVRQESKQSPEKQSES---VENDGSAECVFSPRFKSVAALAGWDEEALLIASLVVEDTPD 673

Query: 61  RESKQKRRFDLPFKTPPSNSRRKRRLQKRSPVSIPIAVLDLDEGESSGQESGKNKVQLNE 120
           R  K K+R DL FKTPPSNSRRKRR Q+RSP SIP+ VLDLDEGE++ +ES K K++   
Sbjct: 674 RLVKHKKRSDLTFKTPPSNSRRKRRTQRRSPASIPVTVLDLDEGENAKEESEKKKIETKT 733

Query: 121 EKKTKEEKSVGGD-----ELTEPSNDGSSSSSVLTCIDKLREELSCAICLEICFEPSTTT 175
            +   EEK+V GD     E +  S   S+S+SVL C+D+LREELSCAICLEICFEPSTT 
Sbjct: 734 AEH--EEKNVTGDKQQGAESSAASCSASTSTSVLPCMDRLREELSCAICLEICFEPSTTP 791

Query: 176 CGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLFPQEVEARKAAAA 235
           CGHSFCKKCLRSAADKCGK+C KCRQ++SNGRSCTVNTVLWNTIQLLFPQEVEARKAA A
Sbjct: 792 CGHSFCKKCLRSAADKCGKRCSKCRQMMSNGRSCTVNTVLWNTIQLLFPQEVEARKAAGA 851

Query: 236 LNSREAEHQSPQRGFHNNVRTRSMR-SSATSSGDATTRRRE-IPNQDEYAASTLRFEREN 293
           LNSREA+ QSP++      R RS+R SS  +S DA+ RRR  +P+Q E AA  LR +RE 
Sbjct: 852 LNSREAKRQSPEKEGQTITRNRSVRPSSGVASRDASVRRRRGMPSQSEDAALALRLQREE 911

Query: 294 F 294
           F
Sbjct: 912 F 912

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224060199|ref|XP_002300081.1| predicted protein [Populus trichocarpa] gi|222847339|gb|EEE84886.1| predicted protein [Populus trichocarpa]

 Score =  333 bits (854), Expect = 1e-88,   Method: Compositional matrix adjust.
 Identities = 181/309 (58%), Positives = 220/309 (71%), Gaps = 22/309 (7%)

Query: 1   MASEEPKQSLRDQKEPNPVAGNGQSTESLFSPRFKSVAAMAGWDEEAILVASLVVEDTPD 60
           M SEE K+S R + + NPV  N Q+ E+LFSPRFKSVAAMAGWDEE+IL ASL+VEDTP+
Sbjct: 574 MVSEEQKESPRVRMQSNPV-DNSQNMENLFSPRFKSVAAMAGWDEESILFASLIVEDTPE 632

Query: 61  RESKQKRRFDLPFKTPPSNSRRKRRLQKRSPVSIPIAVLDLDEGES-SGQESGKNKVQLN 119
           R+ + K+R DL FKTPPS +   RR QK+SP+SIP+ +L+LDE E    +ES K K +  
Sbjct: 633 RQFEHKKRSDLHFKTPPSTN--TRRDQKKSPISIPVPILNLDEEEELVMKESEKKKTE-- 688

Query: 120 EEKKTKEEKSVGGDELTEPSNDGSSSSSVLTCIDKLREELSCAICLEICFEPSTTTCGHS 179
                 EE  +GGD+L + + D S S+S L C+DKLREELSCAICLEICFEPSTT+CGHS
Sbjct: 689 PRIAVDEENKLGGDKLAKDNPDASCSNSALPCMDKLREELSCAICLEICFEPSTTSCGHS 748

Query: 180 FCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLFPQEVEARKAAAALNSR 239
           FCKKCLRSAADKCGKKCPKCRQLI N RSCTVNTVLWNTIQLLFPQEVEA+KA+   N +
Sbjct: 749 FCKKCLRSAADKCGKKCPKCRQLIGNSRSCTVNTVLWNTIQLLFPQEVEAKKASGKKNQK 808

Query: 240 EAEHQSPQRGFHNNVRTRS--------------MRSSATSSGDATTRRREIPNQDEYAAS 285
             EHQS +R  +N++ +R+              +     S   +  RRR IP+QDE  A 
Sbjct: 809 --EHQSSERKTNNDLISRNEDTPLVQRLRRREALERLILSREASGRRRRGIPSQDEDTAL 866

Query: 286 TLRFERENF 294
            LR +RE F
Sbjct: 867 ALRLQREEF 875

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225452208|ref|XP_002270991.1| PREDICTED: UPF0392 protein RCOM_0530710-like [Vitis vinifera]

 Score =  332 bits (850), Expect = 3e-88,   Method: Compositional matrix adjust.
 Identities = 196/301 (65%), Positives = 229/301 (76%), Gaps = 12/301 (3%)

Query: 1   MASEEPKQSLRDQKEPNPVAGNGQSTESLFSPRFKSVAAMAGWDEEAILVASLVVEDTPD 60
            + +E KQS   Q E      N  S E +FSPRFKSVAA+AGWDEEA+L+ASLVVEDTPD
Sbjct: 571 YSGQESKQSPEKQSES---VENDGSAECVFSPRFKSVAALAGWDEEALLIASLVVEDTPD 627

Query: 61  RESKQKRRFDLPFKTPPSNSRRKRRLQKRSPVSIPIAVLDLDEGESSGQESGKNKVQLNE 120
           R  K K+R DL FKTPPSNSRRKRR Q+RSP SIP+ VLDLDEGE++ +ES K K++   
Sbjct: 628 RLVKHKKRSDLTFKTPPSNSRRKRRTQRRSPASIPVTVLDLDEGENAKEESEKKKIETKT 687

Query: 121 EKKTKEEKSVGGD-----ELTEPSNDGSSSSSVLTCIDKLREELSCAICLEICFEPSTTT 175
            +   EEK+V GD     E +  S   S+S+SVL C+D+LREELSCAICLEICFEPSTT 
Sbjct: 688 AEH--EEKNVTGDKQQGAESSAASCSASTSTSVLPCMDRLREELSCAICLEICFEPSTTP 745

Query: 176 CGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLFPQEVEARKAAAA 235
           CGHSFCKKCLRSAADKCGK+C KCRQ++SNGRSCTVNTVLWNTIQLLFPQEVEARKAA A
Sbjct: 746 CGHSFCKKCLRSAADKCGKRCSKCRQMMSNGRSCTVNTVLWNTIQLLFPQEVEARKAAGA 805

Query: 236 LNSREAEHQSPQRGFHNNVRTRSMR-SSATSSGDATTRRRE-IPNQDEYAASTLRFEREN 293
           LNSREA+ QSP++      R RS+R SS  +S DA+ RRR  +P+Q E AA  LR +RE 
Sbjct: 806 LNSREAKRQSPEKEGQTITRNRSVRPSSGVASRDASVRRRRGMPSQSEDAALALRLQREE 865

Query: 294 F 294
           F
Sbjct: 866 F 866

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356574020|ref|XP_003555151.1| PREDICTED: UPF0392 protein RCOM_0530710-like [Glycine max]

 Score =  329 bits (844), Expect = 1e-87,   Method: Compositional matrix adjust.
 Identities = 210/415 (50%), Positives = 259/415 (62%), Gaps = 79/415 (19%)

Query: 22  NGQSTESLFSPRFKSVAAMAGWDEEAILVASLVVEDTPDRESKQKRRFDLPFKTPPSNSR 81
           NGQ+  +LFSPRFKS AAMAGWDEEA+L+ASL VEDTPDR+ K K+R+    KTPP++SR
Sbjct: 580 NGQNLATLFSPRFKSAAAMAGWDEEALLLASLFVEDTPDRDPKHKKRYVWHSKTPPNSSR 639

Query: 82  RKRRLQKRSP-VSIPIAVLDLDEGESSGQESGKNKVQL-----NEEKKT---KEEKSVGG 132
           ++R L  RSP   IP+ VLDLD  E+  ++SG+   ++     NE KK     E   VGG
Sbjct: 640 KRRAL--RSPQAPIPV-VLDLDAEETPRKDSGRKNKEMKVCVDNEGKKACVENEGSRVGG 696

Query: 133 D--ELTEPSNDGSSSSSVLTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAAD 190
           D  E  E ++  +SSSSVL CIDKLR+ELSCAICLEICFEPSTT CGHSFC+KCLRSAAD
Sbjct: 697 DGNESKEKNSADASSSSVLPCIDKLRDELSCAICLEICFEPSTTPCGHSFCRKCLRSAAD 756

Query: 191 KCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLFPQEVEARKAAAALNS-REAEHQSPQRG 249
           KCGKKCPKCRQLISNGR CTVNTVLWNTIQLLFPQEVEARK A+ALNS ++A++ SP+  
Sbjct: 757 KCGKKCPKCRQLISNGRPCTVNTVLWNTIQLLFPQEVEARKEASALNSLQQAQNLSPESA 816

Query: 250 FHNNVRT---RSMRSSATSSGDATTRRREIPNQDEYAASTLRFERENFARLISRSVDSLE 306
           F  N+R    +  R ++T++            QDE AA          AR++ R +D   
Sbjct: 817 FFANLRNDRRQPFRGASTTTSST--------QQDEDAA---------LARMLQRQID--- 856

Query: 307 AEDQNPQRRSTRPSTVSTRDRSTRRRGI-PSQDEDAALAIRLERENLTRLLSRRASTRRR 365
            E ++P    TR      R R+ RR G+  SQ EDAALA                     
Sbjct: 857 -EQRSPGTTRTR----FARLRA-RRGGVSTSQHEDAALA--------------------- 889

Query: 366 DTRNENEDDAVLALRLQREEFMEAFMGTREQHSGSSLSLARANLRAMASRAINIR 420
                        LR++REEFM+ + G+ +     S  LAR  LRAM SRA+N R
Sbjct: 890 -------------LRMRREEFMQTYRGSSQSSRLPSSLLAREKLRAMVSRAMNRR 931

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|326516306|dbj|BAJ92308.1| predicted protein [Hordeum vulgare subsp. vulgare]

 Score =  265 bits (678), Expect = 2e-68,   Method: Compositional matrix adjust.
 Identities = 179/412 (43%), Positives = 232/412 (56%), Gaps = 42/412 (10%)

Query: 24  QSTESLFSPRFKSVAAMAGWDEEAILVASLVVEDTP---DRESKQKRRFDLPFKTPPSNS 80
           +S   L SPRF+S A +AGWDEE+IL+A+LVVEDTP    R  ++         +  SN+
Sbjct: 17  KSGAGLLSPRFRSAAELAGWDEESILLAALVVEDTPVRESRRKRRSSGSTAAGGSAGSNT 76

Query: 81  RRKR-RLQKRSPVSIPIAVLDLDEGES-SGQESGKNKVQLNEEKKTKEEKSVGGDELTEP 138
           R++R R Q      IP   L LDE E     E GK +V+  EE+K K    V G E +  
Sbjct: 77  RKRRSRRQSADETPIPPVALVLDEDEKPDDHEVGKKEVKQAEEEKEKA-PVVEGKEKSGS 135

Query: 139 SNDG-SSSSSVLTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCP 197
           + +G ++ S  L C+D+LREELSCAICL+ICF+PSTT CGHSFC +CL+ AA KCGK+CP
Sbjct: 136 AKEGEAAGSGELPCMDRLREELSCAICLDICFQPSTTACGHSFCMQCLKHAASKCGKRCP 195

Query: 198 KCRQLISNGRSCTVNTVLWNTIQLLFPQEVEARKAAAALNSREAEHQSPQRGFHNNVRTR 257
           KCRQLISN RSCT+NTVLWNTIQLLFP EVEARK + A +S   ++        NN    
Sbjct: 196 KCRQLISNSRSCTINTVLWNTIQLLFPSEVEARKGSMASSSASKDNVKQTLPRSNNFTQG 255

Query: 258 SMRSSATSSGDATTRRREIPNQDEYAASTLRFERENFARLISRSVDSLEAEDQNPQRRST 317
            M  +  +SG   T     P+      ST    R + A    RSV         P   +T
Sbjct: 256 GMSRNTGASGSIIT-----PDYTRIGNST----RSSLAAGSRRSVP-------GPGTMNT 299

Query: 318 RPSTVSTRDRSTRRRGIPSQDEDAALAIRLERENLTRLLSRRASTRRRDTRNENEDDAVL 377
              +  T+ R+TR R     D              ++L++ R+S R     +   DDA L
Sbjct: 300 SSGSFDTQGRTTRSR-----DSGRGFV------RASQLVATRSSAR-----SGQSDDASL 343

Query: 378 ALRLQREEFMEAFMGTREQHSGSSLSLARANLRAMAS---RAINIRMRGRPL 426
           A RLQ+EEFM AF    E+   +++S ARANLRA+AS   RA  +R RG PL
Sbjct: 344 AYRLQQEEFMTAFDNEGERQPQNTISTARANLRAIASRAERAALLRSRGWPL 395

Source: Hordeum vulgare subsp. vulgare

Species: Hordeum vulgare

Genus: Hordeum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242051378|ref|XP_002463433.1| hypothetical protein SORBIDRAFT_02g043730 [Sorghum bicolor] gi|241926810|gb|EER99954.1| hypothetical protein SORBIDRAFT_02g043730 [Sorghum bicolor]

 Score =  255 bits (652), Expect = 3e-65,   Method: Compositional matrix adjust.
 Identities = 176/411 (42%), Positives = 236/411 (57%), Gaps = 63/411 (15%)

Query: 29  LFSPRFKSVAAMAGWDEEAILVASLVVEDTPDRESKQKRRFDLPFKTPPSNSR-RKRRLQ 87
           L SPRF+S A +AGWDEE++L A++VVEDTP RES++KRR         + S  RKRR +
Sbjct: 28  LLSPRFRSAAELAGWDEESVL-AAMVVEDTPVRESRRKRRASTSSAGGSAGSSTRKRRPR 86

Query: 88  KRSPVSIPIAVLDLDE--GESSGQESGKNKVQLNEEKKTKEEKSVG--GDELTEPSNDGS 143
           ++ P  IP  VL LD+   ++   E GK++V     K TKEE+ V   GD+    S + +
Sbjct: 87  RQFPAKIPPVVLALDDEDDKTDTAEDGKSEV-----KATKEEEKVVLVGDKEASGSGEKA 141

Query: 144 SSSSVLTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLI 203
           +++  + C+D+LREELSCAICLEICFEP+TT CGHSFC KCLR AA KCGK+CPKCRQLI
Sbjct: 142 AATGNMPCMDRLREELSCAICLEICFEPTTTPCGHSFCMKCLRHAAAKCGKRCPKCRQLI 201

Query: 204 SNGRSCTVNTVLWNTIQLLFPQEVEARKAAAALNSREAE--HQSPQRGFHNNVRTRSMRS 261
           SN RSCT+NTVLWNTIQLLFP EVEARK++ +  S   +  ++SP R    +     MR+
Sbjct: 202 SNSRSCTINTVLWNTIQLLFPSEVEARKSSTSSPSPCGKDVNRSPLRANRFSQGGTGMRT 261

Query: 262 SATSSGDATTRRREIPNQDEYAASTLRFERENFARLISRSVDSLEAEDQNPQRRSTRPST 321
            A SS    T  R                        +RS      E  +  R +T  + 
Sbjct: 262 RARSSSSFITEGR------------------------TRSSYRTFLEPGSTTRTNTSANF 297

Query: 322 VST----RDRSTRRRGIPSQDEDAALAIRLERENLTRLLSRRASTRRRDTRNENEDDAVL 377
           +ST    R  ++R RG  S  +     + L R  +                +E  +DA L
Sbjct: 298 ISTHGNTRSSNSRSRGFVSASQ-----LLLPRSTVG---------------SEQSEDAAL 337

Query: 378 ALRLQREEFMEAF-MGTREQHSGSSLSLARANLRAMASRAINIR-MRGRPL 426
           A RLQ+EEFM AF    +E+ + +++S AR  LR +ASRAI +R  RG P+
Sbjct: 338 AYRLQQEEFMNAFEEPEQERQTRNAVSTARDTLREIASRAIRLRAARGWPV 388

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|212276242|ref|NP_001130087.1| uncharacterized protein LOC100191180 [Zea mays] gi|194688258|gb|ACF78213.1| unknown [Zea mays] gi|195625524|gb|ACG34592.1| ubiquitin-protein ligase/ zinc ion binding protein [Zea mays] gi|414888211|tpg|DAA64225.1| TPA: putative RING zinc finger domain superfamily protein [Zea mays]

 Score =  254 bits (649), Expect = 5e-65,   Method: Compositional matrix adjust.
 Identities = 172/428 (40%), Positives = 236/428 (55%), Gaps = 64/428 (14%)

Query: 2   ASEEPKQSLRDQKEPNPVAGNGQSTESLFSPRFKSVAAMAGWDEEAILVASLVVEDTPDR 61
           A+  PK + R      P  G       L SPRF+S AA+AGWDEE++L+A++VV+DTP R
Sbjct: 6   AASSPKSAPRRHGPAAPKNG-----ADLLSPRFRSAAALAGWDEESVLLAAMVVDDTPVR 60

Query: 62  ESKQKRR-FDLPFKTPPSNSRRKRRLQKRSPVSIPIAVLDLDEGESSGQESGKNKVQLNE 120
           +S++KRR           +S RKRR ++ SP  IP  V  LD+ +S      K++V+  +
Sbjct: 61  DSRRKRRASTSSVGGSAGSSTRKRRPRRLSPAKIPPVVFALDDEKSDTAADSKSEVKAAK 120

Query: 121 EKKTKEEKSV-GGDELTEPSNDGSSSSSVLTCIDKLREELSCAICLEICFEPSTTTCGHS 179
           E    EEK V  GD+    S + + +++ + C+D+LREELSCAICL+ICFEP+TT CGHS
Sbjct: 121 E----EEKPVLVGDKEASGSGEKAVAAANMPCMDRLREELSCAICLDICFEPTTTPCGHS 176

Query: 180 FCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLFPQEVEARKAAAALNSR 239
           FC +CLR AA KCGK+CPKCRQ IS+ +SCT+NTVLWNTIQLLFP EVEARK +++  S 
Sbjct: 177 FCMRCLRHAAAKCGKRCPKCRQFISSSKSCTINTVLWNTIQLLFPSEVEARKGSSSSPSP 236

Query: 240 EAEHQSPQRGFHNNVRTRSMRSSATSSGDATTRRREIPNQDEYAASTLRFERENFARLIS 299
             +       F         RS ++ SG  ++  R   +  E  AS       NF  ++S
Sbjct: 237 CDKDDVRANRFSQGGPGMRTRSRSSGSGFISSEGRTRSSFIEPGASA------NF--IVS 288

Query: 300 RSVDSLEAEDQNPQRRSTRPSTVSTRDRSTRRRGIPSQDEDAALAIRLERENLTRLLSRR 359
                               +  S R  ++RR  +P+      L  RLE           
Sbjct: 289 --------------------TYGSARSSNSRRGFVPASQ---LLLTRLE----------- 314

Query: 360 ASTRRRDTRNENEDDAVLALRLQREEFMEAF-MGTREQHSGSSLSLARANLRAMASRAIN 418
                     ++ED A LA RLQ+EEF+ AF    +E+    ++S AR  LRAMASRAI 
Sbjct: 315 ----------QSEDAAALAYRLQQEEFVNAFEEPEQERQPRDAVSTARDTLRAMASRAIR 364

Query: 419 IRMRGRPL 426
           +R RG P+
Sbjct: 365 LRARGWPV 372

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	426
TAIR|locus:2086666	913	AT3G27330 [Arabidopsis thalian	0.509	0.237	0.613	2.5e-77
TAIR|locus:2035025	491	AT1G18660 [Arabidopsis thalian	0.176	0.152	0.428	3.3e-12
UNIPROTKB|G3X8D4	190	RNF168 "E3 ubiquitin-protein l	0.208	0.468	0.397	1.1e-11
UNIPROTKB|F8WD60	116	RNF168 "E3 ubiquitin-protein l	0.215	0.793	0.346	2.9e-11
MGI|MGI:1921615	753	Lonrf3 "LON peptidase N-termin	0.276	0.156	0.304	5.7e-10
RGD|1560267	197	RGD1560267 "similar to ring fi	0.225	0.487	0.333	6.1e-10
ZFIN|ZDB-GENE-081031-50	192	btr19 "bloodthirsty-related ge	0.180	0.401	0.367	1e-09
UNIPROTKB|Q6PJ69	517	TRIM65 "Tripartite motif-conta	0.159	0.131	0.411	2.4e-09
UNIPROTKB|B3KUN7	503	LONRF3 "LON peptidase N-termin	0.281	0.238	0.285	3e-09
UNIPROTKB|H0Y7Q8	525	LONRF3 "LON peptidase N-termin	0.281	0.228	0.285	3.2e-09

TAIR|locus:2086666 AT3G27330 [Arabidopsis thaliana (taxid:3702)]

 Score = 684 (245.8 bits), Expect = 2.5e-77, Sum P(2) = 2.5e-77
 Identities = 141/230 (61%), Positives = 170/230 (73%)

Query:    22 NGQSTESLFSPRFKSVAAMAGWDEEAILVASLVVEDTPDRES-KQKRRFDLPFK-TPPSN 79
             NG++ E   SPRFKS AAMAGWDEE +++AS VV+DTP+R S K++RR +L FK TPPS 
Sbjct:   589 NGENAEIFISPRFKSAAAMAGWDEEDLIIASFVVDDTPERSSSKRRRRSNLLFKSTPPSG 648

Query:    80 SRRKRRLQKRSPVSIPIAVLD--LDEGESSGQESGKNKVQLNEEKKTKEEKSVGGDELTE 137
             S R+ +  K+S V +P+  LD  +   E    E  K K ++  E +TKEEK +  DE + 
Sbjct:   649 SSRRNQRVKQSLVPLPVIDLDKVIRHEEEKSAEKKKKKREM--ETETKEEKKIDKDEKS- 705

Query:   138 PSNDGSSSSSVLTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCP 197
                   S   VL CIDKLR+ELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCG+KCP
Sbjct:   706 -----LSDHVVLPCIDKLRDELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGRKCP 760

Query:   198 KCRQLISNGRSCTVNTVLWNTIQLLFPQEVEARKAAAALNSREAEHQSPQ 247
             KCRQLI NGR CTVNTVLWNTIQLLFP+EVEA++AA+A N +  E  SP+
Sbjct:   761 KCRQLIGNGRYCTVNTVLWNTIQLLFPKEVEAQRAASA-NLKGKETPSPR 809

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

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

 Score = 191 (72.3 bits), Expect = 3.3e-12, P = 3.3e-12
 Identities = 33/77 (42%), Positives = 50/77 (64%)

Query:   157 EELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLI-SNGRSCTVNTVL 215
             ++  C +CL++ +EP+TT CGH+FC+ CL  + D+ G KCP CR +I    R+C V+  L
Sbjct:   192 DDFDCTVCLKLLYEPATTPCGHTFCRSCLFQSMDR-GNKCPLCRTVIFMTPRTCAVSVTL 250

Query:   216 WNTIQLLFPQEVEARKA 232
              N I+  FP+E   RK+
Sbjct:   251 NNIIEKNFPEEYAERKS 267

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

GO:0005634 "nucleus" evidence=ISM

GO:0006508 "proteolysis" evidence=IEA

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

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

UNIPROTKB|G3X8D4 RNF168 "E3 ubiquitin-protein ligase RNF168" [Bos taurus (taxid:9913)]

 Score = 165 (63.1 bits), Expect = 1.1e-11, P = 1.1e-11
 Identities = 39/98 (39%), Positives = 51/98 (52%)

Query:   158 ELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNG---RSCT---V 211
             E  C IC+EI FEP T  C H+ CK C  S  +K    CP CR+ +S+    RS T   V
Sbjct:    13 ECQCQICVEILFEPVTLPCNHTLCKPCFESTVEKASLCCPFCRRRVSSWARYRSRTNSLV 72

Query:   212 NTVLWNTIQLLFPQEVEARKAAAALNSRE-AEHQSPQR 248
             N  LW  IQ  +P+E + R  A+   S+E  +   P R
Sbjct:    73 NMELWEIIQKHYPKECKLR--ASGQESKEIVDDYQPVR 108

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|F8WD60 RNF168 "E3 ubiquitin-protein ligase RNF168" [Homo sapiens (taxid:9606)]

 Score = 161 (61.7 bits), Expect = 2.9e-11, P = 2.9e-11
 Identities = 34/98 (34%), Positives = 47/98 (47%)

Query:   158 ELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNG------RSCTV 211
             E  C IC+EI  EP T  C H+ CK C +S  +K    CP CR+ +S+       R+  V
Sbjct:    13 ECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRRNSLV 72

Query:   212 NTVLWNTIQLLFPQEVEARKAAAALNSREAEHQSPQRG 249
             N  LW  IQ  +P+E + R +            + QRG
Sbjct:    73 NVELWTIIQKHYPRECKLRASGQESEEVGGGRATGQRG 110

GO:0008270 "zinc ion binding" evidence=IEA

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

 Score = 174 (66.3 bits), Expect = 5.7e-10, P = 5.7e-10
 Identities = 39/128 (30%), Positives = 63/128 (49%)

Query:   109 QESGKNKVQLNEEKKTKEEKSVGGDELTEPSNDGSSS--SSVLTCIDKLREELSCAICLE 166
             QE  +N+ Q+  ++ T+    V   +   P+  G+    S+ L   D    +L C++C+ 
Sbjct:   411 QEKKRNRCQIETQEDTELPNKVSKQDF--PAEQGAKPDLSNPLGSFDA--SDLECSLCMR 466

Query:   167 ICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISN---GRSCTVNTVLWNTIQLLF 223
             + +EP TT CGH+FC KCL    D    KCP C+ ++      R  + N +L   I    
Sbjct:   467 LFYEPVTTPCGHTFCLKCLERCLDH-NAKCPLCKDVLLQCLPSRKYSKNVILEELIATFL 525

Query:   224 PQEVEARK 231
             P+E + RK
Sbjct:   526 PEEFKERK 533

GO:0003674 "molecular_function" evidence=ND

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

GO:0005575 "cellular_component" evidence=ND

GO:0006508 "proteolysis" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

RGD|1560267 RGD1560267 "similar to ring finger protein 168" [Rattus norvegicus (taxid:10116)]

 Score = 149 (57.5 bits), Expect = 6.1e-10, P = 6.1e-10
 Identities = 34/102 (33%), Positives = 45/102 (44%)

Query:   157 EELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISN-GRSCT----- 210
             E+  C +C+E   EP T  C H+ CK C ++   K    CP CR  IS+  R  T     
Sbjct:    14 EDCQCLLCMEFLIEPITMPCNHTMCKSCFKALLRKTNLFCPFCRSWISSWARYHTHVNSL 73

Query:   211 VNTVLWNTIQLLFPQEVEARKAAAALNSREAEHQSPQRGFHN 252
             +N  LW  IQ  +P+E   R      +S      SP R   N
Sbjct:    74 INKELWERIQTQYPEECRRRTPGEERSSLVFSDHSPIRVLSN 115

GO:0008270 "zinc ion binding" evidence=IEA

ZFIN|ZDB-GENE-081031-50 btr19 "bloodthirsty-related gene family, member 19" [Danio rerio (taxid:7955)]

 Score = 147 (56.8 bits), Expect = 1.0e-09, P = 1.0e-09
 Identities = 29/79 (36%), Positives = 43/79 (54%)

Query:   155 LREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGK-KCPKCRQLISNGRSCTVNT 213
             L E+L C+ICLE+  +P +T CGH+FCK CL +  +K     CP C++  +      +NT
Sbjct:    10 LSEDLQCSICLEVFTDPVSTPCGHNFCKSCLNTCWNKTQTCSCPNCKETFTQRPDLKINT 69

Query:   214 VLWNTIQLLFPQEVEARKA 232
              L   I   + +E    KA
Sbjct:    70 TL-REISEHYKEERPEEKA 87

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

UNIPROTKB|Q6PJ69 TRIM65 "Tripartite motif-containing protein 65" [Homo sapiens (taxid:9606)]

 Score = 166 (63.5 bits), Expect = 2.4e-09, P = 2.4e-09
 Identities = 28/68 (41%), Positives = 42/68 (61%)

Query:   155 LREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTV 214
             L E+L+CAICL +  +P T  CGH+FC  C+R   D+CGK CP+CR+   +G     N  
Sbjct:     6 LEEKLTCAICLGLYQDPVTLPCGHNFCGACIRDWWDRCGKACPECREPFPDGAELRRNVA 65

Query:   215 LWNTIQLL 222
             L   ++++
Sbjct:    66 LSGVLEVV 73

GO:0005622 "intracellular" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|B3KUN7 LONRF3 "LON peptidase N-terminal domain and RING finger protein 3" [Homo sapiens (taxid:9606)]

 Score = 165 (63.1 bits), Expect = 3.0e-09, P = 3.0e-09
 Identities = 36/126 (28%), Positives = 58/126 (46%)

Query:   109 QESGKNKVQLNEEKKTKEEKSVGGDELTEPSNDGSSSSSVLTCIDKLREELSCAICLEIC 168
             QE  +   Q+  +++T         +      D  + S  L   D    +L CA+C+ + 
Sbjct:   161 QEKKRKHCQIESQEETGMPNKASKQDPPTDQGDKPALSLPLASFDA--SDLECALCMRLF 218

Query:   169 FEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISN---GRSCTVNTVLWNTIQLLFPQ 225
             +EP TT CGH+FC KCL    D    KCP C+  +S     R  + N ++   I    P+
Sbjct:   219 YEPVTTPCGHTFCLKCLERCLDH-NAKCPLCKDGLSQCLASRKYSKNVIMEELIAKFLPE 277

Query:   226 EVEARK 231
             E++ R+
Sbjct:   278 ELKERR 283

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

GO:0006508 "proteolysis" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

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

 Score = 165 (63.1 bits), Expect = 3.2e-09, P = 3.2e-09
 Identities = 36/126 (28%), Positives = 58/126 (46%)

Query:   109 QESGKNKVQLNEEKKTKEEKSVGGDELTEPSNDGSSSSSVLTCIDKLREELSCAICLEIC 168
             QE  +   Q+  +++T         +      D  + S  L   D    +L CA+C+ + 
Sbjct:   183 QEKKRKHCQIESQEETGMPNKASKQDPPTDQGDKPALSLPLASFDA--SDLECALCMRLF 240

Query:   169 FEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISN---GRSCTVNTVLWNTIQLLFPQ 225
             +EP TT CGH+FC KCL    D    KCP C+  +S     R  + N ++   I    P+
Sbjct:   241 YEPVTTPCGHTFCLKCLERCLDH-NAKCPLCKDGLSQCLASRKYSKNVIMEELIAKFLPE 299

Query:   226 EVEARK 231
             E++ R+
Sbjct:   300 ELKERR 305

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

GO:0006508 "proteolysis" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

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

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00020579001 SubName- Full=Chromosome chr14 scaffold_21, whole genome shotgun sequence; (338 aa) (Vitis vinifera)

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	426
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	3e-12
smart00184	40	smart00184, RING, Ring finger	1e-10
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	8e-10
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	1e-09
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	6e-08
pfam13920	49	pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RI	2e-05
pfam13445	55	pfam13445, zf-RING_LisH, RING-type zinc-finger, Li	2e-05
COG5574	271	COG5574, PEX10, RING-finger-containing E3 ubiquiti	5e-04
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	0.003
TIGR00599	397	TIGR00599, rad18, DNA repair protein rad18	0.004

>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 = 60.5 bits (147), Expect = 3e-12
 Identities = 18/44 (40%), Positives = 20/44 (45%), Gaps = 1/44 (2%)

Query: 161 CAICLEICFEPSTTT-CGHSFCKKCLRSAADKCGKKCPKCRQLI 203
           C ICLE   EP     CGH FC+ C+          CP CR  I
Sbjct: 2   CPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 55.6 bits (134), Expect = 1e-10
 Identities = 16/40 (40%), Positives = 21/40 (52%), Gaps = 1/40 (2%)

Query: 161 CAICLEICFE-PSTTTCGHSFCKKCLRSAADKCGKKCPKC 199
           C ICLE   + P    CGH+FC+ C+R   +     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 = 53.6 bits (129), Expect = 8e-10
 Identities = 18/40 (45%), Positives = 21/40 (52%), Gaps = 1/40 (2%)

Query: 161 CAICLEICFEPSTTT-CGHSFCKKCLRSAADKCGKKCPKC 199
           C ICLE   +P T   CGH FC KC+ S  +     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|206094 pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RING finger)

 Score = 53.3 bits (128), Expect = 1e-09
 Identities = 21/46 (45%), Positives = 27/46 (58%), Gaps = 2/46 (4%)

Query: 157 EELSCAICLEICFEPST-TTCGHSFCKKCLRSAADKCGKKCPKCRQ 201
           EEL C ICL++  +P   T CGH FC++C+     K   KCP CR 
Sbjct: 1   EELECPICLDLLRDPVVLTPCGHVFCRECILRYLKK-KSKCPICRT 45

Length = 45

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

 Score = 48.5 bits (116), Expect = 6e-08
 Identities = 16/45 (35%), Positives = 18/45 (40%), Gaps = 4/45 (8%)

Query: 160 SCAICLEICF---EPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQ 201
            C ICL+      E     CGH F K+CL          CP CR 
Sbjct: 2   ECPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSN-TCPLCRA 45

Length = 46

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

 Score = 41.6 bits (98), Expect = 2e-05
 Identities = 21/53 (39%), Positives = 27/53 (50%), Gaps = 11/53 (20%)

Query: 157 EELSCAICLE----ICFEPSTTTCGH-SFCKKCLRSAADKCGKKCPKCRQLIS 204
           E+  C ICLE    + F P    CGH   C++C +    +  KKCP CRQ I 
Sbjct: 1   EDDLCVICLERPRNVVFLP----CGHLCLCEECAKRL--RSKKKCPICRQPIE 47

Length = 49

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

 Score = 41.9 bits (99), Expect = 2e-05
 Identities = 15/49 (30%), Positives = 19/49 (38%), Gaps = 5/49 (10%)

Query: 154 KLREELSCAICLEICFE----PSTTTCGHSFCKKCLRSAADKCGK-KCP 197
                  C I  E+  +    P    CGH + +K L   A   GK KCP
Sbjct: 6   HFHSIFVCPISKEVMTDEENPPVMLPCGHVYSRKALEKLAKNGGKFKCP 54

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

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

 Score = 41.4 bits (97), Expect = 5e-04
 Identities = 19/42 (45%), Positives = 22/42 (52%), Gaps = 1/42 (2%)

Query: 161 CAICLEICFEPSTTTCGHSFCKKCLRSA-ADKCGKKCPKCRQ 201
           C +CLE    PS T CGH FC  CL  +   K  + CP CR 
Sbjct: 218 CFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRA 259

Length = 271

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

 Score = 38.6 bits (90), Expect = 0.003
 Identities = 15/55 (27%), Positives = 23/55 (41%), Gaps = 9/55 (16%)

Query: 154 KLREELSCAICLEICFEPST--------TTCGHSFCKKCLRSAADKCGKKCPKCR 200
              ++  CAIC+E  ++           + C H FC +C+     K    CP CR
Sbjct: 170 NRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECI-DIWKKEKNTCPVCR 223

Length = 238

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

 Score = 38.8 bits (90), Expect = 0.004
 Identities = 18/52 (34%), Positives = 24/52 (46%), Gaps = 1/52 (1%)

Query: 149 LTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCR 200
           +  +  L   L C IC +    P  T+C H+FC  C+R        KCP CR
Sbjct: 17  IPSLYPLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQP-KCPLCR 67

