Citrus Sinensis ID: 027010

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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-------23
Protein Sequence
MASSFGESTSRSAQNPYSNNNSNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGRGKSSTDPRSKSIPGVNIPNRPTGQRPETAPPPEPSHFQHQHGFGFMGGLGGFAPMAAARFGNFTLSAAFGGLIPPLFNLQVHGFPDPTMYGPAASFPYGFTNSFHGGHAHGYPQHTGQGQQDYYLKRLLLFIGFCVLLVLIWQ
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccccEEccccccccHHHHHHHHccccccccccccccccccccEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccccccEEEEEEHccccccEEEcccccccHHHHHHHHHccccccccccEEEEEccccEEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Coil and Loop (DISEMBL)
massfgestsrsaqnpysnnnsnseagnfecnicfdlaqdpivtlcghlfcwpclykwlhghsnyrecpvckatieeeklvplygrgksstdprsksipgvnipnrptgqrpetapppepshfqhqhgfgfmgglggfapmaaarfgNFTLsaafgglipplfnlqvhgfpdptmygpaasfpygftnsfhgghahgypqhtgqgqqDYYLKRLLLFIGFCVLLVLIWQ
Flexible Loop (DISEMBL)
massfgestsrsaqnpysnnnsnSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIeeeklvplygrgksstdprsksipgvnipnrptGQRPETAPPPEPSHFQHQHGFGFMGGLGGFAPMAAARFGNFTLSAAFGGLIPPLFNLQVHGFPDPTMYGPAASFPYGFTNSFHGGHAHGYPQHTGQGQQDYYLKRLLLFIGFCVLLVLIWQ
Low Complexity Region (SEG)
MASSFGESTSRSAQNPYSNNNSNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGRGKSSTDPRSKSIPGVNIPNRPTGQRPETAPPPEPSHfqhqhgfgfmgglggfapmaaaRFGNFTLSAAFGGLIPPLFNLQVHGFPDPTMYGPAASFPYGFTNSFHGGHAHGYPQHTGQGQQDYYLKRLLLFIGFCVLLVLIWQ
Disordered region (IsUnstruct)
***************************NFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLY*****************************************QHGFGFMGGLGGFAPMAAARFGNFTLSAAFGGLIPPLFNLQVHGFPDPTMYGPAASFPYGFTNSFHGGHAHGYPQHTGQGQQDYYLKRLLLFIGFCVLLVLIW*
Disordered Region (DISOPRED)
*******************************NICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYG******************************************GFGFMGGLGGFAPMAAARFGNFTLSAAFGGLIPPLFNLQVHGFPDPTMYGPAASFPYGFT************************KRLLLFIGFCVLLVLIWQ
Disordered Region (DISEMBL)
**********************NSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGR*********KSIPGVNIPNRP***************FQHQHGFGFMGGLGGFAPMAAARFGNFTLSAAFGGLIPPLFNLQVHGFPDPTMYGPAASFPYGFTNSFHGGHAHGYPQHTGQGQQDYYLKRLLLFIGFCVLLVLIWQ
Disordered Region (DISPRO)
*************************AGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGRG**********************************HFQHQHGFGFMGGLGGFAPMAAARFGNFTLSAAFGGLIPPLFNLQVHGFPDPTMYGPAASFPYGFTNSFHGGHAHGYPQHTGQGQQDYYLKRLLLFIGFCVLLVLIWQ
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHi
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHoo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHi
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MASSFGESTSRSAQNPYSNNNSNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGRGKSSTDPRSKSIPGVNIPNRPTGQRPETAPPPEPSHFQHQHGFGFMGGLGGFAPMAAARFGNFTLSAAFGGLIPPLFNLQVHGFPDPTMYGPAASFPYGFTNSFHGGHAHGYPQHTGQGQQDYYLKRLLLFIGFCVLLVLIWQ
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	229	2.2.26 [Sep-21-2011]
Q09463	235	RING finger protein 5 OS=	yes	no	0.458	0.446	0.5	3e-27
O64425	249	E3 ubiquitin-protein liga	no	no	0.868	0.799	0.298	2e-26
Q91YT2	192	E3 ubiquitin-protein liga	yes	no	0.458	0.546	0.487	7e-26
Q5ZIR9	194	E3 ubiquitin-protein liga	yes	no	0.388	0.458	0.525	1e-24
Q568Y3	192	E3 ubiquitin-protein liga	yes	no	0.379	0.453	0.531	1e-24
Q96GF1	192	E3 ubiquitin-protein liga	yes	no	0.379	0.453	0.531	1e-24
Q5RFK9	192	E3 ubiquitin-protein liga	yes	no	0.379	0.453	0.531	2e-24
Q6PC78	194	E3 ubiquitin-protein liga	no	no	0.659	0.778	0.374	5e-24
Q5M807	180	E3 ubiquitin-protein liga	no	no	0.497	0.633	0.454	1e-23
O35445	180	E3 ubiquitin-protein liga	no	no	0.497	0.633	0.454	1e-23

>sp|Q09463|RNF5_CAEEL RING finger protein 5 OS=Caenorhabditis elegans GN=rnf-5 PE=1 SV=1

 Score =  121 bits (304), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 57/114 (50%), Positives = 75/114 (65%), Gaps = 9/114 (7%)

Query: 6   GESTSRSAQNPYSNNNSNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNY 65
              T   ++ P S++N + E+  FECNIC D A+D +V+LCGHLFCWPCL +WL    N 
Sbjct: 2   ASETKAPSEEPTSSSNKD-ESARFECNICLDAAKDAVVSLCGHLFCWPCLSQWLDTRPNN 60

Query: 66  RECPVCKATIEEEKLVPLYGRGKSSTDPRSKSIPGVNIPNRPTGQRPETAPPPE 119
           + CPVCK+ I+  K+VP+YGRG  S+DPR K      +P RP GQR E  PPP+
Sbjct: 61  QVCPVCKSAIDGNKVVPIYGRGGDSSDPRKK------VPPRPKGQRSE--PPPQ 106

Caenorhabditis elegans (taxid: 6239)

>sp|O64425|RMA1_ARATH E3 ubiquitin-protein ligase RMA1 OS=Arabidopsis thaliana GN=RMA1 PE=1 SV=1

 Score =  119 bits (298), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 65/218 (29%), Positives = 105/218 (48%), Gaps = 19/218 (8%)

Query: 21  NSNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHS--------NYRECPVCK 72
           + +++  NF+CNIC D  Q+P+VTLCGHLFCWPC++KWL   S         +R+CPVCK
Sbjct: 38  SDDTDDSNFDCNICLDSVQEPVVTLCGHLFCWPCIHKWLDVQSFSTSDEYQRHRQCPVCK 97

Query: 73  ATIEEEKLVPLYGRGKSSTDPRSKSIPGVNIPNRPTGQRPETAPPPEP---SHFQHQHGF 129
           + +    LVPLYGRG+ +T    K+    ++P RP G       P  P   +  +     
Sbjct: 98  SKVSHSTLVPLYGRGRCTTQEEGKN----SVPKRPVGPVYRLEMPNSPYASTDLRLSQRV 153

Query: 130 GFMGGLGGFAPMAAARFGNFTLSAAFGGLIPPLFNLQVHGFPDPTMYGPAASFPYGFTNS 189
            F     G+ P++     N   S ++  ++ P+  + V       ++G      + + ++
Sbjct: 154 HFNSPQEGYYPVSGVMSSN---SLSYSAVLDPVM-VMVGEMVATRLFGTRVMDRFAYPDT 209

Query: 190 FHGGHAHGYPQHTGQGQQDYYLKRLLLFIGFCVLLVLI 227
           ++     G        Q D  L R+  F   CV+L L+
Sbjct: 210 YNLAGTSGPRMRRRIMQADKSLGRIFFFFMCCVVLCLL 247

E3 ubiquitin-protein ligase that promotes the ubiquitination and proteasomal degradation of aquaporin PIP2-1. Forms a ubiquitin ligase complex in cooperation with the E2 enzymes UCB8/UCB10.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q91YT2|RN185_MOUSE E3 ubiquitin-protein ligase RNF185 OS=Mus musculus GN=Rnf185 PE=2 SV=1

 Score =  117 bits (293), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 59/121 (48%), Positives = 76/121 (62%), Gaps = 16/121 (13%)

Query: 3   SSFGESTSRSAQN-----PYSNNNSNSEAG----NFECNICFDLAQDPIVTLCGHLFCWP 53
           +S G S S S +N     P  ++N   E+G     FECNIC D A+D +++LCGHLFCWP
Sbjct: 2   ASKGPSASASTENSNAGGPSGSSNGTGESGGQDSTFECNICLDTAKDAVISLCGHLFCWP 61

Query: 54  CLYKWLHGHSNYRECPVCKATIEEEKLVPLYGRGKS-STDPRSKSIPGVNIPNRPTGQRP 112
           CL++WL    N + CPVCKA I  +K++PLYGRG +   DPR K+      P RP GQRP
Sbjct: 62  CLHQWLETRPNRQVCPVCKAGISRDKVIPLYGRGSTGQQDPREKT------PPRPQGQRP 115

Query: 113 E 113
           E
Sbjct: 116 E 116

Mitochondrial E3 ubiquitin-protein ligase that regulates selective mitochondrial autophagy by mediating 'Lys-63'-linked polyubiquitination of BNIP1.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q5ZIR9|RN185_CHICK E3 ubiquitin-protein ligase RNF185 OS=Gallus gallus GN=RNF185 PE=2 SV=1

 Score =  113 bits (282), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 51/97 (52%), Positives = 67/97 (69%), Gaps = 8/97 (8%)

Query: 18  SNNNSNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEE 77
           + +N+N +   FECNIC D A+D +++LCGHLFCWPCL++WL    N + CPVCKA I  
Sbjct: 29  AGDNTNQD-NTFECNICLDTAKDAVISLCGHLFCWPCLHQWLETRPNRQVCPVCKAGISR 87

Query: 78  EKLVPLYGRGKS-STDPRSKSIPGVNIPNRPTGQRPE 113
           +K++PLYGRG +   DPR K+      P RP GQRPE
Sbjct: 88  DKVIPLYGRGSTGQQDPREKT------PPRPQGQRPE 118

Mitochondrial E3 ubiquitin-protein ligase that regulates selective mitochondrial autophagy by mediating 'Lys-63'-linked polyubiquitination.

Gallus gallus (taxid: 9031)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q568Y3|RN185_RAT E3 ubiquitin-protein ligase RNF185 OS=Rattus norvegicus GN=Rnf185 PE=2 SV=1

 Score =  113 bits (282), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 50/94 (53%), Positives = 63/94 (67%), Gaps = 7/94 (7%)

Query: 21  NSNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKL 80
            S  +   FECNIC D A+D +++LCGHLFCWPCL++WL    N + CPVCKA I  +K+
Sbjct: 29  ESGGQDSTFECNICLDTAKDAVISLCGHLFCWPCLHQWLETRPNRQVCPVCKAGISRDKV 88

Query: 81  VPLYGRGKS-STDPRSKSIPGVNIPNRPTGQRPE 113
           +PLYGRG +   DPR K+      P RP GQRPE
Sbjct: 89  IPLYGRGSTGQQDPREKT------PPRPQGQRPE 116

Mitochondrial E3 ubiquitin-protein ligase that regulates selective mitochondrial autophagy by mediating 'Lys-63'-linked polyubiquitination of BNIP1.

Rattus norvegicus (taxid: 10116)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q96GF1|RN185_HUMAN E3 ubiquitin-protein ligase RNF185 OS=Homo sapiens GN=RNF185 PE=1 SV=1

 Score =  112 bits (281), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 50/94 (53%), Positives = 63/94 (67%), Gaps = 7/94 (7%)

Query: 21  NSNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKL 80
            S  +   FECNIC D A+D +++LCGHLFCWPCL++WL    N + CPVCKA I  +K+
Sbjct: 29  ESGGQDSTFECNICLDTAKDAVISLCGHLFCWPCLHQWLETRPNRQVCPVCKAGISRDKV 88

Query: 81  VPLYGRGKS-STDPRSKSIPGVNIPNRPTGQRPE 113
           +PLYGRG +   DPR K+      P RP GQRPE
Sbjct: 89  IPLYGRGSTGQQDPREKT------PPRPQGQRPE 116

Mitochondrial E3 ubiquitin-protein ligase that regulates selective mitochondrial autophagy by mediating 'Lys-63'-linked polyubiquitination of BNIP1.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q5RFK9|RN185_PONAB E3 ubiquitin-protein ligase RNF185 OS=Pongo abelii GN=RNF185 PE=2 SV=1

 Score =  112 bits (280), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 50/94 (53%), Positives = 63/94 (67%), Gaps = 7/94 (7%)

Query: 21  NSNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKL 80
            S  +   FECNIC D A+D +++LCGHLFCWPCL++WL    N + CPVCKA I  +K+
Sbjct: 29  ESGGQDSTFECNICLDTAKDAVISLCGHLFCWPCLHQWLETRPNRQVCPVCKAGISRDKV 88

Query: 81  VPLYGRGKS-STDPRSKSIPGVNIPNRPTGQRPE 113
           +PLYGRG +   DPR K+      P RP GQRPE
Sbjct: 89  IPLYGRGSTGQQDPREKT------PPRPQGQRPE 116

Mitochondrial E3 ubiquitin-protein ligase that regulates selective mitochondrial autophagy by mediating 'Lys-63'-linked polyubiquitination of BNIP1.

Pongo abelii (taxid: 9601)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q6PC78|RN185_DANRE E3 ubiquitin-protein ligase RNF185 OS=Danio rerio GN=rnf185 PE=2 SV=1

 Score =  111 bits (277), Expect = 5e-24,   Method: Compositional matrix adjust.
 Identities = 76/203 (37%), Positives = 97/203 (47%), Gaps = 52/203 (25%)

Query: 28  NFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGRG 87
            FECNIC D ++D +++LCGHLFCWPCL++WL    N + CPVCKA I  +K++PLYGRG
Sbjct: 38  TFECNICLDTSKDAVISLCGHLFCWPCLHQWLETRPNRQVCPVCKAGISRDKVIPLYGRG 97

Query: 88  KS-STDPRSKSIPGVNIPNRPTGQRPETAPPPEPSHFQHQHGFGFMG-GLGGFAPMAAAR 145
            +   DPR K+      P RP GQRPE         F    G   M  G+G F       
Sbjct: 98  STGQQDPREKT------PPRPQGQRPEPENRGGFQGFGFGDGGFQMSFGIGAFP------ 145

Query: 146 FGNFTLSAAFGGLIPPLFNLQVHGFPDPTMYGPAASFPYGFTNSFHGGHAHGYPQHTGQG 205
           FG F  +          FN+   G P P                     A G PQHT   
Sbjct: 146 FGIFATA----------FNIN-DGRPPPA--------------------APGTPQHT--- 171

Query: 206 QQDYYLKRLLLFIGFCVLLVLIW 228
             + +L RL LF+    LL++ W
Sbjct: 172 -DEQFLSRLFLFVA---LLIMFW 190

Mitochondrial E3 ubiquitin-protein ligase that regulates selective mitochondrial autophagy by mediating 'Lys-63'-linked polyubiquitination.

Danio rerio (taxid: 7955)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q5M807|RNF5_RAT E3 ubiquitin-protein ligase RNF5 OS=Rattus norvegicus GN=Rnf5 PE=2 SV=1

 Score =  109 bits (273), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 55/121 (45%), Positives = 71/121 (58%), Gaps = 7/121 (5%)

Query: 19  NNNSNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEE 78
           N      +  FECNIC + A++ +V++CGHL+CWPCL++WL    + +ECPVCKA I  E
Sbjct: 15  NRERGGASATFECNICLETAREAVVSVCGHLYCWPCLHQWLETRPDRQECPVCKAGISRE 74

Query: 79  KLVPLYGRG-KSSTDPRSKSIPGVNIPNRPTGQRPETAPPPEPSHFQHQHGFGFMGGLGG 137
           K+VPLYGRG +   DPR K+      P RP GQRP          F    GF F  G+G 
Sbjct: 75  KVVPLYGRGSQKPQDPRLKT------PPRPQGQRPAPESRGGFQPFGDAGGFHFSFGVGA 128

Query: 138 F 138
           F
Sbjct: 129 F 129

Has E2-dependent E3 ubiquitin-protein ligase activity. May function together with E2 ubiquitin-conjugating enzymes UBE2D1/UBCH5A and UBE2D2/UBC4. Mediates ubiquitination of PXN/paxillin. May be involved in regulation of cell motility and localization of PXN/paxillin. Mediates the 'Lys-63'-linked polyubiquitination of JKAMP thereby regulating JKAMP function by decreasing its association with components of the proteasome and ERAD; the ubiquitination appears to involve E2 ubiquitin-conjugating enzyme UBE2N. Mediates the 'Lys-48'-linked polyubiquitination of TMEM173 at 'Lys-150' leading to its proteasomal degradation; the ubiquitination occurrs in mitochondria after viral transfection and regulates antiviral responses.

Rattus norvegicus (taxid: 10116)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|O35445|RNF5_MOUSE E3 ubiquitin-protein ligase RNF5 OS=Mus musculus GN=Rnf5 PE=1 SV=1

 Score =  109 bits (273), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 55/121 (45%), Positives = 71/121 (58%), Gaps = 7/121 (5%)

Query: 19  NNNSNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEE 78
           N      +  FECNIC + A++ +V++CGHL+CWPCL++WL    + +ECPVCKA I  E
Sbjct: 15  NRERGGASATFECNICLETAREAVVSVCGHLYCWPCLHQWLETRPDRQECPVCKAGISRE 74

Query: 79  KLVPLYGRG-KSSTDPRSKSIPGVNIPNRPTGQRPETAPPPEPSHFQHQHGFGFMGGLGG 137
           K+VPLYGRG +   DPR K+      P RP GQRP          F    GF F  G+G 
Sbjct: 75  KVVPLYGRGSQKPQDPRLKT------PPRPQGQRPAPESRGGFQPFGDAGGFHFSFGVGA 128

Query: 138 F 138
           F
Sbjct: 129 F 129

Has E2-dependent E3 ubiquitin-protein ligase activity. May function together with E2 ubiquitin-conjugating enzymes UBE2D1/UBCH5A and UBE2D2/UBC4. Mediates ubiquitination of PXN/paxillin. May be involved in regulation of cell motility and localization of PXN/paxillin. Mediates the 'Lys-63'-linked polyubiquitination of JKAMP thereby regulating JKAMP function by decreasing its association with components of the proteasome and ERAD; the ubiquitination appears to involve E2 ubiquitin-conjugating enzyme UBE2N. Mediates the 'Lys-48'-linked polyubiquitination of TMEM173 at 'Lys-150 'leading to its proteasomal degradation; the ubiquitination occurrs in mitochondria after viral transfection and regulates antiviral responses.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	229
224067343	227	predicted protein [Populus trichocarpa]	0.986	0.995	0.839	1e-97
224136590	228	predicted protein [Populus trichocarpa]	0.991	0.995	0.808	2e-95
255538544	229	rnf5, putative [Ricinus communis] gi|223	0.991	0.991	0.852	4e-92
147851991	232	hypothetical protein VITISV_043720 [Viti	0.991	0.978	0.801	9e-91
388492344	228	unknown [Lotus japonicus] gi|388493550|g	0.995	1.0	0.790	3e-90
356519062	231	PREDICTED: E3 ubiquitin-protein ligase R	0.995	0.987	0.775	3e-88
255632464	231	unknown [Glycine max]	0.995	0.987	0.771	3e-87
388548524	236	C3HC4 transcription factor [Gossypium hi	0.995	0.966	0.738	1e-84
449470015	230	PREDICTED: RING finger protein 5-like [C	0.995	0.991	0.744	1e-82
356510276	231	PREDICTED: E3 ubiquitin-protein ligase R	0.995	0.987	0.767	7e-77

>gi|224067343|ref|XP_002302470.1| predicted protein [Populus trichocarpa] gi|222844196|gb|EEE81743.1| predicted protein [Populus trichocarpa]

 Score =  361 bits (926), Expect = 1e-97,   Method: Compositional matrix adjust.
 Identities = 193/230 (83%), Positives = 202/230 (87%), Gaps = 4/230 (1%)

Query: 1   MASSFGESTSRSAQNP-YSNNNSNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWL 59
           MAS FGESTSR+  N  +++NN N +AGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWL
Sbjct: 1   MASGFGESTSRAPHNSSFTSNNGNGDAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWL 60

Query: 60  HGHSNYRECPVCKATIEEEKLVPLYGRGKSSTDPRSKSIPGVNIPNRPTGQRPETAPPPE 119
           H HS  RECPVCKA +EEEKLVPLYGRGK+STDPRSKSIPGVNIPNRP GQRPETAPPPE
Sbjct: 61  HFHSKSRECPVCKALVEEEKLVPLYGRGKTSTDPRSKSIPGVNIPNRPAGQRPETAPPPE 120

Query: 120 PSHFQHQHGFGFMGGLGGFAPMAAARFGNFTLSAAFGGLIPPLFNLQVHGFPDPTMYGPA 179
           P+HF  QHGFGFMGGLGGFAPMA AR GNFT SAAFGGLIP LFNLQVHGFPD  MYGPA
Sbjct: 121 PNHFG-QHGFGFMGGLGGFAPMATARLGNFTFSAAFGGLIPSLFNLQVHGFPDAAMYGPA 179

Query: 180 ASFPYGFTNSFHGGHAHGYPQHTGQGQQDYYLKRLLLFIGFCVLLVLIWQ 229
             +PYGF NSFHGGH HGY QH GQGQQDYYLKRLLLFIGFCV L LIWQ
Sbjct: 180 G-YPYGF-NSFHGGHPHGYRQHHGQGQQDYYLKRLLLFIGFCVFLALIWQ 227

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224136590|ref|XP_002326898.1| predicted protein [Populus trichocarpa] gi|222835213|gb|EEE73648.1| predicted protein [Populus trichocarpa]

 Score =  353 bits (907), Expect = 2e-95,   Method: Compositional matrix adjust.
 Identities = 186/230 (80%), Positives = 199/230 (86%), Gaps = 3/230 (1%)

Query: 1   MASSFGESTSRSAQNP-YSNNNSNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWL 59
           M S FGESTS   QNP ++++N N +AG+FECNICFDLAQDPIVTLCGHLFCWPCLYKWL
Sbjct: 1   MGSGFGESTSGVPQNPSFTSSNGNGDAGDFECNICFDLAQDPIVTLCGHLFCWPCLYKWL 60

Query: 60  HGHSNYRECPVCKATIEEEKLVPLYGRGKSSTDPRSKSIPGVNIPNRPTGQRPETAPPPE 119
           H HS  RECPVCKA +EEEKLVPLYGRGK+STDPRSKSIPGVNIPNRP GQRPETAPPPE
Sbjct: 61  HFHSKSRECPVCKALVEEEKLVPLYGRGKTSTDPRSKSIPGVNIPNRPAGQRPETAPPPE 120

Query: 120 PSHFQHQHGFGFMGGLGGFAPMAAARFGNFTLSAAFGGLIPPLFNLQVHGFPDPTMYGPA 179
           P+HF  QHGFG  GGLGGFAP A AR GNFT SAAFGGLIP LFNLQVHGFP+  MYGPA
Sbjct: 121 PNHFG-QHGFGLTGGLGGFAPTATARSGNFTFSAAFGGLIPSLFNLQVHGFPNAAMYGPA 179

Query: 180 ASFPYGFTNSFHGGHAHGYPQHTGQGQQDYYLKRLLLFIGFCVLLVLIWQ 229
           A FPYGF +SFHGGH  GY +H GQGQQDYYLKRLLLFIGFCVLL L+WQ
Sbjct: 180 AGFPYGF-HSFHGGHPRGYHRHQGQGQQDYYLKRLLLFIGFCVLLALVWQ 228

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255538544|ref|XP_002510337.1| rnf5, putative [Ricinus communis] gi|223551038|gb|EEF52524.1| rnf5, putative [Ricinus communis]

 Score =  343 bits (879), Expect = 4e-92,   Method: Compositional matrix adjust.
 Identities = 197/231 (85%), Positives = 206/231 (89%), Gaps = 4/231 (1%)

Query: 1   MASS-FGESTSRSAQNP-YSNNNSNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKW 58
           MASS FGES SR  Q+P +S+N SN +AGNFECNICFDLAQDPIVTLCGHLFCWPCLYKW
Sbjct: 1   MASSGFGES-SRPPQSPQFSSNYSNGDAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKW 59

Query: 59  LHGHSNYRECPVCKATIEEEKLVPLYGRGKSSTDPRSKSIPGVNIPNRPTGQRPETAPPP 118
           LH HS  +ECPVCKA +EEEKLVPLYGRGK+STDPRSKSIPGVNIPNRP GQRPETAPPP
Sbjct: 60  LHFHSQSKECPVCKALVEEEKLVPLYGRGKTSTDPRSKSIPGVNIPNRPAGQRPETAPPP 119

Query: 119 EPSHFQHQHGFGFMGGLGGFAPMAAARFGNFTLSAAFGGLIPPLFNLQVHGFPDPTMYGP 178
           EP+HF  QHGFGFMGGLGGFAPMA ARFGNFTLSAAFGGLIP LFNLQVHGFPD  MYG 
Sbjct: 120 EPNHFA-QHGFGFMGGLGGFAPMATARFGNFTLSAAFGGLIPSLFNLQVHGFPDAAMYGT 178

Query: 179 AASFPYGFTNSFHGGHAHGYPQHTGQGQQDYYLKRLLLFIGFCVLLVLIWQ 229
           A  FPYGF+NSFHGGHAHGY QH GQGQQDYYLKRLL FIGFCVLL LIWQ
Sbjct: 179 ATGFPYGFSNSFHGGHAHGYHQHQGQGQQDYYLKRLLFFIGFCVLLALIWQ 229

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147851991|emb|CAN79067.1| hypothetical protein VITISV_043720 [Vitis vinifera]

 Score =  338 bits (868), Expect = 9e-91,   Method: Compositional matrix adjust.
 Identities = 186/232 (80%), Positives = 202/232 (87%), Gaps = 5/232 (2%)

Query: 1   MASSFGESTSRSAQNPYSNNNSNS--EAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKW 58
           M S FGESTSR  Q+P  ++N+ S  +AGNFECNICFDLAQDPIVTLCGHLFCWPCLYKW
Sbjct: 1   MTSGFGESTSRPPQSPSFSSNNGSNSDAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKW 60

Query: 59  LHGHSNYRECPVCKATIEEEKLVPLYGRGKSSTDPRSKSIPGVNIPNRPTGQRPETAPPP 118
           LH HS+ +ECPVCKA +EEEKLVPLYGRGK+STDPRSKSIPG+NIPNRPTGQRPETAPPP
Sbjct: 61  LHIHSHSQECPVCKALVEEEKLVPLYGRGKTSTDPRSKSIPGINIPNRPTGQRPETAPPP 120

Query: 119 EPSHFQHQHGFGFMGGLGGFAPMAAARFGNFTLSAAFGGLIPPLFNLQVHGFPDPTMYGP 178
           + +HF  QHGFGFMGGLGGFAPMA ARFGNFTLSAAFGGL P LFNLQVHGFPD TMYGP
Sbjct: 121 DANHFM-QHGFGFMGGLGGFAPMATARFGNFTLSAAFGGLFPSLFNLQVHGFPDATMYGP 179

Query: 179 AASFPYGFTNSFHGGHAHGYPQH-TGQGQQ-DYYLKRLLLFIGFCVLLVLIW 228
           AA FPYGF+NSFHGGHAHG+PQH   QGQQ DYYLK L L IG  V++ LIW
Sbjct: 180 AAGFPYGFSNSFHGGHAHGFPQHPPTQGQQADYYLKMLFLMIGVFVIIALIW 231

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388492344|gb|AFK34238.1| unknown [Lotus japonicus] gi|388493550|gb|AFK34841.1| unknown [Lotus japonicus]

 Score =  337 bits (863), Expect = 3e-90,   Method: Compositional matrix adjust.
 Identities = 181/229 (79%), Positives = 195/229 (85%), Gaps = 1/229 (0%)

Query: 1   MASSFGESTSRSAQNPYSNNNSNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLH 60
           MAS FGESTSRS  +P    N+NS+AGNFECNICFDLAQDPI+TLCGHLFCWPCLYKWLH
Sbjct: 1   MASGFGESTSRSPPSPSYAGNNNSDAGNFECNICFDLAQDPIITLCGHLFCWPCLYKWLH 60

Query: 61  GHSNYRECPVCKATIEEEKLVPLYGRGKSSTDPRSKSIPGVNIPNRPTGQRPETAPPPEP 120
            HS  RECPVCKA +EEEKLVPLYGRGK+S+DPRS+SIPGVNIP+RP GQRPETAPPPEP
Sbjct: 61  FHSQSRECPVCKALVEEEKLVPLYGRGKTSSDPRSRSIPGVNIPHRPAGQRPETAPPPEP 120

Query: 121 SHFQHQHGFGFMGGLGGFAPMAAARFGNFTLSAAFGGLIPPLFNLQVHGFPDPTMYGPAA 180
           + F H HGFGF GGLGGFAP A ARFGNFTLSAAFGG IP LFN Q+HGF   TMYG A 
Sbjct: 121 NPFAH-HGFGFTGGLGGFAPAATARFGNFTLSAAFGGFIPSLFNFQLHGFHGATMYGGAP 179

Query: 181 SFPYGFTNSFHGGHAHGYPQHTGQGQQDYYLKRLLLFIGFCVLLVLIWQ 229
            FPYGF+NSFHGGH H YP HTGQGQQDYYLKRLL F+ FCV+L  IWQ
Sbjct: 180 GFPYGFSNSFHGGHVHRYPLHTGQGQQDYYLKRLLFFVIFCVVLAFIWQ 228

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356519062|ref|XP_003528193.1| PREDICTED: E3 ubiquitin-protein ligase RMA1 isoform 1 [Glycine max] gi|356519064|ref|XP_003528194.1| PREDICTED: E3 ubiquitin-protein ligase RMA1 isoform 2 [Glycine max]

 Score =  330 bits (846), Expect = 3e-88,   Method: Compositional matrix adjust.
 Identities = 180/232 (77%), Positives = 195/232 (84%), Gaps = 4/232 (1%)

Query: 1   MASSFGESTSRSAQNP-YSNNNSNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWL 59
           MAS FGEST RS  +P Y NNN+NS+A NFECNICF+LAQDPI+TLCGHLFCWPCLYKWL
Sbjct: 1   MASGFGESTGRSPPSPSYFNNNNNSDAANFECNICFELAQDPIITLCGHLFCWPCLYKWL 60

Query: 60  HGHSNYRECPVCKATIEEEKLVPLYGRGKSSTDPRSKSIPGVNIPNRPTGQRPETAPPPE 119
           H HS  RECPVCKA +EEEKLVPLYGRGKSSTDPRSKSIPGVNIP+RP GQRPETAPPPE
Sbjct: 61  HFHSQSRECPVCKALVEEEKLVPLYGRGKSSTDPRSKSIPGVNIPHRPAGQRPETAPPPE 120

Query: 120 PSHFQHQHGFGFMGGLGGFA--PMAAARFGNFTLSAAFGGLIPPLFNLQVHGFPDPTMYG 177
            +HF HQHGFGFMGGLGGF   PMA  RFGNF LSAAFGG IP LFN Q+HGF D  MYG
Sbjct: 121 TNHF-HQHGFGFMGGLGGFVPPPMATTRFGNFALSAAFGGFIPSLFNFQMHGFHDAAMYG 179

Query: 178 PAASFPYGFTNSFHGGHAHGYPQHTGQGQQDYYLKRLLLFIGFCVLLVLIWQ 229
             A FP+GF N+FHG HAHG+P  T QGQQDYYLK+LLLF+ FCV+L  IWQ
Sbjct: 180 GGAGFPHGFANTFHGVHAHGFPLRTHQGQQDYYLKKLLLFVVFCVVLAFIWQ 231

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255632464|gb|ACU16582.1| unknown [Glycine max]

 Score =  327 bits (837), Expect = 3e-87,   Method: Compositional matrix adjust.
 Identities = 179/232 (77%), Positives = 194/232 (83%), Gaps = 4/232 (1%)

Query: 1   MASSFGESTSRSAQNP-YSNNNSNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWL 59
           MAS FGEST RS  +P Y NNN+NS+A NFECNICF+LAQ PI+TLCGHLFCWPCLYKWL
Sbjct: 1   MASGFGESTGRSPPSPSYFNNNNNSDAANFECNICFELAQGPIITLCGHLFCWPCLYKWL 60

Query: 60  HGHSNYRECPVCKATIEEEKLVPLYGRGKSSTDPRSKSIPGVNIPNRPTGQRPETAPPPE 119
           H HS  RECPVCKA +EEEKLVPLYGRGKSSTDPRSKSIPGVNIP+RP GQRPETAPPPE
Sbjct: 61  HFHSQSRECPVCKALVEEEKLVPLYGRGKSSTDPRSKSIPGVNIPHRPAGQRPETAPPPE 120

Query: 120 PSHFQHQHGFGFMGGLGGFA--PMAAARFGNFTLSAAFGGLIPPLFNLQVHGFPDPTMYG 177
            +HF HQHGFGFMGGLGGF   PMA  RFGNF LSAAFGG IP LFN Q+HGF D  MYG
Sbjct: 121 TNHF-HQHGFGFMGGLGGFVPPPMATTRFGNFALSAAFGGFIPSLFNFQMHGFHDAAMYG 179

Query: 178 PAASFPYGFTNSFHGGHAHGYPQHTGQGQQDYYLKRLLLFIGFCVLLVLIWQ 229
             A FP+GF N+FHG HAHG+P  T QGQQDYYLK+LLLF+ FCV+L  IWQ
Sbjct: 180 GGAGFPHGFANTFHGVHAHGFPLRTHQGQQDYYLKKLLLFVVFCVVLAFIWQ 231

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388548524|gb|AFK65745.1| C3HC4 transcription factor [Gossypium hirsutum]

 Score =  318 bits (814), Expect = 1e-84,   Method: Compositional matrix adjust.
 Identities = 175/237 (73%), Positives = 191/237 (80%), Gaps = 9/237 (3%)

Query: 1   MASSFGESTSRSAQNPY-SNNNSNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWL 59
           MAS FGES S S  NP  S NN+N +AGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWL
Sbjct: 1   MASEFGESASHSPHNPSCSTNNANGDAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWL 60

Query: 60  HGHSNYRECPVCKATIEEEKLVPLYGRGKSSTDPRSKSIPGVNIPNRPTGQRPETAPPPE 119
           H HS  +ECPVCKA +EE+KL PLYGRGKSSTDPRSKSIPGVNIPNRP GQRPETAPPP 
Sbjct: 61  HTHSRSQECPVCKALVEEQKLAPLYGRGKSSTDPRSKSIPGVNIPNRPAGQRPETAPPPA 120

Query: 120 PSHFQHQHGFGFMGGLGGFAPMAAARFGNFTLSAAFGGLIPPLFNLQVHGFPDPTMYGPA 179
           P+ F  Q+GFGFMGGLGGFAPMA ARFGNFTLSAAFGGLIP LFNLQVHGFPD  M+GPA
Sbjct: 121 PNQFP-QNGFGFMGGLGGFAPMATARFGNFTLSAAFGGLIPSLFNLQVHGFPDAAMFGPA 179

Query: 180 ASFPYGFTNSF-------HGGHAHGYPQHTGQGQQDYYLKRLLLFIGFCVLLVLIWQ 229
           A FPYGF +S+       +  H H +   T QGQQD+YLK L LFI  CV+  +I+Q
Sbjct: 180 AGFPYGFPSSYHGGLAHGYHHHHHHHHHRTAQGQQDHYLKMLFLFIIVCVIFAMIYQ 236

Source: Gossypium hirsutum

Species: Gossypium hirsutum

Genus: Gossypium

Family: Malvaceae

Order: Malvales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449470015|ref|XP_004152714.1| PREDICTED: RING finger protein 5-like [Cucumis sativus] gi|449496045|ref|XP_004160021.1| PREDICTED: RING finger protein 5-like [Cucumis sativus]

 Score =  311 bits (797), Expect = 1e-82,   Method: Compositional matrix adjust.
 Identities = 172/231 (74%), Positives = 189/231 (81%), Gaps = 3/231 (1%)

Query: 1   MASSFGESTSRSAQNPYSNNNSNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLH 60
           M S FGESTSR  Q+P  ++N N +A NFECNIC DLAQDPIVTLCGHLFCWPCLYKWLH
Sbjct: 1   MESGFGESTSRQPQSPSCSDN-NGDASNFECNICLDLAQDPIVTLCGHLFCWPCLYKWLH 59

Query: 61  GHSNYRECPVCKATIEEEKLVPLYGRGKSSTDPRSKSIPGVNIPNRPTGQRPETAPPPEP 120
            HS+ +ECPVCKA IEE+KLVPLYGRGK+STDPRSKSIPG+NIPNRP GQRPE A PP  
Sbjct: 60  IHSHPQECPVCKAIIEEQKLVPLYGRGKTSTDPRSKSIPGINIPNRPAGQRPEAAGPPPE 119

Query: 121 SHFQHQHGFGFMGGLGGFAPMAAARFGNFTLSAAFGGLIPPLFNLQVHGFPDPTMYGPAA 180
            +    +GFGFMGGLGGFAPMA+ RFGNFTLSAAFGGL+P LFN Q+HG+ DP+MYG  A
Sbjct: 120 PNPFPHNGFGFMGGLGGFAPMASTRFGNFTLSAAFGGLVPSLFNFQMHGYADPSMYGAGA 179

Query: 181 SFPYGFTNSFHG--GHAHGYPQHTGQGQQDYYLKRLLLFIGFCVLLVLIWQ 229
           +FPYGF N FHG  GHAHGY     QGQQDYYLKRLL  IGF VLL LIWQ
Sbjct: 180 NFPYGFPNMFHGSHGHAHGYYHQLRQGQQDYYLKRLLFLIGFFVLLALIWQ 230

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356510276|ref|XP_003523865.1| PREDICTED: E3 ubiquitin-protein ligase RMA1H1-like isoform 1 [Glycine max] gi|356510278|ref|XP_003523866.1| PREDICTED: E3 ubiquitin-protein ligase RMA1H1-like isoform 2 [Glycine max]

 Score =  292 bits (748), Expect = 7e-77,   Method: Compositional matrix adjust.
 Identities = 178/232 (76%), Positives = 194/232 (83%), Gaps = 4/232 (1%)

Query: 1   MASSFGESTSRSAQNP-YSNNNSNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWL 59
           MAS FGEST RS  +P Y NNN+N++A NFECNICF+LAQDPI+TLCGHLFCWPCLYKWL
Sbjct: 1   MASGFGESTGRSPPSPSYFNNNNNNDAANFECNICFELAQDPIITLCGHLFCWPCLYKWL 60

Query: 60  HGHSNYRECPVCKATIEEEKLVPLYGRGKSSTDPRSKSIPGVNIPNRPTGQRPETAPPPE 119
           H HS  RECPVCKA +EEEKLVPLYGRGKSSTDPRSKSIPG NIP+RP GQRPETAPPPE
Sbjct: 61  HFHSQSRECPVCKALVEEEKLVPLYGRGKSSTDPRSKSIPGDNIPHRPAGQRPETAPPPE 120

Query: 120 PSHFQHQHGFGFMGGLGGFA--PMAAARFGNFTLSAAFGGLIPPLFNLQVHGFPDPTMYG 177
            +HF HQHGFGFMGGLGGFA  PMA  RFGNF LSAAFGG IP LFN Q+HGF D  MYG
Sbjct: 121 TNHF-HQHGFGFMGGLGGFAPPPMATTRFGNFALSAAFGGFIPSLFNFQLHGFHDAAMYG 179

Query: 178 PAASFPYGFTNSFHGGHAHGYPQHTGQGQQDYYLKRLLLFIGFCVLLVLIWQ 229
             A FP+GF N+FHG HAHG+P  T QGQQDYYLK+LLLF+  CV+L  IWQ
Sbjct: 180 GGAGFPHGFANTFHGVHAHGFPLRTHQGQQDYYLKKLLLFVVLCVVLAFIWQ 231

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

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	229
TAIR|locus:2016437	226	AT1G19310 [Arabidopsis thalian	0.895	0.907	0.649	2.5e-74
TAIR|locus:2049023	227	AT2G23780 [Arabidopsis thalian	0.960	0.969	0.546	1.9e-67
TAIR|locus:2037294	137	AT1G74990 [Arabidopsis thalian	0.427	0.715	0.642	3.6e-34
MGI|MGI:1922078	192	Rnf185 "ring finger protein 18	0.462	0.552	0.495	3e-31
RGD|1564777	192	Rnf185 "ring finger protein 18	0.462	0.552	0.495	3e-31
ZFIN|ZDB-GENE-040426-1977	194	rnf185 "ring finger protein 18	0.462	0.546	0.482	3e-31
UNIPROTKB|Q5ZIR9	194	RNF185 "E3 ubiquitin-protein l	0.454	0.536	0.495	3.8e-31
UNIPROTKB|F1PCX5	192	RNF185 "Uncharacterized protei	0.462	0.552	0.495	6.1e-31
UNIPROTKB|Q96GF1	192	RNF185 "E3 ubiquitin-protein l	0.462	0.552	0.495	6.1e-31
UNIPROTKB|F2Z4Y3	192	RNF185 "Uncharacterized protei	0.462	0.552	0.495	6.1e-31

