Citrus Sinensis ID: 016591

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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------
Protein Sequence
MEENKQSDDAHLTSAAAFVEGGIQDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPTSQELLEAVERERSFRLNPSRNATIFRHPTLGDFELQHLPVGANDAELEERIIQHLAAAAAMGRARHIARRESHRNRASSQARPQFLVFSTHPNAANDDPVSSSPTHLEGEASPITTVATPSSPATGGEESTQQSTHLLSAQADHVSASASGSSAFASGQVGNTLNNRRSPNQPSPNSQDRAGPSDFQSFSESLKSRFNAVSMRYKESISKSTRGWKERFFSRNNTMADLGTEVRREVNAGISTVSRMMERLETRDSNSNNTTSVSSSSNNSVPELNNQQKSETADTNPMNDTNVQASCAASSGSN
Secondary Structure (PSIPRED)
ccccccccHHHHHHHcccccccccccccccccccccccccccccEEccccccccHHHHHHHHHcccccccccccccccccccHHHHHHHHHHccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHccccccHHHcccccccHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHcccHHHHHHcccccccccccccEHHccccccccEEcccccHHHHHHHHHHHHHcccccccccccccccccHHHHHHHHHHHHccccccccccEEEEccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccEEEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccHHHHHHHHHHHHHHHHHcccccccHHHHHHcccccHHHHcHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccEcccccc
Coil and Loop (DISEMBL)
meenkqsddaHLTSAAAFVEGGIQDACDDACSIcledfsesdpstltsckhefHLQCILEWCqrssqcpmcwqpislkdptsQELLEAVERErsfrlnpsrnatifrhptlgdfelqhlpvgandAELEERIIQHLAAAAAMGRARHIARREshrnrassqarpqflvfsthpnaanddpvssspthlegeaspittvatpsspatggeestqQSTHLLSAQAdhvsasasgssafasgqvgntlnnrrspnqpspnsqdragpsdfqSFSESLKSRFNAVSMRYKESISKSTRGWKERFFSRNNTMADLGTEVRREVNAGISTVSRMMERLetrdsnsnnttsvssssnnsvpelnnqqksetadtnpmndtnvqascaassgsn
Flexible Loop (DISEMBL)
meenkqsddaHLTSAAAFVEGGIQDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPTSQELLEAVERersfrlnpsrnaTIFRHPTLGDFELQHLPVGANDAELEERIIQHLAAAAAMGRARHIARREShrnrassqarPQFLVFSTHPNAANDDPVSSSPTHLEGEASPITTVATPSSPATGGEESTQQSTHLLSAQADHVSASASGSSAFASGQVGNTLNNRRSPNQPSPNSQDRAGPSDFQSFSESLKSRFNAVSMRykesiskstrgwkerffsrnntmadlgtevrreVNAGISTVSRMMErletrdsnsnnttsvssssnnsvpelNNQQKSetadtnpmndtnvqascaassgsn
Low Complexity Region (SEG)
MEENKQSDDAHLTSAAAFVEGGIQDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPTSQELLEAVERERSFRLNPSRNATIFRHPTLGDFELQHLPVGANDAELEERIIQHLaaaaamgrarhiarrESHRNRASSQARPQFLVFSTHPNAANDDPVSSSPTHLEGEASPITTVATPSSPATGGEESTQQSTHLLSAQADHVsasasgssafasgQVGNTLnnrrspnqpspnsqDRAGPSDFQSFSESLKSRFNAVSMRYKESISKSTRGWKERFFSRNNTMADLGTEVRREVNAGISTVSRMMERLETRDsnsnnttsvssssnnsvPELNNQQKSETADTNPMNDTNVQASCAASSGSN
Disordered region (IsUnstruct)
**************AAAFVEGGIQDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISL*************************ATIFRHPTLGDFELQHLPVGANDAELEERIIQHLAAAAA*****************************************************************************************************************************************************************************************************************************************************
Disordered Region (DISOPRED)
*************************ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPI***********************************************************************************************************************************************************************************************************************************************************************************************************************
Disordered Region (DISEMBL)
**********HLTSAAAFVEGGIQDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPTSQELLEAVERERSFRLNPSRNATIFRHPTLGDFELQHLPVGANDAELEERIIQHLAA************************RPQFLVFSTHPNAAN***************SPIT****************************************ASGQVGNTLN************************SESLKSRFNAVSMRYKESISKSTRGWKERFFSRNNTMADLGTEVRREVNAGISTVSRMMERLE**********************************NPMNDTNVQ**********
Disordered Region (DISPRO)
************************DACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPTSQELLEAVERERSFRLNPSRNATIFRHPTLGDFELQHLPVGANDAELEERIIQHLAAAAAMGR*****************ARPQFL***T******************************************************************************************************************KE*IS*STRGWKER**********L****RREV*AGISTV*************************************************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MEENKQSDDAHLTSAAAFVEGGIQDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPTSQELLEAVERERSFRLNPSRNATIFRHPTLGDFELQHLPVGANDAELEERIIQHLAAAAAMGRARHIARRESHRNRASSQARPQFLVFSTHPNAANDDPVSSSPTHLEGEASPITTVATPSSPATGGEESTQQSTHLLSAQADHVSASASGSSAFASGQVGNTLNNRRSPNQPSPNSQDRAGPSDFQSFSESLKSRFNAVSMRYKESISKSTRGWKERFFSRNNTMADLGTEVRREVNAGISTVSRMMERLETRDSNSNNTTSVSSSSNNSVPELNNQQKSETADTNPMNDTNVQASCAASSGSN
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	386	2.2.26 [Sep-21-2011]
Q9ZT42	375	E3 ubiquitin-protein liga	yes	no	0.898	0.925	0.619	1e-128
Q4TU14	371	E3 ubiquitin-protein liga	no	no	0.178	0.185	0.695	4e-26
Q8LE94	231	E3 ubiquitin-protein liga	no	no	0.113	0.190	0.477	2e-08
Q9VE61	147	E3 ubiquitin-protein liga	yes	no	0.158	0.414	0.393	8e-08
Q9DBU5	667	E3 ubiquitin-protein liga	yes	no	0.160	0.092	0.290	5e-07
Q68DV7	783	E3 ubiquitin-protein liga	yes	no	0.505	0.249	0.290	6e-07
Q9Y252	685	E3 ubiquitin-protein liga	no	no	0.160	0.090	0.306	9e-07
Q9Y3C5	154	RING finger protein 11 OS	no	no	0.116	0.292	0.444	1e-06
Q08DI6	154	RING finger protein 11 OS	no	no	0.116	0.292	0.444	1e-06
Q9QYK7	154	RING finger protein 11 OS	no	no	0.116	0.292	0.444	1e-06

>sp|Q9ZT42|RHF2A_ARATH E3 ubiquitin-protein ligase RHF2A OS=Arabidopsis thaliana GN=RHF2A PE=2 SV=1

 Score =  460 bits (1183), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 244/394 (61%), Positives = 283/394 (71%), Gaps = 47/394 (11%)

Query: 9   DAHLTSAAAFVEGGIQDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQC 68
           + HLTSAAAFVEGGIQDACDDACSICLE F ESDPSTLTSCKHE+HLQCILEWCQRSSQC
Sbjct: 11  EGHLTSAAAFVEGGIQDACDDACSICLESFCESDPSTLTSCKHEYHLQCILEWCQRSSQC 70

Query: 69  PMCWQPISLKDPTSQELLEAVERERSFRLNPSRNATIFRHPTLGDFELQHLPVGANDAEL 128
           PMCWQ ISLKDPTSQELLEAVE+ER+FR NP+RNATIFRHPTLGDFELQHLPVG ++AE+
Sbjct: 71  PMCWQSISLKDPTSQELLEAVEQERNFRFNPTRNATIFRHPTLGDFELQHLPVGVDNAEI 130

Query: 129 EERIIQHLAAAAAMGRARHIARRESHRNRASSQARPQFLVFSTHPNAA------------ 176
           EERIIQHLAAAAAMGRARH  RRE HR+R+SSQ   QF+VFS+ PNA+            
Sbjct: 131 EERIIQHLAAAAAMGRARHGVRREGHRSRSSSQGHQQFMVFSSQPNASSPPPHPPMPSSP 190

Query: 177 ----NDDPVSSSPTHLEGEASPITTVATPSSPATGGEESTQQSTHLLSAQADHVSASASG 232
                 D VS+ P +  GE S  +    P+                 S+    VS SAS 
Sbjct: 191 SQRDESDTVSNLPHNALGEGSHQSNTQPPT-----------------SSHPRQVSPSASD 233

Query: 233 SSAFASGQVGNTLNNRRSPNQPSPNSQDRAGPSDFQSFSESLKSRFNAVSMRYKESISKS 292
           S             N R  NQ SP+ QDRAGPS+ QSFSESLKSR NAVS RYKESISK+
Sbjct: 234 S-------------NSRPLNQSSPSEQDRAGPSELQSFSESLKSRLNAVSTRYKESISKN 280

Query: 293 TRGWKERFFSRNNTMADLGTEVRREVNAGISTVSRMMERLETRDSNSNNTTSVSSSSNNS 352
           TR WK+R FSRN +MADLG+EV+REV+AGI+TVSRMMERLETR+++  +T SVS  S N 
Sbjct: 281 TRNWKDRLFSRNTSMADLGSEVKREVSAGIATVSRMMERLETRENSRPSTASVSDVSENH 340

Query: 353 VPELNNQQ-KSETADTNPMNDTNVQASCAASSGS 385
            PE NN+  ++   D + +N+  V+ +CA  SGS
Sbjct: 341 TPETNNEHNRAAAGDEHSVNERGVKETCATGSGS 374

Probable E3 ubiquitin-protein ligase involved in the positive regulation of the gametogenesis progression. Required for the degradation of KRP6, a cyclin-dependent kinase inhibitor which accumulates during meiosis and blocks the progression of subsequent mitoses during gametophytes development. Functions in association with RHF1A.
Arabidopsis thaliana (taxid: 3702)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q4TU14|RHF1A_ARATH E3 ubiquitin-protein ligase RHF1A OS=Arabidopsis thaliana GN=RHF1A PE=1 SV=1

 Score =  119 bits (298), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 48/69 (69%), Positives = 57/69 (82%)

Query: 28  DDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPTSQELLE 87
           DDACSICLE F+  DPST+TSCKHE+HLQCI+EW QRS +CP+CWQ   L+DP SQELL 
Sbjct: 43  DDACSICLEPFTLQDPSTVTSCKHEYHLQCIIEWSQRSKECPICWQLFVLRDPASQELLA 102

Query: 88  AVERERSFR 96
           AVE+ER  +
Sbjct: 103 AVEKERLLK 111

E3 ubiquitin-protein ligase involved in the positive regulation of the gametogenesis progression. Mediates the proteasomal degradation of KRP6, a cyclin-dependent kinase inhibitor which accumulates during meiosis and blocks the progression of subsequent mitoses during gametophyte development. Functions in association with RHF2A. Possesses E3 ubiquitin ligase activity in vitro.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q8LE94|RING3_ARATH E3 ubiquitin-protein ligase At3g02290 OS=Arabidopsis thaliana GN=At3g02290 PE=2 SV=1

 Score = 60.5 bits (145), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 21/44 (47%), Positives = 29/44 (65%)

Query: 28  DDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMC 71
           +D C  CLE+++  +P  +T C H FHL CI EW +RS  CP+C
Sbjct: 178 EDVCPTCLEEYTSENPKIVTKCSHHFHLSCIYEWMERSENCPVC 221

Mediates E2-dependent protein ubiquitination.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9VE61|RN181_DROME E3 ubiquitin-protein ligase RNF181 homolog OS=Drosophila melanogaster GN=CG7694 PE=2 SV=1

 Score = 58.5 bits (140), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 26/66 (39%), Positives = 36/66 (54%), Gaps = 5/66 (7%)

Query: 20  EGGIQDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKD 79
           EGG     D  CS+C E   E     +  CKHEFH +CIL W ++++ CP+C   +   D
Sbjct: 64  EGG-----DLECSVCKEPAEEGQKYRILPCKHEFHEECILLWLKKTNSCPLCRYELETDD 118

Query: 80  PTSQEL 85
           P  +EL
Sbjct: 119 PVYEEL 124

E3 ubiquitin-protein ligase which accepts ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates.

Drosophila melanogaster (taxid: 7227)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9DBU5|RNF6_MOUSE E3 ubiquitin-protein ligase RNF6 OS=Mus musculus GN=Rnf6 PE=1 SV=1

 Score = 56.2 bits (134), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 18/62 (29%), Positives = 31/62 (50%)

Query: 14  SAAAFVEGGIQDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQ 73
           S  ++ + G+       CS+C+ D+   +      C HEFH+ CI  W   +  CP+C +
Sbjct: 597 STRSYEQDGVDSELGKVCSVCISDYVAGNKLRQLPCLHEFHIHCIDRWLSENCTCPVCRR 656

Query: 74  PI 75
           P+
Sbjct: 657 PV 658

E3 ubiquitin-protein ligase mediating 'Lys-48'-linked polyubiquitination of LIMK1 and its subsequent targeting to the proteasome for degradation. Negatively regulates axonal outgrowth through regulation of the LIMK1 turnover. Mediates 'Lys-6' and 'Lys-27'-linked polyubiquitination of AR/androgen receptor thereby modulating its transcriptional activity. May also bind DNA and function as a transcriptional regulator.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q68DV7|RNF43_HUMAN E3 ubiquitin-protein ligase RNF43 OS=Homo sapiens GN=RNF43 PE=1 SV=1

 Score = 55.8 bits (133), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 63/217 (29%), Positives = 90/217 (41%), Gaps = 22/217 (10%)

Query: 30  ACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPTSQELLEAV 89
            C+ICLE+FSE     + SC HEFH  C+  W  +   CP+C   I+  D  SQ L  + 
Sbjct: 271 VCAICLEEFSEGQELRVISCLHEFHRNCVDPWLHQHRTCPLCMFNITEGDSFSQSLGPS- 329

Query: 90  ERERSFRLNPSRNATIFR-HPTLGDFELQHLP----VGANDAEL--EERIIQHLAAA-AA 141
              RS++  P R   + R HP    +   HLP    +G + + +    R    L +    
Sbjct: 330 ---RSYQ-EPGRRLHLIRQHPGHAHY---HLPAAYLLGPSRSAVARPPRPGPFLPSQEPG 382

Query: 142 MGRARHIARRESHRNRASSQARPQFLVFSTHPNAANDDP--VSSSPTHLEGEASPITTVA 199
           MG   H   R +H      Q R   L  + HP A       + S+  H      P+    
Sbjct: 383 MGPRHHRFPRAAHPRAPGEQQR---LAGAQHPYAQGWGLSHLQSTSQHPAACPVPLRRAR 439

Query: 200 TPSSPATGGEESTQQSTHLLSAQA-DHVSASASGSSA 235
            P S  +G    T++S +L    A D  S    GSS+
Sbjct: 440 PPDSSGSGESYCTERSGYLADGPASDSSSGPCHGSSS 476

Probable E3 ubiquitin-protein ligase. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfer the ubiquitin to targeted substrates.

Homo sapiens (taxid: 9606)

>sp|Q9Y252|RNF6_HUMAN E3 ubiquitin-protein ligase RNF6 OS=Homo sapiens GN=RNF6 PE=1 SV=1

 Score = 55.1 bits (131), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 19/62 (30%), Positives = 28/62 (45%)

Query: 14  SAAAFVEGGIQDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQ 73
           S   +    I       CS+C+ D+   +      C HEFH+ CI  W   +  CP+C Q
Sbjct: 615 STRHYEHNSIDSELGKICSVCISDYVTGNKLRQLPCMHEFHIHCIDRWLSENCTCPICRQ 674

Query: 74  PI 75
           P+
Sbjct: 675 PV 676

E3 ubiquitin-protein ligase mediating 'Lys-48'-linked polyubiquitination of LIMK1 and its subsequent targeting to the proteasome for degradation. Negatively regulates axonal outgrowth through regulation of the LIMK1 turnover. Mediates 'Lys-6' and 'Lys-27'-linked polyubiquitination of AR/androgen receptor thereby modulating its transcriptional activity. May also bind DNA and function as a transcriptional regulator.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9Y3C5|RNF11_HUMAN RING finger protein 11 OS=Homo sapiens GN=RNF11 PE=1 SV=1

 Score = 54.7 bits (130), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 20/45 (44%), Positives = 25/45 (55%)

Query: 31  CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPI 75
           C IC+ DF   DP     C H +HL CI +W  RS  CP C +P+
Sbjct: 99  CVICMMDFVYGDPIRFLPCMHIYHLDCIDDWLMRSFTCPSCMEPV 143

Essential component of a ubiquitin-editing protein complex, comprising also TNFAIP3, ITCH and TAX1BP1, that ensures the transient nature of inflammatory signaling pathways. Promotes the association of TNFAIP3 to RIPK1 after TNF stimulation. TNFAIP3 deubiquitinates 'Lys-63' polyubiquitin chains on RIPK1 and catalyzes the formation of 'Lys-48'-polyubiquitin chains. This leads to RIPK1 proteasomal degradation and consequently termination of the TNF- or LPS-mediated activation of NF-kappa-B. Recruits STAMBP to the E3 ubiquitin-ligase SMURF2 for ubiquitination, leading to its degradation by the 26S proteasome.

Homo sapiens (taxid: 9606)

>sp|Q08DI6|RNF11_BOVIN RING finger protein 11 OS=Bos taurus GN=RNF11 PE=2 SV=1

 Score = 54.7 bits (130), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 20/45 (44%), Positives = 25/45 (55%)

Query: 31  CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPI 75
           C IC+ DF   DP     C H +HL CI +W  RS  CP C +P+
Sbjct: 99  CVICMMDFVYGDPIRFLPCMHIYHLDCIDDWLMRSFTCPSCMEPV 143

Essential component of a ubiquitin-editing protein complex, comprising also TNFAIP3, ITCH and TAX1BP1, that ensures the transient nature of inflammatory signaling pathways. Promotes the association of TNFAIP3 to RIPK1 after TNF stimulation. TNFAIP3 deubiquitinates 'Lys-63' polyubiquitin chains on RIPK1 and catalyzes the formation of 'Lys-48'-polyubiquitin chains. This leads to RIPK1 proteasomal degradation and consequently termination of the TNF- or LPS-mediated activation of NF-kappa-B. Recruits STAMBP to the E3 ubiquitin-ligase SMURF2 for ubiquitination, leading to its degradation by the 26S proteasome.

Bos taurus (taxid: 9913)

>sp|Q9QYK7|RNF11_MOUSE RING finger protein 11 OS=Mus musculus GN=Rnf11 PE=1 SV=1

 Score = 54.7 bits (130), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 20/45 (44%), Positives = 25/45 (55%)

Query: 31  CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPI 75
           C IC+ DF   DP     C H +HL CI +W  RS  CP C +P+
Sbjct: 99  CVICMMDFVYGDPIRFLPCMHIYHLDCIDDWLMRSFTCPSCMEPV 143

Essential component of a ubiquitin-editing protein complex, comprising also TNFAIP3, ITCH and TAX1BP1, that ensures the transient nature of inflammatory signaling pathways. Promotes the association of TNFAIP3 to RIPK1 after TNF stimulation. TNFAIP3 deubiquitinates 'Lys-63' polyubiquitin chains on RIPK1 and catalyzes the formation of 'Lys-48'-polyubiquitin chains. This leads to RIPK1 proteasomal degradation and consequently termination of the TNF- or LPS-mediated activation of NF-kappa-B. Recruits STAMBP to the E3 ubiquitin-ligase SMURF2 for ubiquitination, leading to its degradation by the 26S proteasome.

Mus musculus (taxid: 10090)

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	386
225436087	393	PREDICTED: E3 ubiquitin-protein ligase R	0.997	0.979	0.732	1e-158
224058945	386	predicted protein [Populus trichocarpa]	0.979	0.979	0.732	1e-150
359481051	387	PREDICTED: E3 ubiquitin-protein ligase R	0.984	0.981	0.701	1e-143
356550038	398	PREDICTED: E3 ubiquitin-protein ligase R	0.994	0.964	0.703	1e-142
356543652	401	PREDICTED: E3 ubiquitin-protein ligase R	0.971	0.935	0.723	1e-140
255637379	401	unknown [Glycine max]	0.971	0.935	0.718	1e-139
357453313	382	RING finger protein [Medicago truncatula	0.968	0.979	0.672	1e-137
357453317	383	RING finger protein [Medicago truncatula	0.968	0.976	0.670	1e-136
224138254	387	predicted protein [Populus trichocarpa]	0.958	0.956	0.664	1e-133
296089345	391	unnamed protein product [Vitis vinifera]	0.883	0.872	0.716	1e-132

>gi|225436087|ref|XP_002277399.1| PREDICTED: E3 ubiquitin-protein ligase RHF2A [Vitis vinifera] gi|296084011|emb|CBI24399.3| unnamed protein product [Vitis vinifera]

 Score =  562 bits (1449), Expect = e-158,   Method: Compositional matrix adjust.
 Identities = 285/389 (73%), Positives = 324/389 (83%), Gaps = 4/389 (1%)

Query: 1   MEENKQSDDAHLTSAAAFVEGGIQDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILE 60
           MEE+ +S+  HLTSAAAFVEGGIQ+ACDDACSICLE F +SDPST+TSCKHEFHLQCILE
Sbjct: 6   MEESNKSE-CHLTSAAAFVEGGIQEACDDACSICLEAFCDSDPSTVTSCKHEFHLQCILE 64

Query: 61  WCQRSSQCPMCWQPISLKDPTSQELLEAVERERSFRLNPSRNATIFRHPTLGDFELQHLP 120
           WCQRSSQCPMCWQPISLKDPTSQELLEAVERER+FR NPSRNATIF HPTLGDFELQHLP
Sbjct: 65  WCQRSSQCPMCWQPISLKDPTSQELLEAVERERTFRFNPSRNATIFHHPTLGDFELQHLP 124

Query: 121 VGANDAELEERIIQHLAAAAAMGRARHIARRESHRNRASSQARPQFLVFSTHPNAANDDP 180
           VGANDAELEERIIQHLAAAAAMGRARHIARRE  R R+S+Q RPQFLVFS HP+     P
Sbjct: 125 VGANDAELEERIIQHLAAAAAMGRARHIARREGQRTRSSAQGRPQFLVFSAHPSTPQAGP 184

Query: 181 VSSSPTHL-EGEASPITTVATPSS-PATGGEESTQQSTHLLSAQADHVSASASGSSAFAS 238
            SSSP    E E +P  T A PSS P   GEES++ +T  LS+QA+ ++ASASGS    +
Sbjct: 185 ASSSPAQRGEDEPAPAITAAMPSSLPTAVGEESSRLTTSQLSSQAEEITASASGSIIHTT 244

Query: 239 GQVGNTLNNRRSPNQPSPNSQDRAGPSDFQSFSESLKSRFNAVSMRYKESISKSTRGWKE 298
            Q G + NNRRSP Q  P+ QD+AGPS+FQSFSE+LKSRFNAVSMRYKESISKSTRGWKE
Sbjct: 245 NQHGTSSNNRRSPGQSLPSGQDKAGPSEFQSFSETLKSRFNAVSMRYKESISKSTRGWKE 304

Query: 299 RFFSRNNTMADLGTEVRREVNAGISTVSRMMERLETRDSNSNNTTSVS-SSSNNSVPELN 357
           R FSRN +MAD+G++VRREVNAGI+TVSRMME LETRD++    +SVS SS + S P L 
Sbjct: 305 RLFSRNTSMADIGSDVRREVNAGIATVSRMMEHLETRDNSRTTPSSVSDSSEDTSSPSLG 364

Query: 358 NQQKSETADTNPMNDTNVQASCAASSGSN 386
           +Q+ +ET+  NP+ DTNVQASCAASSG+N
Sbjct: 365 DQRMAETSAHNPLGDTNVQASCAASSGTN 393

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224058945|ref|XP_002299657.1| predicted protein [Populus trichocarpa] gi|222846915|gb|EEE84462.1| predicted protein [Populus trichocarpa]

 Score =  536 bits (1382), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 285/389 (73%), Positives = 315/389 (80%), Gaps = 11/389 (2%)

Query: 1   MEENKQSDDAHLT-SAAAFVEGGIQDACDDACSICLEDFSESDPSTLTSCKHEFHLQCIL 59
           +EE K+  +AHLT SAAAFVEGGIQ+ACDDACSICLE+F +SDPST+TSCKHEFHLQCIL
Sbjct: 4   IEERKKKSEAHLTVSAAAFVEGGIQEACDDACSICLENFCDSDPSTVTSCKHEFHLQCIL 63

Query: 60  EWCQRSSQCPMCWQPISLKDPTSQELLEAVERERSFRLNPSRNATIFRHPTLGDFELQHL 119
           EWCQRSSQCPMCWQPISLKDP SQELLEAVE+ERSFRLNPSRNATIF HP LGDFELQHL
Sbjct: 64  EWCQRSSQCPMCWQPISLKDPMSQELLEAVEQERSFRLNPSRNATIFHHPALGDFELQHL 123

Query: 120 PVGANDAELEERIIQHLAAAAAMGRARHIARRESHRNRASSQARPQFLVFSTHPNAANDD 179
           PVGANDAELEER+IQHL AAAAMGR R IARRE  RNR+S+Q RPQFLV S+ PN +   
Sbjct: 124 PVGANDAELEERLIQHLTAAAAMGR-RRIARREGQRNRSSAQGRPQFLVLSSQPNGSPAG 182

Query: 180 PVSSSPTHLEGEASPITTVATPSSPATGGEESTQQSTHLLS-AQADHVSASASGSSAFAS 238
            +SSSPT  EGE     T+ATPSS     E S Q  T L S A AD  SASASGSS   +
Sbjct: 183 SISSSPTQREGEPVSAITIATPSSQPL--ESSLQLITPLSSEALADPCSASASGSS--FT 238

Query: 239 GQVGNTLNNRRSPNQPSPNSQDRAGPSDFQSFSESLKSRFNAVSMRYKESISKSTRGWKE 298
            Q  N+++N RSPNQ SPNSQDRAGPSD QSFSES+KS+FNAVSMRYKESISKSTRGWKE
Sbjct: 239 NQHANSMDN-RSPNQSSPNSQDRAGPSDLQSFSESIKSKFNAVSMRYKESISKSTRGWKE 297

Query: 299 RFFSRNNTMADLGTEVRREVNAGISTVSRMMERLETRDSNSNNTTSVSSSSNNSVPELNN 358
           RFF+RN TMADLG+EVRREVNAGI+TVSRMME LETRD +   T+SVS+S + SV E N+
Sbjct: 298 RFFTRNTTMADLGSEVRREVNAGIATVSRMMESLETRDDSRTGTSSVSNSVDGSVAESNS 357

Query: 359 QQKSETADTNPMND--TNVQASCAASSGS 385
           QQ  E    N  +D  T VQAS AASSGS
Sbjct: 358 QQP-EVGVVNATSDPNTKVQASHAASSGS 385

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359481051|ref|XP_002270570.2| PREDICTED: E3 ubiquitin-protein ligase RHF2A-like [Vitis vinifera]

 Score =  513 bits (1322), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 272/388 (70%), Positives = 308/388 (79%), Gaps = 8/388 (2%)

Query: 1   MEENKQSDDAHLTSAAAFVEGGIQDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILE 60
           MEE K S++ H+TSAAAFVEGG+Q+ACDDACSICLE F +SDPSTLTSCKHEFHLQCILE
Sbjct: 6   MEEVKNSEN-HMTSAAAFVEGGVQEACDDACSICLEAFCDSDPSTLTSCKHEFHLQCILE 64

Query: 61  WCQRSSQCPMCWQPISLKDPTSQELLEAVERERSFRLNPSRNATIFRHPTLGDFELQHLP 120
           WCQRSSQCPMCWQ ISLKDPTSQELLEAVERER+ RL P R+A IF HPTLGDFELQHLP
Sbjct: 65  WCQRSSQCPMCWQSISLKDPTSQELLEAVERERNIRLTPPRSA-IFHHPTLGDFELQHLP 123

Query: 121 VGANDAELEERIIQHLAAAAAMGRARHIARRESHRNRASSQARPQFLVFSTHPNAANDDP 180
           VG ND ELEERIIQHLAAAAAMGRA HIARRE  R+R+S+  R  FLVFSTHPNA    P
Sbjct: 124 VGTNDPELEERIIQHLAAAAAMGRAHHIARREGQRSRSSAHGRSHFLVFSTHPNATASGP 183

Query: 181 VSSSPTHLEGEASPI-TTVATPSSPA-TGGEESTQQSTHLLSAQADHVSASASGSSAFAS 238
           V +S   + GE  P   TVA+PS P   GG+E +Q+     S Q DH+SASAS  SA   
Sbjct: 184 VPASLVQV-GENEPAAITVASPSIPLPAGGDEPSQEIPQFPSVQTDHMSASAS-RSAVTP 241

Query: 239 GQVGNTLNNRRSPNQPSPNSQDRAGPSDFQSFSESLKSRFNAVSMRYKESISKSTRGWKE 298
            ++  + NNR S +Q SP  QDRAGPS+ QSFSESLKSR NAVSMRYKESISKSTRGWKE
Sbjct: 242 RRI--SFNNRSSASQSSPPDQDRAGPSELQSFSESLKSRLNAVSMRYKESISKSTRGWKE 299

Query: 299 RFFSRNNTMADLGTEVRREVNAGISTVSRMMERLETRDSNSNNTTSVSSSSNNSVPELNN 358
           R FSRNN+MADLG+EVRREVNAGI++VSRMMERL+TR++N     SVSS   +SV E +N
Sbjct: 300 RLFSRNNSMADLGSEVRREVNAGIASVSRMMERLDTRENNGAGQASVSSHLADSVTEQSN 359

Query: 359 QQKSETADTNPMNDTNVQASCAASSGSN 386
           Q + ET   NP+ND+N  A+CAASSGSN
Sbjct: 360 QNERETRAENPLNDSNTPAACAASSGSN 387

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356550038|ref|XP_003543397.1| PREDICTED: E3 ubiquitin-protein ligase RHF2A-like [Glycine max]

 Score =  512 bits (1319), Expect = e-142,   Method: Compositional matrix adjust.
 Identities = 278/395 (70%), Positives = 316/395 (80%), Gaps = 11/395 (2%)

Query: 1   MEENKQSDD-----AHLTSAAAFVEGGIQDACDDACSICLEDFSESDPSTLTSCKHEFHL 55
           MEEN   +D     AHLTSAAAFVEGGIQDACDDACSICLE F +SDPST+TSCKHEFHL
Sbjct: 6   MEENNIINDDNKSEAHLTSAAAFVEGGIQDACDDACSICLEAFCDSDPSTVTSCKHEFHL 65

Query: 56  QCILEWCQRSSQCPMCWQPISLKDPTSQELLEAVERERSFRLNPSRNATIFRHPTLGDFE 115
           QCILEWCQRSSQCPMCWQPISLKDPTSQELLEAVERER+FR NPSRNATIF HPTLGDFE
Sbjct: 66  QCILEWCQRSSQCPMCWQPISLKDPTSQELLEAVERERNFRFNPSRNATIFHHPTLGDFE 125

Query: 116 LQHLPVGANDAELEERIIQHLAAAAAMGRARHIARRESHRNRASSQARPQFLVFSTHPNA 175
           LQHLPVGA+DA+LEERIIQHLAAAAAMGRARH+ARRE  RNR+S+Q R  FLVFSTHPN+
Sbjct: 126 LQHLPVGASDADLEERIIQHLAAAAAMGRARHVARREGQRNRSSAQGRQHFLVFSTHPNS 185

Query: 176 ANDDPVSSSPTHL-EGEASPITTVATPS-SPATGGEESTQQSTHLLSAQADHVSASASGS 233
               P SSSP+   + E +P   VA  S +PATG E S  Q T +   QA+ VSAS SG+
Sbjct: 186 PPMAPASSSPSQRGDDEPTPTIDVANLSPTPATGEESS--QPTLVSPVQAEQVSASGSGT 243

Query: 234 SAFASGQVGNTLNNRRSPNQPSPNSQDRAGPSDFQSFSESLKSRFNAVSMRYKESISKST 293
           +A A+   G++ NNRRSPNQ SP+SQDRAGPS+ QSFSESLKS+ NAVS RYKESISKST
Sbjct: 244 TALATDHQGSSYNNRRSPNQSSPSSQDRAGPSELQSFSESLKSKLNAVSTRYKESISKST 303

Query: 294 RGWKERFFSRNNTMADLGTEVRREVNAGISTVSRMMERLETRDSNSNNTTSVSSSSNNSV 353
           RGWKER+FSRNNTM+DLG+EVRREVNAGI+TVSRMMERLETRD+N +N+ S  S+  +  
Sbjct: 304 RGWKERWFSRNNTMSDLGSEVRREVNAGIATVSRMMERLETRDNNRSNSNSAPSNIEDGS 363

Query: 354 PELNNQQKSETADTNP--MNDTNVQASCAASSGSN 386
            + +N Q     +     + D N +ASCAA S SN
Sbjct: 364 VQGSNDQTLTAGNEGGSLVRDNNTKASCAAGSSSN 398

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356543652|ref|XP_003540274.1| PREDICTED: E3 ubiquitin-protein ligase RHF2A-like [Glycine max]

 Score =  504 bits (1298), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 277/383 (72%), Positives = 315/383 (82%), Gaps = 8/383 (2%)

Query: 9   DAHLTSAAAFVEGGIQDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQC 68
           +AHLTSAAAFVEGGIQDACDDACSICLE F +SDPST+TSCKHEFHLQCILEWCQRSSQC
Sbjct: 22  EAHLTSAAAFVEGGIQDACDDACSICLEAFCDSDPSTVTSCKHEFHLQCILEWCQRSSQC 81

Query: 69  PMCWQPISLKDPTSQELLEAVERERSFRLNPSRNATIFRHPTLGDFELQHLPVGANDAEL 128
           PMCWQPISLKDPTSQELLEAVERER+FR NPSRNATIF HPTLGDFELQHLPVGA+DA+L
Sbjct: 82  PMCWQPISLKDPTSQELLEAVERERNFRFNPSRNATIFHHPTLGDFELQHLPVGASDADL 141

Query: 129 EERIIQHLAAAAAMGRARHIARRESHRNRASSQARPQFLVFSTHPNAANDDPVSSSPTHL 188
           EERIIQHLAAAAAMGRARHIARRE  RNR+S+Q RP FLVFST+PN+    P SSSP+  
Sbjct: 142 EERIIQHLAAAAAMGRARHIARREGQRNRSSAQGRPHFLVFSTNPNSPPMAPASSSPSQ- 200

Query: 189 EGEASPITTVATPS---SPATGGEESTQQSTHLLSAQADHVSASASGSSAFASGQVGNTL 245
            G+  PI T+A  +   +PATG E S  Q T +   QA+ VSAS SGS+A A+   G++ 
Sbjct: 201 RGDDEPIPTIAVANLSPTPATGEESS--QLTLVPPIQAEQVSASGSGSTALATDHQGSSY 258

Query: 246 NNRRSPNQPSPNSQDRAGPSDFQSFSESLKSRFNAVSMRYKESISKSTRGWKERFFSRNN 305
           NNRRSPNQ SP+SQDRAGPS+ QSFSESLKS+ NAVS RYKESISKSTRGWKER+FSRNN
Sbjct: 259 NNRRSPNQSSPSSQDRAGPSELQSFSESLKSKLNAVSTRYKESISKSTRGWKERWFSRNN 318

Query: 306 TMADLGTEVRREVNAGISTVSRMMERLETRDSNSNNTTSVSSS-SNNSVPELNNQQKSET 364
           TM+DLG+EVRREVNAGI+TVSRMMERLET D+N +N+ S  S+  + SV E N Q  +  
Sbjct: 319 TMSDLGSEVRREVNAGIATVSRMMERLETSDNNRSNSNSAPSNIEDGSVQEYNGQTLTPG 378

Query: 365 ADTNP-MNDTNVQASCAASSGSN 386
            + +  + D N +ASCAA S SN
Sbjct: 379 NEGDGLLRDNNTKASCAAGSSSN 401

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255637379|gb|ACU19018.1| unknown [Glycine max]

 Score =  500 bits (1288), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 275/383 (71%), Positives = 313/383 (81%), Gaps = 8/383 (2%)