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	426
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	99.32
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	99.23
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.19
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	99.14
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.08
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	99.05
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	99.05
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	99.0
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.97
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.96
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.93
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	98.88
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.87
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.83
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	98.79
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	98.74
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.74
PHA02929	238	N1R/p28-like protein; Provisional	98.73
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.71
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.68
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.65
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	98.57
PHA02926	242	zinc finger-like protein; Provisional	98.55
PF14634	44	zf-RING_5: zinc-RING finger domain	98.55
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.5
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.5
KOG2660	331	consensus Locus-specific chromosome binding protei	98.4
KOG0297	391	consensus TNF receptor-associated factor [Signal t	98.33
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.22
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	98.18
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	98.15
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	98.06
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	98.05
COG5152	259	Uncharacterized conserved protein, contains RING a	97.98
COG5222	427	Uncharacterized conserved protein, contains RING Z	97.96
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	97.92
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	97.91
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	97.88
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	97.73
KOG4367	699	consensus Predicted Zn-finger protein [Function un	97.68
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.68
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	97.54
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.35
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.23
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.21
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	97.21
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.14
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	97.08
KOG1002	791	consensus Nucleotide excision repair protein RAD16	96.85
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	96.75
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	96.75
KOG4739	233	consensus Uncharacterized protein involved in syna	96.56
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	96.47
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	96.44
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	96.43
PF04641	260	Rtf2: Rtf2 RING-finger	96.41
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	96.34
KOG3039	303	consensus Uncharacterized conserved protein [Funct	96.3
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	96.26
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	96.21
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	96.15
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	96.11
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	95.91
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	95.87
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	95.84
KOG1001	674	consensus Helicase-like transcription factor HLTF/	95.81
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	95.73
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	95.72
KOG3002	299	consensus Zn finger protein [General function pred	95.65
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	95.64
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	95.52
COG5219	1525	Uncharacterized conserved protein, contains RING Z	95.41
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	94.5
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	94.24
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	94.23
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	94.08
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	93.88
KOG1941	518	consensus Acetylcholine receptor-associated protei	93.79
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	93.64
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	93.55
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	93.34
KOG0298	1394	consensus DEAD box-containing helicase-like transc	92.88
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	92.78
COG5236	493	Uncharacterized conserved protein, contains RING Z	92.75
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	92.43
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	92.42
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	92.02
COG5175	480	MOT2 Transcriptional repressor [Transcription]	91.78
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	91.39
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	91.25
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	91.19
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	90.76
PHA03096	284	p28-like protein; Provisional	89.72
KOG3039	303	consensus Uncharacterized conserved protein [Funct	88.6
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	87.98
KOG1940	276	consensus Zn-finger protein [General function pred	87.41
COG5109	396	Uncharacterized conserved protein, contains RING Z	87.2
KOG3579	352	consensus Predicted E3 ubiquitin ligase [Posttrans	86.08
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	85.58
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	84.72
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	83.17
KOG4445	368	consensus Uncharacterized conserved protein, conta	82.91
KOG3113	293	consensus Uncharacterized conserved protein [Funct	81.29

>TIGR00599 rad18 DNA repair protein rad18

Probab=99.32  E-value=2.7e-12  Score=132.32  Aligned_cols=74  Identities=26%  Similarity=0.553  Sum_probs=64.4

Q ss_pred             chhhhhhhcccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHHHHC
Q 044354          148 VLTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLF  223 (426)
Q Consensus       148 ~~~~l~~l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l~  223 (426)
                      .++.+..++..+.|+||+++|..|++++|||+||..||..|+.. ...||.|+..+... .+..|..|.++|+.|.
T Consensus        16 ~~~~l~~Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~-~~~CP~Cr~~~~~~-~Lr~N~~L~~iVe~~~   89 (397)
T TIGR00599        16 PIPSLYPLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSN-QPKCPLCRAEDQES-KLRSNWLVSEIVESFK   89 (397)
T ss_pred             CcccccccccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhC-CCCCCCCCCccccc-cCccchHHHHHHHHHH
Confidence            44556778899999999999999999999999999999999976 56899999998743 6778999999998774

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

>smart00504 Ubox Modified RING finger domain

Probab=99.23  E-value=1.1e-11  Score=95.23  Aligned_cols=63  Identities=21%  Similarity=0.292  Sum_probs=55.0

Q ss_pred             cccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHHHH
Q 044354          158 ELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLL  222 (426)
Q Consensus       158 ~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l  222 (426)
                      ++.||||++++.+||+++|||+||..||..|+.. ...||.|+..+.. ..+..|..|.+.|+.|
T Consensus         1 ~~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~-~~~cP~~~~~~~~-~~l~~~~~l~~~i~~~   63 (63)
T smart00504        1 EFLCPISLEVMKDPVILPSGQTYERRAIEKWLLS-HGTDPVTGQPLTH-EDLIPNLALKSAIQEW   63 (63)
T ss_pred             CcCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHH-CCCCCCCcCCCCh-hhceeCHHHHHHHHhC
Confidence            3789999999999999999999999999999987 7789999999863 4567788888887753

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

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

Probab=99.19  E-value=9.1e-12  Score=89.64  Aligned_cols=39  Identities=41%  Similarity=1.096  Sum_probs=31.3

Q ss_pred             ccccccCCCCceeccCCCcchhhhHHhhhhhcC---CCCccc
Q 044354          161 CAICLEICFEPSTTTCGHSFCKKCLRSAADKCG---KKCPKC  199 (426)
Q Consensus       161 CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~---~~CP~C  199 (426)
                      ||||+++|.+||+++|||+||..||..|+....   ..||.|
T Consensus         1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            899999999999999999999999999987643   469987

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

Probab=99.14  E-value=2.5e-11  Score=97.19  Aligned_cols=66  Identities=23%  Similarity=0.344  Sum_probs=55.0

Q ss_pred             ccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHHHHC
Q 044354          157 EELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLF  223 (426)
Q Consensus       157 ~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l~  223 (426)
                      +.|.||||.++|.+||+++|||+|+..||..|+......||+|+..+.. ..+..|..|...|+.|+
T Consensus         3 ~~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~-~~l~pn~~Lk~~I~~~~   68 (73)
T PF04564_consen    3 DEFLCPITGELMRDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSE-SDLIPNRALKSAIEEWC   68 (73)
T ss_dssp             GGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SG-GGSEE-HHHHHHHHHHH
T ss_pred             cccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCc-ccceECHHHHHHHHHHH
Confidence            5699999999999999999999999999999998878899999998884 46788999999999984

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 ....

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.08  E-value=6.2e-11  Score=111.04  Aligned_cols=50  Identities=34%  Similarity=0.806  Sum_probs=43.5

Q ss_pred             ccccccccccCCCCceeccCCCcchhhhHHhhhhh---------------cCCCCccccccccCC
Q 044354          157 EELSCAICLEICFEPSTTTCGHSFCKKCLRSAADK---------------CGKKCPKCRQLISNG  206 (426)
Q Consensus       157 ~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~---------------~~~~CP~CR~~i~~~  206 (426)
                      .++.|+||++.+.+|++++|||.||..||..|+..               ....||+|+..+...
T Consensus        17 ~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~   81 (193)
T PLN03208         17 GDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEA   81 (193)
T ss_pred             CccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChh
Confidence            46899999999999999999999999999999753               135799999998753

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

Probab=99.05  E-value=1.1e-10  Score=114.13  Aligned_cols=120  Identities=23%  Similarity=0.352  Sum_probs=82.9

Q ss_pred             chhhhhhhcccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHHHHC----
Q 044354          148 VLTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLF----  223 (426)
Q Consensus       148 ~~~~l~~l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l~----  223 (426)
                      .++.+..+...+.|-||.+.+..|+.++|||+||.-||..++.. ...||+|+...... .++-+..+..+++.|.    
T Consensus        15 ~IPSL~~LDs~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~-qp~CP~Cr~~~~es-rlr~~s~~~ei~es~~~~r~   92 (391)
T COG5432          15 KIPSLKGLDSMLRCRICDCRISIPCETTCGHTFCSLCIRRHLGT-QPFCPVCREDPCES-RLRGSSGSREINESHARNRD   92 (391)
T ss_pred             cCcchhcchhHHHhhhhhheeecceecccccchhHHHHHHHhcC-CCCCccccccHHhh-hcccchhHHHHHHhhhhccH
Confidence            34555667777999999999999999999999999999999987 78899999876542 1233444444443331    


Q ss_pred             ------------hhH-HH----------------------------------HHHHHHHhcccccccCccccccccccCc
Q 044354          224 ------------PQE-VE----------------------------------ARKAAAALNSREAEHQSPQRGFHNNVRT  256 (426)
Q Consensus       224 ------------p~E-~~----------------------------------~r~~~~~~~~~~~~~~~pc~gC~~~i~~  256 (426)
                                  |.. ..                                  +++........+.+....|+.|.+.++.
T Consensus        93 ~l~~~L~~~~~~p~p~~ee~p~~~E~v~~~dS~S~~~~~eD~~~~~sS~~~iAKkt~~D~~KrK~E~l~~CP~C~~~~P~  172 (391)
T COG5432          93 LLRKVLESLCRLPRPIKEERPCRWETVIAQDSASGDEEWEDDLASNSSPASIAKKTSRDSKKRKREDLVHCPACSNLVPH  172 (391)
T ss_pred             HHHHHHhcccCCCCchhhcCCCchhheeccccccccchhhhhhhhccChHHHHhhhhhHHHHhHHHhhhcCchhhccCch
Confidence                        000 00                                  0000000011223455789999999999


Q ss_pred             hhHHHHhhhcccc
Q 044354          257 RSMRSSATSSGDA  269 (426)
Q Consensus       257 ~~lR~H~~~c~~~  269 (426)
                      ..+..|+.+|...
T Consensus       173 ~~i~~HLD~CL~~  185 (391)
T COG5432         173 NQINQHLDSCLNS  185 (391)
T ss_pred             HHHHHHHHHHhcC
Confidence            9999999999865

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

Probab=99.05  E-value=7.1e-11  Score=117.58  Aligned_cols=73  Identities=27%  Similarity=0.623  Sum_probs=63.6

Q ss_pred             chhhhhhhcccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHHHH
Q 044354          148 VLTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLL  222 (426)
Q Consensus       148 ~~~~l~~l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l  222 (426)
                      .++.+..+.+.+.|-||+++|.-|+++||+|+||.-||..++.. ...||.|...+.. ..+..|..|.+||+.|
T Consensus        13 sipslk~lD~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~-~p~CP~C~~~~~E-s~Lr~n~il~Eiv~S~   85 (442)
T KOG0287|consen   13 SIPSLKTLDDLLRCGICFEYFNIPMITPCSHTFCSLCIRKFLSY-KPQCPTCCVTVTE-SDLRNNRILDEIVKSL   85 (442)
T ss_pred             cCchhhhhHHHHHHhHHHHHhcCceeccccchHHHHHHHHHhcc-CCCCCceecccch-hhhhhhhHHHHHHHHH
Confidence            35566677788999999999999999999999999999999987 7899999999884 4577788888888776

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

Probab=99.00  E-value=1.5e-10  Score=110.40  Aligned_cols=52  Identities=35%  Similarity=0.774  Sum_probs=45.2

Q ss_pred             ccccccccccCCCCceeccCCCcchhhhHHhhhhhc--CCCCccccccccCCCC
Q 044354          157 EELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKC--GKKCPKCRQLISNGRS  208 (426)
Q Consensus       157 ~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~--~~~CP~CR~~i~~~~~  208 (426)
                      ..|.|.||++.-++||++.|||.||+.||.+|+...  ...||+|+..+.....
T Consensus        46 ~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~v   99 (230)
T KOG0823|consen   46 GFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTV   99 (230)
T ss_pred             CceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceE
Confidence            458999999999999999999999999999999763  3468999998886443

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

Probab=98.97  E-value=4.4e-10  Score=87.48  Aligned_cols=63  Identities=33%  Similarity=0.728  Sum_probs=36.7

Q ss_pred             hhhcccccccccccCCCCcee-ccCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHH
Q 044354          153 DKLREELSCAICLEICFEPST-TTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTI  219 (426)
Q Consensus       153 ~~l~~~l~CpIC~~~l~~Pv~-lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI  219 (426)
                      ..++..+.|++|.+++..||. ..|.|+||..||...+.   ..||+|..+... ..+.+|..|.++|
T Consensus         2 ~~le~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~---~~CPvC~~Paw~-qD~~~NrqLd~~i   65 (65)
T PF14835_consen    2 ERLEELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIG---SECPVCHTPAWI-QDIQINRQLDSMI   65 (65)
T ss_dssp             HHHHHTTS-SSS-S--SS-B---SSS--B-TTTGGGGTT---TB-SSS--B-S--SS----HHHHHHH
T ss_pred             hHHHHhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcC---CCCCCcCChHHH-HHHHhhhhhhccC
Confidence            456778999999999999997 47999999999988764   469999998773 4678899998875

>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=98.96  E-value=3e-10  Score=80.04  Aligned_cols=38  Identities=50%  Similarity=1.199  Sum_probs=33.6

Q ss_pred             ccccccCCCCc-eeccCCCcchhhhHHhhhhhcCCCCccc
Q 044354          161 CAICLEICFEP-STTTCGHSFCKKCLRSAADKCGKKCPKC  199 (426)
Q Consensus       161 CpIC~~~l~~P-v~lpCgH~FC~~CI~~~l~~~~~~CP~C  199 (426)
                      |+||++.+.+| +.++|||+||..||..|+.. ...||+|
T Consensus         1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~-~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEK-NPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHC-TSB-TTT
T ss_pred             CCCCCCcccCcCEECCCCCchhHHHHHHHHHC-cCCCcCC
Confidence            89999999999 56899999999999999988 7899988

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

Probab=98.93  E-value=3.8e-10  Score=103.85  Aligned_cols=51  Identities=39%  Similarity=0.964  Sum_probs=43.5

Q ss_pred             cccccccccCCCC--ceeccCCCcchhhhHHhhhhhcCCCCccccccccCCCCc
Q 044354          158 ELSCAICLEICFE--PSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSC  209 (426)
Q Consensus       158 ~l~CpIC~~~l~~--Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l  209 (426)
                      .+.||||++.+.+  |+.+.|||.||..||+..++. ..+||.|++.|.....+
T Consensus       131 ~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~-~~~CP~C~kkIt~k~~~  183 (187)
T KOG0320|consen  131 TYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKN-TNKCPTCRKKITHKQFH  183 (187)
T ss_pred             ccCCCceecchhhccccccccchhHHHHHHHHHHHh-CCCCCCcccccchhhhe
Confidence            3899999998865  566899999999999999988 78999999988765443

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

Probab=98.88  E-value=8.3e-10  Score=108.28  Aligned_cols=51  Identities=33%  Similarity=0.804  Sum_probs=45.6

Q ss_pred             cccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccCCC
Q 044354          156 REELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGR  207 (426)
Q Consensus       156 ~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~  207 (426)
                      +...+|.+|++...+|..+||||.||+.||..|... ..-||+||..+...+
T Consensus       237 ~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~e-k~eCPlCR~~~~psk  287 (293)
T KOG0317|consen  237 EATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSE-KAECPLCREKFQPSK  287 (293)
T ss_pred             CCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHcc-ccCCCcccccCCCcc
Confidence            355899999999999999999999999999999987 567999999988644

>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=98.87  E-value=1.1e-09  Score=81.04  Aligned_cols=46  Identities=39%  Similarity=0.859  Sum_probs=40.7

Q ss_pred             cccccccccCCCCceeccCCCc-chhhhHHhhhhhcCCCCcccccccc
Q 044354          158 ELSCAICLEICFEPSTTTCGHS-FCKKCLRSAADKCGKKCPKCRQLIS  204 (426)
Q Consensus       158 ~l~CpIC~~~l~~Pv~lpCgH~-FC~~CI~~~l~~~~~~CP~CR~~i~  204 (426)
                      +..|.||++...+++.+||||. ||..|+..|+.. ...||+||++|.
T Consensus         2 ~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~~-~~~CP~Cr~~i~   48 (50)
T PF13920_consen    2 DEECPICFENPRDVVLLPCGHLCFCEECAERLLKR-KKKCPICRQPIE   48 (50)
T ss_dssp             HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHHT-TSBBTTTTBB-S
T ss_pred             cCCCccCCccCCceEEeCCCChHHHHHHhHHhccc-CCCCCcCChhhc
Confidence            4789999999999999999999 999999999984 789999999876

...

>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=98.83  E-value=2e-09  Score=76.11  Aligned_cols=39  Identities=49%  Similarity=1.102  Sum_probs=36.0

Q ss_pred             ccccccCCCCce-eccCCCcchhhhHHhhhh-hcCCCCccc
Q 044354          161 CAICLEICFEPS-TTTCGHSFCKKCLRSAAD-KCGKKCPKC  199 (426)
Q Consensus       161 CpIC~~~l~~Pv-~lpCgH~FC~~CI~~~l~-~~~~~CP~C  199 (426)
                      |+||++.+.+|+ +++|||.||..||..|+. .....||.|
T Consensus         1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            899999999999 789999999999999998 556789988

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=98.79  E-value=2e-09  Score=77.64  Aligned_cols=40  Identities=35%  Similarity=0.892  Sum_probs=34.2

Q ss_pred             cccccccCCC---CceeccCCCcchhhhHHhhhhhcCCCCcccc
Q 044354          160 SCAICLEICF---EPSTTTCGHSFCKKCLRSAADKCGKKCPKCR  200 (426)
Q Consensus       160 ~CpIC~~~l~---~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR  200 (426)
                      .|+||++.+.   .++.++|||.||..||..|+.. ...||+||
T Consensus         2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~-~~~CP~CR   44 (44)
T PF13639_consen    2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKR-NNSCPVCR   44 (44)
T ss_dssp             CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHH-SSB-TTTH
T ss_pred             CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHh-CCcCCccC
Confidence            5999999884   4566899999999999999988 67999996

...

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

Probab=98.74  E-value=1.4e-09  Score=109.07  Aligned_cols=78  Identities=26%  Similarity=0.597  Sum_probs=68.4

Q ss_pred             chhhhhhhcccccccccccCCCCceecc-CCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHHHHChh
Q 044354          148 VLTCIDKLREELSCAICLEICFEPSTTT-CGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLFPQ  225 (426)
Q Consensus       148 ~~~~l~~l~~~l~CpIC~~~l~~Pv~lp-CgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l~p~  225 (426)
                      ....+..+...+.|+||+++++..++++ |+|.||..||...+..++..||.||+.+.+...|.++.....||..+|+.
T Consensus        33 i~~~l~~~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsLr~Dp~fdaLis~i~~s  111 (381)
T KOG0311|consen   33 IMVDLAMFDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSLRIDPNFDALISKIYPS  111 (381)
T ss_pred             heecHHHhhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccCCCCccHHHHHHHHhcc
Confidence            3444567788899999999999998875 99999999999999988899999999999988999888888888888766

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

Probab=98.74  E-value=5.8e-09  Score=98.89  Aligned_cols=66  Identities=41%  Similarity=0.800  Sum_probs=56.0

Q ss_pred             hhhcccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHHHH
Q 044354          153 DKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLL  222 (426)
Q Consensus       153 ~~l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l  222 (426)
                      ..+.+.+.|+||++.|..|++++|||+||..|+..++. ....||.|+. ...  .+..|..+.+++..+
T Consensus         8 ~~~~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~-~~~~Cp~cr~-~~~--~~~~n~~l~~~~~~~   73 (386)
T KOG2177|consen    8 EVLQEELTCPICLEYFREPVLLPCGHNFCRACLTRSWE-GPLSCPVCRP-PSR--NLRPNVLLANLVERL   73 (386)
T ss_pred             hhccccccChhhHHHhhcCccccccchHhHHHHHHhcC-CCcCCcccCC-chh--ccCccHHHHHHHHHH
Confidence            44567899999999999998899999999999999987 5679999996 332  566788888888877

>PHA02929 N1R/p28-like protein; Provisional

Probab=98.73  E-value=6.6e-09  Score=100.83  Aligned_cols=48  Identities=29%  Similarity=0.815  Sum_probs=40.5

Q ss_pred             ccccccccccCCCCc--------eeccCCCcchhhhHHhhhhhcCCCCccccccccC
Q 044354          157 EELSCAICLEICFEP--------STTTCGHSFCKKCLRSAADKCGKKCPKCRQLISN  205 (426)
Q Consensus       157 ~~l~CpIC~~~l~~P--------v~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~  205 (426)
                      .+..|+||++.+.++        +.++|+|.||..||..|+.. ...||+||..+..
T Consensus       173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~-~~tCPlCR~~~~~  228 (238)
T PHA02929        173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKE-KNTCPVCRTPFIS  228 (238)
T ss_pred             CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhc-CCCCCCCCCEeeE
Confidence            457999999987653        45689999999999999976 6799999998763

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

Probab=98.71  E-value=1e-08  Score=71.90  Aligned_cols=44  Identities=41%  Similarity=0.931  Sum_probs=38.1

Q ss_pred             cccccccCCCCceecc-CCCcchhhhHHhhhhhcCCCCccccccc
Q 044354          160 SCAICLEICFEPSTTT-CGHSFCKKCLRSAADKCGKKCPKCRQLI  203 (426)
Q Consensus       160 ~CpIC~~~l~~Pv~lp-CgH~FC~~CI~~~l~~~~~~CP~CR~~i  203 (426)
                      .|+||++.+..++.++ |||.||..|+..|+......||.|+..+
T Consensus         1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            4999999997787765 9999999999999987677899998753

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

Probab=98.68  E-value=7.4e-09  Score=74.99  Aligned_cols=36  Identities=47%  Similarity=1.056  Sum_probs=23.0

Q ss_pred             ccccccCCCC----ceeccCCCcchhhhHHhhhhhc---CCCCc
Q 044354          161 CAICLEICFE----PSTTTCGHSFCKKCLRSAADKC---GKKCP  197 (426)
Q Consensus       161 CpIC~~~l~~----Pv~lpCgH~FC~~CI~~~l~~~---~~~CP  197 (426)
                      ||||.+ +.+    |+.|+|||+||..||.+++..+   .++||
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence            999999 887    9999999999999999999863   45677

>smart00184 RING Ring finger

Probab=98.65  E-value=2.1e-08  Score=67.93  Aligned_cols=39  Identities=41%  Similarity=1.068  Sum_probs=35.8

Q ss_pred             ccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccc
Q 044354          161 CAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKC  199 (426)
Q Consensus       161 CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~C  199 (426)
                      |+||++....++.++|||.||..|+..|+......||.|
T Consensus         1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCCCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            899999999999999999999999999998556789987

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)

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

Probab=98.57  E-value=1.5e-08  Score=110.36  Aligned_cols=64  Identities=25%  Similarity=0.648  Sum_probs=56.9

Q ss_pred             cchhhhhhhcccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccCCCCcc
Q 044354          147 SVLTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCT  210 (426)
Q Consensus       147 ~~~~~l~~l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~  210 (426)
                      .....+..+...+.||+|..-+++.|++.|||.||..||...+.....+||.|...|...+.++
T Consensus       632 ~L~EElk~yK~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~~  695 (698)
T KOG0978|consen  632 VLAEELKEYKELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVHR  695 (698)
T ss_pred             HHHHHHHHHHhceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccccc
Confidence            3456678889999999999999999999999999999999999988999999999999765544

>PHA02926 zinc finger-like protein; Provisional

Probab=98.55  E-value=4.4e-08  Score=93.37  Aligned_cols=51  Identities=29%  Similarity=0.761  Sum_probs=39.9

Q ss_pred             hcccccccccccCCCC---------ceeccCCCcchhhhHHhhhhhc-----CCCCccccccccC
Q 044354          155 LREELSCAICLEICFE---------PSTTTCGHSFCKKCLRSAADKC-----GKKCPKCRQLISN  205 (426)
Q Consensus       155 l~~~l~CpIC~~~l~~---------Pv~lpCgH~FC~~CI~~~l~~~-----~~~CP~CR~~i~~  205 (426)
                      ...+..|+||++...+         ++..+|+|.||..||..|....     ...||+||..+..
T Consensus       167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~  231 (242)
T PHA02926        167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN  231 (242)
T ss_pred             ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence            3457899999997643         3446899999999999998752     2459999998763

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.55  E-value=4.8e-08  Score=70.65  Aligned_cols=41  Identities=46%  Similarity=1.067  Sum_probs=35.0

Q ss_pred             cccccccCC---CCceeccCCCcchhhhHHhhhhhcCCCCccccc
Q 044354          160 SCAICLEIC---FEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQ  201 (426)
Q Consensus       160 ~CpIC~~~l---~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~  201 (426)
                      .|+||...+   ..|++++|||+||..|+..+. .....||+|++
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~-~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLK-GKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhc-CCCCCCcCCCC
Confidence            499999988   356779999999999999988 44679999974

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

Probab=98.50  E-value=6.8e-08  Score=101.23  Aligned_cols=50  Identities=36%  Similarity=0.762  Sum_probs=43.6

Q ss_pred             cccccccccCCCCceeccCCCcchhhhHHhhhhhc----CCCCccccccccCCC
Q 044354          158 ELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKC----GKKCPKCRQLISNGR  207 (426)
Q Consensus       158 ~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~----~~~CP~CR~~i~~~~  207 (426)
                      +..||||+....-|+.+.|||.||..||..+|...    ...||+|+..|...+
T Consensus       186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kd  239 (513)
T KOG2164|consen  186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKD  239 (513)
T ss_pred             CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccc
Confidence            68999999999999999999999999999998764    247999999888643

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

Probab=98.50  E-value=5.1e-08  Score=94.82  Aligned_cols=58  Identities=36%  Similarity=0.622  Sum_probs=46.4

Q ss_pred             cchhhhhhhcccccccccccCCCCceeccCCCcchhhhHHh-hhhhcCCCCccccccccCC
Q 044354          147 SVLTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRS-AADKCGKKCPKCRQLISNG  206 (426)
Q Consensus       147 ~~~~~l~~l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~-~l~~~~~~CP~CR~~i~~~  206 (426)
                      ...+++.  ..++.|+||++....|+.++|||.||..||.. |-....-.||+||..+...
T Consensus       206 n~~pfip--~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk  264 (271)
T COG5574         206 NGLPFIP--LADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPK  264 (271)
T ss_pred             ccCCccc--ccccceeeeecccCCcccccccchhhHHHHHHHHHhhccccCchhhhhccch
Confidence            3344444  45799999999999999999999999999999 6655344599999877643

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

Probab=98.40  E-value=2.1e-07  Score=93.06  Aligned_cols=76  Identities=25%  Similarity=0.595  Sum_probs=64.6

Q ss_pred             hhhhcccccccccccCCCCceec-cCCCcchhhhHHhhhhhcCCCCccccccccCCC---CcchhHHHHHHHHHHChhHH
Q 044354          152 IDKLREELSCAICLEICFEPSTT-TCGHSFCKKCLRSAADKCGKKCPKCRQLISNGR---SCTVNTVLWNTIQLLFPQEV  227 (426)
Q Consensus       152 l~~l~~~l~CpIC~~~l~~Pv~l-pCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~---~l~~N~~L~~lI~~l~p~E~  227 (426)
                      +..+.....|.+|..+|.++.++ .|.|+||..||..++.. ...||.|...+....   .+..+..|+.++.+++|.-.
T Consensus         9 ~~~~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~-~~~CP~C~i~ih~t~pl~ni~~DrtlqdiVyKLVPgl~   87 (331)
T KOG2660|consen    9 LTELNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEE-SKYCPTCDIVIHKTHPLLNIRSDRTLQDIVYKLVPGLQ   87 (331)
T ss_pred             hhhcccceehhhccceeecchhHHHHHHHHHHHHHHHHHHH-hccCCccceeccCccccccCCcchHHHHHHHHHcchHH
Confidence            44566789999999999999885 59999999999999988 789999998877643   46778999999999998754


Q ss_pred             H
Q 044354          228 E  228 (426)
Q Consensus       228 ~  228 (426)
                      +
T Consensus        88 e   88 (331)
T KOG2660|consen   88 E   88 (331)
T ss_pred             H
Confidence            3

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

Probab=98.33  E-value=4.4e-07  Score=94.24  Aligned_cols=111  Identities=25%  Similarity=0.465  Sum_probs=71.5

Q ss_pred             hcccccccccccCCCCcee-ccCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHHHHChh--------
Q 044354          155 LREELSCAICLEICFEPST-TTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLFPQ--------  225 (426)
Q Consensus       155 l~~~l~CpIC~~~l~~Pv~-lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l~p~--------  225 (426)
                      +++++.|++|..++.+|+. +.|||.||..|+..|+.. ...||.|+..+.....+.....+...+..+...        
T Consensus        18 ~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~-~~~cp~~~~~~~~~~~~~~~~~~~~~~~~l~i~c~~~~~GC   96 (391)
T KOG0297|consen   18 LDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSN-HQKCPVCRQELTQAEELPVPRALRRELLKLPIRCIFASRGC   96 (391)
T ss_pred             CcccccCccccccccCCCCCCCCCCcccccccchhhcc-CcCCcccccccchhhccCchHHHHHHHHhcccccccCCCCc
Confidence            6677999999999999999 499999999999999988 889999988877655444333333333322110        


Q ss_pred             --HHHHHHHHHHhcccccccCccccc-cccccCchhHHHHhhhcccc
Q 044354          226 --EVEARKAAAALNSREAEHQSPQRG-FHNNVRTRSMRSSATSSGDA  269 (426)
Q Consensus       226 --E~~~r~~~~~~~~~~~~~~~pc~g-C~~~i~~~~lR~H~~~c~~~  269 (426)
                        .............+   ...+|.. |+-.++...+..|+...+.+
T Consensus        97 ~~~~~l~~~~~Hl~~c---~~~~C~~~C~~~~~~~d~~~hl~~~C~~  140 (391)
T KOG0297|consen   97 RADLELEALQGHLSTC---DPLKCPHRCGVQVPRDDLEDHLEAECPR  140 (391)
T ss_pred             cccccHHHHHhHhccC---CcccCccccccccchHHHHHHHhccccc
Confidence              01111111111111   2334433 88888888888887544444

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.22  E-value=1.2e-06  Score=87.85  Aligned_cols=49  Identities=24%  Similarity=0.706  Sum_probs=39.1

Q ss_pred             cccccccccC-CCCcee----ccCCCcchhhhHHhhhhhcCCCCccccccccCC
Q 044354          158 ELSCAICLEI-CFEPST----TTCGHSFCKKCLRSAADKCGKKCPKCRQLISNG  206 (426)
Q Consensus       158 ~l~CpIC~~~-l~~Pv~----lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~  206 (426)
                      +..||||+.. +.+|-.    .+|||.||..|+..++..+...||.|+.++...
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~   56 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKN   56 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchh
Confidence            4689999983 445532    269999999999998877677899999988753

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).

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

Probab=98.18  E-value=1.1e-06  Score=91.30  Aligned_cols=72  Identities=31%  Similarity=0.722  Sum_probs=58.2

Q ss_pred             cccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccCCCC----cchhHHHHHHHHHHChhHHH
Q 044354          156 REELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRS----CTVNTVLWNTIQLLFPQEVE  228 (426)
Q Consensus       156 ~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~----l~~N~~L~~lI~~l~p~E~~  228 (426)
                      ..+|.|.||...+..||++||||+||..||.+.+.. ...||.|+..+.....    ..+|..+..+|..|++....
T Consensus        82 ~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld~-~~~cp~Cr~~l~e~~~~~~~~~~~r~~~~li~~F~~~~~~  157 (398)
T KOG4159|consen   82 RSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLDQ-ETECPLCRDELVELPALEQALSLNRLLCKLITKFLEGSSS  157 (398)
T ss_pred             cchhhhhhhHhhcCCCccccccccccHHHHHHHhcc-CCCCcccccccccchHHHHHHHHHHHHHHHHHHhhhhhhc
Confidence            567999999999999999999999999999998775 7789999999875221    22356666888888776655

>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=98.15  E-value=1.2e-06  Score=70.18  Aligned_cols=40  Identities=38%  Similarity=0.854  Sum_probs=32.4

Q ss_pred             cccccccCCCCc------------ee-ccCCCcchhhhHHhhhhhcCCCCcccc
Q 044354          160 SCAICLEICFEP------------ST-TTCGHSFCKKCLRSAADKCGKKCPKCR  200 (426)
Q Consensus       160 ~CpIC~~~l~~P------------v~-lpCgH~FC~~CI~~~l~~~~~~CP~CR  200 (426)
                      .|+||++.|.++            +. .+|||.|+..||..|+.. ..+||+||
T Consensus        21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~-~~~CP~CR   73 (73)
T PF12678_consen   21 NCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQ-NNTCPLCR   73 (73)
T ss_dssp             BETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTT-SSB-TTSS
T ss_pred             cccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhc-CCcCCCCC
Confidence            499999998433            22 479999999999999987 56999997

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 ....