TAIR|locus:2016437 AT1G19310 [Arabidopsis thaliana (taxid:3702)]

 Score = 750 (269.1 bits), Expect = 2.5e-74, P = 2.5e-74
 Identities = 137/211 (64%), Positives = 160/211 (75%)

Query:    19 NNNSNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEE 78
             N+ +N+++ NFECNIC DLAQDPIVTLCGHLFCWPCLYKWLH HS  ++CPVCKA IEE+
Sbjct:    11 NDTNNNDSSNFECNICLDLAQDPIVTLCGHLFCWPCLYKWLHLHSQSKDCPVCKAVIEED 70

Query:    79 KLVPLYGRGKSSTDPRSKSIPGVNIPNRPTGQRPETAPPPEPSHXXXXXXXXXXXXXXXX 138
             +LVPLYGRGKSS DPRSKSIPG+ +PNRP+GQRPETA PP+P+H                
Sbjct:    71 RLVPLYGRGKSSADPRSKSIPGLEVPNRPSGQRPETAQPPDPNHGFAHHHGFGGFMGGFA 130

Query:   139 XXXXXXRFGNFTLSAAFGGLIPPLFNLQVHGFPDPTMYGPAAS--FPYGFTNSFHGGHAH 196
                   RFGN TLSAAFGGLIP LFNL  HGFPD  MYG AAS  FP+GF+N FHGGH+H
Sbjct:   131 APMASARFGNVTLSAAFGGLIPSLFNLHFHGFPDAAMYGAAASGGFPHGFSNPFHGGHSH 190

Query:   197 --GYPQHTG-QGQQDYYLKRLLLFIGFCVLL 224
                Y +HTG QGQQD++L R+LL I F V++
Sbjct:   191 MHSYQRHTGRQGQQDHHL-RILLLIVFVVVV 220

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2049023 AT2G23780 [Arabidopsis thaliana (taxid:3702)]

 Score = 685 (246.2 bits), Expect = 1.9e-67, P = 1.9e-67
 Identities = 124/227 (54%), Positives = 155/227 (68%)

Query:     6 GESTSRSAQNPYSNNNSNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNY 65
             GES++ ++ +  SNN++N + G+FECNICF+LAQDPIVTLCGHLFCWPCLY+WLH HS+ 
Sbjct:     4 GESSTSTSYSD-SNNDTNDQGGDFECNICFELAQDPIVTLCGHLFCWPCLYRWLHHHSHS 62

Query:    66 RECPVCKATIEEEKLVPLYGRGKSSTDPRSKSIPGVNIPNRPTGQRPETA-PPPEPSHXX 124
             +ECPVCKA ++++KLVPLYGRGK+ TDPRSK  PG+ IPNRPTGQRPETA PPP+P    
Sbjct:    63 QECPVCKAVVQDDKLVPLYGRGKNQTDPRSKRYPGLRIPNRPTGQRPETAAPPPQPEAAS 122

Query:   125 XXXXXXXXXXXXXXXXXXXXRFGNFTLSAAFGGLIPPLFNLQVHGFPDPTMYGPAASFPY 184
                                 RFGNF++   FGGL+P LFN Q HGF D T+YG    +PY
Sbjct:   123 NFFNYGIGLMGGIMPMMATTRFGNFSMG--FGGLLPSLFNFQFHGFHDATLYGSTPGYPY 180

Query:   185 G-FTNSFHGGHAHGY--PQHTGQGQQDYYLKRLLLFIGFCVLLVLIW 228
             G + N F G    G   P   G  Q D +LK +L F+G CV++ LIW
Sbjct:   181 GGYHNGFRGVPPRGQERPMARGGNQSDAFLKNILFFVGICVVIFLIW 227

GO:0005634 "nucleus" evidence=ISM

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

GO:0006661 "phosphatidylinositol biosynthetic process" evidence=RCA

TAIR|locus:2037294 AT1G74990 [Arabidopsis thaliana (taxid:3702)]

 Score = 371 (135.7 bits), Expect = 3.6e-34, P = 3.6e-34
 Identities = 63/98 (64%), Positives = 73/98 (74%)

Query:    20 NNSNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEK 79
             N  +  + NF CNIC +LA++PIVTLCGHLFCWPCLYKWLH HS    CPVCKA ++E+ 
Sbjct:     8 NEEDDASNNFGCNICLELAREPIVTLCGHLFCWPCLYKWLHYHSKSNHCPVCKALVKEDT 67

Query:    80 LVPLYGRGKSSTDPRSKSIPGVNIPNRPTGQRPETAPP 117
             LVPLYG GK S+DPRSK   GV +PNRP   R ETA P
Sbjct:    68 LVPLYGMGKPSSDPRSKLNSGVTVPNRPAATRTETARP 105

GO:0005737 "cytoplasm" evidence=ISM

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

MGI|MGI:1922078 Rnf185 "ring finger protein 185" [Mus musculus (taxid:10090)]

 Score = 303 (111.7 bits), Expect = 3.0e-31, Sum P(2) = 3.0e-31
 Identities = 61/123 (49%), Positives = 77/123 (62%)

Query:     1 MASSFGESTSRSAQN-----PYSNNNSNSEAGN----FECNICFDLAQDPIVTLCGHLFC 51
             MAS  G S S S +N     P  ++N   E+G     FECNIC D A+D +++LCGHLFC
Sbjct:     1 MASK-GPSASASTENSNAGGPSGSSNGTGESGGQDSTFECNICLDTAKDAVISLCGHLFC 59

Query:    52 WPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGRGKSST-DPRSKSIPGVNIPNRPTGQ 110
             WPCL++WL    N + CPVCKA I  +K++PLYGRG +   DPR K+      P RP GQ
Sbjct:    60 WPCLHQWLETRPNRQVCPVCKAGISRDKVIPLYGRGSTGQQDPREKT------PPRPQGQ 113

Query:   111 RPE 113
             RPE
Sbjct:   114 RPE 116

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0005739 "mitochondrion" evidence=IEA

GO:0005741 "mitochondrial outer membrane" evidence=IEA

GO:0006914 "autophagy" 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:0016874 "ligase activity" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

RGD|1564777 Rnf185 "ring finger protein 185" [Rattus norvegicus (taxid:10116)]

 Score = 303 (111.7 bits), Expect = 3.0e-31, Sum P(2) = 3.0e-31
 Identities = 61/123 (49%), Positives = 77/123 (62%)

Query:     1 MASSFGESTSRSAQN-----PYSNNNSNSEAGN----FECNICFDLAQDPIVTLCGHLFC 51
             MAS  G S S S +N     P  ++N   E+G     FECNIC D A+D +++LCGHLFC
Sbjct:     1 MASK-GPSASASTENSSAGGPSGSSNGTGESGGQDSTFECNICLDTAKDAVISLCGHLFC 59

Query:    52 WPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGRGKSST-DPRSKSIPGVNIPNRPTGQ 110
             WPCL++WL    N + CPVCKA I  +K++PLYGRG +   DPR K+      P RP GQ
Sbjct:    60 WPCLHQWLETRPNRQVCPVCKAGISRDKVIPLYGRGSTGQQDPREKT------PPRPQGQ 113

Query:   111 RPE 113
             RPE
Sbjct:   114 RPE 116

GO:0005741 "mitochondrial outer membrane" evidence=IEA

GO:0006914 "autophagy" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

ZFIN|ZDB-GENE-040426-1977 rnf185 "ring finger protein 185" [Danio rerio (taxid:7955)]

 Score = 294 (108.6 bits), Expect = 3.0e-31, Sum P(2) = 3.0e-31
 Identities = 56/116 (48%), Positives = 73/116 (62%)

Query:     2 ASSFGESTSRSAQNPYSNNNSN---SEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKW 58
             +SS   S+S  A N  S   S    ++   FECNIC D ++D +++LCGHLFCWPCL++W
Sbjct:     9 SSSSSSSSSAGAANGQSAGESGGGGAQDSTFECNICLDTSKDAVISLCGHLFCWPCLHQW 68

Query:    59 LHGHSNYRECPVCKATIEEEKLVPLYGRGKSST-DPRSKSIPGVNIPNRPTGQRPE 113
             L    N + CPVCKA I  +K++PLYGRG +   DPR K+      P RP GQRPE
Sbjct:    69 LETRPNRQVCPVCKAGISRDKVIPLYGRGSTGQQDPREKT------PPRPQGQRPE 118

GO:0008270 "zinc ion binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0006914 "autophagy" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0005741 "mitochondrial outer membrane" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

UNIPROTKB|Q5ZIR9 RNF185 "E3 ubiquitin-protein ligase RNF185" [Gallus gallus (taxid:9031)]

 Score = 302 (111.4 bits), Expect = 3.8e-31, Sum P(2) = 3.8e-31
 Identities = 56/113 (49%), Positives = 76/113 (67%)

Query:     2 ASSFGESTSRSAQNPYSNNNSNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHG 61
             +SS G ++  S+ N  + +N+N +   FECNIC D A+D +++LCGHLFCWPCL++WL  
Sbjct:    14 SSSTGGTSGSSSSNG-AGDNTNQD-NTFECNICLDTAKDAVISLCGHLFCWPCLHQWLET 71

Query:    62 HSNYRECPVCKATIEEEKLVPLYGRGKSST-DPRSKSIPGVNIPNRPTGQRPE 113
               N + CPVCKA I  +K++PLYGRG +   DPR K+      P RP GQRPE
Sbjct:    72 RPNRQVCPVCKAGISRDKVIPLYGRGSTGQQDPREKT------PPRPQGQRPE 118

GO:0008270 "zinc ion binding" evidence=IEA

GO:0006914 "autophagy" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

GO:0005741 "mitochondrial outer membrane" evidence=IEA

UNIPROTKB|F1PCX5 RNF185 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 300 (110.7 bits), Expect = 6.1e-31, Sum P(2) = 6.1e-31
 Identities = 61/123 (49%), Positives = 77/123 (62%)

Query:     1 MASSFGESTSRSAQN-----PYSNNNSNSEAGN----FECNICFDLAQDPIVTLCGHLFC 51
             MAS  G S S S +N     P  ++N   E+G     FECNIC D A+D +++LCGHLFC
Sbjct:     1 MASK-GPSASASPENSSAGGPSGSSNGAGESGGQDSTFECNICLDTAKDAVISLCGHLFC 59

Query:    52 WPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGRGKSST-DPRSKSIPGVNIPNRPTGQ 110
             WPCL++WL    N + CPVCKA I  +K++PLYGRG +   DPR K+      P RP GQ
Sbjct:    60 WPCLHQWLETRPNRQVCPVCKAGISRDKVIPLYGRGSTGQQDPREKT------PPRPQGQ 113

Query:   111 RPE 113
             RPE
Sbjct:   114 RPE 116

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|Q96GF1 RNF185 "E3 ubiquitin-protein ligase RNF185" [Homo sapiens (taxid:9606)]

 Score = 300 (110.7 bits), Expect = 6.1e-31, Sum P(2) = 6.1e-31
 Identities = 61/123 (49%), Positives = 77/123 (62%)

Query:     1 MASSFGESTSRSAQN-----PYSNNNSNSEAGN----FECNICFDLAQDPIVTLCGHLFC 51
             MAS  G S S S +N     P  ++N   E+G     FECNIC D A+D +++LCGHLFC
Sbjct:     1 MASK-GPSASASPENSSAGGPSGSSNGAGESGGQDSTFECNICLDTAKDAVISLCGHLFC 59

Query:    52 WPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGRGKSST-DPRSKSIPGVNIPNRPTGQ 110
             WPCL++WL    N + CPVCKA I  +K++PLYGRG +   DPR K+      P RP GQ
Sbjct:    60 WPCLHQWLETRPNRQVCPVCKAGISRDKVIPLYGRGSTGQQDPREKT------PPRPQGQ 113

Query:   111 RPE 113
             RPE
Sbjct:   114 RPE 116

GO:0008270 "zinc ion binding" evidence=IEA

GO:0006914 "autophagy" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0005741 "mitochondrial outer membrane" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

UNIPROTKB|F2Z4Y3 RNF185 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 300 (110.7 bits), Expect = 6.1e-31, Sum P(2) = 6.1e-31
 Identities = 61/123 (49%), Positives = 77/123 (62%)

Query:     1 MASSFGESTSRSAQN-----PYSNNNSNSEAGN----FECNICFDLAQDPIVTLCGHLFC 51
             MAS  G S S S +N     P  ++N   E+G     FECNIC D A+D +++LCGHLFC
Sbjct:     1 MASK-GPSASASPENSSAGGPSGSSNGAGESGGQDSTFECNICLDTAKDAVISLCGHLFC 59

Query:    52 WPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGRGKSST-DPRSKSIPGVNIPNRPTGQ 110
             WPCL++WL    N + CPVCKA I  +K++PLYGRG +   DPR K+      P RP GQ
Sbjct:    60 WPCLHQWLETRPNRQVCPVCKAGISRDKVIPLYGRGSTGQQDPREKT------PPRPQGQ 113

Query:   111 RPE 113
             RPE
Sbjct:   114 RPE 116

GO:0008270 "zinc ion binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	6.3.2	LOW CONFIDENCE prediction!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	eugene3.00021229	hypothetical protein (227 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	fgenesh4_pm.C_scaffold_86000046	hypothetical protein (276 aa)						•			0.800
	estExt_fgenesh4_pg.C_LG_VI0994	hypothetical protein (249 aa)						•			0.800
	estExt_Genewise1_v1.C_LG_XI1160	hypothetical protein (243 aa)						•			0.800
	estExt_Genewise1_v1.C_LG_IV1734	hypothetical protein (245 aa)						•			0.800

---

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	229
PLN03208	193	PLN03208, PLN03208, E3 ubiquitin-protein ligase RM	3e-29
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	5e-12
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	7e-12
smart00184	40	smart00184, RING, Ring finger	8e-10
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	1e-09
COG5574	271	COG5574, PEX10, RING-finger-containing E3 ubiquiti	2e-09
TIGR00599	397	TIGR00599, rad18, DNA repair protein rad18	3e-09
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	1e-07
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	2e-06
pfam13920	49	pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RI	3e-06
COG5432	391	COG5432, RAD18, RING-finger-containing E3 ubiquiti	5e-06
pfam13445	55	pfam13445, zf-RING_LisH, RING-type zinc-finger, Li	8e-04
COG5152	259	COG5152, COG5152, Uncharacterized conserved protei	0.001
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	0.004

>gnl|CDD|178747 PLN03208, PLN03208, E3 ubiquitin-protein ligase RMA2; Provisional

 Score =  107 bits (269), Expect = 3e-29
 Identities = 46/97 (47%), Positives = 64/97 (65%), Gaps = 19/97 (19%)

Query: 26  AGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRE-------------CPVCK 72
            G+F+CNIC D  +DP+VTLCGHLFCWPC++KW +  +N R+             CPVCK
Sbjct: 16  GGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCK 75

Query: 73  ATIEEEKLVPLYGRGKSSTDPRSKSIPGVNIPNRPTG 109
           + + E  LVP+YGRG+ +  P+S    G N+P+RP+G
Sbjct: 76  SDVSEATLVPIYGRGQKA--PQS----GSNVPSRPSG 106

Length = 193

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

 Score = 58.6 bits (142), Expect = 5e-12
 Identities = 21/47 (44%), Positives = 29/47 (61%), Gaps = 3/47 (6%)

Query: 30 ECNICFDLAQDPIVTL-CGHLFCWPCLYKWLHGHSNYRECPVCKATI 75
          EC IC +  ++P+V L CGH+FC  C+ KWL   S    CP+C+  I
Sbjct: 1  ECPICLEEFREPVVLLPCGHVFCRSCIDKWL--KSGKNTCPLCRTPI 45

Length = 45

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

 Score = 57.9 bits (140), Expect = 7e-12
 Identities = 20/47 (42%), Positives = 29/47 (61%), Gaps = 4/47 (8%)

Query: 28 NFECNICFDLAQDPIVTL-CGHLFCWPCLYKWLHGHSNYRECPVCKA 73
            EC IC DL +DP+V   CGH+FC  C+ ++L   S   +CP+C+ 
Sbjct: 2  ELECPICLDLLRDPVVLTPCGHVFCRECILRYLKKKS---KCPICRT 45

Length = 45

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

 Score = 52.5 bits (126), Expect = 8e-10
 Identities = 18/42 (42%), Positives = 24/42 (57%), Gaps = 3/42 (7%)

Query: 31 CNICFD-LAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVC 71
          C IC +   +DP++  CGH FC  C+ KWL   S    CP+C
Sbjct: 1  CPICLEEYLKDPVILPCGHTFCRSCIRKWL--ESGNNTCPIC 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|222279 pfam13639, zf-RING_2, Ring finger domain

 Score = 52.0 bits (125), Expect = 1e-09
 Identities = 19/48 (39%), Positives = 27/48 (56%), Gaps = 6/48 (12%)

Query: 29 FECNIC---FDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKA 73
           EC IC   F+  ++ +V  CGH+F   CL KWL   +    CP+C+A
Sbjct: 1  DECPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSNT---CPLCRA 45

Length = 46

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

 Score = 56.1 bits (135), Expect = 2e-09
 Identities = 17/47 (36%), Positives = 25/47 (53%), Gaps = 1/47 (2%)

Query: 27  GNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKA 73
            +++C +C +  + P  T CGHLFC  CL         Y  CP+C+A
Sbjct: 214 ADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKK-YEFCPLCRA 259

Length = 271

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

 Score = 56.2 bits (135), Expect = 3e-09
 Identities = 28/101 (27%), Positives = 42/101 (41%), Gaps = 16/101 (15%)

Query: 29  FECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGRG- 87
             C+IC D    P++T C H FC  C+ + L        CP+C+A  +E KL     R  
Sbjct: 27  LRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQPK---CPLCRAEDQESKL-----RSN 78

Query: 88  -------KSSTDPRSKSIPGVNIPNRPTGQRPETAPPPEPS 121
                  +S  + R   +  + IP     + P+ A P   S
Sbjct: 79  WLVSEIVESFKNLRPSLLEFLRIPKTTPVENPDLAGPENSS 119

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

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

 Score = 46.3 bits (110), Expect = 1e-07
 Identities = 19/42 (45%), Positives = 24/42 (57%), Gaps = 3/42 (7%)

Query: 31 CNICFDLAQDPIVTL-CGHLFCWPCLYKWLHGHSNYRECPVC 71
          C IC +  +DP+  L CGHLFC  C+  WL   S    CP+C
Sbjct: 1  CPICLEEPKDPVTILPCGHLFCSKCILSWL--ESGNVTCPLC 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 = 47.7 bits (113), Expect = 2e-06
 Identities = 24/76 (31%), Positives = 31/76 (40%), Gaps = 9/76 (11%)

Query: 7   ESTSRSAQNPY---SNNNSNSEAG-NFECNIC---FDLAQDPIVTLCGHLFCWPCLYKWL 59
           E+   +         +     EA    EC IC   F       V  C H F   C+ KWL
Sbjct: 298 EAIPTTTTKGSLKPLSIERAVEADKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWL 357

Query: 60  HGHSNYRECPVCKATI 75
            G+SN  +CPVC+  I
Sbjct: 358 LGYSN--KCPVCRTAI 371

Length = 374

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

 Score = 42.8 bits (101), Expect = 3e-06
 Identities = 14/51 (27%), Positives = 24/51 (47%), Gaps = 5/51 (9%)

Query: 28 NFECNICFDLAQDPIVTLCGHL-FCWPCLYKWLHGHSNYRECPVCKATIEE 77
          +  C IC +  ++ +   CGHL  C  C  +        ++CP+C+  IE 
Sbjct: 2  DDLCVICLERPRNVVFLPCGHLCLCEECAKRLRSK----KKCPICRQPIES 48

Length = 49

>gnl|CDD|227719 COG5432, RAD18, RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]

 Score = 46.2 bits (109), Expect = 5e-06
 Identities = 18/50 (36%), Positives = 22/50 (44%), Gaps = 3/50 (6%)

Query: 31 CNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKL 80
          C IC      P  T CGH FC  C+ + L        CPVC+    E +L
Sbjct: 28 CRICDCRISIPCETTCGHTFCSLCIRRHLGTQPF---CPVCREDPCESRL 74

Length = 391

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

 Score = 36.2 bits (84), Expect = 8e-04
 Identities = 11/46 (23%), Positives = 19/46 (41%), Gaps = 5/46 (10%)

Query: 29 FECNICFDL----AQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPV 70
          F C I  ++       P++  CGH++    L K       ++ CP 
Sbjct: 11 FVCPISKEVMTDEENPPVMLPCGHVYSRKALEKLAKNGGKFK-CPY 55

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

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

 Score = 38.5 bits (89), Expect = 0.001
 Identities = 16/51 (31%), Positives = 22/51 (43%), Gaps = 6/51 (11%)

Query: 21  NSNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVC 71
           +   E   F C IC    + P+VT CGH FC  C  +       Y++   C
Sbjct: 189 SGPGEKIPFLCGICKKDYESPVVTECGHSFCSLCAIR------KYQKGDEC 233

Length = 259

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

 Score = 35.2 bits (81), Expect = 0.004
 Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 1/37 (2%)

Query: 39 QDPIVT-LCGHLFCWPCLYKWLHGHSNYRECPVCKAT 74
            P+V   C H F   C+ KWL   ++   CP+C+ T
Sbjct: 44 DCPLVWGKCKHNFHMHCILKWLATETSKGLCPMCRQT 80

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	229
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	99.97
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.94
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	99.41
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.36
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.33
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	99.21
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	99.17
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.11
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.11
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.09
PHA02929	238	N1R/p28-like protein; Provisional	99.04
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.99
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.96
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.96
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.91
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.87
PHA02926	242	zinc finger-like protein; Provisional	98.81
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	98.81
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.77
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.74
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	98.72
PF14634	44	zf-RING_5: zinc-RING finger domain	98.72
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.67
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	98.63
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.54
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.51
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	98.47
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.42
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.41
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.35
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	98.26
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	98.24
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	98.2
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.19
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	98.0
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.99
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.9
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.82
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.8
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	97.77
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.77
KOG1002	791	consensus Nucleotide excision repair protein RAD16	97.75
KOG2660	331	consensus Locus-specific chromosome binding protei	97.75
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	97.74
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	97.74
COG5152	259	Uncharacterized conserved protein, contains RING a	97.73
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	97.72
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	97.67
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	97.61
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	97.54
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	97.53
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	97.47
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.41
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	97.39
COG5219	1525	Uncharacterized conserved protein, contains RING Z	97.36
COG5222	427	Uncharacterized conserved protein, contains RING Z	97.32
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	97.31
KOG3039	303	consensus Uncharacterized conserved protein [Funct	97.27
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	97.17
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	97.01
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	96.95
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	96.82
KOG0825	1134	consensus PHD Zn-finger protein [General function	96.78
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	96.63
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	96.61
KOG1001	674	consensus Helicase-like transcription factor HLTF/	96.57
PF04641	260	Rtf2: Rtf2 RING-finger	96.5
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	96.03
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	95.9
KOG4739	233	consensus Uncharacterized protein involved in syna	95.75
COG5236	493	Uncharacterized conserved protein, contains RING Z	95.74
KOG1941	518	consensus Acetylcholine receptor-associated protei	95.46
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	95.42
PHA03096	284	p28-like protein; Provisional	95.27
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	95.1
PHA02825	162	LAP/PHD finger-like protein; Provisional	95.1
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	94.93
KOG4367	699	consensus Predicted Zn-finger protein [Function un	94.87
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	94.79
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	94.77
KOG3002	299	consensus Zn finger protein [General function pred	94.55
PHA02862	156	5L protein; Provisional	94.4
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	93.86
KOG4445	368	consensus Uncharacterized conserved protein, conta	93.85
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	93.82
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	93.63
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	93.31
KOG0298	1394	consensus DEAD box-containing helicase-like transc	92.98
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	92.85
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	92.8
COG5175	480	MOT2 Transcriptional repressor [Transcription]	92.69
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	92.58
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	92.39
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	92.01
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	91.86
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	91.84
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	91.78
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	91.31
KOG3579	352	consensus Predicted E3 ubiquitin ligase [Posttrans	91.17
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	90.71
KOG3039	303	consensus Uncharacterized conserved protein [Funct	90.34
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	90.25
KOG1940	276	consensus Zn-finger protein [General function pred	90.06
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	89.78
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	89.01
KOG3899	381	consensus Uncharacterized conserved protein [Funct	88.19
KOG1815	444	consensus Predicted E3 ubiquitin ligase [Posttrans	87.63
KOG3053	293	consensus Uncharacterized conserved protein [Funct	87.57
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	87.23
COG5109	396	Uncharacterized conserved protein, contains RING Z	84.25
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	83.55
KOG0825	1134	consensus PHD Zn-finger protein [General function	83.01
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	82.63
KOG3113	293	consensus Uncharacterized conserved protein [Funct	82.1

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

Probab=99.97  E-value=3.1e-32  Score=231.63  Aligned_cols=178  Identities=43%  Similarity=0.865  Sum_probs=120.8

Q ss_pred             CCCCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCccccccccccccccCCCCC-CCCCCCCCCCCCC
Q 027010           24 SEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGRGKS-STDPRSKSIPGVN  102 (229)
Q Consensus        24 ~~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~~~~~~-~~d~~~~~~~~~~  102 (229)
                      .+...++|+||+|..+|||++.|||+|||.||++|++.+.+++.||+||..|+.++++|+|++++. .+++++++     
T Consensus        43 ~~~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYGrG~~~~~~~~~~~-----  117 (230)
T KOG0823|consen   43 RDGGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYGRGSKKPSDPRKKD-----  117 (230)
T ss_pred             CCCCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEeeeccCCCCCCCccccc-----
Confidence            366789999999999999999999999999999999998889999999999999999999999984 55655554     


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCccCCCCcccCCCCCCcccccccccceeechhhc-------ccCcccccccccCCCCCCC
Q 027010          103 IPNRPTGQRPETAPPPEPSHFQHQHGFGFMGGLGGFAPMAAARFGNFTLSAAFG-------GLIPPLFNLQVHGFPDPTM  175 (229)
Q Consensus       103 ~p~Rps~~r~~~~~~~d~~~~~~~~~~~~~~~~~G~~~~~~~R~~~~~~s~~~g-------~~~~~~f~~~~~~~~~~~~  175 (229)
                      +|+||.++|.++.+..-.+.  ..++++...-..+....     -.+.+|+++|       ++||.+|...+.|.-    
T Consensus       118 vP~RP~~~R~e~~~p~~~~~--~~~g~r~~g~~~~~~~~-----~~f~~s~~i~~~~~~v~~~~p~~~~~~lf~~~----  186 (230)
T KOG0823|consen  118 VPPRPAGQRYESKRPTPQNR--GNHGFRFFGFRLGEESS-----NRFMYSFGIGLFGDPVMGLFPFGLYTRLFGTD----  186 (230)
T ss_pred             CCCCCCCccccccCCCCccc--cccccccccccccccCC-----cceeEEeecccCCCceeeeccccceeeecCCC----
Confidence            89999999987655421111  11233322111111000     1234444443       455555544433221    


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCC--CCCchHHHHHHHHHHHHHHHHHHHHHHhC
Q 027010          176 YGPAASFPYGFTNSFHGGHAHGYPQ--HTGQGQQDYYLKRLLLFIGFCVLLVLIWQ  229 (229)
Q Consensus       176 ~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~~~l~~~  229 (229)
                          ..++ +       .+.+..+.  ..++.|+|++|+++|+|+++++++||+++
T Consensus       187 ----~~~~-~-------~~~~~~~~~~~~r~~q~e~~ls~~f~~~~~~~~~~l~~~  230 (230)
T KOG0823|consen  187 ----ETFP-A-------DTPRPSPARPLGRQMQRENSLSRVFLFLACFFVSWLLVI  230 (230)
T ss_pred             ----CCcc-c-------cCCCCCCCccccccchhhcccccchhhhhhhheeeeeeC
Confidence                1122 1       11122222  34555779999999999999999999864

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.94  E-value=9.3e-27  Score=194.84  Aligned_cols=163  Identities=33%  Similarity=0.652  Sum_probs=108.3

Q ss_pred             CCCCccccccccCCCCcEEccCCCccChhHHHHHHhhC-------------CCCCCCCCccccccccccccccCCCCCCC
Q 027010           25 EAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGH-------------SNYRECPVCKATIEEEKLVPLYGRGKSST   91 (229)
Q Consensus        25 ~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~-------------s~~~~CPvCR~~v~~~~l~p~~~~~~~~~   91 (229)
                      ..++++|+||++.+++|++++|||.||+.||.+|+...             .....||+||..++..+++|+|+++... 
T Consensus        15 ~~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPiygrg~~~-   93 (193)
T PLN03208         15 SGGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPIYGRGQKA-   93 (193)
T ss_pred             CCCccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEeeccCCCC-
Confidence            34679999999999999999999999999999998632             1346899999999999999999998742 


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccCCCCcccCCCCCCcccccccccceeechhhcccCcccccccccCCC
Q 027010           92 DPRSKSIPGVNIPNRPTGQRPETAPPPEPSHFQHQHGFGFMGGLGGFAPMAAARFGNFTLSAAFGGLIPPLFNLQVHGFP  171 (229)
Q Consensus        92 d~~~~~~~~~~~p~Rps~~r~~~~~~~d~~~~~~~~~~~~~~~~~G~~~~~~~R~~~~~~s~~~g~~~~~~f~~~~~~~~  171 (229)
                           ...+..+|+||.+.+... ++     . .++.. .-   .           ...  ..+ +++.     ++.|++
T Consensus        94 -----~~~~~~iP~rp~~~~~~~-~~-----~-~~~~~-~~---~-----------~~~--~~~-~~~~-----p~~g~~  138 (193)
T PLN03208         94 -----PQSGSNVPSRPSGPVYDL-RG-----V-GQRLG-EG---E-----------SQR--YMY-RMPD-----PVMGVV  138 (193)
T ss_pred             -----CCCCCCCCcCCCCCccCC-CC-----c-ccccc-cc---c-----------cce--eee-ccCC-----ccccch
Confidence                 233566899999876552 11     0 11111 00   0           000  012 2222     144555


Q ss_pred             CCCCCCCCCCCCCCCC--CCCCCCCCCCCCCCCCch-HHHHHHHHHHHHHHHHHHHHHHhC
Q 027010          172 DPTMYGPAASFPYGFT--NSFHGGHAHGYPQHTGQG-QQDYYLKRLLLFIGFCVLLVLIWQ  229 (229)
Q Consensus       172 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~~~l~~~  229 (229)
                      +.++|+.    .||-+  |.|  .+....|+.++|+ |+|++|+|+++||++||++|||+|
T Consensus       139 ~~~~~~r----~fg~~~~~~~--~~~~~~~r~r~~~~q~~~sl~r~~~f~~c~~~~~~~~f  193 (193)
T PLN03208        139 CEMVYRR----LFGESSSNMA--PYRDMNVRSRRRAMQAEESLSRVYLFLLCFMFMCLFLF  193 (193)
T ss_pred             hhhhhhh----hhCCcccccc--ccccCchHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhC
Confidence            6555553    12211  111  0011135556666 559999999999999999999998

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

Probab=99.41  E-value=1e-14  Score=136.41  Aligned_cols=138  Identities=19%  Similarity=0.369  Sum_probs=104.8

Q ss_pred             CccccccccCCCCcEEccCCCccChhHHHHHHhhC--CCCCCCCCccccccccccccccCCCCCCCCCCCCCCCC---CC
Q 027010           28 NFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGH--SNYRECPVCKATIEEEKLVPLYGRGKSSTDPRSKSIPG---VN  102 (229)
Q Consensus        28 ~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~--s~~~~CPvCR~~v~~~~l~p~~~~~~~~~d~~~~~~~~---~~  102 (229)
                      +..||||++...-|+.+.|||+||++||.+||...  .....||+|+..|..++|.|++.......+.......+   .+
T Consensus       186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~~e~~qkke~l~~~~~~ng~~~  265 (513)
T KOG2164|consen  186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVFIEDDQKKEELKLHQDPNGIPD  265 (513)
T ss_pred             CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeeeeccccccHHHHHHhcccCCCc
Confidence            78899999999999999999999999999999854  35679999999999888998877665433332222222   26


Q ss_pred             CCCCCCCC--CCCCCCCCCCCCCccCCCCcccCCCCCCcccccccccceeechhhcccCccccccc
Q 027010          103 IPNRPTGQ--RPETAPPPEPSHFQHQHGFGFMGGLGGFAPMAAARFGNFTLSAAFGGLIPPLFNLQ  166 (229)
Q Consensus       103 ~p~Rps~~--r~~~~~~~d~~~~~~~~~~~~~~~~~G~~~~~~~R~~~~~~s~~~g~~~~~~f~~~  166 (229)
                      ++.++++.  +..+....|++++ .+..++.++++..+..+...+++.+.+....+.+-+.-+..+
T Consensus       266 ~~r~F~~d~~r~~p~fl~dl~~~-a~~~i~~~~~~~~l~i~~~~~i~~v~i~~~~~~~~~~~~~~q  330 (513)
T KOG2164|consen  266 YNRRFSGDPARFVPDFLMDLPTY-ARINIRNMFNNHILTIVDQVCIAAVFICQYLSFLLPRRMVPQ  330 (513)
T ss_pred             cccceecCcccccHHHHHhHHHH-HHHHHHHhhcccceeehhhHhHHHHHHHHHhcccchhhhcch
Confidence            78888887  4444445677877 777777788889999999999999887766655555444444

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

Probab=99.36  E-value=4.1e-13  Score=118.04  Aligned_cols=60  Identities=30%  Similarity=0.939  Sum_probs=51.6

Q ss_pred             CCCCCCCCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCcccccccccccc
Q 027010           20 NNSNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVP   82 (229)
Q Consensus        20 ~~~~~~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p   82 (229)
                      ++....+....|.+|++...+|..|+|||+|||.||..|...+.   .||+||..+...+++-
T Consensus       231 ~~~~i~~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek~---eCPlCR~~~~pskvi~  290 (293)
T KOG0317|consen  231 SLSSIPEATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSEKA---ECPLCREKFQPSKVIC  290 (293)
T ss_pred             CCccCCCCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHcccc---CCCcccccCCCcceee
Confidence            34444566789999999999999999999999999999999554   8999999998777653

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

Probab=99.33  E-value=9.2e-13  Score=85.10  Aligned_cols=41  Identities=44%  Similarity=1.018  Sum_probs=32.6

Q ss_pred             ccccccCCCCcEEccCCCccChhHHHHHHhhCCCC-CCCCCc
Q 027010           31 CNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNY-RECPVC   71 (229)
Q Consensus        31 C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~-~~CPvC   71 (229)
                      |+||++.+++|+.++|||.||..||.+|++..... ..||.|
T Consensus         1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            89999999999999999999999999999965433 689987

>smart00504 Ubox Modified RING finger domain

Probab=99.21  E-value=1.5e-11  Score=85.05  Aligned_cols=56  Identities=25%  Similarity=0.529  Sum_probs=49.8

Q ss_pred             CccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCccccccccccccccCC
Q 027010           28 NFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGR   86 (229)
Q Consensus        28 ~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~~~   86 (229)
                      ++.|+||.+.+.+|++++|||+||..||.+|++.   ...||+|+..++.++++++...
T Consensus         1 ~~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~---~~~cP~~~~~~~~~~l~~~~~l   56 (63)
T smart00504        1 EFLCPISLEVMKDPVILPSGQTYERRAIEKWLLS---HGTDPVTGQPLTHEDLIPNLAL   56 (63)
T ss_pred             CcCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHH---CCCCCCCcCCCChhhceeCHHH
Confidence            3679999999999999999999999999999986   3489999999988888887544

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

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

Probab=99.17  E-value=2.4e-11  Score=100.29  Aligned_cols=61  Identities=30%  Similarity=0.841  Sum_probs=50.0

Q ss_pred             CCCCCCCCccccccccCCCCc--EEccCCCccChhHHHHHHhhCCCCCCCCCcccccccccccccc
Q 027010           21 NSNSEAGNFECNICFDLAQDP--IVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLY   84 (229)
Q Consensus        21 ~~~~~~~~~~C~ICld~~~~p--v~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~   84 (229)
                      +....+..+.|+||++...+.  +.+.|||+||..||...++.   ...||+|++.|+.+.+.++|
T Consensus       124 ~~~~~~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~---~~~CP~C~kkIt~k~~~rI~  186 (187)
T KOG0320|consen  124 DPLRKEGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKN---TNKCPTCRKKITHKQFHRIY  186 (187)
T ss_pred             cccccccccCCCceecchhhccccccccchhHHHHHHHHHHHh---CCCCCCcccccchhhheecc
Confidence            334455668999999999754  55899999999999999994   44999999999888777765

>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=99.11  E-value=5.2e-11  Score=79.35  Aligned_cols=47  Identities=40%  Similarity=1.005  Sum_probs=40.6

Q ss_pred             CCccccccccCCCCcEEccCCCc-cChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           27 GNFECNICFDLAQDPIVTLCGHL-FCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        27 ~~~~C~ICld~~~~pv~l~CgH~-FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      ++..|.||++...+.+.++|||. ||..|+.+|++   ....||+||+++.
T Consensus         1 ~~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~---~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    1 EDEECPICFENPRDVVLLPCGHLCFCEECAERLLK---RKKKCPICRQPIE   48 (50)
T ss_dssp             -HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHH---TTSBBTTTTBB-S
T ss_pred             CcCCCccCCccCCceEEeCCCChHHHHHHhHHhcc---cCCCCCcCChhhc
Confidence            35789999999999999999999 99999999999   4559999999886

...

>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=99.11  E-value=5e-11  Score=75.49  Aligned_cols=38  Identities=53%  Similarity=1.234  Sum_probs=32.9

Q ss_pred             ccccccCCCCc-EEccCCCccChhHHHHHHhhCCCCCCCCCc
Q 027010           31 CNICFDLAQDP-IVTLCGHLFCWPCLYKWLHGHSNYRECPVC   71 (229)
Q Consensus        31 C~ICld~~~~p-v~l~CgH~FC~~CL~~wl~~~s~~~~CPvC   71 (229)
                      |+||++.+.+| +.++|||+||..|+.+|++.   ..+||+|
T Consensus         1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~---~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEK---NPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHC---TSB-TTT
T ss_pred             CCCCCCcccCcCEECCCCCchhHHHHHHHHHC---cCCCcCC
Confidence            89999999999 67999999999999999995   3599988

>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=99.09  E-value=4.3e-11  Score=77.60  Aligned_cols=40  Identities=38%  Similarity=1.061  Sum_probs=34.0

Q ss_pred             cccccccCCC---CcEEccCCCccChhHHHHHHhhCCCCCCCCCcc
Q 027010           30 ECNICFDLAQ---DPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCK   72 (229)
Q Consensus        30 ~C~ICld~~~---~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR   72 (229)
                      +|+||++.+.   ..+.++|||.||..||.+|++.+   .+||+||
T Consensus         2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~---~~CP~CR   44 (44)
T PF13639_consen    2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRN---NSCPVCR   44 (44)
T ss_dssp             CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHS---SB-TTTH
T ss_pred             CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhC---CcCCccC
Confidence            6999999884   45678999999999999999964   4999997

...

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.04  E-value=1.6e-10  Score=100.65  Aligned_cols=49  Identities=33%  Similarity=0.899  Sum_probs=41.0

Q ss_pred             CCCCccccccccCCCCc--------EEccCCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           25 EAGNFECNICFDLAQDP--------IVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        25 ~~~~~~C~ICld~~~~p--------v~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      ...+.+|+||++.+.++        +.++|+|.||..||.+|++.+   .+||+||..+.
T Consensus       171 ~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~---~tCPlCR~~~~  227 (238)
T PHA02929        171 RSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEK---NTCPVCRTPFI  227 (238)
T ss_pred             CCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcC---CCCCCCCCEee
Confidence            34568999999987653        457899999999999999954   49999999877

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.99  E-value=3.1e-10  Score=105.23  Aligned_cols=57  Identities=33%  Similarity=0.759  Sum_probs=48.7

Q ss_pred             CCCCCCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCccccccccccc
Q 027010           22 SNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLV   81 (229)
Q Consensus        22 ~~~~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~   81 (229)
                      ....+..+.|+||++.+.+|++++|||.||..||..|+...   ..||+|+..+...++.
T Consensus        20 l~~Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~---~~CP~Cr~~~~~~~Lr   76 (397)
T TIGR00599        20 LYPLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQ---PKCPLCRAEDQESKLR   76 (397)
T ss_pred             ccccccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCC---CCCCCCCCccccccCc
Confidence            34466789999999999999999999999999999999853   4899999988765543

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

>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=98.96  E-value=5e-10  Score=71.22  Aligned_cols=40  Identities=48%  Similarity=1.231  Sum_probs=36.4

Q ss_pred             ccccccCCCCcE-EccCCCccChhHHHHHHhhCCCCCCCCCc
Q 027010           31 CNICFDLAQDPI-VTLCGHLFCWPCLYKWLHGHSNYRECPVC   71 (229)
Q Consensus        31 C~ICld~~~~pv-~l~CgH~FC~~CL~~wl~~~s~~~~CPvC   71 (229)
                      |+||++.+.+++ .++|||.||..||.+|++. .....||+|
T Consensus         1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~-~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLEN-SGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHH-TSSSBTTTT
T ss_pred             CCcCCccccCCCEEecCCCcchHHHHHHHHHh-cCCccCCcC
Confidence            899999999999 8999999999999999996 346789988

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 ....