Query: 9   DAHLTSAAAFVEGGIQDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQC 68
           +AHLTSAAAFVEGGIQDACDDACSICLE F +SDPST+TSCKHEFHLQCILEWCQRSSQC
Sbjct: 22  EAHLTSAAAFVEGGIQDACDDACSICLEAFCDSDPSTVTSCKHEFHLQCILEWCQRSSQC 81

Query: 69  PMCWQPISLKDPTSQELLEAVERERSFRLNPSRNATIFRHPTLGDFELQHLPVGANDAEL 128
           PMCWQPISLKDPTSQELLEAVERER+FR NPSRNATIF HPTLGDFELQHLPVGA+DA+L
Sbjct: 82  PMCWQPISLKDPTSQELLEAVERERNFRFNPSRNATIFHHPTLGDFELQHLPVGASDADL 141

Query: 129 EERIIQHLAAAAAMGRARHIARRESHRNRASSQARPQFLVFSTHPNAANDDPVSSSPTHL 188
           EERIIQHLAAAAAMGRARHIARRE  RNR+S+Q RP FL FST+PN+    P SSSP+  
Sbjct: 142 EERIIQHLAAAAAMGRARHIARREGQRNRSSAQGRPHFLAFSTNPNSPPMAPASSSPSQ- 200

Query: 189 EGEASPITTVATPS---SPATGGEESTQQSTHLLSAQADHVSASASGSSAFASGQVGNTL 245
            G+  PI T+A  +   +PATG E S  Q T +   QA+ VSAS SGS+A A+   G++ 
Sbjct: 201 RGDDEPIPTIAVANLSPTPATGEESS--QLTLVPPIQAEQVSASGSGSTALATDHQGSSY 258

Query: 246 NNRRSPNQPSPNSQDRAGPSDFQSFSESLKSRFNAVSMRYKESISKSTRGWKERFFSRNN 305
           NNRRSPNQ SP+SQDRAGPS+ QSFSESLKS+ NAVS RYKESISKSTRGWKER+FSRNN
Sbjct: 259 NNRRSPNQSSPSSQDRAGPSELQSFSESLKSKLNAVSTRYKESISKSTRGWKERWFSRNN 318

Query: 306 TMADLGTEVRREVNAGISTVSRMMERLETRDSNSNNTTSVSSS-SNNSVPELNNQQKSET 364
           TM+DLG+EVRREVNAGI+TVSRMMERLET D+N +N+ S  S+  + SV E N Q  +  
Sbjct: 319 TMSDLGSEVRREVNAGIATVSRMMERLETSDNNRSNSNSAPSNIEDGSVQEYNGQTLTPG 378

Query: 365 ADTNP-MNDTNVQASCAASSGSN 386
            + +  + D N +ASCAA   SN
Sbjct: 379 NEGDGLLRDNNTKASCAAGFSSN 401

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357453313|ref|XP_003596933.1| RING finger protein [Medicago truncatula] gi|355485981|gb|AES67184.1| RING finger protein [Medicago truncatula]

 Score =  494 bits (1272), Expect = e-137,   Method: Compositional matrix adjust.
 Identities = 261/388 (67%), Positives = 309/388 (79%), Gaps = 14/388 (3%)

Query: 1   MEENKQSDDAHLTSAAAFVEGGIQDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILE 60
           +EEN+   +AHLTSAAAFVEGGIQDACDD+CSICLE+F +SDPST+TSCKHEFHLQCILE
Sbjct: 7   IEENETKSEAHLTSAAAFVEGGIQDACDDSCSICLEEFIDSDPSTVTSCKHEFHLQCILE 66

Query: 61  WCQRSSQCPMCWQPISLKDPTSQELLEAVERERSFRLNPSRNATIFRHPTLGDFELQHLP 120
           WCQRSSQCPMCWQ ISLKDPT QELLEAVERER+ R NP+RNATIF HPTLGDFELQHLP
Sbjct: 67  WCQRSSQCPMCWQSISLKDPTGQELLEAVERERNIRFNPTRNATIFHHPTLGDFELQHLP 126

Query: 121 VGANDAELEERIIQHLAAAAAMGRARHIARRESHRNRASSQARPQFLVFSTHPNAANDDP 180
           VGANDA+LEERI+QH AAAAAMGRARHIARRE  RNR+S+Q RPQ++VFS HPN+    P
Sbjct: 127 VGANDADLEERILQHFAAAAAMGRARHIARREGQRNRSSAQGRPQYMVFSAHPNSPPMAP 186

Query: 181 VSSSPTHL-EGEASPITTVATPSSPATGGEESTQQSTHLLSAQADHVSASASGSSAFASG 239
            SSSP    +GE +P T           GEE  Q  T +   Q D VSAS SGS+A A+ 
Sbjct: 187 ASSSPPQRGDGEQTPAT-----------GEEPPQL-TLVPPVQTDQVSASGSGSAALATD 234

Query: 240 QVGNTLNNRRSPNQPSPNSQDRAGPSDFQSFSESLKSRFNAVSMRYKESISKSTRGWKER 299
            +G + N+RRSPNQ SP+SQDRAGPS+ QSFSESLKS+ NAVS RYKESISKSTRGWKER
Sbjct: 235 NLGLSYNSRRSPNQSSPSSQDRAGPSELQSFSESLKSKLNAVSTRYKESISKSTRGWKER 294

Query: 300 FFSRNNTMADLGTEVRREVNAGISTVSRMMERLETRDSN-SNNTTSVSSSSNNSVPELNN 358
           +FSR + M+DLG+EV+REVNAGI+TVSRMMERLETRD+N S++ T+ S+ ++  +   ++
Sbjct: 295 WFSRTSPMSDLGSEVKREVNAGIATVSRMMERLETRDNNRSSSDTAPSNLADGPIQGSSD 354

Query: 359 QQKSETADTNPMNDTNVQASCAASSGSN 386
           Q  ++T   +P+ D N + SC A S SN
Sbjct: 355 QHLTDTERDSPLRDNNSKTSCTAGSSSN 382

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357453317|ref|XP_003596935.1| RING finger protein [Medicago truncatula] gi|355485983|gb|AES67186.1| RING finger protein [Medicago truncatula]

 Score =  489 bits (1260), Expect = e-136,   Method: Compositional matrix adjust.
 Identities = 261/389 (67%), Positives = 309/389 (79%), Gaps = 15/389 (3%)

Query: 1   MEENKQSDDAHLTSAAAFVEGGIQDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILE 60
           +EEN+   +AHLTSAAAFVEGGIQDACDD+CSICLE+F +SDPST+TSCKHEFHLQCILE
Sbjct: 7   IEENETKSEAHLTSAAAFVEGGIQDACDDSCSICLEEFIDSDPSTVTSCKHEFHLQCILE 66

Query: 61  WCQRSSQCPMCWQPISLKDPTSQELLEAVERERSFRLNPSRNATIFRHPTLGDFELQHLP 120
           WCQRSSQCPMCWQ ISLKDPT QELLEAVERER+ R NP+RNATIF HPTLGDFELQHLP
Sbjct: 67  WCQRSSQCPMCWQSISLKDPTGQELLEAVERERNIRFNPTRNATIFHHPTLGDFELQHLP 126

Query: 121 VGANDAELEERIIQHLAAAAAMGRARHIARRESHRNRASSQARPQFLVFSTHPNAANDDP 180
           VGANDA+LEERI+QH AAAAAMGRARHIARRE  RNR+S+Q RPQ++VFS HPN+    P
Sbjct: 127 VGANDADLEERILQHFAAAAAMGRARHIARREGQRNRSSAQGRPQYMVFSAHPNSPPMAP 186

Query: 181 VSSSPTHL-EGEASPITTVATPSSPATGGEESTQQSTHLLSAQADHVSASASGSSAFASG 239
            SSSP    +GE +P T           GEE  Q  T +   Q D VSAS SGS+A A+ 
Sbjct: 187 ASSSPPQRGDGEQTPAT-----------GEEPPQL-TLVPPVQTDQVSASGSGSAALATD 234

Query: 240 QVGNTLN-NRRSPNQPSPNSQDRAGPSDFQSFSESLKSRFNAVSMRYKESISKSTRGWKE 298
            +G + N +RRSPNQ SP+SQDRAGPS+ QSFSESLKS+ NAVS RYKESISKSTRGWKE
Sbjct: 235 NLGLSYNSSRRSPNQSSPSSQDRAGPSELQSFSESLKSKLNAVSTRYKESISKSTRGWKE 294

Query: 299 RFFSRNNTMADLGTEVRREVNAGISTVSRMMERLETRDSN-SNNTTSVSSSSNNSVPELN 357
           R+FSR + M+DLG+EV+REVNAGI+TVSRMMERLETRD+N S++ T+ S+ ++  +   +
Sbjct: 295 RWFSRTSPMSDLGSEVKREVNAGIATVSRMMERLETRDNNRSSSDTAPSNLADGPIQGSS 354

Query: 358 NQQKSETADTNPMNDTNVQASCAASSGSN 386
           +Q  ++T   +P+ D N + SC A S SN
Sbjct: 355 DQHLTDTERDSPLRDNNSKTSCTAGSSSN 383

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224138254|ref|XP_002322768.1| predicted protein [Populus trichocarpa] gi|222867398|gb|EEF04529.1| predicted protein [Populus trichocarpa]

 Score =  482 bits (1241), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 249/375 (66%), Positives = 290/375 (77%), Gaps = 5/375 (1%)

Query: 1   MEENKQSDDAHLTSAAAFVEGGIQDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILE 60
           M+E K+ +  H+TSAAAFVEGGIQD+CDDACSICLE+F ESDPST+T+CKHEFHLQCILE
Sbjct: 1   MDEAKKPE-VHMTSAAAFVEGGIQDSCDDACSICLEEFCESDPSTVTNCKHEFHLQCILE 59

Query: 61  WCQRSSQCPMCWQPISLKDPTSQELLEAVERERSFRLNPSRNATIFRHPTLGDFELQHLP 120
           WCQRSS+CPMC Q ISLKDPTSQEL EAVERER  R  PSRNATIF HPTLGDFELQHLP
Sbjct: 60  WCQRSSECPMCLQSISLKDPTSQELFEAVERERKIRAAPSRNATIFHHPTLGDFELQHLP 119

Query: 121 VGANDAELEERIIQHLAAAAAMGRARHIARRESHRNRASSQARPQFLVFSTHPNAANDDP 180
           VG +D+ELEERIIQHLAAAAAMGR RH  RRE  RNR SS  RP FLVFSTHP A     
Sbjct: 120 VGVSDSELEERIIQHLAAAAAMGRTRHFGRREGQRNRTSSHGRPHFLVFSTHPGAQPSGH 179

Query: 181 VSSSPTHLEGEASPI-TTVATPSSPATG-GEESTQQSTHLLSAQADHVSASASGSSAFAS 238
           VSSS T L GE  P   +VA+PS+  T  G+E  QQ+    S   D  S+SASGS+A  +
Sbjct: 180 VSSSLTQLGGENEPAPVSVASPSTQLTSVGDEPPQQALQSPSVLTDQ-SSSASGSTAMPA 238

Query: 239 GQVGNTLNNRRSPNQPSPNSQDRAGPSDFQSFSESLKSRFNAVSMRYKESISKSTRGWKE 298
              G + NNR + +Q S  +QDRAGPS+ QSFSESLKSR NAVSMRYKESIS+STRGWKE
Sbjct: 239 NNQGVSFNNRSASSQSSLPNQDRAGPSELQSFSESLKSRLNAVSMRYKESISRSTRGWKE 298

Query: 299 RFFSRNNTMADLGTEVRREVNAGISTVSRMMERLETRDSNSNNTTSVSSS-SNNSVPELN 357
           R FSRN++M+D+ ++VRREVNAGI+TVSRMMERLETRD   +N  SVS+  ++ S  E +
Sbjct: 299 RLFSRNSSMSDISSDVRREVNAGIATVSRMMERLETRDDGGDNQVSVSNHLTDRSNVERS 358

Query: 358 NQQKSETADTNPMND 372
           NQ  + T   +P+N+
Sbjct: 359 NQNTAATHIESPLNE 373

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296089345|emb|CBI39117.3| unnamed protein product [Vitis vinifera]

 Score =  478 bits (1231), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 250/349 (71%), Positives = 281/349 (80%), Gaps = 8/349 (2%)

Query: 1   MEENKQSDDAHLTSAAAFVEGGIQDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILE 60
           MEE K S++ H+TSAAAFVEGG+Q+ACDDACSICLE F +SDPSTLTSCKHEFHLQCILE
Sbjct: 6   MEEVKNSEN-HMTSAAAFVEGGVQEACDDACSICLEAFCDSDPSTLTSCKHEFHLQCILE 64

Query: 61  WCQRSSQCPMCWQPISLKDPTSQELLEAVERERSFRLNPSRNATIFRHPTLGDFELQHLP 120
           WCQRSSQCPMCWQ ISLKDPTSQELLEAVERER+ RL P R+A IF HPTLGDFELQHLP
Sbjct: 65  WCQRSSQCPMCWQSISLKDPTSQELLEAVERERNIRLTPPRSA-IFHHPTLGDFELQHLP 123

Query: 121 VGANDAELEERIIQHLAAAAAMGRARHIARRESHRNRASSQARPQFLVFSTHPNAANDDP 180
           VG ND ELEERIIQHLAAAAAMGRA HIARRE  R+R+S+  R  FLVFSTHPNA    P
Sbjct: 124 VGTNDPELEERIIQHLAAAAAMGRAHHIARREGQRSRSSAHGRSHFLVFSTHPNATASGP 183

Query: 181 VSSSPTHLEGEASP-ITTVATPSSPA-TGGEESTQQSTHLLSAQADHVSASASGSSAFAS 238
           V +S   + GE  P   TVA+PS P   GG+E +Q+     S Q DH+SASAS  SA   
Sbjct: 184 VPASLVQV-GENEPAAITVASPSIPLPAGGDEPSQEIPQFPSVQTDHMSASAS-RSAVTP 241

Query: 239 GQVGNTLNNRRSPNQPSPNSQDRAGPSDFQSFSESLKSRFNAVSMRYKESISKSTRGWKE 298
            ++  + NNR S +Q SP  QDRAGPS+ QSFSESLKSR NAVSMRYKESISKSTRGWKE
Sbjct: 242 RRI--SFNNRSSASQSSPPDQDRAGPSELQSFSESLKSRLNAVSMRYKESISKSTRGWKE 299

Query: 299 RFFSRNNTMADLGTEVRREVNAGISTVSRMMERLETRDSNSNNTTSVSS 347
           R FSRNN+MADLG+EVRREVNAGI++VSRMMERL+TR++N     SVS+
Sbjct: 300 RLFSRNNSMADLGSEVRREVNAGIASVSRMMERLDTRENNGAGQASVST 348

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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	386
TAIR|locus:2129525	371	RHF1A "RING-H2 group F1A" [Ara	0.316	0.328	0.48	2.5e-43
TAIR|locus:505006415	190	RHB1A "RING-H2 finger B1A" [Ar	0.142	0.289	0.454	1.3e-11
FB|FBgn0038627	147	CG7694 [Drosophila melanogaste	0.170	0.448	0.394	2.7e-09
UNIPROTKB|E1BQX5	716	E1BQX5 "Uncharacterized protei	0.235	0.127	0.377	6.2e-09
TAIR|locus:2076542	231	AT3G02290 [Arabidopsis thalian	0.113	0.190	0.477	7e-09
TAIR|locus:2177881	212	AT5G41350 [Arabidopsis thalian	0.165	0.301	0.405	8.9e-09
MGI|MGI:1916117	155	Rnf122 "ring finger protein 12	0.142	0.354	0.4	9.5e-09
RGD|1561238	95	RGD1561238 "similar to ring fi	0.142	0.578	0.4	9.5e-09
ZFIN|ZDB-GENE-080303-32	155	zgc:175214 "zgc:175214" [Danio	0.155	0.387	0.377	1.6e-08
TAIR|locus:2143251	232	AT5G15790 [Arabidopsis thalian	0.113	0.189	0.477	1.8e-08

TAIR|locus:2129525 RHF1A "RING-H2 group F1A" [Arabidopsis thaliana (taxid:3702)]

 Score = 304 (112.1 bits), Expect = 2.5e-43, Sum P(2) = 2.5e-43
 Identities = 60/125 (48%), Positives = 82/125 (65%)

Query:    13 TSAAAFVEGGIQDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCW 72
             +S+A  V     +  DDACSICLE F+  DPST+TSCKHE+HLQCI+EW QRS +CP+CW
Sbjct:    28 SSSALVVASDDDNNTDDACSICLEPFTLQDPSTVTSCKHEYHLQCIIEWSQRSKECPICW 87

Query:    73 QPISLKDPTSQELLEAVERERSFRL-NPSRNATIFRHPTLGDFELQHLPVGANDAELEER 131
             Q   L+DP SQELL AVE+ER  +  N S ++ I  H +  DF  +     +  +  +E+
Sbjct:    88 QLFVLRDPASQELLAAVEKERLLKTRNISSSSPISIHHSHDDFHSEEEE--SQFSSFDEQ 145

Query:   132 IIQHL 136
              ++HL
Sbjct:   146 FLRHL 150

GO:0005634 "nucleus" evidence=ISM

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

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

GO:0016020 "membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0009561 "megagametogenesis" evidence=IGI

GO:0010498 "proteasomal protein catabolic process" evidence=IDA

GO:0016567 "protein ubiquitination" evidence=IDA

GO:0051726 "regulation of cell cycle" evidence=IGI

GO:0055046 "microgametogenesis" evidence=IGI

GO:0000165 "MAPK cascade" evidence=RCA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=RCA

GO:0006612 "protein targeting to membrane" evidence=RCA

GO:0009617 "response to bacterium" evidence=RCA

GO:0009862 "systemic acquired resistance, salicylic acid mediated signaling pathway" evidence=RCA

GO:0009867 "jasmonic acid mediated signaling pathway" evidence=RCA

GO:0010310 "regulation of hydrogen peroxide metabolic process" evidence=RCA

GO:0010363 "regulation of plant-type hypersensitive response" evidence=RCA

GO:0031348 "negative regulation of defense response" evidence=RCA

GO:0035304 "regulation of protein dephosphorylation" evidence=RCA

TAIR|locus:505006415 RHB1A "RING-H2 finger B1A" [Arabidopsis thaliana (taxid:3702)]

 Score = 163 (62.4 bits), Expect = 1.3e-11, P = 1.3e-11
 Identities = 25/55 (45%), Positives = 35/55 (63%)

Query:    25 DACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKD 79
             D  +D C IC ED+   +P   T C+HEFHL C+LEW +RS +CP+C + +   D
Sbjct:   133 DEEEDCCPICFEDYDVENPRLTTKCEHEFHLSCLLEWIERSDRCPICDKEVVFDD 187

GO:0005634 "nucleus" evidence=ISM

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

GO:0048573 "photoperiodism, flowering" evidence=RCA

FB|FBgn0038627 CG7694 [Drosophila melanogaster (taxid:7227)]

 Score = 142 (55.0 bits), Expect = 2.7e-09, P = 2.7e-09
 Identities = 28/71 (39%), Positives = 38/71 (53%)

Query:    28 DDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPTSQELL- 86
             D  CS+C E   E     +  CKHEFH +CIL W ++++ CP+C   +   DP  +EL  
Sbjct:    67 DLECSVCKEPAEEGQKYRILPCKHEFHEECILLWLKKTNSCPLCRYELETDDPVYEELRR 126

Query:    87 ----EAVERER 93
                 EA  RER
Sbjct:   127 FRQDEANRRER 137

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|E1BQX5 E1BQX5 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 163 (62.4 bits), Expect = 6.2e-09, P = 6.2e-09
 Identities = 37/98 (37%), Positives = 50/98 (51%)

Query:    26 ACDDA--CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPTSQ 83
             +C  A  C+ICLE+F+E     + SC HEFH +C+  W Q+   CP+C   I  +D   Q
Sbjct:   257 SCSSAPVCAICLEEFTEGQELRIISCSHEFHRECVDPWLQQHHTCPLCMFNILARDSVDQ 316

Query:    84 ELLEAVERERSFRLNPSRNATIFR-HPTLGDFELQHLP 120
               + A  R     + P R   +FR HP  G   L HLP
Sbjct:   317 ATV-AGSRLAPRDMEPGRRLHLFRQHP--GH-SLYHLP 350

GO:0008270 "zinc ion binding" evidence=IEA

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

GO:0005109 "frizzled binding" evidence=IEA

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

GO:0038018 "Wnt receptor catabolic process" evidence=IEA

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

GO:0072089 "stem cell proliferation" evidence=IEA

TAIR|locus:2076542 AT3G02290 [Arabidopsis thaliana (taxid:3702)]

 Score = 151 (58.2 bits), Expect = 7.0e-09, P = 7.0e-09
 Identities = 21/44 (47%), Positives = 29/44 (65%)

Query:    28 DDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMC 71
             +D C  CLE+++  +P  +T C H FHL CI EW +RS  CP+C
Sbjct:   178 EDVCPTCLEEYTSENPKIVTKCSHHFHLSCIYEWMERSENCPVC 221

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2177881 AT5G41350 [Arabidopsis thaliana (taxid:3702)]

 Score = 147 (56.8 bits), Expect = 8.9e-09, P = 8.9e-09
 Identities = 28/69 (40%), Positives = 41/69 (59%)

Query:     3 ENKQSDDAHLTSAAAFVEGGIQDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWC 62
             E+ +  D  L S A F+   I++  ++ C ICLE++   +P  +  C H FHL CILEW 
Sbjct:   138 ESTEEIDPKL-SKAVFIP--IEE--EEDCPICLEEYDIENPKLVAKCDHHFHLACILEWM 192

Query:    63 QRSSQCPMC 71
             +RS  CP+C
Sbjct:   193 ERSETCPVC 201

GO:0005634 "nucleus" evidence=ISM

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

GO:0005739 "mitochondrion" evidence=IDA

GO:0006914 "autophagy" evidence=RCA

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=RCA

MGI|MGI:1916117 Rnf122 "ring finger protein 122" [Mus musculus (taxid:10090)]

 Score = 137 (53.3 bits), Expect = 9.5e-09, P = 9.5e-09
 Identities = 22/55 (40%), Positives = 34/55 (61%)

Query:    31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPTSQEL 85
             C++CLEDF   D   +  C+H FH +C+++W +    CPMC +PI+    TSQ +
Sbjct:    93 CAVCLEDFKGKDELGVLPCQHAFHRKCLVKWLEVRCVCPMCNKPIAGPTETSQSI 147

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0005783 "endoplasmic reticulum" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

RGD|1561238 RGD1561238 "similar to ring finger protein 122 homolog" [Rattus norvegicus (taxid:10116)]

 Score = 137 (53.3 bits), Expect = 9.5e-09, P = 9.5e-09
 Identities = 22/55 (40%), Positives = 34/55 (61%)

Query:    31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPTSQEL 85
             C++CLEDF   D   +  C+H FH +C+++W +    CPMC +PI+    TSQ +
Sbjct:    33 CAVCLEDFKGKDELGVLPCQHAFHRKCLVKWLEVRCVCPMCNKPIAGPTETSQSI 87

GO:0008270 "zinc ion binding" evidence=IEA

ZFIN|ZDB-GENE-080303-32 zgc:175214 "zgc:175214" [Danio rerio (taxid:7955)]

 Score = 135 (52.6 bits), Expect = 1.6e-08, P = 1.6e-08
 Identities = 23/61 (37%), Positives = 37/61 (60%)

Query:    31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPIS-LKDPTSQELLEAV 89
             C++CLE+F   D   +  C H FH +C+L+W +  S CPMC +PI  L++P +    E +
Sbjct:    90 CAVCLEEFKTRDELGVCPCSHTFHKKCLLKWLEIRSVCPMCNKPIMRLQNPDAPRGAEGL 149

Query:    90 E 90
             +
Sbjct:   150 Q 150

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0046872 "metal ion binding" evidence=IEA

TAIR|locus:2143251 AT5G15790 [Arabidopsis thaliana (taxid:3702)]

 Score = 148 (57.2 bits), Expect = 1.8e-08, P = 1.8e-08
 Identities = 21/44 (47%), Positives = 28/44 (63%)

Query:    28 DDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMC 71
             +D C  CLE++   +P  +T C H FHL CI EW +RS  CP+C
Sbjct:   179 EDVCPTCLEEYISENPKIVTKCSHHFHLSCIYEWMERSENCPVC 222

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9ZT42	RHF2A_ARATH	6, ., 3, ., 2, ., -	0.6192	0.8989	0.9253	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

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

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: estExt_fgenesh4_pg.C_LG_I1200 hypothetical protein (386 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	386
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	4e-14
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	2e-13
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	6e-12
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	1e-10
smart00184	40	smart00184, RING, Ring finger	2e-09
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	6e-09
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	1e-08
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	6e-07
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	2e-06
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	3e-06
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	3e-04
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	0.003

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

 Score = 65.5 bits (160), Expect = 4e-14
 Identities = 15/41 (36%), Positives = 25/41 (60%)

Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMC 71
          C ICL++F   +   +  C H FH +C+ +W + S+ CP+C
Sbjct: 3  CPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSNTCPLC 43

Length = 46

>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 = 63.6 bits (155), Expect = 2e-13
 Identities = 19/46 (41%), Positives = 25/46 (54%), Gaps = 3/46 (6%)

Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQR-SSQCPMCWQPI 75
          C ICLE+F   +P  L  C H F   CI +W +   + CP+C  PI
Sbjct: 2  CPICLEEFR--EPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

>gnl|CDD|221705 pfam12678, zf-rbx1, RING-H2 zinc finger

 Score = 60.5 bits (147), Expect = 6e-12
 Identities = 19/57 (33%), Positives = 23/57 (40%), Gaps = 10/57 (17%)

Query: 25 DACDDACSICLEDFSE-----SDPST-----LTSCKHEFHLQCILEWCQRSSQCPMC 71
          D  DD C+IC   F         P          C H FHL CI  W +  + CP+C
Sbjct: 16 DIEDDVCAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLC 72

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

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

 Score = 56.0 bits (135), Expect = 1e-10
 Identities = 18/44 (40%), Positives = 26/44 (59%), Gaps = 2/44 (4%)

Query: 28 DDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMC 71
          +  C ICL+     DP  LT C H F  +CIL + ++ S+CP+C
Sbjct: 2  ELECPICLDLLR--DPVVLTPCGHVFCRECILRYLKKKSKCPIC 43

Length = 45

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

 Score = 52.1 bits (125), Expect = 2e-09
 Identities = 16/42 (38%), Positives = 24/42 (57%), Gaps = 3/42 (7%)

Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWC-QRSSQCPMC 71
          C ICLE++ + DP  +  C H F   CI +W    ++ CP+C
Sbjct: 1  CPICLEEYLK-DP-VILPCGHTFCRSCIRKWLESGNNTCPIC 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|193335 pfam12861, zf-Apc11, Anaphase-promoting complex subunit 11 RING-H2 finger

 Score = 52.5 bits (126), Expect = 6e-09
 Identities = 21/67 (31%), Positives = 26/67 (38%), Gaps = 13/67 (19%)

Query: 26 ACDDACSICLEDFSESDPS----------TLTSCKHEFHLQCILEWCQRSS---QCPMCW 72
            DD C IC   F  + P               CKH FH+ CIL+W    +    CPMC 
Sbjct: 19 PSDDVCGICRVSFDGTCPQCKFPGDDCPLVWGKCKHNFHMHCILKWLATETSKGLCPMCR 78

Query: 73 QPISLKD 79
          Q     +
Sbjct: 79 QTFVFAE 85

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

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

 Score = 49.8 bits (119), Expect = 1e-08
 Identities = 18/42 (42%), Positives = 24/42 (57%), Gaps = 3/42 (7%)

Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQ-RSSQCPMC 71
          C ICLE+    DP T+  C H F  +CIL W +  +  CP+C
Sbjct: 1  CPICLEEPK--DPVTILPCGHLFCSKCILSWLESGNVTCPLC 40

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

>gnl|CDD|227827 COG5540, COG5540, RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

 Score = 50.8 bits (121), Expect = 6e-07
 Identities = 16/46 (34%), Positives = 28/46 (60%), Gaps = 1/46 (2%)

Query: 31  CSICLEDFSESDPSTLTSCKHEFHLQCILEWC-QRSSQCPMCWQPI 75
           C+IC+ +F ++D   +  C H FH+ C+ +W    S++CP+C   I
Sbjct: 326 CAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAI 371

Length = 374

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

 Score = 45.2 bits (107), Expect = 2e-06
 Identities = 17/66 (25%), Positives = 20/66 (30%), Gaps = 13/66 (19%)

Query: 29 DACSICLEDFSESDPS-------------TLTSCKHEFHLQCILEWCQRSSQCPMCWQPI 75
          D C+IC      + P                  C H FH  CI  W      CP+  Q  
Sbjct: 21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTW 80

Query: 76 SLKDPT 81
           L D  
Sbjct: 81 VLADGG 86

Length = 88

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

 Score = 48.8 bits (116), Expect = 3e-06
 Identities = 18/59 (30%), Positives = 27/59 (45%), Gaps = 12/59 (20%)

Query: 28  DDACSICLEDFSESD-----------PSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPI 75
           D  C+IC+++    D           P  L  C H  HL C+  W +R   CP+C +P+
Sbjct: 287 DRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPV 344

Length = 491

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

 Score = 41.7 bits (98), Expect = 3e-04
 Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 5/49 (10%)

Query: 28  DDACSICLEDFSESDPST-----LTSCKHEFHLQCILEWCQRSSQCPMC 71
           D  C+IC+E   + +        L++C H F ++CI  W +  + CP+C
Sbjct: 174 DKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVC 222

Length = 238

>gnl|CDD|227544 COG5219, COG5219, Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

 Score = 39.7 bits (92), Expect = 0.003
 Identities = 18/47 (38%), Positives = 27/47 (57%), Gaps = 6/47 (12%)

Query: 31   CSIC---LEDFSESDPS-TLTSCKHEFHLQCILEWCQRS--SQCPMC 71
            C+IC   L+    S PS    +CK++FH +C+ +W   S  S CP+C
Sbjct: 1472 CAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLC 1518

Length = 1525

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	386
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.26
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.08
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.0
PHA02929	238	N1R/p28-like protein; Provisional	98.96
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	98.96
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	98.95
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.93
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.89
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.87
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.85
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.8
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.8
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.77
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.75
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	98.71
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	98.7
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.69
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	98.67
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.66
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.65
PHA02926	242	zinc finger-like protein; Provisional	98.65
PF14634	44	zf-RING_5: zinc-RING finger domain	98.56
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.54
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.49
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.46
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.42
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.41
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.27
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.27
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.27
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.26
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.25
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.24
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.16
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	97.75
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.74
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	97.71
KOG2660	331	consensus Locus-specific chromosome binding protei	97.69
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.68
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	97.64
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.61
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.59
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	97.55
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	97.5
COG5219	1525	Uncharacterized conserved protein, contains RING Z	97.47
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.46
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.35
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	97.33
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	97.32
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.32
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	97.22
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.1
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	97.05
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.02
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	96.95
KOG0297	391	consensus TNF receptor-associated factor [Signal t	96.95
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	96.76
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	96.75
COG5152	259	Uncharacterized conserved protein, contains RING a	96.67
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	96.55
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	96.25
KOG1002	791	consensus Nucleotide excision repair protein RAD16	96.12
COG5175	480	MOT2 Transcriptional repressor [Transcription]	95.91
KOG3039	303	consensus Uncharacterized conserved protein [Funct	95.79
KOG1941	518	consensus Acetylcholine receptor-associated protei	95.75
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	95.7
COG5236	493	Uncharacterized conserved protein, contains RING Z	95.64
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	95.46
PF04641	260	Rtf2: Rtf2 RING-finger	95.38
COG5222	427	Uncharacterized conserved protein, contains RING Z	95.34
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	95.31
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	95.18
KOG4739	233	consensus Uncharacterized protein involved in syna	95.11
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	94.89
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	94.75
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	94.16
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	94.04
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.03
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	93.85
KOG1940	276	consensus Zn-finger protein [General function pred	93.69
PHA03096	284	p28-like protein; Provisional	93.69
PHA02862	156	5L protein; Provisional	93.47
PHA02825	162	LAP/PHD finger-like protein; Provisional	93.25
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	92.97
KOG1001	674	consensus Helicase-like transcription factor HLTF/	92.96
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	92.42
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	92.11
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	92.03
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	91.69
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	91.62
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	91.57
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	91.53
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	91.5
KOG0298	1394	consensus DEAD box-containing helicase-like transc	91.46
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	91.18
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	90.56
KOG3002	299	consensus Zn finger protein [General function pred	90.37
KOG4367	699	consensus Predicted Zn-finger protein [Function un	88.42
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	87.52
KOG3899	381	consensus Uncharacterized conserved protein [Funct	85.85
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	84.77
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	84.39
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	83.49
KOG0825	1134	consensus PHD Zn-finger protein [General function	82.51
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	82.37
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	82.19
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	81.95
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	80.78
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	80.73
COG5109	396	Uncharacterized conserved protein, contains RING Z	80.42

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

Probab=99.26  E-value=2.2e-12  Score=92.13  Aligned_cols=44  Identities=43%  Similarity=1.096  Sum_probs=39.2

Q ss_pred             CccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCcc
Q 016591           29 DACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCW   72 (386)
Q Consensus        29 ~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR   72 (386)
                      +.|+||++.|..++.+..++|+|.||..||..|++.+..||+||
T Consensus         1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence            46999999997777888889999999999999999999999997

...

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

Probab=99.08  E-value=5.2e-11  Score=119.15  Aligned_cols=49  Identities=39%  Similarity=1.007  Sum_probs=44.6

Q ss_pred             CccccccccccCCCCceeccCCccccHHHHHHHHhcC-CCCCCccccCCC
Q 016591           29 DACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRS-SQCPMCWQPISL   77 (386)
Q Consensus        29 ~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s-~~CPlCR~~i~~   77 (386)
                      +.|+||+|+|..++.+++|||+|.||..||..|+... ..||+|++.+..
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            5999999999999999999999999999999999866 559999997753

>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=99.00  E-value=3.1e-10  Score=90.07  Aligned_cols=46  Identities=37%  Similarity=1.006  Sum_probs=36.5

Q ss_pred             CCCccccccccccC----------CCCceeccCCccccHHHHHHHHhcCCCCCCcc
Q 016591           27 CDDACSICLEDFSE----------SDPSTLTSCKHEFHLQCILEWCQRSSQCPMCW   72 (386)
Q Consensus        27 ed~~C~ICle~f~~----------~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR   72 (386)
                      .++.|+||++.|.+          ..++.+..|+|.||..||..|++...+||+||
T Consensus        18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            35569999999922          23356668999999999999999999999997

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 ....