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

Probab=98.06  E-value=1.9e-06  Score=85.39  Aligned_cols=48  Identities=29%  Similarity=0.618  Sum_probs=44.1

Q ss_pred             ccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccCC
Q 044354          159 LSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNG  206 (426)
Q Consensus       159 l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~  206 (426)
                      -.|+||+....-||.++|+|.||.-||+.........|++||.+|...
T Consensus         8 ~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~   55 (324)
T KOG0824|consen    8 KECLICYNTGNCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDST   55 (324)
T ss_pred             CcceeeeccCCcCccccccchhhhhhhcchhhcCCCCCceecCCCCcc
Confidence            479999999999999999999999999999888777899999999864

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

Probab=98.05  E-value=1.9e-06  Score=87.65  Aligned_cols=47  Identities=30%  Similarity=0.614  Sum_probs=40.5

Q ss_pred             ccccccccCCCCc---eeccCCCcchhhhHHhhhhhcCCCCccccccccC
Q 044354          159 LSCAICLEICFEP---STTTCGHSFCKKCLRSAADKCGKKCPKCRQLISN  205 (426)
Q Consensus       159 l~CpIC~~~l~~P---v~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~  205 (426)
                      ..|.||++.|..-   ..|||.|.|...||..|+......||+|+..+..
T Consensus       230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~  279 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRT  279 (348)
T ss_pred             ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence            4899999999754   4589999999999999998866679999987664

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

Probab=97.98  E-value=3.3e-06  Score=79.33  Aligned_cols=59  Identities=31%  Similarity=0.587  Sum_probs=46.5

Q ss_pred             cccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHH
Q 044354          158 ELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTI  219 (426)
Q Consensus       158 ~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI  219 (426)
                      .|.|.||...|..||++.|||.||..|...-+.. +..|-+|.+....  .+.+...+..++
T Consensus       196 PF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~k-g~~C~~Cgk~t~G--~f~V~~d~~kmL  254 (259)
T COG5152         196 PFLCGICKKDYESPVVTECGHSFCSLCAIRKYQK-GDECGVCGKATYG--RFWVVSDLQKML  254 (259)
T ss_pred             ceeehhchhhccchhhhhcchhHHHHHHHHHhcc-CCcceecchhhcc--ceeHHhhHHHHH
Confidence            3789999999999999999999999999887766 7899999887553  233334444444

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

Probab=97.96  E-value=6.4e-06  Score=81.56  Aligned_cols=64  Identities=27%  Similarity=0.526  Sum_probs=48.0

Q ss_pred             ccccccccCCCCceecc-CCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHHHH
Q 044354          159 LSCAICLEICFEPSTTT-CGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLL  222 (426)
Q Consensus       159 l~CpIC~~~l~~Pv~lp-CgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l  222 (426)
                      |.|+.|..++.+|+.++ |+|.||..||...+-...+.||.|...-...+.|..+.....-|+.+
T Consensus       275 LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvlld~l~pD~dk~~EvE~~  339 (427)
T COG5222         275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLLDGLTPDIDKKLEVEKA  339 (427)
T ss_pred             ccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCCcccccchhhccCccHHHHHHHHHH
Confidence            89999999999999985 89999999999988777899999965322223344444444444444

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

Probab=97.92  E-value=5.2e-06  Score=84.27  Aligned_cols=47  Identities=28%  Similarity=0.800  Sum_probs=39.6

Q ss_pred             ccccccccccCC-CC------------ceeccCCCcchhhhHHhhhhhcCCCCcccccccc
Q 044354          157 EELSCAICLEIC-FE------------PSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLIS  204 (426)
Q Consensus       157 ~~l~CpIC~~~l-~~------------Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~  204 (426)
                      ++-.|.||++-+ ..            |..+||||.|...|++.|+.. +.+||.||.++.
T Consensus       286 ~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ER-qQTCPICr~p~i  345 (491)
T COG5243         286 SDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLER-QQTCPICRRPVI  345 (491)
T ss_pred             CCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHh-ccCCCcccCccc
Confidence            567899999974 33            366899999999999999987 779999999843

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

Probab=97.91  E-value=4e-06  Score=90.50  Aligned_cols=47  Identities=38%  Similarity=0.873  Sum_probs=42.1

Q ss_pred             ccccccccccCCCC-----ceeccCCCcchhhhHHhhhhhcCCCCcccccccc
Q 044354          157 EELSCAICLEICFE-----PSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLIS  204 (426)
Q Consensus       157 ~~l~CpIC~~~l~~-----Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~  204 (426)
                      .+..|+||.+.+..     |..++|+|.||..|+..|+.. ...||.||..+.
T Consensus       290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er-~qtCP~CR~~~~  341 (543)
T KOG0802|consen  290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFER-QQTCPTCRTVLY  341 (543)
T ss_pred             cCCeeeeechhhccccccccceeecccchHHHHHHHHHHH-hCcCCcchhhhh
Confidence            45789999999988     788999999999999999988 789999999544

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

Probab=97.88  E-value=6.4e-06  Score=81.73  Aligned_cols=48  Identities=29%  Similarity=0.662  Sum_probs=40.7

Q ss_pred             ccccccccccCCCCc---eeccCCCcchhhhHHhhhhhcCCCCcccccccc
Q 044354          157 EELSCAICLEICFEP---STTTCGHSFCKKCLRSAADKCGKKCPKCRQLIS  204 (426)
Q Consensus       157 ~~l~CpIC~~~l~~P---v~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~  204 (426)
                      ....|.||+..+.+-   +.+||.|.|...|+.+|+..-..+||+|+.++.
T Consensus       322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP  372 (374)
T COG5540         322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP  372 (374)
T ss_pred             CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence            457899999977532   558999999999999999755789999999876

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

Probab=97.73  E-value=1.7e-05  Score=78.54  Aligned_cols=47  Identities=36%  Similarity=0.842  Sum_probs=41.8

Q ss_pred             cccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccC
Q 044354          158 ELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISN  205 (426)
Q Consensus       158 ~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~  205 (426)
                      .+.|-||...|..||++.|+|+||..|...-+.. +..|++|.+.+..
T Consensus       241 Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk-~~~c~vC~~~t~g  287 (313)
T KOG1813|consen  241 PFKCFICRKYFYRPVVTKCGHYFCEVCALKPYQK-GEKCYVCSQQTHG  287 (313)
T ss_pred             CccccccccccccchhhcCCceeehhhhcccccc-CCcceeccccccc
Confidence            3679999999999999999999999999887766 6789999887764

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

Probab=97.68  E-value=2.3e-05  Score=80.91  Aligned_cols=33  Identities=36%  Similarity=0.881  Sum_probs=30.3

Q ss_pred             cccccccccccCCCCceeccCCCcchhhhHHhh
Q 044354          156 REELSCAICLEICFEPSTTTCGHSFCKKCLRSA  188 (426)
Q Consensus       156 ~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~  188 (426)
                      ++++.|+||...|.+|++++|+|..|..|....
T Consensus         2 eeelkc~vc~~f~~epiil~c~h~lc~~ca~~~   34 (699)
T KOG4367|consen    2 EEELKCPVCGSFYREPIILPCSHNLCQACARNI   34 (699)
T ss_pred             cccccCceehhhccCceEeecccHHHHHHHHhh
Confidence            567999999999999999999999999998754

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

Probab=97.68  E-value=1.9e-05  Score=60.60  Aligned_cols=42  Identities=31%  Similarity=0.640  Sum_probs=30.1

Q ss_pred             ccccccccccCCCCcee-ccCCCcchhhhHHhhhh-hcCCCCcc
Q 044354          157 EELSCAICLEICFEPST-TTCGHSFCKKCLRSAAD-KCGKKCPK  198 (426)
Q Consensus       157 ~~l~CpIC~~~l~~Pv~-lpCgH~FC~~CI~~~l~-~~~~~CP~  198 (426)
                      ..+.|||.+..|.+||. ..|||+|....|..|+. .....||+
T Consensus        10 ~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   10 ISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             --SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             eccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            45899999999999998 58999999999999994 33567998

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

Probab=97.54  E-value=5.6e-05  Score=62.43  Aligned_cols=47  Identities=28%  Similarity=0.579  Sum_probs=35.3

Q ss_pred             cccccccccCCC-----------C-cee-ccCCCcchhhhHHhhhhhc--CCCCcccccccc
Q 044354          158 ELSCAICLEICF-----------E-PST-TTCGHSFCKKCLRSAADKC--GKKCPKCRQLIS  204 (426)
Q Consensus       158 ~l~CpIC~~~l~-----------~-Pv~-lpCgH~FC~~CI~~~l~~~--~~~CP~CR~~i~  204 (426)
                      +-.|.||...|.           + |++ -.|+|.|...||.+|+...  ...||+||+++.
T Consensus        21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK   82 (85)
T ss_pred             CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence            456777766654           1 333 3699999999999999863  468999999865

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

Probab=97.35  E-value=7.6e-05  Score=76.57  Aligned_cols=50  Identities=34%  Similarity=0.693  Sum_probs=43.3

Q ss_pred             ccccccccCCCCceeccCCCcchhhhHHhhhhhc-CCCCccccccccCCCC
Q 044354          159 LSCAICLEICFEPSTTTCGHSFCKKCLRSAADKC-GKKCPKCRQLISNGRS  208 (426)
Q Consensus       159 l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~-~~~CP~CR~~i~~~~~  208 (426)
                      -.|.||-+.-++-.+-||||..|..|+..|.... +..||+||..|..+..
T Consensus       370 eLCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~  420 (563)
T KOG1785|consen  370 ELCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEP  420 (563)
T ss_pred             HHHHHhhccCCCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccccc
Confidence            4699999998888888999999999999998554 6799999999886543

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

Probab=97.23  E-value=7.5e-05  Score=56.61  Aligned_cols=46  Identities=33%  Similarity=0.639  Sum_probs=40.3

Q ss_pred             ccccccccCCCCceeccCCCc-chhhhHHhhhhhcCCCCcccccccc
Q 044354          159 LSCAICLEICFEPSTTTCGHS-FCKKCLRSAADKCGKKCPKCRQLIS  204 (426)
Q Consensus       159 l~CpIC~~~l~~Pv~lpCgH~-FC~~CI~~~l~~~~~~CP~CR~~i~  204 (426)
                      -.|.||.+...+.|...|||. .|..|-.+.+......||+||.++.
T Consensus         8 dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~   54 (62)
T KOG4172|consen    8 DECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK   54 (62)
T ss_pred             cceeeeccCcchHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence            579999999999999999994 6999998888766789999999876

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

Probab=97.21  E-value=0.00015  Score=74.07  Aligned_cols=50  Identities=38%  Similarity=0.755  Sum_probs=39.8

Q ss_pred             cccccccccccCCCCce-----e---ccCCCcchhhhHHhhhhhcC------CCCccccccccC
Q 044354          156 REELSCAICLEICFEPS-----T---TTCGHSFCKKCLRSAADKCG------KKCPKCRQLISN  205 (426)
Q Consensus       156 ~~~l~CpIC~~~l~~Pv-----~---lpCgH~FC~~CI~~~l~~~~------~~CP~CR~~i~~  205 (426)
                      ..+..|.||++......     .   .+|.|.||..||..|-....      ..||.||.....
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~  222 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSF  222 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccc
Confidence            34689999999887766     3   46999999999999974433      679999987653

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

Probab=97.21  E-value=0.00021  Score=70.37  Aligned_cols=48  Identities=25%  Similarity=0.679  Sum_probs=40.1

Q ss_pred             ccccccccccCCCCceec-cCCCcchhhhHHhhhh-hcCCCCcccccccc
Q 044354          157 EELSCAICLEICFEPSTT-TCGHSFCKKCLRSAAD-KCGKKCPKCRQLIS  204 (426)
Q Consensus       157 ~~l~CpIC~~~l~~Pv~l-pCgH~FC~~CI~~~l~-~~~~~CP~CR~~i~  204 (426)
                      .+..||+|.+....|.+. +|||+||..||..... ...+.||.|..++.
T Consensus       238 ~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  238 SDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             CCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            457899999999999886 5999999999987653 23579999988765

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

Probab=97.14  E-value=5.3e-05  Score=82.93  Aligned_cols=48  Identities=27%  Similarity=0.589  Sum_probs=40.0

Q ss_pred             ccccccccccCCCCcee---ccCCCcchhhhHHhhhhhcCCCCccccccccC
Q 044354          157 EELSCAICLEICFEPST---TTCGHSFCKKCLRSAADKCGKKCPKCRQLISN  205 (426)
Q Consensus       157 ~~l~CpIC~~~l~~Pv~---lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~  205 (426)
                      ..-.||+|+.-+.+-..   .+|+|.||..||..|... ..+||+|+..|..
T Consensus       122 ~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~-aqTCPiDR~EF~~  172 (1134)
T KOG0825|consen  122 VENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRC-AQTCPVDRGEFGE  172 (1134)
T ss_pred             hhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhh-cccCchhhhhhhe
Confidence            34689999988776544   479999999999999876 6799999998775

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

Probab=97.08  E-value=0.00028  Score=71.76  Aligned_cols=49  Identities=31%  Similarity=0.695  Sum_probs=42.1

Q ss_pred             cccccccccccCCCCceeccCCCc-chhhhHHhhhhhcCCCCccccccccC
Q 044354          156 REELSCAICLEICFEPSTTTCGHS-FCKKCLRSAADKCGKKCPKCRQLISN  205 (426)
Q Consensus       156 ~~~l~CpIC~~~l~~Pv~lpCgH~-FC~~CI~~~l~~~~~~CP~CR~~i~~  205 (426)
                      +....|.||+.-.++.++|||.|. .|..|.+...-+ ...||+||.+|..
T Consensus       288 ~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr~q-~n~CPICRqpi~~  337 (349)
T KOG4265|consen  288 ESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLRYQ-TNNCPICRQPIEE  337 (349)
T ss_pred             cCCCeeEEEecCCcceEEecchhhehhHhHHHHHHHh-hcCCCccccchHh
Confidence            346789999999999999999995 699999877644 6789999999874

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

Probab=96.85  E-value=0.00033  Score=74.15  Aligned_cols=50  Identities=24%  Similarity=0.704  Sum_probs=42.4

Q ss_pred             cccccccccccCCCCceeccCCCcchhhhHHhhhh----hcCCCCccccccccC
Q 044354          156 REELSCAICLEICFEPSTTTCGHSFCKKCLRSAAD----KCGKKCPKCRQLISN  205 (426)
Q Consensus       156 ~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~----~~~~~CP~CR~~i~~  205 (426)
                      .....|.+|.+.-.+++...|.|.||..||.+++.    ..+.+||.|...+.-
T Consensus       534 k~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Lsi  587 (791)
T KOG1002|consen  534 KGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSI  587 (791)
T ss_pred             cCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccc
Confidence            45678999999999999999999999999988754    335789999887663

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

Probab=96.75  E-value=0.00066  Score=71.44  Aligned_cols=49  Identities=31%  Similarity=0.562  Sum_probs=38.9

Q ss_pred             cccccccccccCCCC-----------------ceeccCCCcchhhhHHhhhhhcCCCCcccccccc
Q 044354          156 REELSCAICLEICFE-----------------PSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLIS  204 (426)
Q Consensus       156 ~~~l~CpIC~~~l~~-----------------Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~  204 (426)
                      +....|+||+..+.-                 =+.+||.|.|...|+..|+..-+..||+||.++.
T Consensus       569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP  634 (636)
T KOG0828|consen  569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP  634 (636)
T ss_pred             hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence            445679999985521                 1235999999999999999865678999999876

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

Probab=96.75  E-value=0.00049  Score=71.73  Aligned_cols=88  Identities=27%  Similarity=0.351  Sum_probs=58.7

Q ss_pred             cccccccccccCCCCce----eccCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHHHHChhHHHHHH
Q 044354          156 REELSCAICLEICFEPS----TTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLFPQEVEARK  231 (426)
Q Consensus       156 ~~~l~CpIC~~~l~~Pv----~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l~p~E~~~r~  231 (426)
                      .+.-+||||++.+..-+    ++.|.|+|...|+..|...   .||+||......           .++         . 
T Consensus       173 tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~---scpvcR~~q~p~-----------~ve---------~-  228 (493)
T KOG0804|consen  173 TELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDS---SCPVCRYCQSPS-----------VVE---------S-  228 (493)
T ss_pred             ccCCCcchhHhhcCccccceeeeecccccchHHHhhcccC---cChhhhhhcCcc-----------hhh---------h-
Confidence            34568999999997665    3689999999999999854   999998755421           000         0 


Q ss_pred             HHHHhcccccccCccccccccccCch----hHHHHhhhccc
Q 044354          232 AAAALNSREAEHQSPQRGFHNNVRTR----SMRSSATSSGD  268 (426)
Q Consensus       232 ~~~~~~~~~~~~~~pc~gC~~~i~~~----~lR~H~~~c~~  268 (426)
                       ..-..+.-.....-|..|+...+..    ..++|+++-..
T Consensus       229 -~~c~~c~~~~~LwicliCg~vgcgrY~eghA~rHweet~H  268 (493)
T KOG0804|consen  229 -SLCLACGCTEDLWICLICGNVGCGRYKEGHARRHWEETGH  268 (493)
T ss_pred             -hhhhhhcccccEEEEEEccceecccccchhHHHHHHhhcc
Confidence             0001122334456778888876653    37788877663

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

Probab=96.56  E-value=0.00073  Score=65.54  Aligned_cols=62  Identities=29%  Similarity=0.664  Sum_probs=41.1

Q ss_pred             cccccccccCCC-Ccee-ccCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHHHHChh
Q 044354          158 ELSCAICLEICF-EPST-TTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLFPQ  225 (426)
Q Consensus       158 ~l~CpIC~~~l~-~Pv~-lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l~p~  225 (426)
                      ...|..|..-.. +|.. +.|+|+||..|.....   ...||.|++++..   +.++..|...|..||..
T Consensus         3 ~VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~---~~~C~lCkk~ir~---i~l~~slp~~ik~~F~d   66 (233)
T KOG4739|consen    3 FVHCNKCFRFPSQDPFFLTACRHVFCEPCLKASS---PDVCPLCKKSIRI---IQLNRSLPTDIKSYFAD   66 (233)
T ss_pred             eEEeccccccCCCCceeeeechhhhhhhhcccCC---ccccccccceeee---eecccccchhHHHHccC
Confidence            357888877554 3333 6899999999986543   2389999998663   33444455555555543

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

Probab=96.47  E-value=0.0021  Score=63.89  Aligned_cols=64  Identities=28%  Similarity=0.582  Sum_probs=49.0

Q ss_pred             ccccccccCCC------CceeccCCCcchhhhHHhhhhhcCCCCccccccc--cC--CCCcchhHHHHHHHHHH
Q 044354          159 LSCAICLEICF------EPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLI--SN--GRSCTVNTVLWNTIQLL  222 (426)
Q Consensus       159 l~CpIC~~~l~------~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i--~~--~~~l~~N~~L~~lI~~l  222 (426)
                      +.|-||.+.|.      .|..+.|||+||..|+...+......||.||.+.  ..  ...+..|..+..+++..
T Consensus         4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~~~~~~~~~~l~kNf~ll~~~~~~   77 (296)
T KOG4185|consen    4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETTEIPDGDVKSLQKNFALLQAIEHM   77 (296)
T ss_pred             CceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcccCCchhHhhhhhhHHHHHHHHHH
Confidence            67999999875      3666889999999999999988778899999984  22  12355566666666554

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

Probab=96.44  E-value=0.0016  Score=66.23  Aligned_cols=47  Identities=23%  Similarity=0.542  Sum_probs=41.8

Q ss_pred             ccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCcccccccc
Q 044354          157 EELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLIS  204 (426)
Q Consensus       157 ~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~  204 (426)
                      ++-.||||..-..+.|..||+|.-|..||.+.+.+ .+.|-+|+..+.
T Consensus       421 Ed~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN-~k~CFfCktTv~  467 (489)
T KOG4692|consen  421 EDNLCPICYAGPINAVFAPCSHRSCYGCITQHLMN-CKRCFFCKTTVI  467 (489)
T ss_pred             ccccCcceecccchhhccCCCCchHHHHHHHHHhc-CCeeeEecceee
Confidence            45789999998889999999999999999999877 678999988766

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

Probab=96.43  E-value=0.0049  Score=63.91  Aligned_cols=47  Identities=30%  Similarity=0.606  Sum_probs=35.1

Q ss_pred             cccccccccccCCCCc---eeccCCCcchhhhHHhhhhhc-------CCCCcccccc
Q 044354          156 REELSCAICLEICFEP---STTTCGHSFCKKCLRSAADKC-------GKKCPKCRQL  202 (426)
Q Consensus       156 ~~~l~CpIC~~~l~~P---v~lpCgH~FC~~CI~~~l~~~-------~~~CP~CR~~  202 (426)
                      ...+.|.||++.....   +.+||+|.||..|+..++...       ..+||-|...
T Consensus       182 ~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~  238 (445)
T KOG1814|consen  182 NSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCG  238 (445)
T ss_pred             hhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCc
Confidence            3458999999977653   447999999999999986531       2468876543

>PF04641 Rtf2: Rtf2 RING-finger

Probab=96.41  E-value=0.0021  Score=63.35  Aligned_cols=57  Identities=21%  Similarity=0.402  Sum_probs=44.1

Q ss_pred             cccccccccccCCCCc---e-eccCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHH
Q 044354          156 REELSCAICLEICFEP---S-TTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTV  214 (426)
Q Consensus       156 ~~~l~CpIC~~~l~~P---v-~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~  214 (426)
                      ...|.|||+...|..-   | +.+|||+|+..||....  ....||+|..+|...+.+.+|..
T Consensus       111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k--~~~~Cp~c~~~f~~~DiI~Lnp~  171 (260)
T PF04641_consen  111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK--KSKKCPVCGKPFTEEDIIPLNPP  171 (260)
T ss_pred             CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc--ccccccccCCccccCCEEEecCC
Confidence            4568999999988532   2 24899999999999884  35689999999997766665533

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

Probab=96.34  E-value=0.0015  Score=51.98  Aligned_cols=47  Identities=34%  Similarity=0.740  Sum_probs=23.5

Q ss_pred             cccccccccCCC-C---cee----ccCCCcchhhhHHhhhhhc--C--------CCCcccccccc
Q 044354          158 ELSCAICLEICF-E---PST----TTCGHSFCKKCLRSAADKC--G--------KKCPKCRQLIS  204 (426)
Q Consensus       158 ~l~CpIC~~~l~-~---Pv~----lpCgH~FC~~CI~~~l~~~--~--------~~CP~CR~~i~  204 (426)
                      ++.|+||...+. .   |+.    ..|++.|...||..|+...  .        ..||.|+.+|.
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~   66 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS   66 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence            368999998765 2   333    2699999999999997631  1        25999999876

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.30  E-value=0.0021  Score=62.53  Aligned_cols=50  Identities=14%  Similarity=0.303  Sum_probs=42.3

Q ss_pred             ccccccccccCCCCcee----ccCCCcchhhhHHhhhhhcCCCCccccccccCCC
Q 044354          157 EELSCAICLEICFEPST----TTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGR  207 (426)
Q Consensus       157 ~~l~CpIC~~~l~~Pv~----lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~  207 (426)
                      ..+.||||.+.+.+.+.    -+|||+||..|+..++.. ...||+|..++...+
T Consensus       220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~-D~v~pv~d~plkdrd  273 (303)
T KOG3039|consen  220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRK-DMVDPVTDKPLKDRD  273 (303)
T ss_pred             cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccc-cccccCCCCcCcccc
Confidence            45899999999987643    489999999999998876 678999999888644

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=96.26  E-value=0.0022  Score=48.85  Aligned_cols=46  Identities=24%  Similarity=0.598  Sum_probs=37.8

Q ss_pred             ccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccC
Q 044354          157 EELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISN  205 (426)
Q Consensus       157 ~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~  205 (426)
                      ....|-.|...-...++++|||..|..|+.-+-   -+.||+|..+|..
T Consensus         6 ~~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~~r---YngCPfC~~~~~~   51 (55)
T PF14447_consen    6 PEQPCVFCGFVGTKGTVLPCGHLICDNCFPGER---YNGCPFCGTPFEF   51 (55)
T ss_pred             cceeEEEccccccccccccccceeeccccChhh---ccCCCCCCCcccC
Confidence            446788888888888999999999999986544   3489999998874

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

Probab=96.21  E-value=0.0029  Score=65.41  Aligned_cols=48  Identities=27%  Similarity=0.621  Sum_probs=37.9

Q ss_pred             ccccccccccCCCCc-----eeccCCCcchhhhHHhhhhhc-CCCCcccccccc
Q 044354          157 EELSCAICLEICFEP-----STTTCGHSFCKKCLRSAADKC-GKKCPKCRQLIS  204 (426)
Q Consensus       157 ~~l~CpIC~~~l~~P-----v~lpCgH~FC~~CI~~~l~~~-~~~CP~CR~~i~  204 (426)
                      ...+||||++-+.-|     +.+.|||.|-..||+.|+.+. ...||.|...-.
T Consensus         3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~kat   56 (463)
T KOG1645|consen    3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKAT   56 (463)
T ss_pred             ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhH
Confidence            346899999998877     346899999999999999532 247999976533

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

Probab=96.15  E-value=0.0017  Score=64.01  Aligned_cols=48  Identities=23%  Similarity=0.526  Sum_probs=37.4

Q ss_pred             cccccccccCCCC----------ceeccCCCcchhhhHHhhhhhc-CCCCccccccccC
Q 044354          158 ELSCAICLEICFE----------PSTTTCGHSFCKKCLRSAADKC-GKKCPKCRQLISN  205 (426)
Q Consensus       158 ~l~CpIC~~~l~~----------Pv~lpCgH~FC~~CI~~~l~~~-~~~CP~CR~~i~~  205 (426)
                      +-.|.||..-+..          ...+.|+|.|...||..|.-.+ ..+||.|+..+..
T Consensus       224 d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl  282 (328)
T KOG1734|consen  224 DSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDL  282 (328)
T ss_pred             cchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhH
Confidence            4679999886543          3458999999999999997543 4589999887653

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

Probab=96.11  E-value=0.0012  Score=65.63  Aligned_cols=42  Identities=38%  Similarity=0.828  Sum_probs=35.6

Q ss_pred             cccccccccCCCCceeccCCC-cchhhhHHhhhhhcCCCCcccccccc
Q 044354          158 ELSCAICLEICFEPSTTTCGH-SFCKKCLRSAADKCGKKCPKCRQLIS  204 (426)
Q Consensus       158 ~l~CpIC~~~l~~Pv~lpCgH-~FC~~CI~~~l~~~~~~CP~CR~~i~  204 (426)
                      ...|.||++...+.+.|+||| .-|..|-+.+     ..||+||+.|.
T Consensus       300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkrm-----~eCPICRqyi~  342 (350)
T KOG4275|consen  300 RRLCAICMDAPRDCVFLECGHMVTCTKCGKRM-----NECPICRQYIV  342 (350)
T ss_pred             HHHHHHHhcCCcceEEeecCcEEeehhhcccc-----ccCchHHHHHH
Confidence            578999999999999999999 4588886553     38999998765

>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]

Probab=95.91  E-value=0.0075  Score=60.02  Aligned_cols=46  Identities=24%  Similarity=0.771  Sum_probs=37.7

Q ss_pred             ccccccc-CCCCcee----ccCCCcchhhhHHhhhhhcCCCCccccccccC
Q 044354          160 SCAICLE-ICFEPST----TTCGHSFCKKCLRSAADKCGKKCPKCRQLISN  205 (426)
Q Consensus       160 ~CpIC~~-~l~~Pv~----lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~  205 (426)
                      .||+|.. .+.+|-.    -+|+|..|.+|+...+..+...||.|...+..
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk   52 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRK   52 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhh
Confidence            5999976 5566633    28999999999999999988999999877653

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

Probab=95.87  E-value=0.008  Score=44.65  Aligned_cols=41  Identities=24%  Similarity=0.614  Sum_probs=32.4

Q ss_pred             ccccccc--CCCCceeccCC-----CcchhhhHHhhhhhc-CCCCcccc
Q 044354          160 SCAICLE--ICFEPSTTTCG-----HSFCKKCLRSAADKC-GKKCPKCR  200 (426)
Q Consensus       160 ~CpIC~~--~l~~Pv~lpCg-----H~FC~~CI~~~l~~~-~~~CP~CR  200 (426)
                      .|-||++  .-.+|.+.||.     |.|...|+..|+... ...||+|.
T Consensus         1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4889997  44567778985     789999999999764 45799994

Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class

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

Probab=95.84  E-value=0.0037  Score=63.83  Aligned_cols=45  Identities=31%  Similarity=0.687  Sum_probs=35.9

Q ss_pred             cccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCcccccccc
Q 044354          156 REELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLIS  204 (426)
Q Consensus       156 ~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~  204 (426)
                      .....|.||.+-.++.+.+||||..|  |..-...  ...||+||..|.
T Consensus       303 ~~p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs~~--l~~CPvCR~rI~  347 (355)
T KOG1571|consen  303 PQPDLCVVCLDEPKSAVFVPCGHVCC--CTLCSKH--LPQCPVCRQRIR  347 (355)
T ss_pred             CCCCceEEecCCccceeeecCCcEEE--chHHHhh--CCCCchhHHHHH
Confidence            34478999999999999999999977  7654433  356999998765

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

Probab=95.81  E-value=0.0043  Score=68.91  Aligned_cols=53  Identities=32%  Similarity=0.733  Sum_probs=42.3

Q ss_pred             hhhhcccccccccccCCCCceeccCCCcchhhhHHhhhhhcC-CCCccccccccC
Q 044354          152 IDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCG-KKCPKCRQLISN  205 (426)
Q Consensus       152 l~~l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~-~~CP~CR~~i~~  205 (426)
                      +..+...+.|.||.+ ...++.+.|+|.||..|+...+.... ..||.|+..+..
T Consensus       448 i~~l~~~~~c~ic~~-~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~  501 (674)
T KOG1001|consen  448 IVDLSVSHWCHICCD-LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKE  501 (674)
T ss_pred             HHHHhhccccccccc-cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHH
Confidence            334444489999999 88899999999999999999876543 369999876653

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

Probab=95.73  E-value=0.0037  Score=67.70  Aligned_cols=61  Identities=26%  Similarity=0.567  Sum_probs=42.6

Q ss_pred             hcccccccccccCCC----CceeccCCCcchhhhHHhhhhhcCCCCcccccc----ccCCCCcchhHHHHHHH
Q 044354          155 LREELSCAICLEICF----EPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQL----ISNGRSCTVNTVLWNTI  219 (426)
Q Consensus       155 l~~~l~CpIC~~~l~----~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~----i~~~~~l~~N~~L~~lI  219 (426)
                      +.+.+.|+||+..|.    .||.+-|||+.|..|+......   .|| |...    +...+....|+.|..++
T Consensus         8 w~~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn~---scp-~~~De~~~~~~~~e~p~n~alL~~~   76 (861)
T KOG3161|consen    8 WVLLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYNA---SCP-TKRDEDSSLMQLKEEPRNYALLRRE   76 (861)
T ss_pred             hHHHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhhc---cCC-CCccccchhcChhhcchhHHHHHhh
Confidence            556689999988774    6889999999999999987744   788 4321    22223455566655554

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

Probab=95.72  E-value=0.0049  Score=63.46  Aligned_cols=46  Identities=28%  Similarity=0.613  Sum_probs=33.9

Q ss_pred             ccccccccCCCCcee---c-cCCCcchhhhHHhhhhhcCC--CCcccccccc
Q 044354          159 LSCAICLEICFEPST---T-TCGHSFCKKCLRSAADKCGK--KCPKCRQLIS  204 (426)
Q Consensus       159 l~CpIC~~~l~~Pv~---l-pCgH~FC~~CI~~~l~~~~~--~CP~CR~~i~  204 (426)
                      -.|.||.+.+..---   + .|||+|...|+..|+....+  .||.|+-.+.
T Consensus         5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~   56 (465)
T KOG0827|consen    5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQ   56 (465)
T ss_pred             ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeeccc
Confidence            479999665543222   3 49999999999999976443  7999984444

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

Probab=95.65  E-value=0.0092  Score=60.22  Aligned_cols=107  Identities=16%  Similarity=0.246  Sum_probs=73.2

Q ss_pred             hcccccccccccCCCCcee-ccCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHHHHChhHH------
Q 044354          155 LREELSCAICLEICFEPST-TTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLFPQEV------  227 (426)
Q Consensus       155 l~~~l~CpIC~~~l~~Pv~-lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l~p~E~------  227 (426)
                      +-+.+.||||.+.+..|+. -+=||..|..|-.+.    ...||.|+.++...    .+..+..+++..+-.-.      
T Consensus        45 ~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~~----~~~CP~Cr~~~g~~----R~~amEkV~e~~~vpC~~~~~GC  116 (299)
T KOG3002|consen   45 DLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTKV----SNKCPTCRLPIGNI----RCRAMEKVAEAVLVPCKNAKLGC  116 (299)
T ss_pred             chhhccCchhhccCcccceecCCCcEehhhhhhhh----cccCCccccccccH----HHHHHHHHHHhceecccccccCC
Confidence            3356899999999999964 345899999997632    46899999999843    36667777766431110      


Q ss_pred             -----HHHHHHHHhcccccccCcccc--ccccccCchhHHHHhhhcccc
Q 044354          228 -----EARKAAAALNSREAEHQSPQR--GFHNNVRTRSMRSSATSSGDA  269 (426)
Q Consensus       228 -----~~r~~~~~~~~~~~~~~~pc~--gC~~~i~~~~lR~H~~~c~~~  269 (426)
                           ...+..++..+......+|+.  .|+..-....+-.|+..--++
T Consensus       117 ~~~~~Y~~~~~HE~~C~f~~~~CP~p~~~C~~~G~~~~l~~H~~~~hk~  165 (299)
T KOG3002|consen  117 TKSFPYGEKSKHEKVCEFRPCSCPVPGAECKYTGSYKDLYAHLNDTHKS  165 (299)
T ss_pred             ceeeccccccccccccccCCcCCCCCcccCCccCcHHHHHHHHHhhChh
Confidence                 111234444455566666777  888887778888888777544

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

Probab=95.64  E-value=0.008  Score=44.66  Aligned_cols=43  Identities=30%  Similarity=0.764  Sum_probs=22.3

Q ss_pred             ccccccCCCC--ceec--cCCCcchhhhHHhhhhhcCCCCccccccc
Q 044354          161 CAICLEICFE--PSTT--TCGHSFCKKCLRSAADKCGKKCPKCRQLI  203 (426)
Q Consensus       161 CpIC~~~l~~--Pv~l--pCgH~FC~~CI~~~l~~~~~~CP~CR~~i  203 (426)
                      ||+|.+.+..  -..+  +||+-+|..|+...+......||-||.+.
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            7889887732  1223  58999999999998876678999999864

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

Probab=95.52  E-value=0.011  Score=48.31  Aligned_cols=30  Identities=30%  Similarity=0.537  Sum_probs=26.9

Q ss_pred             cCCCcchhhhHHhhhhhcCCCCccccccccC
Q 044354          175 TCGHSFCKKCLRSAADKCGKKCPKCRQLISN  205 (426)
Q Consensus       175 pCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~  205 (426)
                      .|.|.|...||.+|+.. ...||+|++.+..
T Consensus        53 ~CnHaFH~HCI~rWL~T-k~~CPld~q~w~~   82 (88)
T COG5194          53 VCNHAFHDHCIYRWLDT-KGVCPLDRQTWVL   82 (88)
T ss_pred             ecchHHHHHHHHHHHhh-CCCCCCCCceeEE
Confidence            59999999999999988 7789999998763

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

Probab=95.41  E-value=0.0051  Score=69.13  Aligned_cols=50  Identities=32%  Similarity=0.665  Sum_probs=38.4

Q ss_pred             hcccccccccccCCC-----Ccee--ccCCCcchhhhHHhhhhhc-CCCCcccccccc
Q 044354          155 LREELSCAICLEICF-----EPST--TTCGHSFCKKCLRSAADKC-GKKCPKCRQLIS  204 (426)
Q Consensus       155 l~~~l~CpIC~~~l~-----~Pv~--lpCgH~FC~~CI~~~l~~~-~~~CP~CR~~i~  204 (426)
                      +...-.|+||..++.     -|..  -.|.|-|+..|+.+|+... ...||+||..++
T Consensus      1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            344568999998775     1222  3599999999999999764 468999998765

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

Probab=94.50  E-value=0.022  Score=58.94  Aligned_cols=48  Identities=25%  Similarity=0.482  Sum_probs=39.1

Q ss_pred             hcccccccccccCCC---CceeccCCCcchhhhHHhhhhhcC--CCCcccccc
Q 044354          155 LREELSCAICLEICF---EPSTTTCGHSFCKKCLRSAADKCG--KKCPKCRQL  202 (426)
Q Consensus       155 l~~~l~CpIC~~~l~---~Pv~lpCgH~FC~~CI~~~l~~~~--~~CP~CR~~  202 (426)
                      +...|.|||=.+--.   .|+.+.|||+.|..-+.++..++.  ++||.|-..
T Consensus       331 fHSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e  383 (394)
T KOG2817|consen  331 FHSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVE  383 (394)
T ss_pred             ccceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence            455689999776553   578899999999999999988776  899999544

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

Probab=94.24  E-value=0.018  Score=63.54  Aligned_cols=53  Identities=38%  Similarity=0.723  Sum_probs=43.0

Q ss_pred             hhhhcccccccccccCCCCceeccCCCcchhhhHHhhhhh--cCCCCcccccccc
Q 044354          152 IDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADK--CGKKCPKCRQLIS  204 (426)
Q Consensus       152 l~~l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~--~~~~CP~CR~~i~  204 (426)
                      +..+...+.|+||...++.|+.+.|.|.||..|+...+..  ....||+|+..+.
T Consensus        15 i~~~~k~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e   69 (684)
T KOG4362|consen   15 INAMQKILECPICLEHVKEPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIE   69 (684)
T ss_pred             HHHHhhhccCCceeEEeeccchhhhhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence            3445567999999999999999999999999999876543  2457999986655

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

Probab=94.23  E-value=0.033  Score=49.73  Aligned_cols=50  Identities=28%  Similarity=0.668  Sum_probs=42.3

Q ss_pred             ccccccccccCCCCceecc----CCCcchhhhHHhhhhhcC--CCCccccccccCC
Q 044354          157 EELSCAICLEICFEPSTTT----CGHSFCKKCLRSAADKCG--KKCPKCRQLISNG  206 (426)
Q Consensus       157 ~~l~CpIC~~~l~~Pv~lp----CgH~FC~~CI~~~l~~~~--~~CP~CR~~i~~~  206 (426)
                      ..+.|.||.+...+...|.    ||-..|..|...+|+...  ..||+|+..+.+.
T Consensus        79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss  134 (140)
T PF05290_consen   79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS  134 (140)
T ss_pred             CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence            4589999999998887763    999999999999887643  6899999998864

>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=94.08  E-value=0.068  Score=49.10  Aligned_cols=91  Identities=21%  Similarity=0.385  Sum_probs=55.4

Q ss_pred             cccccccccCCCCceeccCC-------Ccch------hhhHHhhhhh------------------------------cCC
Q 044354          158 ELSCAICLEICFEPSTTTCG-------HSFC------KKCLRSAADK------------------------------CGK  194 (426)
Q Consensus       158 ~l~CpIC~~~l~~Pv~lpCg-------H~FC------~~CI~~~l~~------------------------------~~~  194 (426)
                      +..||||++...+.|.|-|.       ...|      ..|+.++.+.                              ...
T Consensus         2 d~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L   81 (162)
T PF07800_consen    2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQPEL   81 (162)
T ss_pred             CccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCcccccccccccccc
Confidence            57899999999999987442       2233      3566655221                              023


Q ss_pred             CCccccccccCCCCcchhHHHHHHHHHHChhHHHHHHHHHHhcccccccCccccccccccCchhHHHHhhhccccc
Q 044354          195 KCPKCRQLISNGRSCTVNTVLWNTIQLLFPQEVEARKAAAALNSREAEHQSPQRGFHNNVRTRSMRSSATSSGDAT  270 (426)
Q Consensus       195 ~CP~CR~~i~~~~~l~~N~~L~~lI~~l~p~E~~~r~~~~~~~~~~~~~~~pc~gC~~~i~~~~lR~H~~~c~~~~  270 (426)
                      .||+||..|.....+                +. +++-.     +...-.+...+|.-.-.-.+|+.|....-...
T Consensus        82 ~CPLCRG~V~GWtvv----------------e~-AR~~L-----N~K~RsC~~e~C~F~GtY~eLrKHar~~HP~~  135 (162)
T PF07800_consen   82 ACPLCRGEVKGWTVV----------------EP-ARRFL-----NAKKRSCSQESCSFSGTYSELRKHARSEHPSA  135 (162)
T ss_pred             cCccccCceeceEEc----------------hH-HHHHh-----ccCCccCcccccccccCHHHHHHHHHhhCCCC
Confidence            699999998853321                11 11100     11122345667777777788999998776553

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.