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

Probab=98.96  E-value=3.8e-10  Score=81.10  Aligned_cols=59  Identities=25%  Similarity=0.506  Sum_probs=47.5

Q ss_pred             CCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCccccccccccccccCCC
Q 027010           27 GNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGRG   87 (229)
Q Consensus        27 ~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~~~~   87 (229)
                      +.+.|+|+.+++.+||+++|||+|+..||.+|++.  +...||.|++.+..++++|+....
T Consensus         3 ~~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~--~~~~~P~t~~~l~~~~l~pn~~Lk   61 (73)
T PF04564_consen    3 DEFLCPITGELMRDPVILPSGHTYERSAIERWLEQ--NGGTDPFTRQPLSESDLIPNRALK   61 (73)
T ss_dssp             GGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCT--TSSB-TTT-SB-SGGGSEE-HHHH
T ss_pred             cccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHc--CCCCCCCCCCcCCcccceECHHHH
Confidence            57899999999999999999999999999999996  246999999999999999886553

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 ....

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

Probab=98.91  E-value=7.2e-10  Score=96.67  Aligned_cols=54  Identities=33%  Similarity=0.913  Sum_probs=46.1

Q ss_pred             CCCCccccccccCCCCcEEccCCCccChhHHHH-HHhhCCCCCCCCCcccccccccc
Q 027010           25 EAGNFECNICFDLAQDPIVTLCGHLFCWPCLYK-WLHGHSNYRECPVCKATIEEEKL   80 (229)
Q Consensus        25 ~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~-wl~~~s~~~~CPvCR~~v~~~~l   80 (229)
                      ...++.|.||++.+..|..++|||+|||.||.. |-+.+.  ..||+||+.+..+++
T Consensus       212 p~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~--~~CplCRak~~pk~v  266 (271)
T COG5574         212 PLADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKY--EFCPLCRAKVYPKKV  266 (271)
T ss_pred             cccccceeeeecccCCcccccccchhhHHHHHHHHHhhcc--ccCchhhhhccchhh
Confidence            356899999999999999999999999999999 777432  359999998876665

>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=98.87  E-value=2.2e-09  Score=68.02  Aligned_cols=44  Identities=45%  Similarity=1.254  Sum_probs=36.9

Q ss_pred             cccccccCCCCcEEcc-CCCccChhHHHHHHhhCCCCCCCCCccccc
Q 027010           30 ECNICFDLAQDPIVTL-CGHLFCWPCLYKWLHGHSNYRECPVCKATI   75 (229)
Q Consensus        30 ~C~ICld~~~~pv~l~-CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v   75 (229)
                      +|+||++.+.+++.+. |||.||..|+..|++.  ....||+||..+
T Consensus         1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~--~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKS--GKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhhCceEecCCCChhcHHHHHHHHHh--CcCCCCCCCCcC
Confidence            5999999997776655 9999999999999985  345899998753

>PHA02926 zinc finger-like protein; Provisional

Probab=98.81  E-value=2.9e-09  Score=91.12  Aligned_cols=53  Identities=25%  Similarity=0.836  Sum_probs=41.9

Q ss_pred             CCCCCccccccccCCCC---------cEEccCCCccChhHHHHHHhhCC---CCCCCCCcccccc
Q 027010           24 SEAGNFECNICFDLAQD---------PIVTLCGHLFCWPCLYKWLHGHS---NYRECPVCKATIE   76 (229)
Q Consensus        24 ~~~~~~~C~ICld~~~~---------pv~l~CgH~FC~~CL~~wl~~~s---~~~~CPvCR~~v~   76 (229)
                      ..+.+.+|+||+|...+         ++..+|+|.||..||.+|.+.+.   ....||+||..+.
T Consensus       166 ~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~  230 (242)
T PHA02926        166 RVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR  230 (242)
T ss_pred             hccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence            34567899999998633         35679999999999999998531   2457999999877

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

Probab=98.81  E-value=9e-09  Score=93.73  Aligned_cols=48  Identities=31%  Similarity=0.705  Sum_probs=40.9

Q ss_pred             ccccccccCCCCc---EEccCCCccChhHHHHHHhhCCCCCCCCCcccccccc
Q 027010           29 FECNICFDLAQDP---IVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEE   78 (229)
Q Consensus        29 ~~C~ICld~~~~p---v~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~   78 (229)
                      ..|.||+|.+++.   +++||+|.||..||..|+...  ...||+||+++...
T Consensus       230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~--r~~CPvCK~di~~~  280 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQT--RTFCPVCKRDIRTD  280 (348)
T ss_pred             ceEEEeecccccCCeeeEecCCCchhhccchhhHhhc--CccCCCCCCcCCCC
Confidence            7999999999865   568999999999999999964  35699999977643

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

Probab=98.77  E-value=4.2e-09  Score=68.32  Aligned_cols=38  Identities=42%  Similarity=0.928  Sum_probs=23.7

Q ss_pred             ccccccCCCC----cEEccCCCccChhHHHHHHhhC-CCCCCCC
Q 027010           31 CNICFDLAQD----PIVTLCGHLFCWPCLYKWLHGH-SNYRECP   69 (229)
Q Consensus        31 C~ICld~~~~----pv~l~CgH~FC~~CL~~wl~~~-s~~~~CP   69 (229)
                      |+||.+ +.+    |++++|||+||.+||.++++.. ....+||
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 777    8999999999999999999964 2567787

>smart00184 RING Ring finger

Probab=98.74  E-value=9.6e-09  Score=62.79  Aligned_cols=39  Identities=46%  Similarity=1.292  Sum_probs=34.7

Q ss_pred             ccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCc
Q 027010           31 CNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVC   71 (229)
Q Consensus        31 C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvC   71 (229)
                      |+||++..++++.++|||.||..|+..|++.  ....||+|
T Consensus         1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~--~~~~CP~C   39 (39)
T smart00184        1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKS--GNNTCPIC   39 (39)
T ss_pred             CCcCccCCCCcEEecCCChHHHHHHHHHHHh--CcCCCCCC
Confidence            8999999999999999999999999999982  34579987

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)

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

Probab=98.72  E-value=1.1e-08  Score=73.62  Aligned_cols=41  Identities=37%  Similarity=1.089  Sum_probs=32.8

Q ss_pred             ccccccccCCCCc-------------EEccCCCccChhHHHHHHhhCCCCCCCCCcc
Q 027010           29 FECNICFDLAQDP-------------IVTLCGHLFCWPCLYKWLHGHSNYRECPVCK   72 (229)
Q Consensus        29 ~~C~ICld~~~~p-------------v~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR   72 (229)
                      ..|.||++.+.++             +...|||.||..||.+|++.+.   +||+||
T Consensus        20 d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~---~CP~CR   73 (73)
T PF12678_consen   20 DNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNN---TCPLCR   73 (73)
T ss_dssp             SBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSS---B-TTSS
T ss_pred             CcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCC---cCCCCC
Confidence            3499999998432             3358999999999999999554   999997

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 ....

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.72  E-value=1e-08  Score=66.55  Aligned_cols=41  Identities=44%  Similarity=1.074  Sum_probs=34.8

Q ss_pred             cccccccCC---CCcEEccCCCccChhHHHHHHhhCCCCCCCCCccc
Q 027010           30 ECNICFDLA---QDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKA   73 (229)
Q Consensus        30 ~C~ICld~~---~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~   73 (229)
                      +|+||.+.+   ..+++++|||+||..|+.++..   ....||+||+
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~---~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKG---KSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcC---CCCCCcCCCC
Confidence            599999988   3567899999999999998883   4569999985

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

Probab=98.67  E-value=5.9e-09  Score=93.84  Aligned_cols=56  Identities=34%  Similarity=0.802  Sum_probs=48.9

Q ss_pred             CCCCCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCccccccccccc
Q 027010           23 NSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLV   81 (229)
Q Consensus        23 ~~~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~   81 (229)
                      ...+..+.|-||.|.+..|++++|+|.||.-||..+|..+.   .||.|+..+.+..|.
T Consensus        18 k~lD~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~~p---~CP~C~~~~~Es~Lr   73 (442)
T KOG0287|consen   18 KTLDDLLRCGICFEYFNIPMITPCSHTFCSLCIRKFLSYKP---QCPTCCVTVTESDLR   73 (442)
T ss_pred             hhhHHHHHHhHHHHHhcCceeccccchHHHHHHHHHhccCC---CCCceecccchhhhh
Confidence            34556789999999999999999999999999999999554   999999998876553

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

Probab=98.63  E-value=5.3e-08  Score=88.74  Aligned_cols=50  Identities=30%  Similarity=0.826  Sum_probs=41.4

Q ss_pred             CCCCCccccccccCC-CC------------cEEccCCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           24 SEAGNFECNICFDLA-QD------------PIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        24 ~~~~~~~C~ICld~~-~~------------pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      -.+++..|.||+|.+ ..            |..++|||.+|..|++.|++.+   ++||+||.++-
T Consensus       283 l~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERq---QTCPICr~p~i  345 (491)
T COG5243         283 LTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQ---QTCPICRRPVI  345 (491)
T ss_pred             hcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhc---cCCCcccCccc
Confidence            356778999999984 32            3678999999999999999954   49999999853

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

Probab=98.54  E-value=3.9e-08  Score=87.03  Aligned_cols=55  Identities=33%  Similarity=0.657  Sum_probs=47.2

Q ss_pred             CCCCCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCcccccccccc
Q 027010           23 NSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKL   80 (229)
Q Consensus        23 ~~~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l   80 (229)
                      ...+.-+.|-||.+.++.|+.++|||.||.-||.++|..+.   .||+||.+..+..+
T Consensus        20 ~~LDs~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~qp---~CP~Cr~~~~esrl   74 (391)
T COG5432          20 KGLDSMLRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQP---FCPVCREDPCESRL   74 (391)
T ss_pred             hcchhHHHhhhhhheeecceecccccchhHHHHHHHhcCCC---CCccccccHHhhhc
Confidence            33456688999999999999999999999999999999655   99999997765443

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

Probab=98.51  E-value=3e-08  Score=84.97  Aligned_cols=47  Identities=32%  Similarity=0.875  Sum_probs=42.4

Q ss_pred             CCCCCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCcc
Q 027010           23 NSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCK   72 (229)
Q Consensus        23 ~~~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR   72 (229)
                      ....+.+.|+||++.+.+|++++|+|.||..|+..++.   ....||.||
T Consensus         8 ~~~~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~---~~~~Cp~cr   54 (386)
T KOG2177|consen    8 EVLQEELTCPICLEYFREPVLLPCGHNFCRACLTRSWE---GPLSCPVCR   54 (386)
T ss_pred             hhccccccChhhHHHhhcCccccccchHhHHHHHHhcC---CCcCCcccC
Confidence            44567899999999999999999999999999999998   457999999

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

Probab=98.47  E-value=7.9e-08  Score=85.57  Aligned_cols=48  Identities=38%  Similarity=0.787  Sum_probs=39.8

Q ss_pred             CCccccccccCCCC---cEEccCCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           27 GNFECNICFDLAQD---PIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        27 ~~~~C~ICld~~~~---pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      .-.+|.||++.+..   -+++||.|.||..|+..|+..  .+..||+||.++.
T Consensus       322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~--y~~~CPvCrt~iP  372 (374)
T COG5540         322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLG--YSNKCPVCRTAIP  372 (374)
T ss_pred             CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhh--hcccCCccCCCCC
Confidence            34899999998853   367999999999999999984  3458999998765

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

Probab=98.42  E-value=1e-07  Score=92.26  Aligned_cols=53  Identities=26%  Similarity=0.691  Sum_probs=44.9

Q ss_pred             CCCCCccccccccCCCC-----cEEccCCCccChhHHHHHHhhCCCCCCCCCccccccccc
Q 027010           24 SEAGNFECNICFDLAQD-----PIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEK   79 (229)
Q Consensus        24 ~~~~~~~C~ICld~~~~-----pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~   79 (229)
                      ....+..|+||.|.+..     +..++|+|.||..|+.+|++.++   +||.||..+....
T Consensus       287 ~~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~q---tCP~CR~~~~~~~  344 (543)
T KOG0802|consen  287 LALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQ---TCPTCRTVLYDYV  344 (543)
T ss_pred             hhhcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhC---cCCcchhhhhccc
Confidence            34567899999999988     78999999999999999999654   9999999555433

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

Probab=98.41  E-value=2.4e-07  Score=68.35  Aligned_cols=49  Identities=33%  Similarity=0.768  Sum_probs=38.2

Q ss_pred             CccccccccCCC-----------C-c-EEccCCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           28 NFECNICFDLAQ-----------D-P-IVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        28 ~~~C~ICld~~~-----------~-p-v~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      +..|.||...+.           + | +.-.|+|.||..||.+|+..++....||.||+...
T Consensus        21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK   82 (85)
T ss_pred             CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence            566777776654           1 2 33479999999999999997655789999999765

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

Probab=98.35  E-value=1.2e-07  Score=66.14  Aligned_cols=52  Identities=31%  Similarity=0.811  Sum_probs=26.9

Q ss_pred             CCccccccccCCCCcEE-ccCCCccChhHHHHHHhhCCCCCCCCCccccccccccccc
Q 027010           27 GNFECNICFDLAQDPIV-TLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPL   83 (229)
Q Consensus        27 ~~~~C~ICld~~~~pv~-l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~   83 (229)
                      +...|++|.+.+++||. ..|.|.||+.|+..-+.     ..||+|+.+...+++.-+
T Consensus         6 ~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~-----~~CPvC~~Paw~qD~~~N   58 (65)
T PF14835_consen    6 ELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIG-----SECPVCHTPAWIQDIQIN   58 (65)
T ss_dssp             HTTS-SSS-S--SS-B---SSS--B-TTTGGGGTT-----TB-SSS--B-S-SS----
T ss_pred             HhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcC-----CCCCCcCChHHHHHHHhh
Confidence            45789999999999975 78999999999976444     269999998877666544

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

Probab=98.26  E-value=2.3e-07  Score=90.93  Aligned_cols=56  Identities=27%  Similarity=0.704  Sum_probs=49.4

Q ss_pred             CCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCcccccccccccccc
Q 027010           27 GNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLY   84 (229)
Q Consensus        27 ~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~   84 (229)
                      .-+.|++|-+-.++.+++.|+|.||..|+.+.+..+  ..+||.|.+.+...++.++|
T Consensus       642 ~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etR--qRKCP~Cn~aFganDv~~I~  697 (698)
T KOG0978|consen  642 ELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETR--QRKCPKCNAAFGANDVHRIH  697 (698)
T ss_pred             hceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHh--cCCCCCCCCCCCcccccccC
Confidence            457899999999999999999999999999988863  35999999999988887765

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

Probab=98.24  E-value=1e-06  Score=79.99  Aligned_cols=57  Identities=32%  Similarity=0.738  Sum_probs=45.5

Q ss_pred             CCCCCccccccccCCCCcEEccCCCc-cChhHHHHHHhhCCCCCCCCCccccccccccccccC
Q 027010           24 SEAGNFECNICFDLAQDPIVTLCGHL-FCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYG   85 (229)
Q Consensus        24 ~~~~~~~C~ICld~~~~pv~l~CgH~-FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~~   85 (229)
                      ..+...+|.||+...+|-+++||.|. .|..|.+...-++   ..||+||+.+.  .+..++.
T Consensus       286 ~~~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr~q~---n~CPICRqpi~--~ll~i~~  343 (349)
T KOG4265|consen  286 ESESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLRYQT---NNCPICRQPIE--ELLEIYV  343 (349)
T ss_pred             cccCCCeeEEEecCCcceEEecchhhehhHhHHHHHHHhh---cCCCccccchH--hhheecc
Confidence            33556899999999999999999998 8999988765433   38999999987  4444444

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

Probab=98.20  E-value=2.8e-07  Score=62.23  Aligned_cols=52  Identities=29%  Similarity=0.832  Sum_probs=43.3

Q ss_pred             CccccccccCCCCcEEccCCCc-cChhHHHHHHhhCCCCCCCCCccccccccccccc
Q 027010           28 NFECNICFDLAQDPIVTLCGHL-FCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPL   83 (229)
Q Consensus        28 ~~~C~ICld~~~~pv~l~CgH~-FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~   83 (229)
                      +.||.||.|...|.|...|||. .|..|-.+.++.  ....||+||+++.  +++.-
T Consensus         7 ~dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~--~~g~CPiCRapi~--dvIkT   59 (62)
T KOG4172|consen    7 SDECTICYEHPVDSVLYTCGHMCMCYACGLRLKKA--LHGCCPICRAPIK--DVIKT   59 (62)
T ss_pred             ccceeeeccCcchHHHHHcchHHhHHHHHHHHHHc--cCCcCcchhhHHH--HHHHh
Confidence            4789999999999999999997 899999887774  3459999999987  55443

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.19  E-value=1.4e-06  Score=78.33  Aligned_cols=52  Identities=23%  Similarity=0.653  Sum_probs=38.9

Q ss_pred             CCccccccccC-CCCcE----EccCCCccChhHHHHHHhhCCCCCCCCCcccccccccc
Q 027010           27 GNFECNICFDL-AQDPI----VTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKL   80 (229)
Q Consensus        27 ~~~~C~ICld~-~~~pv----~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l   80 (229)
                      ++..||+|... +..|.    +.+|||.||..|+...+..  +...||.|+..+..+.+
T Consensus         2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~--~~~~CP~C~~~lrk~~f   58 (309)
T TIGR00570         2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVR--GSGSCPECDTPLRKNNF   58 (309)
T ss_pred             CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcC--CCCCCCCCCCccchhhc
Confidence            34689999974 33332    2379999999999997764  34589999998876653

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).

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

Probab=98.00  E-value=3.1e-06  Score=75.43  Aligned_cols=53  Identities=26%  Similarity=0.663  Sum_probs=44.0

Q ss_pred             CCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCcccccccccc
Q 027010           26 AGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKL   80 (229)
Q Consensus        26 ~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l   80 (229)
                      ....+|+||+....-|+.+.|+|.||..||+--.+.  .+..|++||.++..+-+
T Consensus         5 ~~~~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~n--dk~~CavCR~pids~i~   57 (324)
T KOG0824|consen    5 TKKKECLICYNTGNCPVNLYCFHKFCYICIKGSYKN--DKKTCAVCRFPIDSTID   57 (324)
T ss_pred             ccCCcceeeeccCCcCccccccchhhhhhhcchhhc--CCCCCceecCCCCcchh
Confidence            356789999999999999999999999999875553  34579999999986543

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

Probab=97.99  E-value=2.8e-06  Score=79.12  Aligned_cols=52  Identities=38%  Similarity=0.876  Sum_probs=45.3

Q ss_pred             CCCCCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCccccccc
Q 027010           23 NSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEE   77 (229)
Q Consensus        23 ~~~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~   77 (229)
                      .....+++|.||...+.+|++++|||.||..||.+-+.   +...||.||..+.+
T Consensus        79 ~~~~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld---~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   79 EEIRSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLD---QETECPLCRDELVE  130 (398)
T ss_pred             ccccchhhhhhhHhhcCCCccccccccccHHHHHHHhc---cCCCCccccccccc
Confidence            34578899999999999999999999999999999766   45599999998763

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

Probab=97.90  E-value=1.1e-06  Score=79.82  Aligned_cols=50  Identities=32%  Similarity=0.781  Sum_probs=41.9

Q ss_pred             CCCCccccccccCCCCcEEc-cCCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           25 EAGNFECNICFDLAQDPIVT-LCGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        25 ~~~~~~C~ICld~~~~pv~l-~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      ...++.|+||+++++....+ .|+|.||..||..-++.  ....||.||+.+.
T Consensus        40 ~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~--gn~ecptcRk~l~   90 (381)
T KOG0311|consen   40 FDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRS--GNNECPTCRKKLV   90 (381)
T ss_pred             hhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHh--cCCCCchHHhhcc
Confidence            34678999999999988776 59999999999887774  4569999999764

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

Probab=97.82  E-value=1e-05  Score=74.60  Aligned_cols=53  Identities=32%  Similarity=0.770  Sum_probs=44.9

Q ss_pred             ccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCcccccccccccc
Q 027010           29 FECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVP   82 (229)
Q Consensus        29 ~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p   82 (229)
                      ..|.||-|.-+|-.+-+|||+.|..||..|...+ +...||.||..|+.+..+-
T Consensus       370 eLCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd-~gq~CPFCRcEIKGte~vi  422 (563)
T KOG1785|consen  370 ELCKICAENDKDVKIEPCGHLLCTSCLAAWQDSD-EGQTCPFCRCEIKGTEPVI  422 (563)
T ss_pred             HHHHHhhccCCCcccccccchHHHHHHHhhcccC-CCCCCCceeeEecccccee
Confidence            4599999999998899999999999999998754 3679999999998655443

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

Probab=97.80  E-value=1.3e-05  Score=55.06  Aligned_cols=45  Identities=24%  Similarity=0.629  Sum_probs=31.9

Q ss_pred             CCCCccccccccCCCCcEE-ccCCCccChhHHHHHHhhCCCCCCCCC
Q 027010           25 EAGNFECNICFDLAQDPIV-TLCGHLFCWPCLYKWLHGHSNYRECPV   70 (229)
Q Consensus        25 ~~~~~~C~ICld~~~~pv~-l~CgH~FC~~CL~~wl~~~s~~~~CPv   70 (229)
                      ...++.|||.+..+++||. ..|||+|....|.+|++. .....||+
T Consensus         8 ~~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~-~~~~~CPv   53 (57)
T PF11789_consen    8 GTISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQR-NGSKRCPV   53 (57)
T ss_dssp             SB--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTT-TS-EE-SC
T ss_pred             cEeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHh-cCCCCCCC
Confidence            3456899999999999988 589999999999999953 35789998

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

Probab=97.77  E-value=8.6e-06  Score=58.11  Aligned_cols=50  Identities=36%  Similarity=0.890  Sum_probs=25.3

Q ss_pred             CccccccccCCC-C---cEE----ccCCCccChhHHHHHHhhCCC--------CCCCCCccccccc
Q 027010           28 NFECNICFDLAQ-D---PIV----TLCGHLFCWPCLYKWLHGHSN--------YRECPVCKATIEE   77 (229)
Q Consensus        28 ~~~C~ICld~~~-~---pv~----l~CgH~FC~~CL~~wl~~~s~--------~~~CPvCR~~v~~   77 (229)
                      +.+|.||.+... +   |++    ..|++.||..||.+|+.....        ..+||.|+++++-
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            578999998764 2   222    269999999999999984211        1369999998863

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

Probab=97.77  E-value=1.6e-05  Score=74.14  Aligned_cols=57  Identities=35%  Similarity=0.860  Sum_probs=48.0

Q ss_pred             CCCCCCccccccccCCCCcEE-ccCCCccChhHHHHHHhhCCCCCCCCCcccccccccccc
Q 027010           23 NSEAGNFECNICFDLAQDPIV-TLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVP   82 (229)
Q Consensus        23 ~~~~~~~~C~ICld~~~~pv~-l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p   82 (229)
                      ...++++.|++|...+.+|+. +.|||.||..|+..|+..   ...||.|+..+...+.++
T Consensus        16 ~~~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~---~~~cp~~~~~~~~~~~~~   73 (391)
T KOG0297|consen   16 RPLDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSN---HQKCPVCRQELTQAEELP   73 (391)
T ss_pred             CCCcccccCccccccccCCCCCCCCCCcccccccchhhcc---CcCCcccccccchhhccC
Confidence            336778999999999999999 499999999999999995   459999988776555443

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

Probab=97.75  E-value=1.1e-05  Score=76.61  Aligned_cols=56  Identities=32%  Similarity=0.780  Sum_probs=47.4

Q ss_pred             CCCCCccccccccCCCCcEEccCCCccChhHHHHHHhhC--CCCCCCCCccccccccc
Q 027010           24 SEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGH--SNYRECPVCKATIEEEK   79 (229)
Q Consensus        24 ~~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~--s~~~~CPvCR~~v~~~~   79 (229)
                      ...++.+|.+|.|..++++++.|.|.||..|+.+|...-  +...+||+|...++.+.
T Consensus       532 enk~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDl  589 (791)
T KOG1002|consen  532 ENKGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDL  589 (791)
T ss_pred             cccCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccc
Confidence            345678999999999999999999999999999998842  34589999998887653

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

Probab=97.75  E-value=2.4e-06  Score=76.92  Aligned_cols=51  Identities=29%  Similarity=0.684  Sum_probs=43.9

Q ss_pred             CCCCccccccccCCCCcEE-ccCCCccChhHHHHHHhhCCCCCCCCCcccccccc
Q 027010           25 EAGNFECNICFDLAQDPIV-TLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEE   78 (229)
Q Consensus        25 ~~~~~~C~ICld~~~~pv~-l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~   78 (229)
                      ......|.+|...+.|+.+ +.|-|.||..||.+++..   ...||.|...+...
T Consensus        12 ~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~---~~~CP~C~i~ih~t   63 (331)
T KOG2660|consen   12 LNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEE---SKYCPTCDIVIHKT   63 (331)
T ss_pred             cccceehhhccceeecchhHHHHHHHHHHHHHHHHHHH---hccCCccceeccCc
Confidence            3456889999999999965 689999999999999995   55999999988754

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

Probab=97.74  E-value=1.1e-05  Score=70.99  Aligned_cols=57  Identities=19%  Similarity=0.507  Sum_probs=43.7

Q ss_pred             CCCCCCccccccccCCCCc----------EEccCCCccChhHHHHHHhhCCCCCCCCCcccccccccc
Q 027010           23 NSEAGNFECNICFDLAQDP----------IVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKL   80 (229)
Q Consensus        23 ~~~~~~~~C~ICld~~~~p----------v~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l   80 (229)
                      ....++..|.||-..+...          -.+.|+|+||..||.-|.... .+++||.||+.+..+.+
T Consensus       219 tkhl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivG-KkqtCPYCKekVdl~rm  285 (328)
T KOG1734|consen  219 TKHLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVG-KKQTCPYCKEKVDLKRM  285 (328)
T ss_pred             CCCCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeec-CCCCCchHHHHhhHhhh
Confidence            3344667899999776543          357899999999999998754 36799999998875544

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

Probab=97.74  E-value=1.6e-05  Score=74.19  Aligned_cols=50  Identities=28%  Similarity=0.728  Sum_probs=40.9

Q ss_pred             CCCCCCCccccccccCCCCcE----EccCCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           22 SNSEAGNFECNICFDLAQDPI----VTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        22 ~~~~~~~~~C~ICld~~~~pv----~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      .-...+.-+||||++.+.+.+    .+.|.|.|+..|+..|+..     +||+||.-..
T Consensus       169 ~~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~-----scpvcR~~q~  222 (493)
T KOG0804|consen  169 PTGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDS-----SCPVCRYCQS  222 (493)
T ss_pred             CCCcccCCCcchhHhhcCccccceeeeecccccchHHHhhcccC-----cChhhhhhcC
Confidence            344567789999999997654    4789999999999999983     8999997554

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

Probab=97.73  E-value=1.3e-05  Score=67.80  Aligned_cols=48  Identities=35%  Similarity=0.688  Sum_probs=40.5

Q ss_pred             CCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           26 AGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        26 ~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      .--+.|-||.+.++.||++.|||.||..|..+-.+..   ..|-+|.+...
T Consensus       194 ~IPF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~kg---~~C~~Cgk~t~  241 (259)
T COG5152         194 KIPFLCGICKKDYESPVVTECGHSFCSLCAIRKYQKG---DECGVCGKATY  241 (259)
T ss_pred             CCceeehhchhhccchhhhhcchhHHHHHHHHHhccC---Ccceecchhhc
Confidence            3457899999999999999999999999998877743   48999977543

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

Probab=97.72  E-value=3.2e-05  Score=68.20  Aligned_cols=50  Identities=28%  Similarity=0.709  Sum_probs=41.2

Q ss_pred             CCCccccccccCCCCcEEc-cCCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           26 AGNFECNICFDLAQDPIVT-LCGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        26 ~~~~~C~ICld~~~~pv~l-~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      +.+.+|++|-+....|.+. +|+|.||..|+.+-...+ ...+||.|...+.
T Consensus       237 t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~-asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  237 TSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWD-ASFTCPLCGENVE  287 (298)
T ss_pred             cCCceeeccCCCCCCCeeeccccceeehhhhhhhhcch-hhcccCccCCCCc
Confidence            4568899999999999776 599999999998866643 3579999987665

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

Probab=97.67  E-value=1.9e-05  Score=74.48  Aligned_cols=50  Identities=28%  Similarity=0.745  Sum_probs=39.2

Q ss_pred             CCCCccccccccCCC-----------------CcEEccCCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           25 EAGNFECNICFDLAQ-----------------DPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        25 ~~~~~~C~ICld~~~-----------------~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      .+....|+||+....                 +-.++||.|+|+..||.+|...  .+..||+||.++.
T Consensus       568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~--ykl~CPvCR~pLP  634 (636)
T KOG0828|consen  568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDT--YKLICPVCRCPLP  634 (636)
T ss_pred             hhccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhh--hcccCCccCCCCC
Confidence            445678999997653                 1245799999999999999994  2358999998764

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

Probab=97.61  E-value=1.2e-05  Score=74.37  Aligned_cols=61  Identities=30%  Similarity=0.703  Sum_probs=49.8

Q ss_pred             CCccccccccCCCCc-----EEccCCCccChhHHHHHHhhCCCCCCCCCccccccccccccccCCCC
Q 027010           27 GNFECNICFDLAQDP-----IVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGRGK   88 (229)
Q Consensus        27 ~~~~C~ICld~~~~p-----v~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~~~~~   88 (229)
                      ....||||+|.+..+     +.+.|||.|-..||+.|+. +.....||.|.....++.+.+.|....
T Consensus         3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~-k~~~~~cp~c~~katkr~i~~e~alR~   68 (463)
T KOG1645|consen    3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLG-KKTKMQCPLCSGKATKRQIRPEYALRV   68 (463)
T ss_pred             ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHh-hhhhhhCcccCChhHHHHHHHHHHHHH
Confidence            346899999998766     4578999999999999996 556789999998888777777665443

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

Probab=97.54  E-value=8.2e-05  Score=49.45  Aligned_cols=42  Identities=33%  Similarity=0.886  Sum_probs=33.6

Q ss_pred             ccccccc--CCCCcEEccCC-----CccChhHHHHHHhhCCCCCCCCCcc
Q 027010           30 ECNICFD--LAQDPIVTLCG-----HLFCWPCLYKWLHGHSNYRECPVCK   72 (229)
Q Consensus        30 ~C~ICld--~~~~pv~l~Cg-----H~FC~~CL~~wl~~~s~~~~CPvCR   72 (229)
                      .|-||++  ...++.+.||.     |.+|..||.+|+..+. ..+||+|+
T Consensus         1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~-~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESG-NKTCEICK   49 (49)
T ss_pred             CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcC-CCcCCCCC
Confidence            4889997  44567788985     7899999999998653 56999995

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

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

Probab=97.53  E-value=7.1e-05  Score=67.52  Aligned_cols=60  Identities=25%  Similarity=0.664  Sum_probs=48.5

Q ss_pred             CCCCCCCccccccccCCCCcEEcc-CCCccChhHHHHHHhhCCCCCCCCCcccccccccccccc
Q 027010           22 SNSEAGNFECNICFDLAQDPIVTL-CGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLY   84 (229)
Q Consensus        22 ~~~~~~~~~C~ICld~~~~pv~l~-CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~   84 (229)
                      .....+...|+||+....+|.++. -|-+||+.|+..++..+.   .||+-..+...++++.++
T Consensus       294 e~l~~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~---~CPVT~~p~~v~~l~rl~  354 (357)
T KOG0826|consen  294 ELLPPDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYG---HCPVTGYPASVDHLIRLF  354 (357)
T ss_pred             ccCCCccccChhHHhccCCCceEEecceEEeHHHHHHHHHhcC---CCCccCCcchHHHHHHHh
Confidence            344556788999999999987765 599999999999999554   999988887777776655

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

Probab=97.47  E-value=0.0001  Score=67.31  Aligned_cols=53  Identities=25%  Similarity=0.642  Sum_probs=46.2

Q ss_pred             CCCCCCCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           21 NSNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        21 ~~~~~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      .+-.+.++..|+||..-...++..||+|.-|..||.+.+.   +.+.|=.|+..+.
T Consensus       415 ~~lp~sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlm---N~k~CFfCktTv~  467 (489)
T KOG4692|consen  415 KDLPDSEDNLCPICYAGPINAVFAPCSHRSCYGCITQHLM---NCKRCFFCKTTVI  467 (489)
T ss_pred             CCCCCcccccCcceecccchhhccCCCCchHHHHHHHHHh---cCCeeeEecceee
Confidence            3445567889999999999999999999999999999999   5669999998776

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

Probab=97.41  E-value=8.5e-05  Score=68.09  Aligned_cols=56  Identities=27%  Similarity=0.767  Sum_probs=43.4

Q ss_pred             CCCccccccccCCCCcE-----E---ccCCCccChhHHHHHHhhCC----CCCCCCCccccccccccccc
Q 027010           26 AGNFECNICFDLAQDPI-----V---TLCGHLFCWPCLYKWLHGHS----NYRECPVCKATIEEEKLVPL   83 (229)
Q Consensus        26 ~~~~~C~ICld~~~~pv-----~---l~CgH~FC~~CL~~wl~~~s----~~~~CPvCR~~v~~~~l~p~   83 (229)
                      ..+..|-||++...+..     .   .+|.|.||..||..|-..+.    -...||.||....  .+.+.
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~--~v~pS  226 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS--FVNPS  226 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc--ccccc
Confidence            56789999999887665     2   57999999999999986432    1579999998766  45444

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

Probab=97.39  E-value=8.8e-05  Score=68.31  Aligned_cols=54  Identities=33%  Similarity=0.895  Sum_probs=40.3

Q ss_pred             CccccccccCCCCcE----EccCCCccChhHHHHHHhhCCCCCCCCCccccccccccc
Q 027010           28 NFECNICFDLAQDPI----VTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLV   81 (229)
Q Consensus        28 ~~~C~ICld~~~~pv----~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~   81 (229)
                      ..+|.||.|......    +-.|||+|+..|+.+|++.......||+|+-.+....+.
T Consensus         4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~r~~~   61 (465)
T KOG0827|consen    4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQERHVA   61 (465)
T ss_pred             cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccceeee
Confidence            468999966554322    235999999999999999776557999999666655544

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

Probab=97.36  E-value=5.1e-05  Score=76.36  Aligned_cols=51  Identities=35%  Similarity=0.909  Sum_probs=40.0

Q ss_pred             CCCCccccccccCCC--C---c--EEccCCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           25 EAGNFECNICFDLAQ--D---P--IVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        25 ~~~~~~C~ICld~~~--~---p--v~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      .++..+|+||...+.  +   |  ....|.|.||..|+++|.+.. +..+||+||..++
T Consensus      1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss-~~s~CPlCRseit 1523 (1525)
T COG5219        1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASS-ARSNCPLCRSEIT 1523 (1525)
T ss_pred             cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhc-CCCCCCccccccc
Confidence            456789999997664  1   1  234699999999999999964 4679999997664

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

Probab=97.32  E-value=0.00013  Score=65.34  Aligned_cols=58  Identities=29%  Similarity=0.679  Sum_probs=45.1

Q ss_pred             CccccccccCCCCcEEc-cCCCccChhHHHHHHhhCCCCCCCCCcc-ccccccccccccCCC
Q 027010           28 NFECNICFDLAQDPIVT-LCGHLFCWPCLYKWLHGHSNYRECPVCK-ATIEEEKLVPLYGRG   87 (229)
Q Consensus        28 ~~~C~ICld~~~~pv~l-~CgH~FC~~CL~~wl~~~s~~~~CPvCR-~~v~~~~l~p~~~~~   87 (229)
                      .+.|+.|..++++|+.+ -|+|.||..||..-|..  ....||.|. +.+-.+.+.|.+...
T Consensus       274 ~LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~d--sDf~CpnC~rkdvlld~l~pD~dk~  333 (427)
T COG5222         274 SLKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLD--SDFKCPNCSRKDVLLDGLTPDIDKK  333 (427)
T ss_pred             cccCcchhhhhhCcccCccccchHHHHHHhhhhhh--ccccCCCcccccchhhccCccHHHH
Confidence            38899999999999998 58999999999976663  346999994 455555666655443

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

Probab=97.31  E-value=7.1e-05  Score=66.70  Aligned_cols=46  Identities=37%  Similarity=0.756  Sum_probs=39.8

Q ss_pred             CccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           28 NFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        28 ~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      -+.|-||...+.+||++.|+|.||..|...-++.   ...|.+|.+.+.
T Consensus       241 Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk---~~~c~vC~~~t~  286 (313)
T KOG1813|consen  241 PFKCFICRKYFYRPVVTKCGHYFCEVCALKPYQK---GEKCYVCSQQTH  286 (313)
T ss_pred             CccccccccccccchhhcCCceeehhhhcccccc---CCcceecccccc
Confidence            3669999999999999999999999999877774   348999988664

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.27  E-value=0.00023  Score=62.17  Aligned_cols=59  Identities=17%  Similarity=0.383  Sum_probs=50.8

Q ss_pred             CCccccccccCCCCc----EEccCCCccChhHHHHHHhhCCCCCCCCCccccccccccccccCCCC
Q 027010           27 GNFECNICFDLAQDP----IVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGRGK   88 (229)
Q Consensus        27 ~~~~C~ICld~~~~p----v~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~~~~~   88 (229)
                      ..+.||||.+.+.+.    +..+|||++|..|+...++.+.   .||+|-.++..++++++...+.
T Consensus       220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~---v~pv~d~plkdrdiI~LqrGGT  282 (303)
T KOG3039|consen  220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDM---VDPVTDKPLKDRDIIGLQRGGT  282 (303)
T ss_pred             cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccc---cccCCCCcCcccceEeeecccc
Confidence            568899999999875    3468999999999999999555   9999999999999998876554

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

Probab=97.17  E-value=0.00028  Score=51.34  Aligned_cols=29  Identities=34%  Similarity=0.899  Sum_probs=25.8

Q ss_pred             cCCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           45 LCGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        45 ~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      .|.|.|+..||.+||..+.   .||++|+...
T Consensus        53 ~CnHaFH~HCI~rWL~Tk~---~CPld~q~w~   81 (88)
T COG5194          53 VCNHAFHDHCIYRWLDTKG---VCPLDRQTWV   81 (88)
T ss_pred             ecchHHHHHHHHHHHhhCC---CCCCCCceeE
Confidence            5999999999999999655   9999998765

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

Probab=97.01  E-value=0.00036  Score=63.73  Aligned_cols=49  Identities=29%  Similarity=0.703  Sum_probs=38.1

Q ss_pred             CCCCCCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           22 SNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        22 ~~~~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      .........|.||++...+.+.++|||.-|  |..-..+    ..+||+||+.+.
T Consensus       299 ~~~~~~p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs~~----l~~CPvCR~rI~  347 (355)
T KOG1571|consen  299 FRELPQPDLCVVCLDEPKSAVFVPCGHVCC--CTLCSKH----LPQCPVCRQRIR  347 (355)
T ss_pred             ccccCCCCceEEecCCccceeeecCCcEEE--chHHHhh----CCCCchhHHHHH
Confidence            344556678999999999999999999976  6654333    236999999876

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

Probab=96.95  E-value=0.00013  Score=64.94  Aligned_cols=42  Identities=36%  Similarity=0.861  Sum_probs=35.8

Q ss_pred             CccccccccCCCCcEEccCCCc-cChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           28 NFECNICFDLAQDPIVTLCGHL-FCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        28 ~~~C~ICld~~~~pv~l~CgH~-FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      +..|.||+|..+|-+.++|||. -|..|=.+       ...||+||+.+.
T Consensus       300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkr-------m~eCPICRqyi~  342 (350)
T KOG4275|consen  300 RRLCAICMDAPRDCVFLECGHMVTCTKCGKR-------MNECPICRQYIV  342 (350)
T ss_pred             HHHHHHHhcCCcceEEeecCcEEeehhhccc-------cccCchHHHHHH
Confidence            6789999999999999999996 69988542       347999999776

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

Probab=96.82  E-value=0.00045  Score=49.93  Aligned_cols=47  Identities=34%  Similarity=0.824  Sum_probs=36.2

Q ss_pred             cccccccCCCC------------cEE-ccCCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           30 ECNICFDLAQD------------PIV-TLCGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        30 ~C~ICld~~~~------------pv~-l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      .|-||.-.+.-            |.+ -.|.|.|+..||.+|+........||.||+...
T Consensus        22 ~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   22 TCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             ccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            67777755532            122 259999999999999997767789999999765

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

Probab=96.78  E-value=0.00024  Score=70.42  Aligned_cols=54  Identities=24%  Similarity=0.555  Sum_probs=39.9

Q ss_pred             CccccccccCCCCcEE---ccCCCccChhHHHHHHhhCCCCCCCCCcccccccccccccc
Q 027010           28 NFECNICFDLAQDPIV---TLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLY   84 (229)
Q Consensus        28 ~~~C~ICld~~~~pv~---l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~   84 (229)
                      ...|++|+..+.+..+   ..|+|.||..||..|-+   ...+||+||..+.+.++...+
T Consensus       123 ~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR---~aqTCPiDR~EF~~v~V~eS~  179 (1134)
T KOG0825|consen  123 ENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSR---CAQTCPVDRGEFGEVKVLEST  179 (1134)
T ss_pred             hhhhhHHHHHHHHHhhccccccccccHHHHhhhhhh---hcccCchhhhhhheeeeeccc
Confidence            4557777766655432   57999999999999999   455999999988755443333

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

Probab=96.63  E-value=0.0016  Score=51.84  Aligned_cols=52  Identities=29%  Similarity=0.651  Sum_probs=44.6

Q ss_pred             CCccccccccCCCCcEEcc----CCCccChhHHHHHHhhCCCCCCCCCcccccccc
Q 027010           27 GNFECNICFDLAQDPIVTL----CGHLFCWPCLYKWLHGHSNYRECPVCKATIEEE   78 (229)
Q Consensus        27 ~~~~C~ICld~~~~pv~l~----CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~   78 (229)
                      .-.+|+||.|.-.|...+.    ||-..|-.|-...|+.-.-...||+|+..+...
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            5689999999999887763    999999999999999766678999999887643

>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=96.61  E-value=0.0022  Score=52.53  Aligned_cols=57  Identities=19%  Similarity=0.566  Sum_probs=42.6

Q ss_pred             CCccccccccCCCCcEEccC------------CCcc-ChhHHHHHHhhCC----------------------------CC
Q 027010           27 GNFECNICFDLAQDPIVTLC------------GHLF-CWPCLYKWLHGHS----------------------------NY   65 (229)
Q Consensus        27 ~~~~C~ICld~~~~pv~l~C------------gH~F-C~~CL~~wl~~~s----------------------------~~   65 (229)
                      ++..||||+|...++|.+.|            +-.| +..||.++-+...                            ..
T Consensus         1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (162)
T PF07800_consen    1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQPE   80 (162)
T ss_pred             CCccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccccccc
Confidence            46789999999999999865            3222 5789998877321                            13


Q ss_pred             CCCCCccccccccccccc
Q 027010           66 RECPVCKATIEEEKLVPL   83 (229)
Q Consensus        66 ~~CPvCR~~v~~~~l~p~   83 (229)
                      ..||+||..|..+.++.-
T Consensus        81 L~CPLCRG~V~GWtvve~   98 (162)
T PF07800_consen   81 LACPLCRGEVKGWTVVEP   98 (162)
T ss_pred             ccCccccCceeceEEchH
Confidence            589999999998777643

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.