>PHA02929 N1R/p28-like protein; Provisional

Probab=98.96  E-value=4.4e-10  Score=107.78  Aligned_cols=53  Identities=30%  Similarity=0.838  Sum_probs=43.1

Q ss_pred             CccCCCccccccccccCCCC-----ceeccCCccccHHHHHHHHhcCCCCCCccccCC
Q 016591           24 QDACDDACSICLEDFSESDP-----STLTSCKHEFHLQCILEWCQRSSQCPMCWQPIS   76 (386)
Q Consensus        24 qd~ed~~C~ICle~f~~~~p-----v~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~   76 (386)
                      +...+.+|+||++.+.....     ..+++|+|.||..||..|+..+.+||+||..+.
T Consensus       170 ~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~  227 (238)
T PHA02929        170 NRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI  227 (238)
T ss_pred             cCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence            44567899999998743221     355689999999999999999999999999875

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

Probab=98.96  E-value=3.6e-10  Score=109.81  Aligned_cols=53  Identities=34%  Similarity=0.871  Sum_probs=45.5

Q ss_pred             CccCCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCCCC
Q 016591           24 QDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKD   79 (386)
Q Consensus        24 qd~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~kd   79 (386)
                      ..+.+..|.||++..   ..+..++|||.||+.||.+|+..+..||+||..+.+.+
T Consensus       235 i~~a~~kC~LCLe~~---~~pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~psk  287 (293)
T KOG0317|consen  235 IPEATRKCSLCLENR---SNPSATPCGHIFCWSCILEWCSEKAECPLCREKFQPSK  287 (293)
T ss_pred             CCCCCCceEEEecCC---CCCCcCcCcchHHHHHHHHHHccccCCCcccccCCCcc
Confidence            345568899999986   45677799999999999999999999999999987653

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=98.95  E-value=4.5e-10  Score=104.26  Aligned_cols=55  Identities=31%  Similarity=0.718  Sum_probs=43.7

Q ss_pred             CCCccCCCccccccccccCCCCceeccCCccccHHHHHHHHhc----------------CCCCCCccccCCCCC
Q 016591           22 GIQDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQR----------------SSQCPMCWQPISLKD   79 (386)
Q Consensus        22 ~iqd~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~----------------s~~CPlCR~~i~~kd   79 (386)
                      .++...+.+|+||++.+  .+ +++++|+|.||+.||..|+..                ...||+||..+....
T Consensus        12 ~~~~~~~~~CpICld~~--~d-PVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~   82 (193)
T PLN03208         12 LVDSGGDFDCNICLDQV--RD-PVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEAT   82 (193)
T ss_pred             eccCCCccCCccCCCcC--CC-cEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhc
Confidence            34556689999999998  44 455699999999999999842                247999999987543

>smart00504 Ubox Modified RING finger domain

Probab=98.93  E-value=1.5e-09  Score=82.14  Aligned_cols=58  Identities=22%  Similarity=0.421  Sum_probs=48.1

Q ss_pred             CCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCCCCCChHHHHHH
Q 016591           28 DDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPTSQELLEA   88 (386)
Q Consensus        28 d~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~kd~~~~~ll~a   88 (386)
                      ++.|+||++.+  .+| ++++|||.||..||..|+.....||+|++.+...++..+..+..
T Consensus         1 ~~~Cpi~~~~~--~~P-v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~~~~~l~~   58 (63)
T smart00504        1 EFLCPISLEVM--KDP-VILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLIPNLALKS   58 (63)
T ss_pred             CcCCcCCCCcC--CCC-EECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhceeCHHHHH
Confidence            46799999999  455 55699999999999999988889999999998777766655543

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

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

Probab=98.89  E-value=6.9e-10  Score=105.01  Aligned_cols=53  Identities=32%  Similarity=0.711  Sum_probs=43.2

Q ss_pred             ccCCCccccccccccCCCCceeccCCccccHHHHHHHHhc---CCCCCCccccCCCCCC
Q 016591           25 DACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQR---SSQCPMCWQPISLKDP   80 (386)
Q Consensus        25 d~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~---s~~CPlCR~~i~~kd~   80 (386)
                      +.-.++|.|||+.-   +.++++.|||.||+.||..|++.   ++.||+|+..+..+.+
T Consensus        44 ~~~~FdCNICLd~a---kdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~v   99 (230)
T KOG0823|consen   44 DGGFFDCNICLDLA---KDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTV   99 (230)
T ss_pred             CCCceeeeeecccc---CCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceE
Confidence            45678899999987   44556689999999999999974   5679999998876543

>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=1.5e-09  Score=79.53  Aligned_cols=47  Identities=36%  Similarity=0.816  Sum_probs=39.6

Q ss_pred             CCCccccccccccCCCCceeccCCcc-ccHHHHHHHHhcCCCCCCccccCC
Q 016591           27 CDDACSICLEDFSESDPSTLTSCKHE-FHLQCILEWCQRSSQCPMCWQPIS   76 (386)
Q Consensus        27 ed~~C~ICle~f~~~~pv~ll~CgH~-FC~~CI~~Wlq~s~~CPlCR~~i~   76 (386)
                      ++..|.||++.+   ..+.+++|+|. ||..|+..|+.....||+||+++.
T Consensus         1 ~~~~C~iC~~~~---~~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    1 EDEECPICFENP---RDVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE   48 (50)
T ss_dssp             -HSB-TTTSSSB---SSEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred             CcCCCccCCccC---CceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence            467899999987   44677799999 999999999999999999999875

...

>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=98.85  E-value=1.5e-09  Score=75.74  Aligned_cols=39  Identities=38%  Similarity=1.130  Sum_probs=33.8

Q ss_pred             cccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCc
Q 016591           31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMC   71 (386)
Q Consensus        31 C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlC   71 (386)
                      |+||++.+  .+++++++|||.||..||..|++....||+|
T Consensus         1 C~iC~~~~--~~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDEL--RDPVVVTPCGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB---SSEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcc--cCcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence            89999998  5666888999999999999999988899998

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

Probab=98.80  E-value=3.6e-09  Score=86.38  Aligned_cols=52  Identities=44%  Similarity=1.029  Sum_probs=41.2

Q ss_pred             CCCcccccccccc----------CCCCceeccCCccccHHHHHHHHhc---CCCCCCccccCCCC
Q 016591           27 CDDACSICLEDFS----------ESDPSTLTSCKHEFHLQCILEWCQR---SSQCPMCWQPISLK   78 (386)
Q Consensus        27 ed~~C~ICle~f~----------~~~pv~ll~CgH~FC~~CI~~Wlq~---s~~CPlCR~~i~~k   78 (386)
                      .|+.|.||+..|.          +.-++..-.|+|.||.+||.+|+..   +..||+||+++.++
T Consensus        20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k   84 (85)
T PF12861_consen   20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKFK   84 (85)
T ss_pred             CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeeeC
Confidence            4788999988883          1224556689999999999999974   47899999998754

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.80  E-value=5.2e-09  Score=106.96  Aligned_cols=59  Identities=31%  Similarity=0.540  Sum_probs=48.8

Q ss_pred             ccCCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCCCCCChHHHH
Q 016591           25 DACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPTSQELL   86 (386)
Q Consensus        25 d~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~kd~~~~~ll   86 (386)
                      .+.++.|+||++.|  .++ ++++|+|.||..||..|+.....||+|+..+....+..+..+
T Consensus        23 Le~~l~C~IC~d~~--~~P-vitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~Lr~N~~L   81 (397)
T TIGR00599        23 LDTSLRCHICKDFF--DVP-VLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESKLRSNWLV   81 (397)
T ss_pred             cccccCCCcCchhh--hCc-cCCCCCCchhHHHHHHHHhCCCCCCCCCCccccccCccchHH
Confidence            34578999999999  455 467999999999999999888889999999887666665554

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

>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=98.77  E-value=5.9e-09  Score=72.15  Aligned_cols=44  Identities=43%  Similarity=1.106  Sum_probs=38.0

Q ss_pred             ccccccccccCCCCceeccCCccccHHHHHHHHhc-CCCCCCccccC
Q 016591           30 ACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQR-SSQCPMCWQPI   75 (386)
Q Consensus        30 ~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~-s~~CPlCR~~i   75 (386)
                      .|+||++.+  .++..+++|+|.||..|+..|+.. ...||+|+..+
T Consensus         1 ~C~iC~~~~--~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEF--REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhh--hCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            499999998  566777679999999999999986 77899998754

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

Probab=98.75  E-value=6e-09  Score=74.35  Aligned_cols=38  Identities=37%  Similarity=0.923  Sum_probs=28.2

Q ss_pred             cccccccccCCCCceeccCCccccHHHHHHHHhcC----CCCCCc
Q 016591           31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRS----SQCPMC   71 (386)
Q Consensus        31 C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s----~~CPlC   71 (386)
                      |+||+++|  .+| +.++|||.||..||..|++..    ..||.|
T Consensus         1 CpiC~~~~--~~P-v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLF--KDP-VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB---SSE-EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhh--CCc-cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            89999999  455 555999999999999999643    479988

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

Probab=98.71  E-value=7.5e-09  Score=103.61  Aligned_cols=52  Identities=29%  Similarity=0.902  Sum_probs=42.7

Q ss_pred             cCCCccccccccc-cCC---------CCceeccCCccccHHHHHHHHhcCCCCCCccccCCC
Q 016591           26 ACDDACSICLEDF-SES---------DPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISL   77 (386)
Q Consensus        26 ~ed~~C~ICle~f-~~~---------~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~   77 (386)
                      ..|..|.||++.+ ..+         ..++.++|||.||.+|++.|+++..+||+||.++..
T Consensus       285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~if  346 (491)
T COG5243         285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVIF  346 (491)
T ss_pred             CCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcccc
Confidence            3578899999984 222         124677999999999999999999999999998654

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

Probab=98.70  E-value=7.2e-09  Score=101.45  Aligned_cols=50  Identities=32%  Similarity=0.874  Sum_probs=44.7

Q ss_pred             CCccccccccccCCCCceeccCCccccHHHHHHHHh-cCCCCCCccccCCC
Q 016591           28 DDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQ-RSSQCPMCWQPISL   77 (386)
Q Consensus        28 d~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq-~s~~CPlCR~~i~~   77 (386)
                      -.+|+||++.|...+.++++||.|.||..|+..|+. -+..||+||.++++
T Consensus       323 GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         323 GVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             CceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            367999999998778899999999999999999998 56789999998864

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

Probab=98.69  E-value=6.9e-09  Score=94.90  Aligned_cols=54  Identities=35%  Similarity=0.687  Sum_probs=44.1

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCCCCC
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDP   80 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~kd~   80 (386)
                      +.-..|+|||+.+....+ .-+.|||+||..||+..+.....||+|++.|..+.+
T Consensus       129 ~~~~~CPiCl~~~sek~~-vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~~  182 (187)
T KOG0320|consen  129 EGTYKCPICLDSVSEKVP-VSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQF  182 (187)
T ss_pred             ccccCCCceecchhhccc-cccccchhHHHHHHHHHHHhCCCCCCcccccchhhh
Confidence            344679999999944333 446999999999999999999999999998876654

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

Probab=98.67  E-value=3.7e-09  Score=105.27  Aligned_cols=92  Identities=26%  Similarity=0.525  Sum_probs=61.1

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHh-cCCCCCCccccCCCCCCChHHHHHHHHHHhhccCCCCCCCc
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQ-RSSQCPMCWQPISLKDPTSQELLEAVERERSFRLNPSRNAT  104 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq-~s~~CPlCR~~i~~kd~~~~~ll~ave~er~~r~~p~~~~~  104 (386)
                      .-++.|+|||+++  ...++...|.|.||..||..-+. ....||.||+.+..+              |.++.+|...+.
T Consensus        41 ~~~v~c~icl~ll--k~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk--------------rsLr~Dp~fdaL  104 (381)
T KOG0311|consen   41 DIQVICPICLSLL--KKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK--------------RSLRIDPNFDAL  104 (381)
T ss_pred             hhhhccHHHHHHH--HhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc--------------ccCCCCccHHHH
Confidence            3478899999999  56677778999999999988776 568999999988755              333333333333


Q ss_pred             c-ccCCCCCCcccccCCCCCCChHHHHHHH
Q 016591          105 I-FRHPTLGDFELQHLPVGANDAELEERII  133 (386)
Q Consensus       105 i-~~~p~lgdfe~q~~pv~~~D~eleEri~  133 (386)
                      | ...+.+..|+.....+...|..+..+.+
T Consensus       105 is~i~~sie~~e~~q~~~~ekd~~~~~q~i  134 (381)
T KOG0311|consen  105 ISKIYPSIEEYEAPQPRFMEKDDSAQIQYI  134 (381)
T ss_pred             HHHHhccHHHHhccchhHHhhHHHHhHHHH
Confidence            3 1223455555444455555555555533

>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=98.66  E-value=1.5e-08  Score=70.89  Aligned_cols=39  Identities=46%  Similarity=1.187  Sum_probs=34.1

Q ss_pred             cccccccccCCCCceeccCCccccHHHHHHHHh--cCCCCCCc
Q 016591           31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQ--RSSQCPMC   71 (386)
Q Consensus        31 C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq--~s~~CPlC   71 (386)
                      |+||++.+  .++..+++|+|.||..||..|++  ....||+|
T Consensus         1 C~iC~~~~--~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPF--EDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBC--SSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccc--cCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            89999998  55556889999999999999998  56789998

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 ....

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

Probab=98.65  E-value=1e-08  Score=101.67  Aligned_cols=60  Identities=28%  Similarity=0.618  Sum_probs=52.2

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCCCCCChHHHHHH
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPTSQELLEA   88 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~kd~~~~~ll~a   88 (386)
                      +.-+.|.||.++|   ..+.+++|+|.||..||+.+|..+..||.|+.++.+.++..+.+++.
T Consensus        21 D~lLRC~IC~eyf---~ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~n~il~E   80 (442)
T KOG0287|consen   21 DDLLRCGICFEYF---NIPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLRNNRILDE   80 (442)
T ss_pred             HHHHHHhHHHHHh---cCceeccccchHHHHHHHHHhccCCCCCceecccchhhhhhhhHHHH
Confidence            4467899999999   55677799999999999999999999999999999888888776643

>PHA02926 zinc finger-like protein; Provisional

Probab=98.65  E-value=1.3e-08  Score=96.16  Aligned_cols=55  Identities=27%  Similarity=0.620  Sum_probs=42.1

Q ss_pred             CCccCCCccccccccccCC------CCceeccCCccccHHHHHHHHhcC------CCCCCccccCCC
Q 016591           23 IQDACDDACSICLEDFSES------DPSTLTSCKHEFHLQCILEWCQRS------SQCPMCWQPISL   77 (386)
Q Consensus        23 iqd~ed~~C~ICle~f~~~------~pv~ll~CgH~FC~~CI~~Wlq~s------~~CPlCR~~i~~   77 (386)
                      .+...|.+|+||++..-..      ....+.+|+|.||..||..|...+      ..||+||..+..
T Consensus       165 ~~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~  231 (242)
T PHA02926        165 YRVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN  231 (242)
T ss_pred             HhccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence            3556789999999975221      123566899999999999999742      459999998764

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.56  E-value=5.3e-08  Score=69.73  Aligned_cols=44  Identities=39%  Similarity=0.889  Sum_probs=38.7

Q ss_pred             ccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccc
Q 016591           30 ACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQ   73 (386)
Q Consensus        30 ~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~   73 (386)
                      .|+||++.|.....+.++.|+|.||..||..+......||+|++
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            49999999955567889999999999999999866788999985

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

Probab=98.54  E-value=3.5e-08  Score=102.31  Aligned_cols=53  Identities=38%  Similarity=0.726  Sum_probs=43.4

Q ss_pred             CCccccccccccCCCCceeccCCccccHHHHHHHHhc-----CCCCCCccccCCCCCCChH
Q 016591           28 DDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQR-----SSQCPMCWQPISLKDPTSQ   83 (386)
Q Consensus        28 d~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~-----s~~CPlCR~~i~~kd~~~~   83 (386)
                      +..|||||+..   ..+..+.|||.||..||..+|..     ...||+||..|..+++.+.
T Consensus       186 ~~~CPICL~~~---~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv  243 (513)
T KOG2164|consen  186 DMQCPICLEPP---SVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPV  243 (513)
T ss_pred             CCcCCcccCCC---CcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeee
Confidence            78899999987   33455579999999999998853     3579999999998877664

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

Probab=98.49  E-value=1.2e-07  Score=75.07  Aligned_cols=58  Identities=24%  Similarity=0.404  Sum_probs=44.0

Q ss_pred             CCCccccccccccCCCCceeccCCccccHHHHHHHHhc-CCCCCCccccCCCCCCChHHHHH
Q 016591           27 CDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQR-SSQCPMCWQPISLKDPTSQELLE   87 (386)
Q Consensus        27 ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~-s~~CPlCR~~i~~kd~~~~~ll~   87 (386)
                      +++.|+||.+.|  .+|+ +++|||.|+..||..|+.. ...||+|++.+...++.++..+.
T Consensus         3 ~~f~CpIt~~lM--~dPV-i~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn~~Lk   61 (73)
T PF04564_consen    3 DEFLCPITGELM--RDPV-ILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPNRALK   61 (73)
T ss_dssp             GGGB-TTTSSB---SSEE-EETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-HHHH
T ss_pred             cccCCcCcCcHh--hCce-eCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceECHHHH
Confidence            368899999999  4554 5599999999999999987 88999999999988888876663

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 ....

>smart00184 RING Ring finger

Probab=98.46  E-value=1.5e-07  Score=62.74  Aligned_cols=38  Identities=37%  Similarity=1.081  Sum_probs=32.8

Q ss_pred             cccccccccCCCCceeccCCccccHHHHHHHHh-cCCCCCCc
Q 016591           31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQ-RSSQCPMC   71 (386)
Q Consensus        31 C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq-~s~~CPlC   71 (386)
                      |+||++..   ..+.+++|+|.||..|+..|+. ....||+|
T Consensus         1 C~iC~~~~---~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEEL---KDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCC---CCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            88999985   5567779999999999999998 66779987

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

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

Probab=98.42  E-value=1.1e-07  Score=91.80  Aligned_cols=51  Identities=33%  Similarity=0.817  Sum_probs=42.5

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHH-HHhcCCC-CCCccccCCCCC
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILE-WCQRSSQ-CPMCWQPISLKD   79 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~-Wlq~s~~-CPlCR~~i~~kd   79 (386)
                      .-|..|.||++..   ..+..++|||.||+.||.. |...+.. ||+||+....+.
T Consensus       213 ~~d~kC~lC~e~~---~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~  265 (271)
T COG5574         213 LADYKCFLCLEEP---EVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK  265 (271)
T ss_pred             ccccceeeeeccc---CCcccccccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence            4578899999987   4455669999999999999 8877766 999999887654

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

Probab=98.41  E-value=7.8e-08  Score=102.13  Aligned_cols=51  Identities=31%  Similarity=0.802  Sum_probs=42.9

Q ss_pred             cCCCccccccccccCCCC--ceeccCCccccHHHHHHHHhcCCCCCCccccCC
Q 016591           26 ACDDACSICLEDFSESDP--STLTSCKHEFHLQCILEWCQRSSQCPMCWQPIS   76 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~p--v~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~   76 (386)
                      ..+..|.||+|.+.....  +..++|+|.||..|+..|+++..+||+||..+.
T Consensus       289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~  341 (543)
T KOG0802|consen  289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLY  341 (543)
T ss_pred             hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhh
Confidence            348889999999944322  677799999999999999999999999999544

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

Probab=98.27  E-value=3.1e-07  Score=85.02  Aligned_cols=46  Identities=33%  Similarity=0.752  Sum_probs=40.0

Q ss_pred             ccCCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccc
Q 016591           25 DACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQ   73 (386)
Q Consensus        25 d~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~   73 (386)
                      ..++..|+||++.|  .++ ++++|+|.||..||..|+.....||.||.
T Consensus        10 ~~~~~~C~iC~~~~--~~p-~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~   55 (386)
T KOG2177|consen   10 LQEELTCPICLEYF--REP-VLLPCGHNFCRACLTRSWEGPLSCPVCRP   55 (386)
T ss_pred             ccccccChhhHHHh--hcC-ccccccchHhHHHHHHhcCCCcCCcccCC
Confidence            34688999999999  455 88899999999999999986678999995

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

Probab=98.27  E-value=2.2e-07  Score=74.29  Aligned_cols=51  Identities=41%  Similarity=0.948  Sum_probs=38.3

Q ss_pred             CCcccccccccc----------CCCCceeccCCccccHHHHHHHHh---cCCCCCCccccCCCC
Q 016591           28 DDACSICLEDFS----------ESDPSTLTSCKHEFHLQCILEWCQ---RSSQCPMCWQPISLK   78 (386)
Q Consensus        28 d~~C~ICle~f~----------~~~pv~ll~CgH~FC~~CI~~Wlq---~s~~CPlCR~~i~~k   78 (386)
                      +.+|-||.-.|.          ++-|+++-.|.|.||.+||.+|+.   ....||+||+.+..+
T Consensus        20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~~   83 (84)
T KOG1493|consen   20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQFK   83 (84)
T ss_pred             CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEec
Confidence            447888887772          223445557999999999999995   346899999988654

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

Probab=98.27  E-value=4.1e-07  Score=88.90  Aligned_cols=54  Identities=22%  Similarity=0.353  Sum_probs=45.2

Q ss_pred             CccCCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCCCCC
Q 016591           24 QDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDP   80 (386)
Q Consensus        24 qd~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~kd~   80 (386)
                      +.+.-+.|-||-+.|   ..+..++|||.||..||+..|..+..||+||.+..+.-+
T Consensus        21 ~LDs~lrC~IC~~~i---~ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~esrl   74 (391)
T COG5432          21 GLDSMLRCRICDCRI---SIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCESRL   74 (391)
T ss_pred             cchhHHHhhhhhhee---ecceecccccchhHHHHHHHhcCCCCCccccccHHhhhc
Confidence            444567899999998   445667999999999999999999999999998876543

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

Probab=98.26  E-value=4.9e-07  Score=72.89  Aligned_cols=35  Identities=31%  Similarity=0.702  Sum_probs=30.7

Q ss_pred             ceeccCCccccHHHHHHHHhcCCCCCCccccCCCC
Q 016591           44 STLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLK   78 (386)
Q Consensus        44 v~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~k   78 (386)
                      +..-.|.|.||.+||.+||..+..||++++.+.+.
T Consensus        49 v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~   83 (88)
T COG5194          49 VVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLA   83 (88)
T ss_pred             EEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEe
Confidence            44557999999999999999999999999998654

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.25  E-value=7.7e-07  Score=88.25  Aligned_cols=56  Identities=21%  Similarity=0.433  Sum_probs=41.0

Q ss_pred             CCccccccccccCCCC--ceeccCCccccHHHHHHHHh-cCCCCCCccccCCCCCCChH
Q 016591           28 DDACSICLEDFSESDP--STLTSCKHEFHLQCILEWCQ-RSSQCPMCWQPISLKDPTSQ   83 (386)
Q Consensus        28 d~~C~ICle~f~~~~p--v~ll~CgH~FC~~CI~~Wlq-~s~~CPlCR~~i~~kd~~~~   83 (386)
                      +..||||....-....  +.+..|||.||..||..+|. ....||.|+..+....+..+
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr~q   61 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFRVQ   61 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhhcccc
Confidence            5689999995211222  23337999999999999764 55689999999987765554

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).

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

Probab=98.24  E-value=7.3e-07  Score=64.14  Aligned_cols=38  Identities=37%  Similarity=0.934  Sum_probs=22.7

Q ss_pred             ccccccccc-CCCCceeccCCccccHHHHHHHHhc----CCCCC
Q 016591           31 CSICLEDFS-ESDPSTLTSCKHEFHLQCILEWCQR----SSQCP   69 (386)
Q Consensus        31 C~ICle~f~-~~~pv~ll~CgH~FC~~CI~~Wlq~----s~~CP   69 (386)
                      |+||++ |. ..+++++|+|||.||.+||..|+..    ...||
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence            899999 63 3456788899999999999999974    34576

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

Probab=98.16  E-value=7.5e-07  Score=69.18  Aligned_cols=58  Identities=31%  Similarity=0.694  Sum_probs=30.3

Q ss_pred             CCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCCCCCChHHHHHHH
Q 016591           28 DDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPTSQELLEAV   89 (386)
Q Consensus        28 d~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~kd~~~~~ll~av   89 (386)
                      -+.|++|.+.|  .+|+.+..|.|.||..||...+.  ..||+|..+....|.+.+..++.+
T Consensus         7 lLrCs~C~~~l--~~pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD~~~NrqLd~~   64 (65)
T PF14835_consen    7 LLRCSICFDIL--KEPVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQDIQINRQLDSM   64 (65)
T ss_dssp             TTS-SSS-S----SS-B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS----HHHHHH
T ss_pred             hcCCcHHHHHh--cCCceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHHHHhhhhhhcc
Confidence            46799999999  77888889999999999987554  459999999988888887776544

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

Probab=97.75  E-value=9.7e-06  Score=68.40  Aligned_cols=51  Identities=27%  Similarity=0.694  Sum_probs=38.4

Q ss_pred             CCCcccccccccc------------CCCC--ceeccCCccccHHHHHHHHhcCCCCCCccccCCC
Q 016591           27 CDDACSICLEDFS------------ESDP--STLTSCKHEFHLQCILEWCQRSSQCPMCWQPISL   77 (386)
Q Consensus        27 ed~~C~ICle~f~------------~~~p--v~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~   77 (386)
                      .-+.|+||..-+-            ..+.  +..-.|.|.||++||.+|++....||+|.+++.+
T Consensus        45 ~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~~  109 (114)
T KOG2930|consen   45 VVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWVF  109 (114)
T ss_pred             eechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcceeE
Confidence            4567999987541            1111  2333699999999999999999999999887754

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

Probab=97.74  E-value=1.1e-05  Score=87.49  Aligned_cols=53  Identities=25%  Similarity=0.567  Sum_probs=43.8

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHh-cCCCCCCccccCCCCCCC
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQ-RSSQCPMCWQPISLKDPT   81 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq-~s~~CPlCR~~i~~kd~~   81 (386)
                      -.-+.|+.|-.-+   ...+++.|+|.||..||...+. +...||.|-..|...|+.
T Consensus       641 K~~LkCs~Cn~R~---Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~  694 (698)
T KOG0978|consen  641 KELLKCSVCNTRW---KDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVH  694 (698)
T ss_pred             HhceeCCCccCch---hhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccccc
Confidence            3457899999777   4456779999999999999986 667899999999877654

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

Probab=97.71  E-value=7e-06  Score=79.73  Aligned_cols=53  Identities=34%  Similarity=0.805  Sum_probs=41.6

Q ss_pred             cCCCccccccccccCCC-------CceeccCCccccHHHHHHHHh--cCCCCCCccccCCCC
Q 016591           26 ACDDACSICLEDFSESD-------PSTLTSCKHEFHLQCILEWCQ--RSSQCPMCWQPISLK   78 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~-------pv~ll~CgH~FC~~CI~~Wlq--~s~~CPlCR~~i~~k   78 (386)
                      -+|..|+||-..+....       ....+.|+|.||..||+-|+.  ++.+||.|++.+..+
T Consensus       222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~  283 (328)
T KOG1734|consen  222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLK  283 (328)
T ss_pred             CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence            45788999998774332       345679999999999999985  578999998877543

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

Probab=97.69  E-value=1e-05  Score=80.43  Aligned_cols=50  Identities=30%  Similarity=0.615  Sum_probs=43.7

Q ss_pred             CCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCCC
Q 016591           27 CDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLK   78 (386)
Q Consensus        27 ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~k   78 (386)
                      .-.+|.+|-.+|  .+..++..|.|.||..||...+.....||.|...+...
T Consensus        14 ~~itC~LC~GYl--iDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t   63 (331)
T KOG2660|consen   14 PHITCRLCGGYL--IDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKT   63 (331)
T ss_pred             cceehhhcccee--ecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence            356799999999  66778889999999999999999999999998877644

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

Probab=97.68  E-value=2.2e-05  Score=77.31  Aligned_cols=48  Identities=25%  Similarity=0.526  Sum_probs=39.6

Q ss_pred             CCccccccccccCCCCceeccCCccccHHHHHHHHhc-CCCCCCccccCCCC
Q 016591           28 DDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQR-SSQCPMCWQPISLK   78 (386)
Q Consensus        28 d~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~-s~~CPlCR~~i~~k   78 (386)
                      +.+|+||+...   ..++.++|+|.||+.||+--.+. ...|++||.+|...
T Consensus         7 ~~eC~IC~nt~---n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~   55 (324)
T KOG0824|consen    7 KKECLICYNTG---NCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDST   55 (324)
T ss_pred             CCcceeeeccC---CcCccccccchhhhhhhcchhhcCCCCCceecCCCCcc
Confidence            56799999886   44577799999999999977664 55699999999754

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

Probab=97.64  E-value=8.7e-06  Score=64.23  Aligned_cols=50  Identities=38%  Similarity=0.883  Sum_probs=23.6

Q ss_pred             CCcccccccccc-CCC-Cc-ee--ccCCccccHHHHHHHHhc---C--------CCCCCccccCCC
Q 016591           28 DDACSICLEDFS-ESD-PS-TL--TSCKHEFHLQCILEWCQR---S--------SQCPMCWQPISL   77 (386)
Q Consensus        28 d~~C~ICle~f~-~~~-pv-~l--l~CgH~FC~~CI~~Wlq~---s--------~~CPlCR~~i~~   77 (386)
                      +..|.||+..+. .+. +. ..  ..|++.||..||.+||..   .        ..||.|+.+|..
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~   67 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW   67 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence            568999999875 222 22 22  269999999999999952   1        259999998753

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

Probab=97.61  E-value=3.7e-05  Score=77.68  Aligned_cols=58  Identities=36%  Similarity=0.835  Sum_probs=43.2

Q ss_pred             cCCCccCCCccccccccccCCC-----CceeccCCccccHHHHHHHHh--c-----CCCCCCccccCCCC
Q 016591           21 GGIQDACDDACSICLEDFSESD-----PSTLTSCKHEFHLQCILEWCQ--R-----SSQCPMCWQPISLK   78 (386)
Q Consensus        21 g~iqd~ed~~C~ICle~f~~~~-----pv~ll~CgH~FC~~CI~~Wlq--~-----s~~CPlCR~~i~~k   78 (386)
                      ..++...+.+|.||++.+....     --.+.+|.|.||..||..|-+  .     .+.||.||......
T Consensus       154 ~a~~~s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v  223 (344)
T KOG1039|consen  154 FALQKSSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFV  223 (344)
T ss_pred             cCcCccccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccccc
Confidence            3556678999999999873322     112346999999999999984  3     47899999877643

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

Probab=97.59  E-value=3.7e-05  Score=79.04  Aligned_cols=62  Identities=23%  Similarity=0.614  Sum_probs=49.0

Q ss_pred             hhhhhhhhcCCCccCCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCC
Q 016591           13 TSAAAFVEGGIQDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISL   77 (386)
Q Consensus        13 ~sa~a~~eg~iqd~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~   77 (386)
                      ...-+...+..+...++.|.||+..|   .+++.++|||.||..||..-+.....||.||..+..
T Consensus        69 ~~~~~~~s~~~~~~sef~c~vc~~~l---~~pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   69 STPKALLSGPEEIRSEFECCVCSRAL---YPPVVTPCGHSFCLECLDRSLDQETECPLCRDELVE  130 (398)
T ss_pred             hhhhhhhccCccccchhhhhhhHhhc---CCCccccccccccHHHHHHHhccCCCCccccccccc
Confidence            33344445555667799999999998   444555999999999999988888899999999875

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

Probab=97.55  E-value=3.4e-05  Score=80.14  Aligned_cols=49  Identities=35%  Similarity=0.881  Sum_probs=38.2

Q ss_pred             CCccccccccccC---CCC-----------ceeccCCccccHHHHHHHHh-cCCCCCCccccCC
Q 016591           28 DDACSICLEDFSE---SDP-----------STLTSCKHEFHLQCILEWCQ-RSSQCPMCWQPIS   76 (386)
Q Consensus        28 d~~C~ICle~f~~---~~p-----------v~ll~CgH~FC~~CI~~Wlq-~s~~CPlCR~~i~   76 (386)
                      ...|+||+..+.-   +.+           -.++||.|.||..|++.|.. .+-.||.||.++.
T Consensus       571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP  634 (636)
T KOG0828|consen  571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP  634 (636)
T ss_pred             cccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence            4569999987621   111           24569999999999999998 5669999999886

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

Probab=97.50  E-value=9.4e-05  Score=54.52  Aligned_cols=42  Identities=24%  Similarity=0.774  Sum_probs=31.6

Q ss_pred             ccccccccccCCCCceeccCC-----ccccHHHHHHHHhc--CCCCCCcc
Q 016591           30 ACSICLEDFSESDPSTLTSCK-----HEFHLQCILEWCQR--SSQCPMCW   72 (386)
Q Consensus        30 ~C~ICle~f~~~~pv~ll~Cg-----H~FC~~CI~~Wlq~--s~~CPlCR   72 (386)
                      .|-||++...+ +.+.+.||.     |.||..|+..|+..  ...||+|+
T Consensus         1 ~CrIC~~~~~~-~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEGDE-GDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCCCCCC-CCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            48999983333 344566885     88999999999964  45899994

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

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

Probab=97.47  E-value=3.6e-05  Score=84.86  Aligned_cols=52  Identities=29%  Similarity=0.879  Sum_probs=39.2

Q ss_pred             cCCCcccccccccc--CC-CC-ceeccCCccccHHHHHHHHhc--CCCCCCccccCCC
Q 016591           26 ACDDACSICLEDFS--ES-DP-STLTSCKHEFHLQCILEWCQR--SSQCPMCWQPISL   77 (386)
Q Consensus        26 ~ed~~C~ICle~f~--~~-~p-v~ll~CgH~FC~~CI~~Wlq~--s~~CPlCR~~i~~   77 (386)
                      +--.+|+||+..+.  +. -| -++..|+|.||..|+..|+..  +..||+||..|..
T Consensus      1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseitf 1524 (1525)
T COG5219        1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITF 1524 (1525)
T ss_pred             CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccccc
Confidence            44567999998873  11 11 255579999999999999974  5789999988753

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

Probab=97.46  E-value=3.5e-05  Score=58.20  Aligned_cols=48  Identities=33%  Similarity=0.670  Sum_probs=37.5

Q ss_pred             cCCCccccccccccCCCCceeccCCc-cccHHHHHHHHh-cCCCCCCccccCC
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKH-EFHLQCILEWCQ-RSSQCPMCWQPIS   76 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH-~FC~~CI~~Wlq-~s~~CPlCR~~i~   76 (386)
                      +.+++|.||++..   ...++.-||| -.|+.|-.+.++ .+..||+||.++.
T Consensus         5 ~~~dECTICye~p---vdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~   54 (62)
T KOG4172|consen    5 QWSDECTICYEHP---VDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK   54 (62)
T ss_pred             ccccceeeeccCc---chHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence            3458899999875   2345557999 579999887776 6789999999875

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

Probab=97.35  E-value=0.00024  Score=72.47  Aligned_cols=47  Identities=26%  Similarity=0.728  Sum_probs=39.7

Q ss_pred             ccccccccccCCCCceeccCCccccHHHHHHHHhc--CCCCCCccccCCCCC
Q 016591           30 ACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQR--SSQCPMCWQPISLKD   79 (386)
Q Consensus        30 ~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~--s~~CPlCR~~i~~kd   79 (386)
                      -|.||-+.   ++.+.+-+|||..|..|+..|...  ...||+||.+|.-..
T Consensus       371 LCKICaen---dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte  419 (563)
T KOG1785|consen  371 LCKICAEN---DKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTE  419 (563)
T ss_pred             HHHHhhcc---CCCcccccccchHHHHHHHhhcccCCCCCCCceeeEecccc
Confidence            48999987   366888899999999999999853  578999999997553

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

Probab=97.33  E-value=0.00013  Score=73.28  Aligned_cols=47  Identities=28%  Similarity=0.722  Sum_probs=39.4

Q ss_pred             CCCccccccccccCCCCceeccCCc-cccHHHHHHHHhcCCCCCCccccCC
Q 016591           27 CDDACSICLEDFSESDPSTLTSCKH-EFHLQCILEWCQRSSQCPMCWQPIS   76 (386)
Q Consensus        27 ed~~C~ICle~f~~~~pv~ll~CgH-~FC~~CI~~Wlq~s~~CPlCR~~i~   76 (386)
                      .-.+|.||+...   ...+++||.| ..|..|.+........||+||++|.
T Consensus       289 ~gkeCVIClse~---rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~  336 (349)
T KOG4265|consen  289 SGKECVICLSES---RDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIE  336 (349)
T ss_pred             CCCeeEEEecCC---cceEEecchhhehhHhHHHHHHHhhcCCCccccchH
Confidence            356799999986   5578889999 6799999887767788999999885

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

Probab=97.32  E-value=0.00012  Score=74.33  Aligned_cols=48  Identities=25%  Similarity=0.769  Sum_probs=34.0

Q ss_pred             CccccccccccCCCCceec-cCCccccHHHHHHHHhc---CCCCCCccccCC
Q 016591           29 DACSICLEDFSESDPSTLT-SCKHEFHLQCILEWCQR---SSQCPMCWQPIS   76 (386)
Q Consensus        29 ~~C~ICle~f~~~~pv~ll-~CgH~FC~~CI~~Wlq~---s~~CPlCR~~i~   76 (386)
                      ..|.||.+.+-....+..+ .|||.||..|+..|++.   ...||+|+-.+.
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            3599996555222233333 49999999999999985   258999984443

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

Probab=97.32  E-value=4.5e-05  Score=82.76  Aligned_cols=53  Identities=17%  Similarity=0.448  Sum_probs=42.9