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

Probab=93.88  E-value=0.023  Score=46.14  Aligned_cols=30  Identities=30%  Similarity=0.644  Sum_probs=25.3

Q ss_pred             cCCCcchhhhHHhhhhhc--CCCCcccccccc
Q 044354          175 TCGHSFCKKCLRSAADKC--GKKCPKCRQLIS  204 (426)
Q Consensus       175 pCgH~FC~~CI~~~l~~~--~~~CP~CR~~i~  204 (426)
                      -|.|.|...||.+|+...  ...||+||+.+.
T Consensus        50 ~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   50 YCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             HHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            499999999999998653  357999998765

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

Probab=93.79  E-value=0.02  Score=59.18  Aligned_cols=48  Identities=35%  Similarity=0.785  Sum_probs=37.6

Q ss_pred             ccccccccccCCC-Cc---eeccCCCcchhhhHHhhhhhcC-CCCcccccccc
Q 044354          157 EELSCAICLEICF-EP---STTTCGHSFCKKCLRSAADKCG-KKCPKCRQLIS  204 (426)
Q Consensus       157 ~~l~CpIC~~~l~-~P---v~lpCgH~FC~~CI~~~l~~~~-~~CP~CR~~i~  204 (426)
                      -.+.|..|.+.+- .|   -.+||.|+|...|+.+++.++. ..||.|++...
T Consensus       364 ~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~CrklrS  416 (518)
T KOG1941|consen  364 TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKLRS  416 (518)
T ss_pred             HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHHHh
Confidence            3589999999773 33   2379999999999999986643 57999996544

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

Probab=93.64  E-value=0.06  Score=54.61  Aligned_cols=48  Identities=25%  Similarity=0.479  Sum_probs=39.9

Q ss_pred             cccccccccccCCCCceecc-CCCcchhhhHHhhhhhcCCCCcccccccc
Q 044354          156 REELSCAICLEICFEPSTTT-CGHSFCKKCLRSAADKCGKKCPKCRQLIS  204 (426)
Q Consensus       156 ~~~l~CpIC~~~l~~Pv~lp-CgH~FC~~CI~~~l~~~~~~CP~CR~~i~  204 (426)
                      .+.-.||||+....+|..+. -|-.||..||..++.+ ...||+-..+..
T Consensus       298 ~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~-~~~CPVT~~p~~  346 (357)
T KOG0826|consen  298 PDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVN-YGHCPVTGYPAS  346 (357)
T ss_pred             CccccChhHHhccCCCceEEecceEEeHHHHHHHHHh-cCCCCccCCcch
Confidence            35578999999999998765 5999999999999985 779998766544

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

Probab=93.55  E-value=0.053  Score=60.80  Aligned_cols=47  Identities=30%  Similarity=0.692  Sum_probs=36.9

Q ss_pred             cccccccccccCCC--Ccee--ccCCCcchhhhHHhhhhh------cCCCCcccccc
Q 044354          156 REELSCAICLEICF--EPST--TTCGHSFCKKCLRSAADK------CGKKCPKCRQL  202 (426)
Q Consensus       156 ~~~l~CpIC~~~l~--~Pv~--lpCgH~FC~~CI~~~l~~------~~~~CP~CR~~  202 (426)
                      ...+.|-||.+.+.  .|+.  ..|.|+|...||..|...      ..+.||.|...
T Consensus       189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv  245 (950)
T KOG1952|consen  189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV  245 (950)
T ss_pred             cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence            35689999999775  4544  369999999999999764      24789999843

>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]

Probab=93.34  E-value=0.029  Score=54.67  Aligned_cols=47  Identities=21%  Similarity=0.754  Sum_probs=36.9

Q ss_pred             ccccccccc-CCCCcee----cc-CCCcchhhhHHhhhhhcCCCCc--ccccccc
Q 044354          158 ELSCAICLE-ICFEPST----TT-CGHSFCKKCLRSAADKCGKKCP--KCRQLIS  204 (426)
Q Consensus       158 ~l~CpIC~~-~l~~Pv~----lp-CgH~FC~~CI~~~l~~~~~~CP--~CR~~i~  204 (426)
                      +-.||||.. .+-+|-+    -| |-|..|.+|+.+.+..+...||  -|.+.+.
T Consensus        10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILR   64 (314)
T COG5220          10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILR   64 (314)
T ss_pred             cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHH
Confidence            358999976 4556632    24 9999999999999999888999  7866543

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

Probab=92.88  E-value=0.061  Score=62.69  Aligned_cols=59  Identities=25%  Similarity=0.593  Sum_probs=49.1

Q ss_pred             CCcchhhhhhhcccccccccccCCC-CceeccCCCcchhhhHHhhhhhcCCCCcccccccc
Q 044354          145 SSSVLTCIDKLREELSCAICLEICF-EPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLIS  204 (426)
Q Consensus       145 ~~~~~~~l~~l~~~l~CpIC~~~l~-~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~  204 (426)
                      ..+....+..+.....|+||++++. .-.+..|||.||..|+..|+.. ...||.|.....
T Consensus      1140 ~es~~~y~~~~~~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~-~s~~~~~ksi~~ 1199 (1394)
T KOG0298|consen 1140 TESDVRYLMNLSGHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLYA-SSRCPICKSIKG 1199 (1394)
T ss_pred             ccchHHHHHHhhcccchHHHHHHHHhcCCeeeechhHhhhHHHHHHHH-hccCcchhhhhh
Confidence            3455666677778889999999998 6677899999999999999987 789999975544

>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=92.78  E-value=0.08  Score=39.51  Aligned_cols=44  Identities=27%  Similarity=0.517  Sum_probs=22.5

Q ss_pred             ccccccccCCCCcee-ccCCCcchhhh---HHhhhhhcCCCCcccccc
Q 044354          159 LSCAICLEICFEPST-TTCGHSFCKKC---LRSAADKCGKKCPKCRQL  202 (426)
Q Consensus       159 l~CpIC~~~l~~Pv~-lpCgH~FC~~C---I~~~l~~~~~~CP~CR~~  202 (426)
                      +.|||....+..|+. ..|.|.-|.+=   |........+.||+|.++
T Consensus         3 L~CPls~~~i~~P~Rg~~C~H~~CFDl~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    3 LRCPLSFQRIRIPVRGKNCKHLQCFDLESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             SB-TTTSSB-SSEEEETT--SS--EEHHHHHHHHHHS---B-TTT---
T ss_pred             eeCCCCCCEEEeCccCCcCcccceECHHHHHHHhhccCCeECcCCcCc
Confidence            789999999999998 57999877543   222233345789999763

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.

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

Probab=92.75  E-value=0.069  Score=54.53  Aligned_cols=46  Identities=30%  Similarity=0.694  Sum_probs=38.0

Q ss_pred             cccccccccccCCCCceeccCCCcchhhhHHhh--hhhcCCCCcccccc
Q 044354          156 REELSCAICLEICFEPSTTTCGHSFCKKCLRSA--ADKCGKKCPKCRQL  202 (426)
Q Consensus       156 ~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~--l~~~~~~CP~CR~~  202 (426)
                      ++...|.||..-+.-...+||+|..|.-|..+.  +.. .+.||+|+..
T Consensus        59 Een~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~-~K~C~~CrTE  106 (493)
T COG5236          59 EENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYM-QKGCPLCRTE  106 (493)
T ss_pred             cccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHh-ccCCCccccc
Confidence            355789999998888888999999999998765  333 5789999875

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

Probab=92.43  E-value=0.073  Score=45.62  Aligned_cols=29  Identities=21%  Similarity=0.458  Sum_probs=25.4

Q ss_pred             cCCCcchhhhHHhhhhhcCCCCcccccccc
Q 044354          175 TCGHSFCKKCLRSAADKCGKKCPKCRQLIS  204 (426)
Q Consensus       175 pCgH~FC~~CI~~~l~~~~~~CP~CR~~i~  204 (426)
                      .|.|.|...||..|++. ...||+|.+...
T Consensus        80 ~CNHaFH~hCisrWlkt-r~vCPLdn~eW~  108 (114)
T KOG2930|consen   80 VCNHAFHFHCISRWLKT-RNVCPLDNKEWV  108 (114)
T ss_pred             ecchHHHHHHHHHHHhh-cCcCCCcCccee
Confidence            59999999999999998 778999987643

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

Probab=92.42  E-value=0.21  Score=48.45  Aligned_cols=54  Identities=28%  Similarity=0.535  Sum_probs=41.5

Q ss_pred             hhhhcccccccccccCCC--CceeccCCCcchhhhHHhhhhh-------cCCCCccccccccC
Q 044354          152 IDKLREELSCAICLEICF--EPSTTTCGHSFCKKCLRSAADK-------CGKKCPKCRQLISN  205 (426)
Q Consensus       152 l~~l~~~l~CpIC~~~l~--~Pv~lpCgH~FC~~CI~~~l~~-------~~~~CP~CR~~i~~  205 (426)
                      +.+-...-.|..|...+.  +.+.+.|.|.|...|+.+|..+       .+..||.|...|..
T Consensus        44 L~DsDY~pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP  106 (299)
T KOG3970|consen   44 LQDSDYNPNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP  106 (299)
T ss_pred             HhhcCCCCCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence            334445568999999886  4566899999999999999653       24689999887764

>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1

Probab=92.02  E-value=0.064  Score=44.79  Aligned_cols=32  Identities=22%  Similarity=0.551  Sum_probs=26.3

Q ss_pred             hcccccccccccCCCCcee--ccCCCcchhhhHH
Q 044354          155 LREELSCAICLEICFEPST--TTCGHSFCKKCLR  186 (426)
Q Consensus       155 l~~~l~CpIC~~~l~~Pv~--lpCgH~FC~~CI~  186 (426)
                      +.+.-.|++|...+.+.+.  .||||.|+..|+.
T Consensus        75 i~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   75 ITESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             ECCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence            3456789999998887654  6999999999975

Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=91.78  E-value=0.14  Score=52.15  Aligned_cols=48  Identities=23%  Similarity=0.609  Sum_probs=35.6

Q ss_pred             ccccccccCCCC--ceec--cCCCcchhhhHHhhhhhcCCCCccccccccCC
Q 044354          159 LSCAICLEICFE--PSTT--TCGHSFCKKCLRSAADKCGKKCPKCRQLISNG  206 (426)
Q Consensus       159 l~CpIC~~~l~~--Pv~l--pCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~  206 (426)
                      -.||+|++.+..  --..  +||-..|.-|+......-...||.||..+...
T Consensus        15 d~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~de   66 (480)
T COG5175          15 DYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDE   66 (480)
T ss_pred             ccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcccc
Confidence            349999997642  2333  68888899999887666567899999877653

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

Probab=91.39  E-value=0.25  Score=58.33  Aligned_cols=49  Identities=27%  Similarity=0.611  Sum_probs=36.3

Q ss_pred             cccccccccccCC--CCc-eeccCCCcchhhhHHhhhhhcC---------CCCcccccccc
Q 044354          156 REELSCAICLEIC--FEP-STTTCGHSFCKKCLRSAADKCG---------KKCPKCRQLIS  204 (426)
Q Consensus       156 ~~~l~CpIC~~~l--~~P-v~lpCgH~FC~~CI~~~l~~~~---------~~CP~CR~~i~  204 (426)
                      ..+-.|-||+..-  ..| +.+.|+|.|...|....+.+..         ..||+|..+|.
T Consensus      3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred             ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence            3456799998632  233 5689999999999988766531         37999988877

>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=91.25  E-value=0.2  Score=52.41  Aligned_cols=47  Identities=30%  Similarity=0.779  Sum_probs=31.2

Q ss_pred             cccccccc-cCCCCce---eccCCCcchhhhHHhhhhhc-----CCCCcc--cccccc
Q 044354          158 ELSCAICL-EICFEPS---TTTCGHSFCKKCLRSAADKC-----GKKCPK--CRQLIS  204 (426)
Q Consensus       158 ~l~CpIC~-~~l~~Pv---~lpCgH~FC~~CI~~~l~~~-----~~~CP~--CR~~i~  204 (426)
                      ...|.||. +......   +..|+|.||..|+...+...     ...||.  |...+.
T Consensus       146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~  203 (384)
T KOG1812|consen  146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLT  203 (384)
T ss_pred             cccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCC
Confidence            46899999 4433212   35699999999999887632     346764  444444

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

Probab=91.19  E-value=0.11  Score=58.51  Aligned_cols=40  Identities=35%  Similarity=0.732  Sum_probs=34.5

Q ss_pred             cccccccccCCCCcee-ccCCCcchhhhHHhhhhhcCCCCccccc
Q 044354          158 ELSCAICLEICFEPST-TTCGHSFCKKCLRSAADKCGKKCPKCRQ  201 (426)
Q Consensus       158 ~l~CpIC~~~l~~Pv~-lpCgH~FC~~CI~~~l~~~~~~CP~CR~  201 (426)
                      .-.|..|...+.-|++ ..|||.|...|+.    .+...||.|+.
T Consensus       840 ~skCs~C~~~LdlP~VhF~CgHsyHqhC~e----~~~~~CP~C~~  880 (933)
T KOG2114|consen  840 VSKCSACEGTLDLPFVHFLCGHSYHQHCLE----DKEDKCPKCLP  880 (933)
T ss_pred             eeeecccCCccccceeeeecccHHHHHhhc----cCcccCCccch
Confidence            3689999999999977 7899999999998    33578999976

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

Probab=90.76  E-value=0.09  Score=53.01  Aligned_cols=43  Identities=30%  Similarity=0.609  Sum_probs=29.2

Q ss_pred             ccccccccCCC-CceeccCCCcchhhhHHhhhhhcCCCCcccccccc
Q 044354          159 LSCAICLEICF-EPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLIS  204 (426)
Q Consensus       159 l~CpIC~~~l~-~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~  204 (426)
                      ..|--|-..+. --.++||.|.||.+|...--   .+.||.|-..|.
T Consensus        91 HfCd~Cd~PI~IYGRmIPCkHvFCl~CAr~~~---dK~Cp~C~d~Vq  134 (389)
T KOG2932|consen   91 HFCDRCDFPIAIYGRMIPCKHVFCLECARSDS---DKICPLCDDRVQ  134 (389)
T ss_pred             EeecccCCcceeeecccccchhhhhhhhhcCc---cccCcCcccHHH
Confidence            45666655332 23457999999999986433   458999976554

>PHA03096 p28-like protein; Provisional

Probab=89.72  E-value=0.17  Score=50.94  Aligned_cols=43  Identities=23%  Similarity=0.364  Sum_probs=29.7

Q ss_pred             ccccccccCCC-Cce-------eccCCCcchhhhHHhhhhhc--CCCCccccc
Q 044354          159 LSCAICLEICF-EPS-------TTTCGHSFCKKCLRSAADKC--GKKCPKCRQ  201 (426)
Q Consensus       159 l~CpIC~~~l~-~Pv-------~lpCgH~FC~~CI~~~l~~~--~~~CP~CR~  201 (426)
                      ..|.||++... .+.       ...|.|.||..|+..|....  ...||.|+.
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~  231 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR  231 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence            57999999554 322       23699999999999997543  234555544

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=88.60  E-value=0.25  Score=48.52  Aligned_cols=37  Identities=19%  Similarity=0.326  Sum_probs=32.2

Q ss_pred             hhcccccccccccCCCCceeccCCCcchhhhHHhhhh
Q 044354          154 KLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAAD  190 (426)
Q Consensus       154 ~l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~  190 (426)
                      .+.+...|.+|+..+.+||+++=||.||..||.+++-
T Consensus        39 siK~FdcCsLtLqPc~dPvit~~GylfdrEaILe~il   75 (303)
T KOG3039|consen   39 SIKPFDCCSLTLQPCRDPVITPDGYLFDREAILEYIL   75 (303)
T ss_pred             ccCCcceeeeecccccCCccCCCCeeeeHHHHHHHHH
Confidence            3455678899999999999999999999999988754

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

Probab=87.98  E-value=0.32  Score=46.73  Aligned_cols=50  Identities=28%  Similarity=0.545  Sum_probs=35.8

Q ss_pred             hhhhhcccccccccccCCCCceeccCCC-cchhhhHHhhhhhcCCCCccccccccC
Q 044354          151 CIDKLREELSCAICLEICFEPSTTTCGH-SFCKKCLRSAADKCGKKCPKCRQLISN  205 (426)
Q Consensus       151 ~l~~l~~~l~CpIC~~~l~~Pv~lpCgH-~FC~~CI~~~l~~~~~~CP~CR~~i~~  205 (426)
                      .++.+...-.|-+|...-..-+.+||.| .+|..|-..     ...||+|+.+...
T Consensus       151 ~~~~~~~~~~Cr~C~~~~~~VlllPCrHl~lC~~C~~~-----~~~CPiC~~~~~s  201 (207)
T KOG1100|consen  151 SVDNFKRMRSCRKCGEREATVLLLPCRHLCLCGICDES-----LRICPICRSPKTS  201 (207)
T ss_pred             hhhhhhccccceecCcCCceEEeecccceEeccccccc-----CccCCCCcChhhc
Confidence            3333333334999999888877789998 689999654     2369999887654

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

Probab=87.41  E-value=0.47  Score=47.49  Aligned_cols=45  Identities=29%  Similarity=0.754  Sum_probs=36.7

Q ss_pred             cccccccccCCC----CceeccCCCcchhhhHHhhhhhcCCCCcccccccc
Q 044354          158 ELSCAICLEICF----EPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLIS  204 (426)
Q Consensus       158 ~l~CpIC~~~l~----~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~  204 (426)
                      ...||||.+.+.    .|..++|||.....|+......+ ..||+|.+ +.
T Consensus       158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~-y~CP~C~~-~~  206 (276)
T KOG1940|consen  158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEG-YTCPICSK-PG  206 (276)
T ss_pred             cCCCchhHHHhccccccCCccCcccchHHHHHHHHhccC-CCCCcccc-hH
Confidence            356999998664    45568999999999999988775 99999988 44

>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=87.20  E-value=0.39  Score=48.68  Aligned_cols=48  Identities=27%  Similarity=0.646  Sum_probs=37.3

Q ss_pred             hhcccccccccccCCC---CceeccCCCcchhhhHHhhhhhc--CCCCccccc
Q 044354          154 KLREELSCAICLEICF---EPSTTTCGHSFCKKCLRSAADKC--GKKCPKCRQ  201 (426)
Q Consensus       154 ~l~~~l~CpIC~~~l~---~Pv~lpCgH~FC~~CI~~~l~~~--~~~CP~CR~  201 (426)
                      .+...|.|||=.+...   .|+.+.|||+.-..-+....+++  .++||.|-.
T Consensus       332 hfHs~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~  384 (396)
T COG5109         332 HFHSLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPE  384 (396)
T ss_pred             cccceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence            4556799999777554   57889999999998888776664  368999943

>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=86.08  E-value=0.32  Score=48.61  Aligned_cols=34  Identities=29%  Similarity=0.721  Sum_probs=30.2

Q ss_pred             cccccccccCCCCceeccC----CCcchhhhHHhhhhh
Q 044354          158 ELSCAICLEICFEPSTTTC----GHSFCKKCLRSAADK  191 (426)
Q Consensus       158 ~l~CpIC~~~l~~Pv~lpC----gH~FC~~CI~~~l~~  191 (426)
                      -|.|.+|.+.|.+...+.|    .|.||..|-.+.++.
T Consensus       268 pLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~  305 (352)
T KOG3579|consen  268 PLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQ  305 (352)
T ss_pred             ceeehhhhhhhccCceeecCCCcccceecccCHHHHHh
Confidence            4899999999999988877    599999999988775

>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length

Probab=85.58  E-value=0.3  Score=43.84  Aligned_cols=33  Identities=24%  Similarity=0.535  Sum_probs=26.3

Q ss_pred             cccccccccCCCC--cee-ccCC------CcchhhhHHhhhh
Q 044354          158 ELSCAICLEICFE--PST-TTCG------HSFCKKCLRSAAD  190 (426)
Q Consensus       158 ~l~CpIC~~~l~~--Pv~-lpCg------H~FC~~CI~~~l~  190 (426)
                      ...|.||++.+.+  -|+ ++||      |.||..|+.+|-.
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~   67 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRR   67 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHh
Confidence            5789999998766  444 6776      6799999999953

The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.

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

Probab=84.72  E-value=0.92  Score=32.79  Aligned_cols=39  Identities=26%  Similarity=0.703  Sum_probs=24.0

Q ss_pred             ccccccCCCCceec---cCCCcchhhhHHhhhhhcCC-CCccc
Q 044354          161 CAICLEICFEPSTT---TCGHSFCKKCLRSAADKCGK-KCPKC  199 (426)
Q Consensus       161 CpIC~~~l~~Pv~l---pCgH~FC~~CI~~~l~~~~~-~CP~C  199 (426)
                      |.+|.++...-+.=   .|+-.+...|+..++..... .||.|
T Consensus         1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            77899988887763   49988999999999876443 69987

; PDB: 3NW0_A 2CT0_A.

>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=83.17  E-value=0.48  Score=35.24  Aligned_cols=44  Identities=23%  Similarity=0.656  Sum_probs=24.4

Q ss_pred             ccccccccCCCCceeccCC-CcchhhhHHhhhhhcCCCCccccccccC
Q 044354          159 LSCAICLEICFEPSTTTCG-HSFCKKCLRSAADKCGKKCPKCRQLISN  205 (426)
Q Consensus       159 l~CpIC~~~l~~Pv~lpCg-H~FC~~CI~~~l~~~~~~CP~CR~~i~~  205 (426)
                      +.|.-|.-..+  -.+.|. |..|..|+.-++.. +..||+|..+++.
T Consensus         3 ~nCKsCWf~~k--~Li~C~dHYLCl~CLt~ml~~-s~~C~iC~~~LPt   47 (50)
T PF03854_consen    3 YNCKSCWFANK--GLIKCSDHYLCLNCLTLMLSR-SDRCPICGKPLPT   47 (50)
T ss_dssp             ----SS-S--S--SEEE-SS-EEEHHHHHHT-SS-SSEETTTTEE---
T ss_pred             ccChhhhhcCC--CeeeecchhHHHHHHHHHhcc-ccCCCcccCcCcc
Confidence            34555554333  345675 88999999988876 7789999988763

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.

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

Probab=82.91  E-value=0.36  Score=48.63  Aligned_cols=48  Identities=31%  Similarity=0.599  Sum_probs=34.9

Q ss_pred             cccccccccCCC-Cc--eeccCCCcchhhhHHhhhhh----------------------cCCCCccccccccC
Q 044354          158 ELSCAICLEICF-EP--STTTCGHSFCKKCLRSAADK----------------------CGKKCPKCRQLISN  205 (426)
Q Consensus       158 ~l~CpIC~~~l~-~P--v~lpCgH~FC~~CI~~~l~~----------------------~~~~CP~CR~~i~~  205 (426)
                      .-.|.||+-=|. .|  +.++|.|.|...|+.+++..                      -...||+|+..|..
T Consensus       115 ~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~  187 (368)
T KOG4445|consen  115 NGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI  187 (368)
T ss_pred             CCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence            467999998664 44  34789999999999876331                      02369999987764

>KOG3113 consensus Uncharacterized conserved protein [Function unknown]

Probab=81.29  E-value=1  Score=44.44  Aligned_cols=55  Identities=16%  Similarity=0.328  Sum_probs=42.0

Q ss_pred             cccccccccccCCCCcee----ccCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhH
Q 044354          156 REELSCAICLEICFEPST----TTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNT  213 (426)
Q Consensus       156 ~~~l~CpIC~~~l~~Pv~----lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~  213 (426)
                      ...|+|||-.-.|..-..    .+|||.|-..-+++..   ...|++|...+...+.+.+|-
T Consensus       109 ~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik---as~C~~C~a~y~~~dvIvlNg  167 (293)
T KOG3113|consen  109 RARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK---ASVCHVCGAAYQEDDVIVLNG  167 (293)
T ss_pred             cceeecccccceecceEEEEEEeccceeccHHHHHHhh---hccccccCCcccccCeEeeCC
Confidence            356899998777765433    4899999988877655   458999999998877666653

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	426
3l11_A	115	Crystal Structure Of The Ring Domain Of Rnf168 Leng		1e-09
2ysj_A	63	Solution Structure Of The Ring Domain (1-56) From T		1e-07
2ysl_A	73	Solution Structure Of The Ring Domain (1-66) From T		2e-07
1z6u_A	150	Np95-Like Ring Finger Protein Isoform B [homo Sapie		1e-06
3fl2_A	124	Crystal Structure Of The Ring Domain Of The E3 Ubiq		5e-06
2ecw_A	85	Solution Structure Of The Zinc Finger, C3hc4 Type (		9e-06
2ecv_A	85	Solution Structure Of The Zinc Finger, C3hc4 Type (		9e-06
2d8t_A	71	Solution Structure Of The Ring Domain Of The Human		4e-05
4ayc_B	138	Rnf8 Ring Domain Structure Length = 138		1e-04
4epo_C	149	Crystal Structure Of Rnf8 Bound To The Ubc13MMS2 HE		1e-04
4ayc_A	138	Rnf8 Ring Domain Structure Length = 138		2e-04
2ckl_B	165	Ring1b-Bmi1 E3 Catalytic Domain Structure Length =		2e-04
1rmd_A	116	Rag1 Dimerization Domain Length = 116		3e-04
2egp_A	79	Solution Structure Of The Ring-Finger Domain From H		5e-04

>pdb|3L11|A Chain A, Crystal Structure Of The Ring Domain Of Rnf168 Length = 115

Iteration: 1
 Score = 60.8 bits (146), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 31/82 (37%), Positives = 43/82 (52%), Gaps = 6/82 (7%)
Query: 158 ELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNG------RSCTV 211
           E  C IC+EI  EP T  C H+ CK C +S  +K    CP CR+ +S+       R+  V
Sbjct: 15  ECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRRNSLV 74
Query: 212 NTVLWNTIQLLFPQEVEARKAA 233
           N  LW  IQ  +P+E + R + 
Sbjct: 75  NVELWTIIQKHYPRECKLRASG 96

>pdb|2YSJ|A Chain A, Solution Structure Of The Ring Domain (1-56) From Tripartite Motif-containing Protein 31 Length = 63

Iteration: 1
 Score = 54.7 bits (130), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 24/50 (48%), Positives = 33/50 (66%), Gaps = 2/50 (4%)
Query: 152 IDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAAD-KCG-KKCPKC 199
           ++KL+EE+ C ICL+I  +P T  CGH+FC KC+    +  CG  KCP C
Sbjct: 14  VNKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC 63

>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From Tripartite Motif-containing Protein 31 Length = 73

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 24/51 (47%), Positives = 34/51 (66%), Gaps = 2/51 (3%)
Query: 152 IDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAAD-KCG-KKCPKCR 200
           ++KL+EE+ C ICL+I  +P T  CGH+FC KC+    +  CG  KCP C+
Sbjct: 14  VNKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCK 64

>pdb|1Z6U|A Chain A, Np95-Like Ring Finger Protein Isoform B [homo Sapiens] Length = 150

Iteration: 1
 Score = 50.8 bits (120), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 24/79 (30%), Positives = 36/79 (45%)
Query: 152 IDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTV 211
           + KL +   C  C E+ ++P TT C H+ CK CL+ +       CP CR  +        
Sbjct: 72  LKKLEQSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNYIMIP 131
Query: 212 NTVLWNTIQLLFPQEVEAR 230
           N +L   + L FP   + R
Sbjct: 132 NEILQTLLDLFFPGYSKGR 150

>pdb|3FL2|A Chain A, Crystal Structure Of The Ring Domain Of The E3 Ubiquitin- Protein Ligase Uhrf1 Length = 124

Iteration: 1
 Score = 48.9 bits (115), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 33/73 (45%)
Query: 152 IDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTV 211
           + K+ E   C  C E+ F P TT C H+ CK CL  +       CP CR  +    +  V
Sbjct: 46  LSKVEETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGRSYAMQV 105
Query: 212 NTVLWNTIQLLFP 224
           N  L   +  LFP
Sbjct: 106 NQPLQTVLNQLFP 118

>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring Finger) Domain Tripartite Motif Protein 30 Length = 85

Iteration: 1
 Score = 48.1 bits (113), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 22/54 (40%), Positives = 33/54 (61%), Gaps = 5/54 (9%)
Query: 152 IDKLREELSCAICLEICFEPSTTTCGHSFCKKCL----RSAADKCGK-KCPKCR 200
           ++ ++EE++C ICLE+  EP +  C HSFC+ C+     S  +  GK  CP CR
Sbjct: 13  LEMIKEEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCR 66

>pdb|2ECV|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring Finger) Domain Of Tripartite Motif-Containing Protein 5 Length = 85

Iteration: 1
 Score = 48.1 bits (113), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 23/51 (45%), Positives = 32/51 (62%), Gaps = 5/51 (9%)
Query: 155 LREELSCAICLEICFEPSTTTCGHSFCKKCL-----RSAADKCGKKCPKCR 200
           ++EE++C ICLE+  +P +  CGHSFC+ CL     +S  DK    CP CR
Sbjct: 16  VKEEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCR 66

>pdb|2D8T|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring Finger Protein 146 Length = 71

Iteration: 1
 Score = 45.8 bits (107), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 27/62 (43%), Positives = 33/62 (53%), Gaps = 3/62 (4%)
Query: 142 GSSSSSVLTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQ 201
           GSS SS  T       E  CAICL+ C  P +  C H FC  C++ A+   GK+C  CRQ
Sbjct: 1   GSSGSSGNTAPSLTVPE--CAICLQTCVHPVSLPCKHVFCYLCVKGAS-WLGKRCALCRQ 57
Query: 202 LI 203
            I
Sbjct: 58  EI 59

>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure Length = 138

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 36/108 (33%), Positives = 48/108 (44%), Gaps = 17/108 (15%)
Query: 112 GKNKVQLNEEKKTKEEKSVGGDELTEPSNDGSSSSSVLTCIDKLREELSCAICLEICFEP 171
            KNK +L + K+ KE+     +E+    ND             L  EL C IC E   E 
Sbjct: 20  AKNK-ELEQTKEEKEKMQAQKEEVLSHMNDV------------LENELQCIICSEYFIEA 66
Query: 172 STTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTI 219
            T  C HSFC  C+     +   +CP CR+ I   +S T + VL N I
Sbjct: 67  VTLNCAHSFCSYCINEWMKR-KIECPICRKDI---KSKTYSLVLDNXI 110

>pdb|4EPO|C Chain C, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2 HETERODIMER Length = 149

Iteration: 1
 Score = 44.3 bits (103), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 36/108 (33%), Positives = 48/108 (44%), Gaps = 17/108 (15%)
Query: 112 GKNKVQLNEEKKTKEEKSVGGDELTEPSNDGSSSSSVLTCIDKLREELSCAICLEICFEP 171
            KNK +L + K+ KE+     +E+    ND             L  EL C IC E   E 
Sbjct: 31  AKNK-ELEQTKEEKEKMQAQKEEVLSHMNDV------------LENELQCIICSEYFIEA 77
Query: 172 STTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTI 219
            T  C HSFC  C+     +   +CP CR+ I   +S T + VL N I
Sbjct: 78  VTLNCAHSFCSYCINEWMKR-KIECPICRKDI---KSKTYSLVLDNCI 121

>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure Length = 138

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 36/108 (33%), Positives = 48/108 (44%), Gaps = 17/108 (15%)
Query: 112 GKNKVQLNEEKKTKEEKSVGGDELTEPSNDGSSSSSVLTCIDKLREELSCAICLEICFEP 171
            KNK +L + K+ KE+     +E+    ND             L  EL C IC E   E 
Sbjct: 20  AKNK-ELEQTKEEKEKMQAQKEEVLSHMNDV------------LENELQCIICSEYFIEA 66
Query: 172 STTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTI 219
            T  C HSFC  C+     +   +CP CR+ I   +S T + VL N I
Sbjct: 67  VTLNCAHSFCSYCINEWMKR-KIECPICRKDI---KSKTYSLVLDNCI 110

>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure Length = 165

Iteration: 1
 Score = 43.5 bits (101), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 29/99 (29%), Positives = 45/99 (45%), Gaps = 1/99 (1%)
Query: 155 LREELSCAICLEICFEPSTTT-CGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNT 213
           L  EL C ICL++     TT  C H FC  C+ +A     K+CP CR+ + + RS   + 
Sbjct: 51  LHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDP 110
Query: 214 VLWNTIQLLFPQEVEARKAAAALNSREAEHQSPQRGFHN 252
                I  ++P   E       + +R  +H + Q   H+
Sbjct: 111 NFDALISKIYPSRDEYEAHQERVLARINKHNNQQALSHS 149

>pdb|1RMD|A Chain A, Rag1 Dimerization Domain Length = 116

Iteration: 1
 Score = 43.1 bits (100), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 17/44 (38%), Positives = 23/44 (52%)
Query: 157 EELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCR 200
           + +SC IC  I  +P  T+C H FC+ C+       G  CP CR
Sbjct: 22  KSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCR 65

>pdb|2EGP|A Chain A, Solution Structure Of The Ring-Finger Domain From Human Tripartite Motif Protein 34 Length = 79

Iteration: 1
 Score = 42.4 bits (98), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 26/64 (40%), Positives = 35/64 (54%), Gaps = 11/64 (17%)
Query: 142 GSSSSSVLTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCL----RSAADKCGKK-- 195
           GSS SS       ++EE++C ICLE+  EP +  CGHS C+ C+    + A    G K  
Sbjct: 1   GSSGSS-----GNVQEEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSS 55
Query: 196 CPKC 199
           CP C
Sbjct: 56  CPVC 59

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	426
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	4e-29
1z6u_A	150	NP95-like ring finger protein isoform B; structura	1e-27
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	5e-27
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	2e-21
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	3e-18
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	5e-17
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	1e-16
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	1e-16
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	3e-16
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	6e-16
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	1e-15
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	1e-15
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	2e-15
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	5e-15
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	6e-15
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	1e-14
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	1e-14
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	1e-14
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	4e-14
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	4e-14
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	8e-14
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	1e-13
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	3e-13
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	4e-13
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	8e-13
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	1e-12
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	2e-12
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	4e-12
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	7e-12
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	2e-11
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	2e-11
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	3e-11
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	1e-10
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	4e-05
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	2e-09
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	2e-08
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	1e-06
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	1e-06
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	2e-06
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	3e-06
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	6e-06
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	2e-05
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	4e-05
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	7e-05
2ea5_A	68	Cell growth regulator with ring finger domain prot	8e-05
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	1e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-04
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	2e-04
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	4e-04
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	7e-04
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	7e-04
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	8e-04
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	9e-04

>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 =  109 bits (274), Expect = 4e-29
 Identities = 32/127 (25%), Positives = 48/127 (37%), Gaps = 3/127 (2%)

Query: 104 GESSGQESGKNKVQLNEEKKTKEEKSVGGDELTEPSNDGSSSSSVLTCIDKLREELSCAI 163
           G      + +    + E+K       +  + L    +  +S S     + K+ E   C  
Sbjct: 1   GSEPYSLTAQQSSLIREDK---SNAKLWNEVLASLKDRPASGSPFQLFLSKVEETFQCIC 57

Query: 164 CLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLF 223
           C E+ F P TT C H+ CK CL  +       CP CR  +    +  VN  L   +  LF
Sbjct: 58  CQELVFRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGRSYAMQVNQPLQTVLNQLF 117

Query: 224 PQEVEAR 230
           P     R
Sbjct: 118 PGYGNGR 124

>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 =  106 bits (265), Expect = 1e-27
 Identities = 34/154 (22%), Positives = 56/154 (36%), Gaps = 7/154 (4%)

Query: 78  SNSRRKRRLQKRSPVSIPIAVLDLDEGESSG-QESGKNKVQLNEEKKTKEEKSVGGDELT 136
           S+           P   P A       +S+   E+ +   Q     +   +     DE+ 
Sbjct: 3   SSHHHHHHSSGLVPRGSPSASKVYKASDSAEAIEAFQLTPQQQHLIREDCQNQKLWDEVL 62

Query: 137 EPSNDGSSSSSVLTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKC 196
               +G +       + KL +   C  C E+ ++P TT C H+ CK CL+ +       C
Sbjct: 63  SHLVEGPNF------LKKLEQSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFSC 116