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

Probab=96.57  E-value=0.00071  Score=67.22  Aligned_cols=53  Identities=36%  Similarity=0.815  Sum_probs=45.4

Q ss_pred             ccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCccccccccccccc
Q 027010           29 FECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPL   83 (229)
Q Consensus        29 ~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~   83 (229)
                      ..|.||.+ ...++++.|+|.||..|+...+.... ...||.||..+..+++...
T Consensus       455 ~~c~ic~~-~~~~~it~c~h~~c~~c~~~~i~~~~-~~~~~~cr~~l~~~~l~s~  507 (674)
T KOG1001|consen  455 HWCHICCD-LDSFFITRCGHDFCVECLKKSIQQSE-NAPCPLCRNVLKEKKLLSA  507 (674)
T ss_pred             cccccccc-cccceeecccchHHHHHHHhcccccc-CCCCcHHHHHHHHHHHhhc
Confidence            89999999 88889999999999999999888543 4489999999987776543

>PF04641 Rtf2: Rtf2 RING-finger

Probab=96.50  E-value=0.0036  Score=55.33  Aligned_cols=61  Identities=25%  Similarity=0.515  Sum_probs=48.2

Q ss_pred             CCCCCccccccccCCCCc----EEccCCCccChhHHHHHHhhCCCCCCCCCccccccccccccccCCCC
Q 027010           24 SEAGNFECNICFDLAQDP----IVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGRGK   88 (229)
Q Consensus        24 ~~~~~~~C~ICld~~~~p----v~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~~~~~   88 (229)
                      .....+.|||....+..-    ...+|||+|+..+|.+.-    ....||+|-.++...+++++.....
T Consensus       109 ~~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k----~~~~Cp~c~~~f~~~DiI~Lnp~~e  173 (260)
T PF04641_consen  109 NSEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK----KSKKCPVCGKPFTEEDIIPLNPPEE  173 (260)
T ss_pred             cCCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc----ccccccccCCccccCCEEEecCCcc
Confidence            356779999999988542    235999999999999873    1247999999999999988766544

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=96.03  E-value=0.0033  Score=42.69  Aligned_cols=48  Identities=29%  Similarity=0.608  Sum_probs=36.8

Q ss_pred             CCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCccccccccc
Q 027010           27 GNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEK   79 (229)
Q Consensus        27 ~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~   79 (229)
                      ....|-.|...-...++++|||..|..|..-+-     -..||.|..++...+
T Consensus         6 ~~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~~r-----YngCPfC~~~~~~~~   53 (55)
T PF14447_consen    6 PEQPCVFCGFVGTKGTVLPCGHLICDNCFPGER-----YNGCPFCGTPFEFDD   53 (55)
T ss_pred             cceeEEEccccccccccccccceeeccccChhh-----ccCCCCCCCcccCCC
Confidence            345677888887888999999999999975332     237999998886443

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

Probab=95.90  E-value=0.0043  Score=47.36  Aligned_cols=28  Identities=29%  Similarity=0.896  Sum_probs=24.4

Q ss_pred             cCCCccChhHHHHHHhhCCCCCCCCCccccc
Q 027010           45 LCGHLFCWPCLYKWLHGHSNYRECPVCKATI   75 (229)
Q Consensus        45 ~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v   75 (229)
                      .|.|.|+..||.+|++.+.   .||+|.+.-
T Consensus        80 ~CNHaFH~hCisrWlktr~---vCPLdn~eW  107 (114)
T KOG2930|consen   80 VCNHAFHFHCISRWLKTRN---VCPLDNKEW  107 (114)
T ss_pred             ecchHHHHHHHHHHHhhcC---cCCCcCcce
Confidence            5999999999999999654   999997754

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

Probab=95.75  E-value=0.0029  Score=55.05  Aligned_cols=50  Identities=40%  Similarity=0.861  Sum_probs=35.2

Q ss_pred             ccccccccCCC-Cc-EEccCCCccChhHHHHHHhhCCCCCCCCCccccccccccccc
Q 027010           29 FECNICFDLAQ-DP-IVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPL   83 (229)
Q Consensus        29 ~~C~ICld~~~-~p-v~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~   83 (229)
                      ..|+.|..-.. ++ ..|.|+|+||..|...-.     ...||.||+.+....+.++
T Consensus         4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~-----~~~C~lCkk~ir~i~l~~s   55 (233)
T KOG4739|consen    4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKASS-----PDVCPLCKKSIRIIQLNRS   55 (233)
T ss_pred             EEeccccccCCCCceeeeechhhhhhhhcccCC-----ccccccccceeeeeecccc
Confidence            46888875443 33 358999999999975322     2389999999876555443

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

Probab=95.74  E-value=0.01  Score=54.35  Aligned_cols=58  Identities=22%  Similarity=0.592  Sum_probs=43.3

Q ss_pred             CCCCCCCCCCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           18 SNNNSNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        18 s~~~~~~~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      +++.++-++++..|-||.+-+.-..++||+|..|.-|-.+.-.- -..+.|+.||..-.
T Consensus        51 tsSaddtDEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRAL-Y~~K~C~~CrTE~e  108 (493)
T COG5236          51 TSSADDTDEENMNCQICAGSTTYSARYPCGHQICHACAVRLRAL-YMQKGCPLCRTETE  108 (493)
T ss_pred             cccccccccccceeEEecCCceEEEeccCCchHHHHHHHHHHHH-HhccCCCccccccc
Confidence            33444556778899999999999999999999999998653210 02358999998543

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

Probab=95.46  E-value=0.0047  Score=57.28  Aligned_cols=49  Identities=24%  Similarity=0.611  Sum_probs=38.2

Q ss_pred             CCccccccccCCC--Cc--EEccCCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           27 GNFECNICFDLAQ--DP--IVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        27 ~~~~C~ICld~~~--~p--v~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      -++-|..|-+.+-  +.  -.++|.|+||..|+.+++..+ ...+||.||+-.+
T Consensus       364 ~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n-~~rsCP~CrklrS  416 (518)
T KOG1941|consen  364 TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENN-GTRSCPNCRKLRS  416 (518)
T ss_pred             HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhC-CCCCCccHHHHHh
Confidence            4567999998773  22  348999999999999999854 4789999995443

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

Probab=95.42  E-value=0.0075  Score=56.20  Aligned_cols=48  Identities=29%  Similarity=0.661  Sum_probs=36.4

Q ss_pred             CCCccccccccCCCC---cEEccCCCccChhHHHHHHhhC-----CCCCCCCCccc
Q 027010           26 AGNFECNICFDLAQD---PIVTLCGHLFCWPCLYKWLHGH-----SNYRECPVCKA   73 (229)
Q Consensus        26 ~~~~~C~ICld~~~~---pv~l~CgH~FC~~CL~~wl~~~-----s~~~~CPvCR~   73 (229)
                      ...+.|.||.+...-   -+.++|+|.||..|+..|....     ....+||-++.
T Consensus       182 ~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C  237 (445)
T KOG1814|consen  182 NSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC  237 (445)
T ss_pred             hhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence            346789999987754   2568999999999999988743     23568887654

>PHA03096 p28-like protein; Provisional

Probab=95.27  E-value=0.0086  Score=53.76  Aligned_cols=46  Identities=20%  Similarity=0.358  Sum_probs=34.5

Q ss_pred             ccccccccCCCC--------cEEccCCCccChhHHHHHHhhCCCCCCCCCcccc
Q 027010           29 FECNICFDLAQD--------PIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKAT   74 (229)
Q Consensus        29 ~~C~ICld~~~~--------pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~   74 (229)
                      .+|.||++...+        .+...|.|.||..|+..|.........||.||.-
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~  232 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRRL  232 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccch
Confidence            679999987643        2345799999999999998865455566666553

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

Probab=95.10  E-value=0.019  Score=49.72  Aligned_cols=50  Identities=30%  Similarity=0.616  Sum_probs=38.7

Q ss_pred             CCccccccccCCC--CcEEccCCCccChhHHHHHHhhC-----CCCCCCCCcccccc
Q 027010           27 GNFECNICFDLAQ--DPIVTLCGHLFCWPCLYKWLHGH-----SNYRECPVCKATIE   76 (229)
Q Consensus        27 ~~~~C~ICld~~~--~pv~l~CgH~FC~~CL~~wl~~~-----s~~~~CPvCR~~v~   76 (229)
                      -+-.|.+|...+.  |.+.+.|-|+|+|.|+.+|...-     .....||.|...|-
T Consensus        49 Y~pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiF  105 (299)
T KOG3970|consen   49 YNPNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIF  105 (299)
T ss_pred             CCCCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence            3456999988775  45678999999999999997732     23469999988763

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=95.10  E-value=0.025  Score=46.47  Aligned_cols=51  Identities=20%  Similarity=0.522  Sum_probs=39.1

Q ss_pred             CCCCccccccccCCCCcEEccCCC-----ccChhHHHHHHhhCCCCCCCCCccccccc
Q 027010           25 EAGNFECNICFDLAQDPIVTLCGH-----LFCWPCLYKWLHGHSNYRECPVCKATIEE   77 (229)
Q Consensus        25 ~~~~~~C~ICld~~~~pv~l~CgH-----~FC~~CL~~wl~~~s~~~~CPvCR~~v~~   77 (229)
                      ...+.+|-||.+... +...||..     .-|.+|+.+|+..+ +...|+.|+++...
T Consensus         5 s~~~~~CRIC~~~~~-~~~~PC~CkGs~k~VH~sCL~rWi~~s-~~~~CeiC~~~Y~i   60 (162)
T PHA02825          5 SLMDKCCWICKDEYD-VVTNYCNCKNENKIVHKECLEEWINTS-KNKSCKICNGPYNI   60 (162)
T ss_pred             CCCCCeeEecCCCCC-CccCCcccCCCchHHHHHHHHHHHhcC-CCCcccccCCeEEE
Confidence            456678999998864 33457654     45899999999965 57899999988763

>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=94.93  E-value=0.032  Score=35.97  Aligned_cols=40  Identities=25%  Similarity=0.599  Sum_probs=24.7

Q ss_pred             ccccccCCCCcEEc---cCCCccChhHHHHHHhhCCCCCCCCCc
Q 027010           31 CNICFDLAQDPIVT---LCGHLFCWPCLYKWLHGHSNYRECPVC   71 (229)
Q Consensus        31 C~ICld~~~~pv~l---~CgH~FC~~CL~~wl~~~s~~~~CPvC   71 (229)
                      |.+|.+.....+.=   .|+-.+|..|+..|++..+.. .||.|
T Consensus         1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~-~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNP-KCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS--B-TTT
T ss_pred             CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCC-CCcCC
Confidence            78899988877763   499999999999999965433 79987

; PDB: 3NW0_A 2CT0_A.

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

Probab=94.87  E-value=0.015  Score=54.82  Aligned_cols=36  Identities=25%  Similarity=0.680  Sum_probs=32.3

Q ss_pred             CCCccccccccCCCCcEEccCCCccChhHHHHHHhh
Q 027010           26 AGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHG   61 (229)
Q Consensus        26 ~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~   61 (229)
                      ++++.|+||...+++|++++|+|..|..|....+..
T Consensus         2 eeelkc~vc~~f~~epiil~c~h~lc~~ca~~~~~~   37 (699)
T KOG4367|consen    2 EEELKCPVCGSFYREPIILPCSHNLCQACARNILVQ   37 (699)
T ss_pred             cccccCceehhhccCceEeecccHHHHHHHHhhccc
Confidence            567899999999999999999999999999866653

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

Probab=94.79  E-value=0.021  Score=37.80  Aligned_cols=43  Identities=23%  Similarity=0.587  Sum_probs=21.1

Q ss_pred             ccccccCCCC--cEEc--cCCCccChhHHHHHHhhCCCCCCCCCccccc
Q 027010           31 CNICFDLAQD--PIVT--LCGHLFCWPCLYKWLHGHSNYRECPVCKATI   75 (229)
Q Consensus        31 C~ICld~~~~--pv~l--~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v   75 (229)
                      |++|.+.+..  ....  +||+..|..|....++.  ....||-||++.
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~--~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILEN--EGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTTS--S-SB-TTT--B-
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHhc--cCCCCCCCCCCC
Confidence            7899988732  2233  58999999999888763  345999999864

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

Probab=94.77  E-value=0.02  Score=51.10  Aligned_cols=46  Identities=37%  Similarity=0.684  Sum_probs=37.5

Q ss_pred             CccccccccCCC------CcEEccCCCccChhHHHHHHhhCCCCCCCCCccccc
Q 027010           28 NFECNICFDLAQ------DPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATI   75 (229)
Q Consensus        28 ~~~C~ICld~~~------~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v   75 (229)
                      ..+|.||-+.+.      .|.++.|||.+|..|+...+..  ....||.||...
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~--~~i~cpfcR~~~   54 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGN--SRILCPFCRETT   54 (296)
T ss_pred             CCceeecCccccccCcccCCcccccCceehHhHHHHHhcC--ceeeccCCCCcc
Confidence            467999998875      3677889999999999877774  356889999974

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

Probab=94.55  E-value=0.039  Score=49.93  Aligned_cols=47  Identities=32%  Similarity=0.728  Sum_probs=37.2

Q ss_pred             CCCCCccccccccCCCCcEE-ccCCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           24 SEAGNFECNICFDLAQDPIV-TLCGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        24 ~~~~~~~C~ICld~~~~pv~-l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      ...+-++||||.+.+..|+. -.=||+-|..|-.+..      .+||.||.++.
T Consensus        44 ~~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~~~------~~CP~Cr~~~g   91 (299)
T KOG3002|consen   44 LDLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTKVS------NKCPTCRLPIG   91 (299)
T ss_pred             cchhhccCchhhccCcccceecCCCcEehhhhhhhhc------ccCCccccccc
Confidence            34567899999999998854 3558999999975433      38999999886

>PHA02862 5L protein; Provisional

Probab=94.40  E-value=0.033  Score=45.10  Aligned_cols=48  Identities=27%  Similarity=0.670  Sum_probs=37.3

Q ss_pred             ccccccccCCCCcEEccCCC-----ccChhHHHHHHhhCCCCCCCCCcccccccc
Q 027010           29 FECNICFDLAQDPIVTLCGH-----LFCWPCLYKWLHGHSNYRECPVCKATIEEE   78 (229)
Q Consensus        29 ~~C~ICld~~~~pv~l~CgH-----~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~   78 (229)
                      ..|-||.+.-.+. ..||..     .-|..||.+|+.. +++..|+.|+.+...+
T Consensus         3 diCWIC~~~~~e~-~~PC~C~GS~K~VHq~CL~~WIn~-S~k~~CeLCkteY~Ik   55 (156)
T PHA02862          3 DICWICNDVCDER-NNFCGCNEEYKVVHIKCMQLWINY-SKKKECNLCKTKYNIK   55 (156)
T ss_pred             CEEEEecCcCCCC-cccccccCcchhHHHHHHHHHHhc-CCCcCccCCCCeEEEE
Confidence            5799999886554 467654     5689999999975 4688999999987643

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

Probab=93.86  E-value=0.047  Score=50.74  Aligned_cols=51  Identities=22%  Similarity=0.487  Sum_probs=40.5

Q ss_pred             CCccccccccCCC---CcEEccCCCccChhHHHHHHhhCCCCCCCCCccccccc
Q 027010           27 GNFECNICFDLAQ---DPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEE   77 (229)
Q Consensus        27 ~~~~C~ICld~~~---~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~   77 (229)
                      ..+.|||=.+.-.   .|+.+.|||+.|.+-|.+..+....+.+||.|-.....
T Consensus       333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~~~  386 (394)
T KOG2817|consen  333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQLA  386 (394)
T ss_pred             ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcccCH
Confidence            4578999776654   47889999999999999988865556899999765543

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

Probab=93.85  E-value=0.019  Score=51.71  Aligned_cols=52  Identities=31%  Similarity=0.611  Sum_probs=38.0

Q ss_pred             CCCccccccccCCCCc---EEccCCCccChhHHHHHHhhC--------------------CCCCCCCCccccccc
Q 027010           26 AGNFECNICFDLAQDP---IVTLCGHLFCWPCLYKWLHGH--------------------SNYRECPVCKATIEE   77 (229)
Q Consensus        26 ~~~~~C~ICld~~~~p---v~l~CgH~FC~~CL~~wl~~~--------------------s~~~~CPvCR~~v~~   77 (229)
                      -..-.|.||+--+.+.   ++|+|-|-++..|+.+|+..-                    .....||+||..+..
T Consensus       113 ~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~  187 (368)
T KOG4445|consen  113 HPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI  187 (368)
T ss_pred             CCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence            3456799999666532   578999999999998776520                    013479999998763

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

Probab=93.82  E-value=0.014  Score=57.84  Aligned_cols=53  Identities=30%  Similarity=0.743  Sum_probs=43.5

Q ss_pred             CCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCccccccccc
Q 027010           27 GNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEK   79 (229)
Q Consensus        27 ~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~   79 (229)
                      ...+|+||.....+|+.+.|-|.||..|+..-+........||+|+..+.+..
T Consensus        20 k~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s   72 (684)
T KOG4362|consen   20 KILECPICLEHVKEPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRS   72 (684)
T ss_pred             hhccCCceeEEeeccchhhhhHHHHhhhhhceeeccCccccchhhhhhhhhhh
Confidence            46899999999999999999999999998765554445679999997766443

>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=93.63  E-value=0.054  Score=48.50  Aligned_cols=46  Identities=24%  Similarity=0.679  Sum_probs=34.7

Q ss_pred             ccccccc-CCCCc----EEccCCCccChhHHHHHHhhCCCCCCCCCccccccc
Q 027010           30 ECNICFD-LAQDP----IVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEE   77 (229)
Q Consensus        30 ~C~ICld-~~~~p----v~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~   77 (229)
                      .||+|.. .+.+|    .+-+|+|..|..|+......  +...||.|-..+.+
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~--g~~~CpeC~~iLRk   52 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSL--GPAQCPECMVILRK   52 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhc--CCCCCCcccchhhh
Confidence            5999984 44454    22389999999999988775  45699999876654

>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=93.31  E-value=0.054  Score=36.01  Aligned_cols=46  Identities=24%  Similarity=0.686  Sum_probs=23.6

Q ss_pred             CccccccccCCCCcEE-ccCCCccChhHHHHHHhh--CCCCCCCCCcccc
Q 027010           28 NFECNICFDLAQDPIV-TLCGHLFCWPCLYKWLHG--HSNYRECPVCKAT   74 (229)
Q Consensus        28 ~~~C~ICld~~~~pv~-l~CgH~FC~~CL~~wl~~--~s~~~~CPvCR~~   74 (229)
                      .+.|+|....+..|+. ..|.|.-|.+= ..|++.  +.....||+|.++
T Consensus         2 sL~CPls~~~i~~P~Rg~~C~H~~CFDl-~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    2 SLRCPLSFQRIRIPVRGKNCKHLQCFDL-ESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             ESB-TTTSSB-SSEEEETT--SS--EEH-HHHHHHHHHS---B-TTT---
T ss_pred             eeeCCCCCCEEEeCccCCcCcccceECH-HHHHHHhhccCCeECcCCcCc
Confidence            3679999999999987 58999977653 345542  1245789999763

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.

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

Probab=92.98  E-value=0.024  Score=59.30  Aligned_cols=45  Identities=40%  Similarity=0.981  Sum_probs=39.3

Q ss_pred             CCCccccccccCCC-CcEEccCCCccChhHHHHHHhhCCCCCCCCCccc
Q 027010           26 AGNFECNICFDLAQ-DPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKA   73 (229)
Q Consensus        26 ~~~~~C~ICld~~~-~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~   73 (229)
                      .....|.||++.++ ...+..|||.+|..|...|+.+++   .||.|+.
T Consensus      1151 ~~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~~s---~~~~~ks 1196 (1394)
T KOG0298|consen 1151 SGHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLYASS---RCPICKS 1196 (1394)
T ss_pred             hcccchHHHHHHHHhcCCeeeechhHhhhHHHHHHHHhc---cCcchhh
Confidence            34568999999998 567889999999999999999766   9999985

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

Probab=92.85  E-value=0.055  Score=46.47  Aligned_cols=39  Identities=28%  Similarity=0.728  Sum_probs=31.6

Q ss_pred             ccccccCCCCcEEccCCCc-cChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           31 CNICFDLAQDPIVTLCGHL-FCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        31 C~ICld~~~~pv~l~CgH~-FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      |-+|.+.-..-+.+||.|+ +|..|-..       ...||+|+....
T Consensus       161 Cr~C~~~~~~VlllPCrHl~lC~~C~~~-------~~~CPiC~~~~~  200 (207)
T KOG1100|consen  161 CRKCGEREATVLLLPCRHLCLCGICDES-------LRICPICRSPKT  200 (207)
T ss_pred             ceecCcCCceEEeecccceEeccccccc-------CccCCCCcChhh
Confidence            9999988887777899997 89999543       347999988665

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

Probab=92.80  E-value=0.05  Score=40.71  Aligned_cols=32  Identities=22%  Similarity=0.634  Sum_probs=26.0

Q ss_pred             CCCCccccccccCCCCcE--EccCCCccChhHHH
Q 027010           25 EAGNFECNICFDLAQDPI--VTLCGHLFCWPCLY   56 (229)
Q Consensus        25 ~~~~~~C~ICld~~~~pv--~l~CgH~FC~~CL~   56 (229)
                      .+++..|++|...+.+.+  +.||||.+|..|+.
T Consensus        75 i~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   75 ITESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             ECCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence            345677999999987664  47999999999974

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

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=92.69  E-value=0.075  Score=48.72  Aligned_cols=50  Identities=20%  Similarity=0.501  Sum_probs=33.9

Q ss_pred             ccccccccCCCC--cE--EccCCCccChhHHHHHHhhCCCCCCCCCcccccccccc
Q 027010           29 FECNICFDLAQD--PI--VTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKL   80 (229)
Q Consensus        29 ~~C~ICld~~~~--pv--~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l   80 (229)
                      .-||+|++.+..  .-  --+||...|.-|....-+.  -..+||.||+....+.+
T Consensus        15 d~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~--lngrcpacrr~y~denv   68 (480)
T COG5175          15 DYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQN--LNGRCPACRRKYDDENV   68 (480)
T ss_pred             ccCcccccccccccCCcccCCcccHHHHHHHHHHHhh--ccCCChHhhhhccccce
Confidence            339999998853  22  2478988788886544332  23489999998776543

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

Probab=92.58  E-value=0.06  Score=57.28  Aligned_cols=53  Identities=30%  Similarity=0.663  Sum_probs=40.2

Q ss_pred             CCCCccccccccCCC---CcEEccCCCccChhHHHHHHhhCC-------CCCCCCCccccccc
Q 027010           25 EAGNFECNICFDLAQ---DPIVTLCGHLFCWPCLYKWLHGHS-------NYRECPVCKATIEE   77 (229)
Q Consensus        25 ~~~~~~C~ICld~~~---~pv~l~CgH~FC~~CL~~wl~~~s-------~~~~CPvCR~~v~~   77 (229)
                      .+.+..|-||....-   ..+.+.|+|.|+..|..+.++.+=       +-..||+|+.++..
T Consensus      3483 QD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3483 QDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred             cccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence            456677999986542   346799999999999988777431       23589999998874

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

Probab=92.39  E-value=0.068  Score=53.97  Aligned_cols=43  Identities=30%  Similarity=0.672  Sum_probs=35.5

Q ss_pred             CCccccccccCCCCcEE-ccCCCccChhHHHHHHhhCCCCCCCCCccccc
Q 027010           27 GNFECNICFDLAQDPIV-TLCGHLFCWPCLYKWLHGHSNYRECPVCKATI   75 (229)
Q Consensus        27 ~~~~C~ICld~~~~pv~-l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v   75 (229)
                      ....|..|--.+.-|++ ..|||.||..|+.   .   ....||.|+...
T Consensus       839 q~skCs~C~~~LdlP~VhF~CgHsyHqhC~e---~---~~~~CP~C~~e~  882 (933)
T KOG2114|consen  839 QVSKCSACEGTLDLPFVHFLCGHSYHQHCLE---D---KEDKCPKCLPEL  882 (933)
T ss_pred             eeeeecccCCccccceeeeecccHHHHHhhc---c---CcccCCccchhh
Confidence            44689999999998866 7999999999997   2   356999998743

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

Probab=92.01  E-value=0.095  Score=34.33  Aligned_cols=40  Identities=28%  Similarity=0.950  Sum_probs=25.7

Q ss_pred             ccccccCCCC--cEEccCCC-----ccChhHHHHHHhhCCCCCCCCCc
Q 027010           31 CNICFDLAQD--PIVTLCGH-----LFCWPCLYKWLHGHSNYRECPVC   71 (229)
Q Consensus        31 C~ICld~~~~--pv~l~CgH-----~FC~~CL~~wl~~~s~~~~CPvC   71 (229)
                      |-||++.-.+  +.+.||.-     ..|..||.+|+..+ +..+|++|
T Consensus         1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~~-~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRES-GNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHHH-T-SB-TTT
T ss_pred             CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHhc-CCCcCCCC
Confidence            6788866542  56788753     46899999999964 35679887

>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=91.86  E-value=0.066  Score=42.86  Aligned_cols=33  Identities=36%  Similarity=0.898  Sum_probs=26.5

Q ss_pred             CccccccccCCCC--cEE-ccCC------CccChhHHHHHHh
Q 027010           28 NFECNICFDLAQD--PIV-TLCG------HLFCWPCLYKWLH   60 (229)
Q Consensus        28 ~~~C~ICld~~~~--pv~-l~Cg------H~FC~~CL~~wl~   60 (229)
                      ..+|.||++.+.+  .|+ +.||      |.||..|+.+|-+
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~   67 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRR   67 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHh
Confidence            6899999998877  554 4554      6899999999954

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.

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

Probab=91.84  E-value=0.19  Score=46.64  Aligned_cols=35  Identities=26%  Similarity=0.785  Sum_probs=26.2

Q ss_pred             CCCccChhHHHHHHhhCC----------CCCCCCCcccccccccc
Q 027010           46 CGHLFCWPCLYKWLHGHS----------NYRECPVCKATIEEEKL   80 (229)
Q Consensus        46 CgH~FC~~CL~~wl~~~s----------~~~~CPvCR~~v~~~~l   80 (229)
                      |.-..|..|+-+|+..+.          ++..||.||+.+...++
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilDV  355 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILDV  355 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeeee
Confidence            445568999999987432          46899999999875443

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

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

Probab=91.78  E-value=0.056  Score=53.12  Aligned_cols=44  Identities=30%  Similarity=0.694  Sum_probs=33.3

Q ss_pred             CCCCccccccccCC----CCcEEccCCCccChhHHHHHHhhCCCCCCCCCcccc
Q 027010           25 EAGNFECNICFDLA----QDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKAT   74 (229)
Q Consensus        25 ~~~~~~C~ICld~~----~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~   74 (229)
                      ..+-+.|+||+..+    ..|+.+.|||+.|..|+.....     ..|| |+.+
T Consensus         8 w~~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn-----~scp-~~~D   55 (861)
T KOG3161|consen    8 WVLLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN-----ASCP-TKRD   55 (861)
T ss_pred             hHHHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhh-----ccCC-CCcc
Confidence            34457899998766    3688899999999999976554     2688 6553

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

Probab=91.31  E-value=0.18  Score=50.95  Aligned_cols=56  Identities=21%  Similarity=0.583  Sum_probs=41.7

Q ss_pred             CCCCCccccccccCC--CCcEEccCCCc-----cChhHHHHHHhhCCCCCCCCCcccccccccc
Q 027010           24 SEAGNFECNICFDLA--QDPIVTLCGHL-----FCWPCLYKWLHGHSNYRECPVCKATIEEEKL   80 (229)
Q Consensus        24 ~~~~~~~C~ICld~~--~~pv~l~CgH~-----FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l   80 (229)
                      ..+++..|.||...-  .+|..-||...     .|.+|+.+|+.. +...+|-+|+.+++-+++
T Consensus         8 mN~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~-s~~~kCdiChy~~~Fk~I   70 (1175)
T COG5183           8 MNEDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMEC-SGTKKCDICHYEYKFKDI   70 (1175)
T ss_pred             CCccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhc-CCCcceeeecceeeeeee
Confidence            344568899999543  45666677653     589999999995 457899999998875554

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

Probab=91.17  E-value=0.22  Score=44.67  Aligned_cols=37  Identities=24%  Similarity=0.744  Sum_probs=32.1

Q ss_pred             CCCccccccccCCCCcEEccC----CCccChhHHHHHHhhC
Q 027010           26 AGNFECNICFDLAQDPIVTLC----GHLFCWPCLYKWLHGH   62 (229)
Q Consensus        26 ~~~~~C~ICld~~~~pv~l~C----gH~FC~~CL~~wl~~~   62 (229)
                      ..-+.|.+|.|.+.|-....|    .|.||.+|-.+.++.+
T Consensus       266 ~apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Q  306 (352)
T KOG3579|consen  266 SAPLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQ  306 (352)
T ss_pred             CCceeehhhhhhhccCceeecCCCcccceecccCHHHHHhh
Confidence            445889999999999988777    7999999999999865

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

Probab=90.71  E-value=0.18  Score=42.31  Aligned_cols=34  Identities=41%  Similarity=0.912  Sum_probs=26.3

Q ss_pred             ccCCCccChhHHHHHHhhC--C-C-----CCCCCCccccccc
Q 027010           44 TLCGHLFCWPCLYKWLHGH--S-N-----YRECPVCKATIEE   77 (229)
Q Consensus        44 l~CgH~FC~~CL~~wl~~~--s-~-----~~~CPvCR~~v~~   77 (229)
                      ..||..||.-||..|++.-  + +     -..||.|..++..
T Consensus       188 ~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial  229 (234)
T KOG3268|consen  188 IQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL  229 (234)
T ss_pred             cccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence            4699999999999999831  1 1     1489999888763

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.34  E-value=0.2  Score=44.08  Aligned_cols=36  Identities=19%  Similarity=0.389  Sum_probs=31.6

Q ss_pred             CCccccccccCCCCcEEccCCCccChhHHHHHHhhC
Q 027010           27 GNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGH   62 (229)
Q Consensus        27 ~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~   62 (229)
                      .-..|.+|+...++||+++=||+||..||.+++..+
T Consensus        42 ~FdcCsLtLqPc~dPvit~~GylfdrEaILe~ilaq   77 (303)
T KOG3039|consen   42 PFDCCSLTLQPCRDPVITPDGYLFDREAILEYILAQ   77 (303)
T ss_pred             CcceeeeecccccCCccCCCCeeeeHHHHHHHHHHH
Confidence            345689999999999999999999999999887643

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

Probab=90.25  E-value=0.18  Score=50.97  Aligned_cols=51  Identities=27%  Similarity=0.760  Sum_probs=38.4

Q ss_pred             CCCccccccccCCCC--cEE--ccCCCccChhHHHHHHhhC----CCCCCCCCcccccc
Q 027010           26 AGNFECNICFDLAQD--PIV--TLCGHLFCWPCLYKWLHGH----SNYRECPVCKATIE   76 (229)
Q Consensus        26 ~~~~~C~ICld~~~~--pv~--l~CgH~FC~~CL~~wl~~~----s~~~~CPvCR~~v~   76 (229)
                      ...++|-||.+.+..  ++-  ..|-|+|+..||.+|.+..    ....+||.|.....
T Consensus       189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~  247 (950)
T KOG1952|consen  189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSK  247 (950)
T ss_pred             cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhc
Confidence            456789999998863  332  3599999999999998852    13579999985433

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

Probab=90.06  E-value=0.19  Score=45.00  Aligned_cols=44  Identities=30%  Similarity=0.721  Sum_probs=35.9

Q ss_pred             CCccccccccCCC----CcEEccCCCccChhHHHHHHhhCCCCCCCCCccc
Q 027010           27 GNFECNICFDLAQ----DPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKA   73 (229)
Q Consensus        27 ~~~~C~ICld~~~----~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~   73 (229)
                      ....||||.+.+.    ++.+++|||..+..|+......  + ..||+|.+
T Consensus       157 ~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~--~-y~CP~C~~  204 (276)
T KOG1940|consen  157 SEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICE--G-YTCPICSK  204 (276)
T ss_pred             ccCCCchhHHHhccccccCCccCcccchHHHHHHHHhcc--C-CCCCcccc
Confidence            3444999998764    4567899999999999988884  3 79999988

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

Probab=89.78  E-value=0.14  Score=46.40  Aligned_cols=42  Identities=24%  Similarity=0.604  Sum_probs=27.8

Q ss_pred             cccccccCCC-CcEEccCCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           30 ECNICFDLAQ-DPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        30 ~C~ICld~~~-~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      -|.-|--.+. -...++|.|+||.+|..  +.   ..+.||.|-..|.
T Consensus        92 fCd~Cd~PI~IYGRmIPCkHvFCl~CAr--~~---~dK~Cp~C~d~Vq  134 (389)
T KOG2932|consen   92 FCDRCDFPIAIYGRMIPCKHVFCLECAR--SD---SDKICPLCDDRVQ  134 (389)
T ss_pred             eecccCCcceeeecccccchhhhhhhhh--cC---ccccCcCcccHHH
Confidence            3555644332 23567999999999974  22   2458999977654

>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=89.01  E-value=0.094  Score=45.97  Aligned_cols=50  Identities=24%  Similarity=0.573  Sum_probs=36.1

Q ss_pred             CCCCccccccccC-CCCc-EE---cc-CCCccChhHHHHHHhhCCCCCCCC--Ccccccc
Q 027010           25 EAGNFECNICFDL-AQDP-IV---TL-CGHLFCWPCLYKWLHGHSNYRECP--VCKATIE   76 (229)
Q Consensus        25 ~~~~~~C~ICld~-~~~p-v~---l~-CgH~FC~~CL~~wl~~~s~~~~CP--vCR~~v~   76 (229)
                      ...+..||||..+ +-+| +.   -| |-|..|..|+.+.+..  +...||  -|.+-+.
T Consensus         7 ~~~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~--GpAqCP~~gC~kILR   64 (314)
T COG5220           7 EMEDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSR--GPAQCPYKGCGKILR   64 (314)
T ss_pred             hhhcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcC--CCCCCCCccHHHHHH
Confidence            4456789999954 3444 22   23 9999999999998885  457899  6866444

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=88.19  E-value=0.26  Score=44.35  Aligned_cols=35  Identities=26%  Similarity=0.748  Sum_probs=27.1

Q ss_pred             CCCccChhHHHHHHhhCC----------CCCCCCCcccccccccc
Q 027010           46 CGHLFCWPCLYKWLHGHS----------NYRECPVCKATIEEEKL   80 (229)
Q Consensus        46 CgH~FC~~CL~~wl~~~s----------~~~~CPvCR~~v~~~~l   80 (229)
                      |....|.+||.+|+..+.          ++..||.||+.+...++
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv  369 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDV  369 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeee
Confidence            566788999999987432          57899999998876554

>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=87.63  E-value=0.47  Score=45.04  Aligned_cols=57  Identities=32%  Similarity=0.729  Sum_probs=41.8

Q ss_pred             CCCCCccccccccCCCC-cEEccCCCccChhHHHHHHhhCC---CC--CCCCC--cccccccccc
Q 027010           24 SEAGNFECNICFDLAQD-PIVTLCGHLFCWPCLYKWLHGHS---NY--RECPV--CKATIEEEKL   80 (229)
Q Consensus        24 ~~~~~~~C~ICld~~~~-pv~l~CgH~FC~~CL~~wl~~~s---~~--~~CPv--CR~~v~~~~l   80 (229)
                      ......+|.||.+.... .+.+.|||.||..|...++..+-   ..  .+||.  |++.+..+.+
T Consensus        66 ~~~~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~~~~i  130 (444)
T KOG1815|consen   66 KKKGDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVGEDTV  130 (444)
T ss_pred             CCCccccCCcccCCCcchhhhcCCCcHHHHHHHHHHhhheeeccccccccCCCCCccccCCCcee
Confidence            34567899999998885 66679999999999999988431   11  45654  7776665444

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=87.57  E-value=0.37  Score=42.67  Aligned_cols=55  Identities=25%  Similarity=0.576  Sum_probs=40.4

Q ss_pred             CCCCCCCccccccccCCCCcE----EccC-----CCccChhHHHHHHhhCC-----CCCCCCCcccccc
Q 027010           22 SNSEAGNFECNICFDLAQDPI----VTLC-----GHLFCWPCLYKWLHGHS-----NYRECPVCKATIE   76 (229)
Q Consensus        22 ~~~~~~~~~C~ICld~~~~pv----~l~C-----gH~FC~~CL~~wl~~~s-----~~~~CPvCR~~v~   76 (229)
                      .++.+.+..|-||+..=+|..    +-||     .|+.|..||.+|...+.     +...||.|+....
T Consensus        14 ~~~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi   82 (293)
T KOG3053|consen   14 SDNQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI   82 (293)
T ss_pred             CCccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence            345567788999997666543    2355     47889999999998542     3579999988655

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

Probab=87.23  E-value=0.32  Score=49.47  Aligned_cols=36  Identities=28%  Similarity=0.494  Sum_probs=27.8

Q ss_pred             CCCCccccccccCCC-Cc-EEccCCCccChhHHHHHHh
Q 027010           25 EAGNFECNICFDLAQ-DP-IVTLCGHLFCWPCLYKWLH   60 (229)
Q Consensus        25 ~~~~~~C~ICld~~~-~p-v~l~CgH~FC~~CL~~wl~   60 (229)
                      .+.+..|.+|...+. .| .+.+|||.||+.||.+...
T Consensus       814 ~ep~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v~  851 (911)
T KOG2034|consen  814 LEPQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHVL  851 (911)
T ss_pred             ecCccchHHhcchhhcCcceeeeccchHHHHHHHHHHH
Confidence            345678999997664 33 6789999999999987554

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

Probab=84.25  E-value=0.66  Score=42.27  Aligned_cols=51  Identities=22%  Similarity=0.430  Sum_probs=40.4

Q ss_pred             CCCccccccccCCC---CcEEccCCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           26 AGNFECNICFDLAQ---DPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        26 ~~~~~C~ICld~~~---~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      -.-+.||+=.+...   .|+.+.|||+.-..-+.+.-+......+||.|-..-.
T Consensus       334 Hs~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~~~~  387 (396)
T COG5109         334 HSLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPEMSK  387 (396)
T ss_pred             cceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCcchh
Confidence            34578999777664   4788999999999999988887666889999965443

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

Probab=83.55  E-value=0.8  Score=42.85  Aligned_cols=51  Identities=29%  Similarity=0.699  Sum_probs=35.2

Q ss_pred             CCCccccccccCCCCc----EEccCCCccChhHHHHHHhhC---CCCCCCCC--cccccc
Q 027010           26 AGNFECNICFDLAQDP----IVTLCGHLFCWPCLYKWLHGH---SNYRECPV--CKATIE   76 (229)
Q Consensus        26 ~~~~~C~ICld~~~~p----v~l~CgH~FC~~CL~~wl~~~---s~~~~CPv--CR~~v~   76 (229)
                      ....+|.||......+    .+..|+|.||..|+.++.+.+   ....+||.  |...+.
T Consensus       144 ~~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~  203 (384)
T KOG1812|consen  144 LPKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLT  203 (384)
T ss_pred             cccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCC
Confidence            3567899999333322    357899999999999998854   23567765  554444

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

Probab=83.01  E-value=1.2  Score=45.12  Aligned_cols=50  Identities=12%  Similarity=0.084  Sum_probs=34.9

Q ss_pred             CCccccccccCCCCc-------EEccCCCccChhHHHHHHhhC---CCCCCCCCcccccc
Q 027010           27 GNFECNICFDLAQDP-------IVTLCGHLFCWPCLYKWLHGH---SNYRECPVCKATIE   76 (229)
Q Consensus        27 ~~~~C~ICld~~~~p-------v~l~CgH~FC~~CL~~wl~~~---s~~~~CPvCR~~v~   76 (229)
                      ....|.||...+.++       .+-.|+|.+|..||..|...-   .....|+.|..-+.
T Consensus        95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~  154 (1134)
T KOG0825|consen   95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVG  154 (1134)
T ss_pred             cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhh
Confidence            445677776666553       233599999999999998742   23567888887654

>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=82.63  E-value=0.51  Score=31.17  Aligned_cols=42  Identities=26%  Similarity=0.755  Sum_probs=23.2

Q ss_pred             ccccccCCCCcEEccCC-CccChhHHHHHHhhCCCCCCCCCccccccc
Q 027010           31 CNICFDLAQDPIVTLCG-HLFCWPCLYKWLHGHSNYRECPVCKATIEE   77 (229)
Q Consensus        31 C~ICld~~~~pv~l~Cg-H~FC~~CL~~wl~~~s~~~~CPvCR~~v~~   77 (229)
                      |.-|.  +.+.-.+.|. |-.|..||...+..   +..||+|+.++..
T Consensus         5 CKsCW--f~~k~Li~C~dHYLCl~CLt~ml~~---s~~C~iC~~~LPt   47 (50)
T PF03854_consen    5 CKSCW--FANKGLIKCSDHYLCLNCLTLMLSR---SDRCPICGKPLPT   47 (50)
T ss_dssp             --SS---S--SSEEE-SS-EEEHHHHHHT-SS---SSEETTTTEE---
T ss_pred             Chhhh--hcCCCeeeecchhHHHHHHHHHhcc---ccCCCcccCcCcc
Confidence            44443  2333345675 88899999988884   4599999988763

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.