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCCC
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLK   78 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~k   78 (386)
                      +....|+||+..+.+.....-.+|.|.||..||..|.....+||+||..|...
T Consensus       121 ~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v  173 (1134)
T KOG0825|consen  121 HVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEV  173 (1134)
T ss_pred             hhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhhee
Confidence            45566889988875544445558999999999999999999999999988643

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

Probab=97.22  E-value=0.00013  Score=75.27  Aligned_cols=51  Identities=31%  Similarity=0.714  Sum_probs=38.4

Q ss_pred             CccCCCccccccccccCCC-CceeccCCccccHHHHHHHHhcCCCCCCccccCC
Q 016591           24 QDACDDACSICLEDFSESD-PSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPIS   76 (386)
Q Consensus        24 qd~ed~~C~ICle~f~~~~-pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~   76 (386)
                      ...+-.+|+|||+-+.... -+..+.|.|.||..|+..|+.  .+||+||....
T Consensus       171 ~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~--~scpvcR~~q~  222 (493)
T KOG0804|consen  171 GLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD--SSCPVCRYCQS  222 (493)
T ss_pred             CcccCCCcchhHhhcCccccceeeeecccccchHHHhhccc--CcChhhhhhcC
Confidence            3345678999999983222 134557999999999999985  46999987655

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

Probab=97.10  E-value=0.00024  Score=54.05  Aligned_cols=43  Identities=35%  Similarity=0.740  Sum_probs=30.6

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHh--cCCCCCC
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQ--RSSQCPM   70 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq--~s~~CPl   70 (386)
                      ...+.|||.+..|  .+|++-..|+|.|....|..|++  ....||+
T Consensus         9 ~~~~~CPiT~~~~--~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen    9 TISLKCPITLQPF--EDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             B--SB-TTTSSB---SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             EeccCCCCcCChh--hCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            3468899999999  78888889999999999999994  3567998

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

Probab=97.05  E-value=0.00042  Score=67.72  Aligned_cols=50  Identities=26%  Similarity=0.592  Sum_probs=40.8

Q ss_pred             ccCCCccccccccccCCCCceeccCCccccHHHHHHHHh--cCCCCCCccccCC
Q 016591           25 DACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQ--RSSQCPMCWQPIS   76 (386)
Q Consensus        25 d~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq--~s~~CPlCR~~i~   76 (386)
                      ...+.+|++|-+..  ..|....+|+|.||+.||..-+.  ....||.|-....
T Consensus       236 ~t~~~~C~~Cg~~P--tiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  236 GTSDTECPVCGEPP--TIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             ccCCceeeccCCCC--CCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            34578899999876  56777878999999999998765  3589999977664

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

Probab=97.02  E-value=0.00019  Score=70.83  Aligned_cols=51  Identities=31%  Similarity=0.818  Sum_probs=41.9

Q ss_pred             CCccccccccccCCCCceeccCCccccHHHHHHHHhc-----------------------CCCCCCccccCCCC
Q 016591           28 DDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQR-----------------------SSQCPMCWQPISLK   78 (386)
Q Consensus        28 d~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~-----------------------s~~CPlCR~~i~~k   78 (386)
                      ...|.|||.-|..++..+++.|.|.||..|+-+++..                       ...||+||..|...
T Consensus       115 ~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e  188 (368)
T KOG4445|consen  115 NGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIE  188 (368)
T ss_pred             CCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccc
Confidence            4679999999987777899999999999999887721                       13599999988754

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

Probab=96.95  E-value=0.00052  Score=70.20  Aligned_cols=54  Identities=30%  Similarity=0.781  Sum_probs=40.5

Q ss_pred             CCCccccccccccCC--CCceeccCCccccHHHHHHHHhc--CCCCCCccccCCCCCC
Q 016591           27 CDDACSICLEDFSES--DPSTLTSCKHEFHLQCILEWCQR--SSQCPMCWQPISLKDP   80 (386)
Q Consensus        27 ed~~C~ICle~f~~~--~pv~ll~CgH~FC~~CI~~Wlq~--s~~CPlCR~~i~~kd~   80 (386)
                      +-.+|+||++.+...  ..+..+.|+|.|..+||+.|+.+  ...||.|...-....+
T Consensus         3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~i   60 (463)
T KOG1645|consen    3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQI   60 (463)
T ss_pred             ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHHH
Confidence            456799999987322  23667789999999999999953  3579999766554443

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

Probab=96.95  E-value=0.00039  Score=71.51  Aligned_cols=55  Identities=29%  Similarity=0.657  Sum_probs=45.7

Q ss_pred             ccCCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCCCCCC
Q 016591           25 DACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPT   81 (386)
Q Consensus        25 d~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~kd~~   81 (386)
                      .+++..|+||...+  .+++..+.|+|.||..|+..|+..+..||.|+..+......
T Consensus        18 ~~~~l~C~~C~~vl--~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~   72 (391)
T KOG0297|consen   18 LDENLLCPICMSVL--RDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEEL   72 (391)
T ss_pred             CcccccCccccccc--cCCCCCCCCCCcccccccchhhccCcCCcccccccchhhcc
Confidence            35689999999998  55655468999999999999999999999998887655433

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

Probab=96.76  E-value=0.00084  Score=66.20  Aligned_cols=61  Identities=30%  Similarity=0.491  Sum_probs=46.3

Q ss_pred             CCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCCCCCChHHHHHHHH
Q 016591           27 CDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPTSQELLEAVE   90 (386)
Q Consensus        27 ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~kd~~~~~ll~ave   90 (386)
                      -.+.|-||..+|  ..| +++.|+|.||..|...-++....|.+|-+.+.-.-....+++..+.
T Consensus       240 ~Pf~c~icr~~f--~~p-Vvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~~~~akeL~~~L~  300 (313)
T KOG1813|consen  240 LPFKCFICRKYF--YRP-VVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHGSFNVAKELLVSLK  300 (313)
T ss_pred             CCcccccccccc--ccc-hhhcCCceeehhhhccccccCCcceecccccccccchHHHHHHHHH
Confidence            355699999999  444 4559999999999999999989999998887654444444444443

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

Probab=96.75  E-value=0.002  Score=61.63  Aligned_cols=52  Identities=31%  Similarity=0.663  Sum_probs=42.7

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHhc--------CCCCCCccccCCCC
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQR--------SSQCPMCWQPISLK   78 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~--------s~~CPlCR~~i~~k   78 (386)
                      +.+..|.+|-..+..++.+++ -|.|.||++|+.+|...        ..+||.|.++|-..
T Consensus        48 DY~pNC~LC~t~La~gdt~RL-vCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp  107 (299)
T KOG3970|consen   48 DYNPNCRLCNTPLASGDTTRL-VCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPP  107 (299)
T ss_pred             CCCCCCceeCCccccCcceee-hhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCC
Confidence            567789999999877777666 89999999999999742        36899998887543

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

Probab=96.67  E-value=0.0011  Score=62.17  Aligned_cols=48  Identities=25%  Similarity=0.634  Sum_probs=40.4

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCC
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPIS   76 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~   76 (386)
                      .-.+.|-||-.+|   ..++++.|||.||..|...-++....|-+|-+...
T Consensus       194 ~IPF~C~iCKkdy---~spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~  241 (259)
T COG5152         194 KIPFLCGICKKDY---ESPVVTECGHSFCSLCAIRKYQKGDECGVCGKATY  241 (259)
T ss_pred             CCceeehhchhhc---cchhhhhcchhHHHHHHHHHhccCCcceecchhhc
Confidence            3467899999998   44566699999999999998888899999977654

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

Probab=96.55  E-value=0.0016  Score=65.71  Aligned_cols=54  Identities=20%  Similarity=0.466  Sum_probs=44.9

Q ss_pred             cCCCccCCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCC
Q 016591           21 GGIQDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISL   77 (386)
Q Consensus        21 g~iqd~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~   77 (386)
                      +.+.+.+|..|+||+.--   ...+..||+|.-|+.||...+-..+.|=+|+..+..
T Consensus       415 ~~lp~sEd~lCpICyA~p---i~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~  468 (489)
T KOG4692|consen  415 KDLPDSEDNLCPICYAGP---INAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVID  468 (489)
T ss_pred             CCCCCcccccCcceeccc---chhhccCCCCchHHHHHHHHHhcCCeeeEecceeee
Confidence            455778899999998754   334666999999999999999999999999887753

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

Probab=96.25  E-value=0.0031  Score=72.55  Aligned_cols=52  Identities=33%  Similarity=0.715  Sum_probs=41.4

Q ss_pred             CCCccccccccccCCCCceeccCCccccHHHHHHHHhcC----------CCCCCccccCCCC
Q 016591           27 CDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRS----------SQCPMCWQPISLK   78 (386)
Q Consensus        27 ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s----------~~CPlCR~~i~~k   78 (386)
                      -|+.|.||+.+-....|...+.|+|.||++|.+..+++.          -.||+|+.+|...
T Consensus      3485 ~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~ 3546 (3738)
T KOG1428|consen 3485 ADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHI 3546 (3738)
T ss_pred             cCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhH
Confidence            578999999875555677777999999999999877643          2699999988643

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

Probab=96.12  E-value=0.003  Score=66.63  Aligned_cols=52  Identities=25%  Similarity=0.680  Sum_probs=40.5

Q ss_pred             CccCCCccccccccccCCCCceeccCCccccHHHHHHHHh-----cCCCCCCccccCCCC
Q 016591           24 QDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQ-----RSSQCPMCWQPISLK   78 (386)
Q Consensus        24 qd~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq-----~s~~CPlCR~~i~~k   78 (386)
                      .+..+..|.+|-+.-   +......|.|.||..||.++..     ...+||.|-..+...
T Consensus       532 enk~~~~C~lc~d~a---ed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD  588 (791)
T KOG1002|consen  532 ENKGEVECGLCHDPA---EDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID  588 (791)
T ss_pred             cccCceeecccCChh---hhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence            345577899999886   3345569999999999999984     247899998877654

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=95.91  E-value=0.0077  Score=60.66  Aligned_cols=56  Identities=20%  Similarity=0.457  Sum_probs=40.3

Q ss_pred             ccCCCccccccccccCCCC-ceeccCCccccHHHHHHHHhc-CCCCCCccccCCCCCC
Q 016591           25 DACDDACSICLEDFSESDP-STLTSCKHEFHLQCILEWCQR-SSQCPMCWQPISLKDP   80 (386)
Q Consensus        25 d~ed~~C~ICle~f~~~~p-v~ll~CgH~FC~~CI~~Wlq~-s~~CPlCR~~i~~kd~   80 (386)
                      +++|+.|++|++.+...+. ..-.+||-..|.-|+....+. ...||.||..+..++.
T Consensus        11 edeed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~denv   68 (480)
T COG5175          11 EDEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDENV   68 (480)
T ss_pred             ccccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccce
Confidence            3456679999998743332 344479988899998776653 5789999988876543

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.79  E-value=0.0078  Score=58.29  Aligned_cols=54  Identities=15%  Similarity=0.343  Sum_probs=45.2

Q ss_pred             CCCccccccccccCCCCce-eccCCccccHHHHHHHHhcCCCCCCccccCCCCCC
Q 016591           27 CDDACSICLEDFSESDPST-LTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDP   80 (386)
Q Consensus        27 ed~~C~ICle~f~~~~pv~-ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~kd~   80 (386)
                      ....|+||.+.+.+.-+.. +-+|||+||.+|...+......||+|-.++..+++
T Consensus       220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdi  274 (303)
T KOG3039|consen  220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDI  274 (303)
T ss_pred             cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccce
Confidence            4677999999997665544 44899999999999999989999999998886653

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

Probab=95.75  E-value=0.0033  Score=64.23  Aligned_cols=51  Identities=25%  Similarity=0.610  Sum_probs=40.3

Q ss_pred             ccCCCccccccccccCCC-CceeccCCccccHHHHHHHHhcC--CCCCCccccC
Q 016591           25 DACDDACSICLEDFSESD-PSTLTSCKHEFHLQCILEWCQRS--SQCPMCWQPI   75 (386)
Q Consensus        25 d~ed~~C~ICle~f~~~~-pv~ll~CgH~FC~~CI~~Wlq~s--~~CPlCR~~i   75 (386)
                      .+.++.|..|-+.+...+ ....+||.|.||..|+.+++...  ..||.||+..
T Consensus       362 ~e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crklr  415 (518)
T KOG1941|consen  362 EETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKLR  415 (518)
T ss_pred             HHHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHHH
Confidence            355788999999884433 46778999999999999999754  6899998543

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

Probab=95.70  E-value=0.0097  Score=43.97  Aligned_cols=45  Identities=24%  Similarity=0.641  Sum_probs=22.9

Q ss_pred             cccccccccCCC-CceeccCCccccHHHHHHHHh-cCCCCCCccccC
Q 016591           31 CSICLEDFSESD-PSTLTSCKHEFHLQCILEWCQ-RSSQCPMCWQPI   75 (386)
Q Consensus        31 C~ICle~f~~~~-pv~ll~CgH~FC~~CI~~Wlq-~s~~CPlCR~~i   75 (386)
                      |++|.+.+...+ ...--+|++.+|..|+...+. ....||-||+++
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            789999883222 233336899999999999886 578899999875

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

Probab=95.64  E-value=0.0082  Score=60.61  Aligned_cols=50  Identities=22%  Similarity=0.490  Sum_probs=40.6

Q ss_pred             CccCCCccccccccccCCCCceeccCCccccHHHHHHH--HhcCCCCCCccccCC
Q 016591           24 QDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEW--CQRSSQCPMCWQPIS   76 (386)
Q Consensus        24 qd~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~W--lq~s~~CPlCR~~i~   76 (386)
                      +|+++..|.||-+.+   .-..++||+|..|.-|-.+.  |...+.||+||..+.
T Consensus        57 tDEen~~C~ICA~~~---TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e  108 (493)
T COG5236          57 TDEENMNCQICAGST---TYSARYPCGHQICHACAVRLRALYMQKGCPLCRTETE  108 (493)
T ss_pred             cccccceeEEecCCc---eEEEeccCCchHHHHHHHHHHHHHhccCCCccccccc
Confidence            667778899999876   44677899999999998765  456789999997764

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

Probab=95.46  E-value=0.0078  Score=60.90  Aligned_cols=47  Identities=30%  Similarity=0.637  Sum_probs=34.3

Q ss_pred             CccCCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCC
Q 016591           24 QDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPIS   76 (386)
Q Consensus        24 qd~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~   76 (386)
                      .+..++.|.||++..  .+ ...++|||..|  |+..... -..||+||+.|.
T Consensus       301 ~~~~p~lcVVcl~e~--~~-~~fvpcGh~cc--ct~cs~~-l~~CPvCR~rI~  347 (355)
T KOG1571|consen  301 ELPQPDLCVVCLDEP--KS-AVFVPCGHVCC--CTLCSKH-LPQCPVCRQRIR  347 (355)
T ss_pred             ccCCCCceEEecCCc--cc-eeeecCCcEEE--chHHHhh-CCCCchhHHHHH
Confidence            345577799999987  33 56669999977  7765433 344999998775

>PF04641 Rtf2: Rtf2 RING-finger

Probab=95.38  E-value=0.015  Score=56.53  Aligned_cols=54  Identities=22%  Similarity=0.486  Sum_probs=41.4

Q ss_pred             ccCCCccccccccccCCCC-ceeccCCccccHHHHHHHHhcCCCCCCccccCCCCC
Q 016591           25 DACDDACSICLEDFSESDP-STLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKD   79 (386)
Q Consensus        25 d~ed~~C~ICle~f~~~~p-v~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~kd   79 (386)
                      ....+.|||+...|..... +.+.+|||+|+..||.+.- ....||+|-.+|...|
T Consensus       110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~D  164 (260)
T PF04641_consen  110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEED  164 (260)
T ss_pred             CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccccCC
Confidence            3557789999999844333 4455899999999999974 4567999999887554

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

Probab=95.34  E-value=0.014  Score=58.02  Aligned_cols=48  Identities=25%  Similarity=0.544  Sum_probs=38.3

Q ss_pred             CccccccccccCCCCceeccCCccccHHHHHHHHh-cCCCCCCc-cccCCCC
Q 016591           29 DACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQ-RSSQCPMC-WQPISLK   78 (386)
Q Consensus        29 ~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq-~s~~CPlC-R~~i~~k   78 (386)
                      +.|+.|..++  .+++....|+|.||..||..-|. ..+.||.| |+.+...
T Consensus       275 LkCplc~~Ll--rnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvlld  324 (427)
T COG5222         275 LKCPLCHCLL--RNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLLD  324 (427)
T ss_pred             ccCcchhhhh--hCcccCccccchHHHHHHhhhhhhccccCCCcccccchhh
Confidence            8899999988  66777667999999999998775 56789999 4444433

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

Probab=95.31  E-value=0.0025  Score=62.91  Aligned_cols=44  Identities=27%  Similarity=0.620  Sum_probs=33.6

Q ss_pred             cCCCccccccccccCCCCceeccCCc-cccHHHHHHHHhcCCCCCCccccCC
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKH-EFHLQCILEWCQRSSQCPMCWQPIS   76 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH-~FC~~CI~~Wlq~s~~CPlCR~~i~   76 (386)
                      +.+.-|.||++..   ...+.|+||| +-|.+|-...    ..||+||+.+.
T Consensus       298 ~~~~LC~ICmDaP---~DCvfLeCGHmVtCt~CGkrm----~eCPICRqyi~  342 (350)
T KOG4275|consen  298 ATRRLCAICMDAP---RDCVFLECGHMVTCTKCGKRM----NECPICRQYIV  342 (350)
T ss_pred             hHHHHHHHHhcCC---cceEEeecCcEEeehhhcccc----ccCchHHHHHH
Confidence            3467799999986   4456779999 6788886443    48999998764

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

Probab=95.18  E-value=0.019  Score=56.27  Aligned_cols=49  Identities=27%  Similarity=0.601  Sum_probs=39.3

Q ss_pred             CCccccccccccCCC---CceeccCCccccHHHHHHHHhc-CCCCCCccccCC
Q 016591           28 DDACSICLEDFSESD---PSTLTSCKHEFHLQCILEWCQR-SSQCPMCWQPIS   76 (386)
Q Consensus        28 d~~C~ICle~f~~~~---pv~ll~CgH~FC~~CI~~Wlq~-s~~CPlCR~~i~   76 (386)
                      -..|-||-++|...+   .++++.|||.||..|+...+.. .-.||.||....
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~~   55 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETTE   55 (296)
T ss_pred             CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCccc
Confidence            357999999996553   3678889999999999887764 457999999863

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

Probab=95.11  E-value=0.0073  Score=58.11  Aligned_cols=46  Identities=33%  Similarity=0.711  Sum_probs=34.6

Q ss_pred             ccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCCC
Q 016591           30 ACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLK   78 (386)
Q Consensus        30 ~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~k   78 (386)
                      .|.-|..--. .++..++.|.|+||..|...-.  ...||+|++.+...
T Consensus         5 hCn~C~~~~~-~~~f~LTaC~HvfC~~C~k~~~--~~~C~lCkk~ir~i   50 (233)
T KOG4739|consen    5 HCNKCFRFPS-QDPFFLTACRHVFCEPCLKASS--PDVCPLCKKSIRII   50 (233)
T ss_pred             EeccccccCC-CCceeeeechhhhhhhhcccCC--ccccccccceeeee
Confidence            4887875543 6788999999999999975422  23899999987643

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

Probab=94.89  E-value=0.029  Score=57.87  Aligned_cols=46  Identities=22%  Similarity=0.433  Sum_probs=36.2

Q ss_pred             CCccccccccccCCCCceeccCCccccHHHHHHHHhc--------CCCCCCccc
Q 016591           28 DDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQR--------SSQCPMCWQ   73 (386)
Q Consensus        28 d~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~--------s~~CPlCR~   73 (386)
                      -..|.||++..........++|+|+||..|+..++.-        .-.||-|.-
T Consensus       184 lf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C  237 (445)
T KOG1814|consen  184 LFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC  237 (445)
T ss_pred             cccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence            4679999999765577888999999999999999842        235776643

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

Probab=94.75  E-value=0.019  Score=53.25  Aligned_cols=52  Identities=31%  Similarity=0.703  Sum_probs=35.8

Q ss_pred             CCCccccccccccCCCC----ceeccCCccccHHHHHHHHhcC-----------CCCCCccccCCCC
Q 016591           27 CDDACSICLEDFSESDP----STLTSCKHEFHLQCILEWCQRS-----------SQCPMCWQPISLK   78 (386)
Q Consensus        27 ed~~C~ICle~f~~~~p----v~ll~CgH~FC~~CI~~Wlq~s-----------~~CPlCR~~i~~k   78 (386)
                      +-..|-||+.+-.++..    .--..|+..||.-|+..||..-           ..||+|-.++..+
T Consensus       164 ~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK  230 (234)
T KOG3268|consen  164 ELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK  230 (234)
T ss_pred             hhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence            34457788766433321    1233799999999999999631           3699999888654

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

Probab=94.16  E-value=0.04  Score=55.37  Aligned_cols=48  Identities=23%  Similarity=0.591  Sum_probs=37.9

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccC
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPI   75 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i   75 (386)
                      -....|+||+...  .++.++.--|-+||+.||..++.....||+--.++
T Consensus       298 ~~~~~CpvClk~r--~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~  345 (357)
T KOG0826|consen  298 PDREVCPVCLKKR--QNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA  345 (357)
T ss_pred             CccccChhHHhcc--CCCceEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence            3456799999876  45555555699999999999999999999865544

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

Probab=94.04  E-value=0.036  Score=61.50  Aligned_cols=46  Identities=39%  Similarity=0.916  Sum_probs=35.6

Q ss_pred             CCccccccccccCCCCc-eeccCCccccHHHHHHHHhcC-------CCCCCccc
Q 016591           28 DDACSICLEDFSESDPS-TLTSCKHEFHLQCILEWCQRS-------SQCPMCWQ   73 (386)
Q Consensus        28 d~~C~ICle~f~~~~pv-~ll~CgH~FC~~CI~~Wlq~s-------~~CPlCR~   73 (386)
                      ..+|.||++.+....++ ....|.|+||+.||..|....       -.||.|+.
T Consensus       191 ~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs  244 (950)
T KOG1952|consen  191 KYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS  244 (950)
T ss_pred             ceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence            56799999998655543 344699999999999998531       36999973

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

Probab=94.03  E-value=0.026  Score=62.54  Aligned_cols=42  Identities=26%  Similarity=0.740  Sum_probs=35.5

Q ss_pred             CccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccC
Q 016591           29 DACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPI   75 (386)
Q Consensus        29 ~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i   75 (386)
                      ..|.+|-..+  +-|.+.-.|+|.||.+|+.   .....||.|+..+
T Consensus       841 skCs~C~~~L--dlP~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~  882 (933)
T KOG2114|consen  841 SKCSACEGTL--DLPFVHFLCGHSYHQHCLE---DKEDKCPKCLPEL  882 (933)
T ss_pred             eeecccCCcc--ccceeeeecccHHHHHhhc---cCcccCCccchhh
Confidence            5799999988  6788888999999999987   4567899997743

>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=93.85  E-value=0.024  Score=46.71  Aligned_cols=35  Identities=23%  Similarity=0.479  Sum_probs=27.7

Q ss_pred             CccCCCccccccccccCCCCceeccCCccccHHHHH
Q 016591           24 QDACDDACSICLEDFSESDPSTLTSCKHEFHLQCIL   59 (386)
Q Consensus        24 qd~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~   59 (386)
                      .-..+..|+||...|.. ....+.||+|.||..|+.
T Consensus        74 ~i~~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   74 VITESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             EECCCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence            33557779999999854 456677999999999974

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 [].

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

Probab=93.69  E-value=0.035  Score=54.81  Aligned_cols=52  Identities=25%  Similarity=0.547  Sum_probs=41.3

Q ss_pred             CccCCCccccccccccCC-CCceeccCCccccHHHHHHHHhcCCCCCCccccCC
Q 016591           24 QDACDDACSICLEDFSES-DPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPIS   76 (386)
Q Consensus        24 qd~ed~~C~ICle~f~~~-~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~   76 (386)
                      ....+..||||.+.+... ..+..++|+|..|..|+.+.......||+|.+ +.
T Consensus       154 e~~~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~-~~  206 (276)
T KOG1940|consen  154 ERSSEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK-PG  206 (276)
T ss_pred             hhcccCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc-hH
Confidence            334466699999987544 34677799999999999999877799999987 54

>PHA03096 p28-like protein; Provisional

Probab=93.69  E-value=0.035  Score=55.09  Aligned_cols=45  Identities=31%  Similarity=0.621  Sum_probs=31.5

Q ss_pred             CccccccccccCCCC-----ceeccCCccccHHHHHHHHhc---CCCCCCccc
Q 016591           29 DACSICLEDFSESDP-----STLTSCKHEFHLQCILEWCQR---SSQCPMCWQ   73 (386)
Q Consensus        29 ~~C~ICle~f~~~~p-----v~ll~CgH~FC~~CI~~Wlq~---s~~CPlCR~   73 (386)
                      ..|.||++.......     -.+..|.|.||..||..|...   ...||.|+.
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            569999998643211     244479999999999999853   234555544

>PHA02862 5L protein; Provisional

Probab=93.47  E-value=0.059  Score=48.50  Aligned_cols=47  Identities=23%  Similarity=0.706  Sum_probs=34.8

Q ss_pred             CCccccccccccCCCCceeccCC-----ccccHHHHHHHHh--cCCCCCCccccCCCC
Q 016591           28 DDACSICLEDFSESDPSTLTSCK-----HEFHLQCILEWCQ--RSSQCPMCWQPISLK   78 (386)
Q Consensus        28 d~~C~ICle~f~~~~pv~ll~Cg-----H~FC~~CI~~Wlq--~s~~CPlCR~~i~~k   78 (386)
                      .+.|=||++.-  ++..  .||.     ...|..|+.+|+.  ++..|++|+.++..+
T Consensus         2 ~diCWIC~~~~--~e~~--~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik   55 (156)
T PHA02862          2 SDICWICNDVC--DERN--NFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIK   55 (156)
T ss_pred             CCEEEEecCcC--CCCc--ccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEE
Confidence            46799999975  2222  3553     4689999999996  456899999888644

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=93.25  E-value=0.086  Score=48.13  Aligned_cols=48  Identities=25%  Similarity=0.756  Sum_probs=34.5

Q ss_pred             cCCCccccccccccCCCCceeccCC--c---cccHHHHHHHHhc--CCCCCCccccCCC
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCK--H---EFHLQCILEWCQR--SSQCPMCWQPISL   77 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~Cg--H---~FC~~CI~~Wlq~--s~~CPlCR~~i~~   77 (386)
                      ..+..|-||.+.-  +...  .||.  .   ..|..|+..|+..  ...|++|..++..
T Consensus         6 ~~~~~CRIC~~~~--~~~~--~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i   60 (162)
T PHA02825          6 LMDKCCWICKDEY--DVVT--NYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNI   60 (162)
T ss_pred             CCCCeeEecCCCC--CCcc--CCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEE
Confidence            4577899999885  2222  3554  4   4599999999964  4689999887753

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

Probab=92.97  E-value=0.04  Score=55.04  Aligned_cols=41  Identities=27%  Similarity=0.652  Sum_probs=27.9

Q ss_pred             cccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccC
Q 016591           31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPI   75 (386)
Q Consensus        31 C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i   75 (386)
                      |--|--.+  ..--++.+|+|+||++|...  ...+.||.|-..+
T Consensus        93 Cd~Cd~PI--~IYGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~V  133 (389)
T KOG2932|consen   93 CDRCDFPI--AIYGRMIPCKHVFCLECARS--DSDKICPLCDDRV  133 (389)
T ss_pred             ecccCCcc--eeeecccccchhhhhhhhhc--CccccCcCcccHH
Confidence            55564433  22246779999999999654  4467899996544

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

Probab=92.96  E-value=0.041  Score=60.49  Aligned_cols=46  Identities=30%  Similarity=0.792  Sum_probs=37.4

Q ss_pred             CccccccccccCCCCceeccCCccccHHHHHHHHhc--CCCCCCccccCCCC
Q 016591           29 DACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQR--SSQCPMCWQPISLK   78 (386)
Q Consensus        29 ~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~--s~~CPlCR~~i~~k   78 (386)
                      ..|.||++ .   +...++.|+|.||..|+...++.  ...||+||..+..+
T Consensus       455 ~~c~ic~~-~---~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~  502 (674)
T KOG1001|consen  455 HWCHICCD-L---DSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEK  502 (674)
T ss_pred             cccccccc-c---ccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHH
Confidence            78999999 4   66777799999999999988864  24699998877543

>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=92.42  E-value=0.05  Score=40.17  Aligned_cols=44  Identities=32%  Similarity=0.721  Sum_probs=25.4

Q ss_pred             ccccccccccCCCCceeccCC-ccccHHHHHHHHhcCCCCCCccccCCCC
Q 016591           30 ACSICLEDFSESDPSTLTSCK-HEFHLQCILEWCQRSSQCPMCWQPISLK   78 (386)
Q Consensus        30 ~C~ICle~f~~~~pv~ll~Cg-H~FC~~CI~~Wlq~s~~CPlCR~~i~~k   78 (386)
                      .|--|+-..    . .+..|. |..|..|+...+..+..||+|+.+++.+
T Consensus         4 nCKsCWf~~----k-~Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk   48 (50)
T PF03854_consen    4 NCKSCWFAN----K-GLIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK   48 (50)
T ss_dssp             ---SS-S------S-SEEE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred             cChhhhhcC----C-CeeeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence            366666432    1 233675 9999999999999999999999988643

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.

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

Probab=92.11  E-value=0.12  Score=53.18  Aligned_cols=49  Identities=18%  Similarity=0.394  Sum_probs=40.3

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHhcC---CCCCCcccc
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRS---SQCPMCWQP   74 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s---~~CPlCR~~   74 (386)
                      ..-+.|||=.+.-.+.+|+..+.|||+.+.+-|....++.   +.||+|-..
T Consensus       332 HSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e  383 (394)
T KOG2817|consen  332 HSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVE  383 (394)
T ss_pred             cceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence            3356799988887778899999999999999999988643   679999543

>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=92.03  E-value=0.099  Score=46.47  Aligned_cols=45  Identities=18%  Similarity=0.446  Sum_probs=31.2

Q ss_pred             CCccccccccccCCCCceeccCC------ccccHHHHHHHHhcCCCCCCcc
Q 016591           28 DDACSICLEDFSESDPSTLTSCK------HEFHLQCILEWCQRSSQCPMCW   72 (386)
Q Consensus        28 d~~C~ICle~f~~~~pv~ll~Cg------H~FC~~CI~~Wlq~s~~CPlCR   72 (386)
                      ..+|.||++.+...+-++.+.|+      |.||..|+.+|-.....=|.=|
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~~rDPfnR   76 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRERNRDPFNR   76 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhhccCCCccc
Confidence            57899999999553344444554      8899999999964444444443

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=91.69  E-value=0.094  Score=37.64  Aligned_cols=41  Identities=24%  Similarity=0.709  Sum_probs=22.1

Q ss_pred             cccccccccCCCCceeccCCccccHHHHHHHHhcCC--CCCCc
Q 016591           31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSS--QCPMC   71 (386)
Q Consensus        31 C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~--~CPlC   71 (386)
                      |.+|.+....+..-....|.-.+|..|+..++....  .||.|
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            678888774442222225888999999999997544  69987

; PDB: 3NW0_A 2CT0_A.

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

Probab=91.62  E-value=0.14  Score=52.33  Aligned_cols=32  Identities=25%  Similarity=0.782  Sum_probs=25.4

Q ss_pred             cCCccccHHHHHHHHhc-------------CCCCCCccccCCCCC
Q 016591           48 SCKHEFHLQCILEWCQR-------------SSQCPMCWQPISLKD   79 (386)
Q Consensus        48 ~CgH~FC~~CI~~Wlq~-------------s~~CPlCR~~i~~kd   79 (386)
                      .|...+|..|+-+|+..             +..||+||+.|...|
T Consensus       310 ~CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilD  354 (358)
T PF10272_consen  310 YCRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILD  354 (358)
T ss_pred             cccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeee
Confidence            47778899999999832             346999999998654

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

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=91.57  E-value=0.11  Score=39.45  Aligned_cols=47  Identities=26%  Similarity=0.538  Sum_probs=33.3

Q ss_pred             CCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCCCC
Q 016591           28 DDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKD   79 (386)
Q Consensus        28 d~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~kd   79 (386)
                      +..|-.|...-   ..-.+++|+|..|..|+.-+  +-..||+|-.+|...+
T Consensus         7 ~~~~~~~~~~~---~~~~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~~~~   53 (55)
T PF14447_consen    7 EQPCVFCGFVG---TKGTVLPCGHLICDNCFPGE--RYNGCPFCGTPFEFDD   53 (55)
T ss_pred             ceeEEEccccc---cccccccccceeeccccChh--hccCCCCCCCcccCCC
Confidence            44566676542   34567799999999996543  4467999988886543

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

Probab=91.53  E-value=0.11  Score=37.86  Aligned_cols=40  Identities=30%  Similarity=0.902  Sum_probs=25.8

Q ss_pred             cccccccccCCCCceeccCC--c---cccHHHHHHHHh--cCCCCCCc
Q 016591           31 CSICLEDFSESDPSTLTSCK--H---EFHLQCILEWCQ--RSSQCPMC   71 (386)
Q Consensus        31 C~ICle~f~~~~pv~ll~Cg--H---~FC~~CI~~Wlq--~s~~CPlC   71 (386)
                      |-||++.-.... ..+.||.  -   ..|..|+..|+.  ....|++|
T Consensus         1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            679998864433 3444664  3   679999999997  45679887

>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=91.50  E-value=0.19  Score=49.78  Aligned_cols=54  Identities=22%  Similarity=0.442  Sum_probs=38.1

Q ss_pred             ccccccccc--cCCCCceeccCCccccHHHHHHHHh-cCCCCCCccccCCCCCCChH
Q 016591           30 ACSICLEDF--SESDPSTLTSCKHEFHLQCILEWCQ-RSSQCPMCWQPISLKDPTSQ   83 (386)
Q Consensus        30 ~C~ICle~f--~~~~pv~ll~CgH~FC~~CI~~Wlq-~s~~CPlCR~~i~~kd~~~~   83 (386)
                      .|++|.-..  ...-.+.+-+|+|..|-.|+...+. +...||.|-..+....+..+
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nfr~q   58 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNNFRVQ   58 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhcccchh
Confidence            589997652  1111234448999999999999886 56789999887765555444

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

Probab=91.46  E-value=0.087  Score=60.86  Aligned_cols=46  Identities=30%  Similarity=0.663  Sum_probs=37.8

Q ss_pred             CCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccC
Q 016591           28 DDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPI   75 (386)
Q Consensus        28 d~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i   75 (386)
                      -..|.||++.+.  ..-.+..|+|.||..|+..|+..+..||+|+...
T Consensus      1153 ~~~c~ic~dil~--~~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1153 HFVCEICLDILR--NQGGIAGCGHEPCCRCDELWLYASSRCPICKSIK 1198 (1394)
T ss_pred             ccchHHHHHHHH--hcCCeeeechhHhhhHHHHHHHHhccCcchhhhh
Confidence            447999999983  2334557999999999999999999999997443

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

Probab=91.18  E-value=0.064  Score=51.99  Aligned_cols=55  Identities=22%  Similarity=0.434  Sum_probs=37.4

Q ss_pred             cCCCccccccccc--cCCCCceecc-CCccccHHHHHHHHhc-CCCCC--CccccCCCCCC
Q 016591           26 ACDDACSICLEDF--SESDPSTLTS-CKHEFHLQCILEWCQR-SSQCP--MCWQPISLKDP   80 (386)
Q Consensus        26 ~ed~~C~ICle~f--~~~~pv~ll~-CgH~FC~~CI~~Wlq~-s~~CP--lCR~~i~~kd~   80 (386)
                      ..|..||||..+.  .+...+.+-| |.|..|-.|+.+.+.. ...||  -|-+.+....+
T Consensus         8 ~~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILRK~kf   68 (314)
T COG5220           8 MEDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILRKIKF   68 (314)
T ss_pred             hhcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHHHhcc
Confidence            3467899998763  1111233335 9999999999999864 46899  78665544333

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

Probab=90.56  E-value=0.18  Score=56.04  Aligned_cols=53  Identities=28%  Similarity=0.708  Sum_probs=40.5

Q ss_pred             cCCCccccccccccCCCCceeccCCc-----cccHHHHHHHHh--cCCCCCCccccCCCCC
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKH-----EFHLQCILEWCQ--RSSQCPMCWQPISLKD   79 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH-----~FC~~CI~~Wlq--~s~~CPlCR~~i~~kd   79 (386)
                      +++..|-||...-..++|... ||++     ..|..|+.+|+.  ....|-+|..++..++
T Consensus        10 ~d~~~CRICr~e~~~d~pLfh-PCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~   69 (1175)
T COG5183          10 EDKRSCRICRTEDIRDDPLFH-PCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKD   69 (1175)
T ss_pred             ccchhceeecCCCCCCCcCcc-cccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeee
Confidence            346789999987655666655 7764     579999999997  4567999998887654

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

Probab=90.37  E-value=0.2  Score=50.10  Aligned_cols=47  Identities=28%  Similarity=0.509  Sum_probs=35.6

Q ss_pred             ccCCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCC
Q 016591           25 DACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPIS   76 (386)
Q Consensus        25 d~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~   76 (386)
                      +..-++||||.+.+  ..|+..-.=||..|..|-.   +....||.||.++.
T Consensus        45 ~~~lleCPvC~~~l--~~Pi~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g   91 (299)
T KOG3002|consen   45 DLDLLDCPVCFNPL--SPPIFQCDNGHLACSSCRT---KVSNKCPTCRLPIG   91 (299)
T ss_pred             chhhccCchhhccC--cccceecCCCcEehhhhhh---hhcccCCccccccc
Confidence            34456799999998  5555553447999999964   45678999999987

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

Probab=88.42  E-value=0.27  Score=51.27  Aligned_cols=35  Identities=14%  Similarity=0.424  Sum_probs=28.9

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHh
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQ   63 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq   63 (386)
                      ++++.|+||...|  .+ +.+++|+|..|.-|....+.
T Consensus         2 eeelkc~vc~~f~--~e-piil~c~h~lc~~ca~~~~~   36 (699)
T KOG4367|consen    2 EEELKCPVCGSFY--RE-PIILPCSHNLCQACARNILV   36 (699)
T ss_pred             cccccCceehhhc--cC-ceEeecccHHHHHHHHhhcc
Confidence            5689999999988  44 45569999999999987764

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

Probab=87.52  E-value=0.54  Score=42.99  Aligned_cols=12  Identities=42%  Similarity=0.827  Sum_probs=10.1

Q ss_pred             CCCccccccccc
Q 016591           27 CDDACSICLEDF   38 (386)
Q Consensus        27 ed~~C~ICle~f   38 (386)
                      +|..|+||+|..
T Consensus         1 ed~~CpICme~P   12 (162)
T PF07800_consen    1 EDVTCPICMEHP   12 (162)
T ss_pred             CCccCceeccCC
Confidence            467899999986

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.