Query: 197 PKCRQLISNGRSCTVNTVLWNTIQLLFPQEVEAR 230
           P CR  +        N +L   + L FP   + R
Sbjct: 117 PACRHDLGQNYIMIPNEILQTLLDLFFPGYSKGR 150

>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 =  103 bits (258), Expect = 5e-27
 Identities = 34/102 (33%), Positives = 47/102 (46%), Gaps = 7/102 (6%)

Query: 155 LREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNG------RS 208
              E  C IC+EI  EP T  C H+ CK C +S  +K    CP CR+ +S+       R+
Sbjct: 12  SLSECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRRN 71

Query: 209 CTVNTVLWNTIQLLFPQEVEARKAAAALNSREAEHQSPQRGF 250
             VN  LW  IQ  +P+E + R +        A+   P R  
Sbjct: 72  SLVNVELWTIIQKHYPRECKLRASGQESE-EVADDYQPVRLL 112

>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 = 89.6 bits (222), Expect = 2e-21
 Identities = 29/112 (25%), Positives = 47/112 (41%), Gaps = 1/112 (0%)

Query: 137 EPSNDGSSSSSVLTCIDKLREELSCAICLEICFEPSTTT-CGHSFCKKCLRSAADKCGKK 195
            P    +    ++     L  EL C ICL++     TT  C H FC  C+ +A     K+
Sbjct: 33  TPQEAITDGLEIVVSPRSLHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKE 92

Query: 196 CPKCRQLISNGRSCTVNTVLWNTIQLLFPQEVEARKAAAALNSREAEHQSPQ 247
           CP CR+ + + RS   +      I  ++P   E       + +R  +H + Q
Sbjct: 93  CPTCRKKLVSKRSLRPDPNFDALISKIYPSRDEYEAHQERVLARINKHNNQQ 144

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

 Score = 80.1 bits (197), Expect = 3e-18
 Identities = 39/149 (26%), Positives = 54/149 (36%), Gaps = 10/149 (6%)

Query: 102 DEGESSGQESGKNKVQLNEEKKTKEE------KSVGGDELTEPSNDGSSSSSVLTCIDKL 155
             G    QE      +LN  KK  E       K +   +  +          +    D L
Sbjct: 2   PLGSPGFQEHWALMEELNRSKKDFEAIIQAKNKELEQTKEEKEKMQAQKEEVLSHMNDVL 61

Query: 156 REELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVL 215
             EL C IC E   E  T  C HSFC  C+     +   +CP CR+ I   +S T + VL
Sbjct: 62  ENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKR-KIECPICRKDI---KSKTYSLVL 117

Query: 216 WNTIQLLFPQEVEARKAAAALNSREAEHQ 244
            N I  +        K    +  RE + +
Sbjct: 118 DNCINKMVNNLSSEVKERRIVLIRERKAK 146

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

 Score = 74.5 bits (183), Expect = 5e-17
 Identities = 26/63 (41%), Positives = 32/63 (50%), Gaps = 3/63 (4%)

Query: 142 GSSSSSVLTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQ 201
           GSS SS  T          CAICL+ C  P +  C H FC  C++ A+   GK+C  CRQ
Sbjct: 1   GSSGSSGNT--APSLTVPECAICLQTCVHPVSLPCKHVFCYLCVKGASWL-GKRCALCRQ 57

Query: 202 LIS 204
            I 
Sbjct: 58  EIP 60

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

 Score = 72.8 bits (179), Expect = 1e-16
 Identities = 25/62 (40%), Positives = 36/62 (58%), Gaps = 2/62 (3%)

Query: 140 NDGSSSSSVLTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGK--KCP 197
           + GSS  +    ++KL+EE+ C ICL+I  +P T  CGH+FC KC+    +      KCP
Sbjct: 2   SSGSSGMASGQFVNKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCP 61

Query: 198 KC 199
            C
Sbjct: 62  LC 63

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

 Score = 73.2 bits (180), Expect = 1e-16
 Identities = 25/64 (39%), Positives = 37/64 (57%), Gaps = 2/64 (3%)

Query: 140 NDGSSSSSVLTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGK--KCP 197
           + GSS  +    ++KL+EE+ C ICL+I  +P T  CGH+FC KC+    +      KCP
Sbjct: 2   SSGSSGMASGQFVNKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCP 61

Query: 198 KCRQ 201
            C+ 
Sbjct: 62  LCKT 65

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

 Score = 72.1 bits (177), Expect = 3e-16
 Identities = 19/63 (30%), Positives = 29/63 (46%), Gaps = 2/63 (3%)

Query: 142 GSSSSSVLTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQ 201
           GSS SS    +  + ++  C  C  +   P  T CGH FC+ C+ +       KC  C++
Sbjct: 1   GSSGSSGF--VKTVEDKYKCEKCHLVLCSPKQTECGHRFCESCMAALLSSSSPKCTACQE 58

Query: 202 LIS 204
            I 
Sbjct: 59  SIV 61

>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 = 72.5 bits (178), Expect = 6e-16
 Identities = 26/103 (25%), Positives = 39/103 (37%), Gaps = 15/103 (14%)

Query: 152 IDKLREELSCAICLEICFEPSTTT-CGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCT 210
           I +L   L C +C     + +T   C HSFCK C+    +   K CP C   +   R   
Sbjct: 9   ITELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLET-SKYCPICDVQVHKTRPLL 67

Query: 211 ---VNTVLWNTIQLLFP----QEVEARKAAAALNSREAEHQSP 246
               +  L + +  L P     E++ R+         A H S 
Sbjct: 68  NIRSDKTLQDIVYKLVPGLFKNEMKRRRDF------YAAHPSA 104

>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 = 72.1 bits (177), Expect = 1e-15
 Identities = 23/72 (31%), Positives = 35/72 (48%), Gaps = 3/72 (4%)

Query: 146 SSVLTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGK--KCPKCRQLI 203
             V   I+ +++ L C ICLE+  EP +T C H FCK C+    ++     +CP C+   
Sbjct: 9   EEVQNVINAMQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKN-D 67

Query: 204 SNGRSCTVNTVL 215
              RS   +T  
Sbjct: 68  ITKRSLQESTRF 79

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

 Score = 70.2 bits (172), Expect = 1e-15
 Identities = 21/68 (30%), Positives = 33/68 (48%), Gaps = 4/68 (5%)

Query: 142 GSSSSSVLTCIDKLREELSCAICLEICFEPSTTT-CGHSFCKKCLRSAADKCGKKCPKCR 200
           GSS SS    + +L   + C+IC     + +T T C H+FCK C+         +CPKC 
Sbjct: 1   GSSGSSGN--LSELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYY-SNRCPKCN 57

Query: 201 QLISNGRS 208
            ++   + 
Sbjct: 58  IVVHQTQP 65

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

 Score = 70.4 bits (173), Expect = 2e-15
 Identities = 22/67 (32%), Positives = 33/67 (49%), Gaps = 6/67 (8%)

Query: 154 KLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKK-----CPKCRQLISNGRS 208
            ++EE++C ICLE+  +P +  CGHSFC+ CL +   K         CP CR       +
Sbjct: 15  NVKEEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRI-SYQPEN 73

Query: 209 CTVNTVL 215
              N  +
Sbjct: 74  IRPNRHV 80

>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 = 68.8 bits (169), Expect = 5e-15
 Identities = 20/68 (29%), Positives = 31/68 (45%), Gaps = 7/68 (10%)

Query: 154 KLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKK------CPKCRQLISNGR 207
            ++EE++C ICLE+  EP +  CGHS C+ C+  +  +          CP C     +  
Sbjct: 8   NVQEEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGI-SYSFE 66

Query: 208 SCTVNTVL 215
               N  L
Sbjct: 67  HLQANQHL 74

>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 = 68.6 bits (168), Expect = 6e-15
 Identities = 23/62 (37%), Positives = 34/62 (54%), Gaps = 4/62 (6%)

Query: 142 GSSSSSVLTCIDKLREELSCAICLEICFEP-STTTCGHSFCKKCLRSAADKCGKK-CPKC 199
           GSS SS     D + +EL C IC +I  +      CG+S+C +C+R+A  +  +  CP C
Sbjct: 1   GSSGSSGED--DPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTC 58

Query: 200 RQ 201
            Q
Sbjct: 59  HQ 60

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

 Score = 68.3 bits (167), Expect = 1e-14
 Identities = 20/81 (24%), Positives = 37/81 (45%), Gaps = 2/81 (2%)

Query: 153 DKLREELSCAICLEICFEP-STTTCGHSFCKKCLRSAADKCGK-KCPKCRQLISNGRSCT 210
           D + +EL C IC +I  +      CG+S+C +C+R+A  +  +  CP C Q   +  +  
Sbjct: 8   DPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALI 67

Query: 211 VNTVLWNTIQLLFPQEVEARK 231
            N  L   +     +    ++
Sbjct: 68  ANKFLRQAVNNFKNETGYTKR 88

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

 Score = 68.2 bits (167), Expect = 1e-14
 Identities = 20/67 (29%), Positives = 31/67 (46%), Gaps = 6/67 (8%)

Query: 154 KLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKK-----CPKCRQLISNGRS 208
            ++EE++C ICLE+  EP +  C HSFC+ C+    +          CP CR       +
Sbjct: 15  MIKEEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRV-PYPFGN 73

Query: 209 CTVNTVL 215
              N  +
Sbjct: 74  LKPNLHV 80

>3hct_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 3hcu_A 2eci_A 2jmd_A Length = 118

 Score = 68.7 bits (168), Expect = 1e-14
 Identities = 18/52 (34%), Positives = 24/52 (46%)

Query: 153 DKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLIS 204
             L  +  C ICL    E   T CGH FCK C+  +    G KCP   +++ 
Sbjct: 13  PPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILL 64

>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 = 68.2 bits (166), Expect = 4e-14
 Identities = 14/61 (22%), Positives = 21/61 (34%)

Query: 153 DKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVN 212
            KL  +  C+ C  +   P    CGH +C  CL S      + C  C          ++ 
Sbjct: 26  TKLEAKYLCSACRNVLRRPFQAQCGHRYCSFCLASILSSGPQNCAACVHEGIYEEGISIL 85

Query: 213 T 213
            
Sbjct: 86  E 86

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

 Score = 65.4 bits (160), Expect = 4e-14
 Identities = 24/60 (40%), Positives = 33/60 (55%), Gaps = 4/60 (6%)

Query: 142 GSSSSSVLTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGK--KCPKC 199
           GSS SS    ++ L+ E SC++CLE   EP    CGH+FCK C+    +   +   CP C
Sbjct: 1   GSSGSSGA--LENLQVEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCPVC 58

>1rmd_A RAG1; V(D)J recombination, antibody, MAD, ring finger, zinc binuclear cluster, zinc finger, DNA-binding protein; 2.10A {Mus musculus} SCOP: g.37.1.1 g.44.1.1 Length = 116

 Score = 66.9 bits (163), Expect = 8e-14
 Identities = 17/50 (34%), Positives = 23/50 (46%)

Query: 155 LREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLIS 204
             + +SC IC  I  +P  T+C H FC+ C+       G  CP CR    
Sbjct: 20  FVKSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCF 69

>1jm7_B BARD1, BRCA1-associated ring domain protein 1; ring finger, zinc-binding protein, heterodimer, ubiquitin ligase, antitumor; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 117

 Score = 66.1 bits (161), Expect = 1e-13
 Identities = 27/87 (31%), Positives = 37/87 (42%), Gaps = 6/87 (6%)

Query: 137 EPSNDGSSSSSVLTCIDKLREELSCAICLEICFEP-STTTCGHSFCKKCLRSAADKCGKK 195
           EP   G+ + S    +D+L + L C+ C  I  EP     C H FC  C+    D  G  
Sbjct: 2   EPDGRGAWAHS-RAALDRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVS---DCIGTG 57

Query: 196 CPKCRQLISNGRSCTVNTVLWNTIQLL 222
           CP C       +   +N  L + IQL 
Sbjct: 58  CPVCYTPAWI-QDLKINRQLDSMIQLC 83

>3hcs_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.20A {Homo sapiens} Length = 170

 Score = 66.6 bits (162), Expect = 3e-13
 Identities = 20/71 (28%), Positives = 27/71 (38%), Gaps = 1/71 (1%)

Query: 153 DKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVN 212
             L  +  C ICL    E   T CGH FCK C+  +    G KCP   +++        +
Sbjct: 13  PPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE-NQLFPD 71

Query: 213 TVLWNTIQLLF 223
                 I  L 
Sbjct: 72  NFAKREILSLM 82

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

 Score = 62.8 bits (153), Expect = 4e-13
 Identities = 13/45 (28%), Positives = 19/45 (42%), Gaps = 4/45 (8%)

Query: 157 EELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQ 201
           + L C  C      P    C H+ C  CL ++    G +CP C+ 
Sbjct: 5   QFLRCQQCQAEAKCPKLLPCLHTLCSGCLEAS----GMQCPICQA 45

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

 Score = 62.6 bits (152), Expect = 8e-13
 Identities = 17/62 (27%), Positives = 23/62 (37%), Gaps = 6/62 (9%)

Query: 140 NDGSSSSSVLTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKC 199
           + GSS  S     ++      C IC +    P  T C H FC+ C          +C  C
Sbjct: 2   SSGSSGGS-----EEEEIPFRCFICRQAFQNPVVTKCRHYFCESCALEHFRA-TPRCYIC 55

Query: 200 RQ 201
            Q
Sbjct: 56  DQ 57

>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 = 1e-12
 Identities = 13/54 (24%), Positives = 22/54 (40%), Gaps = 1/54 (1%)

Query: 152 IDKLREELSCAICLEICFEPSTTT-CGHSFCKKCLRSAADKCGKKCPKCRQLIS 204
           ++ + E   C IC+E   +      C    C  C+R    +   +CP CR  + 
Sbjct: 16  VESIAEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQ 69

>2y1n_A E3 ubiquitin-protein ligase; ligase-transferase complex, ubiquitin ring E3 ligase; HET: PTR; 2.00A {Homo sapiens} PDB: 2y1m_A* 4a4c_A* 4a4b_A* 1fbv_A* 3vgo_A 4a49_A* 2k4d_A 2ldr_A* Length = 389

 Score = 67.5 bits (164), Expect = 2e-12
 Identities = 18/61 (29%), Positives = 23/61 (37%)

Query: 152 IDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTV 211
            +       C IC E   +     CGH  C  CL S  +  G+ CP CR  I       V
Sbjct: 326 CEMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPIVV 385

Query: 212 N 212
           +
Sbjct: 386 D 386

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

 Score = 61.3 bits (149), Expect = 4e-12
 Identities = 19/85 (22%), Positives = 31/85 (36%), Gaps = 3/85 (3%)

Query: 139 SNDGSSSSSVLTCIDKLREELSCAICLEICFEP-STTTCGHSFCKKCLRSAADKCGKKCP 197
           S   S     L  +  + + L C IC E          C H++C  C+R        +CP
Sbjct: 3   SLAESRWPPGLAVMKTIDDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSY-KTQCP 61

Query: 198 KCRQLISNGRSCTVNTVLWNTIQLL 222
            C   ++       N +L   ++ L
Sbjct: 62  TCCVTVTE-PDLKNNRILDELVKSL 85

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

 Score = 59.4 bits (144), Expect = 7e-12
 Identities = 19/55 (34%), Positives = 27/55 (49%), Gaps = 8/55 (14%)

Query: 157 EELSCAICLEICFEP-------STTTCGHSFCKKCLRSAADKCGKKCPKCRQLIS 204
             +SC IC++   E         +T CGH FC +CLR +       CP CR+ I+
Sbjct: 2   AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKIN 55

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

 Score = 58.9 bits (143), Expect = 2e-11
 Identities = 24/70 (34%), Positives = 32/70 (45%), Gaps = 10/70 (14%)

Query: 142 GSSSSSVLTCIDKLREELSCAICLEICFEPSTTT-----CGHSFCKKCLRSAADKCGK-- 194
           GSS SS    +D LRE L C IC+E  F           CGH+ C++CL           
Sbjct: 1   GSSGSSGN--LDALREVLECPICMES-FTEEQLRPKLLHCGHTICRQCLEKLLASSINGV 57

Query: 195 KCPKCRQLIS 204
           +CP C ++  
Sbjct: 58  RCPFCSKITR 67

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

 Score = 58.4 bits (141), Expect = 2e-11
 Identities = 24/71 (33%), Positives = 34/71 (47%), Gaps = 10/71 (14%)

Query: 142 GSSSSSVLTCIDKLREELSCAICLEICFEPS-------TTTCGHSFCKKCLRSAADKCGK 194
           GSS SS      +    +SC IC++   E         +T CGH FC +CLR +      
Sbjct: 1   GSSGSS--GTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-AN 57

Query: 195 KCPKCRQLISN 205
            CP CR+ I++
Sbjct: 58  TCPTCRKKINH 68

>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 = 57.9 bits (140), Expect = 3e-11
 Identities = 19/55 (34%), Positives = 27/55 (49%), Gaps = 8/55 (14%)

Query: 157 EELSCAICLEICFEP-------STTTCGHSFCKKCLRSAADKCGKKCPKCRQLIS 204
             +SC IC++   E         +T CGH FC +CLR +       CP CR+ I+
Sbjct: 9   GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKIN 62

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

 Score = 57.9 bits (139), Expect = 1e-10
 Identities = 23/102 (22%), Positives = 34/102 (33%), Gaps = 12/102 (11%)

Query: 157 EELSCAICLEICFE-------PSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSC 209
             +SC IC++   E         +T CGH FC +CLR +       CP CR+ I++ R  
Sbjct: 6   GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA-NTCPTCRKKINHKRYH 64

Query: 210 TVNTVLWNTIQLLFPQEVEARKAAAALNSREAEHQSPQRGFH 251
            +          +              N R          F 
Sbjct: 65  PIYIGSGTVSCPICMDGYSEI----VQNGRLIVSTECGHVFC 102

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

 Score = 42.1 bits (98), Expect = 4e-05
 Identities = 20/71 (28%), Positives = 29/71 (40%), Gaps = 8/71 (11%)

Query: 138 PSNDGSSSSSVLTCIDKLREELSCAICLEICFEPS-------TTTCGHSFCKKCLRSAAD 190
           P+     +      I      +SC IC++   E         +T CGH FC +CLR +  
Sbjct: 52  PTCRKKINHKRYHPIYIGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK 111

Query: 191 KCGKKCPKCRQ 201
                CP CR+
Sbjct: 112 NA-NTCPTCRK 121

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

 Score = 53.2 bits (128), Expect = 2e-09
 Identities = 22/67 (32%), Positives = 34/67 (50%), Gaps = 4/67 (5%)

Query: 142 GSSSSSVLTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQ 201
           GSS SS    + +L +E  C IC++         C HSFC+KC+   +D+  + CP CR 
Sbjct: 1   GSSGSSG--RVKQLTDEEECCICMD-GRADLILPCAHSFCQKCIDKWSDRH-RNCPICRL 56

Query: 202 LISNGRS 208
            ++    
Sbjct: 57  QMTGANE 63

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

 Score = 50.1 bits (120), Expect = 2e-08
 Identities = 14/45 (31%), Positives = 19/45 (42%), Gaps = 2/45 (4%)

Query: 161 CAICLEICFEPSTTT-CGHSFCKKCLRSAADKCGKKCPKCRQLIS 204
           C ICLE     S    C H+FC  C+     +    CP C+  + 
Sbjct: 8   CPICLEDPSNYSMALPCLHAFCYVCITRWI-RQNPTCPLCKVPVE 51

>1g25_A CDK-activating kinase assembly factor MAT1; ring finger (C3HC4), metal binding protein; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 65

 Score = 44.6 bits (105), Expect = 1e-06
 Identities = 10/52 (19%), Positives = 20/52 (38%), Gaps = 5/52 (9%)

Query: 157 EELSCAICLEICF-----EPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLI 203
           ++  C  C    +     +     CGH+ C+ C+     +    CP+C   +
Sbjct: 2   DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPL 53

>2ct0_A Non-SMC element 1 homolog; ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 74

 Score = 44.9 bits (106), Expect = 1e-06
 Identities = 15/66 (22%), Positives = 23/66 (34%), Gaps = 4/66 (6%)

Query: 142 GSSSSSVLTCIDKLREELSCAICLEICFEPST-TTCGHSFCKKCLRSAADKCGK-KCPKC 199
           GSS SS         +   C IC  +  +  +  TCG      C+        + +CP C
Sbjct: 1   GSSGSSGRETYPDAVKI--CNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHC 58

Query: 200 RQLISN 205
                +
Sbjct: 59  NDYWPH 64

>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 Length = 79

 Score = 44.8 bits (106), Expect = 2e-06
 Identities = 18/59 (30%), Positives = 28/59 (47%), Gaps = 14/59 (23%)

Query: 152 IDKLREELSCAICLE----ICFEPSTTTCGHSF-CKKCLRSAADKCGKKCPKCRQLISN 205
           + KL+E + C +C E      F P    CGH+  C+ C    A +  + CP CR  + +
Sbjct: 12  LRKLKEAMLCMVCCEEEINSTFCP----CGHTVCCESC----AAQL-QSCPVCRSRVEH 61

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

 Score = 43.9 bits (103), Expect = 3e-06
 Identities = 13/56 (23%), Positives = 20/56 (35%), Gaps = 4/56 (7%)

Query: 153 DKLREELSCAICLEICFEPSTT----TCGHSFCKKCLRSAADKCGKKCPKCRQLIS 204
           D   + + C +C+E            TCG+  C+ C           CP CR+   
Sbjct: 6   DAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYP 61

>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 75

 Score = 43.2 bits (102), Expect = 6e-06
 Identities = 23/75 (30%), Positives = 33/75 (44%), Gaps = 14/75 (18%)

Query: 136 TEPSNDGSSSSSVLTCIDKLREELSCAICLE----ICFEPSTTTCGH-SFCKKCLRSAAD 190
           +  S       S    + +L+EE  C IC++    I F P    CGH   CK+C    A+
Sbjct: 3   SGSSGSLQKEISTEEQLRRLQEEKLCKICMDRNIAIVFVP----CGHLVTCKQC----AE 54

Query: 191 KCGKKCPKCRQLISN 205
               KCP C  +I+ 
Sbjct: 55  AV-DKCPMCYTVITF 68

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus} Length = 101

 Score = 42.5 bits (99), Expect = 2e-05
 Identities = 16/55 (29%), Positives = 19/55 (34%), Gaps = 1/55 (1%)

Query: 161 CAIC-LEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTV 214
           C  C L I        C H FC  C      K  K CP C   +     CT  ++
Sbjct: 4   CDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQRIEQCTRGSL 58

>2ecm_A Ring finger and CHY zinc finger domain- containing protein 1; RCHY1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2jrj_A Length = 55

 Score = 39.9 bits (94), Expect = 4e-05
 Identities = 15/48 (31%), Positives = 17/48 (35%), Gaps = 5/48 (10%)

Query: 161 CAICLEICFEPSTTT----CGHSFCKKCLRSAADKCGKKCPKCRQLIS 204
           C ICLE             CGH   + C      K G +CP C    S
Sbjct: 8   CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEML-KEGYRCPLCSGPSS 54

>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 = 43.4 bits (102), Expect = 7e-05
 Identities = 22/174 (12%), Positives = 50/174 (28%), Gaps = 14/174 (8%)

Query: 45  EEAILVASLVVEDTPDRESKQKRRFDLPFKTPPSNSRRKRRLQK-RSPVSIPIAVLDLDE 103
           +EAI           ++            +            ++      +   +  L  
Sbjct: 89  DEAIANLQRAYSLAKEQRLNFGDDIPSALRIAKKKRWNSIEERRIHQESELHSYLTRLIA 148

Query: 104 GESSGQESGKNKVQLNEEKKTKEEKSVGGDELTEPSNDGSSSSSVLTCIDKLREE----- 158
            E   +   + +      +     ++       +     +    + + +D+ R++     
Sbjct: 149 AERERELE-ECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEKRKKRDIPD 207

Query: 159 -LSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCR------QLISN 205
            L   I  E+  EP  T  G ++ +K +     + G   P  R      QLI N
Sbjct: 208 YLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPN 261

>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 68

 Score = 39.8 bits (93), Expect = 8e-05
 Identities = 17/69 (24%), Positives = 22/69 (31%), Gaps = 16/69 (23%)

Query: 142 GSSSSSVLTCIDKLREELSCAICLE----ICFEPSTTTCGH-SFCKKCLRSAADKCGKKC 196
           GSS SS +           C +C          P    C H   C  C         ++C
Sbjct: 1   GSSGSSGVE--PSEENSKDCVVCQNGTVNWVLLP----CRHTCLCDGC----VKYF-QQC 49

Query: 197 PKCRQLISN 205
           P CRQ +  
Sbjct: 50  PMCRQFVQE 58

>1v87_A Deltex protein 2; ring-H2 domain, zinc-binding domain, notch signaling, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: g.44.1.1 Length = 114

 Score = 40.6 bits (94), Expect = 1e-04
 Identities = 21/86 (24%), Positives = 26/86 (30%), Gaps = 28/86 (32%)

Query: 143 SSSSSVLTCIDKLREELS------CAICLEICFEPST------------------TTCGH 178
            SS      I K  EEL       C IC+E     S                   T C H
Sbjct: 4   GSSGEPEQVIRKYTEELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSH 63

Query: 179 SFCKKCLRSA----ADKCGKKCPKCR 200
           +F   CL +           +CP C+
Sbjct: 64  AFHLLCLLAMYCNGNKDGSLQCPSCK 89

>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 = 43.7 bits (102), Expect = 1e-04
 Identities = 62/524 (11%), Positives = 134/524 (25%), Gaps = 170/524 (32%)

Query: 3   SEEPKQSLRDQ------KEPNPVAG----------NGQST-----ESLFSPRFKSVAAMA 41
            + PK  L  +         + V+G            +       E +    +       
Sbjct: 39  QDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINY------- 91

Query: 42  GWDEEAILVASLVVE------DTPDRESKQKRRFDLPFKTPPSN-SRRKRRLQKRSPVSI 94
            +     L++ +  E       T     ++ R ++        N SR +  L+ R     
Sbjct: 92  KF-----LMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQ---- 142

Query: 95  PIAVLDLDEGES------SGQESGK----NKVQLNEEKKTKEEK-----SVGGDELTEPS 139
             A+L+L   ++       G  SGK      V L+ + + K +      ++         
Sbjct: 143 --ALLELRPAKNVLIDGVLG--SGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCN----- 193

Query: 140 NDGSSSSSVLTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKC--- 196
               S  +VL  + KL  ++            +     HS   +  R    K  + C   
Sbjct: 194 ----SPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLV 249

Query: 197 --------------PKCRQLISNGRSCTVNTVLWNTIQLLFPQEVEARKAAAALNSREAE 242
                           C+ L++     T    + + +       +     +  L   E +
Sbjct: 250 LLNVQNAKAWNAFNLSCKILLT-----TRFKQVTDFLSAATTTHISLDHHSMTLTPDEVK 304

Query: 243 HQSPQRGFHN--NVRTRSMRSSATS------SGDATTRRREIPNQDEYAASTLRFERENF 294
                       + R + +     +      S  A    R+     +          +  
Sbjct: 305 SL-----LLKYLDCRPQDLPREVLTTNPRRLSIIAE-SIRDGLATWDN---WKHVNCDKL 355

Query: 295 ARLISRSVDSLEAEDQNPQ-------RRSTR-PSTV-----------------------S 323
             +I  S++ LE  +             S   P+ +                       S
Sbjct: 356 TTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYS 415

Query: 324 --TRDRSTRRRGIPSQDEDAALAIRLERENLT----RLLSRRASTRRRDTRN---ENEDD 374
              +        IP       L ++++ EN       ++      +  D+ +      D 
Sbjct: 416 LVEKQPKESTISIP----SIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQ 471

Query: 375 AV-------LALRLQREEFME--------AFMGTREQHSGSSLS 403
                    L      E             F+  + +H  ++ +
Sbjct: 472 YFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWN 515

>1wim_A KIAA0161 protein; ring finger domain, UBCM4-interacting protein 4, UIP4, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 94

 Score = 39.5 bits (92), Expect = 2e-04
 Identities = 18/81 (22%), Positives = 26/81 (32%), Gaps = 19/81 (23%)

Query: 161 CAICLE---ICFEPSTTTCGHSFCKKCLR---SAADKCGK----KCPKCRQLISNGRSCT 210
           C +CL    +    +   C   FC  CL+       K G      CP          +C 
Sbjct: 8   CKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDA--------ACP 59

Query: 211 VNTVLW-NTIQLLFPQEVEAR 230
               L  N I+ +   E+  R
Sbjct: 60  KQGHLQENEIECMVAAEIMQR 80

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

 Score = 37.8 bits (88), Expect = 4e-04
 Identities = 23/70 (32%), Positives = 30/70 (42%), Gaps = 16/70 (22%)

Query: 142 GSSSSSVLTCIDKLREELSCAICLEICFEPS----TTTCGHSFCKKC----LRSAADKCG 193
           GSS SS    + +L     CA+CLE  F+P        C H+F +KC    L        
Sbjct: 1   GSSGSS--GKVKELNLHELCAVCLED-FKPRDELGICPCKHAFHRKCLIKWLEVR----- 52

Query: 194 KKCPKCRQLI 203
           K CP C   +
Sbjct: 53  KVCPLCNMPV 62

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

 Score = 40.6 bits (94), Expect = 7e-04
 Identities = 25/171 (14%), Positives = 46/171 (26%), Gaps = 36/171 (21%)

Query: 75  TPPSNSRRKRRLQKRSPVSIPIAVLD------LDEGESSGQESG---------KNKVQLN 119
           +P S+  + R    +  V + + + D          +  G                   +
Sbjct: 213 SPISSKHKTRLFPLKDRVYLKLTIADPFACIASMSLKIIGPTEEVARLRHVLSDGLSNWD 272

Query: 120 EEKKTKEEKSVGGDELTEPSNDGSSSSSVLTCIDKLREELSCAICLEICFEPSTTT---- 175
            E    +      D    P  D S    +    +   EEL C IC     +         
Sbjct: 273 SEMNIHKNLLRMFDLCYFPMPDWSDGPKLDEEDN---EELRCNICFAYRLDGGEVPLVSC 329

Query: 176 ----CGHSFCKKCL----------RSAADKCGKKCPKCRQLISNGRSCTVN 212
               C       CL          ++  +    +CP C+  +S   +  +N
Sbjct: 330 DNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLSTSFAALLN 380

>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 Length = 345

 Score = 40.3 bits (92), Expect = 7e-04
 Identities = 25/96 (26%), Positives = 41/96 (42%), Gaps = 14/96 (14%)

Query: 115 KVQLNEEKKTKEEKSVGGDELTEPSNDGSSSSSVLTCIDKLREELSCAICLE----ICFE 170
           K  L E   T  +       +     +  S  S+   + +L+EE +C +C++    + F 
Sbjct: 252 KNSLKEIDSTLYKNLFVDKNMKYIPTEDVSGLSLEEQLRRLQEERTCKVCMDKEVSVVFI 311

Query: 171 PSTTTCGH-SFCKKCLRSAADKCGKKCPKCRQLISN 205
           P    CGH   C++C    A    +KCP CR +I  
Sbjct: 312 P----CGHLVVCQEC----APSL-RKCPICRGIIKG 338

>2vje_A E3 ubiquitin-protein ligase MDM2; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_A* 2hdp_A Length = 64

 Score = 36.7 bits (85), Expect = 8e-04
 Identities = 16/56 (28%), Positives = 18/56 (32%), Gaps = 8/56 (14%)

Query: 155 LREELSCAICLE----ICFEPSTTTCGHSF-CKKCLRSAADKCGKKCPKCRQLISN 205
           L     C IC       C        GH   C  C +    +  K CP CRQ I  
Sbjct: 5   LNAIEPCVICQGRPKNGCIVHGK--TGHLMACFTCAKKLKKRN-KPCPVCRQPIQM 57

>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 = 36.6 bits (85), Expect = 9e-04
 Identities = 9/45 (20%), Positives = 14/45 (31%), Gaps = 2/45 (4%)

Query: 158 ELSCAICLEICFEP-STTTCGHSFCKKCLRSAADKCGKKCPKCRQ 201
            + CAI  ++   P  +      F K  L       G   P   +
Sbjct: 3   HMLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTG-NDPITNE 46

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	426
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.61
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.55
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.55
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.55
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.54
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.53
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.52
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.51
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.5
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.49
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.47
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.46
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	99.46
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.45
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.45
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.45
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.45
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.4
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.4
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.39
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.39
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.38
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.38
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.37
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	99.37
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.36
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.36
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	99.34
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.34
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.33
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.31
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.24
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.24
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.24
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.21
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.18
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.17
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.16
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.12
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.11
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.1
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.09
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.09
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.09
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	99.08
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.08
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.07
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.06
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	99.06
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.04
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.03
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	99.02
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	98.97
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.94
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.9
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.86
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	98.79
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.76
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.73
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.71
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.7
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.67
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	98.64
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.62
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.61
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	98.39
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	98.34
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	97.83
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.74
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	97.44
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	97.36
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	96.91
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	95.97
3nw0_A	238	Non-structural maintenance of chromosomes element	95.64
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	92.46
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	91.64
4fo9_A	360	E3 SUMO-protein ligase PIAS2; E3 ligase, pinit dom	91.25
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	89.72

>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=99.61  E-value=2.1e-16  Score=136.12  Aligned_cols=81  Identities=31%  Similarity=0.595  Sum_probs=71.8

Q ss_pred             cchhhhhhhcccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHHHHChhH
Q 044354          147 SVLTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLFPQE  226 (426)
Q Consensus       147 ~~~~~l~~l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l~p~E  226 (426)
                      .....+..+.+.+.|+||++++.+|++++|||+||..||..|+......||.||..+.....+.+|..|.++++.|+|.+
T Consensus        41 ~~~~~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~n~~l~~~i~~~~p~~  120 (124)
T 3fl2_A           41 PFQLFLSKVEETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGRSYAMQVNQPLQTVLNQLFPGY  120 (124)
T ss_dssp             HHHHHHHHHHHHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTTCCCCCCHHHHHHHHHHSTTT
T ss_pred             hHHHHHHhCccCCCCCcCChHHcCcEEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCCCCCCCCCHHHHHHHHHHcccc
Confidence            33455677888999999999999999999999999999999998656799999999987667889999999999999876


Q ss_pred             H
Q 044354          227 V  227 (426)
Q Consensus       227 ~  227 (426)
                      .
T Consensus       121 ~  121 (124)
T 3fl2_A          121 G  121 (124)
T ss_dssp             T
T ss_pred             c
Confidence            4

>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=99.55  E-value=2.4e-15  Score=127.87  Aligned_cols=97  Identities=23%  Similarity=0.462  Sum_probs=78.1

Q ss_pred             hhhcccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHHHHChhHHHHHHH
Q 044354          153 DKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLFPQEVEARKA  232 (426)
Q Consensus       153 ~~l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l~p~E~~~r~~  232 (426)
                      ..+.+.+.|+||++++.+|++++|||+||..||..|+......||+|+..+........+..+.+++..+          
T Consensus        18 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~l~~~i~~l----------   87 (116)
T 1rmd_A           18 AHFVKSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESPVKSFLNILNSL----------   87 (116)
T ss_dssp             HHHHHHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCBCCCHHHHHHHHHC----------
T ss_pred             HhccCCCCCCCCCcHhcCcEEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCHhhccccHHHHHHHHHHh----------
Confidence            4466779999999999999999999999999999999876778999999988654444455555555443          


Q ss_pred             HHHhcccccccCccccccccccCchhHHHHhhhccc
Q 044354          233 AAALNSREAEHQSPQRGFHNNVRTRSMRSSATSSGD  268 (426)
Q Consensus       233 ~~~~~~~~~~~~~pc~gC~~~i~~~~lR~H~~~c~~  268 (426)
                               ....+..||+..+....+..|+..|..
T Consensus        88 ---------~v~C~~~gC~~~~~~~~~~~H~~~C~~  114 (116)
T 1rmd_A           88 ---------MVKCPAQDCNEEVSLEKYNHHVSSHKE  114 (116)
T ss_dssp             ---------EEECCSTTCCCEEEHHHHHHHHHTSCC
T ss_pred             ---------cCCCCCCCCcchhhHhHHHHHHHHhhc
Confidence                     122445699999999999999999864