>KOG3113 consensus Uncharacterized conserved protein [Function unknown]

Probab=82.10  E-value=1.7  Score=38.53  Aligned_cols=56  Identities=23%  Similarity=0.411  Sum_probs=42.8

Q ss_pred             CCCccccccccCCCCc----EEccCCCccChhHHHHHHhhCCCCCCCCCccccccccccccccCC
Q 027010           26 AGNFECNICFDLAQDP----IVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGR   86 (229)
Q Consensus        26 ~~~~~C~ICld~~~~p----v~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~~~   86 (229)
                      ...+.|||---.+..-    ....|||+|-..-+.+.-.     ..|++|.+.+..++++.+.+.
T Consensus       109 ~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeika-----s~C~~C~a~y~~~dvIvlNg~  168 (293)
T KOG3113|consen  109 RARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIKA-----SVCHVCGAAYQEDDVIVLNGT  168 (293)
T ss_pred             cceeecccccceecceEEEEEEeccceeccHHHHHHhhh-----ccccccCCcccccCeEeeCCC
Confidence            3468899977666543    4568999999998876543     389999999999888876553

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	229
1jm7_A	112	Solution Structure Of The Brca1/bard1 Ring-domain H		2e-06
2ysl_A	73	Solution Structure Of The Ring Domain (1-66) From T		2e-05
2ysj_A	63	Solution Structure Of The Ring Domain (1-56) From T		7e-04

>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain Heterodimer Length = 112

Iteration: 1
 Score = 49.3 bits (116), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 22/61 (36%), Positives = 33/61 (54%)
Query: 20 NNSNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEK 79
          N  N+     EC IC +L ++P+ T C H+FC  C+ K L+      +CP+CK  I +  
Sbjct: 13 NVINAMQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRS 72
Query: 80 L 80
          L
Sbjct: 73 L 73

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

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/50 (32%), Positives = 27/50 (54%)
Query: 31 CNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKL 80
          C IC D+ Q P+   CGH FC  C+ +       + +CP+CK ++ +  +
Sbjct: 23 CPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNAI 72

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

Iteration: 1
 Score = 40.8 bits (94), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 15/41 (36%), Positives = 22/41 (53%)
Query: 31 CNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVC 71
          C IC D+ Q P+   CGH FC  C+ +       + +CP+C
Sbjct: 23 CPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC 63

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	229
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	3e-21
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	5e-19
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	8e-19
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	8e-19
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	3e-18
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	4e-18
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	6e-16
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	7e-16
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	8e-16
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	1e-14
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	8e-14
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	1e-13
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	1e-13
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	5e-13
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	2e-12
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	2e-12
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	3e-12
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	5e-12
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	2e-11
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	2e-11
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	2e-11
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	3e-11
1z6u_A	150	NP95-like ring finger protein isoform B; structura	9e-11
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	1e-10
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	2e-10
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	2e-10
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	2e-10
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	2e-10
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	2e-10
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	2e-10
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	5e-10
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	1e-09
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	5e-10
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	2e-09
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	3e-09
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	3e-09
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	1e-08
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	3e-08
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	3e-08
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	7e-08
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	2e-07
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	5e-07
3nw0_A	238	Non-structural maintenance of chromosomes element	5e-07
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	7e-07
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	8e-07
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	3e-06
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	3e-06
2ect_A	78	Ring finger protein 126; metal binding protein, st	3e-06
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	4e-06
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	7e-06
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	1e-05
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	2e-05
2ea5_A	68	Cell growth regulator with ring finger domain prot	2e-05
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	3e-05
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	3e-05
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	3e-05
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	4e-05
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	5e-05
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	6e-05
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	8e-05
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	2e-04
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	3e-04
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	3e-04
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	4e-04
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	5e-04
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	8e-04

>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 = 83.8 bits (207), Expect = 3e-21
 Identities = 19/78 (24%), Positives = 32/78 (41%), Gaps = 3/78 (3%)

Query: 8  STSRSAQNPYSNNNSNSEAGNFECNICFDLAQDP-IVTLCGHLFCWPCLYKWLHGHSNYR 66
                 +     +  S A  F C IC +  +D  +   C  L C+ C+ +WL       
Sbjct: 2  GHHHHHHSHMDEQSVESIAEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRA-- 59

Query: 67 ECPVCKATIEEEKLVPLY 84
          +CP C+A ++  +LV   
Sbjct: 60 QCPHCRAPLQLRELVNCR 77

>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 = 77.2 bits (190), Expect = 5e-19
 Identities = 21/72 (29%), Positives = 29/72 (40%), Gaps = 10/72 (13%)

Query: 20 NNSNSEAGNFECNICFDLAQDPI-------VTLCGHLFCWPCLYKWLHGHSNYRECPVCK 72
                +G   C IC D   + +        T CGH+FC  CL   L    N   CP C+
Sbjct: 2  TTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK---NANTCPTCR 58

Query: 73 ATIEEEKLVPLY 84
            I  ++  P+Y
Sbjct: 59 KKINHKRYHPIY 70

>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 = 83.3 bits (205), Expect = 8e-19
 Identities = 16/57 (28%), Positives = 25/57 (43%), Gaps = 2/57 (3%)

Query: 28  NFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLY 84
              C IC +  +D  +  CGHL C  CL  W       + CP C+  I+  + + + 
Sbjct: 332 FQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEG--QGCPFCRCEIKGTEPIVVD 386

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

 Score = 76.4 bits (188), Expect = 8e-19
 Identities = 18/70 (25%), Positives = 28/70 (40%), Gaps = 3/70 (4%)

Query: 18 SNNNSNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEE 77
          S+ N+       EC IC      P+   C H+FC+ C+          + C +C+  I E
Sbjct: 5  SSGNTAPSLTVPECAICLQTCVHPVSLPCKHVFCYLCVKGASWLG---KRCALCRQEIPE 61

Query: 78 EKLVPLYGRG 87
          + L      G
Sbjct: 62 DFLDSGPSSG 71

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

 Score = 74.8 bits (184), Expect = 3e-18
 Identities = 19/66 (28%), Positives = 26/66 (39%), Gaps = 10/66 (15%)

Query: 26 AGNFECNICFDLAQDPI-------VTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEE 78
               C IC D   + +        T CGH+FC  CL   L        CP C+  I  +
Sbjct: 1  GAMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA---NTCPTCRKKINHK 57

Query: 79 KLVPLY 84
          +  P+Y
Sbjct: 58 RYHPIY 63

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

 Score = 75.3 bits (185), Expect = 4e-18
 Identities = 18/59 (30%), Positives = 23/59 (38%), Gaps = 3/59 (5%)

Query: 18 SNNNSNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIE 76
          S+  S  E   F C IC    Q+P+VT C H FC  C  +          C +C     
Sbjct: 5  SSGGSEEEEIPFRCFICRQAFQNPVVTKCRHYFCESCALEHF---RATPRCYICDQPTG 60

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

 Score = 71.2 bits (174), Expect = 6e-16
 Identities = 18/71 (25%), Positives = 30/71 (42%), Gaps = 4/71 (5%)

Query: 7   ESTSRSAQNPYSNNNSNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYR 66
           E      +   S+ N   E    +C IC +   + +   C H FC  C+ +W+       
Sbjct: 44  EKMQAQKEEVLSHMNDVLEN-ELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRK---I 99

Query: 67  ECPVCKATIEE 77
           ECP+C+  I+ 
Sbjct: 100 ECPICRKDIKS 110

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

 Score = 68.7 bits (168), Expect = 7e-16
 Identities = 16/53 (30%), Positives = 25/53 (47%), Gaps = 2/53 (3%)

Query: 28 NFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKL 80
           ++C  C  +   P  T CGH FC  C+   L   S    C  C+ +I ++K+
Sbjct: 15 KYKCEKCHLVLCSPKQTECGHRFCESCMAALLSSSSPK--CTACQESIVKDKV 65

>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 = 69.7 bits (171), Expect = 8e-16
 Identities = 20/54 (37%), Positives = 30/54 (55%)

Query: 29 FECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVP 82
           EC IC +L ++P+ T C H+FC  C+ K L+      +CP+CK  I +  L  
Sbjct: 22 LECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQE 75

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

 Score = 65.3 bits (159), Expect = 1e-14
 Identities = 19/68 (27%), Positives = 26/68 (38%), Gaps = 10/68 (14%)

Query: 18 SNNNSNSEAGNFECNICFDLAQDPI-------VTLCGHLFCWPCLYKWLHGHSNYRECPV 70
          S+      +G   C IC D   + +        T CGH+FC  CL   L        CP 
Sbjct: 5  SSGTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA---NTCPT 61

Query: 71 CKATIEEE 78
          C+  I  +
Sbjct: 62 CRKKINHK 69

>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 = 64.8 bits (158), Expect = 8e-14
 Identities = 18/55 (32%), Positives = 27/55 (49%), Gaps = 2/55 (3%)

Query: 28 NFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVP 82
           +EC IC    ++ + T CGH FC  C+ K +    +   CPV    + E +L P
Sbjct: 18 KYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHK--CPVDNEILLENQLFP 70

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

 Score = 63.6 bits (155), Expect = 1e-13
 Identities = 17/55 (30%), Positives = 25/55 (45%), Gaps = 4/55 (7%)

Query: 29 FECNICFDLAQDP-IVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVP 82
            C ICF+      I+  C H +C  C+ K+L   +   +CP C  T+ E  L  
Sbjct: 23 LRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKT---QCPTCCVTVTEPDLKN 74

>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 = 64.2 bits (156), Expect = 1e-13
 Identities = 18/55 (32%), Positives = 25/55 (45%), Gaps = 2/55 (3%)

Query: 28 NFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVP 82
          +  C IC  +  DP+ T C HLFC  C+ + L    +Y  CP C+       L  
Sbjct: 23 SISCQICEHILADPVETSCKHLFCRICILRCLKVMGSY--CPSCRYPCFPTDLES 75

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

 Score = 61.3 bits (149), Expect = 5e-13
 Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 4/49 (8%)

Query: 30 ECNICFDLAQDPIVTL-CGHLFCWPCLYKWLHGHSNYRECPVCKATIEE 77
           C IC +   +  + L C H FC+ C+ +W+  +     CP+CK  +E 
Sbjct: 7  RCPICLEDPSNYSMALPCLHAFCYVCITRWIRQN---PTCPLCKVPVES 52

>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 = 61.1 bits (148), Expect = 2e-12
 Identities = 13/54 (24%), Positives = 21/54 (38%), Gaps = 2/54 (3%)

Query: 29 FECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVP 82
           +C IC ++  +P+   C H  C PC    +   S    CP C+  +       
Sbjct: 16 CQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKAS--LCCPFCRRRVSSWTRYH 67

>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 = 62.0 bits (150), Expect = 2e-12
 Identities = 18/55 (32%), Positives = 27/55 (49%), Gaps = 2/55 (3%)

Query: 28 NFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVP 82
           +EC IC    ++ + T CGH FC  C+ K +    +   CPV    + E +L P
Sbjct: 18 KYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHK--CPVDNEILLENQLFP 70

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

 Score = 59.3 bits (144), Expect = 3e-12
 Identities = 16/52 (30%), Positives = 27/52 (51%)

Query: 29 FECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKL 80
            C IC D+ Q P+   CGH FC  C+ +       + +CP+CK ++ +  +
Sbjct: 21 VICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNAI 72

>3fl2_A E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA damage, DNA repair, ring finger domain, metal binding, DNA replication; 1.75A {Homo sapiens} Length = 124

 Score = 60.0 bits (145), Expect = 5e-12
 Identities = 20/74 (27%), Positives = 29/74 (39%), Gaps = 16/74 (21%)

Query: 29  FECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEE----------- 77
           F+C  C +L   PI T+C H  C  CL +       +  CP C+  +             
Sbjct: 53  FQCICCQELVFRPITTVCQHNVCKDCLDRSF-RAQVFS-CPACRYDLGRSYAMQVNQPLQ 110

Query: 78  ---EKLVPLYGRGK 88
               +L P YG G+
Sbjct: 111 TVLNQLFPGYGNGR 124

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

 Score = 56.6 bits (137), Expect = 2e-11
 Identities = 14/43 (32%), Positives = 23/43 (53%)

Query: 29 FECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVC 71
            C++C +  ++P++  CGH FC  C+ +W         CPVC
Sbjct: 16 ASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCPVC 58

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

 Score = 56.7 bits (137), Expect = 2e-11
 Identities = 13/56 (23%), Positives = 21/56 (37%), Gaps = 4/56 (7%)

Query: 28 NFECNICFDLAQDPI-VTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVP 82
             C+IC     D   +T C H FC  C+ +          CP C   + + + + 
Sbjct: 15 YILCSICKGYLIDATTITECLHTFCKSCIVRHF---YYSNRCPKCNIVVHQTQPLS 67

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

 Score = 57.4 bits (139), Expect = 2e-11
 Identities = 17/57 (29%), Positives = 24/57 (42%), Gaps = 3/57 (5%)

Query: 29 FECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRE---CPVCKATIEEEKLVP 82
            C IC +L ++P+   C H FC  C+      + N      CPVC+       L P
Sbjct: 20 VTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNLKP 76

>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 = 58.6 bits (141), Expect = 3e-11
 Identities = 14/71 (19%), Positives = 26/71 (36%), Gaps = 2/71 (2%)

Query: 28 NFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGRG 87
           + C+ C ++ + P    CGH +C  CL   L        C  C      E+ + +    
Sbjct: 31 KYLCSACRNVLRRPFQAQCGHRYCSFCLASILSSGPQN--CAACVHEGIYEEGISILESS 88

Query: 88 KSSTDPRSKSI 98
           +  D  ++  
Sbjct: 89 SAFPDNAARRE 99

>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 = 57.3 bits (138), Expect = 9e-11
 Identities = 17/74 (22%), Positives = 27/74 (36%), Gaps = 16/74 (21%)

Query: 29  FECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEE----------- 77
           F C  C +L   P+ T C H  C  CL +       +  CP C+  + +           
Sbjct: 79  FMCVCCQELVYQPVTTECFHNVCKDCLQRSF-KAQVF-SCPACRHDLGQNYIMIPNEILQ 136

Query: 78  ---EKLVPLYGRGK 88
              +   P Y +G+
Sbjct: 137 TLLDLFFPGYSKGR 150

>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 = 56.0 bits (135), Expect = 1e-10
 Identities = 12/56 (21%), Positives = 24/56 (42%), Gaps = 4/56 (7%)

Query: 28 NFECNICFDLAQDP-IVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVP 82
          +  C +C     D   +  C H FC  C+ ++L      + CP+C   + + + + 
Sbjct: 15 HLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETS---KYCPICDVQVHKTRPLL 67

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

 Score = 55.0 bits (133), Expect = 2e-10
 Identities = 18/55 (32%), Positives = 24/55 (43%), Gaps = 3/55 (5%)

Query: 31 CNICFDLAQDPIVTLCGHLFCWPCLYKWL---HGHSNYRECPVCKATIEEEKLVP 82
          C IC +L   P+   CGH FC  CL               CPVC+ + + E + P
Sbjct: 22 CPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENIRP 76

>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 = 54.6 bits (132), Expect = 2e-10
 Identities = 16/56 (28%), Positives = 21/56 (37%), Gaps = 4/56 (7%)

Query: 31 CNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRE----CPVCKATIEEEKLVP 82
          C IC +L  +P+   CGH  C  C+                CPVC  +   E L  
Sbjct: 15 CPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEHLQA 70

>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 = 55.7 bits (134), Expect = 2e-10
 Identities = 13/53 (24%), Positives = 24/53 (45%), Gaps = 6/53 (11%)

Query: 31 CNICFDLAQDPI-VTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVP 82
          C+ C ++ ++P+ +  C H+FC  C+   +        CPVC      + L  
Sbjct: 25 CSRCTNILREPVCLGGCEHIFCSNCVSDCIG-----TGCPVCYTPAWIQDLKI 72

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

 Score = 53.9 bits (130), Expect = 2e-10
 Identities = 17/50 (34%), Positives = 23/50 (46%), Gaps = 4/50 (8%)

Query: 30 ECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEK 79
          EC IC D     ++  C H FC  C+ KW   H N   CP+C+  +    
Sbjct: 17 ECCICMDGRA-DLILPCAHSFCQKCIDKWSDRHRN---CPICRLQMTGAN 62

>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 = 54.4 bits (131), Expect = 2e-10
 Identities = 15/49 (30%), Positives = 21/49 (42%), Gaps = 2/49 (4%)

Query: 28 NFECNICFDLAQDPIVT-LCGHLFCWPCLYKWLHGHSNYRECPVCKATI 75
             C IC D+  D +V   CG+ +C  C+   L   S+   CP C    
Sbjct: 15 ELLCLICKDIMTDAVVIPCCGNSYCDECIRTAL-LESDEHTCPTCHQND 62

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

 Score = 54.8 bits (132), Expect = 2e-10
 Identities = 15/56 (26%), Positives = 24/56 (42%), Gaps = 3/56 (5%)

Query: 29 FECNICFDLAQDPIVT-LCGHLFCWPCLYKWLHGHSNYRECPVCKAT-IEEEKLVP 82
            C IC D+  D +V   CG+ +C  C+   L     +  CP C    +  + L+ 
Sbjct: 14 LLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEH-TCPTCHQNDVSPDALIA 68

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

 Score = 55.2 bits (132), Expect = 5e-10
 Identities = 19/60 (31%), Positives = 25/60 (41%), Gaps = 10/60 (16%)

Query: 26 AGNFECNICFDLAQD-------PIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEE 78
          +G   C IC D   +        + T CGH+FC  CL   L    N   CP C+  I  +
Sbjct: 5  SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK---NANTCPTCRKKINHK 61

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

 Score = 54.0 bits (129), Expect = 1e-09
 Identities = 23/83 (27%), Positives = 32/83 (38%), Gaps = 10/83 (12%)

Query: 9   TSRSAQNPYSNNNSNSEAGNFECNICFDLAQDPI-------VTLCGHLFCWPCLYKWLHG 61
           T R   N    +     +G   C IC D   + +        T CGH+FC  CL   L  
Sbjct: 53  TCRKKINHKRYHPIYIGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN 112

Query: 62  HSNYRECPVCKATIEEEKLVPLY 84
                 CP C+  I  ++  P+Y
Sbjct: 113 A---NTCPTCRKKINHKRYHPIY 132

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

 Score = 52.8 bits (127), Expect = 5e-10
 Identities = 15/43 (34%), Positives = 22/43 (51%)

Query: 29 FECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVC 71
            C IC D+ Q P+   CGH FC  C+ +       + +CP+C
Sbjct: 21 VICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC 63

>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 = 54.2 bits (130), Expect = 2e-09
 Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 4/56 (7%)

Query: 29  FECNICFDLAQDPIVTL-CGHLFCWPCLYKWLHGHSNYRECPVCKATI-EEEKLVP 82
             C IC D+ ++ + T  C H FC  C+   L   +  +ECP C+  +  +  L P
Sbjct: 55  LMCPICLDMLKNTMTTKECLHRFCADCIITALRSGN--KECPTCRKKLVSKRSLRP 108

>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 = 55.0 bits (131), Expect = 3e-09
 Identities = 14/58 (24%), Positives = 21/58 (36%), Gaps = 4/58 (6%)

Query: 28  NFECNICFDLAQDP-IVTLCGHLFCWPCLYKWLHGHSNYRECPV--CKATIEEEKLVP 82
              C I     + P I   C H+F    +  +L G+   R+CP   C   +     V 
Sbjct: 181 ELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGY-TTRDCPQAACSQVVSMRDFVR 237

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

 Score = 51.6 bits (124), Expect = 3e-09
 Identities = 17/52 (32%), Positives = 19/52 (36%), Gaps = 4/52 (7%)

Query: 29 FECNICFDL----AQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIE 76
           EC IC +        P +  CGH  C  CL K L    N   CP C     
Sbjct: 16 LECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITR 67

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

 Score = 53.3 bits (127), Expect = 1e-08
 Identities = 18/87 (20%), Positives = 27/87 (31%), Gaps = 16/87 (18%)

Query: 5   FGESTSRSAQNPYSNNNSNSEAGNFECNICF----DLAQDPIVTL----CGHLFCWPCLY 56
           F                   +     CNICF    D  + P+V+     C       CL 
Sbjct: 285 FDLCYFPMPDWSDGPKLDEEDNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLE 344

Query: 57  KWLHGHSNYR--------ECPVCKATI 75
           +W     + +        +CP CKA +
Sbjct: 345 EWFKTLMDGKTFLEVSFGQCPFCKAKL 371

>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 = 48.4 bits (115), Expect = 3e-08
 Identities = 16/53 (30%), Positives = 20/53 (37%), Gaps = 2/53 (3%)

Query: 27 GNFECNICFD-LAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEE 78
              CNIC   L Q      CG     PC+ K+   ++  R CP C      E
Sbjct: 14 AVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPR-CPHCNDYWPHE 65

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

 Score = 47.7 bits (114), Expect = 3e-08
 Identities = 13/44 (29%), Positives = 20/44 (45%), Gaps = 6/44 (13%)

Query: 30 ECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKA 73
           C  C   A+ P +  C H  C  CL       ++  +CP+C+A
Sbjct: 8  RCQQCQAEAKCPKLLPCLHTLCSGCL------EASGMQCPICQA 45

>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 = 47.0 bits (112), Expect = 7e-08
 Identities = 9/58 (15%), Positives = 24/58 (41%), Gaps = 4/58 (6%)

Query: 28 NFECNICFDLAQDPIVT-LCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLY 84
          +  C I   + + P+++     +F    L +++    N    P+    +  E++V + 
Sbjct: 3  HMLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGN---DPITNEPLSIEEIVEIV 57

>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 = 45.7 bits (109), Expect = 2e-07
 Identities = 14/54 (25%), Positives = 21/54 (38%), Gaps = 7/54 (12%)

Query: 26 AGNFECNICFD---LAQDPIVTL-CGHLFCWPCLYKWLHGHSNYRECPVCKATI 75
          +G+  C IC +    ++     L CGHL    C  + L        CP+C    
Sbjct: 3  SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYR---CPLCSGPS 53

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

 Score = 45.5 bits (107), Expect = 5e-07
 Identities = 12/67 (17%), Positives = 26/67 (38%), Gaps = 6/67 (8%)

Query: 19 NNNSNSEAGNFECNICFDL----AQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKAT 74
          + + +++    EC +C +       +     CG+  C  C ++     +    CP C+  
Sbjct: 2  SRSPDAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENG--LCPACRKP 59

Query: 75 IEEEKLV 81
            E+  V
Sbjct: 60 YPEDPAV 66

>3nw0_A Non-structural maintenance of chromosomes element homolog; E3 ligase, Zn, metal binding protein; 2.92A {Homo sapiens} Length = 238

 Score = 47.8 bits (113), Expect = 5e-07
 Identities = 16/55 (29%), Positives = 20/55 (36%), Gaps = 2/55 (3%)

Query: 25  EAGNFECNICFDLA-QDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEE 78
                 CNIC  L  Q      CG     PC+ K+   ++  R CP C      E
Sbjct: 177 PDAVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPR-CPHCNDYWPHE 230

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

 Score = 44.8 bits (106), Expect = 7e-07
 Identities = 14/51 (27%), Positives = 21/51 (41%), Gaps = 6/51 (11%)

Query: 30 ECNICFD--LAQDPIVTL-CGHLFCWPCLYKWLHGHSNYRECPVCKATIEE 77
           C +C +    +D +    C H F   CL KWL        CP+C   + +
Sbjct: 17 LCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKV---CPLCNMPVLQ 64

>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 = 44.3 bits (105), Expect = 8e-07
 Identities = 17/60 (28%), Positives = 27/60 (45%), Gaps = 6/60 (10%)

Query: 22 SNSEAGNFECNICFDL--AQDPIVTL-CGHLFCWPCLYKWLHGHSNYRECPVCKATIEEE 78
             E    +C IC  +    + +  L C HLF   C+ +WL  +     CP+C+  IE +
Sbjct: 8  GTEEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKK---CPICRVDIEAQ 64

>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 = 43.7 bits (103), Expect = 3e-06
 Identities = 12/55 (21%), Positives = 21/55 (38%), Gaps = 8/55 (14%)

Query: 26 AGNFECNICFD---LAQDPIVTLCGHLFCWPCLYKWL-----HGHSNYRECPVCK 72
          +G+  C +C     + Q   +  C  +FC  CL +++      G      CP   
Sbjct: 3  SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA 57

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

 Score = 43.5 bits (103), Expect = 3e-06
 Identities = 16/53 (30%), Positives = 20/53 (37%), Gaps = 6/53 (11%)

Query: 24 SEAGNFECNICFD--LAQDPIVTL-CGHLFCWPCLYKWLHGHSNYRECPVCKA 73
          +      C IC    +  D    L C H F  PC+  WL        CPVC+ 
Sbjct: 36 AVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGT---CPVCRC 85

>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 = 42.8 bits (101), Expect = 3e-06
 Identities = 19/64 (29%), Positives = 27/64 (42%), Gaps = 6/64 (9%)

Query: 18 SNNNSNSEAGNFECNICF-DLAQDPIVTL--CGHLFCWPCLYKWLHGHSNYRECPVCKAT 74
          S+          EC +C  D A    V    C HLF   C+  WL  H +   CPVC+ +
Sbjct: 5  SSGTEEHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDS---CPVCRKS 61

Query: 75 IEEE 78
          +  +
Sbjct: 62 LTGQ 65

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

 Score = 45.7 bits (108), Expect = 4e-06
 Identities = 12/54 (22%), Positives = 27/54 (50%), Gaps = 2/54 (3%)

Query: 29  FECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVP 82
               I F+L ++P +T  G  +    + + L    ++   PV ++ + +E+L+P
Sbjct: 209 LCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHF--NPVTRSPLTQEQLIP 260

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

 Score = 41.9 bits (99), Expect = 7e-06
 Identities = 18/64 (28%), Positives = 28/64 (43%), Gaps = 8/64 (12%)

Query: 17 YSNNNSNSEAGNFECNICFD--LAQDPIVTL-CGHLFCWPCLYKWLHGHSNYRECPVCKA 73
          ++ NN  SE     C +C     ++  +  L C H F   C+ KWL  +     CP+C+A
Sbjct: 14 FNPNNHQSE--QTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRT---CPICRA 68

Query: 74 TIEE 77
              
Sbjct: 69 DSGP 72

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

 Score = 41.6 bits (98), Expect = 1e-05
 Identities = 11/54 (20%), Positives = 18/54 (33%), Gaps = 3/54 (5%)

Query: 29 FECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVP 82
          F   +   L  DP+    G +     + + L         P  + T+ E  L P
Sbjct: 30 FRDPLMDTLMTDPVRLPSGTIMDRSIILRHLLNSPT---DPFNRQTLTESMLEP 80

>2vje_B MDM4 protein; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_B* Length = 63

 Score = 40.6 bits (95), Expect = 2e-05
 Identities = 13/58 (22%), Positives = 23/58 (39%), Gaps = 6/58 (10%)

Query: 23 NSEAGNFECNICFDLAQDPIVTL--CGHLF-CWPCLYKWLHGHSNYRECPVCKATIEE 77
          + +     C++C    +D  +     GHL  C+ C  +          CP+CK  I+ 
Sbjct: 2  DCQNLLKPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKAG---ASCPICKKEIQL 56

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

 Score = 40.5 bits (95), Expect = 2e-05
 Identities = 15/69 (21%), Positives = 31/69 (44%), Gaps = 10/69 (14%)

Query: 18 SNNNSNSEAGNFECNICFDLAQDPIVTLCGHL-FCWPCLYKWLHGHSNYRECPVCKATIE 76
          S+    SE  + +C +C +   + ++  C H   C  C+         +++CP+C+  ++
Sbjct: 5  SSGVEPSEENSKDCVVCQNGTVNWVLLPCRHTCLCDGCV-------KYFQQCPMCRQFVQ 57

Query: 77 EEKLVPLYG 85
          E     L G
Sbjct: 58 E--SFALSG 64

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

 Score = 40.4 bits (95), Expect = 3e-05
 Identities = 10/54 (18%), Positives = 17/54 (31%), Gaps = 3/54 (5%)

Query: 29 FECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVP 82
          F   +   L  DP+    G +     + + L         P  +  + E  L P
Sbjct: 15 FRDPLMDTLMTDPVRLPSGTVMDRSIILRHLLNSPT---DPFNRQMLTESMLEP 65

>2yho_A E3 ubiquitin-protein ligase mylip; ligase, E2 ligase-E3 ligase complex, ring zinc-finger, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 2yhn_A Length = 79

 Score = 40.5 bits (95), Expect = 3e-05
 Identities = 13/55 (23%), Positives = 23/55 (41%), Gaps = 10/55 (18%)

Query: 31 CNICFDLAQDPIVTLCGHLF-CWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLY 84
          C +C +   +     CGH   C  C        +  + CPVC++ +  E +  +Y
Sbjct: 21 CMVCCEEEINSTFCPCGHTVCCESCA-------AQLQSCPVCRSRV--EHVQHVY 66

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

 Score = 39.5 bits (93), Expect = 3e-05
 Identities = 17/50 (34%), Positives = 23/50 (46%), Gaps = 7/50 (14%)

Query: 30 ECNICF-DLAQDPIVTL---CGHLFCWPCLYKWLHGHSNYRECPVCKATI 75
          EC +C  +L           CGH F   C+  WL  HS    CP+C+ T+
Sbjct: 7  ECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHST---CPLCRLTV 53

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

 Score = 39.9 bits (93), Expect = 4e-05
 Identities = 12/54 (22%), Positives = 23/54 (42%), Gaps = 7/54 (12%)

Query: 31 CNICFDLAQ--DPIVTL--CGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKL 80
          C  C    +  D +V    C H F   C+  W+  ++    CP+C+     +++
Sbjct: 29 CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNR---CPLCQQDWVVQRI 79

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

 Score = 39.9 bits (93), Expect = 5e-05
 Identities = 11/62 (17%), Positives = 21/62 (33%), Gaps = 7/62 (11%)

Query: 28 NFECNICFDLAQDPIV-TLCGHLFCWPCLYKWL---HGHSNYRECPV---CKATIEEEKL 80
           F C I  +  + P+   +CGH +    + + +           CP        I +  L
Sbjct: 7  GFTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKSDL 66

Query: 81 VP 82
          + 
Sbjct: 67 IQ 68

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

 Score = 39.0 bits (91), Expect = 6e-05
 Identities = 16/58 (27%), Positives = 25/58 (43%), Gaps = 8/58 (13%)

Query: 30 ECNICFDLAQDPIV--TLCGHLF-CWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLY 84
           C IC    ++  +     GHL  C+ C  K    +   + CPVC+  I  + +V  Y
Sbjct: 10 PCVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKRN---KPCPVCRQPI--QMIVLTY 62

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

 Score = 39.0 bits (91), Expect = 8e-05
 Identities = 14/49 (28%), Positives = 17/49 (34%), Gaps = 8/49 (16%)

Query: 30 ECNICFDLAQDPIVTLCGHLF-CWPCLYKWLHGHSNYRECPVCKATIEE 77
           C IC D     +   CGHL  C  C            +CP+C   I  
Sbjct: 27 LCKICMDRNIAIVFVPCGHLVTCKQC-------AEAVDKCPMCYTVITF 68

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

 Score = 41.3 bits (96), Expect = 2e-04
 Identities = 8/55 (14%), Positives = 19/55 (34%), Gaps = 4/55 (7%)

Query: 29  FECNICFDLAQDPIVTLC-GHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVP 82
           F   + + + +DP++            +   L   S     P  +  ++ E + P
Sbjct: 892 FLDPLMYTIMKDPVILPASKMNIDRSTIKAHLLSDST---DPFNRMPLKLEDVTP 943

>2cs3_A Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.3 Length = 93

 Score = 37.9 bits (87), Expect = 3e-04
 Identities = 15/62 (24%), Positives = 25/62 (40%), Gaps = 6/62 (9%)

Query: 18 SNNNSNSEAGNFECNICFDLAQDPIVTLC----GHLFCWPCLYKWLHGHSNYRE--CPVC 71
          S+ +  + +G   C IC +  +D     C     H FC+PC  + +       E  CP  
Sbjct: 5  SSGSPMANSGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKAQGATGEVYCPSG 64

Query: 72 KA 73
          + 
Sbjct: 65 EK 66

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

 Score = 39.2 bits (91), Expect = 3e-04
 Identities = 11/54 (20%), Positives = 25/54 (46%), Gaps = 2/54 (3%)

Query: 29  FECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVP 82
               I F+L ++P +T  G  +    + + L         PV ++ + +++L+P
Sbjct: 107 LCGKISFELMREPCITPSGITYDRKDIEEHL--QRVGHFDPVTRSPLTQDQLIP 158

>1t1h_A Gspef-atpub14, armadillo repeat containing protein; ubiquitin ligase, E3 ligase, U-BOX,; NMR {Arabidopsis thaliana} SCOP: g.44.1.2 Length = 78

 Score = 36.8 bits (86), Expect = 4e-04
 Identities = 15/54 (27%), Positives = 26/54 (48%), Gaps = 2/54 (3%)

Query: 29 FECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVP 82
          F C I  +L +DP++   G  +    + KWL   + ++ CP  + T+    L P
Sbjct: 9  FRCPISLELMKDPVIVSTGQTYERSSIQKWL--DAGHKTCPKSQETLLHAGLTP 60

>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 = 5e-04
 Identities = 12/60 (20%), Positives = 21/60 (35%), Gaps = 7/60 (11%)

Query: 28 NFECNICF-DLAQDP----IVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVP 82
          +  C  C     ++P    +V +CGH  C  C+       +    CP C   + +     
Sbjct: 3  DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAG--NCPECGTPLRKSNFRV 60

>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 = 37.1 bits (85), Expect = 8e-04
 Identities = 9/31 (29%), Positives = 11/31 (35%), Gaps = 2/31 (6%)

Query: 46 CGHLFCWPCLYKWLHGHSN--YRECPVCKAT 74
          C H F   CL       +     +CP CK  
Sbjct: 61 CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTI 91

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	229
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.58
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.55
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.55
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.54
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.53
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.51
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.51
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.51
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.51
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.49
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.49
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.49
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.48
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.48
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.48
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.46
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.46
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.44
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.43
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.41
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.41
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.4
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.4
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.38
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.37
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.37
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.36
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.36
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.36
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.34
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.33
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	99.33
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.32
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.31
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.31
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.3
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.29
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.29
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.29
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.28
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.27
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.26
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.26
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.22
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.22
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.21
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.2
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.2
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.2
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.2
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	99.19
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.18
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.14
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	99.13
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	99.13
2ea5_A	68	Cell growth regulator with ring finger domain prot	99.1
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	99.08
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	99.07
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	99.06
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	99.04
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.03
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	99.0
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	98.94
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.83
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	98.83
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	98.79
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.76
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.67
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.35
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.3
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.85
3nw0_A	238	Non-structural maintenance of chromosomes element	97.06
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	96.46
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	96.3
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	96.17
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	94.68
1weo_A	93	Cellulose synthase, catalytic subunit (IRX3); stru	89.26
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	88.27
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	87.59
2lv9_A	98	Histone-lysine N-methyltransferase MLL5; zinc fing	86.76
1weu_A	91	Inhibitor of growth family, member 4; structural g	86.7
4fo9_A	360	E3 SUMO-protein ligase PIAS2; E3 ligase, pinit dom	85.52
1wen_A	71	Inhibitor of growth family, member 4; ING1-like pr	85.18
1wem_A	76	Death associated transcription factor 1; structura	83.74
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	83.62
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	82.39
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	82.06

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

Probab=99.58  E-value=3.1e-15  Score=105.42  Aligned_cols=62  Identities=21%  Similarity=0.460  Sum_probs=52.0

Q ss_pred             CCCCCCCCCccccccccCCCCcEEc-cCCCccChhHHHHHHhhCCCCCCCCCcccccccccccccc
Q 027010           20 NNSNSEAGNFECNICFDLAQDPIVT-LCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLY   84 (229)
Q Consensus        20 ~~~~~~~~~~~C~ICld~~~~pv~l-~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~   84 (229)
                      .+.+..++++.|+||++.+.+|+++ +|||.||..||.+|++.+   ..||+||+.+..+++.++.
T Consensus         7 ~~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~---~~CP~Cr~~~~~~~~~~~~   69 (72)
T 2djb_A            7 GNLSELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYS---NRCPKCNIVVHQTQPLSGP   69 (72)
T ss_dssp             CCCCCCCGGGSCTTTSSCCSSCEECSSSCCEECHHHHHHHHHHC---SSCTTTCCCCCSSCSCCCC
T ss_pred             hhHhhcCCCCCCCCCChHHHCcCEECCCCCHHHHHHHHHHHHcC---CcCCCcCcccCcccccccC
Confidence            3445566789999999999999987 999999999999999854   5999999999876665543