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=85.85  E-value=0.37  Score=48.04  Aligned_cols=33  Identities=24%  Similarity=0.633  Sum_probs=26.1

Q ss_pred             cCCccccHHHHHHHHh-------------cCCCCCCccccCCCCCC
Q 016591           48 SCKHEFHLQCILEWCQ-------------RSSQCPMCWQPISLKDP   80 (386)
Q Consensus        48 ~CgH~FC~~CI~~Wlq-------------~s~~CPlCR~~i~~kd~   80 (386)
                      -|...+|..|+-.|+.             ++.+||+||+.+...|.
T Consensus       324 ~crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv  369 (381)
T KOG3899|consen  324 ICRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDV  369 (381)
T ss_pred             ccccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeee
Confidence            4778889999999983             34689999999886543

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

Probab=84.77  E-value=0.77  Score=40.93  Aligned_cols=52  Identities=19%  Similarity=0.326  Sum_probs=36.9

Q ss_pred             CCCccccccccccCCCCcee-ccCCccccHHHHHHHHhc---CCCCCCccccCCCC
Q 016591           27 CDDACSICLEDFSESDPSTL-TSCKHEFHLQCILEWCQR---SSQCPMCWQPISLK   78 (386)
Q Consensus        27 ed~~C~ICle~f~~~~pv~l-l~CgH~FC~~CI~~Wlq~---s~~CPlCR~~i~~k   78 (386)
                      .--+|.||.|...+..-+.- --||-..|.-|-...|+.   ...||.|+..|...
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            45579999998633221111 149999999999887763   56899999988643

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

Probab=84.39  E-value=0.36  Score=53.04  Aligned_cols=48  Identities=31%  Similarity=0.694  Sum_probs=37.2

Q ss_pred             CCccccccccccCCCCceeccCCccccHHHHHHHHh---cCCCCCCccccCCCC
Q 016591           28 DDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQ---RSSQCPMCWQPISLK   78 (386)
Q Consensus        28 d~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq---~s~~CPlCR~~i~~k   78 (386)
                      +.+|+||+..+  .++ ..+.|.|.||..|+..-+.   ....||+|+..+...
T Consensus        21 ~lEc~ic~~~~--~~p-~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~   71 (684)
T KOG4362|consen   21 ILECPICLEHV--KEP-SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKR   71 (684)
T ss_pred             hccCCceeEEe--ecc-chhhhhHHHHhhhhhceeeccCccccchhhhhhhhhh
Confidence            78899999988  444 5569999999999986554   356899998666543

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

Probab=83.49  E-value=0.48  Score=48.89  Aligned_cols=38  Identities=26%  Similarity=0.608  Sum_probs=27.1

Q ss_pred             CCCcccccc-ccccCCCCceeccCCccccHHHHHHHHhc
Q 016591           27 CDDACSICL-EDFSESDPSTLTSCKHEFHLQCILEWCQR   64 (386)
Q Consensus        27 ed~~C~ICl-e~f~~~~pv~ll~CgH~FC~~CI~~Wlq~   64 (386)
                      ...+|.||. +.........+..|+|.||..|+...++.
T Consensus       145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev  183 (384)
T KOG1812|consen  145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEV  183 (384)
T ss_pred             ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhh
Confidence            356799999 44322222235689999999999998863

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

Probab=82.51  E-value=0.81  Score=50.93  Aligned_cols=50  Identities=14%  Similarity=0.265  Sum_probs=33.8

Q ss_pred             cCCCccccccccccCCC-Cceec---cCCccccHHHHHHHHhc------CCCCCCccccC
Q 016591           26 ACDDACSICLEDFSESD-PSTLT---SCKHEFHLQCILEWCQR------SSQCPMCWQPI   75 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~-pv~ll---~CgH~FC~~CI~~Wlq~------s~~CPlCR~~i   75 (386)
                      ...+.|.||.-.|...+ -.-.+   .|+|.||.-||..|..+      ...|++|..-|
T Consensus        94 a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci  153 (1134)
T KOG0825|consen   94 AESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV  153 (1134)
T ss_pred             ccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence            34567888888775411 12222   49999999999999853      34688886544

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

Probab=82.37  E-value=0.47  Score=51.64  Aligned_cols=40  Identities=25%  Similarity=0.524  Sum_probs=29.2

Q ss_pred             CCccccccccccCCC-CceeccCCccccHHHHHHHHhcCCCCC
Q 016591           28 DDACSICLEDFSESD-PSTLTSCKHEFHLQCILEWCQRSSQCP   69 (386)
Q Consensus        28 d~~C~ICle~f~~~~-pv~ll~CgH~FC~~CI~~Wlq~s~~CP   69 (386)
                      -+.|.||+..|.... .++-+-|+|..|.+|+.....  .+||
T Consensus        11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn--~scp   51 (861)
T KOG3161|consen   11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN--ASCP   51 (861)
T ss_pred             HhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhh--ccCC
Confidence            466999988774332 345568999999999987654  4577

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

Probab=82.19  E-value=0.1  Score=53.54  Aligned_cols=51  Identities=22%  Similarity=0.514  Sum_probs=41.3

Q ss_pred             CCccccccccccCC-CCceeccCCccccHHHHHHHHhcCCCCCCccccCCCC
Q 016591           28 DDACSICLEDFSES-DPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLK   78 (386)
Q Consensus        28 d~~C~ICle~f~~~-~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~k   78 (386)
                      ...|.||.+.|+.. +.+..+.|+|.+|..||..|+.....||.|+..+...
T Consensus       196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~  247 (465)
T KOG0827|consen  196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPKN  247 (465)
T ss_pred             HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhhh
Confidence            45699999988433 3456668999999999999999888899999888643

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

Probab=81.95  E-value=0.74  Score=43.72  Aligned_cols=39  Identities=28%  Similarity=0.577  Sum_probs=28.1

Q ss_pred             cccccccccCCCCceeccCCc-cccHHHHHHHHhcCCCCCCccccCC
Q 016591           31 CSICLEDFSESDPSTLTSCKH-EFHLQCILEWCQRSSQCPMCWQPIS   76 (386)
Q Consensus        31 C~ICle~f~~~~pv~ll~CgH-~FC~~CI~~Wlq~s~~CPlCR~~i~   76 (386)
                      |-+|.+.-   ..+.++||.| .+|..|-..    -..||+|+....
T Consensus       161 Cr~C~~~~---~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~  200 (207)
T KOG1100|consen  161 CRKCGERE---ATVLLLPCRHLCLCGICDES----LRICPICRSPKT  200 (207)
T ss_pred             ceecCcCC---ceEEeecccceEeccccccc----CccCCCCcChhh
Confidence            88888763   5578889998 677777432    456999976543

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

Probab=80.78  E-value=0.81  Score=51.45  Aligned_cols=38  Identities=24%  Similarity=0.502  Sum_probs=30.3

Q ss_pred             CccCCCccccccccccCCCCceeccCCccccHHHHHHHH
Q 016591           24 QDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWC   62 (386)
Q Consensus        24 qd~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wl   62 (386)
                      .-+-.+.|.||...|.. .+-.+-+|||.||..||....
T Consensus       813 v~ep~d~C~~C~~~ll~-~pF~vf~CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  813 VLEPQDSCDHCGRPLLI-KPFYVFPCGHCFHRDCLIRHV  850 (911)
T ss_pred             EecCccchHHhcchhhc-CcceeeeccchHHHHHHHHHH
Confidence            33557889999988744 566777999999999998765

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

Probab=80.73  E-value=1.6  Score=32.19  Aligned_cols=43  Identities=21%  Similarity=0.514  Sum_probs=22.2

Q ss_pred             CccccccccccCCCCceeccCCccccHHHHHHHHh-----cCCCCCCcccc
Q 016591           29 DACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQ-----RSSQCPMCWQP   74 (386)
Q Consensus        29 ~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq-----~s~~CPlCR~~   74 (386)
                      +.|+|....+  ..|++...|.|.-|++- ..|+.     ..-.||+|.++
T Consensus         3 L~CPls~~~i--~~P~Rg~~C~H~~CFDl-~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    3 LRCPLSFQRI--RIPVRGKNCKHLQCFDL-ESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             SB-TTTSSB---SSEEEETT--SS--EEH-HHHHHHHHHS---B-TTT---
T ss_pred             eeCCCCCCEE--EeCccCCcCcccceECH-HHHHHHhhccCCeECcCCcCc
Confidence            5799999888  67888889999876543 34442     23469999763

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.

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

Probab=80.42  E-value=1.1  Score=45.08  Aligned_cols=50  Identities=20%  Similarity=0.386  Sum_probs=39.3

Q ss_pred             CccCCCccccccccccCCCCceeccCCccccHHHHHHHHhc---CCCCCCccc
Q 016591           24 QDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQR---SSQCPMCWQ   73 (386)
Q Consensus        24 qd~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~---s~~CPlCR~   73 (386)
                      -...-+.||+--+.-.+.+|+..+.|||+.-..-+....+.   .+.||+|-.
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            33445779987777777789999999999999998887664   467999943

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	386
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		1e-07
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		8e-05

>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger Protein 24 Length = 74

Iteration: 1
 Score = 54.3 bits (129), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 21/58 (36%), Positives = 33/58 (56%), Gaps = 4/58 (6%)
Query: 29 DACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPI----SLKDPTS 82
          + C++CLEDF   D   +  CKH FH +C+++W +    CP+C  P+     L  P+S
Sbjct: 16 ELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQLSGPSS 73

>pdb|2L0B|A Chain A, Solution Nmr Structure Of Zinc Finger Domain Of E3 Ubiquitin-Protein Ligase Praja-1 From Homo Sapiens, Northeast Structural Genomics Consortium (Nesg) Target Hr4710b Length = 91

Iteration: 1
 Score = 45.1 bits (105), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 18/48 (37%), Positives = 26/48 (54%), Gaps = 3/48 (6%)
Query: 24 QDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMC 71
          Q+ C   C IC  ++ + D +T   C H FH  C+  W Q+S  CP+C
Sbjct: 39 QEMC---CPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVC 83

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	386
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	3e-19
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	1e-16
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	2e-16
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	5e-15
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	8e-15
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	1e-14
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	4e-14
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	8e-14
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	2e-13
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	3e-13
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	3e-13
2ect_A	78	Ring finger protein 126; metal binding protein, st	8e-13
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	1e-12
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	2e-12
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	2e-12
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	2e-12
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	4e-12
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	9e-12
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	9e-12
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	1e-11
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	5e-11
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	1e-09
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	3e-05
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	3e-09
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	5e-09
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	1e-08
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	6e-08
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	1e-07
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	2e-07
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	4e-07
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	4e-07
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	6e-07
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	6e-07
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	6e-07
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	8e-07
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	9e-07
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	1e-06
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	2e-06
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	2e-06
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	2e-06
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	3e-06
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	3e-06
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	3e-06
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	3e-06
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	4e-06
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	4e-06
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	4e-06
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	1e-05
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	2e-05
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	3e-05
1z6u_A	150	NP95-like ring finger protein isoform B; structura	8e-05
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	2e-04
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	3e-04
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	9e-04

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

 Score = 80.1 bits (198), Expect = 3e-19
 Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 2/52 (3%)

Query: 25 DACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPIS 76
              + C ICLED S  + S    C H F   CI  W +++  CP+C  P+ 
Sbjct: 2  ATVAERCPICLEDPS--NYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE 51

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

 Score = 72.9 bits (179), Expect = 1e-16
 Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 4/53 (7%)

Query: 31 CSICLEDFSE----SDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKD 79
          C IC++ +SE          T C H F  QC+ +  + ++ CP C + I+ K 
Sbjct: 6  CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR 58

>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 = 72.2 bits (177), Expect = 2e-16
 Identities = 17/62 (27%), Positives = 31/62 (50%), Gaps = 4/62 (6%)

Query: 22 GIQDACDDACSICLEDFSE----SDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISL 77
          G++ +   +C IC++ +SE          T C H F  QC+ +  + ++ CP C + I+ 
Sbjct: 4  GLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH 63

Query: 78 KD 79
          K 
Sbjct: 64 KR 65

>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 = 67.7 bits (166), Expect = 5e-15
 Identities = 17/52 (32%), Positives = 23/52 (44%), Gaps = 1/52 (1%)

Query: 26 ACDDACSICLEDFSESD-PSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPIS 76
          +    C ICLED   S   + +  C H  H  C  E  +   +CP+C  P S
Sbjct: 3  SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS 54

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

 Score = 68.0 bits (166), Expect = 8e-15
 Identities = 15/56 (26%), Positives = 27/56 (48%), Gaps = 1/56 (1%)

Query: 24 QDACDDACSICLEDFSESD-PSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLK 78
          +    DAC  C  +  + D       C H FH  C+  W +++++CP+C Q   ++
Sbjct: 22 RVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVVQ 77

>2kiz_A E3 ubiquitin-protein ligase arkadia; ring-H2 finger, E3 ligase, Zn binding domain, metal zinc, zinc-finger, metal binding protein; NMR {Homo sapiens} Length = 69

 Score = 67.0 bits (164), Expect = 1e-14
 Identities = 18/63 (28%), Positives = 31/63 (49%)

Query: 20 EGGIQDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKD 79
          E G ++  ++ C+ICL    E +      C H FH  C+ +W   + +CP+C   I  + 
Sbjct: 6  EEGTEEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQL 65

Query: 80 PTS 82
          P+ 
Sbjct: 66 PSE 68

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

 Score = 65.9 bits (161), Expect = 4e-14
 Identities = 19/59 (32%), Positives = 31/59 (52%)

Query: 24 QDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPTS 82
          +    + C++CLEDF   D   +  CKH FH +C+++W +    CP+C  P+      S
Sbjct: 11 ELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQLS 69

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

 Score = 64.9 bits (158), Expect = 8e-14
 Identities = 16/52 (30%), Positives = 26/52 (50%), Gaps = 4/52 (7%)

Query: 31 CSICLEDFSE----SDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLK 78
          C IC++ +SE          T C H F  QC+ +  + ++ CP C + I+ K
Sbjct: 18 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK 69

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

 Score = 64.1 bits (156), Expect = 2e-13
 Identities = 18/70 (25%), Positives = 33/70 (47%), Gaps = 3/70 (4%)

Query: 25 DACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPTSQE 84
          +     C IC + F   +P  +T C+H F   C LE  + + +C +C QP       ++E
Sbjct: 12 EEIPFRCFICRQAFQ--NP-VVTKCRHYFCESCALEHFRATPRCYICDQPTGGIFNPAKE 68

Query: 85 LLEAVERERS 94
          L+  +++   
Sbjct: 69 LMAKLQKSGP 78

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

 Score = 63.2 bits (154), Expect = 3e-13
 Identities = 14/55 (25%), Positives = 28/55 (50%), Gaps = 4/55 (7%)

Query: 28 DDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPTS 82
          ++ C IC++  ++     +  C H F  +CI +W  R   CP+C   ++  + +S
Sbjct: 15 EEECCICMDGRAD----LILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGANESS 65

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

 Score = 63.9 bits (156), Expect = 3e-13
 Identities = 17/54 (31%), Positives = 25/54 (46%)

Query: 18 FVEGGIQDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMC 71
            E       +  C IC  ++ + D +T   C H FH  C+  W Q+S  CP+C
Sbjct: 30 VTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVC 83

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

 Score = 62.4 bits (152), Expect = 8e-13
 Identities = 14/61 (22%), Positives = 28/61 (45%)

Query: 24 QDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPTSQ 83
                 C +C ED++  +      C H FH  CI+ W ++   CP+C + ++ ++  + 
Sbjct: 11 HVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTATN 70

Query: 84 E 84
           
Sbjct: 71 P 71

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

 Score = 61.6 bits (150), Expect = 1e-12
 Identities = 14/49 (28%), Positives = 23/49 (46%)

Query: 28 DDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPIS 76
             C +C+ DF       +  C HEFH +C+ +W + +  CP+C     
Sbjct: 23 QTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSG 71

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

 Score = 61.3 bits (149), Expect = 2e-12
 Identities = 18/52 (34%), Positives = 24/52 (46%), Gaps = 2/52 (3%)

Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPTS 82
          CSIC       D +T+T C H F   CI+     S++CP C   +    P S
Sbjct: 18 CSICKGYLI--DATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQPLS 67

>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 = 62.2 bits (151), Expect = 2e-12
 Identities = 17/76 (22%), Positives = 29/76 (38%), Gaps = 7/76 (9%)

Query: 31  CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRS-SQCPMCWQPISLKD----PTSQEL 85
           C IC+E     D      C       CI  W     +QCP C  P+ L++      ++E+
Sbjct: 25  CFICMEKLR--DARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRELVNCRWAEEV 82

Query: 86  LEAVERERSFRLNPSR 101
            + ++  +   L    
Sbjct: 83  TQQLDTLQLCSLTKHE 98

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

 Score = 62.6 bits (151), Expect = 2e-12
 Identities = 16/69 (23%), Positives = 21/69 (30%), Gaps = 15/69 (21%)

Query: 25  DACDDACSICL---------------EDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCP 69
           D   D C+IC                   SE        C H FH  CI  W +    CP
Sbjct: 45  DIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCP 104

Query: 70  MCWQPISLK 78
           +  +    +
Sbjct: 105 LDNREWEFQ 113

>3dpl_R Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST-virus interaction, receptor, UBL conjugation, UBL conjugation pathway, acetylation, cytoplasm; 2.60A {Homo sapiens} SCOP: g.44.1.1 PDB: 3dqv_R 3rtr_B 1u6g_B 2hye_D* 4a0c_D 4a0l_F* 1ldj_B 1ldk_C 2lgv_A Length = 106

 Score = 61.4 bits (148), Expect = 4e-12
 Identities = 16/69 (23%), Positives = 21/69 (30%), Gaps = 15/69 (21%)

Query: 25  DACDDACSICL---------------EDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCP 69
           D   D C+IC                   SE        C H FH  CI  W +    CP
Sbjct: 34  DIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCP 93

Query: 70  MCWQPISLK 78
           +  +    +
Sbjct: 94  LDNREWEFQ 102

>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 = 60.6 bits (147), Expect = 9e-12
 Identities = 19/88 (21%), Positives = 35/88 (39%), Gaps = 14/88 (15%)

Query: 31  CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPTSQELLEAVE 90
           C +C   F   D +T+  C H F   CI+ + + S  CP+C   +    P          
Sbjct: 18  CVLCGGYFI--DATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRP---------- 65

Query: 91  RERSFRLNPSRNATIFR-HPTLGDFELQ 117
              + R + +    +++  P L   E++
Sbjct: 66  -LLNIRSDKTLQDIVYKLVPGLFKNEMK 92

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

 Score = 59.1 bits (143), Expect = 9e-12
 Identities = 14/63 (22%), Positives = 22/63 (34%), Gaps = 3/63 (4%)

Query: 14 SAAAFVEGGIQDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQ 73
           ++              C+ICL+      P +   CKH F   C+        +C +C Q
Sbjct: 1  GSSGSSGNTAPSLTVPECAICLQTCV--HPVS-LPCKHVFCYLCVKGASWLGKRCALCRQ 57

Query: 74 PIS 76
           I 
Sbjct: 58 EIP 60

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

 Score = 59.8 bits (145), Expect = 1e-11
 Identities = 18/77 (23%), Positives = 34/77 (44%), Gaps = 6/77 (7%)

Query: 31  CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPTS----QELL 86
           C IC E F+      +  C H +   CI ++    +QCP C   ++  D  +     EL+
Sbjct: 25  CGICFEYFN--IAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEPDLKNNRILDELV 82

Query: 87  EAVERERSFRLNPSRNA 103
           +++   R+  L  +  +
Sbjct: 83  KSLNFARNHLLQFALES 99

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

 Score = 56.8 bits (138), Expect = 5e-11
 Identities = 15/51 (29%), Positives = 25/51 (49%), Gaps = 3/51 (5%)

Query: 22 GIQDACDDACSICLEDFSESDP-STLTSCKHEFHLQCILEWCQRSSQCPMC 71
           + D  +  C++CL +  + +    L  C H FH +C+  W    S CP+C
Sbjct: 1  AMDDGVE--CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLC 49

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

 Score = 54.8 bits (131), Expect = 1e-09
 Identities = 16/54 (29%), Positives = 27/54 (50%), Gaps = 4/54 (7%)

Query: 31 CSICLEDFSESDPS----TLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDP 80
          C IC++ +SE   +      T C H F  QC+ +  + ++ CP C + I+ K  
Sbjct: 10 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY 63

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

 Score = 42.5 bits (99), Expect = 3e-05
 Identities = 16/53 (30%), Positives = 27/53 (50%), Gaps = 4/53 (7%)

Query: 31  CSICLEDFSESDPSTL----TSCKHEFHLQCILEWCQRSSQCPMCWQPISLKD 79
           C IC++ +SE   +      T C H F  QC+ +  + ++ CP C + I+ K 
Sbjct: 75  CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR 127

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

 Score = 54.3 bits (130), Expect = 3e-09
 Identities = 21/81 (25%), Positives = 34/81 (41%), Gaps = 4/81 (4%)

Query: 1   MEENKQSDDAHLTSAAAFVEGGIQDACDD-ACSICLEDFSESDPSTLTSCKHEFHLQCIL 59
           +E+ K+  +         +        ++  C IC E F   +  T  +C H F   CI 
Sbjct: 36  LEQTKEEKEKMQAQKEEVLSHMNDVLENELQCIICSEYFI--EAVT-LNCAHSFCSYCIN 92

Query: 60  EWCQRSSQCPMCWQPISLKDP 80
           EW +R  +CP+C + I  K  
Sbjct: 93  EWMKRKIECPICRKDIKSKTY 113

>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 = 52.9 bits (126), Expect = 5e-09
 Identities = 17/64 (26%), Positives = 25/64 (39%), Gaps = 20/64 (31%)

Query: 28 DDACSICLEDFSESDPST---------------LTSCKHEFHLQCILEWCQRSS-----Q 67
          ++ C IC+E  + +   +               LT C H FHL C+L      +     Q
Sbjct: 25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQ 84

Query: 68 CPMC 71
          CP C
Sbjct: 85 CPSC 88

>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 = 51.4 bits (123), Expect = 1e-08
 Identities = 14/49 (28%), Positives = 23/49 (46%), Gaps = 4/49 (8%)

Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKD 79
          CS C       +P  L  C+H F   C+ +     + CP+C+ P  ++D
Sbjct: 25 CSRCTNILR--EPVCLGGCEHIFCSNCVSDCI--GTGCPVCYTPAWIQD 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 = 53.2 bits (127), Expect = 6e-08
 Identities = 13/54 (24%), Positives = 19/54 (35%), Gaps = 4/54 (7%)

Query: 28  DDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQ-RSSQCPMCWQPISLKDP 80
              C IC E+  +     +  C H     C+  W +     CP C   I   +P
Sbjct: 332 FQLCKICAENDKDV---KIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEP 382

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

 Score = 47.5 bits (113), Expect = 1e-07
 Identities = 13/50 (26%), Positives = 16/50 (32%), Gaps = 4/50 (8%)

Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSS-QCPMCWQPISLKD 79
          C  C        P   T C H F   C+      SS +C  C + I    
Sbjct: 18 CEKCHLVLC--SPKQ-TECGHRFCESCMAALLSSSSPKCTACQESIVKDK 64

>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 = 48.2 bits (115), Expect = 2e-07
 Identities = 23/86 (26%), Positives = 33/86 (38%), Gaps = 8/86 (9%)

Query: 19 VEGGIQDACDDA-CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRS---SQCPMCWQP 74
          V+  I        C ICLE     +P + T C H F   C+L+   +    SQCP+C   
Sbjct: 11 VQNVINAMQKILECPICLELIK--EPVS-TKCDHIFCKFCMLKLLNQKKGPSQCPLCKND 67

Query: 75 ISLKD-PTSQELLEAVERERSFRLNP 99
          I+ +    S    + VE         
Sbjct: 68 ITKRSLQESTRFSQLVEELLKIICAF 93

>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 = 46.8 bits (111), Expect = 4e-07
 Identities = 14/86 (16%), Positives = 35/86 (40%), Gaps = 12/86 (13%)

Query: 31  CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQ--------RSSQCPM--CWQPISLKDP 80
           C +CL ++     +T+  C+  F   C+ ++ +         +  CP   C +   L++ 
Sbjct: 8   CKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQEN 67

Query: 81  TSQELLEAVERER--SFRLNPSRNAT 104
             + ++ A   +R    +   S  ++
Sbjct: 68  EIECMVAAEIMQRYKKLQFERSGPSS 93

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

 Score = 47.2 bits (112), Expect = 4e-07
 Identities = 20/50 (40%), Positives = 22/50 (44%), Gaps = 4/50 (8%)

Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQR-SSQCPMCWQPISLKD 79
          C IC    +  DP   TSCKH F   CIL   +   S CP C  P    D
Sbjct: 26 CQICEHILA--DP-VETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTD 72

>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 = 48.0 bits (114), Expect = 6e-07
 Identities = 18/70 (25%), Positives = 27/70 (38%), Gaps = 8/70 (11%)

Query: 31  CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRS-SQCPMCWQPISLK-----DPTSQE 84
           C ICL+     +  T   C H F   CI+   +    +CP C + +  K     DP    
Sbjct: 57  CPICLDMLK--NTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFDA 114

Query: 85  LLEAVERERS 94
           L+  +   R 
Sbjct: 115 LISKIYPSRD 124

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

 Score = 49.9 bits (118), Expect = 6e-07
 Identities = 14/67 (20%), Positives = 21/67 (31%), Gaps = 16/67 (23%)

Query: 28  DDACSICLEDFSESDPSTL-----TSCKHEFHLQCILEWCQRSS-----------QCPMC 71
           +  C+IC     +     L       C  + H  C+ EW +              QCP C
Sbjct: 308 ELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFC 367

Query: 72  WQPISLK 78
              +S  
Sbjct: 368 KAKLSTS 374

>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 = 45.7 bits (108), Expect = 6e-07
 Identities = 12/53 (22%), Positives = 22/53 (41%), Gaps = 4/53 (7%)

Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRS--SQCPMCWQPISLKDPT 81
          C+IC     +    +  +C    HL C+ ++ Q +   +CP C      + P 
Sbjct: 18 CNICHSLLIQG--QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEIPK 68

>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 = 45.5 bits (108), Expect = 8e-07
 Identities = 13/52 (25%), Positives = 20/52 (38%), Gaps = 4/52 (7%)

Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQ--CPMCWQPISLKDP 80
          C IC +  +  D   +  C + +  +CI      S +  CP C Q     D 
Sbjct: 18 CLICKDIMT--DAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDA 67

>3knv_A TNF receptor-associated factor 2; cross-brace, alternative splicing, apoptosis, cytoplasm, metal-binding, UBL conjugation, zinc, zinc-finger; 1.90A {Homo sapiens} Length = 141

 Score = 47.0 bits (111), Expect = 9e-07
 Identities = 11/67 (16%), Positives = 18/67 (26%), Gaps = 4/67 (5%)

Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQR-SSQCPMCWQPISLKDPTSQELLEAV 89
          CS C        P     C H +   C+          C  C      ++  S     + 
Sbjct: 34 CSACRNVLR--RP-FQAQCGHRYCSFCLASILSSGPQNCAACVHEGIYEEGISILESSSA 90

Query: 90 ERERSFR 96
            + + R
Sbjct: 91 FPDNAAR 97

>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 = 47.0 bits (111), Expect = 1e-06
 Identities = 12/50 (24%), Positives = 20/50 (40%), Gaps = 4/50 (8%)

Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQ-CPMCWQPISLKD 79
          C ICL      +    T C H F   CI++  + +   CP+  + +    
Sbjct: 21 CPICLMALR--EAVQ-TPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQ 67

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

 Score = 43.9 bits (104), Expect = 2e-06
 Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 7/61 (11%)

Query: 15 AAAFVEGGIQDACDDA-CSICLEDFSESDPSTLTSCKHEFHLQCILEWC---QRSSQCPM 70
           ++   G +++   +A CS+CLE     +P  +  C H F   CI  W    +R   CP+
Sbjct: 1  GSSGSSGALENLQVEASCSVCLEYL--KEPVII-ECGHNFCKACITRWWEDLERDFPCPV 57

Query: 71 C 71
          C
Sbjct: 58 C 58

>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 = 45.6 bits (108), Expect = 2e-06
 Identities = 12/50 (24%), Positives = 20/50 (40%), Gaps = 4/50 (8%)

Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQ-CPMCWQPISLKD 79
          C ICL      +    T C H F   CI++  + +   CP+  + +    
Sbjct: 21 CPICLMALR--EA-VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQ 67

>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 = 45.3 bits (107), Expect = 2e-06
 Identities = 17/63 (26%), Positives = 27/63 (42%), Gaps = 4/63 (6%)

Query: 15 AAAFVEGGIQDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSS-QCPMCWQ 73
          + A  +  I    +  C IC+E     +P TL  C H     C     +++S  CP C +
Sbjct: 2  SMALPKDAIPSLSECQCGICMEILV--EPVTL-PCNHTLCKPCFQSTVEKASLCCPFCRR 58

Query: 74 PIS 76
           +S
Sbjct: 59 RVS 61

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

 Score = 43.9 bits (104), Expect = 3e-06
 Identities = 15/52 (28%), Positives = 22/52 (42%), Gaps = 6/52 (11%)

Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWC---QRSSQCPMCWQPISLKD 79
          C ICL+      P T+  C H F L+CI +         +CP+C   +    
Sbjct: 23 CPICLDIL--QKPVTI-DCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNA 71

>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 = 45.0 bits (106), Expect = 3e-06
 Identities = 18/93 (19%), Positives = 28/93 (30%), Gaps = 6/93 (6%)

Query: 2   EENKQSDDAHLTSAAAFVEGGIQDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILE- 60
            E   S      S + F     +      C  C E      P T T C+H     C+   
Sbjct: 26  NEVLASLKDRPASGSPFQLFLSKVEETFQCICCQELVF--RPIT-TVCQHNVCKDCLDRS 82

Query: 61  WCQRSSQCPMCWQPISLKD--PTSQELLEAVER 91
           +  +   CP C   +        +Q L   + +
Sbjct: 83  FRAQVFSCPACRYDLGRSYAMQVNQPLQTVLNQ 115

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

 Score = 43.9 bits (104), Expect = 3e-06
 Identities = 16/68 (23%), Positives = 27/68 (39%), Gaps = 8/68 (11%)

Query: 31 CSICLEDFSESD-PSTLTSCKHEFHLQCILEWCQRSS---QCPMCWQPISLKD----PTS 82
          C IC+E F+E      L  C H    QC+ +    S    +CP C +   +        +
Sbjct: 18 CPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITSLTQLTDN 77

Query: 83 QELLEAVE 90
            +L++  
Sbjct: 78 LTVLKSGP 85

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

 Score = 43.8 bits (104), Expect = 3e-06
 Identities = 17/74 (22%), Positives = 31/74 (41%), Gaps = 10/74 (13%)

Query: 14 SAAAFVEGGIQDACDDA-CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRS------S 66
           ++    G + +  ++  C ICLE    + P +L  C H F   C+    ++S      S
Sbjct: 4  GSSGMASGILVNVKEEVTCPICLELL--TQPLSL-DCGHSFCQACLTANHKKSMLDKGES 60

Query: 67 QCPMCWQPISLKDP 80
           CP+C      ++ 
Sbjct: 61 SCPVCRISYQPENI 74

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

 Score = 44.0 bits (104), Expect = 4e-06
 Identities = 13/51 (25%), Positives = 19/51 (37%), Gaps = 4/51 (7%)

Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRS--SQCPMCWQPISLKD 79
          C IC +  +  D   +  C + +  +CI      S    CP C Q     D
Sbjct: 16 CLICKDIMT--DAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPD 64

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

 Score = 42.7 bits (101), Expect = 4e-06
 Identities = 13/47 (27%), Positives = 16/47 (34%), Gaps = 6/47 (12%)

Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISL 77
          C  C  +     P  L  C H     C+        QCP+C  P  L
Sbjct: 9  CQQCQAEA--KCPKLL-PCLHTLCSGCLE---ASGMQCPICQAPWPL 49

>2egp_A Tripartite motif-containing protein 34; ZF-C3HC4 domain, tripartite motif protein 34, interferon- responsive finger protein 1; NMR {Homo sapiens} Length = 79

 Score = 43.4 bits (103), Expect = 4e-06
 Identities = 16/57 (28%), Positives = 23/57 (40%), Gaps = 10/57 (17%)

Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRS-------SQCPMCWQPISLKDP 80
          C ICLE    ++P +L  C H     CI    + +       S CP+C    S +  
Sbjct: 15 CPICLELL--TEPLSL-DCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEHL 68

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

 Score = 42.0 bits (99), Expect = 1e-05
 Identities = 15/44 (34%), Positives = 21/44 (47%), Gaps = 6/44 (13%)

Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWC---QRSSQCPMC 71
          C ICL+      P T+  C H F L+CI +         +CP+C
Sbjct: 23 CPICLDIL--QKPVTI-DCGHNFCLKCITQIGETSCGFFKCPLC 63

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

 Score = 41.2 bits (96), Expect = 2e-05
 Identities = 14/63 (22%), Positives = 22/63 (34%), Gaps = 6/63 (9%)

Query: 28 DDACSICLEDFSESDPSTL-TSCKHEFHLQCILEW-CQRSSQCPMCWQPISLKD----PT 81
             C +C+E     D +    +C ++    C        +  CP C +P         P 
Sbjct: 11 PVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPAVYKPL 70

Query: 82 SQE 84
          SQE
Sbjct: 71 SQE 73

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

 Score = 41.2 bits (97), Expect = 3e-05
 Identities = 15/56 (26%), Positives = 21/56 (37%), Gaps = 9/56 (16%)

Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRS------SQCPMCWQPISLKDP 80
          C ICLE     +P +   C H F   CI    + +        CP+C  P    + 
Sbjct: 22 CPICLELL--KEPVSA-DCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNL 74

>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 = 41.5 bits (97), Expect = 8e-05
 Identities = 12/47 (25%), Positives = 15/47 (31%), Gaps = 4/47 (8%)

Query: 31  CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSS-QCPMCWQPIS 76
           C  C E      P T T C H     C+    +     CP C   + 
Sbjct: 81  CVCCQELVY--QPVT-TECFHNVCKDCLQRSFKAQVFSCPACRHDLG 124

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

 Score = 38.1 bits (89), Expect = 2e-04
 Identities = 7/49 (14%), Positives = 21/49 (42%), Gaps = 2/49 (4%)

Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKD 79
          C+I  +      P      +  F    + ++ + +   P+  +P+S+++
Sbjct: 6  CAISGKVPR--RPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEE 52

>3htk_C E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-ring, ring, ATP-binding, chromosomal protein, coiled coil, DNA damage; 2.31A {Saccharomyces cerevisiae} Length = 267

 Score = 41.1 bits (95), Expect = 3e-04
 Identities = 15/78 (19%), Positives = 29/78 (37%), Gaps = 6/78 (7%)

Query: 31  CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSS--QCPM--CWQPISLKDPTSQELL 86
           C I  + +    P     C H F    I  + Q  +   CP   C Q +S++D     ++
Sbjct: 184 CPITCKPYE--APLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRDFVRDPIM 241

Query: 87  EAVERERSFRLNPSRNAT 104
           E   +    + +  ++  
Sbjct: 242 ELRCKIAKMKESQEQDKR 259

>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 = 36.5 bits (84), Expect = 9e-04
 Identities = 13/59 (22%), Positives = 18/59 (30%), Gaps = 3/59 (5%)

Query: 28 DDACSICLEDFSESDPSTL--TSCKHEFHLQCILEWCQR-SSQCPMCWQPISLKDPTSQ 83
          D  C  C      +    L    C H     C+     R +  CP C  P+   +   Q
Sbjct: 3  DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFRVQ 61

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	386
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.34
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.34
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.32
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.3
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.3
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.29
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.29
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.28
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.27
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.26
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.24
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.23
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.22
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.22
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.21
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.21
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.2
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.2
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.19
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.19
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.19
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.18
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.18
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.17
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.17
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.16
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.15
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.14
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.14
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.13
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.12
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.12
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.11
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.11
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.1
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.1
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.08
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.05
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.05
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.04
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.03
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.03
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.0
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.0
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.98
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	98.97
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	98.97
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.96
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.93
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.93
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.89
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	98.83
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.82
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.8
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.8
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.79
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.79
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.75
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.71
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.71
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.71
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.69
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.56
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.46
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.45
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.42
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.41
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.34
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.28
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.25
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.94
3nw0_A	238	Non-structural maintenance of chromosomes element	97.55
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	95.57
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	94.87
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	91.7
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	90.48
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	86.72
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	85.18
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	84.8
4fo9_A	360	E3 SUMO-protein ligase PIAS2; E3 ligase, pinit dom	82.95
1weo_A	93	Cellulose synthase, catalytic subunit (IRX3); stru	81.92
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	80.14

>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=99.34  E-value=1.1e-12  Score=99.72  Aligned_cols=55  Identities=27%  Similarity=0.750  Sum_probs=47.8

Q ss_pred             CccCCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCCC
Q 016591           24 QDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLK   78 (386)
Q Consensus        24 qd~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~k   78 (386)
                      ....+..|+||++.|.....+..++|+|.||..||..|+.....||+||..|...
T Consensus        10 ~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   64 (69)
T 2kiz_A           10 EEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQ   64 (69)
T ss_dssp             STTCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBSCSC
T ss_pred             cCCCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCccccCc
Confidence            3455788999999996666788889999999999999999888999999998754

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

Probab=99.34  E-value=5.6e-13  Score=103.73  Aligned_cols=56  Identities=25%  Similarity=0.737  Sum_probs=48.1

Q ss_pred             ccCCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCCCCC
Q 016591           25 DACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDP   80 (386)
Q Consensus        25 d~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~kd~   80 (386)
                      ...+..|+||++.|.....+..++|+|.||..||..|++....||+||+.+...+.
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   67 (78)
T 2ect_A           12 VGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNT   67 (78)
T ss_dssp             SSSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCCCCSCS
T ss_pred             CCCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCccCCccc
Confidence            34578899999999665667778999999999999999988999999999986543

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

Probab=99.32  E-value=1.3e-12  Score=100.63  Aligned_cols=55  Identities=33%  Similarity=0.867  Sum_probs=47.2

Q ss_pred             CccCCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCCC
Q 016591           24 QDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLK   78 (386)
Q Consensus        24 qd~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~k   78 (386)
                      ....+..|+||++.|.....+.+++|+|.||..||..|++....||+||+.+...
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~   65 (74)
T 2ep4_A           11 ELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQL   65 (74)
T ss_dssp             CCCCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHCSBCTTTCCBCSSC
T ss_pred             cCCCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcCCcCCCcCcccccc
Confidence            3455788999999996666677779999999999999999888999999988643

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

Probab=99.30  E-value=1.2e-12  Score=95.14  Aligned_cols=51  Identities=25%  Similarity=0.789  Sum_probs=44.2

Q ss_pred             cCCCccccccccccCCCCceecc-CCccccHHHHHHHHhcCCCCCCccccCC
Q 016591           26 ACDDACSICLEDFSESDPSTLTS-CKHEFHLQCILEWCQRSSQCPMCWQPIS   76 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~-CgH~FC~~CI~~Wlq~s~~CPlCR~~i~   76 (386)
                      +++..|+||++.|..++.+..++ |+|.||..||..|++.+..||+||+.+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   54 (55)
T 1iym_A            3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeE
Confidence            34778999999997666666666 9999999999999999999999998874

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

Probab=99.30  E-value=1.4e-12  Score=100.33  Aligned_cols=53  Identities=32%  Similarity=0.604  Sum_probs=46.1

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCCCCC
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDP   80 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~kd~   80 (386)
                      .+++.|+||++.|  .+++.+++|+|.||..||..|+.....||+||+.+...++
T Consensus        13 ~~~~~C~IC~~~~--~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~   65 (72)
T 2djb_A           13 TPYILCSICKGYL--IDATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQP   65 (72)
T ss_dssp             CGGGSCTTTSSCC--SSCEECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCSSCS
T ss_pred             CCCCCCCCCChHH--HCcCEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCcccc
Confidence            4578899999999  5566666999999999999999988999999999986654

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

Probab=99.29  E-value=1.3e-12  Score=105.45  Aligned_cols=52  Identities=31%  Similarity=0.751  Sum_probs=46.0

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCC
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISL   77 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~   77 (386)
                      ..+..|+||++.|..++.+..++|+|.||..||..|+..+..||+||..|..
T Consensus        38 ~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           38 GQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMFPP   89 (91)
T ss_dssp             SSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTTTCBCTTTCCBSSC
T ss_pred             CCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHcCCcCcCcCccCCC
Confidence            4577899999999666667778999999999999999999999999998864

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

Probab=99.29  E-value=9.8e-13  Score=101.89  Aligned_cols=53  Identities=26%  Similarity=0.760  Sum_probs=46.3

Q ss_pred             ccCCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCC
Q 016591           25 DACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISL   77 (386)
Q Consensus        25 d~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~   77 (386)
                      ..++..|+||++.|...+.+..++|+|.||..||..|++.+..||+||+.+..
T Consensus        20 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~   72 (75)
T 1x4j_A           20 QSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSGP   72 (75)
T ss_dssp             SSSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHCSSCTTTCCCCCC
T ss_pred             cCCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcCCcCcCcCCcCCC
Confidence            34678899999999666667788999999999999999988999999998864

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

Probab=99.28  E-value=2.3e-12  Score=100.24  Aligned_cols=59  Identities=22%  Similarity=0.357  Sum_probs=48.4

Q ss_pred             ccCCCccccccccccCCCCceeccCCccccHHHHHHHHhc-CCCCCCccccCCCCCCChHHHH
Q 016591           25 DACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQR-SSQCPMCWQPISLKDPTSQELL   86 (386)
Q Consensus        25 d~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~-s~~CPlCR~~i~~kd~~~~~ll   86 (386)
                      ..+++.|+||++.|  .++ ++++|||.||..||..|+.. ...||+||+.+...++..+..+
T Consensus         5 ~~~~~~C~IC~~~~--~~P-v~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~~l~~n~~l   64 (78)
T 1t1h_A            5 FPEYFRCPISLELM--KDP-VIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNYVL   64 (78)
T ss_dssp             CSSSSSCTTTSCCC--SSE-EEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCEECTTT
T ss_pred             CcccCCCCCccccc--cCC-EEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCChhhCccCHHH
Confidence            35688999999999  445 45599999999999999986 7889999999987766555444

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

Probab=99.27  E-value=1.7e-12  Score=98.76  Aligned_cols=58  Identities=28%  Similarity=0.604  Sum_probs=47.9

Q ss_pred             CccCCCccccccccccC----CCCceeccCCccccHHHHHHHHhcCCCCCCccccCCCCCCC
Q 016591           24 QDACDDACSICLEDFSE----SDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPT   81 (386)
Q Consensus        24 qd~ed~~C~ICle~f~~----~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~kd~~   81 (386)
                      ..+++..|+||++.|..    ...+.+++|+|.||..||..|+.....||+||+.+...+..
T Consensus         6 ~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~   67 (71)
T 3ng2_A            6 RPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYH   67 (71)
T ss_dssp             CCTTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCCCSCC
T ss_pred             CCCCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCccChhhee
Confidence            45668899999999833    13347789999999999999999889999999999866543

>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=99.26  E-value=1.1e-12  Score=107.72  Aligned_cols=59  Identities=27%  Similarity=0.614  Sum_probs=48.3

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHhcC-CCCCCccccCCCCCCChHHHH
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRS-SQCPMCWQPISLKDPTSQELL   86 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s-~~CPlCR~~i~~kd~~~~~ll   86 (386)
                      .+++.|+||++.|  .+++.+++|+|.||..||..|+... ..||+||..+...++.....+
T Consensus        20 ~~~~~C~IC~~~~--~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~   79 (100)
T 3lrq_A           20 AEVFRCFICMEKL--RDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRELVNCRWA   79 (100)
T ss_dssp             HHHTBCTTTCSBC--SSEEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCEECTTH
T ss_pred             CCCCCCccCCccc--cCccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCHHHhHhhHHH
Confidence            3478899999999  4555548999999999999999877 699999999987665554444

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

Probab=99.24  E-value=2.6e-12  Score=104.61  Aligned_cols=60  Identities=25%  Similarity=0.580  Sum_probs=49.6

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCCCCCChHHHHH
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPTSQELLE   87 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~kd~~~~~ll~   87 (386)
                      .+++.|+||++.|  .+++.+++|||.||..||..|+.....||+||..+...++..+..+.
T Consensus        20 ~~~~~C~IC~~~~--~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~l~~n~~l~   79 (99)
T 2y43_A           20 DDLLRCGICFEYF--NIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEPDLKNNRILD   79 (99)
T ss_dssp             HHHTBCTTTCSBC--SSEEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGGGCEECHHHH
T ss_pred             CCCCCcccCChhh--CCcCEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCChhhCCcCHHHH
Confidence            3478899999999  45555559999999999999999889999999999876666655553

>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=99.23  E-value=5.7e-12  Score=91.36  Aligned_cols=50  Identities=34%  Similarity=0.711  Sum_probs=43.1

Q ss_pred             CCCccccccccccCC-CCceeccCCccccHHHHHHHHhcCCCCCCccccCC
Q 016591           27 CDDACSICLEDFSES-DPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPIS   76 (386)
Q Consensus        27 ed~~C~ICle~f~~~-~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~   76 (386)
                      .+..|+||++.|... ..+.+++|+|.||..||..|+.....||+||+.+.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            467899999998432 35778899999999999999998899999998874

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

Probab=99.22  E-value=7.2e-12  Score=104.13  Aligned_cols=55  Identities=36%  Similarity=0.719  Sum_probs=43.0

Q ss_pred             CccCCCccccccccccCCC---------------CceeccCCccccHHHHHHHH-----hcCCCCCCccccCCCC
Q 016591           24 QDACDDACSICLEDFSESD---------------PSTLTSCKHEFHLQCILEWC-----QRSSQCPMCWQPISLK   78 (386)
Q Consensus        24 qd~ed~~C~ICle~f~~~~---------------pv~ll~CgH~FC~~CI~~Wl-----q~s~~CPlCR~~i~~k   78 (386)
                      ....+..|+||++.|....               .+.+++|+|.||..||..|+     ..+..||+||..|..+
T Consensus        21 ~~~~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T 1v87_A           21 KVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             SSCCSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             cCCCCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCC
Confidence            3445678999999984321               23377999999999999999     4567899999988754

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

Probab=99.22  E-value=4.2e-12  Score=95.69  Aligned_cols=53  Identities=28%  Similarity=0.641  Sum_probs=44.0

Q ss_pred             ccCCCccccccccccCC----CCceeccCCccccHHHHHHHHhcCCCCCCccccCCC
Q 016591           25 DACDDACSICLEDFSES----DPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISL   77 (386)
Q Consensus        25 d~ed~~C~ICle~f~~~----~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~   77 (386)
                      ...+..|+||++.|...    ..+.+++|+|.||..||..|+.....||+||+.|..
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           12 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   68 (69)
T ss_dssp             TTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHCSSCTTTCCCCCC
T ss_pred             CCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcCCCCCCCCCccCc
Confidence            34578899999998431    234778999999999999999988999999998864

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

Probab=99.21  E-value=8.5e-12  Score=98.77  Aligned_cols=54  Identities=30%  Similarity=0.738  Sum_probs=42.8

Q ss_pred             ccCCCccccccccccC-----------CC-CceeccCCccccHHHHHHHHhcCCCCCCccccCCCC
Q 016591           25 DACDDACSICLEDFSE-----------SD-PSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLK   78 (386)
Q Consensus        25 d~ed~~C~ICle~f~~-----------~~-pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~k   78 (386)
                      +.+++.|+||++.|..           ++ .+.+++|+|.||..||..|+..+.+||+||+.+...
T Consensus        12 ~~~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~   77 (81)
T 2ecl_A           12 DVECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVVQ   77 (81)
T ss_dssp             SCCCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCEE
T ss_pred             cCCCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcchh
Confidence            3457789999998832           22 335546999999999999999999999999988643

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

Probab=99.21  E-value=1.3e-11  Score=96.96  Aligned_cols=50  Identities=30%  Similarity=0.693  Sum_probs=43.1

Q ss_pred             CccCCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCC
Q 016591           24 QDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPIS   76 (386)
Q Consensus        24 qd~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~   76 (386)
                      ....++.|+||++.|  .+ +++++|+|.||..||..|+.....||+||+.+.
T Consensus        11 ~~~~~~~C~IC~~~~--~~-p~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           11 EEEIPFRCFICRQAF--QN-PVVTKCRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             CCCCCSBCSSSCSBC--CS-EEECTTSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             cCCCCCCCcCCCchh--cC-eeEccCCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            334578899999999  44 456799999999999999998899999999986

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

Probab=99.20  E-value=1.5e-11  Score=94.13  Aligned_cols=51  Identities=25%  Similarity=0.632  Sum_probs=42.7

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHh---cCCCCCCccccCCCCC
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQ---RSSQCPMCWQPISLKD   79 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq---~s~~CPlCR~~i~~kd   79 (386)
                      .+++.|+||++.|  .+ +..++|+|.||..||..|+.   ....||+||+.+...+
T Consensus        18 ~~~~~C~IC~~~~--~~-~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   71 (73)
T 2ysl_A           18 QEEVICPICLDIL--QK-PVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNA   71 (73)
T ss_dssp             CCCCBCTTTCSBC--SS-EEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCCC
T ss_pred             ccCCEeccCCccc--CC-eEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCccc
Confidence            4578999999998  34 45559999999999999996   4568999999987654

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

Probab=99.20  E-value=7.8e-12  Score=94.57  Aligned_cols=48  Identities=38%  Similarity=0.898  Sum_probs=43.1

Q ss_pred             CCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCC
Q 016591           27 CDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPIS   76 (386)
Q Consensus        27 ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~   76 (386)
                      .+..|+||++.+  .+++..++|+|.||..||..|+.....||+||..+.
T Consensus         4 ~~~~C~IC~~~~--~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~   51 (68)
T 1chc_A            4 VAERCPICLEDP--SNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCSSCCSCC--CSCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCCCCeeCCccc--cCCcEecCCCCeeHHHHHHHHHhCcCcCcCCChhhH
Confidence            467899999998  566688899999999999999998899999999886

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

Probab=99.19  E-value=7.9e-12  Score=95.87  Aligned_cols=50  Identities=26%  Similarity=0.544  Sum_probs=42.7

Q ss_pred             ccCCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCC
Q 016591           25 DACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISL   77 (386)
Q Consensus        25 d~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~   77 (386)
                      ..++..|+||++.|  .+ ++.++|+|.||..||..|+.....||+||+.+..
T Consensus        12 ~~~~~~C~IC~~~~--~~-~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   61 (71)
T 2d8t_A           12 SLTVPECAICLQTC--VH-PVSLPCKHVFCYLCVKGASWLGKRCALCRQEIPE   61 (71)
T ss_dssp             SSSCCBCSSSSSBC--SS-EEEETTTEEEEHHHHHHCTTCSSBCSSSCCBCCH
T ss_pred             CCCCCCCccCCccc--CC-CEEccCCCHHHHHHHHHHHHCCCcCcCcCchhCH
Confidence            34578899999998  34 4556999999999999999988999999998863

>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=99.19  E-value=1e-11  Score=102.63  Aligned_cols=51  Identities=27%  Similarity=0.617  Sum_probs=44.7

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCCC
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLK   78 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~k   78 (386)
                      .+++.|+||++.|  .+++.+++|||.||..||..|+.....||+||..+...
T Consensus        13 ~~~~~C~IC~~~~--~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   63 (108)
T 2ckl_A           13 NPHLMCVLCGGYF--IDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKT   63 (108)
T ss_dssp             GGGTBCTTTSSBC--SSEEEETTTCCEEEHHHHHHHHTSCSBCTTTCCBSCSS
T ss_pred             CCcCCCccCChHH--hCcCEeCCCCChhhHHHHHHHHHhCCcCcCCCcccccc
Confidence            4578899999999  55666669999999999999999889999999998765

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

Probab=99.19  E-value=1.5e-11  Score=97.13  Aligned_cols=55  Identities=27%  Similarity=0.567  Sum_probs=44.9

Q ss_pred             ccCCCccccccccccCCCC-ceeccCCccccHHHHHHHHhcC---CCCCCccccCCCCC
Q 016591           25 DACDDACSICLEDFSESDP-STLTSCKHEFHLQCILEWCQRS---SQCPMCWQPISLKD   79 (386)
Q Consensus        25 d~ed~~C~ICle~f~~~~p-v~ll~CgH~FC~~CI~~Wlq~s---~~CPlCR~~i~~kd   79 (386)
                      ..++..|+||++.|...+. +.+++|+|.||..||..|+...   ..||+||+.+...+
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   70 (88)
T 2ct2_A           12 LREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITS   70 (88)
T ss_dssp             CCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCSS
T ss_pred             ccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccchh
Confidence            3457889999999954332 6777999999999999999865   78999999887543

>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=99.18  E-value=1.6e-11  Score=103.88  Aligned_cols=62  Identities=19%  Similarity=0.307  Sum_probs=48.7

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHhc-CCCCCCccccCCC-CCCChHHHHHHHH
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQR-SSQCPMCWQPISL-KDPTSQELLEAVE   90 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~-s~~CPlCR~~i~~-kd~~~~~ll~ave   90 (386)
                      .+++.|+||++.|  .+ ++.++|||.||..||..|+.. ...||+||..+.. ..+..+..+..+.
T Consensus        50 ~~~~~C~IC~~~~--~~-p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~n~~l~~~i  113 (124)
T 3fl2_A           50 EETFQCICCQELV--FR-PITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGRSYAMQVNQPLQTVL  113 (124)
T ss_dssp             HHHTBCTTTSSBC--SS-EEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTTCCCCCCHHHHHHH
T ss_pred             ccCCCCCcCChHH--cC-cEEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCCCCCCCCCHHHHHHH
Confidence            3468899999999  44 455699999999999999985 4589999999987 5666666554443

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

Probab=99.18  E-value=7.2e-12  Score=108.31  Aligned_cols=49  Identities=37%  Similarity=0.817  Sum_probs=42.7

Q ss_pred             CCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCCC
Q 016591           27 CDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLK   78 (386)
Q Consensus        27 ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~k   78 (386)
                      +++.|+||++.|  .+ +++++|||.||..||..|+..+..||+||+.+...
T Consensus        52 ~~~~C~iC~~~~--~~-~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~  100 (138)
T 4ayc_A           52 NELQCIICSEYF--IE-AVTLNCAHSFCSYCINEWMKRKIECPICRKDIKSK  100 (138)
T ss_dssp             HHSBCTTTCSBC--SS-EEEETTSCEEEHHHHHHHTTTCSBCTTTCCBCCCE
T ss_pred             ccCCCcccCccc--CC-ceECCCCCCccHHHHHHHHHcCCcCCCCCCcCCCC
Confidence            467899999999  34 45669999999999999999999999999998654

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

Probab=99.17  E-value=2.3e-11  Score=97.34  Aligned_cols=58  Identities=22%  Similarity=0.442  Sum_probs=45.6

Q ss_pred             cCCCccccccccccCCCCceecc-CCccccHHHHHHHHhc--CCCCCCccccC-CCCCCChHHHH
Q 016591           26 ACDDACSICLEDFSESDPSTLTS-CKHEFHLQCILEWCQR--SSQCPMCWQPI-SLKDPTSQELL   86 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~-CgH~FC~~CI~~Wlq~--s~~CPlCR~~i-~~kd~~~~~ll   86 (386)
                      .+++.|+||++.|  .+++. ++ |||.||..||..|+..  ...||+||+.+ ....+..+..+
T Consensus        11 ~~~~~C~IC~~~~--~~p~~-~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~n~~l   72 (92)
T 3ztg_A           11 PDELLCLICKDIM--TDAVV-IPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALIANKFL   72 (92)
T ss_dssp             CTTTEETTTTEEC--SSCEE-CTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSCCTTSCEECHHH
T ss_pred             CcCCCCCCCChhh--cCceE-CCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCCCccccCcCHHH
Confidence            4578999999999  45554 57 9999999999999964  36899999997 44455555554

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

Probab=99.17  E-value=1e-11  Score=92.26  Aligned_cols=54  Identities=30%  Similarity=0.635  Sum_probs=44.8

Q ss_pred             CCCccccccccccC----CCCceeccCCccccHHHHHHHHhcCCCCCCccccCCCCCC
Q 016591           27 CDDACSICLEDFSE----SDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDP   80 (386)
Q Consensus        27 ed~~C~ICle~f~~----~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~kd~   80 (386)
                      ++..|+||++.|..    .+.+.+++|+|.||..||..|+..+..||+||..+...+.
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   59 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY   59 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHCSBCTTTCCBCTTTCE
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcCCCCCCCCccCCccce
Confidence            46789999999842    1334777999999999999999999999999999876543

>3dpl_R Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST-virus interaction, receptor, UBL conjugation, UBL conjugation pathway, acetylation, cytoplasm; 2.60A {Homo sapiens} SCOP: g.44.1.1 PDB: 3dqv_R 3rtr_B 4f52_B 1u6g_B 2hye_D* 4a0c_D 4a0l_F* 1ldj_B 1ldk_C 2lgv_A

Probab=99.16  E-value=1.7e-11  Score=102.63  Aligned_cols=52  Identities=25%  Similarity=0.636  Sum_probs=43.7

Q ss_pred             cCCCccccccccccCC---------------CCceeccCCccccHHHHHHHHhcCCCCCCccccCCC
Q 016591           26 ACDDACSICLEDFSES---------------DPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISL   77 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~---------------~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~   77 (386)
                      .+++.|+||++.|...               .++.+++|+|.||..||..|+..+..||+||+.|.+
T Consensus        35 ~~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~~  101 (106)
T 3dpl_R           35 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEF  101 (106)
T ss_dssp             SCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCCE
T ss_pred             CCCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCCcCcCCCCccee
Confidence            4578899999998432               135667999999999999999999999999998754

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

Probab=99.15  E-value=2.6e-11  Score=91.55  Aligned_cols=51  Identities=24%  Similarity=0.516  Sum_probs=42.7

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHh-cCCCCCCccccCCCCC
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQ-RSSQCPMCWQPISLKD   79 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq-~s~~CPlCR~~i~~kd   79 (386)
                      .++..|+||++.+  .+++. ++|+|.||..||..|+. ....||+||+.+...+
T Consensus        13 ~~~~~C~IC~~~~--~~p~~-~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   64 (66)
T 2ecy_A           13 EDKYKCEKCHLVL--CSPKQ-TECGHRFCESCMAALLSSSSPKCTACQESIVKDK   64 (66)
T ss_dssp             CCCEECTTTCCEE--SSCCC-CSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCTTT
T ss_pred             CcCCCCCCCChHh--cCeeE-CCCCCHHHHHHHHHHHHhCcCCCCCCCcCCChhh
Confidence            4578899999999  45544 69999999999999994 5678999999987654

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

Probab=99.14  E-value=2.6e-11  Score=94.62  Aligned_cols=52  Identities=29%  Similarity=0.689  Sum_probs=43.5

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHhc------CCCCCCccccCCCCCC
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQR------SSQCPMCWQPISLKDP   80 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~------s~~CPlCR~~i~~kd~   80 (386)
                      .+++.|+||++.|  .+++ +++|+|.||..||..|+..      ...||+||..+...++
T Consensus        17 ~~~~~C~IC~~~~--~~p~-~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~   74 (85)
T 2ecw_A           17 KEEVTCPICLELL--KEPV-SADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNL   74 (85)
T ss_dssp             CTTTSCTTTCSCC--SSCE-ECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTTCC
T ss_pred             ccCCCCcCCChhh--Ccce-eCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHHhC
Confidence            4578899999998  4444 5699999999999999986      6789999999876543

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

Probab=99.14  E-value=2.7e-11  Score=93.84  Aligned_cols=51  Identities=25%  Similarity=0.482  Sum_probs=41.9

Q ss_pred             cCCCccccccccccCCCCceecc-CCccccHHHHHHHHhcC--CCCCCccccCCCCC
Q 016591           26 ACDDACSICLEDFSESDPSTLTS-CKHEFHLQCILEWCQRS--SQCPMCWQPISLKD   79 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~-CgH~FC~~CI~~Wlq~s--~~CPlCR~~i~~kd   79 (386)
                      .+++.|+||++.|  .+++. ++ |+|.||..||..|+...  ..||+||+.+...+
T Consensus        13 ~~~~~C~IC~~~~--~~p~~-~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~   66 (74)
T 2yur_A           13 PDELLCLICKDIM--TDAVV-IPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPD   66 (74)
T ss_dssp             CGGGSCSSSCCCC--TTCEE-CSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCTT
T ss_pred             CCCCCCcCCChHH--hCCeE-cCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCcc
Confidence            4578899999999  45555 57 99999999999999855  68999999865443

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

Probab=99.13  E-value=1e-11  Score=94.65  Aligned_cols=52  Identities=29%  Similarity=0.797  Sum_probs=44.3

Q ss_pred             CccCCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCCCC
Q 016591           24 QDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKD   79 (386)
Q Consensus        24 qd~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~kd   79 (386)
                      +...+..|+||++.+  .+  .+++|+|.||..||..|+.....||+||+.+...+
T Consensus        11 ~~~~~~~C~IC~~~~--~~--~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   62 (70)
T 2ecn_A           11 QLTDEEECCICMDGR--AD--LILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGAN   62 (70)
T ss_dssp             CCCCCCCCSSSCCSC--CS--EEETTTEEECHHHHHHSSCCCSSCHHHHHCTTCCC
T ss_pred             cCCCCCCCeeCCcCc--cC--cccCCCCcccHHHHHHHHHCcCcCCCcCCcccCCC
Confidence            335578899999998  33  66799999999999999999999999999987543

>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=99.12  E-value=3.9e-11  Score=98.80  Aligned_cols=61  Identities=11%  Similarity=0.095  Sum_probs=51.5

Q ss_pred             cCCCccccccccccCCCCceeccCC-ccccHHHHHHHHhcCCCCCCccccCCCCCCChHHHHHHH
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCK-HEFHLQCILEWCQRSSQCPMCWQPISLKDPTSQELLEAV   89 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~Cg-H~FC~~CI~~Wlq~s~~CPlCR~~i~~kd~~~~~ll~av   89 (386)
                      .+++.|+||++.|  .+| ++++|| |.||..||..|+.....||+|++++...++.++..+...
T Consensus        20 p~~~~CpI~~~~m--~dP-V~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~~L~pn~~Lk~~   81 (98)
T 1wgm_A           20 CDEFLDPIMSTLM--CDP-VVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIRPNTELKEK   81 (98)
T ss_dssp             CTTTBCTTTCSBC--SSE-EECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTSEECHHHHHH
T ss_pred             cHhcCCcCccccc--cCC-eECCCCCeEECHHHHHHHHHhCCCCCCCCCCCChhhceEcHHHHHH
Confidence            4588999999999  455 455999 999999999999988899999999998888777666433

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

Probab=99.12  E-value=3.6e-11  Score=96.28  Aligned_cols=59  Identities=14%  Similarity=0.003  Sum_probs=49.9

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCCCCCChHHHHH
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPTSQELLE   87 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~kd~~~~~ll~   87 (386)
                      .+++.|+||++.|  .+|+ +++|||.||..||..|+.....||+|++.+...++.++..+.
T Consensus        12 p~~~~CpI~~~~m--~dPV-~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~l~pn~~L~   70 (85)
T 2kr4_A           12 PDEFRDPLMDTLM--TDPV-RLPSGTVMDRSIILRHLLNSPTDPFNRQMLTESMLEPVPELK   70 (85)
T ss_dssp             CTTTBCTTTCSBC--SSEE-ECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCGGGCEECHHHH
T ss_pred             chheECcccCchh--cCCe-ECCCCCEECHHHHHHHHhcCCCCCCCcCCCChHhcchHHHHH
Confidence            3589999999999  4554 458999999999999999888999999999887777766553

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

Probab=99.11  E-value=3.5e-11  Score=93.84  Aligned_cols=52  Identities=27%  Similarity=0.631  Sum_probs=43.4

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHhc------CCCCCCccccCCCCCC
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQR------SSQCPMCWQPISLKDP   80 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~------s~~CPlCR~~i~~kd~   80 (386)
                      .++..|+||++.|  .++ ..++|+|.||..||..|+..      ...||+||..+...++
T Consensus        17 ~~~~~C~IC~~~~--~~p-~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~   74 (85)
T 2ecv_A           17 KEEVTCPICLELL--TQP-LSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENI   74 (85)
T ss_dssp             CCCCCCTTTCSCC--SSC-BCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSSC
T ss_pred             cCCCCCCCCCccc--CCc-eeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHhc
Confidence            4578899999998  444 44599999999999999976      7899999999876543

>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=99.11  E-value=5.1e-11  Score=98.44  Aligned_cols=61  Identities=13%  Similarity=0.015  Sum_probs=51.7

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCCCCCChHHHHHHH
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPTSQELLEAV   89 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~kd~~~~~ll~av   89 (386)
                      .+++.|+||++.|  .+|+. ++|||.||..||..|+.....||+|+.++...++.++..+...
T Consensus        27 p~~~~CpI~~~~m--~dPV~-~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~L~pn~~Lk~~   87 (100)
T 2kre_A           27 PDEFRDPLMDTLM--TDPVR-LPSGTIMDRSIILRHLLNSPTDPFNRQTLTESMLEPVPELKEQ   87 (100)
T ss_dssp             STTTBCTTTCSBC--SSEEE-ETTTEEEEHHHHHHHTTSCSBCSSSCCBCCTTSSEECHHHHHH
T ss_pred             cHhhCCcCccCcc--cCCeE-CCCCCEEchHHHHHHHHcCCCCCCCCCCCChhhceECHHHHHH
Confidence            4588999999999  55555 5899999999999999988899999999998888877666443

>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=99.10  E-value=7.7e-11  Score=103.86  Aligned_cols=61  Identities=21%  Similarity=0.423  Sum_probs=49.0

Q ss_pred             CCCccccccccccCCCCceeccCCccccHHHHHHHHhcC-CCCCCccccCCCC-CCChHHHHHHHH
Q 016591           27 CDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRS-SQCPMCWQPISLK-DPTSQELLEAVE   90 (386)
Q Consensus        27 ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s-~~CPlCR~~i~~k-d~~~~~ll~ave   90 (386)
                      +++.|+||++.|  .++ ++++|+|.||..||..|+... ..||+||..+... .+..+..+..+.
T Consensus        77 ~~~~C~IC~~~~--~~p-v~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~l~~n~~l~~lv  139 (150)
T 1z6u_A           77 QSFMCVCCQELV--YQP-VTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNYIMIPNEILQTLL  139 (150)
T ss_dssp             HHTBCTTTSSBC--SSE-EECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTTCCCCBCHHHHHHH
T ss_pred             cCCEeecCChhh--cCC-EEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCCCCCCCCCHHHHHHH
Confidence            468899999999  444 456999999999999999865 4899999999877 666666664444

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

Probab=99.10  E-value=1.3e-11  Score=95.71  Aligned_cols=51  Identities=29%  Similarity=0.623  Sum_probs=42.6

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHhc-------CCCCCCccccCCCCC
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQR-------SSQCPMCWQPISLKD   79 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~-------s~~CPlCR~~i~~kd   79 (386)
                      .+++.|+||++.|  .+++ .++|+|.||..||..|+..       ...||+||..+...+
T Consensus        10 ~~~~~C~IC~~~~--~~p~-~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~~   67 (79)
T 2egp_A           10 QEEVTCPICLELL--TEPL-SLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEH   67 (79)
T ss_dssp             CCCCEETTTTEEC--SSCC-CCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSSG
T ss_pred             ccCCCCcCCCccc--CCee-ECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHhh
Confidence            4578899999999  4444 4699999999999999976       578999999987543

>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=99.08  E-value=3e-11  Score=107.05  Aligned_cols=61  Identities=25%  Similarity=0.596  Sum_probs=47.2

Q ss_pred             CCCccccccccccCCCCceeccCCccccHHHHHHHHhc-CCCCCCccccCCCC-CCChHHHHHHH
Q 016591           27 CDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQR-SSQCPMCWQPISLK-DPTSQELLEAV   89 (386)
Q Consensus        27 ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~-s~~CPlCR~~i~~k-d~~~~~ll~av   89 (386)
                      .++.|+||++.|  .+++.+++|+|.||..||..|+.. ...||+||..+... .+..+..+..+
T Consensus        53 ~~~~C~IC~~~~--~~p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~l~~~~~l~~~  115 (165)
T 2ckl_B           53 SELMCPICLDML--KNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFDAL  115 (165)
T ss_dssp             HHHBCTTTSSBC--SSEEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCSGGGEEECHHHHHH
T ss_pred             CCCCCcccChHh--hCcCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCCcccCCcCHHHHHH
Confidence            466899999999  556666699999999999999986 78899999998543 33444444433

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

Probab=99.05  E-value=1.3e-10  Score=86.82  Aligned_cols=43  Identities=33%  Similarity=0.818  Sum_probs=36.3

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHh---cCCCCCCc
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQ---RSSQCPMC   71 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq---~s~~CPlC   71 (386)
                      .+++.|+||++.|  .++ ++++|+|.||..||..|+.   ....||+|
T Consensus        18 ~~~~~C~IC~~~~--~~p-~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           18 QEEVICPICLDIL--QKP-VTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCBCTTTCSBC--SSC-EECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             ccCCCCCcCCchh--CCe-EEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            4578999999999  445 4459999999999999997   45689998

>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=99.05  E-value=8.6e-11  Score=98.67  Aligned_cols=57  Identities=26%  Similarity=0.599  Sum_probs=47.4