>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=99.55  E-value=1.9e-15  Score=135.28  Aligned_cols=77  Identities=30%  Similarity=0.647  Sum_probs=69.2

Q ss_pred             hhhhhcccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHHHHChhHH
Q 044354          151 CIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLFPQEV  227 (426)
Q Consensus       151 ~l~~l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l~p~E~  227 (426)
                      .+..+.+.+.|+||++++.+|++++|||+||..||..|+......||+|+..+.....+.+|..|.++++.|++.+.
T Consensus        71 ~~~~l~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~l~~n~~l~~lv~~~~p~~~  147 (150)
T 1z6u_A           71 FLKKLEQSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNYIMIPNEILQTLLDLFFPGYS  147 (150)
T ss_dssp             HHHHHHHHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTTCCCCBCHHHHHHHHHHSTTTT
T ss_pred             HHHhCccCCEeecCChhhcCCEEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCCCCCCCCCHHHHHHHHHHhhHhh
Confidence            55667788999999999999999999999999999999987566899999999976578899999999999988654

>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=99.55  E-value=1.8e-15  Score=129.51  Aligned_cols=99  Identities=24%  Similarity=0.454  Sum_probs=79.7

Q ss_pred             hhhhhcccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHHHHChhHHHHH
Q 044354          151 CIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLFPQEVEAR  230 (426)
Q Consensus       151 ~l~~l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l~p~E~~~r  230 (426)
                      ++..+.+.+.|+||++++.+|++++|||+||..||..|+......||+|+..+... .+..+..+..+|..+        
T Consensus        11 ~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~-~~~~~~~l~~~i~~l--------   81 (118)
T 3hct_A           11 FDPPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLEN-QLFPDNFAKREILSL--------   81 (118)
T ss_dssp             BSSCCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG-GCEECHHHHHHHHTS--------
T ss_pred             hccCCCCCCCCCcCChhhcCeEECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCHH-hcccCHHHHHHHccc--------
Confidence            45567788999999999999999999999999999999987666999999998853 344566666655544        


Q ss_pred             HHHHHhcccccccCccccccccccCchhHHHHhhhcccc
Q 044354          231 KAAAALNSREAEHQSPQRGFHNNVRTRSMRSSATSSGDA  269 (426)
Q Consensus       231 ~~~~~~~~~~~~~~~pc~gC~~~i~~~~lR~H~~~c~~~  269 (426)
                                 ...++..||...+....+..|+..|...
T Consensus        82 -----------~v~C~n~gC~~~~~~~~l~~H~~~c~~~  109 (118)
T 3hct_A           82 -----------MVKCPNEGCLHKMELRHLEDHQAHCEFA  109 (118)
T ss_dssp             -----------EEECSSTTCCCEEEGGGSGGGTSSSCC-
T ss_pred             -----------eeECCCCCCCCEEeeHHHHHHHHHchhh
Confidence                       1123347999999999999999999855

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

Probab=99.54  E-value=3.4e-15  Score=121.67  Aligned_cols=69  Identities=28%  Similarity=0.637  Sum_probs=61.5

Q ss_pred             hhcccccccccccCCCCceecc-CCCcchhhhHHhhhhhc-CCCCccccccccCCCCcchhHHHHHHHHHH
Q 044354          154 KLREELSCAICLEICFEPSTTT-CGHSFCKKCLRSAADKC-GKKCPKCRQLISNGRSCTVNTVLWNTIQLL  222 (426)
Q Consensus       154 ~l~~~l~CpIC~~~l~~Pv~lp-CgH~FC~~CI~~~l~~~-~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l  222 (426)
                      .+.+.+.|+||+++|.+|++++ |||+||..||..|+... ...||+|+..+.....+..|..|.++++.|
T Consensus         9 ~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~n~~l~~~i~~~   79 (92)
T 3ztg_A            9 PIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALIANKFLRQAVNNF   79 (92)
T ss_dssp             CCCTTTEETTTTEECSSCEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSCCTTSCEECHHHHHHHHHH
T ss_pred             cCCcCCCCCCCChhhcCceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCCCccccCcCHHHHHHHHHH
Confidence            3567899999999999999999 99999999999999753 368999999986666788999999999988

>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=99.53  E-value=2.1e-15  Score=128.11  Aligned_cols=81  Identities=38%  Similarity=0.790  Sum_probs=68.9

Q ss_pred             hcccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccC------CCCcchhHHHHHHHHHHChhHHH
Q 044354          155 LREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISN------GRSCTVNTVLWNTIQLLFPQEVE  228 (426)
Q Consensus       155 l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~------~~~l~~N~~L~~lI~~l~p~E~~  228 (426)
                      +.+++.|+||++++.+|++++|||+||..||..|+......||+|+..+..      ...+.+|..|..++..+++.+..
T Consensus        12 ~~~~~~C~iC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~n~~l~~~i~~~~p~~~~   91 (115)
T 3l11_A           12 SLSECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRRNSLVNVELWTIIQKHYPRECK   91 (115)
T ss_dssp             CHHHHBCTTTCSBCSSCEECTTSCEECHHHHCCCCCTTTSBCTTTCCBCHHHHHHHHHTTCCBCHHHHHHHHHHSHHHHH
T ss_pred             CCCCCCCccCCcccCceeEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccCccccccccccchhhHHHHHHHHHHCCHHHH
Confidence            456789999999999999999999999999999998767899999999863      24567899999999999999887


Q ss_pred             HHHHHHH
Q 044354          229 ARKAAAA  235 (426)
Q Consensus       229 ~r~~~~~  235 (426)
                      .+....+
T Consensus        92 ~r~~~~e   98 (115)
T 3l11_A           92 LRASGQE   98 (115)
T ss_dssp             HHHHC--
T ss_pred             HHHhhhh
Confidence            7655443

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

Probab=99.52  E-value=3.8e-15  Score=117.77  Aligned_cols=68  Identities=26%  Similarity=0.445  Sum_probs=60.6

Q ss_pred             hcccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHHHHC
Q 044354          155 LREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLF  223 (426)
Q Consensus       155 l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l~  223 (426)
                      +.+.+.|+||+++|.+|++++|||+||..||..|+..+...||+|+..+.. ..+..|..|.++|+.|.
T Consensus         5 ~~~~~~C~IC~~~~~~Pv~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~-~~l~~n~~l~~~i~~~~   72 (78)
T 1t1h_A            5 FPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLH-AGLTPNYVLKSLIALWC   72 (78)
T ss_dssp             CSSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSS-CCCEECTTTHHHHHHHH
T ss_pred             CcccCCCCCccccccCCEEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCCh-hhCccCHHHHHHHHHHH
Confidence            456799999999999999999999999999999998767899999999874 45778999999999883

>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=99.51  E-value=4.1e-15  Score=131.85  Aligned_cols=100  Identities=19%  Similarity=0.320  Sum_probs=76.6

Q ss_pred             hhhhhcccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccCCC--------CcchhHHHHHHHHHH
Q 044354          151 CIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGR--------SCTVNTVLWNTIQLL  222 (426)
Q Consensus       151 ~l~~l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~--------~l~~N~~L~~lI~~l  222 (426)
                      +...+.+.+.|+||++++.+|++++|||+||..||..|+......||+|+..+....        .+..+..+...|..+
T Consensus        24 ~~~~l~~~~~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~l~~~~~~~d~~~~~~i~~L  103 (141)
T 3knv_A           24 LGTKLEAKYLCSACRNVLRRPFQAQCGHRYCSFCLASILSSGPQNCAACVHEGIYEEGISILESSSAFPDNAARREVESL  103 (141)
T ss_dssp             TGGGCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHGGGSCEECHHHHHTTCCCTTTTEECGGGCEECHHHHHHHHTS
T ss_pred             hhccCCcCcCCCCCChhhcCcEECCCCCccCHHHHHHHHhcCCCCCCCCCCcccccccccccchhhhcccHHHHHHHccc
Confidence            346778899999999999999999999999999999999875668999999764221        122333333333322


Q ss_pred             ChhHHHHHHHHHHhcccccccCccccccccccCchhHHH-Hhhhcccc
Q 044354          223 FPQEVEARKAAAALNSREAEHQSPQRGFHNNVRTRSMRS-SATSSGDA  269 (426)
Q Consensus       223 ~p~E~~~r~~~~~~~~~~~~~~~pc~gC~~~i~~~~lR~-H~~~c~~~  269 (426)
                                         ...++..||...+.+.+++. |+..|...
T Consensus       104 -------------------~v~Cpn~GC~~~~~l~~l~~~H~~~~~~~  132 (141)
T 3knv_A          104 -------------------PAVCPSDGCTWKGTLKEYESCHEGRCPLM  132 (141)
T ss_dssp             -------------------EEECCSTTCCCEEEHHHHHHHTTTCCHHH
T ss_pred             -------------------ccccCCCCCCCEeEHHHHHHHHHHHhHHH
Confidence                               22344479999999999997 99999988

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

Probab=99.50  E-value=9.6e-15  Score=118.67  Aligned_cols=68  Identities=13%  Similarity=0.115  Sum_probs=61.4

Q ss_pred             hhcccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHHHHC
Q 044354          154 KLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLF  223 (426)
Q Consensus       154 ~l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l~  223 (426)
                      .+.+.|.||||+++|.+||+++|||+||..||..|+.. ...||+|+.++.. ..+..|..|.++|+.|.
T Consensus        10 ~~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~-~~~cP~~~~~l~~-~~l~pn~~L~~~i~~~~   77 (85)
T 2kr4_A           10 DAPDEFRDPLMDTLMTDPVRLPSGTVMDRSIILRHLLN-SPTDPFNRQMLTE-SMLEPVPELKEQIQAWM   77 (85)
T ss_dssp             TCCTTTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHH-CSBCTTTCCBCCG-GGCEECHHHHHHHHHHH
T ss_pred             cCchheECcccCchhcCCeECCCCCEECHHHHHHHHhc-CCCCCCCcCCCCh-HhcchHHHHHHHHHHHH
Confidence            35678999999999999999999999999999999986 6799999999885 46888999999999984

>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=99.49  E-value=3.3e-14  Score=119.54  Aligned_cols=76  Identities=28%  Similarity=0.568  Sum_probs=66.3

Q ss_pred             hhhhhcccccccccccCCCCceec-cCCCcchhhhHHhhhhhcCCCCccccccccCCC---CcchhHHHHHHHHHHChhH
Q 044354          151 CIDKLREELSCAICLEICFEPSTT-TCGHSFCKKCLRSAADKCGKKCPKCRQLISNGR---SCTVNTVLWNTIQLLFPQE  226 (426)
Q Consensus       151 ~l~~l~~~l~CpIC~~~l~~Pv~l-pCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~---~l~~N~~L~~lI~~l~p~E  226 (426)
                      .++.+.+.+.|+||++++.+|+++ +|||+||..||..|+.. ...||.|+..+....   .+..|..|.++++.+++..
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~~~l~~n~~l~~~i~~~~~~~   86 (108)
T 2ckl_A            8 KITELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLET-SKYCPICDVQVHKTRPLLNIRSDKTLQDIVYKLVPGL   86 (108)
T ss_dssp             EHHHHGGGTBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHTS-CSBCTTTCCBSCSSCGGGGEEECHHHHHHHHHHSTTH
T ss_pred             chhccCCcCCCccCChHHhCcCEeCCCCChhhHHHHHHHHHh-CCcCcCCCccccccCcccccCcCHHHHHHHHHHhhhH
Confidence            355678889999999999999997 99999999999999987 589999999988642   5678999999999998864


Q ss_pred             H
Q 044354          227 V  227 (426)
Q Consensus       227 ~  227 (426)
                      .
T Consensus        87 ~   87 (108)
T 2ckl_A           87 F   87 (108)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.47  E-value=3.3e-14  Score=118.69  Aligned_cols=69  Identities=14%  Similarity=0.097  Sum_probs=61.9

Q ss_pred             hhhcccccccccccCCCCceeccCC-CcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHHHHC
Q 044354          153 DKLREELSCAICLEICFEPSTTTCG-HSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLF  223 (426)
Q Consensus       153 ~~l~~~l~CpIC~~~l~~Pv~lpCg-H~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l~  223 (426)
                      ..+.++|.||||+++|.+||+++|| |+||..||..|+.. ...||+|+.++.. ..+.+|..|.++|+.|.
T Consensus        17 ~~~p~~~~CpI~~~~m~dPV~~~cG~htf~r~cI~~~l~~-~~~cP~~~~~l~~-~~L~pn~~Lk~~I~~~~   86 (98)
T 1wgm_A           17 ADACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLS-DQTDPFNRSPLTM-DQIRPNTELKEKIQRWL   86 (98)
T ss_dssp             CSCCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTT-SCBCTTTCSBCCT-TTSEECHHHHHHHHHHH
T ss_pred             hcCcHhcCCcCccccccCCeECCCCCeEECHHHHHHHHHh-CCCCCCCCCCCCh-hhceEcHHHHHHHHHHH
Confidence            3456789999999999999999999 99999999999986 6789999999985 46788999999999983

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

Probab=99.46  E-value=2.9e-14  Score=125.27  Aligned_cols=69  Identities=33%  Similarity=0.677  Sum_probs=54.3

Q ss_pred             hhhcccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccCCC-CcchhHHHHHHHHHH
Q 044354          153 DKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGR-SCTVNTVLWNTIQLL  222 (426)
Q Consensus       153 ~~l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~-~l~~N~~L~~lI~~l  222 (426)
                      +.+.+++.|+||++.+.+|++++|||+||..||..|+.. ...||+||+.+.... .+.+|..+..++..+
T Consensus        48 ~~~~~~~~C~iC~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~~~~~~~i~~~~~~l  117 (138)
T 4ayc_A           48 DVLENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKR-KIECPICRKDIKSKTYSLVLDNCINKMVNNL  117 (138)
T ss_dssp             HHHHHHSBCTTTCSBCSSEEEETTSCEEEHHHHHHHTTT-CSBCTTTCCBCCCEEECHHHHHHHHHHHTTS
T ss_pred             HhccccCCCcccCcccCCceECCCCCCccHHHHHHHHHc-CCcCCCCCCcCCCCCCccchhHHHHHHHHHh
Confidence            345677899999999999999999999999999999976 678999999987532 233444455555443

>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=99.46  E-value=3e-14  Score=128.89  Aligned_cols=114  Identities=18%  Similarity=0.274  Sum_probs=79.9

Q ss_pred             hhhhhhcccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHHHHChhHH--
Q 044354          150 TCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLFPQEV--  227 (426)
Q Consensus       150 ~~l~~l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l~p~E~--  227 (426)
                      .+++.+.+.+.|+||++++.+|++++|||+||..||..|+......||.|+..+.... +..+..+..+|..+...-.  
T Consensus        10 ~~~~~~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~-~~~~~~~~~~i~~l~v~C~n~   88 (170)
T 3hcs_A           10 EFDPPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQ-LFPDNFAKREILSLMVKCPNE   88 (170)
T ss_dssp             EESSCCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGG-CEECHHHHHHHHTSEEECCST
T ss_pred             hhccCCCCCCCCCCCChhhcCcEECCCCCHHHHHHHHHHHHhCCCCCCCCccCcchhh-hhhhHHHHHHHhhcccCCCCC
Confidence            3566788899999999999999999999999999999999876679999999988543 4456667676665421100  


Q ss_pred             -------HHHHHHHHhcccccccCccccccccccCchhHHHHhhhc
Q 044354          228 -------EARKAAAALNSREAEHQSPQRGFHNNVRTRSMRSSATSS  266 (426)
Q Consensus       228 -------~~r~~~~~~~~~~~~~~~pc~gC~~~i~~~~lR~H~~~c  266 (426)
                             ......+......  ...+|.+|+..+....+..|....
T Consensus        89 GC~~~~~~~~l~~H~~~C~~--~~v~C~~C~~~~~r~~l~~H~~~~  132 (170)
T 3hcs_A           89 GCLHKMELRHLEDHQAHCEF--ALMDCPQCQRPFQKFHINIHILKD  132 (170)
T ss_dssp             TCCCEEEGGGHHHHHTTCTT--SEEECTTTCCEEEGGGHHHHHHHT
T ss_pred             CCCceecHhHHHHHHhcCCc--eeeECCCCChHHHHHHHHHHhhhh
Confidence                   0111122212222  234566888888888888888533

>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=99.45  E-value=4.5e-14  Score=127.25  Aligned_cols=75  Identities=32%  Similarity=0.651  Sum_probs=64.0

Q ss_pred             hhhhcccccccccccCCCCceec-cCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHHHHChhH
Q 044354          152 IDKLREELSCAICLEICFEPSTT-TCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLFPQE  226 (426)
Q Consensus       152 l~~l~~~l~CpIC~~~l~~Pv~l-pCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l~p~E  226 (426)
                      ...+.+.+.|+||++++.+|+++ +|||+||..||..|+......||+|+..+.....+.+|..|.++|..+++..
T Consensus        48 ~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~l~~~~~l~~~i~~~~~~~  123 (165)
T 2ckl_B           48 PRSLHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFDALISKIYPSR  123 (165)
T ss_dssp             --CCHHHHBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCSGGGEEECHHHHHHHHHHC---
T ss_pred             hhhCCCCCCCcccChHhhCcCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCCcccCCcCHHHHHHHHHHHcch
Confidence            34466779999999999999997 9999999999999998767889999999987777889999999999997753

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

Probab=99.45  E-value=6e-14  Score=116.01  Aligned_cols=72  Identities=24%  Similarity=0.575  Sum_probs=63.3

Q ss_pred             hhhhhhhcccccccccccCCCCceec-cCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHHHH
Q 044354          149 LTCIDKLREELSCAICLEICFEPSTT-TCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLL  222 (426)
Q Consensus       149 ~~~l~~l~~~l~CpIC~~~l~~Pv~l-pCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l  222 (426)
                      ...++.+.+.+.|+||++.+.+|+++ +|||+||..||..|+.. ...||.|+..+.. ..+..|..|.++++.+
T Consensus        13 ~~~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~-~~l~~n~~l~~~i~~~   85 (99)
T 2y43_A           13 LAVMKTIDDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSY-KTQCPTCCVTVTE-PDLKNNRILDELVKSL   85 (99)
T ss_dssp             GGGGHHHHHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTT-CCBCTTTCCBCCG-GGCEECHHHHHHHHHH
T ss_pred             hhHHHhCCCCCCcccCChhhCCcCEECCCCCHhhHHHHHHHHHC-CCCCCCCCCcCCh-hhCCcCHHHHHHHHHH
Confidence            34566677889999999999999998 89999999999999986 6799999999884 4578899999999988

>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=6.6e-14  Score=117.32  Aligned_cols=68  Identities=13%  Similarity=0.091  Sum_probs=61.5

Q ss_pred             hhcccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHHHHC
Q 044354          154 KLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLF  223 (426)
Q Consensus       154 ~l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l~  223 (426)
                      .+.+.+.||||+++|.+||+++|||+||..||..|+.. ...||+|+.++.. ..+.+|..|.++|+.|.
T Consensus        25 ~~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~-~~~cP~~~~~l~~-~~L~pn~~Lk~~I~~~~   92 (100)
T 2kre_A           25 DAPDEFRDPLMDTLMTDPVRLPSGTIMDRSIILRHLLN-SPTDPFNRQTLTE-SMLEPVPELKEQIQAWM   92 (100)
T ss_dssp             SCSTTTBCTTTCSBCSSEEEETTTEEEEHHHHHHHTTS-CSBCSSSCCBCCT-TSSEECHHHHHHHHHHH
T ss_pred             cCcHhhCCcCccCcccCCeECCCCCEEchHHHHHHHHc-CCCCCCCCCCCCh-hhceECHHHHHHHHHHH
Confidence            35678999999999999999999999999999999985 6799999999985 56888999999999984

>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=99.45  E-value=3.3e-14  Score=118.38  Aligned_cols=75  Identities=21%  Similarity=0.405  Sum_probs=61.4

Q ss_pred             cchhhhhhhcccccccccccCCCCcee-ccCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHHHH
Q 044354          147 SVLTCIDKLREELSCAICLEICFEPST-TTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLL  222 (426)
Q Consensus       147 ~~~~~l~~l~~~l~CpIC~~~l~~Pv~-lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l  222 (426)
                      ........+.+.+.|+||++++.+|++ ++|||+||..||..|+......||+||..+.. ..+..+..+.++++.+
T Consensus        11 ~~~~~~~~l~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~-~~l~~~~~~~~i~~~~   86 (100)
T 3lrq_A           11 MDEQSVESIAEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQL-RELVNCRWAEEVTQQL   86 (100)
T ss_dssp             HHHHHHHHHHHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCG-GGCEECTTHHHHHHHH
T ss_pred             CcccccccCCCCCCCccCCccccCccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCH-HHhHhhHHHHHHHHHH
Confidence            334556678889999999999999999 99999999999999998855799999999874 4455566666666554

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

Probab=99.40  E-value=1.4e-13  Score=108.24  Aligned_cols=58  Identities=31%  Similarity=0.710  Sum_probs=48.8

Q ss_pred             hhhhcccccccccccCCCCceecc-CCCcchhhhHHhhhhhcC-CCCccccccccCCCCc
Q 044354          152 IDKLREELSCAICLEICFEPSTTT-CGHSFCKKCLRSAADKCG-KKCPKCRQLISNGRSC  209 (426)
Q Consensus       152 l~~l~~~l~CpIC~~~l~~Pv~lp-CgH~FC~~CI~~~l~~~~-~~CP~CR~~i~~~~~l  209 (426)
                      ++.+.+.+.|+||+++|.+|++++ |||+||..||..|+.... ..||+||..+...+.+
T Consensus         9 ~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~   68 (74)
T 2yur_A            9 DDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDAL   68 (74)
T ss_dssp             CCCSCGGGSCSSSCCCCTTCEECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCTTTT
T ss_pred             cccCCCCCCCcCCChHHhCCeEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCcccc
Confidence            344667899999999999999999 999999999999998633 6899999986654443

>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=99.40  E-value=2.2e-13  Score=116.21  Aligned_cols=70  Identities=30%  Similarity=0.575  Sum_probs=62.5

Q ss_pred             hhhhhhhcccccccccccCCCCceec-cCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHHHH
Q 044354          149 LTCIDKLREELSCAICLEICFEPSTT-TCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLL  222 (426)
Q Consensus       149 ~~~l~~l~~~l~CpIC~~~l~~Pv~l-pCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l  222 (426)
                      ...+..+.+.+.|+||++++.+|+++ +|||+||..||..|+.   ..||+|+..+. ...+..|..|.+++..+
T Consensus        13 ~~~~~~l~~~~~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~---~~CP~Cr~~~~-~~~~~~n~~l~~l~~~~   83 (117)
T 1jm7_B           13 RAALDRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG---TGCPVCYTPAW-IQDLKINRQLDSMIQLC   83 (117)
T ss_dssp             HHHHHHHHHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT---TBCSSSCCBCS-CSSCCCCHHHHHHHHHH
T ss_pred             HHHHHhchhCCCCCCCChHhhCccEeCCCCCHHHHHHHHHHhc---CCCcCCCCcCc-cccccccHHHHHHHHHH
Confidence            44567788899999999999999999 9999999999999986   68999999986 45678899999999987

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

Probab=99.39  E-value=1.4e-13  Score=109.73  Aligned_cols=63  Identities=24%  Similarity=0.452  Sum_probs=52.6

Q ss_pred             hcccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHH
Q 044354          155 LREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQ  220 (426)
Q Consensus       155 l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~  220 (426)
                      ....+.|+||++.+.+|++++|||+||..||..|+.. ...||+|+..+.  ..+..|..|...+.
T Consensus        12 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~--~~~~~~~~l~~~~~   74 (81)
T 2csy_A           12 EEIPFRCFICRQAFQNPVVTKCRHYFCESCALEHFRA-TPRCYICDQPTG--GIFNPAKELMAKLQ   74 (81)
T ss_dssp             CCCCSBCSSSCSBCCSEEECTTSCEEEHHHHHHHHHH-CSBCSSSCCBCC--SCCEECHHHHHHHS
T ss_pred             CCCCCCCcCCCchhcCeeEccCCCHhHHHHHHHHHHC-CCcCCCcCcccc--ccCCcHHHHHHHHH
Confidence            4466899999999999999999999999999999976 779999999987  35566655554443

>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=99.39  E-value=1.4e-13  Score=131.89  Aligned_cols=69  Identities=19%  Similarity=0.304  Sum_probs=61.0

Q ss_pred             hcccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHHHHCh
Q 044354          155 LREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLFP  224 (426)
Q Consensus       155 l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l~p  224 (426)
                      +.+.+.||||+++|.+||+++|||+||..||..|+..++..||+|+.++.. ..+.+|..|.++|+.|+.
T Consensus       205 ~~~~~~c~i~~~~~~dPv~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~-~~l~~n~~l~~~i~~~~~  273 (281)
T 2c2l_A          205 IPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQ-EQLIPNLAMKEVIDAFIS  273 (281)
T ss_dssp             CCSTTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCG-GGCEECHHHHHHHHHHHT
T ss_pred             CCcccCCcCcCCHhcCCeECCCCCEECHHHHHHHHHHCCCCCcCCCCCCch-hcCcccHHHHHHHHHHHH
Confidence            346799999999999999999999999999999998756669999999974 467889999999998843

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

Probab=99.38  E-value=4.7e-14  Score=112.10  Aligned_cols=64  Identities=31%  Similarity=0.714  Sum_probs=52.2

Q ss_pred             hhhhcccccccccccCCCCceeccCCCcchhhhHHhhhhhc-----CCCCccccccccCCCCcchhHHHH
Q 044354          152 IDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKC-----GKKCPKCRQLISNGRSCTVNTVLW  216 (426)
Q Consensus       152 l~~l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~-----~~~CP~CR~~i~~~~~l~~N~~L~  216 (426)
                      ++.+.+.+.|+||++.+.+|++++|||+||..||..|+...     ...||.|+..+.. ..+..|..|.
T Consensus        13 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~-~~~~~n~~l~   81 (85)
T 2ecw_A           13 LEMIKEEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPF-GNLKPNLHVA   81 (85)
T ss_dssp             CCCCCTTTSCTTTCSCCSSCEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCT-TCCEECSCCC
T ss_pred             HHhCccCCCCcCCChhhCcceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCH-HhCCcCHHHH
Confidence            34566789999999999999999999999999999999773     5689999999874 3445554443

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

Probab=99.38  E-value=1.3e-14  Score=114.42  Aligned_cols=63  Identities=33%  Similarity=0.733  Sum_probs=51.6

Q ss_pred             hhhcccccccccccCCCCceeccCCCcchhhhHHhhhhhc------CCCCccccccccCCCCcchhHHHH
Q 044354          153 DKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKC------GKKCPKCRQLISNGRSCTVNTVLW  216 (426)
Q Consensus       153 ~~l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~------~~~CP~CR~~i~~~~~l~~N~~L~  216 (426)
                      +.+.+.+.|+||++.+.+|++++|||+||..||..|+...      ...||.|+..+.. ..+..|..|.
T Consensus         7 ~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~-~~l~~n~~l~   75 (79)
T 2egp_A            7 GNVQEEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSF-EHLQANQHLA   75 (79)
T ss_dssp             CCCCCCCEETTTTEECSSCCCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCS-SGGGTCSSSC
T ss_pred             hhcccCCCCcCCCcccCCeeECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCH-hhCCcCHHHH
Confidence            3466789999999999999999999999999999998763      5689999999874 3445554443

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

Probab=99.37  E-value=1.8e-13  Score=104.91  Aligned_cols=55  Identities=25%  Similarity=0.756  Sum_probs=48.3

Q ss_pred             hhhhcccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccCC
Q 044354          152 IDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNG  206 (426)
Q Consensus       152 l~~l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~  206 (426)
                      +..+.+.+.|+||++.+.+|++++|||+||..||..|+......||+|+..+...
T Consensus         9 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   63 (66)
T 2ecy_A            9 VKTVEDKYKCEKCHLVLCSPKQTECGHRFCESCMAALLSSSSPKCTACQESIVKD   63 (66)
T ss_dssp             CCSCCCCEECTTTCCEESSCCCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCTT
T ss_pred             hhcCCcCCCCCCCChHhcCeeECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCChh
Confidence            3456678999999999999999999999999999999975567899999998753

>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=99.37  E-value=3.1e-13  Score=111.52  Aligned_cols=66  Identities=20%  Similarity=0.428  Sum_probs=57.5

Q ss_pred             cccccccccccCCCCceecc-CCCcchhhhHHhhhhhc-----CCCCcc--cccc-ccCCCCcchhHHHHHHHHHH
Q 044354          156 REELSCAICLEICFEPSTTT-CGHSFCKKCLRSAADKC-----GKKCPK--CRQL-ISNGRSCTVNTVLWNTIQLL  222 (426)
Q Consensus       156 ~~~l~CpIC~~~l~~Pv~lp-CgH~FC~~CI~~~l~~~-----~~~CP~--CR~~-i~~~~~l~~N~~L~~lI~~l  222 (426)
                      .+.|.||||+++|.+||+++ |||+||..||..|+...     ...||+  |+.. +. ...+.+|..|..+|+.|
T Consensus         5 ~~~~~CPI~~~~~~dPV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~-~~~L~pn~~L~~~I~~~   79 (94)
T 2yu4_A            5 SSGFTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIR-KSDLIQDEALRRAIENH   79 (94)
T ss_dssp             SSCCBCTTTCSBCSSEEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBC-GGGEEECHHHHHHHHHH
T ss_pred             CcEeECcCcCchhcCCEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccC-HhhCcCCHHHHHHHHHH
Confidence            35699999999999999996 99999999999999763     368999  9876 54 45688899999999988

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

Probab=99.36  E-value=3.9e-13  Score=104.94  Aligned_cols=56  Identities=27%  Similarity=0.695  Sum_probs=49.0

Q ss_pred             hhhhhcccccccccccCCCCceec-cCCCcchhhhHHhhhhhcCCCCccccccccCCC
Q 044354          151 CIDKLREELSCAICLEICFEPSTT-TCGHSFCKKCLRSAADKCGKKCPKCRQLISNGR  207 (426)
Q Consensus       151 ~l~~l~~~l~CpIC~~~l~~Pv~l-pCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~  207 (426)
                      .++.+.+.+.|+||++.+.+|+++ +|||+||..||..|+.. ...||+|+..+...+
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~~~   64 (72)
T 2djb_A            8 NLSELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYY-SNRCPKCNIVVHQTQ   64 (72)
T ss_dssp             CCCCCCGGGSCTTTSSCCSSCEECSSSCCEECHHHHHHHHHH-CSSCTTTCCCCCSSC
T ss_pred             hHhhcCCCCCCCCCChHHHCcCEECCCCCHHHHHHHHHHHHc-CCcCCCcCcccCccc
Confidence            344567789999999999999997 99999999999999977 789999999988543

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

Probab=99.36  E-value=7e-14  Score=111.09  Aligned_cols=63  Identities=35%  Similarity=0.789  Sum_probs=51.8

Q ss_pred             hhhhcccccccccccCCCCceeccCCCcchhhhHHhhhhh-----cCCCCccccccccCCCCcchhHHH
Q 044354          152 IDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADK-----CGKKCPKCRQLISNGRSCTVNTVL  215 (426)
Q Consensus       152 l~~l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~-----~~~~CP~CR~~i~~~~~l~~N~~L  215 (426)
                      +..+.+.+.|+||++.+.+|++++|||+||..||..|+..     ....||.|+..+.. ..+..|..|
T Consensus        13 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~-~~~~~n~~l   80 (85)
T 2ecv_A           13 LVNVKEEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQP-ENIRPNRHV   80 (85)
T ss_dssp             CCCCCCCCCCTTTCSCCSSCBCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCS-SSCCCSCCC
T ss_pred             HHHccCCCCCCCCCcccCCceeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCH-HhcCccHHH
Confidence            4456778999999999999999999999999999999876     35789999999885 334445443

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

Probab=99.34  E-value=5.9e-13  Score=122.71  Aligned_cols=68  Identities=19%  Similarity=0.296  Sum_probs=60.8

Q ss_pred             hcccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHHHHC
Q 044354          155 LREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLF  223 (426)
Q Consensus       155 l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l~  223 (426)
                      +.+.|.||||+++|.+||+++|||+||..||..|+...+..||+|+.++.. ..+.+|..|.++|+.|.
T Consensus       103 ip~~f~CPI~~elm~DPV~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~-~~L~pN~~Lk~~Ie~~~  170 (179)
T 2f42_A          103 IPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQ-DQLIPNLAMKEVIDAFI  170 (179)
T ss_dssp             CCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG-GGCEECHHHHHHHHHHH
T ss_pred             CcHhhcccCccccCCCCeECCCCCEECHHHHHHHHHhCCCCCCCCcCCCCh-hhCcchHHHHHHHHHHH
Confidence            457799999999999999999999999999999998755579999999875 46888999999999883

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

Probab=99.34  E-value=5.9e-13  Score=103.50  Aligned_cols=54  Identities=41%  Similarity=0.936  Sum_probs=47.5

Q ss_pred             hhhhcccccccccccCCCCceeccCCCcchhhhHHhhhhh--cCCCCccccccccC
Q 044354          152 IDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADK--CGKKCPKCRQLISN  205 (426)
Q Consensus       152 l~~l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~--~~~~CP~CR~~i~~  205 (426)
                      ++.+.+.+.|+||++.+.+|++++|||+||..||..|+..  ....||+|+..+..
T Consensus        14 ~~~~~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   69 (73)
T 2ysl_A           14 VNKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRK   69 (73)
T ss_dssp             CCCCCCCCBCTTTCSBCSSEEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCC
T ss_pred             HHhCccCCEeccCCcccCCeEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCc
Confidence            4456778999999999999999999999999999999963  35689999998874

>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=99.33  E-value=3.4e-13  Score=113.13  Aligned_cols=70  Identities=34%  Similarity=0.710  Sum_probs=56.6

Q ss_pred             hhhhcccccccccccCCCCceeccCCCcchhhhHHhhhhhcC--CCCccccccccCCCCcchhHHHHHHHHHH
Q 044354          152 IDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCG--KKCPKCRQLISNGRSCTVNTVLWNTIQLL  222 (426)
Q Consensus       152 l~~l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~--~~CP~CR~~i~~~~~l~~N~~L~~lI~~l  222 (426)
                      +..+.+.+.|+||++.+.+|++++|||+||..||..|+....  ..||+|+..+.. ..+..|..+.++++.+
T Consensus        15 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~-~~~~~~~~l~~~~~~~   86 (112)
T 1jm7_A           15 INAMQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK-RSLQESTRFSQLVEEL   86 (112)
T ss_dssp             HHHHHHHTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCT-TTCBCCCSSSHHHHHH
T ss_pred             HHhccCCCCCcccChhhcCeEECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCH-hhcCccHHHHHHHHHH
Confidence            445667799999999999999999999999999999997532  589999999885 3455566666666665

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

Probab=99.31  E-value=1e-12  Score=99.63  Aligned_cols=49  Identities=45%  Similarity=0.996  Sum_probs=43.3

Q ss_pred             hhhhhcccccccccccCCCCceeccCCCcchhhhHHhhhhh--cCCCCccc
Q 044354          151 CIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADK--CGKKCPKC  199 (426)
Q Consensus       151 ~l~~l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~--~~~~CP~C  199 (426)
                      .++.+.+.+.|+||++.+.+|++++|||+||..||..|+..  ....||+|
T Consensus        13 ~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           13 FVNKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCCCCCBCTTTCSBCSSCEECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             HHHhCccCCCCCcCCchhCCeEEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            34557788999999999999999999999999999999975  35689998

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

Probab=99.24  E-value=3.1e-12  Score=94.95  Aligned_cols=48  Identities=40%  Similarity=0.915  Sum_probs=41.9

Q ss_pred             hhhhcccccccccccCCCCceeccCCCcchhhhHHhhhhh--cCCCCccc
Q 044354          152 IDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADK--CGKKCPKC  199 (426)
Q Consensus       152 l~~l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~--~~~~CP~C  199 (426)
                      ++.+.+.+.|+||++.+.+|++++|||+||..||..|+..  ....||+|
T Consensus         9 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A            9 LENLQVEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             SSCSCCCCBCSSSCCBCSSCCCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             hhccccCCCCccCCcccCccEeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            3446678999999999999999999999999999999754  46789998

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

Probab=99.24  E-value=2.1e-12  Score=100.49  Aligned_cols=49  Identities=41%  Similarity=0.904  Sum_probs=44.3