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

Probab=99.55  E-value=8.1e-15  Score=102.99  Aligned_cols=59  Identities=29%  Similarity=0.765  Sum_probs=50.0

Q ss_pred             CCCCCCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCcccccccccc
Q 027010           22 SNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKL   80 (229)
Q Consensus        22 ~~~~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l   80 (229)
                      .+...++.+|+||++.+.+|++++|||.||..||.+|++.......||+||+.+..+++
T Consensus        14 ~~~~~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~   72 (73)
T 2ysl_A           14 VNKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNAI   72 (73)
T ss_dssp             CCCCCCCCBCTTTCSBCSSEEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCCCC
T ss_pred             HHhCccCCEeccCCcccCCeEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCcccC
Confidence            34456789999999999999999999999999999999854456799999998875543

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

Probab=99.55  E-value=3.2e-15  Score=105.10  Aligned_cols=57  Identities=26%  Similarity=0.617  Sum_probs=49.0

Q ss_pred             CCCCCCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCccccccccccc
Q 027010           22 SNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLV   81 (229)
Q Consensus        22 ~~~~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~   81 (229)
                      .....++.+|+||++.+.+++.++|||.||..||.+|++.+   ..||+||+.+..+.+.
T Consensus         9 ~~~~~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~~---~~CP~Cr~~~~~~~~~   65 (71)
T 2d8t_A            9 TAPSLTVPECAICLQTCVHPVSLPCKHVFCYLCVKGASWLG---KRCALCRQEIPEDFLD   65 (71)
T ss_dssp             CCSSSSCCBCSSSSSBCSSEEEETTTEEEEHHHHHHCTTCS---SBCSSSCCBCCHHHHS
T ss_pred             cccCCCCCCCccCCcccCCCEEccCCCHHHHHHHHHHHHCC---CcCcCcCchhCHhhcc
Confidence            34456778999999999999999999999999999999843   5999999999866553

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

Probab=99.54  E-value=2e-14  Score=103.16  Aligned_cols=66  Identities=24%  Similarity=0.594  Sum_probs=55.3

Q ss_pred             CCCCCCccccccccCCCCcEEccCCCccChhHHHHHHhhC---CCCCCCCCccccccccccccccCCCC
Q 027010           23 NSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGH---SNYRECPVCKATIEEEKLVPLYGRGK   88 (229)
Q Consensus        23 ~~~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~---s~~~~CPvCR~~v~~~~l~p~~~~~~   88 (229)
                      +...++++|+||++.+.+|++++|||.||..||.+|++..   .....||+||+.+..+.+.+++...+
T Consensus        14 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~n~~l~~   82 (85)
T 2ecw_A           14 EMIKEEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNLKPNLHVAN   82 (85)
T ss_dssp             CCCCTTTSCTTTCSCCSSCEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTTCCEECSCCCS
T ss_pred             HhCccCCCCcCCChhhCcceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHHhCCcCHHHHH
Confidence            4456788999999999999999999999999999999963   23679999999998877777765543

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

Probab=99.53  E-value=2.5e-14  Score=102.67  Aligned_cols=66  Identities=27%  Similarity=0.619  Sum_probs=54.8

Q ss_pred             CCCCCCccccccccCCCCcEEccCCCccChhHHHHHHhh---CCCCCCCCCccccccccccccccCCCC
Q 027010           23 NSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHG---HSNYRECPVCKATIEEEKLVPLYGRGK   88 (229)
Q Consensus        23 ~~~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~---~s~~~~CPvCR~~v~~~~l~p~~~~~~   88 (229)
                      ....++.+|+||++.+.+|+.++|||.||..|+..|++.   ......||+||+.+..+.+.+++...+
T Consensus        14 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~n~~l~~   82 (85)
T 2ecv_A           14 VNVKEEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENIRPNRHVAN   82 (85)
T ss_dssp             CCCCCCCCCTTTCSCCSSCBCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSSCCCSCCCCC
T ss_pred             HHccCCCCCCCCCcccCCceeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHhcCccHHHHH
Confidence            445677999999999999999999999999999999985   123579999999998777766665443

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

Probab=99.51  E-value=2.3e-14  Score=101.59  Aligned_cols=56  Identities=25%  Similarity=0.609  Sum_probs=47.6

Q ss_pred             CCCCCCCCCccccccccCCCCcEEcc-CCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           20 NNSNSEAGNFECNICFDLAQDPIVTL-CGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        20 ~~~~~~~~~~~C~ICld~~~~pv~l~-CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      .+.+...+++.|+||++.+.+|++++ |||.||..||.+|++.+ +...||+||+.+.
T Consensus         7 ~~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~-~~~~CP~Cr~~~~   63 (74)
T 2yur_A            7 GEDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLES-DEHTCPTCHQNDV   63 (74)
T ss_dssp             SCCCCSCGGGSCSSSCCCCTTCEECSSSCCEECTTHHHHHHHHS-SSSCCSSSCCSSC
T ss_pred             cccccCCCCCCCcCCChHHhCCeEcCCCCCHHHHHHHHHHHHhc-CCCcCCCCCCcCC
Confidence            34455667899999999999999999 99999999999999864 2468999999654

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

Probab=99.51  E-value=5.6e-15  Score=103.16  Aligned_cols=58  Identities=34%  Similarity=0.863  Sum_probs=50.6

Q ss_pred             CCCCCccccccccCCCCc-------EEccCCCccChhHHHHHHhhCCCCCCCCCcccccccccccccc
Q 027010           24 SEAGNFECNICFDLAQDP-------IVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLY   84 (229)
Q Consensus        24 ~~~~~~~C~ICld~~~~p-------v~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~   84 (229)
                      ..+++.+|+||++.+.++       +.++|||.||..||.+|++.+   ..||+||+.+..+++.++|
T Consensus         6 ~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~---~~CP~Cr~~~~~~~~~~~~   70 (71)
T 3ng2_A            6 RPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA---NTCPTCRKKINHKRYHPIY   70 (71)
T ss_dssp             CCTTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHC---SBCTTTCCBCCCCSCCCCC
T ss_pred             CCCCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcC---CCCCCCCCccChhheeecc
Confidence            345678999999999887       889999999999999999964   4999999999988887765

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

Probab=99.51  E-value=2.1e-14  Score=103.21  Aligned_cols=53  Identities=32%  Similarity=0.700  Sum_probs=46.6

Q ss_pred             CCCCCCCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           21 NSNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        21 ~~~~~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      +.+.....++|+||++.+.+|++++|||.||..||.+|++.   ...||+||+.+.
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~---~~~CP~Cr~~~~   60 (81)
T 2csy_A            8 GSEEEEIPFRCFICRQAFQNPVVTKCRHYFCESCALEHFRA---TPRCYICDQPTG   60 (81)
T ss_dssp             CSSCCCCCSBCSSSCSBCCSEEECTTSCEEEHHHHHHHHHH---CSBCSSSCCBCC
T ss_pred             CcccCCCCCCCcCCCchhcCeeEccCCCHhHHHHHHHHHHC---CCcCCCcCcccc
Confidence            34455678999999999999999999999999999999985   449999999886

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

Probab=99.51  E-value=7.4e-15  Score=104.60  Aligned_cols=66  Identities=24%  Similarity=0.532  Sum_probs=55.1

Q ss_pred             CCCCCCccccccccCCCCcEEccCCCccChhHHHHHHhhC----CCCCCCCCccccccccccccccCCCC
Q 027010           23 NSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGH----SNYRECPVCKATIEEEKLVPLYGRGK   88 (229)
Q Consensus        23 ~~~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~----s~~~~CPvCR~~v~~~~l~p~~~~~~   88 (229)
                      +...++++|+||++.+.+|++++|||.||..||.+|++..    .....||+||+.+....+.+++...+
T Consensus         7 ~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~~l~~n~~l~~   76 (79)
T 2egp_A            7 GNVQEEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEHLQANQHLAN   76 (79)
T ss_dssp             CCCCCCCEETTTTEECSSCCCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSSGGGTCSSSCC
T ss_pred             hhcccCCCCcCCCcccCCeeECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHhhCCcCHHHHH
Confidence            3456789999999999999999999999999999999852    23579999999998877777766543

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

Probab=99.49  E-value=2.1e-14  Score=102.36  Aligned_cols=61  Identities=26%  Similarity=0.569  Sum_probs=53.0

Q ss_pred             CCCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCccccccccccccccCCC
Q 027010           25 EAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGRG   87 (229)
Q Consensus        25 ~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~~~~   87 (229)
                      ..+++.|+||++.+.+|++++|||+||..||.+|++.  +...||+||+.+..+.+.++....
T Consensus         5 ~~~~~~C~IC~~~~~~Pv~~~CgH~fc~~Ci~~~~~~--~~~~CP~C~~~~~~~~l~~n~~l~   65 (78)
T 1t1h_A            5 FPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDA--GHKTCPKSQETLLHAGLTPNYVLK   65 (78)
T ss_dssp             CSSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTT--TCCBCTTTCCBCSSCCCEECTTTH
T ss_pred             CcccCCCCCccccccCCEEcCCCCeecHHHHHHHHHH--CcCCCCCCcCCCChhhCccCHHHH
Confidence            4568999999999999999999999999999999984  256999999999877777776543

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

Probab=99.49  E-value=2.2e-14  Score=99.28  Aligned_cols=57  Identities=26%  Similarity=0.672  Sum_probs=48.3

Q ss_pred             CCCCCCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCcccccccccc
Q 027010           22 SNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKL   80 (229)
Q Consensus        22 ~~~~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l   80 (229)
                      .+...+++.|+||++.+.+|+.++|||.||..||.+|++.  ....||+||+.+..+++
T Consensus         9 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~--~~~~CP~Cr~~~~~~~i   65 (66)
T 2ecy_A            9 VKTVEDKYKCEKCHLVLCSPKQTECGHRFCESCMAALLSS--SSPKCTACQESIVKDKV   65 (66)
T ss_dssp             CCSCCCCEECTTTCCEESSCCCCSSSCCCCHHHHHHHHTT--SSCCCTTTCCCCCTTTC
T ss_pred             hhcCCcCCCCCCCChHhcCeeECCCCCHHHHHHHHHHHHh--CcCCCCCCCcCCChhhc
Confidence            3445678999999999999999999999999999999962  34689999999876543

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

Probab=99.49  E-value=7.1e-14  Score=101.30  Aligned_cols=59  Identities=31%  Similarity=0.637  Sum_probs=49.8

Q ss_pred             CCCCCCCccccccccCCCC----cEEccCCCccChhHHHHHHhhCCCCCCCCCcccccccccc
Q 027010           22 SNSEAGNFECNICFDLAQD----PIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKL   80 (229)
Q Consensus        22 ~~~~~~~~~C~ICld~~~~----pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l   80 (229)
                      .+...+..+|+||++.+.+    ++.++|||.||..||.+|++.+.....||+||+.+....+
T Consensus         9 ~~~~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~i   71 (88)
T 2ct2_A            9 LDALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITSL   71 (88)
T ss_dssp             CCCCCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCSST
T ss_pred             hhhccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccchhH
Confidence            3445677899999999998    9999999999999999999975445799999998875443

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

Probab=99.48  E-value=4.8e-14  Score=100.44  Aligned_cols=60  Identities=25%  Similarity=0.603  Sum_probs=48.2

Q ss_pred             CCCCCCCCccccccccCCCCc---EEccCCCccChhHHHHHHhhCCCCCCCCCccccccccccccc
Q 027010           21 NSNSEAGNFECNICFDLAQDP---IVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPL   83 (229)
Q Consensus        21 ~~~~~~~~~~C~ICld~~~~p---v~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~   83 (229)
                      +.+...++.+|+||++.+.++   ++++|+|.||..||.+|++.+   ..||+||+.+...++.++
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~---~~CP~Cr~~~~~~~~~~~   70 (78)
T 2ect_A            8 TEEHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQH---DSCPVCRKSLTGQNTATN   70 (78)
T ss_dssp             CCTTSSSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTT---CSCTTTCCCCCCSCSCCC
T ss_pred             CcccCCCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcC---CcCcCcCCccCCcccCCC
Confidence            334456778999999999765   557999999999999999854   599999999886665443

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

Probab=99.48  E-value=3.5e-14  Score=104.23  Aligned_cols=64  Identities=23%  Similarity=0.537  Sum_probs=51.9

Q ss_pred             CCCCCCCCccccccccCCCCcEEcc-CCCccChhHHHHHHhhCCCCCCCCCccccc-cccccccccC
Q 027010           21 NSNSEAGNFECNICFDLAQDPIVTL-CGHLFCWPCLYKWLHGHSNYRECPVCKATI-EEEKLVPLYG   85 (229)
Q Consensus        21 ~~~~~~~~~~C~ICld~~~~pv~l~-CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v-~~~~l~p~~~   85 (229)
                      +.+...+++.|+||++.+.+|++++ |||.||..||.+|+... +...||+||+.+ ..+.+.++..
T Consensus         6 ~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~-~~~~CP~Cr~~~~~~~~~~~n~~   71 (92)
T 3ztg_A            6 EDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLES-DEHTCPTCHQNDVSPDALIANKF   71 (92)
T ss_dssp             SCCCCCTTTEETTTTEECSSCEECTTTCCEECHHHHHHHHHHC-TTCCCTTTCCSSCCTTSCEECHH
T ss_pred             ccccCCcCCCCCCCChhhcCceECCCCCCHHHHHHHHHHHHhc-CCCcCcCCCCcCCCccccCcCHH
Confidence            3445667899999999999999999 99999999999999853 246999999987 4445555544

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

Probab=99.48  E-value=8.3e-14  Score=95.37  Aligned_cols=50  Identities=32%  Similarity=0.814  Sum_probs=43.7

Q ss_pred             CCCCCCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCc
Q 027010           22 SNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVC   71 (229)
Q Consensus        22 ~~~~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvC   71 (229)
                      .+...++++|+||++.+.+|++++|||.||..||.+|++.......||+|
T Consensus        14 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           14 VNKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCCCCBCTTTCSBCSSCEECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             HHhCccCCCCCcCCchhCCeEEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            34456789999999999999999999999999999999864456799998

>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=99.46  E-value=9.3e-14  Score=104.31  Aligned_cols=62  Identities=15%  Similarity=0.145  Sum_probs=54.7

Q ss_pred             CCCCCccccccccCCCCcEEccCC-CccChhHHHHHHhhCCCCCCCCCccccccccccccccCCCC
Q 027010           24 SEAGNFECNICFDLAQDPIVTLCG-HLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGRGK   88 (229)
Q Consensus        24 ~~~~~~~C~ICld~~~~pv~l~Cg-H~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~~~~~   88 (229)
                      ...+++.|+||++++++||+++|| |+||..||.+||..   ..+||+||+.+..+.++|+..+.+
T Consensus        18 ~~p~~~~CpI~~~~m~dPV~~~cG~htf~r~cI~~~l~~---~~~cP~~~~~l~~~~L~pn~~Lk~   80 (98)
T 1wgm_A           18 DACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLS---DQTDPFNRSPLTMDQIRPNTELKE   80 (98)
T ss_dssp             SCCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTT---SCBCTTTCSBCCTTTSEECHHHHH
T ss_pred             cCcHhcCCcCccccccCCeECCCCCeEECHHHHHHHHHh---CCCCCCCCCCCChhhceEcHHHHH
Confidence            345789999999999999999999 99999999999995   349999999999888888876544

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

Probab=99.46  E-value=3.8e-14  Score=98.12  Aligned_cols=52  Identities=35%  Similarity=0.815  Sum_probs=44.7

Q ss_pred             CCCCCCccccccccCCCCc-------EEccCCCccChhHHHHHHhhCCCCCCCCCccccccc
Q 027010           23 NSEAGNFECNICFDLAQDP-------IVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEE   77 (229)
Q Consensus        23 ~~~~~~~~C~ICld~~~~p-------v~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~   77 (229)
                      ....++.+|+||++.+.++       +.++|||.||..||.+|++.+   ..||+||+.+..
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~---~~CP~Cr~~~~~   68 (69)
T 2ea6_A           10 LRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA---NTCPTCRKKINH   68 (69)
T ss_dssp             CCTTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHC---SSCTTTCCCCCC
T ss_pred             cCCCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcC---CCCCCCCCccCc
Confidence            3456778999999999877       889999999999999999964   499999998763

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

Probab=99.44  E-value=1.3e-13  Score=100.77  Aligned_cols=61  Identities=16%  Similarity=0.220  Sum_probs=53.8

Q ss_pred             CCCCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCccccccccccccccCCC
Q 027010           24 SEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGRG   87 (229)
Q Consensus        24 ~~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~~~~   87 (229)
                      ...+++.|+||++.+++||+++|||+||..||.+|+..+   .+||+|++.+..+.++|+....
T Consensus        10 ~~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~~---~~cP~~~~~l~~~~l~pn~~L~   70 (85)
T 2kr4_A           10 DAPDEFRDPLMDTLMTDPVRLPSGTVMDRSIILRHLLNS---PTDPFNRQMLTESMLEPVPELK   70 (85)
T ss_dssp             TCCTTTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHC---SBCTTTCCBCCGGGCEECHHHH
T ss_pred             cCchheECcccCchhcCCeECCCCCEECHHHHHHHHhcC---CCCCCCcCCCChHhcchHHHHH
Confidence            345789999999999999999999999999999999953   4999999999988888876543

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

Probab=99.43  E-value=3.6e-14  Score=96.82  Aligned_cols=55  Identities=35%  Similarity=0.855  Sum_probs=48.8

Q ss_pred             CCccccccccCCCCc-------EEccCCCccChhHHHHHHhhCCCCCCCCCcccccccccccccc
Q 027010           27 GNFECNICFDLAQDP-------IVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLY   84 (229)
Q Consensus        27 ~~~~C~ICld~~~~p-------v~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~   84 (229)
                      ++.+|+||++.+.++       +.++|||.||..|+.+|++.+   ..||+||+.+..+++.++|
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~---~~CP~Cr~~~~~~~~~~~~   63 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA---NTCPTCRKKINHKRYHPIY   63 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHC---SBCTTTCCBCTTTCEEECC
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcC---CCCCCCCccCCccceeeee
Confidence            467899999999876       789999999999999999964   4999999999988887775

>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=99.41  E-value=2.6e-13  Score=102.24  Aligned_cols=63  Identities=17%  Similarity=0.237  Sum_probs=54.9

Q ss_pred             CCCCCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCccccccccccccccCCCC
Q 027010           23 NSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGRGK   88 (229)
Q Consensus        23 ~~~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~~~~~   88 (229)
                      ....+++.|+||++.+++||+++|||+||..||.+||..   ..+||+|+..+..+.++|+....+
T Consensus        24 ~~~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~---~~~cP~~~~~l~~~~L~pn~~Lk~   86 (100)
T 2kre_A           24 SDAPDEFRDPLMDTLMTDPVRLPSGTIMDRSIILRHLLN---SPTDPFNRQTLTESMLEPVPELKE   86 (100)
T ss_dssp             SSCSTTTBCTTTCSBCSSEEEETTTEEEEHHHHHHHTTS---CSBCSSSCCBCCTTSSEECHHHHH
T ss_pred             ccCcHhhCCcCccCcccCCeECCCCCEEchHHHHHHHHc---CCCCCCCCCCCChhhceECHHHHH
Confidence            344678999999999999999999999999999999984   459999999999888888866543

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

Probab=99.41  E-value=2.7e-13  Score=90.85  Aligned_cols=50  Identities=28%  Similarity=0.859  Sum_probs=42.6

Q ss_pred             CCCCCCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCc
Q 027010           22 SNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVC   71 (229)
Q Consensus        22 ~~~~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvC   71 (229)
                      .+...++..|+||++.+.+|++++|||.||..||.+|++.......||+|
T Consensus         9 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A            9 LENLQVEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             SSCSCCCCBCSSSCCBCSSCCCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             hhccccCCCCccCCcccCccEeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            34456778999999999999999999999999999997743346799998

>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=99.40  E-value=1.1e-13  Score=103.80  Aligned_cols=59  Identities=31%  Similarity=0.754  Sum_probs=51.4

Q ss_pred             CCCCccccccccCCCCcEE-ccCCCccChhHHHHHHhhCCCCCCCCCccccccccccccccC
Q 027010           25 EAGNFECNICFDLAQDPIV-TLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYG   85 (229)
Q Consensus        25 ~~~~~~C~ICld~~~~pv~-l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~~   85 (229)
                      ..+++.|+||++.+.+|+. ++|||.||..||.+|++..  ...||+||+.+..++++++..
T Consensus        19 l~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~--~~~CP~Cr~~~~~~~l~~~~~   78 (100)
T 3lrq_A           19 IAEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQ--RAQCPHCRAPLQLRELVNCRW   78 (100)
T ss_dssp             HHHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHHHT--CSBCTTTCCBCCGGGCEECTT
T ss_pred             CCCCCCCccCCccccCccccCCCCChhhHHHHHHHHHHC--cCCCCCCCCcCCHHHhHhhHH
Confidence            4567899999999999999 9999999999999999964  258999999998877776654

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

Probab=99.40  E-value=1.5e-13  Score=95.88  Aligned_cols=53  Identities=32%  Similarity=0.832  Sum_probs=45.5

Q ss_pred             CCCCCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCccccccccc
Q 027010           23 NSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEK   79 (229)
Q Consensus        23 ~~~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~   79 (229)
                      +...++.+|+||++.+.+ +.++|||.||..||.+|++   ....||+||+.+...+
T Consensus        10 ~~~~~~~~C~IC~~~~~~-~~~~CgH~fc~~Ci~~~~~---~~~~CP~Cr~~~~~~~   62 (70)
T 2ecn_A           10 KQLTDEEECCICMDGRAD-LILPCAHSFCQKCIDKWSD---RHRNCPICRLQMTGAN   62 (70)
T ss_dssp             CCCCCCCCCSSSCCSCCS-EEETTTEEECHHHHHHSSC---CCSSCHHHHHCTTCCC
T ss_pred             hcCCCCCCCeeCCcCccC-cccCCCCcccHHHHHHHHH---CcCcCCCcCCcccCCC
Confidence            345567899999999999 9999999999999999999   3559999999887443

>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=99.38  E-value=2.7e-13  Score=102.61  Aligned_cols=60  Identities=33%  Similarity=0.760  Sum_probs=51.1

Q ss_pred             CCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCccccccccccccccCC
Q 027010           27 GNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGR   86 (229)
Q Consensus        27 ~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~~~   86 (229)
                      +.+.|+||++.+.+|+.++|||.||..||.+|+..+.....||+||+.+..+.+.++...
T Consensus        20 ~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~l   79 (112)
T 1jm7_A           20 KILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQESTRF   79 (112)
T ss_dssp             HHTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTCBCCCSS
T ss_pred             CCCCCcccChhhcCeEECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHhhcCccHHH
Confidence            457899999999999999999999999999999965445689999999987766655443

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

Probab=99.37  E-value=5.5e-13  Score=93.96  Aligned_cols=53  Identities=25%  Similarity=0.580  Sum_probs=43.7

Q ss_pred             CCCCCCCCccccccccCCCCcE---EccCCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           21 NSNSEAGNFECNICFDLAQDPI---VTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        21 ~~~~~~~~~~C~ICld~~~~pv---~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      +......+.+|+||++.+.++.   +++|+|.||..||.+|++.+.   .||+||+.+.
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~---~CP~Cr~~~~   63 (74)
T 2ep4_A            8 KVKELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRK---VCPLCNMPVL   63 (74)
T ss_dssp             CCCCCCCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHCS---BCTTTCCBCS
T ss_pred             ccccCCCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcCC---cCCCcCcccc
Confidence            3344566789999999997653   459999999999999999654   9999999876

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

Probab=99.37  E-value=3.1e-13  Score=95.71  Aligned_cols=51  Identities=29%  Similarity=0.675  Sum_probs=43.6

Q ss_pred             CCCCCccccccccCCCCc---EEccCCCccChhHHHHHHhhCCCCCCCCCccccccc
Q 027010           24 SEAGNFECNICFDLAQDP---IVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEE   77 (229)
Q Consensus        24 ~~~~~~~C~ICld~~~~p---v~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~   77 (229)
                      ...++.+|+||++.+.++   +.++|+|.||..||.+|++.+   ..||+||+.+..
T Consensus        19 ~~~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~---~~CP~Cr~~~~~   72 (75)
T 1x4j_A           19 HQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKAN---RTCPICRADSGP   72 (75)
T ss_dssp             CSSSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHC---SSCTTTCCCCCC
T ss_pred             ccCCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcC---CcCcCcCCcCCC
Confidence            345678999999999876   678999999999999999964   499999998763

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

Probab=99.36  E-value=3.2e-13  Score=93.08  Aligned_cols=56  Identities=21%  Similarity=0.584  Sum_probs=47.2

Q ss_pred             CCcccccccc-CCCCc----EEccCCCccChhHHHHHHhhCCCCCCCCCcccccccccccccc
Q 027010           27 GNFECNICFD-LAQDP----IVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLY   84 (229)
Q Consensus        27 ~~~~C~ICld-~~~~p----v~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~   84 (229)
                      ++..|+||++ .+.++    +.++|||.||..||.+|+..  ....||+||+.+..+++.+++
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~--~~~~CP~Cr~~~~~~~~~~~~   62 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVR--GAGNCPECGTPLRKSNFRVQL   62 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHT--TSSSCTTTCCCCSSCCCEEEC
T ss_pred             CCCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHc--CCCcCCCCCCccccccceeec
Confidence            4678999999 78777    56899999999999999874  346899999999887776654

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

Probab=99.36  E-value=1e-12  Score=90.95  Aligned_cols=48  Identities=29%  Similarity=0.874  Sum_probs=42.6

Q ss_pred             CCCccccccccCCCCc-EEccCCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           26 AGNFECNICFDLAQDP-IVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        26 ~~~~~C~ICld~~~~p-v~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      +.+.+|+||++.+.++ +.++|||.||..|+.+|++.+   ..||+||+.+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~---~~CP~Cr~~~~   51 (68)
T 1chc_A            3 TVAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQN---PTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHHS---CSTTTTCCCCC
T ss_pred             CCCCCCeeCCccccCCcEecCCCCeeHHHHHHHHHhCc---CcCcCCChhhH
Confidence            4567899999999986 779999999999999999854   49999999886

>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=99.36  E-value=8.4e-13  Score=91.78  Aligned_cols=53  Identities=32%  Similarity=0.770  Sum_probs=43.7

Q ss_pred             CCCCCCCccccccccCCC---CcEEccCCCccChhHHHHHHhhCCCCCCCCCccccccc
Q 027010           22 SNSEAGNFECNICFDLAQ---DPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEE   77 (229)
Q Consensus        22 ~~~~~~~~~C~ICld~~~---~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~   77 (229)
                      ......+.+|+||++.+.   .++.++|||.||..||.+|++.+.   .||+||+.+..
T Consensus         8 ~~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~---~CP~Cr~~~~~   63 (69)
T 2kiz_A            8 GTEEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNK---KCPICRVDIEA   63 (69)
T ss_dssp             CCSTTCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCS---BCTTTCSBSCS
T ss_pred             cCcCCCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCC---CCcCcCccccC
Confidence            344556788999999884   457799999999999999999654   89999998873

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

Probab=99.34  E-value=4.3e-13  Score=99.84  Aligned_cols=58  Identities=28%  Similarity=0.609  Sum_probs=49.7

Q ss_pred             CCCccccccccCCCCcEEc-cCCCccChhHHHHHHhhCCCCCCCCCccccccccccccccCC
Q 027010           26 AGNFECNICFDLAQDPIVT-LCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGR   86 (229)
Q Consensus        26 ~~~~~C~ICld~~~~pv~l-~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~~~   86 (229)
                      .+++.|+||++.+.+|+++ +|||.||..||.+|++.   ...||+||+.+....+.+++..
T Consensus        20 ~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~---~~~CP~Cr~~~~~~~l~~n~~l   78 (99)
T 2y43_A           20 DDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSY---KTQCPTCCVTVTEPDLKNNRIL   78 (99)
T ss_dssp             HHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTT---CCBCTTTCCBCCGGGCEECHHH
T ss_pred             CCCCCcccCChhhCCcCEECCCCCHhhHHHHHHHHHC---CCCCCCCCCcCChhhCCcCHHH
Confidence            4568999999999999988 89999999999999994   3599999999987666665443

>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=99.33  E-value=4.4e-13  Score=103.82  Aligned_cols=50  Identities=30%  Similarity=0.740  Sum_probs=44.5

Q ss_pred             CCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCccccccc
Q 027010           26 AGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEE   77 (229)
Q Consensus        26 ~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~   77 (229)
                      .+++.|+||++.+.+|++++|||.||..||..|+..  ....||+||+.+..
T Consensus        50 ~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~--~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           50 EETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRA--QVFSCPACRYDLGR   99 (124)
T ss_dssp             HHHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHT--TCCBCTTTCCBCCT
T ss_pred             ccCCCCCcCChHHcCcEEeeCCCcccHHHHHHHHhH--CcCCCCCCCccCCC
Confidence            356789999999999999999999999999999983  34599999999875

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

Probab=99.33  E-value=9e-13  Score=97.86  Aligned_cols=64  Identities=20%  Similarity=0.461  Sum_probs=53.6

Q ss_pred             CCCCccccccccCCCCcEEcc-CCCccChhHHHHHHhhC---CCCCCCCC--cccc-ccccccccccCCCC
Q 027010           25 EAGNFECNICFDLAQDPIVTL-CGHLFCWPCLYKWLHGH---SNYRECPV--CKAT-IEEEKLVPLYGRGK   88 (229)
Q Consensus        25 ~~~~~~C~ICld~~~~pv~l~-CgH~FC~~CL~~wl~~~---s~~~~CPv--CR~~-v~~~~l~p~~~~~~   88 (229)
                      ...++.|+||++.+.+||+++ |||+||..||.+||..+   .....||+  |++. +...+++|+..+..
T Consensus         4 ~~~~~~CPI~~~~~~dPV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~~~L~pn~~L~~   74 (94)
T 2yu4_A            4 GSSGFTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKSDLIQDEALRR   74 (94)
T ss_dssp             CSSCCBCTTTCSBCSSEEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCGGGEEECHHHHH
T ss_pred             CCcEeECcCcCchhcCCEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCHhhCcCCHHHHH
Confidence            356799999999999999996 99999999999999853   23569999  9877 87788888766544

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

Probab=99.32  E-value=5.5e-13  Score=105.39  Aligned_cols=48  Identities=29%  Similarity=0.874  Sum_probs=43.3

Q ss_pred             CCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCccccccc
Q 027010           27 GNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEE   77 (229)
Q Consensus        27 ~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~   77 (229)
                      +++.|+||++.+.+|++++|||.||..||..|+..   ...||+||+.+..
T Consensus        52 ~~~~C~iC~~~~~~~~~~~CgH~fc~~Ci~~~~~~---~~~CP~Cr~~~~~   99 (138)
T 4ayc_A           52 NELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKR---KIECPICRKDIKS   99 (138)
T ss_dssp             HHSBCTTTCSBCSSEEEETTSCEEEHHHHHHHTTT---CSBCTTTCCBCCC
T ss_pred             ccCCCcccCcccCCceECCCCCCccHHHHHHHHHc---CCcCCCCCCcCCC
Confidence            45789999999999999999999999999999994   4589999998864

>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=99.31  E-value=1.3e-12  Score=86.58  Aligned_cols=48  Identities=29%  Similarity=0.687  Sum_probs=41.5

Q ss_pred             CCCccccccccCCCC----cEEccCCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           26 AGNFECNICFDLAQD----PIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        26 ~~~~~C~ICld~~~~----pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      .++.+|+||++.+.+    ++.++|||.||..||.+|++.+   ..||+||+.+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~---~~CP~Cr~~~~   54 (55)
T 2ecm_A            3 SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEG---YRCPLCSGPSS   54 (55)
T ss_dssp             SCCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHT---CCCTTSCCSSC
T ss_pred             CCCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcC---CcCCCCCCcCC
Confidence            356789999999865    6789999999999999999965   59999998764

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

Probab=99.31  E-value=7.6e-13  Score=102.20  Aligned_cols=59  Identities=34%  Similarity=0.817  Sum_probs=50.9

Q ss_pred             CCCCccccccccCCCCc-------EEccCCCccChhHHHHHHhhCCCCCCCCCccccccccccccccCC
Q 027010           25 EAGNFECNICFDLAQDP-------IVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGR   86 (229)
Q Consensus        25 ~~~~~~C~ICld~~~~p-------v~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~~~   86 (229)
                      ..++++|+||++.+.++       +.++|||.||..||.+|++.+   ..||+||+.+..+.+.+++..
T Consensus         4 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~---~~CP~Cr~~~~~~~l~~l~i~   69 (133)
T 4ap4_A            4 GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA---NTCPTCRKKINHKRYHPIYIG   69 (133)
T ss_dssp             -CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTC---SBCTTTCCBCTTTCEEECBCS
T ss_pred             CCCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhC---CCCCCCCCcCccccccccccC
Confidence            34678999999999988       899999999999999999954   499999999998888776653

>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=99.30  E-value=1.5e-12  Score=100.10  Aligned_cols=61  Identities=30%  Similarity=0.675  Sum_probs=51.5

Q ss_pred             CCCCCCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCcccccccccccccc
Q 027010           22 SNSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLY   84 (229)
Q Consensus        22 ~~~~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~   84 (229)
                      .....+++.|+||++.+.+|++++|||.||..||.+|++...  ..||+||+.+..+.+.++.
T Consensus        12 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~--~~CP~Cr~~~~~~~~~~~~   72 (118)
T 3hct_A           12 DPPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAG--HKCPVDNEILLENQLFPDN   72 (118)
T ss_dssp             SSCCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHHC--SBCTTTCCBCCGGGCEECH
T ss_pred             ccCCCCCCCCCcCChhhcCeEECCcCChhhHHHHHHHHhhCC--CCCCCCCCCcCHHhcccCH
Confidence            345667899999999999999999999999999999998532  3899999999877665543

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

Probab=99.29  E-value=2.2e-12  Score=85.68  Aligned_cols=48  Identities=31%  Similarity=0.770  Sum_probs=41.1

Q ss_pred             CCCccccccccCCCC---cEEcc-CCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           26 AGNFECNICFDLAQD---PIVTL-CGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        26 ~~~~~C~ICld~~~~---pv~l~-CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      +++.+|+||++.+.+   ++.++ |||.||..||.+|++.   ...||+||+.+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~---~~~CP~Cr~~~~   54 (55)
T 1iym_A            3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGS---HSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTT---CCSCSSSCCCSC
T ss_pred             CCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHc---CCcCcCCCCEeE
Confidence            456789999999987   67776 9999999999999985   459999998764

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

Probab=99.29  E-value=2.2e-12  Score=111.31  Aligned_cols=63  Identities=19%  Similarity=0.308  Sum_probs=54.2

Q ss_pred             CCCCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCccccccccccccccCCCC
Q 027010           24 SEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGRGK   88 (229)
Q Consensus        24 ~~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~~~~~   88 (229)
                      .....+.|+||++.+.+||+++|||+||..||.+|+....  ..||+||.++....++|+.....
T Consensus       204 ~~~~~~~c~i~~~~~~dPv~~~~gh~f~~~~i~~~~~~~~--~~cP~~~~~~~~~~l~~n~~l~~  266 (281)
T 2c2l_A          204 DIPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVG--HFNPVTRSPLTQEQLIPNLAMKE  266 (281)
T ss_dssp             CCCSTTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHTC--SSCTTTCCCCCGGGCEECHHHHH
T ss_pred             CCCcccCCcCcCCHhcCCeECCCCCEECHHHHHHHHHHCC--CCCcCCCCCCchhcCcccHHHHH
Confidence            3457899999999999999999999999999999998632  35999999999888888766543

>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=99.29  E-value=1.3e-12  Score=98.77  Aligned_cols=51  Identities=24%  Similarity=0.653  Sum_probs=45.3

Q ss_pred             CCCCccccccccCCCCcEEc-cCCCccChhHHHHHHhhCCCCCCCCCcccccccc
Q 027010           25 EAGNFECNICFDLAQDPIVT-LCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEE   78 (229)
Q Consensus        25 ~~~~~~C~ICld~~~~pv~l-~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~   78 (229)
                      ..+++.|+||++.+.+|+.+ +|||.||..||.+|++.+   ..||+||+.+...
T Consensus        12 ~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~---~~CP~Cr~~~~~~   63 (108)
T 2ckl_A           12 LNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETS---KYCPICDVQVHKT   63 (108)
T ss_dssp             HGGGTBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHTSC---SBCTTTCCBSCSS
T ss_pred             cCCcCCCccCChHHhCcCEeCCCCChhhHHHHHHHHHhC---CcCcCCCcccccc
Confidence            34678999999999999997 999999999999999953   5999999988754

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

Probab=99.28  E-value=2.2e-12  Score=94.99  Aligned_cols=49  Identities=29%  Similarity=0.683  Sum_probs=42.5

Q ss_pred             CCCCccccccccCCCC---cEEccCCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           25 EAGNFECNICFDLAQD---PIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        25 ~~~~~~C~ICld~~~~---pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      ..++..|+||++.+.+   ++.++|||.||..||.+|++.+   ..||+||+.+.
T Consensus        37 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~---~~CP~Cr~~~~   88 (91)
T 2l0b_A           37 VGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKS---GTCPVCRCMFP   88 (91)
T ss_dssp             SSSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTTT---CBCTTTCCBSS
T ss_pred             cCCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHcC---CcCcCcCccCC
Confidence            4567889999999876   6779999999999999999854   49999999775

>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=99.27  E-value=2e-12  Score=103.99  Aligned_cols=55  Identities=27%  Similarity=0.689  Sum_probs=46.8

Q ss_pred             CCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCcccccccc-ccccc
Q 027010           27 GNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEE-KLVPL   83 (229)
Q Consensus        27 ~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~-~l~p~   83 (229)
                      +++.|+||++.+.+|++++|||.||..||.+|+..  ....||+||..+... .+.++
T Consensus        77 ~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~--~~~~CP~Cr~~~~~~~~l~~n  132 (150)
T 1z6u_A           77 QSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKA--QVFSCPACRHDLGQNYIMIPN  132 (150)
T ss_dssp             HHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHT--TCCBCTTTCCBCCTTCCCCBC
T ss_pred             cCCEeecCChhhcCCEEcCCCCchhHHHHHHHHHh--CCCcCCCCCccCCCCCCCCCC
Confidence            45789999999999999999999999999999984  345899999998865 44444

>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=99.26  E-value=9.2e-13  Score=100.62  Aligned_cols=52  Identities=23%  Similarity=0.741  Sum_probs=45.6

Q ss_pred             CCCCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCccccccc
Q 027010           24 SEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEE   77 (229)
Q Consensus        24 ~~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~   77 (229)
                      ...+++.|+||++.+.+|++++|||.||..||.+|++.  ....||+||+.+..
T Consensus        11 ~~~~~~~C~iC~~~~~~p~~~~CgH~fC~~Ci~~~~~~--~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           11 PSLSECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEK--ASLCCPFCRRRVSS   62 (115)
T ss_dssp             CCHHHHBCTTTCSBCSSCEECTTSCEECHHHHCCCCCT--TTSBCTTTCCBCHH
T ss_pred             CCCCCCCCccCCcccCceeEcCCCCHHhHHHHHHHHhH--CcCCCCCCCcccCc
Confidence            34567999999999999999999999999999999974  24699999998863

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

Probab=99.26  E-value=9.1e-13  Score=104.96  Aligned_cols=51  Identities=24%  Similarity=0.598  Sum_probs=44.8

Q ss_pred             CCCCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           24 SEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        24 ~~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      ..++++.|+||++.+.+|++++|||.||..||.+|++.  ....||+||..+.
T Consensus        27 ~l~~~~~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~--~~~~CP~Cr~~~~   77 (141)
T 3knv_A           27 KLEAKYLCSACRNVLRRPFQAQCGHRYCSFCLASILSS--GPQNCAACVHEGI   77 (141)
T ss_dssp             GCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHGGG--SCEECHHHHHTTC
T ss_pred             cCCcCcCCCCCChhhcCcEECCCCCccCHHHHHHHHhc--CCCCCCCCCCccc
Confidence            45678999999999999999999999999999999984  2358999999764

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

Probab=99.22  E-value=5.6e-12  Score=96.37  Aligned_cols=54  Identities=31%  Similarity=0.689  Sum_probs=47.3