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCCCCCChHHHH
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPTSQELL   86 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~kd~~~~~ll   86 (386)
                      .+++.|+||++.|  .+++.+.+|||.||..||..|+.  ..||+||..+...++..+..+
T Consensus        20 ~~~~~C~IC~~~~--~~pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~~~~n~~l   76 (117)
T 1jm7_B           20 EKLLRCSRCTNIL--REPVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQDLKINRQL   76 (117)
T ss_dssp             HHTTSCSSSCSCC--SSCBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCSSCCCCHHH
T ss_pred             hhCCCCCCCChHh--hCccEeCCCCCHHHHHHHHHHhc--CCCcCCCCcCccccccccHHH
Confidence            3478999999999  55655559999999999999998  789999999987777665554

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

Probab=99.04  E-value=1e-10  Score=88.01  Aligned_cols=54  Identities=20%  Similarity=0.520  Sum_probs=42.1

Q ss_pred             CCCccccccc-cccCCC-CceeccCCccccHHHHHHHHhc-CCCCCCccccCCCCCC
Q 016591           27 CDDACSICLE-DFSESD-PSTLTSCKHEFHLQCILEWCQR-SSQCPMCWQPISLKDP   80 (386)
Q Consensus        27 ed~~C~ICle-~f~~~~-pv~ll~CgH~FC~~CI~~Wlq~-s~~CPlCR~~i~~kd~   80 (386)
                      ++..|+||++ .|.... ...+++|||.||..||..|+.. ...||+||..+...++
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~   58 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNF   58 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCCC
T ss_pred             CCCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCccccccc
Confidence            4678999999 773221 1246799999999999999764 5689999999986654

>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=99.03  E-value=5.1e-11  Score=98.24  Aligned_cols=51  Identities=35%  Similarity=0.716  Sum_probs=42.1

Q ss_pred             CCCccccccccccCCCCceeccCCccccHHHHHHHHhcC---CCCCCccccCCCCCC
Q 016591           27 CDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRS---SQCPMCWQPISLKDP   80 (386)
Q Consensus        27 ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s---~~CPlCR~~i~~kd~   80 (386)
                      .+..|+||++.|  .+++. ++|+|.||..||..|+...   ..||+||..+...++
T Consensus        20 ~~~~C~IC~~~~--~~p~~-~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~   73 (112)
T 1jm7_A           20 KILECPICLELI--KEPVS-TKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSL   73 (112)
T ss_dssp             HHTSCSSSCCCC--SSCCB-CTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTC
T ss_pred             CCCCCcccChhh--cCeEE-CCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHhhc
Confidence            367899999998  44444 6999999999999999864   489999999876544

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

Probab=99.03  E-value=2.7e-11  Score=103.29  Aligned_cols=53  Identities=25%  Similarity=0.633  Sum_probs=1.6

Q ss_pred             cCCCccccccccccCC---------------CCceeccCCccccHHHHHHHHhcCCCCCCccccCCCC
Q 016591           26 ACDDACSICLEDFSES---------------DPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLK   78 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~---------------~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~k   78 (386)
                      ..++.|+||++.|...               ..+..++|+|.||..||..|+..+..||+||+.|.+.
T Consensus        46 ~~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~~~  113 (117)
T 4a0k_B           46 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEFQ  113 (117)
T ss_dssp             CCC-----------------------------------------------------------------
T ss_pred             CCCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCeeeee
Confidence            3567899999998431               1234468999999999999999999999999987643

>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=99.00  E-value=1.2e-10  Score=97.83  Aligned_cols=64  Identities=19%  Similarity=0.405  Sum_probs=49.5

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHhcCC-CCCCccccCCCCCCChHHHHHHHHHH
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSS-QCPMCWQPISLKDPTSQELLEAVERE   92 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~-~CPlCR~~i~~kd~~~~~ll~ave~e   92 (386)
                      .+++.|+||++.|  .++ +.++|+|.||..||..|+.... .||+||..+...+......+......
T Consensus        16 ~~~~~C~IC~~~~--~~p-~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~l~~~i~~   80 (118)
T 3hct_A           16 ESKYECPICLMAL--REA-VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDNFAKREILS   80 (118)
T ss_dssp             CGGGBCTTTCSBC--SSE-EECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGGCEECHHHHHHHHT
T ss_pred             CCCCCCCcCChhh--cCe-EECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCHHhcccCHHHHHHHcc
Confidence            4578999999999  444 5569999999999999998654 89999999987665555555444433

>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=99.00  E-value=5.7e-11  Score=99.10  Aligned_cols=49  Identities=29%  Similarity=0.704  Sum_probs=41.4

Q ss_pred             ccCCCccccccccccCCCCceeccCCccccHHHHHHHHhc-CCCCCCccccCC
Q 016591           25 DACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQR-SSQCPMCWQPIS   76 (386)
Q Consensus        25 d~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~-s~~CPlCR~~i~   76 (386)
                      ..+++.|+||++.|  .++++ ++|+|.||..||..|+.. ...||+||+.+.
T Consensus        12 ~~~~~~C~iC~~~~--~~p~~-~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   61 (115)
T 3l11_A           12 SLSECQCGICMEIL--VEPVT-LPCNHTLCKPCFQSTVEKASLCCPFCRRRVS   61 (115)
T ss_dssp             CHHHHBCTTTCSBC--SSCEE-CTTSCEECHHHHCCCCCTTTSBCTTTCCBCH
T ss_pred             CCCCCCCccCCccc--CceeE-cCCCCHHhHHHHHHHHhHCcCCCCCCCcccC
Confidence            34578999999999  45544 599999999999999975 678999999886

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

Probab=98.98  E-value=1.8e-10  Score=96.66  Aligned_cols=54  Identities=30%  Similarity=0.664  Sum_probs=45.0

Q ss_pred             cCCCccccccccccC----CCCceeccCCccccHHHHHHHHhcCCCCCCccccCCCCC
Q 016591           26 ACDDACSICLEDFSE----SDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKD   79 (386)
Q Consensus        26 ~ed~~C~ICle~f~~----~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~kd   79 (386)
                      .++..|+||++.|.+    +..+++++|||.||..||..|+.....||+||+.+...+
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   62 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR   62 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTTTC
T ss_pred             CCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCcccc
Confidence            357889999999832    123377899999999999999999999999999997654

>2d8s_A Cellular modulator of immune recognition; C-MIR, march8, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.97  E-value=2.7e-10  Score=90.67  Aligned_cols=55  Identities=27%  Similarity=0.688  Sum_probs=44.9

Q ss_pred             CCccCCCccccccccccCCCCceeccCC-----ccccHHHHHHHHhcC--CCCCCccccCCCC
Q 016591           23 IQDACDDACSICLEDFSESDPSTLTSCK-----HEFHLQCILEWCQRS--SQCPMCWQPISLK   78 (386)
Q Consensus        23 iqd~ed~~C~ICle~f~~~~pv~ll~Cg-----H~FC~~CI~~Wlq~s--~~CPlCR~~i~~k   78 (386)
                      ....++..|.||++.|..++++ +++|.     |.||..||..|+..+  ..||+||..|...
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~l-~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~   71 (80)
T 2d8s_A           10 ITPSSQDICRICHCEGDDESPL-ITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIME   71 (80)
T ss_dssp             CCCTTSCCCSSSCCCCCSSSCE-ECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCC
T ss_pred             CCCCCCCCCeEcCccccCCCee-EeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecC
Confidence            3455678899999998665665 57996     999999999999754  5899999998754

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

Probab=98.97  E-value=3.1e-10  Score=82.82  Aligned_cols=43  Identities=37%  Similarity=1.052  Sum_probs=35.7

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHh---cCCCCCCc
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQ---RSSQCPMC   71 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq---~s~~CPlC   71 (386)
                      .++..|+||++.|  .++ ++++|+|.||..||..|+.   ....||+|
T Consensus        13 ~~~~~C~IC~~~~--~~p-~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           13 QVEASCSVCLEYL--KEP-VIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CCCCBCSSSCCBC--SSC-CCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             ccCCCCccCCccc--Ccc-EeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            4578899999999  444 4569999999999999954   56789998

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

Probab=98.96  E-value=5e-10  Score=90.98  Aligned_cols=63  Identities=22%  Similarity=0.441  Sum_probs=49.2

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHhcC------CCCCC--cccc-CCCCCCChHHHHHHHH
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRS------SQCPM--CWQP-ISLKDPTSQELLEAVE   90 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s------~~CPl--CR~~-i~~kd~~~~~ll~ave   90 (386)
                      ..++.|+||++.|  .+|+++..|||.||..||..|+...      ..||+  |+.. +...++.++..+..+.
T Consensus         5 ~~~~~CPI~~~~~--~dPV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~~~L~pn~~L~~~I   76 (94)
T 2yu4_A            5 SSGFTCPITKEEM--KKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKSDLIQDEALRRAI   76 (94)
T ss_dssp             SSCCBCTTTCSBC--SSEEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCGGGEEECHHHHHHH
T ss_pred             CcEeECcCcCchh--cCCEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCHhhCcCCHHHHHHH
Confidence            4578999999999  5565553599999999999999753      58999  9877 7777777776664443

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

Probab=98.93  E-value=7.7e-10  Score=87.54  Aligned_cols=54  Identities=19%  Similarity=0.448  Sum_probs=41.9

Q ss_pred             ccCCCccccccccccCCCCceecc--CCccccHHHHHHHHh-cCCCCCCccccCCCCC
Q 016591           25 DACDDACSICLEDFSESDPSTLTS--CKHEFHLQCILEWCQ-RSSQCPMCWQPISLKD   79 (386)
Q Consensus        25 d~ed~~C~ICle~f~~~~pv~ll~--CgH~FC~~CI~~Wlq-~s~~CPlCR~~i~~kd   79 (386)
                      .+++..|+||++.+...+ +..++  |||.||..||..|+. ....||+||+.+....
T Consensus         8 ~~~~~~CpICle~~~~~d-~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~   64 (78)
T 1e4u_A            8 KEDPVECPLCMEPLEIDD-INFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDP   64 (78)
T ss_dssp             CCCCCBCTTTCCBCCTTT-TTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCS
T ss_pred             cccCCcCCccCccCcccc-ccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCCc
Confidence            355789999999884333 33334  999999999999985 4578999999987654

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

Probab=98.93  E-value=5.1e-10  Score=104.98  Aligned_cols=63  Identities=17%  Similarity=0.166  Sum_probs=50.5

Q ss_pred             ccCCCccccccccccCCCCceeccCCccccHHHHHHHHhc-CCCCCCccccCCCCCCChHHHHHHHH
Q 016591           25 DACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQR-SSQCPMCWQPISLKDPTSQELLEAVE   90 (386)
Q Consensus        25 d~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~-s~~CPlCR~~i~~kd~~~~~ll~ave   90 (386)
                      ...++.|+||++.|  .+|+ +++|||.||..||..|+.. ...||+|+.++...++.++..+..+.
T Consensus       205 ~~~~~~c~i~~~~~--~dPv-~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~~l~~n~~l~~~i  268 (281)
T 2c2l_A          205 IPDYLCGKISFELM--REPC-ITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPNLAMKEVI  268 (281)
T ss_dssp             CCSTTBCTTTCSBC--SSEE-ECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCEECHHHHHHH
T ss_pred             CCcccCCcCcCCHh--cCCe-ECCCCCEECHHHHHHHHHHCCCCCcCCCCCCchhcCcccHHHHHHH
Confidence            34688999999999  5554 5589999999999999975 44599999999887777776664433

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

Probab=98.89  E-value=3.5e-10  Score=94.45  Aligned_cols=52  Identities=38%  Similarity=0.645  Sum_probs=43.6

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHhc-CCCCCCccccCCCCCC
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQR-SSQCPMCWQPISLKDP   80 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~-s~~CPlCR~~i~~kd~   80 (386)
                      .+++.|+||++.|  .++ +.++|||.||..||..|+.. ...||+||..+...++
T Consensus        21 ~~~~~C~IC~~~~--~~p-~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~   73 (116)
T 1rmd_A           21 VKSISCQICEHIL--ADP-VETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDL   73 (116)
T ss_dssp             HHHTBCTTTCSBC--SSE-EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGC
T ss_pred             cCCCCCCCCCcHh--cCc-EEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCHhhc
Confidence            3478899999999  444 44699999999999999986 6789999999876554

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

Probab=98.83  E-value=3.5e-09  Score=83.37  Aligned_cols=51  Identities=22%  Similarity=0.551  Sum_probs=41.9

Q ss_pred             CCCccccccccccCCCCceeccCCccccHHHHHHHHhcC--CCCCCccccCCCCC
Q 016591           27 CDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRS--SQCPMCWQPISLKD   79 (386)
Q Consensus        27 ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s--~~CPlCR~~i~~kd   79 (386)
                      ....|.||++.|..+  .....|+|.||..||..||+.+  ..||+|+..|....
T Consensus        14 ~i~~C~IC~~~i~~g--~~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~~~   66 (74)
T 2ct0_A           14 AVKICNICHSLLIQG--QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEI   66 (74)
T ss_dssp             SSCBCSSSCCBCSSS--EECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCCSCC
T ss_pred             CCCcCcchhhHcccC--CccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCCCCC
Confidence            346799999999543  3444899999999999999876  89999999987653

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

Probab=98.82  E-value=8.9e-10  Score=92.45  Aligned_cols=56  Identities=29%  Similarity=0.630  Sum_probs=46.1

Q ss_pred             CccCCCccccccccccC----CCCceeccCCccccHHHHHHHHhcCCCCCCccccCCCCC
Q 016591           24 QDACDDACSICLEDFSE----SDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKD   79 (386)
Q Consensus        24 qd~ed~~C~ICle~f~~----~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~kd   79 (386)
                      .+..+..|+||++.|..    ...+..++|+|.||..||.+|+.....||+||..+..++
T Consensus        68 i~~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~  127 (133)
T 4ap4_A           68 IGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR  127 (133)
T ss_dssp             CSSSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             cCCCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCChhc
Confidence            45667889999999832    123477799999999999999999999999999987554

>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=98.80  E-value=2.7e-09  Score=80.87  Aligned_cols=49  Identities=24%  Similarity=0.534  Sum_probs=40.9

Q ss_pred             ccCCCccccccccccCCCCceec--cCCcc-ccHHHHHHHHhcCCCCCCccccCC
Q 016591           25 DACDDACSICLEDFSESDPSTLT--SCKHE-FHLQCILEWCQRSSQCPMCWQPIS   76 (386)
Q Consensus        25 d~ed~~C~ICle~f~~~~pv~ll--~CgH~-FC~~CI~~Wlq~s~~CPlCR~~i~   76 (386)
                      ..++..|.||++.+  .+ +.++  +|||. ||..|+..|+.....||+||+.+.
T Consensus         5 ~~~~~~C~IC~~~~--~~-~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   56 (64)
T 2vje_A            5 LNAIEPCVICQGRP--KN-GCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQ   56 (64)
T ss_dssp             CGGGSCCTTTSSSC--SC-EEEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCC
T ss_pred             CCCcCCCCcCCCCC--CC-EEEECCCCCChhhHHHHHHHHHHcCCcCCCcCcchh
Confidence            34577899999987  33 4444  99999 899999999998889999999885

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

Probab=98.80  E-value=1.2e-09  Score=95.33  Aligned_cols=50  Identities=18%  Similarity=0.442  Sum_probs=41.6

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHhcC-CCCCCccccCCCC
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRS-SQCPMCWQPISLK   78 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s-~~CPlCR~~i~~k   78 (386)
                      ++++.|+||++.|  .++ +.++|||.||..||..|+... ..||+||.++...
T Consensus        29 ~~~~~C~IC~~~~--~~p-v~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~   79 (141)
T 3knv_A           29 EAKYLCSACRNVL--RRP-FQAQCGHRYCSFCLASILSSGPQNCAACVHEGIYE   79 (141)
T ss_dssp             CGGGBCTTTCSBC--SSE-EECTTSCEEEHHHHHHHGGGSCEECHHHHHTTCCC
T ss_pred             CcCcCCCCCChhh--cCc-EECCCCCccCHHHHHHHHhcCCCCCCCCCCccccc
Confidence            4578999999999  455 556999999999999999855 4899999987543

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

Probab=98.79  E-value=3e-09  Score=96.81  Aligned_cols=61  Identities=18%  Similarity=0.184  Sum_probs=50.0

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHhcC-CCCCCccccCCCCCCChHHHHHHH
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRS-SQCPMCWQPISLKDPTSQELLEAV   89 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s-~~CPlCR~~i~~kd~~~~~ll~av   89 (386)
                      ..++.|+||++.|  .+| ++++|||.||..||..|+... ..||+|+.++...++.++..+...
T Consensus       104 p~~f~CPI~~elm--~DP-V~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~~L~pN~~Lk~~  165 (179)
T 2f42_A          104 PDYLCGKISFELM--REP-CITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQLIPNLAMKEV  165 (179)
T ss_dssp             CGGGBCTTTCSBC--SSE-EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCEECHHHHHH
T ss_pred             cHhhcccCccccC--CCC-eECCCCCEECHHHHHHHHHhCCCCCCCCcCCCChhhCcchHHHHHH
Confidence            4588999999999  455 445999999999999999753 469999999988888777666443

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

Probab=98.79  E-value=1.2e-09  Score=80.50  Aligned_cols=48  Identities=27%  Similarity=0.548  Sum_probs=39.3

Q ss_pred             ccCCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCCC
Q 016591           25 DACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLK   78 (386)
Q Consensus        25 d~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~k   78 (386)
                      +.+++.|+||++.|  .++ ++++|+|.||..||..|   ...||+||+.+...
T Consensus         3 e~~~~~C~IC~~~~--~~p-~~l~CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~   50 (56)
T 1bor_A            3 EFQFLRCQQCQAEA--KCP-KLLPCLHTLCSGCLEAS---GMQCPICQAPWPLG   50 (56)
T ss_dssp             SCCCSSCSSSCSSC--BCC-SCSTTSCCSBTTTCSSS---SSSCSSCCSSSSCC
T ss_pred             cccCCCceEeCCcc--CCe-EEcCCCCcccHHHHccC---CCCCCcCCcEeecC
Confidence            45678899999999  344 55699999999999774   56899999998754

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

Probab=98.75  E-value=2.9e-09  Score=94.46  Aligned_cols=62  Identities=19%  Similarity=0.426  Sum_probs=48.4

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHhcC-CCCCCccccCCCCCCChHHHHHHHH
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRS-SQCPMCWQPISLKDPTSQELLEAVE   90 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s-~~CPlCR~~i~~kd~~~~~ll~ave   90 (386)
                      .+++.|+||++.|  .++ +.++|||.||..||..|+... ..||+||..+...++.....+....
T Consensus        16 ~~~~~C~IC~~~~--~~p-v~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~i   78 (170)
T 3hcs_A           16 ESKYECPICLMAL--REA-VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDNFAKREI   78 (170)
T ss_dssp             CGGGBCTTTCSBC--SSE-EECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGGCEECHHHHHHH
T ss_pred             CCCCCCCCCChhh--cCc-EECCCCCHHHHHHHHHHHHhCCCCCCCCccCcchhhhhhhHHHHHHH
Confidence            4578999999999  445 456999999999999999754 4899999999876655554444433

>4ic3_A E3 ubiquitin-protein ligase XIAP; ring domain, zinc-finger, E3 ligase; 1.78A {Homo sapiens} PDB: 4ic2_A

Probab=98.71  E-value=2.6e-09  Score=82.97  Aligned_cols=45  Identities=27%  Similarity=0.651  Sum_probs=37.9

Q ss_pred             cCCCccccccccccCCCCceeccCCcc-ccHHHHHHHHhcCCCCCCccccCCC
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHE-FHLQCILEWCQRSSQCPMCWQPISL   77 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~-FC~~CI~~Wlq~s~~CPlCR~~i~~   77 (386)
                      .++..|+||++.+   ..+..++|+|. ||..|+..|    ..||+||+.+..
T Consensus        22 ~~~~~C~iC~~~~---~~~~~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~   67 (74)
T 4ic3_A           22 QEEKLCKICMDRN---IAIVFVPCGHLVTCKQCAEAV----DKCPMCYTVITF   67 (74)
T ss_dssp             HHHTBCTTTSSSB---CCEEEETTCCBCCCHHHHTTC----SBCTTTCCBCSE
T ss_pred             ccCCCCCCCCCCC---CCEEEcCCCChhHHHHhhhcC----ccCCCcCcCccC
Confidence            3467899999998   34556699999 999999998    789999998863

>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=98.71  E-value=7.1e-09  Score=104.44  Aligned_cols=48  Identities=25%  Similarity=0.635  Sum_probs=41.4

Q ss_pred             CCccccccccccCCCCceeccCCccccHHHHHHHHh-cCCCCCCccccCCCC
Q 016591           28 DDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQ-RSSQCPMCWQPISLK   78 (386)
Q Consensus        28 d~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq-~s~~CPlCR~~i~~k   78 (386)
                      +..|+||++.+   ..++.++|||.||..||..|+. ....||+||..+...
T Consensus       332 ~~~C~ICle~~---~~pv~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~  380 (389)
T 2y1n_A          332 FQLCKICAEND---KDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGT  380 (389)
T ss_dssp             SSBCTTTSSSB---CCEEEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCEE
T ss_pred             CCCCCccCcCC---CCeEEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCCc
Confidence            46899999998   4456679999999999999998 678999999988643

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

Probab=98.71  E-value=3.3e-09  Score=101.69  Aligned_cols=60  Identities=25%  Similarity=0.529  Sum_probs=51.0

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHhcC--CCCCC--ccccCCCCCCChHHHHH
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRS--SQCPM--CWQPISLKDPTSQELLE   87 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s--~~CPl--CR~~i~~kd~~~~~ll~   87 (386)
                      ..++.||||++.|  .+|++.+.|||.||..||..|+...  ..||+  |++.+...++.++..+.
T Consensus       179 ~~el~CPIcl~~f--~DPVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~dL~pN~~L~  242 (267)
T 3htk_C          179 KIELTCPITCKPY--EAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRDFVRDPIME  242 (267)
T ss_dssp             BCCSBCTTTSSBC--SSEEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGGGEEECHHHH
T ss_pred             ceeeECcCccCcc--cCCeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCchhhCCcCHHHH
Confidence            4578899999999  7788777999999999999999754  57999  99999888877766653

>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=98.69  E-value=9.7e-09  Score=77.58  Aligned_cols=48  Identities=21%  Similarity=0.479  Sum_probs=39.8

Q ss_pred             cCCCccccccccccCCCCceec--cCCcc-ccHHHHHHHHhcCCCCCCccccCC
Q 016591           26 ACDDACSICLEDFSESDPSTLT--SCKHE-FHLQCILEWCQRSSQCPMCWQPIS   76 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll--~CgH~-FC~~CI~~Wlq~s~~CPlCR~~i~   76 (386)
                      ..+..|.||++.+  .+ ..++  +|||. ||..|+..|++....||+||+.+.
T Consensus         5 ~~~~~C~IC~~~~--~~-~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   55 (63)
T 2vje_B            5 NLLKPCSLCEKRP--RD-GNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQ   55 (63)
T ss_dssp             GGGSBCTTTSSSB--SC-EEEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCC
T ss_pred             CcCCCCcccCCcC--CC-eEEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhh
Confidence            3467899999987  23 3444  99998 999999999988889999999885

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

Probab=98.56  E-value=1.7e-08  Score=78.33  Aligned_cols=45  Identities=27%  Similarity=0.662  Sum_probs=36.6

Q ss_pred             cCCCccccccccccCCCCceeccCCcc-ccHHHHHHHHhcCCCCCCccccCCC
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHE-FHLQCILEWCQRSSQCPMCWQPISL   77 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~-FC~~CI~~Wlq~s~~CPlCR~~i~~   77 (386)
                      .++..|+||++.+   ..+++++|+|. ||..|+..    ...||+||..+..
T Consensus        23 ~~~~~C~IC~~~~---~~~~~~pCgH~~~C~~C~~~----~~~CP~Cr~~i~~   68 (75)
T 2ecg_A           23 QEEKLCKICMDRN---IAIVFVPCGHLVTCKQCAEA----VDKCPMCYTVITF   68 (75)
T ss_dssp             HHHHSCSSSCSSC---CCBCCSSSCCCCBCHHHHHH----CSBCTTTCCBCCC
T ss_pred             CCCCCCCcCCCCC---CCEEEecCCCHHHHHHHhhC----CCCCccCCceecC
Confidence            3467899999998   34566799999 99999964    3789999998864

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

Probab=98.46  E-value=1e-07  Score=73.17  Aligned_cols=47  Identities=26%  Similarity=0.557  Sum_probs=38.7

Q ss_pred             CccCCCccccccccccCCCCceeccCCcc-ccHHHHHHHHhcCCCCCCccccCCC
Q 016591           24 QDACDDACSICLEDFSESDPSTLTSCKHE-FHLQCILEWCQRSSQCPMCWQPISL   77 (386)
Q Consensus        24 qd~ed~~C~ICle~f~~~~pv~ll~CgH~-FC~~CI~~Wlq~s~~CPlCR~~i~~   77 (386)
                      .+.++..|.||++.+   ..+.+++|+|. ||..|+..    ...||+||+.|..
T Consensus        11 ~~~~~~~C~IC~~~~---~~~v~~pCgH~~~C~~C~~~----~~~CP~CR~~i~~   58 (68)
T 2ea5_A           11 SEENSKDCVVCQNGT---VNWVLLPCRHTCLCDGCVKY----FQQCPMCRQFVQE   58 (68)
T ss_dssp             SCCCSSCCSSSSSSC---CCCEETTTTBCCSCTTHHHH----CSSCTTTCCCCCC
T ss_pred             cCCCCCCCCCcCcCC---CCEEEECCCChhhhHHHHhc----CCCCCCCCcchhc
Confidence            445578899999987   45677799999 99999974    4789999998864

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

Probab=98.45  E-value=2.3e-08  Score=80.58  Aligned_cols=48  Identities=21%  Similarity=0.652  Sum_probs=37.1

Q ss_pred             CCCccccccccccCCCCceeccCCccccHHHHHHHHhc--------CCCCCC--cccc
Q 016591           27 CDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQR--------SSQCPM--CWQP   74 (386)
Q Consensus        27 ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~--------s~~CPl--CR~~   74 (386)
                      .+.+|+||++.+...+.+.+.+|+|.||..||..|+..        ...||.  |+..
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            46789999999843222344579999999999999853        237999  9988

>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=98.42  E-value=7.5e-08  Score=72.67  Aligned_cols=51  Identities=14%  Similarity=0.266  Sum_probs=42.2

Q ss_pred             CCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCCCCC
Q 016591           28 DDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDP   80 (386)
Q Consensus        28 d~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~kd~   80 (386)
                      .+.|+||++.+  .+|+...+|||.|+..||.+|+..+..||++++++...++
T Consensus         3 ~~~CpIs~~~m--~dPV~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~~~L   53 (61)
T 2bay_A            3 HMLCAISGKVP--RRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEI   53 (61)
T ss_dssp             -CCCTTTCSCC--SSEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGC
T ss_pred             eEEecCCCCCC--CCCEEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCChhhc
Confidence            46799999999  4554443899999999999999877789999999876654

>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=98.41  E-value=5.5e-08  Score=76.72  Aligned_cols=44  Identities=25%  Similarity=0.560  Sum_probs=36.6

Q ss_pred             CCCccccccccccCCCCceeccCCcc-ccHHHHHHHHhcCCCCCCccccCCC
Q 016591           27 CDDACSICLEDFSESDPSTLTSCKHE-FHLQCILEWCQRSSQCPMCWQPISL   77 (386)
Q Consensus        27 ed~~C~ICle~f~~~~pv~ll~CgH~-FC~~CI~~Wlq~s~~CPlCR~~i~~   77 (386)
                      ++..|.||++.+   ..+.+++|||. ||..|+..|    ..||+||..+..
T Consensus        17 ~~~~C~IC~~~~---~~~v~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~   61 (79)
T 2yho_A           17 EAMLCMVCCEEE---INSTFCPCGHTVCCESCAAQL----QSCPVCRSRVEH   61 (79)
T ss_dssp             HHTBCTTTSSSB---CCEEEETTCBCCBCHHHHTTC----SBCTTTCCBCCE
T ss_pred             CCCEeEEeCccc---CcEEEECCCCHHHHHHHHHhc----CcCCCCCchhhC
Confidence            367899999988   44566799999 999999877    389999998863

>1vyx_A ORF K3, K3RING; zinc-binding protein, ring domain, cross-brace motif; NMR {Human herpesvirus 8} SCOP: g.44.1.3

Probab=98.34  E-value=3.4e-07  Score=68.88  Aligned_cols=51  Identities=22%  Similarity=0.582  Sum_probs=40.0

Q ss_pred             CccCCCccccccccccCCCCceeccCC--c---cccHHHHHHHHhc--CCCCCCccccCCC
Q 016591           24 QDACDDACSICLEDFSESDPSTLTSCK--H---EFHLQCILEWCQR--SSQCPMCWQPISL   77 (386)
Q Consensus        24 qd~ed~~C~ICle~f~~~~pv~ll~Cg--H---~FC~~CI~~Wlq~--s~~CPlCR~~i~~   77 (386)
                      +++++..|.||++..  ++++ ++||.  +   .||..||..|+..  +..||+|+..|..
T Consensus         2 e~~~~~~CrIC~~~~--~~~l-~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~~   59 (60)
T 1vyx_A            2 EDEDVPVCWICNEEL--GNER-FRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             TTCSCCEETTTTEEC--SCCC-CCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCCCEeEEeecCC--CCce-ecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeeec
Confidence            456778899999975  3444 56854  4   8999999999963  6789999998864

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

Probab=98.28  E-value=1.6e-07  Score=93.17  Aligned_cols=53  Identities=26%  Similarity=0.615  Sum_probs=40.0

Q ss_pred             CccCCCccccccccccCCCCc-----eeccCCccccHHHHHHHHhcC-----------CCCCCccccCC
Q 016591           24 QDACDDACSICLEDFSESDPS-----TLTSCKHEFHLQCILEWCQRS-----------SQCPMCWQPIS   76 (386)
Q Consensus        24 qd~ed~~C~ICle~f~~~~pv-----~ll~CgH~FC~~CI~~Wlq~s-----------~~CPlCR~~i~   76 (386)
                      .++...+|+||+..+.....+     ....|+|.||..||.+|++..           ..||+||+++.
T Consensus       304 ~ee~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs  372 (381)
T 3k1l_B          304 EDNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLS  372 (381)
T ss_dssp             CCCSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEE
T ss_pred             cccCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCC
Confidence            344567799999998652221     124799999999999999642           46999999886

>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=98.25  E-value=1.7e-07  Score=93.13  Aligned_cols=45  Identities=20%  Similarity=0.561  Sum_probs=37.7

Q ss_pred             cCCCccccccccccCCCCceeccCCcc-ccHHHHHHHHhcCCCCCCccccCCC
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHE-FHLQCILEWCQRSSQCPMCWQPISL   77 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~-FC~~CI~~Wlq~s~~CPlCR~~i~~   77 (386)
                      .++..|+||++.+   ..++.++|||. ||..|+..|    ..||+||..+..
T Consensus       293 ~~~~~C~IC~~~~---~~~v~lpCgH~~fC~~C~~~~----~~CP~CR~~i~~  338 (345)
T 3t6p_A          293 QEERTCKVCMDKE---VSVVFIPCGHLVVCQECAPSL----RKCPICRGIIKG  338 (345)
T ss_dssp             HTTCBCTTTSSSB---CCEEEETTCCEEECTTTGGGC----SBCTTTCCBCCE
T ss_pred             cCCCCCCccCCcC---CceEEcCCCChhHhHHHHhcC----CcCCCCCCCccC
Confidence            4578899999998   34555699999 999999988    689999998863

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

Probab=97.94  E-value=4.4e-06  Score=69.14  Aligned_cols=45  Identities=24%  Similarity=0.572  Sum_probs=38.2

Q ss_pred             ccccccccccCCCCceeccCCccccHHHHHHHHh-cCCCCCCccccCC
Q 016591           30 ACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQ-RSSQCPMCWQPIS   76 (386)
Q Consensus        30 ~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq-~s~~CPlCR~~i~   76 (386)
                      .|.+|--.+  ..-.++.||+|.||+.|+..|.+ ..+.||.|+.++.
T Consensus         3 fC~~C~~Pi--~iygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~   48 (101)
T 3vk6_A            3 FCDKCGLPI--KVYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQ   48 (101)
T ss_dssp             BCTTTCSBC--SEEEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCS
T ss_pred             ecCccCCCe--EEEeeeccccccHHHHHHHHHHhccCCCCcCcCCeee
Confidence            488998777  44568889999999999999985 5689999999886

>3nw0_A Non-structural maintenance of chromosomes element homolog; E3 ligase, Zn, metal binding protein; 2.92A {Homo sapiens}

Probab=97.55  E-value=5.6e-05  Score=71.33  Aligned_cols=51  Identities=24%  Similarity=0.597  Sum_probs=40.6

Q ss_pred             CCccccccccccCCCCceeccCCccccHHHHHHHHhcC--CCCCCccccCCCCCC
Q 016591           28 DDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRS--SQCPMCWQPISLKDP   80 (386)
Q Consensus        28 d~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s--~~CPlCR~~i~~kd~   80 (386)
                      -..|.||.+.+..+  ..+..|+|.||..|+..|++..  ..||.|+..|....+
T Consensus       180 i~~C~iC~~iv~~g--~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~~~~  232 (238)
T 3nw0_A          180 VKICNICHSLLIQG--QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEIP  232 (238)
T ss_dssp             CCBCTTTCSBCSSC--EECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCSCCC
T ss_pred             CCcCcchhhHHhCC--cccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCCCCC
Confidence            56699999998543  4454599999999999999754  489999999876543

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=94.87  E-value=0.017  Score=46.27  Aligned_cols=35  Identities=20%  Similarity=0.418  Sum_probs=26.0

Q ss_pred             CCCccccccccccCCCCc-eeccCCccccHHHHHHHH
Q 016591           27 CDDACSICLEDFSESDPS-TLTSCKHEFHLQCILEWC   62 (386)
Q Consensus        27 ed~~C~ICle~f~~~~pv-~ll~CgH~FC~~CI~~Wl   62 (386)
                      ++..|.||++.+. .+++ ..+.|+|.||..|+..|.
T Consensus         2 ee~~C~~C~~~~~-~~av~~C~~C~~~~C~~Cl~~~h   37 (101)
T 2jun_A            2 EKVLCQFCDQDPA-QDAVKTCVTCEVSYCDECLKATH   37 (101)
T ss_dssp             CCCBCTTCCSSSC-CBCCEEETTTTEEECHHHHHHHS
T ss_pred             CCCCCcCCCCCCC-CCceEECCcCChHHhHHHCHHHh
Confidence            5788999997641 2232 337999999999999843

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=91.70  E-value=0.15  Score=38.69  Aligned_cols=52  Identities=23%  Similarity=0.474  Sum_probs=36.8

Q ss_pred             cCCCccCCCccccccccccCCCCceeccCCccccHHHHHHHHhcC----CCCCCccccC
Q 016591           21 GGIQDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRS----SQCPMCWQPI   75 (386)
Q Consensus        21 g~iqd~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s----~~CPlCR~~i   75 (386)
                      +......+..|.||.+.   ++-+..-.|...||..|+...+...    -.||.|....
T Consensus         5 ~~~~~~~~~~C~vC~~~---~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~~   60 (66)
T 2lri_C            5 GQQNLAPGARCGVCGDG---TDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDV   60 (66)
T ss_dssp             TTTCCCTTCCCTTTSCC---TTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTCC
T ss_pred             cccCCCCCCCcCCCCCC---CeEEECCCCCCceecccCCCccCcCCCCCEECccccCCC
Confidence            33334456779999864   3555555799999999998877542    4799997644

>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=90.48  E-value=0.2  Score=55.61  Aligned_cols=59  Identities=19%  Similarity=0.184  Sum_probs=49.1