Q ss_pred             cccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccC
Q 044354          156 REELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISN  205 (426)
Q Consensus       156 ~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~  205 (426)
                      .+.+.|+||++.+.+|++++|||.||..||..|+.. ...||+||..+..
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~   61 (71)
T 2d8t_A           13 LTVPECAICLQTCVHPVSLPCKHVFCYLCVKGASWL-GKRCALCRQEIPE   61 (71)
T ss_dssp             SSCCBCSSSSSBCSSEEEETTTEEEEHHHHHHCTTC-SSBCSSSCCBCCH
T ss_pred             CCCCCCccCCcccCCCEEccCCCHHHHHHHHHHHHC-CCcCcCcCchhCH
Confidence            356899999999999999999999999999999976 5799999998763

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

Probab=99.24  E-value=3.4e-12  Score=102.35  Aligned_cols=53  Identities=40%  Similarity=0.926  Sum_probs=46.6

Q ss_pred             hhhcccccccccccCCCC----ceeccCCCcchhhhHHhhhhhc--CCCCccccccccC
Q 044354          153 DKLREELSCAICLEICFE----PSTTTCGHSFCKKCLRSAADKC--GKKCPKCRQLISN  205 (426)
Q Consensus       153 ~~l~~~l~CpIC~~~l~~----Pv~lpCgH~FC~~CI~~~l~~~--~~~CP~CR~~i~~  205 (426)
                      +.+.+.+.|+||++.+.+    |+.++|||+||..||..|+...  ...||+|+..+..
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   68 (88)
T 2ct2_A           10 DALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRI   68 (88)
T ss_dssp             CCCCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCC
T ss_pred             hhccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccc
Confidence            345677999999999998    9999999999999999999874  4789999998775

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

Probab=99.21  E-value=2.8e-12  Score=98.12  Aligned_cols=49  Identities=39%  Similarity=0.922  Sum_probs=44.2

Q ss_pred             hcccccccccccCCCCc-------eeccCCCcchhhhHHhhhhhcCCCCcccccccc
Q 044354          155 LREELSCAICLEICFEP-------STTTCGHSFCKKCLRSAADKCGKKCPKCRQLIS  204 (426)
Q Consensus       155 l~~~l~CpIC~~~l~~P-------v~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~  204 (426)
                      +.+.+.|+||++.+.+|       +.++|||.||..||..|+.. ...||+||..+.
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~   67 (69)
T 2ea6_A           12 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKIN   67 (69)
T ss_dssp             TTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHH-CSSCTTTCCCCC
T ss_pred             CCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHc-CCCCCCCCCccC
Confidence            45678999999999887       88999999999999999987 779999999876

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

Probab=99.18  E-value=5.4e-12  Score=97.34  Aligned_cols=51  Identities=39%  Similarity=0.933  Sum_probs=45.1

Q ss_pred             cccccccccccCCCCc-------eeccCCCcchhhhHHhhhhhcCCCCccccccccCCC
Q 044354          156 REELSCAICLEICFEP-------STTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGR  207 (426)
Q Consensus       156 ~~~l~CpIC~~~l~~P-------v~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~  207 (426)
                      .+.+.|+||++.+.+|       +.++|||+||..||..|+.. ...||+||..+....
T Consensus         8 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~~   65 (71)
T 3ng2_A            8 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINHKR   65 (71)
T ss_dssp             TTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHH-CSBCTTTCCBCCCCS
T ss_pred             CCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHc-CCCCCCCCCccChhh
Confidence            3568999999999888       88999999999999999987 679999999988543

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

Probab=99.17  E-value=8.7e-12  Score=95.22  Aligned_cols=50  Identities=22%  Similarity=0.686  Sum_probs=43.4

Q ss_pred             cccccccccc-CCCCc----eeccCCCcchhhhHHhhhhhcCCCCccccccccCC
Q 044354          157 EELSCAICLE-ICFEP----STTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNG  206 (426)
Q Consensus       157 ~~l~CpIC~~-~l~~P----v~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~  206 (426)
                      +++.|+||++ ++.+|    ++++|||+||..||..|+......||+|+..+...
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   56 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKS   56 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSC
T ss_pred             CCCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCccccc
Confidence            3578999999 89888    46899999999999999876567899999998753

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

Probab=99.16  E-value=6.4e-12  Score=97.08  Aligned_cols=53  Identities=32%  Similarity=0.847  Sum_probs=46.2

Q ss_pred             hhhhcccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccCC
Q 044354          152 IDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNG  206 (426)
Q Consensus       152 l~~l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~  206 (426)
                      +..+.+.+.|+||++.+.+ ++++|||.||..||..|+.. ...||+||..+...
T Consensus         9 ~~~~~~~~~C~IC~~~~~~-~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~   61 (70)
T 2ecn_A            9 VKQLTDEEECCICMDGRAD-LILPCAHSFCQKCIDKWSDR-HRNCPICRLQMTGA   61 (70)
T ss_dssp             CCCCCCCCCCSSSCCSCCS-EEETTTEEECHHHHHHSSCC-CSSCHHHHHCTTCC
T ss_pred             hhcCCCCCCCeeCCcCccC-cccCCCCcccHHHHHHHHHC-cCcCCCcCCcccCC
Confidence            3445677899999999999 88999999999999999974 78999999998854

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

Probab=99.12  E-value=1.2e-11  Score=93.15  Aligned_cols=49  Identities=39%  Similarity=0.933  Sum_probs=43.8

Q ss_pred             ccccccccccCCCCc-------eeccCCCcchhhhHHhhhhhcCCCCccccccccCC
Q 044354          157 EELSCAICLEICFEP-------STTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNG  206 (426)
Q Consensus       157 ~~l~CpIC~~~l~~P-------v~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~  206 (426)
                      +.+.|+||++.+.+|       +.++|||.||..||..|+.. ...||+|+..+...
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~   57 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINHK   57 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHH-CSBCTTTCCBCTTT
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHc-CCCCCCCCccCCcc
Confidence            357899999999887       78999999999999999987 77999999998854

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

Probab=99.11  E-value=3.5e-11  Score=94.84  Aligned_cols=51  Identities=24%  Similarity=0.589  Sum_probs=43.6

Q ss_pred             hcccccccccccCCCCc---eeccCCCcchhhhHHhhhhhcCCCCccccccccCC
Q 044354          155 LREELSCAICLEICFEP---STTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNG  206 (426)
Q Consensus       155 l~~~l~CpIC~~~l~~P---v~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~  206 (426)
                      +...+.|+||++.|..+   +.++|||.||..||..|+.. ...||+||..+...
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~   65 (78)
T 2ect_A           12 VGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQ-HDSCPVCRKSLTGQ   65 (78)
T ss_dssp             SSSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTT-TCSCTTTCCCCCCS
T ss_pred             CCCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHc-CCcCcCcCCccCCc
Confidence            44668999999999866   44799999999999999976 57999999998754

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

Probab=99.10  E-value=4.2e-11  Score=88.07  Aligned_cols=48  Identities=27%  Similarity=0.671  Sum_probs=42.0

Q ss_pred             cccccccccccCCCC---ceecc-CCCcchhhhHHhhhhhcCCCCcccccccc
Q 044354          156 REELSCAICLEICFE---PSTTT-CGHSFCKKCLRSAADKCGKKCPKCRQLIS  204 (426)
Q Consensus       156 ~~~l~CpIC~~~l~~---Pv~lp-CgH~FC~~CI~~~l~~~~~~CP~CR~~i~  204 (426)
                      ++...|+||++.+.+   ++.++ |||.||..||..|+.. ...||+||..+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~~   54 (55)
T 1iym_A            3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGS-HSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTT-CCSCSSSCCCSC
T ss_pred             CCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHc-CCcCcCCCCEeE
Confidence            456889999999987   77787 9999999999999977 678999998764

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

Probab=99.09  E-value=3.9e-11  Score=93.60  Aligned_cols=52  Identities=31%  Similarity=0.557  Sum_probs=44.0

Q ss_pred             hhcccccccccccCCCCcee---ccCCCcchhhhHHhhhhhcCCCCccccccccCC
Q 044354          154 KLREELSCAICLEICFEPST---TTCGHSFCKKCLRSAADKCGKKCPKCRQLISNG  206 (426)
Q Consensus       154 ~l~~~l~CpIC~~~l~~Pv~---lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~  206 (426)
                      .+.....|+||++.+..+..   ++|+|.||..||..|+.. ...||+||..+...
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~-~~~CP~Cr~~~~~~   65 (74)
T 2ep4_A           11 ELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEV-RKVCPLCNMPVLQL   65 (74)
T ss_dssp             CCCCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHH-CSBCTTTCCBCSSC
T ss_pred             cCCCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHc-CCcCCCcCcccccc
Confidence            34567899999999987754   499999999999999987 56999999998753

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

Probab=99.09  E-value=4.1e-11  Score=95.99  Aligned_cols=53  Identities=21%  Similarity=0.567  Sum_probs=44.0

Q ss_pred             hcccccccccccCCC--Cceecc--CCCcchhhhHHhhhhhcCCCCccccccccCCC
Q 044354          155 LREELSCAICLEICF--EPSTTT--CGHSFCKKCLRSAADKCGKKCPKCRQLISNGR  207 (426)
Q Consensus       155 l~~~l~CpIC~~~l~--~Pv~lp--CgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~  207 (426)
                      +++++.||||++.+.  ++++++  |||.||..|+..++......||.||+.+....
T Consensus         8 ~~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~   64 (78)
T 1e4u_A            8 KEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDP   64 (78)
T ss_dssp             CCCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCS
T ss_pred             cccCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCCc
Confidence            567799999999884  455555  99999999999998766789999999988643

>2ecm_A Ring finger and CHY zinc finger domain- containing protein 1; RCHY1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2jrj_A

Probab=99.09  E-value=4.8e-11  Score=87.63  Aligned_cols=47  Identities=30%  Similarity=0.684  Sum_probs=41.3

Q ss_pred             ccccccccccCCCC----ceeccCCCcchhhhHHhhhhhcCCCCcccccccc
Q 044354          157 EELSCAICLEICFE----PSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLIS  204 (426)
Q Consensus       157 ~~l~CpIC~~~l~~----Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~  204 (426)
                      +...|+||++.+.+    ++.++|||.||..||..|+.. ...||+|+..+.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~   54 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKE-GYRCPLCSGPSS   54 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHH-TCCCTTSCCSSC
T ss_pred             CCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHc-CCcCCCCCCcCC
Confidence            34789999999866    777999999999999999988 489999998775

>4ic3_A E3 ubiquitin-protein ligase XIAP; ring domain, zinc-finger, E3 ligase; 1.78A {Homo sapiens} PDB: 4ic2_A

Probab=99.08  E-value=3.8e-11  Score=94.65  Aligned_cols=53  Identities=32%  Similarity=0.722  Sum_probs=46.4

Q ss_pred             chhhhhhhcccccccccccCCCCceeccCCCc-chhhhHHhhhhhcCCCCccccccccC
Q 044354          148 VLTCIDKLREELSCAICLEICFEPSTTTCGHS-FCKKCLRSAADKCGKKCPKCRQLISN  205 (426)
Q Consensus       148 ~~~~l~~l~~~l~CpIC~~~l~~Pv~lpCgH~-FC~~CI~~~l~~~~~~CP~CR~~i~~  205 (426)
                      ....+..+.+.+.|+||++.+.+|+++||||. ||..|+..|     ..||+||..+..
T Consensus        14 ~~~~~~~~~~~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~-----~~CP~Cr~~i~~   67 (74)
T 4ic3_A           14 TEEQLRRLQEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAV-----DKCPMCYTVITF   67 (74)
T ss_dssp             HHHHHHHHHHHTBCTTTSSSBCCEEEETTCCBCCCHHHHTTC-----SBCTTTCCBCSE
T ss_pred             HHHHHhcCccCCCCCCCCCCCCCEEEcCCCChhHHHHhhhcC-----ccCCCcCcCccC
Confidence            34445667788999999999999999999999 999999988     689999998874

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

Probab=99.08  E-value=5e-11  Score=91.39  Aligned_cols=48  Identities=27%  Similarity=0.606  Sum_probs=42.6

Q ss_pred             ccccccccccCCCCc-eeccCCCcchhhhHHhhhhhcCCCCccccccccC
Q 044354          157 EELSCAICLEICFEP-STTTCGHSFCKKCLRSAADKCGKKCPKCRQLISN  205 (426)
Q Consensus       157 ~~l~CpIC~~~l~~P-v~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~  205 (426)
                      ....|+||++.+.+| +.++|||.||..|+..|+.. ...||+|+..+..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~C~H~fc~~Ci~~~~~~-~~~CP~Cr~~~~~   52 (68)
T 1chc_A            4 VAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQ-NPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHH-SCSTTTTCCCCCC
T ss_pred             CCCCCeeCCccccCCcEecCCCCeeHHHHHHHHHhC-cCcCcCCChhhHh
Confidence            457899999999997 67899999999999999987 6799999998764

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

Probab=99.07  E-value=6.8e-11  Score=91.01  Aligned_cols=49  Identities=35%  Similarity=0.617  Sum_probs=41.9

Q ss_pred             cccccccccccCCC---CceeccCCCcchhhhHHhhhhhcCCCCccccccccC
Q 044354          156 REELSCAICLEICF---EPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISN  205 (426)
Q Consensus       156 ~~~l~CpIC~~~l~---~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~  205 (426)
                      .....|+||++.+.   .++.++|||.||..||..|+.. ...||+||..+..
T Consensus        12 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~-~~~CP~Cr~~~~~   63 (69)
T 2kiz_A           12 DTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLIT-NKKCPICRVDIEA   63 (69)
T ss_dssp             TCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHH-CSBCTTTCSBSCS
T ss_pred             CCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHc-CCCCcCcCccccC
Confidence            35578999999884   4577999999999999999987 6689999998874

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

Probab=99.06  E-value=3.3e-11  Score=89.97  Aligned_cols=45  Identities=29%  Similarity=0.686  Sum_probs=40.4

Q ss_pred             ccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccC
Q 044354          157 EELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISN  205 (426)
Q Consensus       157 ~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~  205 (426)
                      +.+.|+||++.+.+|++++|||+||..||..|    ...||+|++.+..
T Consensus         5 ~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~----~~~CP~Cr~~~~~   49 (56)
T 1bor_A            5 QFLRCQQCQAEAKCPKLLPCLHTLCSGCLEAS----GMQCPICQAPWPL   49 (56)
T ss_dssp             CCSSCSSSCSSCBCCSCSTTSCCSBTTTCSSS----SSSCSSCCSSSSC
T ss_pred             cCCCceEeCCccCCeEEcCCCCcccHHHHccC----CCCCCcCCcEeec
Confidence            56899999999999999999999999999873    5689999998774

>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=99.06  E-value=6.1e-11  Score=114.91  Aligned_cols=69  Identities=20%  Similarity=0.432  Sum_probs=59.7

Q ss_pred             hhhcccccccccccCCCCceec-cCCCcchhhhHHhhhhhc-CCCCcc--ccccccCCCCcchhHHHHHHHHHH
Q 044354          153 DKLREELSCAICLEICFEPSTT-TCGHSFCKKCLRSAADKC-GKKCPK--CRQLISNGRSCTVNTVLWNTIQLL  222 (426)
Q Consensus       153 ~~l~~~l~CpIC~~~l~~Pv~l-pCgH~FC~~CI~~~l~~~-~~~CP~--CR~~i~~~~~l~~N~~L~~lI~~l  222 (426)
                      ......+.||||+++|.+||+. .|||+||..||..|+... ...||+  |++.+. ...+.+|..|..+++.+
T Consensus       176 ~~~~~el~CPIcl~~f~DPVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~-~~dL~pN~~L~~lve~~  248 (267)
T 3htk_C          176 EGGKIELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVS-MRDFVRDPIMELRCKIA  248 (267)
T ss_dssp             CSSBCCSBCTTTSSBCSSEEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEEC-GGGEEECHHHHHHHHHH
T ss_pred             cCCceeeECcCccCcccCCeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCc-hhhCCcCHHHHHHHHHH
Confidence            3456789999999999999985 999999999999999763 458999  999887 45688899999999886

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

Probab=99.04  E-value=7.3e-11  Score=92.53  Aligned_cols=49  Identities=24%  Similarity=0.558  Sum_probs=43.1

Q ss_pred             cccccccccccCCCCc---eeccCCCcchhhhHHhhhhhcCCCCccccccccC
Q 044354          156 REELSCAICLEICFEP---STTTCGHSFCKKCLRSAADKCGKKCPKCRQLISN  205 (426)
Q Consensus       156 ~~~l~CpIC~~~l~~P---v~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~  205 (426)
                      .+...|+||++.+..+   +.++|+|.||..||..|+.. ...||+||..+..
T Consensus        21 ~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~-~~~CP~Cr~~~~~   72 (75)
T 1x4j_A           21 SEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKA-NRTCPICRADSGP   72 (75)
T ss_dssp             SSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHH-CSSCTTTCCCCCC
T ss_pred             CCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHc-CCcCcCcCCcCCC
Confidence            4567899999999877   66899999999999999987 6799999998764

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

Probab=99.03  E-value=7.4e-11  Score=96.38  Aligned_cols=48  Identities=29%  Similarity=0.693  Sum_probs=42.3

Q ss_pred             ccccccccccCCCC---ceeccCCCcchhhhHHhhhhhcCCCCccccccccC
Q 044354          157 EELSCAICLEICFE---PSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISN  205 (426)
Q Consensus       157 ~~l~CpIC~~~l~~---Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~  205 (426)
                      +...|+||++.|..   ++.++|||.||..||..|+.. ...||+||..+..
T Consensus        39 ~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           39 QEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQK-SGTCPVCRCMFPP   89 (91)
T ss_dssp             SCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTT-TCBCTTTCCBSSC
T ss_pred             CCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHc-CCcCcCcCccCCC
Confidence            55789999999887   777999999999999999976 6799999998763

>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.02  E-value=1.7e-10  Score=90.93  Aligned_cols=52  Identities=33%  Similarity=0.714  Sum_probs=45.0

Q ss_pred             hhhhhhhcccccccccccCCCCceeccCCCc-chhhhHHhhhhhcCCCCccccccccC
Q 044354          149 LTCIDKLREELSCAICLEICFEPSTTTCGHS-FCKKCLRSAADKCGKKCPKCRQLISN  205 (426)
Q Consensus       149 ~~~l~~l~~~l~CpIC~~~l~~Pv~lpCgH~-FC~~CI~~~l~~~~~~CP~CR~~i~~  205 (426)
                      ...+..+.+.+.|+||++.+.+|+++||||. ||..|+..     ...||+||..+..
T Consensus        16 ~~~~~~~~~~~~C~IC~~~~~~~~~~pCgH~~~C~~C~~~-----~~~CP~Cr~~i~~   68 (75)
T 2ecg_A           16 EEQLRRLQEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEA-----VDKCPMCYTVITF   68 (75)
T ss_dssp             HHHHHHHHHHHSCSSSCSSCCCBCCSSSCCCCBCHHHHHH-----CSBCTTTCCBCCC
T ss_pred             HHHHHcCCCCCCCCcCCCCCCCEEEecCCCHHHHHHHhhC-----CCCCccCCceecC
Confidence            4455667778999999999999999999999 99999964     3689999999875

>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=98.97  E-value=2.7e-10  Score=96.01  Aligned_cols=48  Identities=31%  Similarity=0.654  Sum_probs=40.5

Q ss_pred             cccccccccCCCCce------------------eccCCCcchhhhHHhhhhh----cCCCCccccccccC
Q 044354          158 ELSCAICLEICFEPS------------------TTTCGHSFCKKCLRSAADK----CGKKCPKCRQLISN  205 (426)
Q Consensus       158 ~l~CpIC~~~l~~Pv------------------~lpCgH~FC~~CI~~~l~~----~~~~CP~CR~~i~~  205 (426)
                      +..|+||++.|..|+                  .++|+|.||..||..|+..    ....||+||..+..
T Consensus        25 ~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~   94 (114)
T 1v87_A           25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSS
T ss_pred             CCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCC
Confidence            358999999997764                  6899999999999999953    25689999998864

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

Probab=98.94  E-value=1.9e-10  Score=98.23  Aligned_cols=50  Identities=40%  Similarity=0.953  Sum_probs=44.7

Q ss_pred             ccccccccccCCCCc-------eeccCCCcchhhhHHhhhhhcCCCCccccccccCCC
Q 044354          157 EELSCAICLEICFEP-------STTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGR  207 (426)
Q Consensus       157 ~~l~CpIC~~~l~~P-------v~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~  207 (426)
                      +.+.|+||++.+.+|       +.++|||+||..||..|+.. ...||+|++.+....
T Consensus         6 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~~   62 (133)
T 4ap4_A            6 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINHKR   62 (133)
T ss_dssp             CSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTT-CSBCTTTCCBCTTTC
T ss_pred             CCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHh-CCCCCCCCCcCcccc
Confidence            568999999999998       88999999999999999987 669999999987543

>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=98.90  E-value=2.6e-10  Score=91.28  Aligned_cols=52  Identities=29%  Similarity=0.753  Sum_probs=45.2

Q ss_pred             hhhhhhhcccccccccccCCCCceeccCCCc-chhhhHHhhhhhcCCCCccccccccC
Q 044354          149 LTCIDKLREELSCAICLEICFEPSTTTCGHS-FCKKCLRSAADKCGKKCPKCRQLISN  205 (426)
Q Consensus       149 ~~~l~~l~~~l~CpIC~~~l~~Pv~lpCgH~-FC~~CI~~~l~~~~~~CP~CR~~i~~  205 (426)
                      ...++.+.+...|+||++.+.+++.+||||. ||..|+..|.     .||+||..+..
T Consensus         9 ~~~~~~l~~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~~~-----~CP~Cr~~i~~   61 (79)
T 2yho_A            9 QEKLRKLKEAMLCMVCCEEEINSTFCPCGHTVCCESCAAQLQ-----SCPVCRSRVEH   61 (79)
T ss_dssp             HHHHHHHHHHTBCTTTSSSBCCEEEETTCBCCBCHHHHTTCS-----BCTTTCCBCCE
T ss_pred             HHHHHcCCCCCEeEEeCcccCcEEEECCCCHHHHHHHHHhcC-----cCCCCCchhhC
Confidence            3445667778899999999999999999999 9999998763     89999998875

>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=98.86  E-value=7.5e-10  Score=112.92  Aligned_cols=52  Identities=33%  Similarity=0.602  Sum_probs=45.9

Q ss_pred             hcccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccCC
Q 044354          155 LREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNG  206 (426)
Q Consensus       155 l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~  206 (426)
                      ......|+||++.+.+|+.++|||.||..|+..|+......||+||..+...
T Consensus       329 ~~~~~~C~ICle~~~~pv~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~  380 (389)
T 2y1n_A          329 GSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGT  380 (389)
T ss_dssp             TTSSSBCTTTSSSBCCEEEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCEE
T ss_pred             cCCCCCCCccCcCCCCeEEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCCc
Confidence            3445799999999999999999999999999999985578999999988753

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

Probab=98.79  E-value=2.5e-09  Score=85.52  Aligned_cols=48  Identities=29%  Similarity=0.565  Sum_probs=39.4

Q ss_pred             ccccccccccCCCC--------------ceec-cCCCcchhhhHHhhhhhcCCCCccccccccC
Q 044354          157 EELSCAICLEICFE--------------PSTT-TCGHSFCKKCLRSAADKCGKKCPKCRQLISN  205 (426)
Q Consensus       157 ~~l~CpIC~~~l~~--------------Pv~l-pCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~  205 (426)
                      ++..|+||++.|.+              ++.+ +|+|.||..||..|+.. ...||+||..+..
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~~~~   76 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQ-NNRCPLCQQDWVV   76 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTT-CCBCTTTCCBCCE
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHh-CCCCCCcCCCcch
Confidence            34679999998866              4455 49999999999999987 5799999998763

>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=98.76  E-value=3.1e-09  Score=81.48  Aligned_cols=48  Identities=29%  Similarity=0.552  Sum_probs=42.6

Q ss_pred             ccccccccccCCCCceec--cCCCc-chhhhHHhhhhhcCCCCccccccccC
Q 044354          157 EELSCAICLEICFEPSTT--TCGHS-FCKKCLRSAADKCGKKCPKCRQLISN  205 (426)
Q Consensus       157 ~~l~CpIC~~~l~~Pv~l--pCgH~-FC~~CI~~~l~~~~~~CP~CR~~i~~  205 (426)
                      ++..|+||++.+.+++.+  ||||. ||..|+..|+.. ...||+||..+..
T Consensus         7 ~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~-~~~CPiCR~~i~~   57 (64)
T 2vje_A            7 AIEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKR-NKPCPVCRQPIQM   57 (64)
T ss_dssp             GGSCCTTTSSSCSCEEEEETTEEEEEECHHHHHHHHHT-TCCCTTTCCCCCE
T ss_pred             CcCCCCcCCCCCCCEEEECCCCCChhhHHHHHHHHHHc-CCcCCCcCcchhc
Confidence            457899999999999987  99999 899999999875 6789999998863

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

Probab=98.73  E-value=1.8e-09  Score=92.04  Aligned_cols=50  Identities=38%  Similarity=0.920  Sum_probs=44.4

Q ss_pred             cccccccccccCCCCc-------eeccCCCcchhhhHHhhhhhcCCCCccccccccCC
Q 044354          156 REELSCAICLEICFEP-------STTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNG  206 (426)
Q Consensus       156 ~~~l~CpIC~~~l~~P-------v~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~  206 (426)
                      .+.+.|+||++.+.++       +.++|||.||..||..|+.. ...||+||..+...
T Consensus        70 ~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~  126 (133)
T 4ap4_A           70 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINHK  126 (133)
T ss_dssp             SSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHH-CSBCTTTCCBCCGG
T ss_pred             CCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHc-CCCCCCCCCcCChh
Confidence            4568899999999887       88899999999999999987 67999999998753

>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=98.71  E-value=5.2e-09  Score=80.02  Aligned_cols=48  Identities=25%  Similarity=0.537  Sum_probs=42.2

Q ss_pred             ccccccccccCCCCceec--cCCCc-chhhhHHhhhhhcCCCCccccccccC
Q 044354          157 EELSCAICLEICFEPSTT--TCGHS-FCKKCLRSAADKCGKKCPKCRQLISN  205 (426)
Q Consensus       157 ~~l~CpIC~~~l~~Pv~l--pCgH~-FC~~CI~~~l~~~~~~CP~CR~~i~~  205 (426)
                      ....|+||++...+++++  ||||. ||..|+..|... ...||+||.++..
T Consensus         6 ~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~-~~~CPiCR~~i~~   56 (63)
T 2vje_B            6 LLKPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKA-GASCPICKKEIQL   56 (63)
T ss_dssp             GGSBCTTTSSSBSCEEEEETTEEEEEECHHHHHHHHHT-TCBCTTTCCBCCE
T ss_pred             cCCCCcccCCcCCCeEEEecCCCCHhHHHHHHHHHHHh-CCcCCCcCchhhc
Confidence            346899999999999887  99998 999999998866 5799999998863

>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=98.70  E-value=6e-09  Score=104.94  Aligned_cols=54  Identities=33%  Similarity=0.795  Sum_probs=47.7

Q ss_pred             cchhhhhhhcccccccccccCCCCceeccCCCc-chhhhHHhhhhhcCCCCccccccccC
Q 044354          147 SVLTCIDKLREELSCAICLEICFEPSTTTCGHS-FCKKCLRSAADKCGKKCPKCRQLISN  205 (426)
Q Consensus       147 ~~~~~l~~l~~~l~CpIC~~~l~~Pv~lpCgH~-FC~~CI~~~l~~~~~~CP~CR~~i~~  205 (426)
                      .....+..+.+.+.|+||++.+.+|+.+||||. ||..|+..|     ..||+||..+..
T Consensus       284 ~~~~~~~~l~~~~~C~IC~~~~~~~v~lpCgH~~fC~~C~~~~-----~~CP~CR~~i~~  338 (345)
T 3t6p_A          284 SLEEQLRRLQEERTCKVCMDKEVSVVFIPCGHLVVCQECAPSL-----RKCPICRGIIKG  338 (345)
T ss_dssp             CHHHHHHHHHTTCBCTTTSSSBCCEEEETTCCEEECTTTGGGC-----SBCTTTCCBCCE
T ss_pred             cHHHHHHhCcCCCCCCccCCcCCceEEcCCCChhHhHHHHhcC-----CcCCCCCCCccC
Confidence            344557788889999999999999999999999 999999987     589999999874

>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=98.67  E-value=6.2e-09  Score=79.47  Aligned_cols=49  Identities=18%  Similarity=0.194  Sum_probs=43.2

Q ss_pred             cccccccccCCCCceec-cCCCcchhhhHHhhhhhcCCCCccccccccCCC
Q 044354          158 ELSCAICLEICFEPSTT-TCGHSFCKKCLRSAADKCGKKCPKCRQLISNGR  207 (426)
Q Consensus       158 ~l~CpIC~~~l~~Pv~l-pCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~  207 (426)
                      .+.||||++++.+||++ +|||+||..||.+|+.. ..+||+++.++....
T Consensus         3 ~~~CpIs~~~m~dPV~~~~sG~~yer~~I~~~l~~-~~~cP~t~~~L~~~~   52 (61)
T 2bay_A            3 HMLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKD-TGNDPITNEPLSIEE   52 (61)
T ss_dssp             -CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHH-HSBCTTTCCBCCGGG
T ss_pred             eEEecCCCCCCCCCEEeCCCCcEEcHHHHHHHHHh-CCCCcCCcCCCChhh
Confidence            37899999999999999 89999999999999987 356999999987543

>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=98.64  E-value=1.5e-08  Score=85.68  Aligned_cols=46  Identities=22%  Similarity=0.436  Sum_probs=39.5

Q ss_pred             cccccccccCCCCc------------------eeccCCCcchhhhHHhhhhhcCCCCcccccccc
Q 044354          158 ELSCAICLEICFEP------------------STTTCGHSFCKKCLRSAADKCGKKCPKCRQLIS  204 (426)
Q Consensus       158 ~l~CpIC~~~l~~P------------------v~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~  204 (426)
                      +..|+||++.|..+                  +.++|+|.||..||..|+.. ...||+||..+.
T Consensus        37 ~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~-~~~CP~Cr~~~~  100 (106)
T 3dpl_R           37 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT-RQVCPLDNREWE  100 (106)
T ss_dssp             SCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTT-CSBCSSSCSBCC
T ss_pred             CCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHc-CCcCcCCCCcce
Confidence            46799999998865                  33789999999999999987 778999999864

>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.62  E-value=1.8e-08  Score=78.36  Aligned_cols=44  Identities=25%  Similarity=0.743  Sum_probs=39.5

Q ss_pred             ccccccccccCCCCceeccCCCc-chhhhHHhhhhhcCCCCccccccccC
Q 044354          157 EELSCAICLEICFEPSTTTCGHS-FCKKCLRSAADKCGKKCPKCRQLISN  205 (426)
Q Consensus       157 ~~l~CpIC~~~l~~Pv~lpCgH~-FC~~CI~~~l~~~~~~CP~CR~~i~~  205 (426)
                      +...|+||++...+++.+||||. ||..|+..     ...||+||..|..
T Consensus        14 ~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~-----~~~CP~CR~~i~~   58 (68)
T 2ea5_A           14 NSKDCVVCQNGTVNWVLLPCRHTCLCDGCVKY-----FQQCPMCRQFVQE   58 (68)
T ss_dssp             CSSCCSSSSSSCCCCEETTTTBCCSCTTHHHH-----CSSCTTTCCCCCC
T ss_pred             CCCCCCCcCcCCCCEEEECCCChhhhHHHHhc-----CCCCCCCCcchhc
Confidence            45789999999999999999999 99999984     3689999998875

>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=98.61  E-value=6.8e-09  Score=84.96  Aligned_cols=46  Identities=26%  Similarity=0.630  Sum_probs=38.2

Q ss_pred             ccccccccccCCCCceec---cCCCcchhhhHHhhhhhc-------CCCCcc--cccc
Q 044354          157 EELSCAICLEICFEPSTT---TCGHSFCKKCLRSAADKC-------GKKCPK--CRQL  202 (426)
Q Consensus       157 ~~l~CpIC~~~l~~Pv~l---pCgH~FC~~CI~~~l~~~-------~~~CP~--CR~~  202 (426)
                      +.+.|+||++.+..|+++   +|||.||..||..++...       ...||.  |+..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            358899999999988664   799999999999997641       247999  9887

>2d8s_A Cellular modulator of immune recognition; C-MIR, march8, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.39  E-value=2.2e-07  Score=74.56  Aligned_cols=50  Identities=22%  Similarity=0.389  Sum_probs=41.6

Q ss_pred             ccccccccccCC--CCceeccCC-----CcchhhhHHhhhhhcC-CCCccccccccCC
Q 044354          157 EELSCAICLEIC--FEPSTTTCG-----HSFCKKCLRSAADKCG-KKCPKCRQLISNG  206 (426)
Q Consensus       157 ~~l~CpIC~~~l--~~Pv~lpCg-----H~FC~~CI~~~l~~~~-~~CP~CR~~i~~~  206 (426)
                      +...|.||++.+  .+++++||.     |.|+..||..|+.... ..||+|+..+...
T Consensus        14 ~~~~C~IC~~~~~~~~~l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~   71 (80)
T 2d8s_A           14 SQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIME   71 (80)
T ss_dssp             TSCCCSSSCCCCCSSSCEECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCC
T ss_pred             CCCCCeEcCccccCCCeeEeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecC
Confidence            346899999877  467889996     9999999999998743 6899999988753

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

Probab=98.34  E-value=6e-08  Score=83.46  Aligned_cols=45  Identities=22%  Similarity=0.474  Sum_probs=0.0

Q ss_pred             ccccccccCCCCc-----------------ee-ccCCCcchhhhHHhhhhhcCCCCcccccccc
Q 044354          159 LSCAICLEICFEP-----------------ST-TTCGHSFCKKCLRSAADKCGKKCPKCRQLIS  204 (426)
Q Consensus       159 l~CpIC~~~l~~P-----------------v~-lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~  204 (426)
                      -.|+||++.|..+                 +. ++|+|.||..||..|+.. ...||+||..+.
T Consensus        49 d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~-~~~CP~Cr~~~~  111 (117)
T 4a0k_B           49 DNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT-RQVCPLDNREWE  111 (117)
T ss_dssp             ----------------------------------------------------------------
T ss_pred             CcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHc-CCcCCCCCCeee
Confidence            5799999998763                 22 589999999999999987 678999999865

>2ct0_A Non-SMC element 1 homolog; ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.83  E-value=1.2e-05  Score=63.68  Aligned_cols=48  Identities=21%  Similarity=0.556  Sum_probs=39.4

Q ss_pred             cccccccccCCCCcee-ccCCCcchhhhHHhhhhhc-CCCCccccccccC
Q 044354          158 ELSCAICLEICFEPST-TTCGHSFCKKCLRSAADKC-GKKCPKCRQLISN  205 (426)
Q Consensus       158 ~l~CpIC~~~l~~Pv~-lpCgH~FC~~CI~~~l~~~-~~~CP~CR~~i~~  205 (426)
                      ...|.||.+++..-.. ..|+|.|...||.+|+... ..+||+|+..+..
T Consensus        15 i~~C~IC~~~i~~g~~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~   64 (74)
T 2ct0_A           15 VKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH   64 (74)
T ss_dssp             SCBCSSSCCBCSSSEECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCCS
T ss_pred             CCcCcchhhHcccCCccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCCC
Confidence            3679999999975544 3799999999999999763 2789999988764

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus}

Probab=97.74  E-value=1.4e-05  Score=66.59  Aligned_cols=83  Identities=19%  Similarity=0.361  Sum_probs=58.6

Q ss_pred             ccccccccCCCC-ceeccCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHHHHChhHHHHHHHHHHhc
Q 044354          159 LSCAICLEICFE-PSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLFPQEVEARKAAAALN  237 (426)
Q Consensus       159 l~CpIC~~~l~~-Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l~p~E~~~r~~~~~~~  237 (426)
                      ..|++|.-.+.. ..++||.|.||..|+..|.......||.|+.+|.......                           
T Consensus         2 hfC~~C~~Pi~iygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~rVe~~~---------------------------   54 (101)
T 3vk6_A            2 HFCDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQRIEQCT---------------------------   54 (101)
T ss_dssp             CBCTTTCSBCSEEEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCSEEEEEE---------------------------
T ss_pred             eecCccCCCeEEEeeeccccccHHHHHHHHHHhccCCCCcCcCCeeeeeEEec---------------------------
Confidence            368899876664 3457999999999999998877889999999987422110                           