Q ss_pred             CCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCccccccccccc
Q 027010           26 AGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLV   81 (229)
Q Consensus        26 ~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~   81 (229)
                      .+++.|+||++.+.+|+.++|||.||..||.+|++..  ...||+||+.+....+.
T Consensus        21 ~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~--~~~CP~Cr~~~~~~~~~   74 (116)
T 1rmd_A           21 VKSISCQICEHILADPVETSCKHLFCRICILRCLKVM--GSYCPSCRYPCFPTDLE   74 (116)
T ss_dssp             HHHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHT--CSBCTTTCCBCCGGGCB
T ss_pred             cCCCCCCCCCcHhcCcEEcCCCCcccHHHHHHHHhHC--cCcCCCCCCCCCHhhcc
Confidence            4568999999999999999999999999999999962  35899999998866654

>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=99.22  E-value=4.2e-12  Score=102.87  Aligned_cols=48  Identities=31%  Similarity=0.841  Sum_probs=42.8

Q ss_pred             CCccccccccCCCCcEEc-cCCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           27 GNFECNICFDLAQDPIVT-LCGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        27 ~~~~C~ICld~~~~pv~l-~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      +++.|+||++.+.+|+.+ +|||.||..||..|++.  ....||+||..+.
T Consensus        53 ~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~--~~~~CP~Cr~~~~  101 (165)
T 2ckl_B           53 SELMCPICLDMLKNTMTTKECLHRFCADCIITALRS--GNKECPTCRKKLV  101 (165)
T ss_dssp             HHHBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHHT--TCCBCTTTCCBCC
T ss_pred             CCCCCcccChHhhCcCEeCCCCChhHHHHHHHHHHh--CcCCCCCCCCcCC
Confidence            456899999999999987 99999999999999994  2468999999885

>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=99.21  E-value=1.7e-11  Score=93.20  Aligned_cols=51  Identities=27%  Similarity=0.559  Sum_probs=41.4

Q ss_pred             CCccccccccCCCCcE------------------EccCCCccChhHHHHHHhhC--CCCCCCCCccccccc
Q 027010           27 GNFECNICFDLAQDPI------------------VTLCGHLFCWPCLYKWLHGH--SNYRECPVCKATIEE   77 (229)
Q Consensus        27 ~~~~C~ICld~~~~pv------------------~l~CgH~FC~~CL~~wl~~~--s~~~~CPvCR~~v~~   77 (229)
                      .+.+|+||++.+.++.                  .++|+|.||..||.+|+...  .....||+||+.+..
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~   94 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSS
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCC
Confidence            4568999999987654                  68999999999999999632  135699999998764

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

Probab=99.20  E-value=2.4e-11  Score=87.51  Aligned_cols=54  Identities=22%  Similarity=0.538  Sum_probs=43.4

Q ss_pred             CCCCccccccccCCC--CcEEcc--CCCccChhHHHHHHhhCCCCCCCCCcccccccccc
Q 027010           25 EAGNFECNICFDLAQ--DPIVTL--CGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKL   80 (229)
Q Consensus        25 ~~~~~~C~ICld~~~--~pv~l~--CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l   80 (229)
                      ..++.+|+||++.+.  ++++++  |||.||..|+..+++.  ....||.||+.+....+
T Consensus         8 ~~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~--~~~~CP~CR~~~~~~~~   65 (78)
T 1e4u_A            8 KEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTD--ENGLCPACRKPYPEDPA   65 (78)
T ss_dssp             CCCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTS--SCSBCTTTCCBCSSCSS
T ss_pred             cccCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhc--CCCCCCCCCCccCCCch
Confidence            456789999999884  455555  9999999999999864  35699999999886544

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

Probab=99.20  E-value=4.3e-12  Score=97.92  Aligned_cols=57  Identities=35%  Similarity=0.878  Sum_probs=50.8

Q ss_pred             CCCCccccccccCCCCc-------EEccCCCccChhHHHHHHhhCCCCCCCCCcccccccccccccc
Q 027010           25 EAGNFECNICFDLAQDP-------IVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLY   84 (229)
Q Consensus        25 ~~~~~~C~ICld~~~~p-------v~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~   84 (229)
                      .++..+|+||++.+.++       +.++|||.||..||.+|++.+   ..||+||+.+..+++.++|
T Consensus        69 ~~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~---~~CP~Cr~~~~~~~~~~~~  132 (133)
T 4ap4_A           69 GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA---NTCPTCRKKINHKRYHPIY  132 (133)
T ss_dssp             SSSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHC---SBCTTTCCBCCGGGEEEEC
T ss_pred             CCCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcC---CCCCCCCCcCChhcceeee
Confidence            45678899999999876       889999999999999999964   4999999999999988876

>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=99.20  E-value=2.6e-12  Score=98.61  Aligned_cols=55  Identities=24%  Similarity=0.586  Sum_probs=47.6

Q ss_pred             CCCccccccccCCCCcEEc-cCCCccChhHHHHHHhhCCCCCCCCCccccccccccccccC
Q 027010           26 AGNFECNICFDLAQDPIVT-LCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYG   85 (229)
Q Consensus        26 ~~~~~C~ICld~~~~pv~l-~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~~   85 (229)
                      .+++.|+||++.+.+|+++ +|||.||..||..|+.     ..||+||..+....+.+++.
T Consensus        20 ~~~~~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~-----~~CP~Cr~~~~~~~~~~n~~   75 (117)
T 1jm7_B           20 EKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG-----TGCPVCYTPAWIQDLKINRQ   75 (117)
T ss_dssp             HHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT-----TBCSSSCCBCSCSSCCCCHH
T ss_pred             hhCCCCCCCChHhhCccEeCCCCCHHHHHHHHHHhc-----CCCcCCCCcCccccccccHH
Confidence            4678999999999999999 9999999999999987     38999999987666655543

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

Probab=99.20  E-value=1.1e-11  Score=89.48  Aligned_cols=50  Identities=26%  Similarity=0.594  Sum_probs=40.9

Q ss_pred             CCccccccccCCCC--------------cEEc-cCCCccChhHHHHHHhhCCCCCCCCCccccccccc
Q 027010           27 GNFECNICFDLAQD--------------PIVT-LCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEK   79 (229)
Q Consensus        27 ~~~~C~ICld~~~~--------------pv~l-~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~   79 (229)
                      ++..|+||++.+.+              .+++ +|+|.||..||.+|++.+   .+||+||+.+...+
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~---~~CP~CR~~~~~~~   78 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQN---NRCPLCQQDWVVQR   78 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTC---CBCTTTCCBCCEEE
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhC---CCCCCcCCCcchhh
Confidence            56679999998866              4454 599999999999999954   49999999887554

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

Probab=99.19  E-value=1.1e-11  Score=102.65  Aligned_cols=62  Identities=18%  Similarity=0.292  Sum_probs=54.2

Q ss_pred             CCCCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCccccccccccccccCCC
Q 027010           24 SEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGRG   87 (229)
Q Consensus        24 ~~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~~~~   87 (229)
                      ...+.+.||||++.+.+||+++|||+||..||..|+....  ..||+|+.++....++|+....
T Consensus       102 ~ip~~f~CPI~~elm~DPV~~~~Ghtfer~~I~~~l~~~~--~tcP~t~~~l~~~~L~pN~~Lk  163 (179)
T 2f42_A          102 EIPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVG--HFDPVTRSPLTQDQLIPNLAMK  163 (179)
T ss_dssp             CCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTC--SBCTTTCCBCCGGGCEECHHHH
T ss_pred             CCcHhhcccCccccCCCCeECCCCCEECHHHHHHHHHhCC--CCCCCCcCCCChhhCcchHHHH
Confidence            3467899999999999999999999999999999998642  2799999999988898886644

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

Probab=99.18  E-value=2.9e-12  Score=86.19  Aligned_cols=46  Identities=30%  Similarity=0.587  Sum_probs=40.3

Q ss_pred             CCCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           25 EAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        25 ~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      +.+++.|+||++.+.+|++++|||.||..|+.+|      ...||+||+.+.
T Consensus         3 e~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~------~~~CP~Cr~~~~   48 (56)
T 1bor_A            3 EFQFLRCQQCQAEAKCPKLLPCLHTLCSGCLEAS------GMQCPICQAPWP   48 (56)
T ss_dssp             SCCCSSCSSSCSSCBCCSCSTTSCCSBTTTCSSS------SSSCSSCCSSSS
T ss_pred             cccCCCceEeCCccCCeEEcCCCCcccHHHHccC------CCCCCcCCcEee
Confidence            4567899999999999999999999999998762      348999999876

>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=99.14  E-value=1.6e-11  Score=84.84  Aligned_cols=54  Identities=30%  Similarity=0.663  Sum_probs=45.5

Q ss_pred             CCCccccccccCCCCcEEc--cCCCc-cChhHHHHHHhhCCCCCCCCCcccccccccccccc
Q 027010           26 AGNFECNICFDLAQDPIVT--LCGHL-FCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLY   84 (229)
Q Consensus        26 ~~~~~C~ICld~~~~pv~l--~CgH~-FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~   84 (229)
                      +++.+|.||++...+++.+  +|||. +|..|+.+|++.+   ..||+||+.+.  .++++|
T Consensus         6 ~~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~~---~~CPiCR~~i~--~~i~i~   62 (64)
T 2vje_A            6 NAIEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKRN---KPCPVCRQPIQ--MIVLTY   62 (64)
T ss_dssp             GGGSCCTTTSSSCSCEEEEETTEEEEEECHHHHHHHHHTT---CCCTTTCCCCC--EEEEEE
T ss_pred             CCcCCCCcCCCCCCCEEEECCCCCChhhHHHHHHHHHHcC---CcCCCcCcchh--ceEeee
Confidence            4567899999999999987  99999 8999999999843   48999999986  455544

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

Probab=99.13  E-value=2.4e-11  Score=98.74  Aligned_cols=59  Identities=31%  Similarity=0.678  Sum_probs=50.8

Q ss_pred             CCCCCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCccccccccccccc
Q 027010           23 NSEAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPL   83 (229)
Q Consensus        23 ~~~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~   83 (229)
                      +...+++.|+||++.+.+|++++|||+||..||.+|++..  ...||+||..+..+++.++
T Consensus        13 ~~~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~--~~~CP~Cr~~~~~~~~~~~   71 (170)
T 3hcs_A           13 PPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDA--GHKCPVDNEILLENQLFPD   71 (170)
T ss_dssp             SCCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHH--CSBCTTTCCBCCGGGCEEC
T ss_pred             cCCCCCCCCCCCChhhcCcEECCCCCHHHHHHHHHHHHhC--CCCCCCCccCcchhhhhhh
Confidence            4566789999999999999999999999999999999853  2489999999987766554

>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=99.13  E-value=1.9e-11  Score=84.28  Aligned_cols=55  Identities=24%  Similarity=0.609  Sum_probs=45.8

Q ss_pred             CCCCccccccccCCCCcEEc--cCCCc-cChhHHHHHHhhCCCCCCCCCcccccccccccccc
Q 027010           25 EAGNFECNICFDLAQDPIVT--LCGHL-FCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLY   84 (229)
Q Consensus        25 ~~~~~~C~ICld~~~~pv~l--~CgH~-FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~   84 (229)
                      .+.+.+|.||++...+++++  +|||. +|+.|+.+|++.+   ..||+||+++.  .++.+|
T Consensus         4 ~~~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~~---~~CPiCR~~i~--~~i~i~   61 (63)
T 2vje_B            4 QNLLKPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKAG---ASCPICKKEIQ--LVIKVF   61 (63)
T ss_dssp             GGGGSBCTTTSSSBSCEEEEETTEEEEEECHHHHHHHHHTT---CBCTTTCCBCC--EEEEEE
T ss_pred             CCcCCCCcccCCcCCCeEEEecCCCCHhHHHHHHHHHHHhC---CcCCCcCchhh--ceEEEe
Confidence            44567899999999999887  99998 9999999998743   58999999986  455444

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

Probab=99.10  E-value=9.7e-11  Score=81.98  Aligned_cols=54  Identities=22%  Similarity=0.622  Sum_probs=44.0

Q ss_pred             CCCCCCCccccccccCCCCcEEccCCCc-cChhHHHHHHhhCCCCCCCCCcccccccccccccc
Q 027010           22 SNSEAGNFECNICFDLAQDPIVTLCGHL-FCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLY   84 (229)
Q Consensus        22 ~~~~~~~~~C~ICld~~~~pv~l~CgH~-FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~   84 (229)
                      +...+++.+|.||++...+++.++|||. ||..|+..       ...||+||+.+.  ..+.++
T Consensus         9 e~~~~~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~-------~~~CP~CR~~i~--~~~~i~   63 (68)
T 2ea5_A            9 EPSEENSKDCVVCQNGTVNWVLLPCRHTCLCDGCVKY-------FQQCPMCRQFVQ--ESFALS   63 (68)
T ss_dssp             CCSCCCSSCCSSSSSSCCCCEETTTTBCCSCTTHHHH-------CSSCTTTCCCCC--CEECCC
T ss_pred             cccCCCCCCCCCcCcCCCCEEEECCCChhhhHHHHhc-------CCCCCCCCcchh--ceEEee
Confidence            3445567899999999999999999999 99999973       248999999887  344444

>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=99.08  E-value=6.1e-11  Score=81.45  Aligned_cols=56  Identities=14%  Similarity=0.334  Sum_probs=50.2

Q ss_pred             CccccccccCCCCcEEc-cCCCccChhHHHHHHhhCCCCCCCCCccccccccccccccCC
Q 027010           28 NFECNICFDLAQDPIVT-LCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGR   86 (229)
Q Consensus        28 ~~~C~ICld~~~~pv~l-~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~~~   86 (229)
                      .+.|+||++.+++||++ +|||+|+..||.+|++.+.   +||++++++..++++|+...
T Consensus         3 ~~~CpIs~~~m~dPV~~~~sG~~yer~~I~~~l~~~~---~cP~t~~~L~~~~Lip~~~~   59 (61)
T 2bay_A            3 HMLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTG---NDPITNEPLSIEEIVEIVPS   59 (61)
T ss_dssp             -CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHHS---BCTTTCCBCCGGGCEECCCC
T ss_pred             eEEecCCCCCCCCCEEeCCCCcEEcHHHHHHHHHhCC---CCcCCcCCCChhhcEECccC
Confidence            47899999999999999 9999999999999999654   79999999999999988653

>4ic3_A E3 ubiquitin-protein ligase XIAP; ring domain, zinc-finger, E3 ligase; 1.78A {Homo sapiens} PDB: 4ic2_A

Probab=99.07  E-value=2.8e-11  Score=85.80  Aligned_cols=45  Identities=31%  Similarity=0.677  Sum_probs=40.3

Q ss_pred             CCCccccccccCCCCcEEccCCCc-cChhHHHHHHhhCCCCCCCCCccccccc
Q 027010           26 AGNFECNICFDLAQDPIVTLCGHL-FCWPCLYKWLHGHSNYRECPVCKATIEE   77 (229)
Q Consensus        26 ~~~~~C~ICld~~~~pv~l~CgH~-FC~~CL~~wl~~~s~~~~CPvCR~~v~~   77 (229)
                      .++..|+||++.+.+++.++|||. ||..|+.+|       ..||+||+.+..
T Consensus        22 ~~~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~-------~~CP~Cr~~i~~   67 (74)
T 4ic3_A           22 QEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAV-------DKCPMCYTVITF   67 (74)
T ss_dssp             HHHTBCTTTSSSBCCEEEETTCCBCCCHHHHTTC-------SBCTTTCCBCSE
T ss_pred             ccCCCCCCCCCCCCCEEEcCCCChhHHHHhhhcC-------ccCCCcCcCccC
Confidence            356789999999999999999999 999999877       379999999873

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

Probab=99.06  E-value=9.7e-12  Score=88.30  Aligned_cols=44  Identities=32%  Similarity=0.705  Sum_probs=38.5

Q ss_pred             CCccccccccCCCCcEEccCCCc-cChhHHHHHHhhCCCCCCCCCccccccc
Q 027010           27 GNFECNICFDLAQDPIVTLCGHL-FCWPCLYKWLHGHSNYRECPVCKATIEE   77 (229)
Q Consensus        27 ~~~~C~ICld~~~~pv~l~CgH~-FC~~CL~~wl~~~s~~~~CPvCR~~v~~   77 (229)
                      ++.+|+||++.+.+++.++|||. ||..|+..       ...||+||+.+..
T Consensus        24 ~~~~C~IC~~~~~~~~~~pCgH~~~C~~C~~~-------~~~CP~Cr~~i~~   68 (75)
T 2ecg_A           24 EEKLCKICMDRNIAIVFVPCGHLVTCKQCAEA-------VDKCPMCYTVITF   68 (75)
T ss_dssp             HHHSCSSSCSSCCCBCCSSSCCCCBCHHHHHH-------CSBCTTTCCBCCC
T ss_pred             CCCCCCcCCCCCCCEEEecCCCHHHHHHHhhC-------CCCCccCCceecC
Confidence            45789999999999999999999 99999953       2489999998873

>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=99.04  E-value=1.2e-10  Score=106.68  Aligned_cols=53  Identities=30%  Similarity=0.762  Sum_probs=45.8

Q ss_pred             CCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCccccccccccc
Q 027010           27 GNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLV   81 (229)
Q Consensus        27 ~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~   81 (229)
                      ...+|+||++.+.+++.++|||.||..|+.+|++.  ....||+||+.+....++
T Consensus       331 ~~~~C~ICle~~~~pv~lpCGH~FC~~Ci~~wl~~--~~~~CP~CR~~i~~~~~i  383 (389)
T 2y1n_A          331 TFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQES--EGQGCPFCRCEIKGTEPI  383 (389)
T ss_dssp             SSSBCTTTSSSBCCEEEETTCCEECHHHHHHHHHH--TCSBCTTTCCBCCEEEEC
T ss_pred             CCCCCCccCcCCCCeEEeCCCChhhHHHHHHHHhc--CCCCCCCCCCccCCceeE
Confidence            34799999999999999999999999999999984  245899999999865544

>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=99.03  E-value=1.9e-10  Score=87.42  Aligned_cols=47  Identities=28%  Similarity=0.639  Sum_probs=40.0

Q ss_pred             CCccccccccCCCCc------------------EEccCCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           27 GNFECNICFDLAQDP------------------IVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        27 ~~~~C~ICld~~~~p------------------v~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      ++..|+||++.+.++                  +.++|+|.||..||.+|++.+   .+||+||+.+.
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~---~~CP~Cr~~~~  100 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR---QVCPLDNREWE  100 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTC---SBCSSSCSBCC
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcC---CcCcCCCCcce
Confidence            567899999998765                  347999999999999999954   49999999865

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

Probab=99.00  E-value=2.6e-10  Score=99.21  Aligned_cols=61  Identities=21%  Similarity=0.459  Sum_probs=52.4

Q ss_pred             CCCCccccccccCCCCcEEc-cCCCccChhHHHHHHhhCCCCCCCCC--ccccccccccccccCC
Q 027010           25 EAGNFECNICFDLAQDPIVT-LCGHLFCWPCLYKWLHGHSNYRECPV--CKATIEEEKLVPLYGR   86 (229)
Q Consensus        25 ~~~~~~C~ICld~~~~pv~l-~CgH~FC~~CL~~wl~~~s~~~~CPv--CR~~v~~~~l~p~~~~   86 (229)
                      ...++.||||++.+++||++ .|||.||..||.+||+.+ +...||+  |++.+..++++++..+
T Consensus       178 ~~~el~CPIcl~~f~DPVts~~CGHsFcR~cI~~~~~~~-~~~~CPvtGCr~~l~~~dL~pN~~L  241 (267)
T 3htk_C          178 GKIELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGY-TTRDCPQAACSQVVSMRDFVRDPIM  241 (267)
T ss_dssp             SBCCSBCTTTSSBCSSEEEESSSCCEEEHHHHHHHSTTC-SCEECSGGGCSCEECGGGEEECHHH
T ss_pred             CceeeECcCccCcccCCeeeCCCCCcccHHHHHHHHHhC-CCCCCCcccccCcCchhhCCcCHHH
Confidence            34678899999999999985 999999999999999853 3568999  9999998888887554

>2d8s_A Cellular modulator of immune recognition; C-MIR, march8, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.94  E-value=1.6e-09  Score=78.26  Aligned_cols=52  Identities=27%  Similarity=0.657  Sum_probs=42.4

Q ss_pred             CCCCccccccccCCC--CcEEccCC-----CccChhHHHHHHhhCCCCCCCCCccccccc
Q 027010           25 EAGNFECNICFDLAQ--DPIVTLCG-----HLFCWPCLYKWLHGHSNYRECPVCKATIEE   77 (229)
Q Consensus        25 ~~~~~~C~ICld~~~--~pv~l~Cg-----H~FC~~CL~~wl~~~s~~~~CPvCR~~v~~   77 (229)
                      ..++..|.||++.+.  ++++++|.     |.||..||.+|++.+ +...||+||+.+..
T Consensus        12 ~~~~~~C~IC~~~~~~~~~l~~pC~C~Gs~h~fH~~Cl~~Wl~~~-~~~~CplCr~~~~~   70 (80)
T 2d8s_A           12 PSSQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSS-DTRCCELCKYEFIM   70 (80)
T ss_dssp             CTTSCCCSSSCCCCCSSSCEECSSSCCSSSCCEETTHHHHHHHHH-CCSBCSSSCCBCCC
T ss_pred             CCCCCCCeEcCccccCCCeeEeccccCCcCCeeCHHHHHHHHhhC-CCCCCCCCCCeeec
Confidence            345678999998774  57889996     999999999999964 24699999998763

>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=98.83  E-value=8.9e-10  Score=79.19  Aligned_cols=49  Identities=27%  Similarity=0.761  Sum_probs=41.3

Q ss_pred             CCccccccccCCCCcEEccCCCc-cChhHHHHHHhhCCCCCCCCCcccccccccccccc
Q 027010           27 GNFECNICFDLAQDPIVTLCGHL-FCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLY   84 (229)
Q Consensus        27 ~~~~C~ICld~~~~pv~l~CgH~-FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~   84 (229)
                      ++..|+||++...+++.++|||. ||..|+..|       ..||+||+.+..  .+.+|
T Consensus        17 ~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~~-------~~CP~Cr~~i~~--~~~i~   66 (79)
T 2yho_A           17 EAMLCMVCCEEEINSTFCPCGHTVCCESCAAQL-------QSCPVCRSRVEH--VQHVY   66 (79)
T ss_dssp             HHTBCTTTSSSBCCEEEETTCBCCBCHHHHTTC-------SBCTTTCCBCCE--EEECB
T ss_pred             CCCEeEEeCcccCcEEEECCCCHHHHHHHHHhc-------CcCCCCCchhhC--eEEEE
Confidence            45789999999999999999999 999999755       279999999883  44444

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

Probab=98.83  E-value=4.7e-10  Score=86.75  Aligned_cols=48  Identities=27%  Similarity=0.597  Sum_probs=0.9

Q ss_pred             CCccccccccCCCCcE------------------EccCCCccChhHHHHHHhhCCCCCCCCCccccccc
Q 027010           27 GNFECNICFDLAQDPI------------------VTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEE   77 (229)
Q Consensus        27 ~~~~C~ICld~~~~pv------------------~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~   77 (229)
                      ++..|+||++.+.++.                  .++|+|.||..||.+|++.+   ..||+||+.+..
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~---~~CP~Cr~~~~~  112 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR---QVCPLDNREWEF  112 (117)
T ss_dssp             CC-------------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcC---CcCCCCCCeeee
Confidence            4568999999987642                  25899999999999999954   499999998653

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

Probab=98.79  E-value=1.2e-08  Score=72.77  Aligned_cols=57  Identities=23%  Similarity=0.503  Sum_probs=44.8

Q ss_pred             CCCCCCCCCCccccccccCCCCcEE-ccCCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           19 NNNSNSEAGNFECNICFDLAQDPIV-TLCGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        19 ~~~~~~~~~~~~C~ICld~~~~pv~-l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      ++...-.+...+|.||.+.+..... ..|+|.||..||.+|++.+. ..+||+||+...
T Consensus         6 ~~~~~y~~~i~~C~IC~~~i~~g~~C~~C~h~fH~~Ci~kWl~~~~-~~~CP~Cr~~w~   63 (74)
T 2ct0_A            6 SGRETYPDAVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNA-EPRCPHCNDYWP   63 (74)
T ss_dssp             CCCCCCSSSSCBCSSSCCBCSSSEECSSSCCEECHHHHHHHSTTCS-SCCCTTTCSCCC
T ss_pred             cchhhccCCCCcCcchhhHcccCCccCCCCchhhHHHHHHHHHhcC-CCCCCCCcCcCC
Confidence            3344455677889999999976544 48999999999999998652 369999998765

>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=98.76  E-value=2.1e-09  Score=79.16  Aligned_cols=55  Identities=24%  Similarity=0.616  Sum_probs=43.2

Q ss_pred             CCCccccccccCCCCcEEc---cCCCccChhHHHHHHhhC---C--CCCCCCC--cccc--cccccc
Q 027010           26 AGNFECNICFDLAQDPIVT---LCGHLFCWPCLYKWLHGH---S--NYRECPV--CKAT--IEEEKL   80 (229)
Q Consensus        26 ~~~~~C~ICld~~~~pv~l---~CgH~FC~~CL~~wl~~~---s--~~~~CPv--CR~~--v~~~~l   80 (229)
                      .+.++|+||++.+.+++.+   +|||.||..|+.+|++.+   .  ....||.  |+..  +..+.+
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~~~~~~~~i   69 (94)
T 1wim_A            3 SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQENEI   69 (94)
T ss_dssp             CSBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSCCEECHHHH
T ss_pred             CCCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCCCccCHHHH
Confidence            3578899999999877543   799999999999998842   1  2469999  9998  665443

>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=98.67  E-value=4.8e-09  Score=94.85  Aligned_cols=45  Identities=31%  Similarity=0.851  Sum_probs=40.3

Q ss_pred             CCCccccccccCCCCcEEccCCCc-cChhHHHHHHhhCCCCCCCCCccccccc
Q 027010           26 AGNFECNICFDLAQDPIVTLCGHL-FCWPCLYKWLHGHSNYRECPVCKATIEE   77 (229)
Q Consensus        26 ~~~~~C~ICld~~~~pv~l~CgH~-FC~~CL~~wl~~~s~~~~CPvCR~~v~~   77 (229)
                      .++..|+||++.+.+++.++|||. ||..|+..|       ..||+||..+..
T Consensus       293 ~~~~~C~IC~~~~~~~v~lpCgH~~fC~~C~~~~-------~~CP~CR~~i~~  338 (345)
T 3t6p_A          293 QEERTCKVCMDKEVSVVFIPCGHLVVCQECAPSL-------RKCPICRGIIKG  338 (345)
T ss_dssp             HTTCBCTTTSSSBCCEEEETTCCEEECTTTGGGC-------SBCTTTCCBCCE
T ss_pred             cCCCCCCccCCcCCceEEcCCCChhHhHHHHhcC-------CcCCCCCCCccC
Confidence            356889999999999999999999 999999876       379999999873

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

Probab=98.35  E-value=1.5e-07  Score=84.81  Aligned_cols=56  Identities=29%  Similarity=0.736  Sum_probs=42.6

Q ss_pred             CCCCCCCccccccccCCCC----cE----EccCCCccChhHHHHHHhhCCC--------CCCCCCccccccc
Q 027010           22 SNSEAGNFECNICFDLAQD----PI----VTLCGHLFCWPCLYKWLHGHSN--------YRECPVCKATIEE   77 (229)
Q Consensus        22 ~~~~~~~~~C~ICld~~~~----pv----~l~CgH~FC~~CL~~wl~~~s~--------~~~CPvCR~~v~~   77 (229)
                      ++.++...+|+||++.+.+    |.    ...|+|.||..||.+|++....        ...||.||++++.
T Consensus       302 ~e~ee~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~  373 (381)
T 3k1l_B          302 DEEDNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLST  373 (381)
T ss_dssp             TTCCCSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEG
T ss_pred             cccccCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCc
Confidence            3455678999999988876    21    1479999999999999985211        1479999998863

>1vyx_A ORF K3, K3RING; zinc-binding protein, ring domain, cross-brace motif; NMR {Human herpesvirus 8} SCOP: g.44.1.3

Probab=98.30  E-value=4.4e-07  Score=61.81  Aligned_cols=51  Identities=22%  Similarity=0.477  Sum_probs=40.9

Q ss_pred             CCCCccccccccCCCCcEEccCC--C---ccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           25 EAGNFECNICFDLAQDPIVTLCG--H---LFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        25 ~~~~~~C~ICld~~~~pv~l~Cg--H---~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      +++...|.||++...++.++||.  +   .+|..||.+|+..+ +...||+|+..+.
T Consensus         3 ~~~~~~CrIC~~~~~~~l~~PC~C~gs~~~~H~~Cl~~W~~~~-~~~~C~~C~~~~~   58 (60)
T 1vyx_A            3 DEDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTIS-RNTACQICGVVYN   58 (60)
T ss_dssp             TCSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHH-TCSBCTTTCCBCC
T ss_pred             CCCCCEeEEeecCCCCceecCcCCCCchhhhHHHHHHHHHHhC-CCCccCCCCCeee
Confidence            34567899999887777778865  4   89999999999853 3569999998765

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

Probab=97.85  E-value=9.9e-06  Score=60.47  Aligned_cols=46  Identities=22%  Similarity=0.540  Sum_probs=37.2

Q ss_pred             cccccccCCCC-cEEccCCCccChhHHHHHHhhCCCCCCCCCccccccc
Q 027010           30 ECNICFDLAQD-PIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEE   77 (229)
Q Consensus        30 ~C~ICld~~~~-pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~   77 (229)
                      -|++|--.+.. ...+||+|.||.+|+..|.+.  ....||.|+.++..
T Consensus         3 fC~~C~~Pi~iygRmIPCkHvFCydCa~~~~~~--~~k~Cp~C~~~V~r   49 (101)
T 3vk6_A            3 FCDKCGLPIKVYGRMIPCKHVFCYDCAILHEKK--GDKMCPGCSDPVQR   49 (101)
T ss_dssp             BCTTTCSBCSEEEEEETTCCEEEHHHHHHHHHT--TCCBCTTTCCBCSE
T ss_pred             ecCccCCCeEEEeeeccccccHHHHHHHHHHhc--cCCCCcCcCCeeee
Confidence            47888776654 467899999999999999874  34599999999873

>3nw0_A Non-structural maintenance of chromosomes element homolog; E3 ligase, Zn, metal binding protein; 2.92A {Homo sapiens}

Probab=97.06  E-value=0.00065  Score=58.15  Aligned_cols=49  Identities=27%  Similarity=0.575  Sum_probs=40.3

Q ss_pred             CCccccccccCCCCcEEc-cCCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           27 GNFECNICFDLAQDPIVT-LCGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        27 ~~~~C~ICld~~~~pv~l-~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      ...+|.||.+.....+.- .|+|.||..|+..|++.+ ....||.|+....
T Consensus       179 ~i~~C~iC~~iv~~g~~C~~C~~~~H~~C~~~~~~~~-~~~~CP~C~~~W~  228 (238)
T 3nw0_A          179 AVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSN-AEPRCPHCNDYWP  228 (238)
T ss_dssp             TCCBCTTTCSBCSSCEECSSSCCEECHHHHHHHTTTC-SSCBCTTTCCBCC
T ss_pred             CCCcCcchhhHHhCCcccCccChHHHHHHHHHHHHhC-CCCCCCCCCCCCC
Confidence            467899999998876553 499999999999999854 3569999998765

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

Probab=96.46  E-value=0.0021  Score=64.69  Aligned_cols=63  Identities=11%  Similarity=0.170  Sum_probs=54.9

Q ss_pred             CCCCCccccccccCCCCcEEccCC-CccChhHHHHHHhhCCCCCCCCCccccccccccccccCCCCC
Q 027010           24 SEAGNFECNICFDLAQDPIVTLCG-HLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGRGKS   89 (229)
Q Consensus        24 ~~~~~~~C~ICld~~~~pv~l~Cg-H~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~~~~~~   89 (229)
                      ...+++.|||-.+.++|||+++.| ++|-..+|.+|+..+   .+||.-|+++..+.++|+......
T Consensus       887 ~iP~~F~cPIs~~lM~DPVilpsG~~TydR~~I~~wl~~~---~tdP~Tr~~L~~~~liPN~~Lk~~  950 (968)
T 3m62_A          887 DVPDEFLDPLMYTIMKDPVILPASKMNIDRSTIKAHLLSD---STDPFNRMPLKLEDVTPNEELRQK  950 (968)
T ss_dssp             CSCGGGBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTTC---CBCTTTCCBCCGGGCEECHHHHHH
T ss_pred             CCcHHhCCcchhhHHhCCeEcCCCCEEECHHHHHHHHhcC---CCCCCCCCCCCcccccccHHHHHH
Confidence            345789999999999999999998 589999999999954   499999999999999998776543

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=96.30  E-value=0.0017  Score=47.52  Aligned_cols=34  Identities=26%  Similarity=0.477  Sum_probs=28.3

Q ss_pred             CCccccccccC-CCCcEE--ccCCCccChhHHHHHHh
Q 027010           27 GNFECNICFDL-AQDPIV--TLCGHLFCWPCLYKWLH   60 (229)
Q Consensus        27 ~~~~C~ICld~-~~~pv~--l~CgH~FC~~CL~~wl~   60 (229)
                      ++..|+||.+. ..+++.  +.|+|.||..|+..+..
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~~h~   38 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKATHP   38 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETTTTEEECHHHHHHHSC
T ss_pred             CCCCCcCCCCCCCCCceEECCcCChHHhHHHCHHHhc
Confidence            46889999976 677877  89999999999987443

>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=96.17  E-value=0.0068  Score=43.37  Aligned_cols=46  Identities=28%  Similarity=0.760  Sum_probs=35.0

Q ss_pred             CCCCccccccccCCCCcEEccC----CCccChhHHHHHHhhC--CCCCCCCC
Q 027010           25 EAGNFECNICFDLAQDPIVTLC----GHLFCWPCLYKWLHGH--SNYRECPV   70 (229)
Q Consensus        25 ~~~~~~C~ICld~~~~pv~l~C----gH~FC~~CL~~wl~~~--s~~~~CPv   70 (229)
                      ....+.|.+|.+.+.+.....|    .|.||.+|-..+++.+  .....||.
T Consensus        12 ~~a~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sIk~q~~~~EvyCPS   63 (93)
T 2cs3_A           12 NSGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKAQGATGEVYCPS   63 (93)
T ss_dssp             SCCSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHHHHSSSCCCCTT
T ss_pred             CCCeeEeecchhhhccCceeeCCCccCCeeeccccHHHHHhcCCCCcEECCC
Confidence            4567899999999998865555    7999999999998853  23445554

>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=89.26  E-value=3  Score=30.14  Aligned_cols=54  Identities=26%  Similarity=0.498  Sum_probs=36.9

Q ss_pred             CCccccccccCCCC---c-EE---ccCCCccChhHHHHHHhhCCCCCCCCCcccccccccccc
Q 027010           27 GNFECNICFDLAQD---P-IV---TLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVP   82 (229)
Q Consensus        27 ~~~~C~ICld~~~~---p-v~---l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p   82 (229)
                      ....|.||-|..-.   . +.   -.|+-..|.+|+.-=.+.  ..+.||.|+......+-.|
T Consensus        15 ~~qiCqiCGD~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErke--G~q~CpqCktrYkr~kgsp   75 (93)
T 1weo_A           15 DGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERRE--GTQNCPQCKTRYKRLRGSP   75 (93)
T ss_dssp             SSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHT--SCSSCTTTCCCCCCCTTCC
T ss_pred             CCCccccccCccccCCCCCEEEeeeccCChhhHHHHHHHHhc--cCccccccCCccccccCCC
Confidence            44689999987631   1 22   258888999998633332  5679999999887544444

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=88.27  E-value=0.52  Score=32.06  Aligned_cols=50  Identities=22%  Similarity=0.436  Sum_probs=33.6

Q ss_pred             CCCCccccccccCCCCcEEccCCCccChhHHHHHHhhC-CCCCCCCCcccc
Q 027010           25 EAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGH-SNYRECPVCKAT   74 (229)
Q Consensus        25 ~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~-s~~~~CPvCR~~   74 (229)
                      ......|.||.+.-.--.--.|...||..|+...+..- .+...|+.|++.
T Consensus         9 ~~~~~~C~vC~~~~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~   59 (66)
T 2lri_C            9 LAPGARCGVCGDGTDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGD   59 (66)
T ss_dssp             CCTTCCCTTTSCCTTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTC
T ss_pred             CCCCCCcCCCCCCCeEEECCCCCCceecccCCCccCcCCCCCEECccccCC
Confidence            33456799998643211113688999999997666632 245799999764

>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication, ring E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus; 2.60A {Saccharomyces cerevisiae}

Probab=87.59  E-value=0.58  Score=42.32  Aligned_cols=54  Identities=31%  Similarity=0.622  Sum_probs=40.3

Q ss_pred             CCccccccccCCCCcEE-ccCCCccChhHHHHHHh--hCCCCCCCCCccccccccccc
Q 027010           27 GNFECNICFDLAQDPIV-TLCGHLFCWPCLYKWLH--GHSNYRECPVCKATIEEEKLV   81 (229)
Q Consensus        27 ~~~~C~ICld~~~~pv~-l~CgH~FC~~CL~~wl~--~~s~~~~CPvCR~~v~~~~l~   81 (229)
                      -.+.|||-...+..|+. ..|.|.-|.+-. .|++  .+.....||+|.+.+..++|.
T Consensus       248 vSL~CPlS~~ri~~PvRg~~C~HlQCFDl~-sfL~~~~~~~~W~CPIC~k~~~~~dL~  304 (371)
T 3i2d_A          248 MSLQCPISYTRMKYPSKSINCKHLQCFDAL-WFLHSQLQIPTWQCPVCQIDIALENLA  304 (371)
T ss_dssp             EESBCTTTSSBCSSEEEETTCCSSCCEEHH-HHHHHHHHSCCCBCTTTCCBCCGGGEE
T ss_pred             EeecCCCccccccccCcCCcCCCcceECHH-HHHHHhhcCCceeCCCCCcccCHHHee
Confidence            34789999999999987 689999777642 3333  223578999999988766654

>2lv9_A Histone-lysine N-methyltransferase MLL5; zinc finger, transcription, protein binding, NESG, northeast structural genomics consortium, SGC; NMR {Homo sapiens}

Probab=86.76  E-value=0.27  Score=36.04  Aligned_cols=49  Identities=16%  Similarity=0.213  Sum_probs=31.9

Q ss_pred             CCCCCccccccccCCCCcEEc---cCCCccChhHHHHHHhhCCCCCCCCCccc
Q 027010           24 SEAGNFECNICFDLAQDPIVT---LCGHLFCWPCLYKWLHGHSNYRECPVCKA   73 (229)
Q Consensus        24 ~~~~~~~C~ICld~~~~pv~l---~CgH~FC~~CL~~wl~~~s~~~~CPvCR~   73 (229)
                      ..++...| ||...-.+...+   .|.-+|+..|+..-...-.....||.|+.
T Consensus        24 ~~~d~vrC-iC~~~~~~~~mi~Cd~C~~w~H~~C~~~~~~~~p~~w~C~~C~~   75 (98)
T 2lv9_A           24 YGTDVTRC-ICGFTHDDGYMICCDKCSVWQHIDCMGIDRQHIPDTYLCERCQP   75 (98)
T ss_dssp             CCCCBCCC-TTSCCSCSSCEEEBTTTCBEEETTTTTCCTTSCCSSBCCTTTSS
T ss_pred             CCCCCEEe-ECCCccCCCcEEEcCCCCCcCcCcCCCCCccCCCCCEECCCCcC
Confidence            34455778 897665444333   58889999998643332224579999974

>1weu_A Inhibitor of growth family, member 4; structural genomics, PHD domain, ING1-like protein, DNA binding protein, NPPSFA; NMR {Mus musculus} SCOP: g.50.1.2

Probab=86.70  E-value=0.89  Score=32.98  Aligned_cols=46  Identities=20%  Similarity=0.506  Sum_probs=29.7

Q ss_pred             CCCccccccccCCCCcEEc---c--CC-CccChhHHHHHHhh-CCCCCCCCCccccc
Q 027010           26 AGNFECNICFDLAQDPIVT---L--CG-HLFCWPCLYKWLHG-HSNYRECPVCKATI   75 (229)
Q Consensus        26 ~~~~~C~ICld~~~~pv~l---~--Cg-H~FC~~CL~~wl~~-~s~~~~CPvCR~~v   75 (229)
                      .+..-| ||.+..... .+   .  |. .+||..|+.  +.. ......||.|+..-
T Consensus        34 ~e~~yC-iC~~~~~g~-MI~CD~~dC~~~WfH~~CVg--l~~~p~g~W~Cp~C~~~~   86 (91)
T 1weu_A           34 NEPTYC-LCHQVSYGE-MIGCDNPDCSIEWFHFACVG--LTTKPRGKWFCPRCSQES   86 (91)
T ss_dssp             CCCBCS-TTCCBCCSC-CCCCSCSSCSCCCCCSTTTT--CSSCCCSSCCCTTTCCCC
T ss_pred             CCCcEE-ECCCCCCCC-EeEecCCCCCCCCEecccCC--cCcCCCCCEECcCccCcC
Confidence            355667 998854432 33   3  55 689999986  332 23568999997643