Q ss_pred             CCCccccccccccCCCCceeccCC-ccccHHHHHHHHhcCCCCCCccccCCCCCCChHHHHHH
Q 016591           27 CDDACSICLEDFSESDPSTLTSCK-HEFHLQCILEWCQRSSQCPMCWQPISLKDPTSQELLEA   88 (386)
Q Consensus        27 ed~~C~ICle~f~~~~pv~ll~Cg-H~FC~~CI~~Wlq~s~~CPlCR~~i~~kd~~~~~ll~a   88 (386)
                      +++.|||-++.+  .+|+ +++.| +.|-..+|..|+....+||+=|+++...++.++..+..
T Consensus       890 ~~F~cPIs~~lM--~DPV-ilpsG~~TydR~~I~~wl~~~~tdP~Tr~~L~~~~liPN~~Lk~  949 (968)
T 3m62_A          890 DEFLDPLMYTIM--KDPV-ILPASKMNIDRSTIKAHLLSDSTDPFNRMPLKLEDVTPNEELRQ  949 (968)
T ss_dssp             GGGBCTTTCSBC--SSEE-ECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGGGCEECHHHHH
T ss_pred             HHhCCcchhhHH--hCCe-EcCCCCEEECHHHHHHHHhcCCCCCCCCCCCCcccccccHHHHH
Confidence            488899999999  5554 45887 69999999999998899999999998887777766543

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}

Probab=86.72  E-value=0.32  Score=36.07  Aligned_cols=50  Identities=20%  Similarity=0.571  Sum_probs=35.8

Q ss_pred             cCCCccCCCccccccccccCCCCceeccCCccccHHHHHHHHh----cCCCCCCccc
Q 016591           21 GGIQDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQ----RSSQCPMCWQ   73 (386)
Q Consensus        21 g~iqd~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq----~s~~CPlCR~   73 (386)
                      ....+..+..|.||...   ++-+..-.|...||..|+..-+.    ..-.||.|..
T Consensus         4 ~~~~~~~~~~C~vC~~~---g~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~   57 (61)
T 2l5u_A            4 GSYETDHQDYCEVCQQG---GEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEK   57 (61)
T ss_dssp             SCCSSCCCSSCTTTSCC---SSEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGG
T ss_pred             CcccCCCCCCCccCCCC---CcEEECCCCChhhhhhccCCCCCCCCCCceECccccc
Confidence            34566778899999864   34445557889999999987543    2346999964

>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication, ring E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus; 2.60A {Saccharomyces cerevisiae}

Probab=85.18  E-value=0.47  Score=47.40  Aligned_cols=61  Identities=25%  Similarity=0.441  Sum_probs=43.8

Q ss_pred             CCccccccccccCCCCceeccCCccccHHH--HHHHHh--cCCCCCCccccCCCCCCChHHHHHHHH
Q 016591           28 DDACSICLEDFSESDPSTLTSCKHEFHLQC--ILEWCQ--RSSQCPMCWQPISLKDPTSQELLEAVE   90 (386)
Q Consensus        28 d~~C~ICle~f~~~~pv~ll~CgH~FC~~C--I~~Wlq--~s~~CPlCR~~i~~kd~~~~~ll~ave   90 (386)
                      .+.|||-+..|  ..|++-..|.|.-|++.  +..+..  ..-.||+|.+.+...++.....+..+.
T Consensus       249 SL~CPlS~~ri--~~PvRg~~C~HlQCFDl~sfL~~~~~~~~W~CPIC~k~~~~~dL~ID~~~~~IL  313 (371)
T 3i2d_A          249 SLQCPISYTRM--KYPSKSINCKHLQCFDALWFLHSQLQIPTWQCPVCQIDIALENLAISEFVDDIL  313 (371)
T ss_dssp             ESBCTTTSSBC--SSEEEETTCCSSCCEEHHHHHHHHHHSCCCBCTTTCCBCCGGGEEEBHHHHHHH
T ss_pred             eecCCCccccc--cccCcCCcCCCcceECHHHHHHHhhcCCceeCCCCCcccCHHHeeEcHHHHHHH
Confidence            46799888887  67888889999855543  333333  245799999999988887766654443

>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=84.80  E-value=0.96  Score=36.02  Aligned_cols=39  Identities=23%  Similarity=0.402  Sum_probs=26.5

Q ss_pred             cCCCccccccccccCCCCceecc-CCccccHHHHHHHHhc
Q 016591           26 ACDDACSICLEDFSESDPSTLTS-CKHEFHLQCILEWCQR   64 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~-CgH~FC~~CI~~Wlq~   64 (386)
                      ...+.|.+|.+-+.+..-+.... =.|.||+.|-+..++.
T Consensus        13 ~a~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sIk~   52 (93)
T 2cs3_A           13 SGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKA   52 (93)
T ss_dssp             CCSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHH
T ss_pred             CCeeEeecchhhhccCceeeCCCccCCeeeccccHHHHHh
Confidence            44677999999983322122211 2699999999998863

>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=82.95  E-value=0.77  Score=45.71  Aligned_cols=61  Identities=15%  Similarity=0.308  Sum_probs=43.6

Q ss_pred             CCccccccccccCCCCceeccCCccccHH--HHHHHHhc--CCCCCCccccCCCCCCChHHHHHHHH
Q 016591           28 DDACSICLEDFSESDPSTLTSCKHEFHLQ--CILEWCQR--SSQCPMCWQPISLKDPTSQELLEAVE   90 (386)
Q Consensus        28 d~~C~ICle~f~~~~pv~ll~CgH~FC~~--CI~~Wlq~--s~~CPlCR~~i~~kd~~~~~ll~ave   90 (386)
                      .+.|||-+..|  ..|++-..|.|.-|++  -+..+...  .-.||+|.+.+.+.++.....+..+.
T Consensus       215 SL~CPlS~~ri--~~P~Rg~~C~HlqCFDl~sfL~~~~~~~~W~CPiC~k~~~~~dL~ID~~~~~IL  279 (360)
T 4fo9_A          215 SLMCPLGKMRL--TIPCRAVTCTHLQCFDAALYLQMNEKKPTWICPVCDKKAAYESLILDGLFMEIL  279 (360)
T ss_dssp             ESBCTTTCSBC--SSEEEETTCCCCCCEEHHHHHHHHHHSCCCBCTTTCSBCCGGGEEEBHHHHHHH
T ss_pred             eeeCCCcccee--ccCCcCCCCCCCccCCHHHHHHHHhhCCCeECCCCCcccCHHHeEEcHHHHHHH
Confidence            45699988887  6788888999985543  33333332  35799999999988887766554443

>1weo_A Cellulose synthase, catalytic subunit (IRX3); structure genomics, ring-finger, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: g.44.1.1

Probab=81.92  E-value=2.4  Score=34.24  Aligned_cols=53  Identities=17%  Similarity=0.354  Sum_probs=37.2

Q ss_pred             CccCCCccccccccccCC---CC-ceeccCCccccHHHHHHHH-hcCCCCCCccccCC
Q 016591           24 QDACDDACSICLEDFSES---DP-STLTSCKHEFHLQCILEWC-QRSSQCPMCWQPIS   76 (386)
Q Consensus        24 qd~ed~~C~ICle~f~~~---~p-v~ll~CgH~FC~~CI~~Wl-q~s~~CPlCR~~i~   76 (386)
                      .......|.||-+.+...   ++ +....|.--.|..|+.--. +....||.|+..+.
T Consensus        12 ~~~~~qiCqiCGD~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCktrYk   69 (93)
T 1weo_A           12 KNLDGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYK   69 (93)
T ss_dssp             SCCSSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCC
T ss_pred             cccCCCccccccCccccCCCCCEEEeeeccCChhhHHHHHHHHhccCccccccCCccc
Confidence            333456799999986322   21 2344688889999997443 56789999988875

>1wil_A KIAA1045 protein; ring finger domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: g.50.1.3

Probab=80.14  E-value=1.9  Score=34.54  Aligned_cols=35  Identities=20%  Similarity=0.439  Sum_probs=24.2

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHH
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEW   61 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~W   61 (386)
                      ..|..|.||-.. ..++....--|+-.||..|+.+.
T Consensus        13 ~~D~~C~VC~~~-t~~~l~pCRvC~RvfH~~CL~r~   47 (89)
T 1wil_A           13 VNDEMCDVCEVW-TAESLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCSCCCTTTCCC-CSSCCSSCSSSSSCCCHHHHHHH
T ss_pred             CCCcccCccccc-cccceeccccccccccHhhcccc
Confidence            468899999633 22222233348999999999997

---

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	386
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	1e-15
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	8e-15
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	2e-14
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	6e-12
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	2e-11
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	3e-10
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	6e-10
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	2e-09
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	2e-09
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	1e-08
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	2e-08
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	8e-08
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	2e-07
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	7e-07
d2c2la2	80	g.44.1.2 (A:225-304) STIP1 homology and U box-cont	6e-05
d1t1ha_	78	g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cre	6e-04

>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 = 68.4 bits (167), Expect = 1e-15
 Identities = 14/49 (28%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 28 DDACSICLEDFSESD-PSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPI 75
             C++CL +  + +    L  C H FH +C+  W    S CP+C   +
Sbjct: 5  GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

>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 = 66.5 bits (162), Expect = 8e-15
 Identities = 18/49 (36%), Positives = 25/49 (51%), Gaps = 2/49 (4%)

Query: 28 DDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPIS 76
           + C ICLED S  + S    C H F   CI  W +++  CP+C  P+ 
Sbjct: 5  AERCPICLEDPS--NYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE 51

>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 = 66.3 bits (161), Expect = 2e-14
 Identities = 14/69 (20%), Positives = 20/69 (28%), Gaps = 15/69 (21%)

Query: 25 DACDDACSICLEDFSES---------------DPSTLTSCKHEFHLQCILEWCQRSSQCP 69
          D   D C+IC     +                       C H FH  CI  W +    CP
Sbjct: 18 DIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCP 77

Query: 70 MCWQPISLK 78
          +  +    +
Sbjct: 78 LDNREWEFQ 86

>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 = 58.3 bits (140), Expect = 6e-12
 Identities = 11/59 (18%), Positives = 17/59 (28%), Gaps = 3/59 (5%)

Query: 28 DDACSICLEDFSESDPS--TLTSCKHEFHLQCILEWCQ-RSSQCPMCWQPISLKDPTSQ 83
          D  C  C      +      +  C H     C+       +  CP C  P+   +   Q
Sbjct: 3  DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFRVQ 61

>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 = 57.7 bits (139), Expect = 2e-11
 Identities = 13/57 (22%), Positives = 20/57 (35%), Gaps = 4/57 (7%)

Query: 25 DACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQ-RSSQCPMCWQPISLKDP 80
           +    C IC E+  +     +  C H     C+  W +     CP C   I   +P
Sbjct: 20 GSTFQLCKICAENDKDV---KIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEP 73

>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 = 53.2 bits (127), Expect = 3e-10
 Identities = 10/48 (20%), Positives = 18/48 (37%), Gaps = 2/48 (4%)

Query: 31 CSICLEDFSESDPS-TLTSCKHEFHLQCILEW-CQRSSQCPMCWQPIS 76
          C +C+E     D +    +C ++    C        +  CP C +P  
Sbjct: 3  CPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYP 50

>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 = 52.6 bits (126), Expect = 6e-10
 Identities = 12/48 (25%), Positives = 15/48 (31%), Gaps = 6/48 (12%)

Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLK 78
          C  C  +        L  C H     C+        QCP+C  P  L 
Sbjct: 9  CQQCQAEAKCP---KLLPCLHTLCSGCLEAS---GMQCPICQAPWPLG 50

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 51.8 bits (124), Expect = 2e-09
 Identities = 18/50 (36%), Positives = 21/50 (42%), Gaps = 4/50 (8%)

Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQ-RSSQCPMCWQPISLKD 79
          C IC    ++      TSCKH F   CIL   +   S CP C  P    D
Sbjct: 26 CQICEHILADP---VETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTD 72

>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 = 51.0 bits (121), Expect = 2e-09
 Identities = 12/60 (20%), Positives = 20/60 (33%), Gaps = 4/60 (6%)

Query: 23 IQDACDDACSICLEDFSESD--PSTLTSCKHEFHLQCILEWCQRS--SQCPMCWQPISLK 78
          ++D     C IC E+           T      H  C+  W   S  + C +C    + +
Sbjct: 1  MEDEDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNTR 60

>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 = 50.1 bits (119), Expect = 1e-08
 Identities = 20/67 (29%), Positives = 27/67 (40%), Gaps = 7/67 (10%)

Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSS---QCPMCWQPISLKD-PTSQELL 86
          C ICLE   E      T C H F   C+L+   +     QCP+C   I+ +    S    
Sbjct: 24 CPICLELIKEP---VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQESTRFS 80

Query: 87 EAVERER 93
          + VE   
Sbjct: 81 QLVEELL 87

>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 = 48.2 bits (114), Expect = 2e-08
 Identities = 7/49 (14%), Positives = 21/49 (42%), Gaps = 2/49 (4%)

Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKD 79
          C+I  +      P      +  F    + ++ + +   P+  +P+S+++
Sbjct: 3  CAISGKVPR--RPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEE 49

>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 = 47.9 bits (113), Expect = 8e-08
 Identities = 16/67 (23%), Positives = 26/67 (38%), Gaps = 5/67 (7%)

Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPTSQELL-EAV 89
          CS C       +P  L  C+H F   C+ +       CP+C+ P  ++D      L   +
Sbjct: 25 CSRCTNILR--EPVCLGGCEHIFCSNCVSDCIGT--GCPVCYTPAWIQDLKINRQLDSMI 80

Query: 90 ERERSFR 96
          +     R
Sbjct: 81 QLCSKLR 87

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]} Length = 94

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.6 bits (110), Expect = 2e-07
 Identities = 13/83 (15%), Positives = 34/83 (40%), Gaps = 12/83 (14%)

Query: 28 DDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQ--------CPM--CWQPISL 77
             C +CL ++     +T+  C+  F   C+ ++ +   +        CP   C +   L
Sbjct: 5  SSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHL 64

Query: 78 KDPTSQELL--EAVERERSFRLN 98
          ++   + ++  E ++R +  +  
Sbjct: 65 QENEIECMVAAEIMQRYKKLQFE 87

>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 = 45.4 bits (106), Expect = 7e-07
 Identities = 20/80 (25%), Positives = 27/80 (33%), Gaps = 20/80 (25%)

Query: 23 IQDACDDACSICLEDF---------------SESDPSTLTSCKHEFHLQCILEWCQRSS- 66
          ++ A ++ C IC+E                        LT C H FHL C+L      + 
Sbjct: 20 LKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNK 79

Query: 67 ----QCPMCWQPISLKDPTS 82
              QCP C      K  T 
Sbjct: 80 DGSLQCPSCKTIYGEKTGTQ 99

>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 = 39.1 bits (90), Expect = 6e-05
 Identities = 10/63 (15%), Positives = 20/63 (31%), Gaps = 5/63 (7%)

Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQ-CPMCWQPISLKDPTSQ-ELLEA 88
            I  E         +T     +  + I E  QR     P+   P++ +       + E 
Sbjct: 10 GKISFELM---REPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPNLAMKEV 66

Query: 89 VER 91
          ++ 
Sbjct: 67 IDA 69

>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 = 36.2 bits (83), Expect = 6e-04
 Identities = 12/63 (19%), Positives = 20/63 (31%), Gaps = 5/63 (7%)

Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQ-CPMCWQPISLKDPTS-QELLEA 88
          C I LE     DP  ++     +    I +W     + CP   + +     T    L   
Sbjct: 11 CPISLELMK--DPVIVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNYVLKSL 67

Query: 89 VER 91
          +  
Sbjct: 68 IAL 70

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	386
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.39
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.31
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.22
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.22
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.17
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.17
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.17
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.17
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.16
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.15
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.12
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.09
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.08
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	99.02
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	98.96
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.91
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.18
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	86.16
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	85.92
d1weoa_	93	Cellulose synthase A catalytic subunit 7, IRX3 {Th	83.74
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	83.07
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	82.59

>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=99.39  E-value=7.1e-14  Score=102.24  Aligned_cols=50  Identities=26%  Similarity=0.802  Sum_probs=43.2

Q ss_pred             CCCccccccccccCCCCceec-cCCccccHHHHHHHHhcCCCCCCccccCC
Q 016591           27 CDDACSICLEDFSESDPSTLT-SCKHEFHLQCILEWCQRSSQCPMCWQPIS   76 (386)
Q Consensus        27 ed~~C~ICle~f~~~~pv~ll-~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~   76 (386)
                      ++.+|+||++.|..++.+..+ .|+|.||..||..|++.+..||+||+.+.
T Consensus         4 d~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~   54 (55)
T d1iyma_           4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEeE
Confidence            366799999999776666554 69999999999999999999999999874

>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=99.31  E-value=3.8e-13  Score=101.86  Aligned_cols=47  Identities=38%  Similarity=0.917  Sum_probs=42.1

Q ss_pred             CCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCC
Q 016591           28 DDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPIS   76 (386)
Q Consensus        28 d~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~   76 (386)
                      -+.|+||++.|  .+++++++|+|.||..||..|++.+..||+||.++.
T Consensus         5 ~d~C~IC~~~~--~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~   51 (68)
T d1chca_           5 AERCPICLEDP--SNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCSSCCSCC--CSCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCCCccCCcCc--cCCcEEeCCCCcCcHHHHHHHHHhCCcCCCCCcchH
Confidence            35699999998  567788899999999999999999999999999875

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.22  E-value=4.5e-12  Score=98.72  Aligned_cols=49  Identities=24%  Similarity=0.641  Sum_probs=41.4

Q ss_pred             CCccccccccccCCCCceeccCCccccHHHHHHHHh-cCCCCCCccccCCCCC
Q 016591           28 DDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQ-RSSQCPMCWQPISLKD   79 (386)
Q Consensus        28 d~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq-~s~~CPlCR~~i~~kd   79 (386)
                      ...|+||++.+   ..+++++|||.||..||..|+. +...||+||+.|....
T Consensus        23 ~~~C~IC~~~~---~~~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~   72 (79)
T d1fbva4          23 FQLCKICAEND---KDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE   72 (79)
T ss_dssp             TTBCTTTSSSB---CCEECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCCC
T ss_pred             CCCCccCCCcC---CCeEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCCc
Confidence            45799999998   3467789999999999999997 4578999999997543

>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=99.22  E-value=2.9e-12  Score=96.23  Aligned_cols=54  Identities=22%  Similarity=0.436  Sum_probs=42.7

Q ss_pred             CCCccccccccccC--CCCceeccCCccccHHHHHHHHhc-CCCCCCccccCCCCCC
Q 016591           27 CDDACSICLEDFSE--SDPSTLTSCKHEFHLQCILEWCQR-SSQCPMCWQPISLKDP   80 (386)
Q Consensus        27 ed~~C~ICle~f~~--~~pv~ll~CgH~FC~~CI~~Wlq~-s~~CPlCR~~i~~kd~   80 (386)
                      ++..|+||++.+..  ...+.+++|+|.||..||..|+.. ...||+||+.+...++
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~~~   58 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNF   58 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCCC
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCcccccc
Confidence            47889999997522  233566799999999999999964 5679999999876554

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.17  E-value=6.8e-12  Score=103.07  Aligned_cols=56  Identities=36%  Similarity=0.676  Sum_probs=43.5

Q ss_pred             CCccCCCccccccccccC---------------CCCceeccCCccccHHHHHHHHhc-----CCCCCCccccCCCC
Q 016591           23 IQDACDDACSICLEDFSE---------------SDPSTLTSCKHEFHLQCILEWCQR-----SSQCPMCWQPISLK   78 (386)
Q Consensus        23 iqd~ed~~C~ICle~f~~---------------~~pv~ll~CgH~FC~~CI~~Wlq~-----s~~CPlCR~~i~~k   78 (386)
                      ++...+..|+||++.|..               ...+.+++|+|.||..||..|++.     +..||+||..+..+
T Consensus        20 ~~~~~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T d1v87a_          20 LKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             CSSCCSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             hcccccccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhccC
Confidence            345567789999998742               123567799999999999999974     34799999988654

>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=99.17  E-value=3.1e-12  Score=93.44  Aligned_cols=50  Identities=14%  Similarity=0.269  Sum_probs=43.5

Q ss_pred             CccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCCCCC
Q 016591           29 DACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDP   80 (386)
Q Consensus        29 ~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~kd~   80 (386)
                      +.|+||++.|  .+++....|||.||..||.+|++.+..||+||+++...++
T Consensus         1 l~C~Ic~~~~--~~Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~dL   50 (56)
T d2baya1           1 MLCAISGKVP--RRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEI   50 (56)
T ss_dssp             CCCTTTCSCC--SSEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGC
T ss_pred             CCCccCCchH--HhcCccCCCCCcccHHHHHHHHhhccCCCccCCcCCHHhc
Confidence            4699999999  5666666799999999999999998999999999876654

>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=99.17  E-value=3.2e-12  Score=102.66  Aligned_cols=58  Identities=26%  Similarity=0.600  Sum_probs=48.4

Q ss_pred             CCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCCCCCChHHHHHH
Q 016591           27 CDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPTSQELLEA   88 (386)
Q Consensus        27 ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~kd~~~~~ll~a   88 (386)
                      +++.|+||++.|  .+|+++++|||.||..||..|+..  .||.||..+...++..+..++.
T Consensus        21 ~~l~C~IC~~~~--~~pv~~~~CgH~fC~~Ci~~~~~~--~CP~Cr~~~~~~~l~~n~~l~~   78 (97)
T d1jm7b_          21 KLLRCSRCTNIL--REPVCLGGCEHIFCSNCVSDCIGT--GCPVCYTPAWIQDLKINRQLDS   78 (97)
T ss_dssp             HTTSCSSSCSCC--SSCBCCCSSSCCBCTTTGGGGTTT--BCSSSCCBCSCSSCCCCHHHHH
T ss_pred             hcCCCccCCchh--hcCceeCCCCCchhHHHHHHHHhc--cccccCCcCchhhCcccHHHHH
Confidence            467899999999  677777799999999999999853  5999999998887777655533

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.17  E-value=6.8e-12  Score=99.36  Aligned_cols=53  Identities=25%  Similarity=0.633  Sum_probs=43.1

Q ss_pred             cCCCccccccccccCCC---------------CceeccCCccccHHHHHHHHhcCCCCCCccccCCCC
Q 016591           26 ACDDACSICLEDFSESD---------------PSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLK   78 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~---------------pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~k   78 (386)
                      ..++.|+||++.+....               .+.+++|+|.||..||..|++.+.+||+||+++.++
T Consensus        19 ~~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~   86 (88)
T d3dplr1          19 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEFQ   86 (88)
T ss_dssp             SCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCCEE
T ss_pred             CCCCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCCCCCCccccc
Confidence            34566999998873321               356779999999999999999999999999998653

>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=99.16  E-value=3.1e-12  Score=103.84  Aligned_cols=52  Identities=35%  Similarity=0.703  Sum_probs=42.5

Q ss_pred             CCCccccccccccCCCCceeccCCccccHHHHHHHHhcC---CCCCCccccCCCCCCC
Q 016591           27 CDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRS---SQCPMCWQPISLKDPT   81 (386)
Q Consensus        27 ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s---~~CPlCR~~i~~kd~~   81 (386)
                      ..+.|+||++.|  .+|++ ++|||.||..||..|+...   ..||+||..+...++.
T Consensus        20 ~~l~CpIC~~~~--~~pv~-~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~l~   74 (103)
T d1jm7a_          20 KILECPICLELI--KEPVS-TKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQ   74 (103)
T ss_dssp             HHTSCSSSCCCC--SSCCB-CTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTCB
T ss_pred             cCcCCCccCchh--CCeEE-cCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCChhhCC
Confidence            367899999999  55555 5899999999999999754   4799999998765543

>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=99.15  E-value=6.3e-12  Score=90.45  Aligned_cols=49  Identities=20%  Similarity=0.460  Sum_probs=40.1

Q ss_pred             CccccccccccCCCC-ceeccCCccccHHHHHHHHhc-CCCCCCccccCCC
Q 016591           29 DACSICLEDFSESDP-STLTSCKHEFHLQCILEWCQR-SSQCPMCWQPISL   77 (386)
Q Consensus        29 ~~C~ICle~f~~~~p-v~ll~CgH~FC~~CI~~Wlq~-s~~CPlCR~~i~~   77 (386)
                      .+|+||++.|...+. +.+++|+|.||..||..|++. +..||+||++|..
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            369999999854433 456689999999999999985 5579999999864

>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=99.12  E-value=1.1e-11  Score=98.50  Aligned_cols=51  Identities=37%  Similarity=0.612  Sum_probs=42.4

Q ss_pred             CCCccccccccccCCCCceeccCCccccHHHHHHHHh-cCCCCCCccccCCCCCC
Q 016591           27 CDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQ-RSSQCPMCWQPISLKDP   80 (386)
Q Consensus        27 ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq-~s~~CPlCR~~i~~kd~   80 (386)
                      +++.|+||++.|  .+ +++++|||.||..||..|++ +...||+||.++...++
T Consensus        22 ~~l~C~IC~~~~--~~-pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~l   73 (86)
T d1rmda2          22 KSISCQICEHIL--AD-PVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDL   73 (86)
T ss_dssp             HHTBCTTTCSBC--SS-EEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGC
T ss_pred             cCcCCccCCcch--hc-ceecCCCChhhHHHHHHHHhhCCCcCcccCCCCChhhc
Confidence            457899999999  44 45669999999999999997 45689999999876654

>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=99.09  E-value=3.5e-11  Score=92.73  Aligned_cols=59  Identities=22%  Similarity=0.383  Sum_probs=48.6

Q ss_pred             cCCCccccccccccCCCCceeccCCccccHHHHHHHHhc-CCCCCCccccCCCCCCChHHHHH
Q 016591           26 ACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQR-SSQCPMCWQPISLKDPTSQELLE   87 (386)
Q Consensus        26 ~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~-s~~CPlCR~~i~~kd~~~~~ll~   87 (386)
                      .+++.|+||++.|  .+|+ +++|||.||..||..|+.. ...||.|+..+...++.++..+.
T Consensus         6 P~~l~CpIc~~~m--~dPV-~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~~l~pN~~L~   65 (78)
T d1t1ha_           6 PEYFRCPISLELM--KDPV-IVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNYVLK   65 (78)
T ss_dssp             SSSSSCTTTSCCC--SSEE-EETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCEECTTTH
T ss_pred             CccCCCcCcCchh--hCce-EccCCCcchHHHHHHHHHHCCCCCCcccccCCcccccchHHHH
Confidence            3589999999999  5565 5599999999999999975 46799999999887776655543

>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=99.08  E-value=2.9e-11  Score=93.75  Aligned_cols=60  Identities=17%  Similarity=0.171  Sum_probs=49.5

Q ss_pred             CCCccccccccccCCCCceeccCCccccHHHHHHHHh-cCCCCCCccccCCCCCCChHHHHHHH
Q 016591           27 CDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQ-RSSQCPMCWQPISLKDPTSQELLEAV   89 (386)
Q Consensus        27 ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq-~s~~CPlCR~~i~~kd~~~~~ll~av   89 (386)
                      +++.|+||++.|  .+|+ +++|||.||..||..|+. ....||+|+..+...++.++..+...
T Consensus         6 ~~l~CpIc~~l~--~dPv-~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~~l~pN~~L~~~   66 (80)
T d2c2la2           6 DYLCGKISFELM--REPC-ITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPNLAMKEV   66 (80)
T ss_dssp             STTBCTTTCSBC--SSEE-ECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCEECHHHHHH
T ss_pred             ccccCcCcCchh--hhhc-ccCCcCeecHHHHHHHHhcCCccCCCccccccccccccHHHHHHH
Confidence            588999999999  5554 569999999999999997 45689999999987777776666443

>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=99.02  E-value=1.5e-10  Score=93.38  Aligned_cols=58  Identities=14%  Similarity=0.121  Sum_probs=49.0

Q ss_pred             CCCccccccccccCCCCceeccCC-ccccHHHHHHHHhcCCCCCCccccCCCCCCChHHHHH
Q 016591           27 CDDACSICLEDFSESDPSTLTSCK-HEFHLQCILEWCQRSSQCPMCWQPISLKDPTSQELLE   87 (386)
Q Consensus        27 ed~~C~ICle~f~~~~pv~ll~Cg-H~FC~~CI~~Wlq~s~~CPlCR~~i~~kd~~~~~ll~   87 (386)
                      +++.|+||++.|  .+|+++ +|+ |.||..||..|+..+..||+|++++...++.++..+.
T Consensus        21 ~~f~CPI~~~lm--~dPV~~-~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~~L~pN~~Lr   79 (98)
T d1wgma_          21 DEFLDPIMSTLM--CDPVVL-PSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIRPNTELK   79 (98)
T ss_dssp             TTTBCTTTCSBC--SSEEEC-TTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTSEECHHHH
T ss_pred             HHhCCcCchhHH--HHHHhc-ccccchhhHHHHHHHHHhcCCcccccccccchhhcchHHHH
Confidence            479999999999  556555 655 6899999999999999999999999988888776663

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.96  E-value=4.9e-11  Score=87.26  Aligned_cols=46  Identities=26%  Similarity=0.517  Sum_probs=37.8

Q ss_pred             CCCccccccccccCCCCceeccCCccccHHHHHHHHhcCCCCCCccccCCCC
Q 016591           27 CDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLK   78 (386)
Q Consensus        27 ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~s~~CPlCR~~i~~k   78 (386)
                      +.+.|+||++.|  .+ +++++|+|.||..||..|   ...||+||+.+...
T Consensus         5 ~~l~C~IC~~~~--~~-p~~lpCgH~fC~~Ci~~~---~~~CP~Cr~~~~~~   50 (56)
T d1bora_           5 QFLRCQQCQAEA--KC-PKLLPCLHTLCSGCLEAS---GMQCPICQAPWPLG   50 (56)
T ss_dssp             CCSSCSSSCSSC--BC-CSCSTTSCCSBTTTCSSS---SSSCSSCCSSSSCC
T ss_pred             CCCCCcccCccc--CC-CEEecCCCHHhHHHHHcC---CCcCcCCCCcccCC
Confidence            446899999998  34 455699999999999765   56799999999754

>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=98.91  E-value=3.7e-10  Score=82.89  Aligned_cols=55  Identities=22%  Similarity=0.498  Sum_probs=40.9

Q ss_pred             CCccCCCccccccccccCCC--CceeccCCccccHHHHHHHHh--cCCCCCCccccCCC
Q 016591           23 IQDACDDACSICLEDFSESD--PSTLTSCKHEFHLQCILEWCQ--RSSQCPMCWQPISL   77 (386)
Q Consensus        23 iqd~ed~~C~ICle~f~~~~--pv~ll~CgH~FC~~CI~~Wlq--~s~~CPlCR~~i~~   77 (386)
                      ++|+++..|.||++.+....  +.....|+|.||..||..|+.  .+..||+||+.|..
T Consensus         1 ~eded~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~~   59 (60)
T d1vyxa_           1 MEDEDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             CTTCSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeeec
Confidence            35777889999999873221  112223569999999999995  45689999999864

>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=98.18  E-value=2e-07  Score=73.17  Aligned_cols=46  Identities=20%  Similarity=0.576  Sum_probs=35.7

Q ss_pred             CCccccccccccCCCCceeccCCccccHHHHHHHHhc-----C---CCCCCccc
Q 016591           28 DDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQR-----S---SQCPMCWQ   73 (386)
Q Consensus        28 d~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~-----s---~~CPlCR~   73 (386)
                      ...|+||++.+...+.+.++.|+|.||..||..|+..     .   ..||.|.-
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            4569999999855555667789999999999999952     1   25998643

>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=86.16  E-value=0.35  Score=35.73  Aligned_cols=35  Identities=29%  Similarity=0.612  Sum_probs=26.0

Q ss_pred             CCCccccccccccCCCCceeccC----CccccHHHHHHHHhc
Q 016591           27 CDDACSICLEDFSESDPSTLTSC----KHEFHLQCILEWCQR   64 (386)
Q Consensus        27 ed~~C~ICle~f~~~~pv~ll~C----gH~FC~~CI~~Wlq~   64 (386)
                      ..+.|.||.+-+.  +...+ .|    .|.||+.|-+..++.
T Consensus         7 ~~l~CtlC~erLE--dtHFV-QCPsv~~HkFCFpCsr~sik~   45 (80)
T d2cs3a1           7 GPLCCTICHERLE--DTHFV-QCPSVPSHKFCFPCSRESIKA   45 (80)
T ss_dssp             CSCCCSSSCSCCS--STTSE-ECSSCSSCEECHHHHHHHHHH
T ss_pred             Cceeeeeehhhhc--CCceE-eCCCCcCCceeccccHHHHHh
Confidence            4578999999983  33222 34    799999999998853

>d1fp0a1 g.50.1.2 (A:19-88) Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Nuclear corepressor KAP-1 (TIF-1beta)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.92  E-value=0.16  Score=36.76  Aligned_cols=49  Identities=27%  Similarity=0.564  Sum_probs=34.2

Q ss_pred             ccCCCccccccccccCCCCceeccCCccccHHHHHHHHhc----CCCCCCccccCC
Q 016591           25 DACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQR----SSQCPMCWQPIS   76 (386)
Q Consensus        25 d~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~----s~~CPlCR~~i~   76 (386)
                      |+....|.||.+.   ++-+..-.|...||..|+...+..    .-.||.|+....
T Consensus         4 Dd~c~~C~~C~~~---~~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~~   56 (70)
T d1fp0a1           4 DDSATICRVCQKP---GDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLPD   56 (70)
T ss_dssp             SSSSSCCSSSCSS---SCCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCCS
T ss_pred             CCCCCCCCCCCCc---CEEEECCCCChhhccccCCCCcCcCCCCCEECcCCcCcCc
Confidence            3456678888754   344555579999999999877643    346999965443

>d1weoa_ g.44.1.1 (A:) Cellulose synthase A catalytic subunit 7, IRX3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Cellulose synthase A catalytic subunit 7, IRX3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=83.74  E-value=0.89  Score=34.59  Aligned_cols=54  Identities=19%  Similarity=0.420  Sum_probs=38.2

Q ss_pred             CCccCCCccccccccccCC---CC-ceeccCCccccHHHHH-HHHhcCCCCCCccccCC
Q 016591           23 IQDACDDACSICLEDFSES---DP-STLTSCKHEFHLQCIL-EWCQRSSQCPMCWQPIS   76 (386)
Q Consensus        23 iqd~ed~~C~ICle~f~~~---~p-v~ll~CgH~FC~~CI~-~Wlq~s~~CPlCR~~i~   76 (386)
                      ++......|.||-+.+...   ++ +..-.|+--.|..|.. ++...++.||.|+..+.
T Consensus        11 ~~~~~~q~CqiCGd~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCkt~Yk   69 (93)
T d1weoa_          11 LKNLDGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYK   69 (93)
T ss_dssp             CSCCSSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCC
T ss_pred             hhhcccchhhhcccccccCCCCCEEEEecccCCccchHHHHHHHhccCccCcccCChhh
Confidence            3444567799999987322   22 2344688889999987 33457889999988775

>d1f62a_ g.50.1.2 (A:) Williams-Beuren syndrome transcription factor, WSTF {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Williams-Beuren syndrome transcription factor, WSTF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.07  E-value=0.28  Score=32.98  Aligned_cols=44  Identities=25%  Similarity=0.578  Sum_probs=30.0

Q ss_pred             ccccccccccCCCCceeccCCccccHHHHHHHHhc----CCCCCCccc
Q 016591           30 ACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQR----SSQCPMCWQ   73 (386)
Q Consensus        30 ~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~----s~~CPlCR~   73 (386)
                      .|.||...-..+.-+..-.|...||..|+..-+..    .-.||.|+.
T Consensus         2 ~C~vC~~~~~~~~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCCCCCEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            48888765422233444479999999999876543    236999975

>d1mm2a_ g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Mi2-beta (CHD4)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.59  E-value=0.11  Score=36.56  Aligned_cols=48  Identities=21%  Similarity=0.566  Sum_probs=34.0

Q ss_pred             CccCCCccccccccccCCCCceeccCCccccHHHHHHHHhc----CCCCCCcccc
Q 016591           24 QDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQR----SSQCPMCWQP   74 (386)
Q Consensus        24 qd~ed~~C~ICle~f~~~~pv~ll~CgH~FC~~CI~~Wlq~----s~~CPlCR~~   74 (386)
                      .|..+..|.||.+.   ++-+..-.|.-.||..|+...+..    ...||.|+..
T Consensus         5 ~d~~~~~C~~C~~~---g~lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~   56 (61)
T d1mm2a_           5 SDHHMEFCRVCKDG---GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCP   56 (61)
T ss_dssp             SCSSCSSCTTTCCC---SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTT
T ss_pred             ccCCcCCCcCCCCC---CeEEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCc
Confidence            45567789999864   344555579999999998755532    3479999643