Q ss_pred             ccccccCcc-ccccccc-cCchhHHHHhhhcccc
Q 044354          238 SREAEHQSP-QRGFHNN-VRTRSMRSSATSSGDA  269 (426)
Q Consensus       238 ~~~~~~~~p-c~gC~~~-i~~~~lR~H~~~c~~~  269 (426)
                      . ...+.++ ..+|.+. +++.+|+.|+...=..
T Consensus        55 ~-~~if~C~~~~~CkrtyLs~rdlqaHI~~~H~~   87 (101)
T 3vk6_A           55 R-GSLFMCSIVQGCKRTYLSQRDLQAHINHRHMR   87 (101)
T ss_dssp             G-GGCCCCCCCCCCCCCCSSHHHHHHHHHHHTTT
T ss_pred             c-CCEEECCCCCCHHHHhcCHHHHHHHHHHHhhh
Confidence            1 1222333 6788885 5566799888765533

>1vyx_A ORF K3, K3RING; zinc-binding protein, ring domain, cross-brace motif; NMR {Human herpesvirus 8} SCOP: g.44.1.3

Probab=97.44  E-value=8.1e-05  Score=56.37  Aligned_cols=48  Identities=21%  Similarity=0.402  Sum_probs=39.3

Q ss_pred             ccccccccccCCCCceeccCC--C---cchhhhHHhhhhh-cCCCCcccccccc
Q 044354          157 EELSCAICLEICFEPSTTTCG--H---SFCKKCLRSAADK-CGKKCPKCRQLIS  204 (426)
Q Consensus       157 ~~l~CpIC~~~l~~Pv~lpCg--H---~FC~~CI~~~l~~-~~~~CP~CR~~i~  204 (426)
                      +...|.||++...++.++||.  |   .|...||..|+.. +...||+|+..+.
T Consensus         5 ~~~~CrIC~~~~~~~l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            5 DVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             SCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCEeEEeecCCCCceecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            346899999887777778865  4   8999999999975 3578999998875

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

Probab=97.36  E-value=4.7e-05  Score=76.44  Aligned_cols=49  Identities=29%  Similarity=0.608  Sum_probs=38.8

Q ss_pred             ccccccccccCCCC----cee----ccCCCcchhhhHHhhhhhcC----------CCCccccccccC
Q 044354          157 EELSCAICLEICFE----PST----TTCGHSFCKKCLRSAADKCG----------KKCPKCRQLISN  205 (426)
Q Consensus       157 ~~l~CpIC~~~l~~----Pv~----lpCgH~FC~~CI~~~l~~~~----------~~CP~CR~~i~~  205 (426)
                      ....|+||+..+..    |..    ..|+|.|+..||.+|+....          ..||.|++++..
T Consensus       307 ~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~  373 (381)
T 3k1l_B          307 EELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLST  373 (381)
T ss_dssp             SCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEG
T ss_pred             CCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCc
Confidence            45689999998876    322    37999999999999997521          369999999874

>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=96.91  E-value=0.00044  Score=77.40  Aligned_cols=70  Identities=14%  Similarity=0.118  Sum_probs=61.5

Q ss_pred             hhcccccccccccCCCCceeccCC-CcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHHHHChh
Q 044354          154 KLREELSCAICLEICFEPSTTTCG-HSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLFPQ  225 (426)
Q Consensus       154 ~l~~~l~CpIC~~~l~~Pv~lpCg-H~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l~p~  225 (426)
                      .+.++|.|||-.+++.+||+++.| ++|-..+|.+|+.. ..+||+-+.++.. ..+.+|..|...|+.|+..
T Consensus       887 ~iP~~F~cPIs~~lM~DPVilpsG~~TydR~~I~~wl~~-~~tdP~Tr~~L~~-~~liPN~~Lk~~I~~w~~~  957 (968)
T 3m62_A          887 DVPDEFLDPLMYTIMKDPVILPASKMNIDRSTIKAHLLS-DSTDPFNRMPLKL-EDVTPNEELRQKILCFKKQ  957 (968)
T ss_dssp             CSCGGGBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTT-CCBCTTTCCBCCG-GGCEECHHHHHHHHHHHHH
T ss_pred             CCcHHhCCcchhhHHhCCeEcCCCCEEECHHHHHHHHhc-CCCCCCCCCCCCc-ccccccHHHHHHHHHHHHH
Confidence            355789999999999999999998 69999999999987 6799999999985 4578899999999999443

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=95.97  E-value=0.0024  Score=52.16  Aligned_cols=32  Identities=28%  Similarity=0.769  Sum_probs=27.3

Q ss_pred             ccccccccccC-CCCcee--ccCCCcchhhhHHhh
Q 044354          157 EELSCAICLEI-CFEPST--TTCGHSFCKKCLRSA  188 (426)
Q Consensus       157 ~~l~CpIC~~~-l~~Pv~--lpCgH~FC~~CI~~~  188 (426)
                      +++.|+||.+. +..|+.  +.|+|.||..|+..+
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~~   36 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKAT   36 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETTTTEEECHHHHHHH
T ss_pred             CCCCCcCCCCCCCCCceEECCcCChHHhHHHCHHH
Confidence            35889999975 678887  899999999999973

>3nw0_A Non-structural maintenance of chromosomes element homolog; E3 ligase, Zn, metal binding protein; 2.92A {Homo sapiens}

Probab=95.64  E-value=0.0071  Score=57.67  Aligned_cols=48  Identities=21%  Similarity=0.553  Sum_probs=39.5

Q ss_pred             cccccccccCCCCceec-cCCCcchhhhHHhhhhhc-CCCCccccccccC
Q 044354          158 ELSCAICLEICFEPSTT-TCGHSFCKKCLRSAADKC-GKKCPKCRQLISN  205 (426)
Q Consensus       158 ~l~CpIC~~~l~~Pv~l-pCgH~FC~~CI~~~l~~~-~~~CP~CR~~i~~  205 (426)
                      ...|.||.+++..-+.- .|+|.|...|+..|+... ...||.|+..+..
T Consensus       180 i~~C~iC~~iv~~g~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~  229 (238)
T 3nw0_A          180 VKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH  229 (238)
T ss_dssp             CCBCTTTCSBCSSCEECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCS
T ss_pred             CCcCcchhhHHhCCcccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCC
Confidence            56799999998866554 499999999999998763 4689999988664

>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication, ring E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus; 2.60A {Saccharomyces cerevisiae}

Probab=92.46  E-value=0.092  Score=53.09  Aligned_cols=67  Identities=19%  Similarity=0.296  Sum_probs=49.6

Q ss_pred             hcccccccccccCCCCcee-ccCCCcchhhh--HHhhh-hhcCCCCccccccccCCCCcchhHHHHHHHHHH
Q 044354          155 LREELSCAICLEICFEPST-TTCGHSFCKKC--LRSAA-DKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLL  222 (426)
Q Consensus       155 l~~~l~CpIC~~~l~~Pv~-lpCgH~FC~~C--I~~~l-~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l  222 (426)
                      +.-.|.|||-...+..|+. ..|.|.-|.+-  +..+. ....+.||+|.+.+.. ..|.++..+..++...
T Consensus       246 ~~vSL~CPlS~~ri~~PvRg~~C~HlQCFDl~sfL~~~~~~~~W~CPIC~k~~~~-~dL~ID~~~~~IL~~~  316 (371)
T 3i2d_A          246 TIMSLQCPISYTRMKYPSKSINCKHLQCFDALWFLHSQLQIPTWQCPVCQIDIAL-ENLAISEFVDDILQNC  316 (371)
T ss_dssp             EEEESBCTTTSSBCSSEEEETTCCSSCCEEHHHHHHHHHHSCCCBCTTTCCBCCG-GGEEEBHHHHHHHTTS
T ss_pred             eEEeecCCCccccccccCcCCcCCCcceECHHHHHHHhhcCCceeCCCCCcccCH-HHeeEcHHHHHHHHhc
Confidence            4456999999999999998 57999966544  22222 2346899999988773 4678888888887654

>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=91.25  E-value=0.18  Score=50.78  Aligned_cols=66  Identities=21%  Similarity=0.319  Sum_probs=49.2

Q ss_pred             hcccccccccccCCCCcee-ccCCCcchhhhH--Hhhh-hhcCCCCccccccccCCCCcchhHHHHHHHHH
Q 044354          155 LREELSCAICLEICFEPST-TTCGHSFCKKCL--RSAA-DKCGKKCPKCRQLISNGRSCTVNTVLWNTIQL  221 (426)
Q Consensus       155 l~~~l~CpIC~~~l~~Pv~-lpCgH~FC~~CI--~~~l-~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~  221 (426)
                      +.-.|.|||-...+..|+. ..|.|.-|.+-.  ..+. ....+.||+|.+.+.. ..|.++..+.+++..
T Consensus       212 ~~vSL~CPlS~~ri~~P~Rg~~C~HlqCFDl~sfL~~~~~~~~W~CPiC~k~~~~-~dL~ID~~~~~IL~~  281 (360)
T 4fo9_A          212 LRVSLMCPLGKMRLTIPCRAVTCTHLQCFDAALYLQMNEKKPTWICPVCDKKAAY-ESLILDGLFMEILND  281 (360)
T ss_dssp             EEEESBCTTTCSBCSSEEEETTCCCCCCEEHHHHHHHHHHSCCCBCTTTCSBCCG-GGEEEBHHHHHHHTT
T ss_pred             eEEeeeCCCccceeccCCcCCCCCCCccCCHHHHHHHHhhCCCeECCCCCcccCH-HHeEEcHHHHHHHHh
Confidence            4456899999999999998 579999665432  2222 2346899999998773 467888888888764

>2cs3_A Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.3

Probab=89.72  E-value=0.41  Score=38.33  Aligned_cols=35  Identities=31%  Similarity=0.686  Sum_probs=29.6

Q ss_pred             ccccccccccCCCCceeccC----CCcchhhhHHhhhhh
Q 044354          157 EELSCAICLEICFEPSTTTC----GHSFCKKCLRSAADK  191 (426)
Q Consensus       157 ~~l~CpIC~~~l~~Pv~lpC----gH~FC~~CI~~~l~~  191 (426)
                      ..+.|.+|.+.+.+...+.|    +|.||..|-...++.
T Consensus        14 a~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sIk~   52 (93)
T 2cs3_A           14 GPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKA   52 (93)
T ss_dssp             CSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHH
T ss_pred             CeeEeecchhhhccCceeeCCCccCCeeeccccHHHHHh
Confidence            45899999999999877666    699999999988764

---

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	426
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	2e-14
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	6e-13
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	1e-12
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	1e-11
d1t1ha_	78	g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cre	2e-10
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	4e-09
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	5e-09
d2c2la2	80	g.44.1.2 (A:225-304) STIP1 homology and U box-cont	7e-09
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	7e-09
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	1e-08
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	1e-06
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	4e-06
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	3e-05
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	0.002
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	0.004

>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 = 66.1 bits (161), Expect = 2e-14
 Identities = 17/50 (34%), Positives = 23/50 (46%)

Query: 155 LREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLIS 204
             + +SC IC  I  +P  T+C H FC+ C+       G  CP CR    
Sbjct: 20  FVKSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCF 69

>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 = 62.4 bits (151), Expect = 6e-13
 Identities = 25/77 (32%), Positives = 40/77 (51%), Gaps = 3/77 (3%)

Query: 148 VLTCIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGK--KCPKCRQLISN 205
           V   I+ +++ L C ICLE+  EP +T C H FCK C+    ++     +CP C+  I+ 
Sbjct: 11  VQNVINAMQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK 70

Query: 206 GRSCTVNTVLWNTIQLL 222
            RS   +T     ++ L
Sbjct: 71  -RSLQESTRFSQLVEEL 86

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 60.3 bits (146), Expect = 1e-12
 Identities = 13/48 (27%), Positives = 18/48 (37%), Gaps = 4/48 (8%)

Query: 157 EELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLIS 204
           + L C  C      P    C H+ C  CL    +  G +CP C+    
Sbjct: 5   QFLRCQQCQAEAKCPKLLPCLHTLCSGCL----EASGMQCPICQAPWP 48

>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 = 58.1 bits (140), Expect = 1e-11
 Identities = 18/52 (34%), Positives = 22/52 (42%)

Query: 161 CAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVN 212
           C IC E   +     CGH  C  CL S  +  G+ CP CR  I       V+
Sbjct: 26  CKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPIVVD 77

>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 = 54.7 bits (131), Expect = 2e-10
 Identities = 17/64 (26%), Positives = 30/64 (46%), Gaps = 1/64 (1%)

Query: 157 EELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLW 216
           E   C I LE+  +P   + G ++ +  ++   D   K CPK ++ + +    T N VL 
Sbjct: 7   EYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLH-AGLTPNYVLK 65

Query: 217 NTIQ 220
           + I 
Sbjct: 66  SLIA 69

>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 = 50.5 bits (120), Expect = 4e-09
 Identities = 10/53 (18%), Positives = 19/53 (35%), Gaps = 5/53 (9%)

Query: 157 EELSCAICLEICFEPS-----TTTCGHSFCKKCLRSAADKCGKKCPKCRQLIS 204
           ++  C  C    +           CGH+ C+ C+     +    CP+C   + 
Sbjct: 2   DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLR 54

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]} Length = 52

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.7 bits (118), Expect = 5e-09
 Identities = 12/51 (23%), Positives = 18/51 (35%), Gaps = 4/51 (7%)

Query: 159 LSCAICLEICFE----PSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISN 205
           + C +C+E            TCG+  C+ C           CP CR+    
Sbjct: 1   VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE 51

>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 = 50.2 bits (119), Expect = 7e-09
 Identities = 13/64 (20%), Positives = 23/64 (35%), Gaps = 1/64 (1%)

Query: 157 EELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLW 216
           + L   I  E+  EP  T  G ++ +K +     + G   P  R  ++       N  + 
Sbjct: 6   DYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQ-EQLIPNLAMK 64

Query: 217 NTIQ 220
             I 
Sbjct: 65  EVID 68

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

 Score = 49.9 bits (119), Expect = 7e-09
 Identities = 14/45 (31%), Positives = 19/45 (42%), Gaps = 2/45 (4%)

Query: 161 CAICLEICFEPSTTT-CGHSFCKKCLRSAADKCGKKCPKCRQLIS 204
           C ICLE     S    C H+FC  C+     +    CP C+  + 
Sbjct: 8   CPICLEDPSNYSMALPCLHAFCYVCITRWIRQ-NPTCPLCKVPVE 51

>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 = 50.6 bits (120), Expect = 1e-08
 Identities = 26/87 (29%), Positives = 36/87 (41%), Gaps = 6/87 (6%)

Query: 137 EPSNDGSSSSSVLTCIDKLREELSCAICLEICFEPST-TTCGHSFCKKCLRSAADKCGKK 195
           EP   G+ + S    +D+L + L C+ C  I  EP     C H FC  C+       G  
Sbjct: 2   EPDGRGAWAHS-RAALDRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCI---GTG 57

Query: 196 CPKCRQLISNGRSCTVNTVLWNTIQLL 222
           CP C       +   +N  L + IQL 
Sbjct: 58  CPVCYTPAWI-QDLKINRQLDSMIQLC 83

>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 = 43.3 bits (102), Expect = 1e-06
 Identities = 13/53 (24%), Positives = 21/53 (39%), Gaps = 5/53 (9%)

Query: 155 LREELSCAICLEICFEPST----TTCGHSFCKKCLRSAADKCGKKCPKCRQLI 203
           + + + CA+CL    +         CGH F  +C+          CP CR  +
Sbjct: 2   MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSH-STCPLCRLTV 53

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 41.7 bits (97), Expect = 4e-06
 Identities = 8/48 (16%), Positives = 14/48 (29%), Gaps = 2/48 (4%)

Query: 159 LSCAICLEI-CFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISN 205
           + CAI  ++      +      F K  L           P   + +S 
Sbjct: 1   MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDT-GNDPITNEPLSI 47

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]} Length = 60

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

 Score = 39.5 bits (91), Expect = 3e-05
 Identities = 9/51 (17%), Positives = 13/51 (25%), Gaps = 6/51 (11%)

Query: 157 EELSCAICLE-----ICFEPSTTTCGHSFCKKCLRSAADKC-GKKCPKCRQ 201
           +   C IC E            T    +  + CL +         C  C  
Sbjct: 5   DVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGV 55

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 114

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 35.8 bits (81), Expect = 0.002
 Identities = 23/92 (25%), Positives = 29/92 (31%), Gaps = 30/92 (32%)

Query: 142 GSSSSSVL--TCIDKLREEL------SCAICLEICFEPST------------------TT 175
           GSS SS      I K  EEL       C IC+E     S                   T 
Sbjct: 1   GSSGSSGEPEQVIRKYTEELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK 60

Query: 176 CGHSFCKKC----LRSAADKCGKKCPKCRQLI 203
           C H+F   C      +       +CP C+ + 
Sbjct: 61  CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIY 92

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.3 bits (78), Expect = 0.004
 Identities = 10/60 (16%), Positives = 16/60 (26%), Gaps = 19/60 (31%)

Query: 160 SCAICLEICFEPS------------------TTTCGHSFCKKCLRSAADKCGKKCPKCRQ 201
           +CAIC     +                       C H+F   C+        + CP   +
Sbjct: 23  NCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR-QVCPLDNR 81

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	426
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.55
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.53
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.5
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.48
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.46
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	99.38
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.35
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.22
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.17
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.13
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.12
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.07
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.03
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	98.79
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	98.6
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.48
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.06
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	90.87
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	80.07

>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=99.55  E-value=1.5e-15  Score=120.07  Aligned_cols=68  Identities=19%  Similarity=0.306  Sum_probs=61.1

Q ss_pred             hcccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHHHHC
Q 044354          155 LREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLF  223 (426)
Q Consensus       155 l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l~  223 (426)
                      +.++|.||||+++|.+||+++|||+||..||..|+......||.|+.++.. ..+.+|..|.++|+.|+
T Consensus         4 iP~~l~CpIc~~l~~dPv~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~-~~l~pN~~L~~~I~~~l   71 (80)
T d2c2la2           4 IPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQ-EQLIPNLAMKEVIDAFI   71 (80)
T ss_dssp             CCSTTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCG-GGCEECHHHHHHHHHHH
T ss_pred             CCccccCcCcCchhhhhcccCCcCeecHHHHHHHHhcCCccCCCccccccc-cccccHHHHHHHHHHHH
Confidence            457799999999999999999999999999999998767789999999874 35778999999999884

>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=99.53  E-value=1.6e-15  Score=119.29  Aligned_cols=68  Identities=26%  Similarity=0.445  Sum_probs=61.3

Q ss_pred             hcccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHHHHC
Q 044354          155 LREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLLF  223 (426)
Q Consensus       155 l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l~  223 (426)
                      +.++|.||||+++|.+||+++|||+||..||..|+..+...||.|+.++.. ..+.+|..|.++|+.|+
T Consensus         5 iP~~l~CpIc~~~m~dPV~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~-~~l~pN~~L~~~I~~~~   72 (78)
T d1t1ha_           5 FPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLH-AGLTPNYVLKSLIALWC   72 (78)
T ss_dssp             CSSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSS-CCCEECTTTHHHHHHHH
T ss_pred             CCccCCCcCcCchhhCceEccCCCcchHHHHHHHHHHCCCCCCcccccCCc-ccccchHHHHHHHHHHH
Confidence            557899999999999999999999999999999998767789999999885 45778999999999883

>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=99.50  E-value=4.5e-15  Score=119.54  Aligned_cols=68  Identities=26%  Similarity=0.554  Sum_probs=55.2

Q ss_pred             hhhhcccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHH
Q 044354          152 IDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTI  219 (426)
Q Consensus       152 l~~l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI  219 (426)
                      .+.+.+.+.|+||++++.+|++++|||+||..||..|+...+.+||.||.++.......+...+.+++
T Consensus        17 ~~d~~~~l~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~l~~P~~~~l~~l   84 (86)
T d1rmda2          17 PAHFVKSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESPVKSFLNIL   84 (86)
T ss_dssp             CHHHHHHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCBCCCHHHHHHH
T ss_pred             hhhhccCcCCccCCcchhcceecCCCChhhHHHHHHHHhhCCCcCcccCCCCChhhccCHHHHHHHHh
Confidence            34556679999999999999999999999999999999876789999999988655444444454544

>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=99.48  E-value=4.7e-15  Score=122.47  Aligned_cols=71  Identities=34%  Similarity=0.700  Sum_probs=59.2

Q ss_pred             hhhhhcccccccccccCCCCceeccCCCcchhhhHHhhhhhcC--CCCccccccccCCCCcchhHHHHHHHHHH
Q 044354          151 CIDKLREELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCG--KKCPKCRQLISNGRSCTVNTVLWNTIQLL  222 (426)
Q Consensus       151 ~l~~l~~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~--~~CP~CR~~i~~~~~l~~N~~L~~lI~~l  222 (426)
                      .+..+.+.+.||||+++|.+|++++|||+||..||..|+....  ..||.|+..+.. ..+..|..+.++++.+
T Consensus        14 ~~~~l~~~l~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~-~~l~~n~~l~~~ve~l   86 (103)
T d1jm7a_          14 VINAMQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK-RSLQESTRFSQLVEEL   86 (103)
T ss_dssp             HHHHHHHHTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCT-TTCBCCCSSSHHHHHH
T ss_pred             HHHhcccCcCCCccCchhCCeEEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCCh-hhCCcCHHHHHHHHHH
Confidence            4566778899999999999999999999999999999986533  589999999874 4566677777777765

>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=99.46  E-value=3.1e-14  Score=116.22  Aligned_cols=71  Identities=30%  Similarity=0.570  Sum_probs=61.3

Q ss_pred             chhhhhhhcccccccccccCCCCceec-cCCCcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHHHH
Q 044354          148 VLTCIDKLREELSCAICLEICFEPSTT-TCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLL  222 (426)
Q Consensus       148 ~~~~l~~l~~~l~CpIC~~~l~~Pv~l-pCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l  222 (426)
                      ....++.+.+.+.|+||+++|.+|+++ +|||+||..||..|+..   .||.|+..+.. ..+.+|..|..+++.|
T Consensus        12 ~~~~l~~l~~~l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~~---~CP~Cr~~~~~-~~l~~n~~l~~lv~~~   83 (97)
T d1jm7b_          12 SRAALDRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGT---GCPVCYTPAWI-QDLKINRQLDSMIQLC   83 (97)
T ss_dssp             HHHHHHHHHHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTTT---BCSSSCCBCSC-SSCCCCHHHHHHHHHH
T ss_pred             HHHHHHhhhhcCCCccCCchhhcCceeCCCCCchhHHHHHHHHhc---cccccCCcCch-hhCcccHHHHHHHHHH
Confidence            345567788899999999999999985 79999999999999853   69999998874 4578899999999877

>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=99.38  E-value=1.8e-13  Score=112.34  Aligned_cols=67  Identities=15%  Similarity=0.092  Sum_probs=59.2

Q ss_pred             hhcccccccccccCCCCceeccCC-CcchhhhHHhhhhhcCCCCccccccccCCCCcchhHHHHHHHHHH
Q 044354          154 KLREELSCAICLEICFEPSTTTCG-HSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTVNTVLWNTIQLL  222 (426)
Q Consensus       154 ~l~~~l~CpIC~~~l~~Pv~lpCg-H~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~N~~L~~lI~~l  222 (426)
                      .+.++|.||||+++|.+||+++|+ |+||..||..|+.. +..||+|+.++.. ..+.+|..|..+|+.|
T Consensus        18 ~~P~~f~CPI~~~lm~dPV~~~~~~~ty~r~~I~~~l~~-~~~~P~~~~~l~~-~~L~pN~~Lr~~I~~~   85 (98)
T d1wgma_          18 DACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLS-DQTDPFNRSPLTM-DQIRPNTELKEKIQRW   85 (98)
T ss_dssp             SCCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTT-SCBCTTTCSBCCT-TTSEECHHHHHHHHHH
T ss_pred             CCcHHhCCcCchhHHHHHHhcccccchhhHHHHHHHHHh-cCCcccccccccc-hhhcchHHHHHHHHHH
Confidence            345679999999999999999876 58999999999976 6789999999884 5678899999999998

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.35  E-value=3.1e-13  Score=106.64  Aligned_cols=53  Identities=34%  Similarity=0.664  Sum_probs=46.9

Q ss_pred             ccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccCCCCcch
Q 044354          159 LSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNGRSCTV  211 (426)
Q Consensus       159 l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~~l~~  211 (426)
                      ..|+||++.+.+|++++|||.||..||..|+..+...||+||+.|.....+.+
T Consensus        24 ~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~~i~i   76 (79)
T d1fbva4          24 QLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPIVV   76 (79)
T ss_dssp             TBCTTTSSSBCCEECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCCCCSSC
T ss_pred             CCCccCCCcCCCeEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCCceeec
Confidence            46999999999999999999999999999998767789999999987655443

>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=99.22  E-value=1.3e-12  Score=96.52  Aligned_cols=48  Identities=19%  Similarity=0.195  Sum_probs=42.9

Q ss_pred             ccccccccCCCCceec-cCCCcchhhhHHhhhhhcCCCCccccccccCCC
Q 044354          159 LSCAICLEICFEPSTT-TCGHSFCKKCLRSAADKCGKKCPKCRQLISNGR  207 (426)
Q Consensus       159 l~CpIC~~~l~~Pv~l-pCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~~  207 (426)
                      +.|+||++++.+||.+ .|||+||..||.+|+.. ...||+|+.++...+
T Consensus         1 l~C~Ic~~~~~~Pv~~~~cGh~fc~~cI~~~l~~-~~~CP~c~~~l~~~d   49 (56)
T d2baya1           1 MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKD-TGNDPITNEPLSIEE   49 (56)
T ss_dssp             CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHH-HSBCTTTCCBCCGGG
T ss_pred             CCCccCCchHHhcCccCCCCCcccHHHHHHHHhh-ccCCCccCCcCCHHh
Confidence            5799999999999987 59999999999999987 568999999988543

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.17  E-value=3.7e-12  Score=94.26  Aligned_cols=46  Identities=30%  Similarity=0.719  Sum_probs=40.7

Q ss_pred             ccccccccccCCCCceeccCCCcchhhhHHhhhhhcCCCCccccccccCC
Q 044354          157 EELSCAICLEICFEPSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNG  206 (426)
Q Consensus       157 ~~l~CpIC~~~l~~Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~  206 (426)
                      +.+.|+||++.+.+|++++|||+||..||..|    ...||+||..+...
T Consensus         5 ~~l~C~IC~~~~~~p~~lpCgH~fC~~Ci~~~----~~~CP~Cr~~~~~~   50 (56)
T d1bora_           5 QFLRCQQCQAEAKCPKLLPCLHTLCSGCLEAS----GMQCPICQAPWPLG   50 (56)
T ss_dssp             CCSSCSSSCSSCBCCSCSTTSCCSBTTTCSSS----SSSCSSCCSSSSCC
T ss_pred             CCCCCcccCcccCCCEEecCCCHHhHHHHHcC----CCcCcCCCCcccCC
Confidence            34799999999999999999999999999765    56899999998754

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.13  E-value=6.3e-12  Score=95.37  Aligned_cols=50  Identities=20%  Similarity=0.670  Sum_probs=40.6

Q ss_pred             ccccccccccCCC-C----ceeccCCCcchhhhHHhhhhhcCCCCccccccccCC
Q 044354          157 EELSCAICLEICF-E----PSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISNG  206 (426)
Q Consensus       157 ~~l~CpIC~~~l~-~----Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~~  206 (426)
                      ++..||||++.+. .    .++++|||.||..||..|+......||+||+.+...
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~   56 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKS   56 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSC
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCcccc
Confidence            4578999998653 2    245789999999999999977667899999998753

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

Probab=99.12  E-value=1e-11  Score=94.82  Aligned_cols=46  Identities=30%  Similarity=0.663  Sum_probs=40.7

Q ss_pred             ccccccccCCCCcee-ccCCCcchhhhHHhhhhhcCCCCccccccccC
Q 044354          159 LSCAICLEICFEPST-TTCGHSFCKKCLRSAADKCGKKCPKCRQLISN  205 (426)
Q Consensus       159 l~CpIC~~~l~~Pv~-lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~  205 (426)
                      -.|+||++.+.++++ ++|||+||..||..|+.. +..||+||..+..
T Consensus         6 d~C~IC~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~-~~~CP~CR~~i~~   52 (68)
T d1chca_           6 ERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQ-NPTCPLCKVPVES   52 (68)
T ss_dssp             CCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHH-SCSTTTTCCCCCC
T ss_pred             CCCccCCcCccCCcEEeCCCCcCcHHHHHHHHHh-CCcCCCCCcchHh
Confidence            469999999988755 799999999999999987 6799999998764

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.07  E-value=2.4e-11  Score=88.21  Aligned_cols=47  Identities=26%  Similarity=0.614  Sum_probs=39.5

Q ss_pred             ccccccccCCCC----ceeccCCCcchhhhHHhhhhhcCCCCccccccccC
Q 044354          159 LSCAICLEICFE----PSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLISN  205 (426)
Q Consensus       159 l~CpIC~~~l~~----Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~~  205 (426)
                      +.||||++.|..    ++.++|||.||..||..|+.....+||+||+++..
T Consensus         1 leCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            469999998853    23468999999999999998767789999998863

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

Probab=99.03  E-value=4.8e-11  Score=87.70  Aligned_cols=49  Identities=27%  Similarity=0.661  Sum_probs=40.7

Q ss_pred             hcccccccccccCCCCc---eec-cCCCcchhhhHHhhhhhcCCCCcccccccc
Q 044354          155 LREELSCAICLEICFEP---STT-TCGHSFCKKCLRSAADKCGKKCPKCRQLIS  204 (426)
Q Consensus       155 l~~~l~CpIC~~~l~~P---v~l-pCgH~FC~~CI~~~l~~~~~~CP~CR~~i~  204 (426)
                      ++++..|+||++.|...   +.+ +|+|.||..||..|+.. ...||+||..+.
T Consensus         2 ~ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~-~~~CP~CR~~i~   54 (55)
T d1iyma_           2 MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGS-HSTCPLCRLTVV   54 (55)
T ss_dssp             CCCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTT-CCSCSSSCCCSC
T ss_pred             CCCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHh-CCcCCCCCCEeE
Confidence            45678899999998753   344 59999999999999987 678999998763

>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=98.79  E-value=2.4e-09  Score=88.76  Aligned_cols=48  Identities=29%  Similarity=0.637  Sum_probs=38.4

Q ss_pred             cccccccccCCCCc------------------eeccCCCcchhhhHHhhhhhc----CCCCccccccccC
Q 044354          158 ELSCAICLEICFEP------------------STTTCGHSFCKKCLRSAADKC----GKKCPKCRQLISN  205 (426)
Q Consensus       158 ~l~CpIC~~~l~~P------------------v~lpCgH~FC~~CI~~~l~~~----~~~CP~CR~~i~~  205 (426)
                      +..|+||++.|..+                  ..++|||.||..||..|+...    ..+||+||..+..
T Consensus        25 ~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~   94 (114)
T d1v87a_          25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSS
T ss_pred             cccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhcc
Confidence            35799999987543                  347899999999999999753    3479999988764

>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=98.60  E-value=1e-08  Score=81.67  Aligned_cols=45  Identities=22%  Similarity=0.463  Sum_probs=36.6

Q ss_pred             ccccccccCCCC------------------ceeccCCCcchhhhHHhhhhhcCCCCcccccccc
Q 044354          159 LSCAICLEICFE------------------PSTTTCGHSFCKKCLRSAADKCGKKCPKCRQLIS  204 (426)
Q Consensus       159 l~CpIC~~~l~~------------------Pv~lpCgH~FC~~CI~~~l~~~~~~CP~CR~~i~  204 (426)
                      -.|+||++.+..                  ++.++|||.||..||..|+.. ...||+||..+.
T Consensus        22 d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~~~   84 (88)
T d3dplr1          22 DNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT-RQVCPLDNREWE   84 (88)
T ss_dssp             CCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTT-CSBCSSSCSBCC
T ss_pred             CcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHH-CCcCCCCCCccc
Confidence            358888776644                  234689999999999999987 678999999875

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

Probab=98.48  E-value=3e-08  Score=73.25  Aligned_cols=48  Identities=19%  Similarity=0.338  Sum_probs=40.1

Q ss_pred             ccccccccccCCCCceeccC-----CCcchhhhHHhhhhh-cCCCCcccccccc
Q 044354          157 EELSCAICLEICFEPSTTTC-----GHSFCKKCLRSAADK-CGKKCPKCRQLIS  204 (426)
Q Consensus       157 ~~l~CpIC~~~l~~Pv~lpC-----gH~FC~~CI~~~l~~-~~~~CP~CR~~i~  204 (426)
                      +...|+||++.+.++...+|     +|.||..||..|+.. +..+||+|++.+.
T Consensus         5 d~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           5 DVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             SCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeee
Confidence            45789999998888877665     599999999999864 4568999999876

>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=98.06  E-value=7.4e-07  Score=70.80  Aligned_cols=44  Identities=23%  Similarity=0.566  Sum_probs=33.4

Q ss_pred             cccccccccCCCC---ceeccCCCcchhhhHHhhhhhc-------CCCCccccc
Q 044354          158 ELSCAICLEICFE---PSTTTCGHSFCKKCLRSAADKC-------GKKCPKCRQ  201 (426)
Q Consensus       158 ~l~CpIC~~~l~~---Pv~lpCgH~FC~~CI~~~l~~~-------~~~CP~CR~  201 (426)
                      ...|+||++.+..   ++.++|+|.||..||..|+...       ..+||.|..
T Consensus         5 ~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           5 SSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             BCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            3679999998753   3446899999999999997532       136998654

>d2cs3a1 g.44.1.3 (A:8-87) Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: Protein c14orf4 (KIAA1865)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.87  E-value=0.14  Score=38.11  Aligned_cols=34  Identities=32%  Similarity=0.714  Sum_probs=29.0

Q ss_pred             cccccccccCCCCceeccC----CCcchhhhHHhhhhh
Q 044354          158 ELSCAICLEICFEPSTTTC----GHSFCKKCLRSAADK  191 (426)
Q Consensus       158 ~l~CpIC~~~l~~Pv~lpC----gH~FC~~CI~~~l~~  191 (426)
                      .+.|.+|.+-+.+...+.|    +|.||..|-...++.
T Consensus         8 ~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sik~   45 (80)
T d2cs3a1           8 PLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKA   45 (80)
T ss_dssp             SCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHH
T ss_pred             ceeeeeehhhhcCCceEeCCCCcCCceeccccHHHHHh
Confidence            3889999999999877666    699999999988764

>d1wila_ g.50.1.3 (A:) Hypothetical protein KIAA1045 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: variant PHD-like domain
domain: Hypothetical protein KIAA1045
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.07  E-value=0.57  Score=35.72  Aligned_cols=46  Identities=26%  Similarity=0.602  Sum_probs=33.4

Q ss_pred             hcccccccccccCCCCceecc---CCCcchhhhHHhhhh---------------hcCCCCccccc
Q 044354          155 LREELSCAICLEICFEPSTTT---CGHSFCKKCLRSAAD---------------KCGKKCPKCRQ  201 (426)
Q Consensus       155 l~~~l~CpIC~~~l~~Pv~lp---CgH~FC~~CI~~~l~---------------~~~~~CP~CR~  201 (426)
                      +..+..|.|| +++..-..+|   |+-.|...|+.+.-.               ..++.|+.|-.
T Consensus        12 v~~D~mC~vC-~v~t~~~l~pCRvCtRv~H~~CL~r~gyl~~e~a~e~~e~A~T~~GWSC~~C~n   75 (89)
T d1wila_          12 VVNDEMCDVC-EVWTAESLFPCRVCTRVFHDGCLRRMGYIQGDSAAEVTEMAHTETGWSCHYCDN   75 (89)
T ss_dssp             CCCSCCCTTT-CCCCSSCCSSCSSSSSCCCHHHHHHHTSCCCCCCCSCSCCCSSSSSCCCTTTCC
T ss_pred             CCcCcccccc-CcccccceecceeecchhhHHHHHHhcccccHHHHHHHHhhcCCCCcchhhhcc
Confidence            3456789999 7776666666   778999999998721               12468999954