>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=85.52  E-value=0.87  Score=41.01  Aligned_cols=53  Identities=25%  Similarity=0.473  Sum_probs=39.7

Q ss_pred             CccccccccCCCCcEE-ccCCCccChhHHHHHHh--hCCCCCCCCCccccccccccc
Q 027010           28 NFECNICFDLAQDPIV-TLCGHLFCWPCLYKWLH--GHSNYRECPVCKATIEEEKLV   81 (229)
Q Consensus        28 ~~~C~ICld~~~~pv~-l~CgH~FC~~CL~~wl~--~~s~~~~CPvCR~~v~~~~l~   81 (229)
                      .+.|||-...++.|+. ..|.|.-|.+-. .|++  .+.....||+|.+.+..+.|.
T Consensus       215 SL~CPlS~~ri~~P~Rg~~C~HlqCFDl~-sfL~~~~~~~~W~CPiC~k~~~~~dL~  270 (360)
T 4fo9_A          215 SLMCPLGKMRLTIPCRAVTCTHLQCFDAA-LYLQMNEKKPTWICPVCDKKAAYESLI  270 (360)
T ss_dssp             ESBCTTTCSBCSSEEEETTCCCCCCEEHH-HHHHHHHHSCCCBCTTTCSBCCGGGEE
T ss_pred             eeeCCCccceeccCCcCCCCCCCccCCHH-HHHHHHhhCCCeECCCCCcccCHHHeE
Confidence            4689999999999976 689999776643 3333  223578999999988766654

>1wen_A Inhibitor of growth family, member 4; ING1-like protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: g.50.1.2 PDB: 1wes_A

Probab=85.18  E-value=0.92  Score=31.20  Aligned_cols=49  Identities=18%  Similarity=0.490  Sum_probs=31.4

Q ss_pred             CCCCccccccccCCCCcEEc--c--CC-CccChhHHHHHHhh-CCCCCCCCCcccccc
Q 027010           25 EAGNFECNICFDLAQDPIVT--L--CG-HLFCWPCLYKWLHG-HSNYRECPVCKATIE   76 (229)
Q Consensus        25 ~~~~~~C~ICld~~~~pv~l--~--Cg-H~FC~~CL~~wl~~-~s~~~~CPvCR~~v~   76 (229)
                      ..+..-| ||.+......+.  .  |. .+||..|+.  +.. ......||.|+..-.
T Consensus        13 ~~~~~~C-~C~~~~~g~MI~CD~~~C~~~wfH~~Cvg--l~~~p~g~w~Cp~C~~~~~   67 (71)
T 1wen_A           13 PNEPTYC-LCHQVSYGEMIGCDNPDCSIEWFHFACVG--LTTKPRGKWFCPRCSQESG   67 (71)
T ss_dssp             TTSCCCS-TTCCCSCSSEECCSCSSCSCCCEETTTTT--CSSCCSSCCCCTTTSSCSS
T ss_pred             CCCCCEE-ECCCCCCCCEeEeeCCCCCCccEecccCC--cCcCCCCCEECCCCCcccc
Confidence            4456778 898864433332  3  65 689999996  332 225689999976443

>1wem_A Death associated transcription factor 1; structural genomics, PHD domain, death inducer- obliterator 1(DIO-1); NMR {Mus musculus} SCOP: g.50.1.2

Probab=83.74  E-value=0.36  Score=33.41  Aligned_cols=51  Identities=20%  Similarity=0.430  Sum_probs=32.0

Q ss_pred             CCCCCCccccccccCCCCc-EE--ccCCCccChhHHHHH------HhhCCCCCCCCCcccc
Q 027010           23 NSEAGNFECNICFDLAQDP-IV--TLCGHLFCWPCLYKW------LHGHSNYRECPVCKAT   74 (229)
Q Consensus        23 ~~~~~~~~C~ICld~~~~p-v~--l~CgH~FC~~CL~~w------l~~~s~~~~CPvCR~~   74 (229)
                      ..+.....| ||.....+. .+  -.|..+||..|+.--      +........||.|+..
T Consensus        11 ~~d~~~~~C-~C~~~~~~~~MI~Cd~C~~WfH~~Cvgl~~~~~~~l~~~~~~~~C~~C~~~   70 (76)
T 1wem_A           11 VYDPNALYC-ICRQPHNNRFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTIL   70 (76)
T ss_dssp             SCCTTCCCS-TTCCCCCSSCEEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHH
T ss_pred             ccCCCCCEE-ECCCccCCCCEEEeCCCCCcEeCeEEccchhhhhhccCCCCeEECcCCcCc
Confidence            344456778 898776532 22  368899999998421      1111246799999753

>1x64_A Alpha-actinin-2 associated LIM protein; LIM domain, PDZ and LIM domain 3, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: g.39.1.3 g.39.1.3

Probab=83.62  E-value=2.4  Score=29.58  Aligned_cols=42  Identities=14%  Similarity=0.270  Sum_probs=32.4

Q ss_pred             CCCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCccccccc
Q 027010           25 EAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEE   77 (229)
Q Consensus        25 ~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~   77 (229)
                      ......|..|.+.+.+.++..-+..||..|+           +|-.|+..+..
T Consensus        22 ~~~~~~C~~C~~~I~~~~~~a~~~~~H~~CF-----------~C~~C~~~L~~   63 (89)
T 1x64_A           22 AQRMPLCDKCGSGIVGAVVKARDKYRHPECF-----------VCADCNLNLKQ   63 (89)
T ss_dssp             CCSCCBCTTTCCBCCSCCEESSSCEECTTTC-----------CCSSSCCCTTT
T ss_pred             CCcCCCcccCCCEecccEEEECCceECccCC-----------EecCCCCCCCC
Confidence            3456789999998887666677788888775           68899887764

>1x62_A C-terminal LIM domain protein 1; PDZ and LIM domain protein 1, LIM domain protein CLP-36, contractIle protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=82.39  E-value=1.5  Score=29.88  Aligned_cols=40  Identities=18%  Similarity=0.253  Sum_probs=31.3

Q ss_pred             CCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCccccccc
Q 027010           27 GNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEE   77 (229)
Q Consensus        27 ~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~   77 (229)
                      ....|..|.+.+.+.++..-+..||..|+           +|-.|+..+..
T Consensus        14 ~~~~C~~C~~~I~~~~~~a~~~~~H~~CF-----------~C~~C~~~L~~   53 (79)
T 1x62_A           14 KLPMCDKCGTGIVGVFVKLRDRHRHPECY-----------VCTDCGTNLKQ   53 (79)
T ss_dssp             CCCCCSSSCCCCCSSCEECSSCEECTTTT-----------SCSSSCCCHHH
T ss_pred             CCCccccCCCCccCcEEEECcceeCcCcC-----------eeCCCCCCCCC
Confidence            45679999998887777777888888875           68889887753

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*

Probab=82.06  E-value=0.31  Score=33.59  Aligned_cols=53  Identities=19%  Similarity=0.475  Sum_probs=35.2

Q ss_pred             CCCCccccccccCCCCc-EE--ccCCCccChhHHHHHHhhC-CCCCCCCCccccccc
Q 027010           25 EAGNFECNICFDLAQDP-IV--TLCGHLFCWPCLYKWLHGH-SNYRECPVCKATIEE   77 (229)
Q Consensus        25 ~~~~~~C~ICld~~~~p-v~--l~CgH~FC~~CL~~wl~~~-s~~~~CPvCR~~v~~   77 (229)
                      ..+...|.||...-... .+  -.|..+||..|+..-.... .....||.|+..+.+
T Consensus        15 ~~~~~~C~~C~~~~~~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~~k   71 (75)
T 2k16_A           15 GNQIWICPGCNKPDDGSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKIKK   71 (75)
T ss_dssp             SCEEECBTTTTBCCSSCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHHCS
T ss_pred             CCCCcCCCCCCCCCCCCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccCchhh
Confidence            44567799998765432 22  2688899999986433321 146789999876653

---

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	229
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	7e-18
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	2e-14
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	4e-14
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	3e-13
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	1e-10
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	2e-10
d1t1ha_	78	g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cre	8e-10
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	1e-08
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	6e-08
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	8e-08
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	2e-07
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	5e-07
d2c2la2	80	g.44.1.2 (A:225-304) STIP1 homology and U box-cont	6e-07
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	6e-07
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	5e-05
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	2e-04

>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 = 73.9 bits (181), Expect = 7e-18
 Identities = 20/55 (36%), Positives = 30/55 (54%)

Query: 28 NFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVP 82
            EC IC +L ++P+ T C H+FC  C+ K L+      +CP+CK  I +  L  
Sbjct: 21 ILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQE 75

>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 = 64.2 bits (156), Expect = 2e-14
 Identities = 16/53 (30%), Positives = 24/53 (45%), Gaps = 2/53 (3%)

Query: 31 CNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPL 83
          C IC +  +D  +  CGHL C  CL  W         CP C+  I+  + + +
Sbjct: 26 CKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQ--GCPFCRCEIKGTEPIVV 76

>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 = 63.4 bits (154), Expect = 4e-14
 Identities = 17/55 (30%), Positives = 23/55 (41%), Gaps = 2/55 (3%)

Query: 28 NFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVP 82
          +  C IC  +  DP+ T C HLFC  C+ + L        CP C+       L  
Sbjct: 23 SISCQICEHILADPVETSCKHLFCRICILRCLKVMG--SYCPSCRYPCFPTDLES 75

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

 Score = 60.7 bits (147), Expect = 3e-13
 Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 4/49 (8%)

Query: 30 ECNICFDLAQDPIVTL-CGHLFCWPCLYKWLHGHSNYRECPVCKATIEE 77
           C IC +   +  + L C H FC+ C+ +W+  +     CP+CK  +E 
Sbjct: 7  RCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPT---CPLCKVPVES 52

>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 = 53.3 bits (128), Expect = 1e-10
 Identities = 13/46 (28%), Positives = 18/46 (39%), Gaps = 6/46 (13%)

Query: 30 ECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATI 75
           C  C   A+ P +  C H  C  CL           +CP+C+A  
Sbjct: 8  RCQQCQAEAKCPKLLPCLHTLCSGCLEASG------MQCPICQAPW 47

>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 = 52.6 bits (126), Expect = 2e-10
 Identities = 17/52 (32%), Positives = 24/52 (46%), Gaps = 7/52 (13%)

Query: 28 NFECNICFDLAQDP----IVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATI 75
            EC +C    +D      +  CGH F   C+  WL  HS    CP+C+ T+
Sbjct: 5  GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHST---CPLCRLTV 53

>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 = 51.6 bits (123), Expect = 8e-10
 Identities = 15/54 (27%), Positives = 26/54 (48%), Gaps = 2/54 (3%)

Query: 29 FECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVP 82
          F C I  +L +DP++   G  +    + KWL   + ++ CP  + T+    L P
Sbjct: 9  FRCPISLELMKDPVIVSTGQTYERSSIQKWL--DAGHKTCPKSQETLLHAGLTP 60

>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 = 49.0 bits (116), Expect = 1e-08
 Identities = 13/55 (23%), Positives = 21/55 (38%), Gaps = 6/55 (10%)

Query: 29 FECNICFD-LAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVP 82
            C+ C + L +   +  C H+FC  C+   +        CPVC      + L  
Sbjct: 23 LRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGTG-----CPVCYTPAWIQDLKI 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 = 46.0 bits (108), Expect = 6e-08
 Identities = 10/50 (20%), Positives = 13/50 (26%), Gaps = 6/50 (12%)

Query: 31 CNICFDLAQDPIVTL-----CGHLFCWPCLYKWLHGHSNYRECPVCKATI 75
          C IC +   +                  CL  WL   S    C +C    
Sbjct: 9  CWICNEELGNERFRACGCTGELENVHRSCLSTWLT-ISRNTACQICGVVY 57

>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 = 45.9 bits (108), Expect = 8e-08
 Identities = 11/58 (18%), Positives = 17/58 (29%), Gaps = 7/58 (12%)

Query: 28 NFECNICFDLAQDP-----IVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKL 80
          +  C  C            +V +CGH  C  C+            CP C   + +   
Sbjct: 3  DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLF--VRGAGNCPECGTPLRKSNF 58

>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 = 44.7 bits (105), Expect = 2e-07
 Identities = 8/55 (14%), Positives = 23/55 (41%), Gaps = 4/55 (7%)

Query: 31 CNICFDLAQDPIVTL-CGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLY 84
          C I   + + P+++     +F    L +++    +    P+    +  E++V + 
Sbjct: 3  CAISGKVPRRPVLSPKSRTIFEKSLLEQYVK---DTGNDPITNEPLSIEEIVEIV 54

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]} Length = 52

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.2 bits (101), Expect = 5e-07
 Identities = 11/53 (20%), Positives = 20/53 (37%), Gaps = 6/53 (11%)

Query: 30 ECNICFDL----AQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEE 78
          EC +C +       +     CG+  C  C ++     +    CP C+    E+
Sbjct: 2  ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDEN--GLCPACRKPYPED 52

>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 = 43.7 bits (102), Expect = 6e-07
 Identities = 11/56 (19%), Positives = 24/56 (42%), Gaps = 2/56 (3%)

Query: 29 FECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLY 84
              I F+L ++P +T  G  +    + +           PV ++ + +E+L+P  
Sbjct: 8  LCGKISFELMREPCITPSGITYDRKDIEEH--LQRVGHFNPVTRSPLTQEQLIPNL 61

>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 = 44.0 bits (103), Expect = 6e-07
 Identities = 10/51 (19%), Positives = 17/51 (33%), Gaps = 4/51 (7%)

Query: 30 ECNICFDLAQDPIVTL-CGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEK 79
                   +  +    C H F + C+ +WL        CP+     E +K
Sbjct: 40 ANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQV---CPLDNREWEFQK 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 = 38.9 bits (90), Expect = 5e-05
 Identities = 11/55 (20%), Positives = 20/55 (36%), Gaps = 8/55 (14%)

Query: 26 AGNFECNICFD---LAQDPIVTLCGHLFCWPCLYKWLHGHSNYRE-----CPVCK 72
          +G+  C +C     + Q   +  C  +FC  CL +++             CP   
Sbjct: 3  SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA 57

>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 = 38.1 bits (87), Expect = 2e-04
 Identities = 11/40 (27%), Positives = 14/40 (35%), Gaps = 2/40 (5%)

Query: 42 IVTLCGHLFCWPCLYKWLH--GHSNYRECPVCKATIEEEK 79
           +T C H F   CL             +CP CK    E+ 
Sbjct: 57 RLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKT 96

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	229
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.49
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.47
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.46
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.46
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.46
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.44
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.42
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	99.35
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.31
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.3
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.28
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.26
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.24
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.16
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.06
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.93
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.39
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	94.34
d1weoa_	93	Cellulose synthase A catalytic subunit 7, IRX3 {Th	90.73
d1wesa_	71	PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mu	90.64
d1wewa_	78	Sumoylation ligase E3, SIZ1 {Thale cress (Arabidop	90.15
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	88.84
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	86.94
d1wema_	76	Death associated transcription factor 1, Datf1 (DI	86.94

>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=99.49  E-value=9.1e-15  Score=108.65  Aligned_cols=60  Identities=33%  Similarity=0.760  Sum_probs=51.3

Q ss_pred             CCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCccccccccccccccCC
Q 027010           27 GNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGR   86 (229)
Q Consensus        27 ~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~~~   86 (229)
                      +.++|+||++.+.+|+.++|||.||..||.+|++.+.....||+||..+..+.+.+++..
T Consensus        20 ~~l~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~l~~n~~l   79 (103)
T d1jm7a_          20 KILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQESTRF   79 (103)
T ss_dssp             HHTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTCBCCCSS
T ss_pred             cCcCCCccCchhCCeEEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCChhhCCcCHHH
Confidence            457899999999999999999999999999999865555689999999887776665543

>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=99.47  E-value=9e-15  Score=97.44  Aligned_cols=53  Identities=15%  Similarity=0.356  Sum_probs=48.0

Q ss_pred             ccccccccCCCCcEEc-cCCCccChhHHHHHHhhCCCCCCCCCcccccccccccccc
Q 027010           29 FECNICFDLAQDPIVT-LCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLY   84 (229)
Q Consensus        29 ~~C~ICld~~~~pv~l-~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~   84 (229)
                      +.|+||++.+++|+++ .|||+||+.||.+|++.+.   +||+||+++..++++|+.
T Consensus         1 l~C~Ic~~~~~~Pv~~~~cGh~fc~~cI~~~l~~~~---~CP~c~~~l~~~dLipik   54 (56)
T d2baya1           1 MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTG---NDPITNEPLSIEEIVEIV   54 (56)
T ss_dssp             CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHHS---BCTTTCCBCCGGGCEECC
T ss_pred             CCCccCCchHHhcCccCCCCCcccHHHHHHHHhhcc---CCCccCCcCCHHhceeCC
Confidence            3699999999999987 5999999999999999654   899999999999998765

>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=99.46  E-value=1.4e-14  Score=104.79  Aligned_cols=53  Identities=32%  Similarity=0.701  Sum_probs=46.5

Q ss_pred             CCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCccccccccccc
Q 027010           27 GNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLV   81 (229)
Q Consensus        27 ~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~   81 (229)
                      +.+.|+||++.+.+|++++|||.||+.||.+|++.+  ..+||+||.++...++.
T Consensus        22 ~~l~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~--~~~CP~Cr~p~~~~~l~   74 (86)
T d1rmda2          22 KSISCQICEHILADPVETSCKHLFCRICILRCLKVM--GSYCPSCRYPCFPTDLE   74 (86)
T ss_dssp             HHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHT--CSBCTTTCCBCCGGGCB
T ss_pred             cCcCCccCCcchhcceecCCCChhhHHHHHHHHhhC--CCcCcccCCCCChhhcc
Confidence            557899999999999999999999999999999853  35899999998866654

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.46  E-value=2.7e-14  Score=100.92  Aligned_cols=62  Identities=26%  Similarity=0.551  Sum_probs=54.4

Q ss_pred             CCCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCccccccccccccccCCCC
Q 027010           25 EAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGRGK   88 (229)
Q Consensus        25 ~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~~~~~   88 (229)
                      ..+++.|+||++.+++||+++|||+||..||.+|++.+  ...||.|+..+..+.++|+..+.+
T Consensus         5 iP~~l~CpIc~~~m~dPV~~~cgh~fc~~ci~~~~~~~--~~~cP~~~~~l~~~~l~pN~~L~~   66 (78)
T d1t1ha_           5 FPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAG--HKTCPKSQETLLHAGLTPNYVLKS   66 (78)
T ss_dssp             CSSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTT--CCBCTTTCCBCSSCCCEECTTTHH
T ss_pred             CCccCCCcCcCchhhCceEccCCCcchHHHHHHHHHHC--CCCCCcccccCCcccccchHHHHH
Confidence            45789999999999999999999999999999999853  358999999999888888876544

>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=99.46  E-value=2.2e-14  Score=101.92  Aligned_cols=62  Identities=19%  Similarity=0.287  Sum_probs=54.2

Q ss_pred             CCCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCccccccccccccccCCCC
Q 027010           25 EAGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGRGK   88 (229)
Q Consensus        25 ~~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~~~~~   88 (229)
                      ..+++.|+||++++++||+++|||+||..||.+|+...  ...||.|+..+..+++.|+....+
T Consensus         4 iP~~l~CpIc~~l~~dPv~~~cGhtfc~~ci~~~l~~~--~~~cP~c~~~l~~~~l~pN~~L~~   65 (80)
T d2c2la2           4 IPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRV--GHFNPVTRSPLTQEQLIPNLAMKE   65 (80)
T ss_dssp             CCSTTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHT--CSSCTTTCCCCCGGGCEECHHHHH
T ss_pred             CCccccCcCcCchhhhhcccCCcCeecHHHHHHHHhcC--CccCCCccccccccccccHHHHHH
Confidence            45789999999999999999999999999999999853  358999999999888888766544

>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=99.44  E-value=4.2e-14  Score=100.47  Aligned_cols=51  Identities=31%  Similarity=0.784  Sum_probs=44.1

Q ss_pred             CCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCccccccccc
Q 027010           27 GNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEK   79 (229)
Q Consensus        27 ~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~   79 (229)
                      ....|+||++.+.++++++|||.||..||.+|++.+  ..+||+||..+....
T Consensus        22 ~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~wl~~~--~~~CP~Cr~~i~~~~   72 (79)
T d1fbva4          22 TFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESE--GQGCPFCRCEIKGTE   72 (79)
T ss_dssp             CTTBCTTTSSSBCCEECSSSCCEECHHHHHHHHHTT--CCSCTTTCCCCCCCC
T ss_pred             CCCCCccCCCcCCCeEEeCCCCeeeHHHHHHHHHHC--cCcCCCCCcCccCCc
Confidence            345799999999999999999999999999999842  358999999987544

>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=99.42  E-value=1.1e-13  Score=95.47  Aligned_cols=47  Identities=30%  Similarity=0.878  Sum_probs=40.6

Q ss_pred             CCccccccccCCCCcEE-ccCCCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           27 GNFECNICFDLAQDPIV-TLCGHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        27 ~~~~C~ICld~~~~pv~-l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      ...+|+||++.+.++++ ++|||.||..||.+|++.+.   +||+||+++.
T Consensus         4 ~~d~C~IC~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~---~CP~CR~~i~   51 (68)
T d1chca_           4 VAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNP---TCPLCKVPVE   51 (68)
T ss_dssp             CCCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHHSC---STTTTCCCCC
T ss_pred             CCCCCccCCcCccCCcEEeCCCCcCcHHHHHHHHHhCC---cCCCCCcchH
Confidence            34569999999987754 89999999999999999654   8999999876

>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=99.35  E-value=6.8e-13  Score=97.81  Aligned_cols=63  Identities=14%  Similarity=0.174  Sum_probs=54.1

Q ss_pred             CCCCCccccccccCCCCcEEccCCC-ccChhHHHHHHhhCCCCCCCCCccccccccccccccCCCCC
Q 027010           24 SEAGNFECNICFDLAQDPIVTLCGH-LFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYGRGKS   89 (229)
Q Consensus        24 ~~~~~~~C~ICld~~~~pv~l~CgH-~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~~~~~~   89 (229)
                      ...+++.||||.++++|||+++|+| .||+.||.+|++.+   ..||+|++++..++|+|+..+...
T Consensus        18 ~~P~~f~CPI~~~lm~dPV~~~~~~~ty~r~~I~~~l~~~---~~~P~~~~~l~~~~L~pN~~Lr~~   81 (98)
T d1wgma_          18 DACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSD---QTDPFNRSPLTMDQIRPNTELKEK   81 (98)
T ss_dssp             SCCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTTS---CBCTTTCSBCCTTTSEECHHHHHH
T ss_pred             CCcHHhCCcCchhHHHHHHhcccccchhhHHHHHHHHHhc---CCcccccccccchhhcchHHHHHH
Confidence            3456899999999999999998775 89999999999854   489999999999999988766443

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.31  E-value=1.4e-13  Score=91.75  Aligned_cols=48  Identities=27%  Similarity=0.510  Sum_probs=40.8

Q ss_pred             CCCccccccccCCCCcEEccCCCccChhHHHHHHhhCCCCCCCCCccccccccc
Q 027010           26 AGNFECNICFDLAQDPIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEK   79 (229)
Q Consensus        26 ~~~~~C~ICld~~~~pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~   79 (229)
                      .+.++|+||++.+.+|++++|||.||..||.+|      ..+||+||+.+..+.
T Consensus         4 ~~~l~C~IC~~~~~~p~~lpCgH~fC~~Ci~~~------~~~CP~Cr~~~~~~~   51 (56)
T d1bora_           4 FQFLRCQQCQAEAKCPKLLPCLHTLCSGCLEAS------GMQCPICQAPWPLGA   51 (56)
T ss_dssp             CCCSSCSSSCSSCBCCSCSTTSCCSBTTTCSSS------SSSCSSCCSSSSCCS
T ss_pred             cCCCCCcccCcccCCCEEecCCCHHhHHHHHcC------CCcCcCCCCcccCCC
Confidence            456799999999999999999999999998643      448999999887443

>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=99.30  E-value=6.4e-13  Score=88.02  Aligned_cols=47  Identities=34%  Similarity=0.845  Sum_probs=38.7

Q ss_pred             CCCccccccccCCCCc---EEc-cCCCccChhHHHHHHhhCCCCCCCCCccccc
Q 027010           26 AGNFECNICFDLAQDP---IVT-LCGHLFCWPCLYKWLHGHSNYRECPVCKATI   75 (229)
Q Consensus        26 ~~~~~C~ICld~~~~p---v~l-~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v   75 (229)
                      +++.+|+||++.+.+.   +.+ .|+|.||..||.+|++.+   .+||+||+++
T Consensus         3 ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~---~~CP~CR~~i   53 (55)
T d1iyma_           3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSH---STCPLCRLTV   53 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTC---CSCSSSCCCS
T ss_pred             CCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhC---CcCCCCCCEe
Confidence            4567899999999753   344 699999999999999954   4899999876

>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=99.28  E-value=4.7e-13  Score=91.46  Aligned_cols=52  Identities=21%  Similarity=0.569  Sum_probs=40.8

Q ss_pred             CCccccccccCCCC-----cEEccCCCccChhHHHHHHhhCCCCCCCCCcccccccccc
Q 027010           27 GNFECNICFDLAQD-----PIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKL   80 (229)
Q Consensus        27 ~~~~C~ICld~~~~-----pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l   80 (229)
                      ++..|+||++.+..     .++++|||.||..||.+|++..  ...||+||+.+...++
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~--~~~CP~CR~~i~~~~~   58 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRG--AGNCPECGTPLRKSNF   58 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTT--SSSCTTTCCCCSSCCC
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcC--cCCCCCCCcCcccccc
Confidence            56889999986521     2567999999999999999742  3479999998875543

>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=99.26  E-value=8.6e-13  Score=86.35  Aligned_cols=47  Identities=23%  Similarity=0.591  Sum_probs=38.6

Q ss_pred             ccccccccCCCCc----EEccCCCccChhHHHHHHhhCCCCCCCCCccccccc
Q 027010           29 FECNICFDLAQDP----IVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEE   77 (229)
Q Consensus        29 ~~C~ICld~~~~p----v~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~   77 (229)
                      ++|+||++.+.+.    +.++|||.||..|+.+|++.+  ..+||+||+++.+
T Consensus         1 leCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~--~~~CP~CR~~~~~   51 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDE--NGLCPACRKPYPE   51 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTS--CCBCTTTCCBCSC
T ss_pred             CCCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhc--CCCCCccCCcCCC
Confidence            4899999988532    446899999999999999853  3489999998864

>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=99.24  E-value=6.7e-13  Score=97.30  Aligned_cols=55  Identities=24%  Similarity=0.580  Sum_probs=46.4

Q ss_pred             CCCccccccccCCCCcEEc-cCCCccChhHHHHHHhhCCCCCCCCCccccccccccccccC
Q 027010           26 AGNFECNICFDLAQDPIVT-LCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEKLVPLYG   85 (229)
Q Consensus        26 ~~~~~C~ICld~~~~pv~l-~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~l~p~~~   85 (229)
                      .+.++|+||++.+.+|+++ +|||.||..||.+|+..     .||+||..+...++.++..
T Consensus        20 ~~~l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~~-----~CP~Cr~~~~~~~l~~n~~   75 (97)
T d1jm7b_          20 EKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGT-----GCPVCYTPAWIQDLKINRQ   75 (97)
T ss_dssp             HHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTTT-----BCSSSCCBCSCSSCCCCHH
T ss_pred             hhcCCCccCCchhhcCceeCCCCCchhHHHHHHHHhc-----cccccCCcCchhhCcccHH
Confidence            4567999999999999875 89999999999999862     5999999888777666543

>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=99.16  E-value=2.3e-11  Score=91.10  Aligned_cols=51  Identities=27%  Similarity=0.558  Sum_probs=40.3

Q ss_pred             CCccccccccCCCCc------------------EEccCCCccChhHHHHHHhhCC--CCCCCCCccccccc
Q 027010           27 GNFECNICFDLAQDP------------------IVTLCGHLFCWPCLYKWLHGHS--NYRECPVCKATIEE   77 (229)
Q Consensus        27 ~~~~C~ICld~~~~p------------------v~l~CgH~FC~~CL~~wl~~~s--~~~~CPvCR~~v~~   77 (229)
                      .+.+|+||++.+.++                  ..++|||.||..||..|++.+.  ...+||+||+.+..
T Consensus        24 ~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~   94 (114)
T d1v87a_          24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSS
T ss_pred             ccccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhcc
Confidence            456799999887532                  4578999999999999998643  34689999987753

>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=99.06  E-value=4.9e-11  Score=85.82  Aligned_cols=48  Identities=27%  Similarity=0.628  Sum_probs=38.3

Q ss_pred             CccccccccCCCC------------------cEEccCCCccChhHHHHHHhhCCCCCCCCCcccccccc
Q 027010           28 NFECNICFDLAQD------------------PIVTLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEE   78 (229)
Q Consensus        28 ~~~C~ICld~~~~------------------pv~l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~   78 (229)
                      +..|+||++.+.+                  .+.++|||.||..||.+|++.+.   +||+||+....+
T Consensus        21 ~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~---~CP~CR~~~~~~   86 (88)
T d3dplr1          21 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQ---VCPLDNREWEFQ   86 (88)
T ss_dssp             SCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCS---BCSSSCSBCCEE
T ss_pred             CCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCC---cCCCCCCccccc
Confidence            4459999877654                  24578999999999999999644   899999987643

>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=98.93  E-value=2.4e-10  Score=76.31  Aligned_cols=51  Identities=20%  Similarity=0.417  Sum_probs=41.9

Q ss_pred             CCCCccccccccCCCCcEEccC-----CCccChhHHHHHHhhCCCCCCCCCcccccc
Q 027010           25 EAGNFECNICFDLAQDPIVTLC-----GHLFCWPCLYKWLHGHSNYRECPVCKATIE   76 (229)
Q Consensus        25 ~~~~~~C~ICld~~~~pv~l~C-----gH~FC~~CL~~wl~~~s~~~~CPvCR~~v~   76 (229)
                      +++...|.||++.+.++.+.+|     +|.||..||.+|+..+ +..+||+||+.++
T Consensus         3 ded~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~-~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           3 DEDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTIS-RNTACQICGVVYN   58 (60)
T ss_dssp             TCSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHH-TCSBCTTTCCBCC
T ss_pred             CCCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhC-CCCCCcccCCeee
Confidence            4566789999999888777665     4999999999999753 3568999999876

>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=98.39  E-value=7.7e-08  Score=68.92  Aligned_cols=48  Identities=21%  Similarity=0.555  Sum_probs=36.3

Q ss_pred             CCCccccccccCCCC---cEEccCCCccChhHHHHHHhhC-----CCCCCCCCccc
Q 027010           26 AGNFECNICFDLAQD---PIVTLCGHLFCWPCLYKWLHGH-----SNYRECPVCKA   73 (229)
Q Consensus        26 ~~~~~C~ICld~~~~---pv~l~CgH~FC~~CL~~wl~~~-----s~~~~CPvCR~   73 (229)
                      ....+|+||++.+..   ++.++|+|.||..|+..|++.+     ....+||.|+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           3 SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             CSBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CCCCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            356789999998853   3456899999999999999842     22458998643

>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=94.34  E-value=0.019  Score=38.39  Aligned_cols=44  Identities=30%  Similarity=0.779  Sum_probs=33.9

Q ss_pred             CCccccccccCCCCcEEccC----CCccChhHHHHHHhhC--CCCCCCCC
Q 027010           27 GNFECNICFDLAQDPIVTLC----GHLFCWPCLYKWLHGH--SNYRECPV   70 (229)
Q Consensus        27 ~~~~C~ICld~~~~pv~l~C----gH~FC~~CL~~wl~~~--s~~~~CPv   70 (229)
                      ..+.|.+|.+.+.|.....|    +|.||.+|-..+++.+  ....-||.
T Consensus         7 ~~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sik~q~~~~evyCPS   56 (80)
T d2cs3a1           7 GPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKAQGATGEVYCPS   56 (80)
T ss_dssp             CSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHHHHSSSCCCCTT
T ss_pred             CceeeeeehhhhcCCceEeCCCCcCCceeccccHHHHHhcCCCCcEECCC
Confidence            34889999999998865555    7999999999998853  23455654

>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=90.73  E-value=0.96  Score=30.81  Aligned_cols=53  Identities=25%  Similarity=0.508  Sum_probs=35.9

Q ss_pred             CCCCccccccccCCCCc----EE---ccCCCccChhHHHHHHhhCCCCCCCCCccccccccc
Q 027010           25 EAGNFECNICFDLAQDP----IV---TLCGHLFCWPCLYKWLHGHSNYRECPVCKATIEEEK   79 (229)
Q Consensus        25 ~~~~~~C~ICld~~~~p----v~---l~CgH~FC~~CL~~wl~~~s~~~~CPvCR~~v~~~~   79 (229)
                      ......|.||-|..-..    +.   -.|+--.|.+|..-=.+  ...+.||.|+......+
T Consensus        13 ~~~~q~CqiCGd~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErk--eG~q~CpqCkt~Ykr~k   72 (93)
T d1weoa_          13 NLDGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERR--EGTQNCPQCKTRYKRLR   72 (93)
T ss_dssp             CCSSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHH--TSCSSCTTTCCCCCCCT
T ss_pred             hcccchhhhcccccccCCCCCEEEEecccCCccchHHHHHHHh--ccCccCcccCChhhhhc
Confidence            34556799999876321    12   25788899999853233  25679999998876433

>d1wesa_ g.50.1.2 (A:) PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD Inhibitor of growth protein 2, Ing2
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.64  E-value=0.1  Score=34.49  Aligned_cols=46  Identities=17%  Similarity=0.500  Sum_probs=28.3

Q ss_pred             CCccccccccCCCCcEE-c---cC-CCccChhHHHHHHhhCCCCCCCCCcccc
Q 027010           27 GNFECNICFDLAQDPIV-T---LC-GHLFCWPCLYKWLHGHSNYRECPVCKAT   74 (229)
Q Consensus        27 ~~~~C~ICld~~~~pv~-l---~C-gH~FC~~CL~~wl~~~s~~~~CPvCR~~   74 (229)
                      +..-| ||.+......+ .   .| ..+||..|+. .-........||.|+..
T Consensus        15 e~~~C-iC~~~~~~~~i~c~~~~C~~~wfH~~Cvg-l~~~p~~~w~C~~C~~~   65 (71)
T d1wesa_          15 EPTYC-LCNQVSYGEMIGCDNEQCPIEWFHFSCVS-LTYKPKGKWYCPKCRGD   65 (71)
T ss_dssp             SCCCS-TTCCCCCSSEECCSCTTCSCCCEETTTTT-CSSCCSSCCCCTTTSSC
T ss_pred             CCCEE-EeCCCCCCCEEEEECCCCCCcCccCccCC-CCcCCCCcEECcCCccc
Confidence            44567 99976544433 3   24 4579999984 22222346899999753

>d1wewa_ g.50.1.2 (A:) Sumoylation ligase E3, SIZ1 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Sumoylation ligase E3, SIZ1
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=90.15  E-value=0.064  Score=35.90  Aligned_cols=50  Identities=16%  Similarity=0.299  Sum_probs=31.5

Q ss_pred             CCCCCccccccccCCCCc--EEc---cCCCccChhHHHH---HHh---hCCCCCCCCCcccc
Q 027010           24 SEAGNFECNICFDLAQDP--IVT---LCGHLFCWPCLYK---WLH---GHSNYRECPVCKAT   74 (229)
Q Consensus        24 ~~~~~~~C~ICld~~~~p--v~l---~CgH~FC~~CL~~---wl~---~~s~~~~CPvCR~~   74 (229)
                      ..++...| ||.+...+.  +..   .|..+||..|+.-   -+.   .......||.|+..
T Consensus        12 ~~~~~~~C-~C~~~~~~~~~i~c~c~~C~~W~H~~Cvgi~~~~~~~~~~~~~~~~C~~C~~~   72 (78)
T d1wewa_          12 QPEIKVRC-VCGNSLETDSMIQCEDPRCHVWQHVGCVILPDKPMDGNPPLPESFYCEICRLT   72 (78)
T ss_dssp             SCCCCCCC-SSCCCCCCSCEEECSSTTTCCEEEHHHHSCCCTTTCSCSCSCSSCCCHHHHHC
T ss_pred             CCCCccEe-ECCCccCCCcEEEEeCCCCCcCCCccccCccccccccccCCCCEEECCCCcCc
Confidence            34456788 898766543  445   4899999999831   011   11124789999753

>d1weva_ g.50.1.2 (A:) PHD finger protein 22 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 22
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=88.84  E-value=0.033  Score=38.07  Aligned_cols=56  Identities=14%  Similarity=0.360  Sum_probs=35.2

Q ss_pred             CCCCCCCCCccccccccCCCC---cEE--ccCCCccChhHHHHH-----HhhCCCCCCCCCccccc
Q 027010           20 NNSNSEAGNFECNICFDLAQD---PIV--TLCGHLFCWPCLYKW-----LHGHSNYRECPVCKATI   75 (229)
Q Consensus        20 ~~~~~~~~~~~C~ICld~~~~---pv~--l~CgH~FC~~CL~~w-----l~~~s~~~~CPvCR~~v   75 (229)
                      .++...+....|.||.....+   .++  -.|..+||..|+...     .+.......||.|....
T Consensus         8 ~~d~~~~~~~~C~iC~~~~~~~~~~~v~Cd~C~~~~H~~C~~p~~~~~~~~~~~~~W~C~~C~~~~   73 (88)
T d1weva_           8 ADDFAMEMGLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQM   73 (88)
T ss_dssp             CCCCHHHHCCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHHH
T ss_pred             CCcccCcCcCCccCCCCccCCCCCeEEEcCCCCCccccccCCCcccccccccCCCeEECcccCchH
Confidence            334444556789999865432   233  368899999997532     22222357899996543

>d1wepa_ g.50.1.2 (A:) PHD finger protein 8 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 8
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=86.94  E-value=0.67  Score=30.62  Aligned_cols=48  Identities=21%  Similarity=0.410  Sum_probs=29.7

Q ss_pred             CCccccccccCCC-C-cEE--ccCCCccChhHHHH--HHhhCCCCCCCCCccccc
Q 027010           27 GNFECNICFDLAQ-D-PIV--TLCGHLFCWPCLYK--WLHGHSNYRECPVCKATI   75 (229)
Q Consensus        27 ~~~~C~ICld~~~-~-pv~--l~CgH~FC~~CL~~--wl~~~s~~~~CPvCR~~v   75 (229)
                      ...-| ||.+... + ..+  -.|.-+||..|+.-  ..........||.|+...
T Consensus        11 ~pv~C-iC~~~~~~~~~mI~Cd~C~~W~H~~C~g~~~~~~~~~~~~~C~~C~~~~   64 (79)
T d1wepa_          11 VPVYC-LCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVF   64 (79)
T ss_dssp             CCCCS-TTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTS
T ss_pred             CCeEe-ECCCccCCCCcEEECCCCCCcEeccccCcchhcCCCCCEEECccCcCCc
Confidence            34556 8987543 2 222  36889999999842  111122358999997643

>d1wema_ g.50.1.2 (A:) Death associated transcription factor 1, Datf1 (DIO-1) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Death associated transcription factor 1, Datf1 (DIO-1)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=86.94  E-value=0.28  Score=32.06  Aligned_cols=50  Identities=20%  Similarity=0.478  Sum_probs=31.4

Q ss_pred             CCCCCccccccccCCCCcEEc---cCCCccChhHHH------HHHhhCCCCCCCCCcccc
Q 027010           24 SEAGNFECNICFDLAQDPIVT---LCGHLFCWPCLY------KWLHGHSNYRECPVCKAT   74 (229)
Q Consensus        24 ~~~~~~~C~ICld~~~~pv~l---~CgH~FC~~CL~------~wl~~~s~~~~CPvCR~~   74 (229)
                      .+.+...| ||.....+...+   .|.-+||..|+.      ...........||.|+..
T Consensus        12 ~d~~~~~C-iC~~~~~~~~mi~Cd~C~~w~H~~Cvg~~~~~~~~~~~~~~~w~C~~C~~~   70 (76)
T d1wema_          12 YDPNALYC-ICRQPHNNRFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTIL   70 (76)
T ss_dssp             CCTTCCCS-TTCCCCCSSCEEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHH
T ss_pred             cCCCcCEE-ECCCccCCCeEEEECCCCCcCCccccCCCcccccccCCCCCcEECCCCcCc
Confidence            34556778 898765543333   688899999982      111111245799999653