Citrus Sinensis ID: 023944

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-----
Protein Sequence
MSSDEIALNGLNTQLVFQDDPLRSFNCQQHRVGDPGPKTRELTGFIDDKMFSVDRDRYFRPQPTMFTEHHPERRDPPQAREWSGNATSPSTDESDGEDDDVDDDEDDDDVDEAEKNNNHNSNSNVTNCNNNNNSTNCGILTAGVEKMGNGKAKNQLNFGKIGNAGQNVNNGAIVTVAEADSDVYYSQYLQQGTEGSSGSGQKECVAVDNGCGISGSGDSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIRMKACYTCSRPVLEDSIAPNL
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEEccccccEEEEcccccccccccccEEEEccccccccccHHHHHHHHccccccccccccccccccccccccHHHHHHHcccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccHHccccccccccEEcccccccccccccccccccccccEHHHHHccccEEEcccccccccHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEccccccccccccccccEcccccccccccccccEEEEEccccccEEEEHcccccccccccccccEEEEcccccccccHHHHHHHHcccccHHHHHHcEEEccccccccHHHHHHHHHHHHccccccccHHcccccc
Coil and Loop (DISEMBL)
mssdeialnglntqlvfqddplrsfncqqhrvgdpgpktreltgfiddkmfsvdrdryfrpqptmftehhperrdppqarewsgnatspstdesdgedddvdddeddddvdeaeknnnhnsnsnvtncnnnnnstncgiLTAGvekmgngkaknqlnfgkignagqnvnnGAIVTVAEADSDVYYSQYlqqgtegssgsgqkecvavdngcgisgsgdSLRAIlsdpvtgnlmddamilpcghsfgaaGVQHVIRMKAcytcsrpvledsiapnl
Flexible Loop (DISEMBL)
MSSDEIALNGLNTQLVFQDDPLRSFNcqqhrvgdpgpktreltgfiddkmfsvdrdRYFRPqptmftehhperrdppqarewsgnatspstdesdgedddVDDDEDDDDVDEaeknnnhnsnsnvtncnnnnnSTNCGILTAGVEKMGNGKAKNQLNFGKIGNAGQNVNNGAIVTVAEADSDVYYSQYLQQGtegssgsgQKECVAVDNGCGISGSGDSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIRMKACYTCSrpvledsiapnl
Low Complexity Region (SEG)
MSSDEIALNGLNTQLVFQDDPLRSFNCQQHRVGDPGPKTRELTGFIDDKMFSVDRDRYFRPQPTMFTEHHPERRDPPQAREWSGNATSPSTdesdgedddvdddeddddvdeAEKnnnhnsnsnvtncnnnnnstncGILTAGVEKMGNGKAKNQLNFGKIGNAGQNVNNGAIVTVAEADSDVYYSQYLQQGTEgssgsgQKECVAVDNGCGISGSGDSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIRMKACYTCSRPVLEDSIAPNL
Disordered region (IsUnstruct)
*********GLNTQLVFQDDPLRSFNC***************TGFIDDKMFSVD************************************************************************************ILTA************QLNFGKIGNAGQNVNNGAIVTVAEADSDVYYSQYLQ*************CVAVDNGCGISGSGDSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIRMKACYTCSRPVL********
Disordered Region (DISOPRED)
**********LNTQLVFQDDPLRSFNC***********TRELTGFIDDKMFSVDRDRYFRPQPTMFT**H*****************************************EAEK************************************************************VAEADSDVYYS****************************GSGDSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIRMKACYTCSRPVLE***AP**
Disordered Region (DISEMBL)
MSSDEIALNGLNTQLVFQDDPLRSFNCQQHRVGDPGPKTRELTGFIDDKMFSVDRDRYFRPQPTMFT***********************************************KNNNHNSNSNVTNCNNNNNSTNCGILTAGVEKMGNGKAKNQLNFGKIGNAGQNVNNGAIVTVAEADSDVYYSQYLQ***********KECVAVDNGCGISGSGDSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIRMKACYTCSRPVLEDSIAPNL
Disordered Region (DISPRO)
*****IALNGLNTQLVFQDDPLRSFNCQQHRVGDPGPKTRELTGFIDDKMFSVDRDRYFRPQPTMFTEHHPERRDPPQ**********************************************************CGILTAGVEKMGNGKAKNQLNFGKIGNAGQNVNNGAIVTVAEADSDVYYSQYLQQGTEGSSGSGQKECVAVDNGCGISGSGDSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIRMKACYTCSRPVLEDSI****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSSDEIALNGLNTQLVFQDDPLRSFNCQQHRVGDPGPKTRELTGFIDDKMFSVDRDRYFRPQPTMFTEHHPERRDPPQAREWSGNATSPSTDESDGEDDDVDDDEDDDDVDEAEKNNNHNSNSNVTNCNNNNNSTNCGILTAGVEKMGNGKAKNQLNFGKIGNAGQNVNNGAIVTVAEADSDVYYSQYLQQGTEGSSGSGQKECVAVDNGCGISGSGDSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIRMKACYTCSRPVLEDSIAPNL
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	275	2.2.26 [Sep-21-2011]
Q6DBN5	363	U-box domain-containing p	yes	no	0.814	0.617	0.326	2e-25
Q58FY4	383	U-box domain-containing p	no	no	0.218	0.156	0.7	7e-19

>sp|Q6DBN5|PUB62_ARATH U-box domain-containing protein 62 OS=Arabidopsis thaliana GN=PUB62 PE=2 SV=1

 Score =  116 bits (290), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 94/288 (32%), Positives = 129/288 (44%), Gaps = 64/288 (22%)

Query: 1   MSSDEIALNGLNTQLVF-QD-DPLRSFNCQQHRVGDPGPKTRELTGFIDDKMFSVDRDRY 58
           MS   ++    N Q +  QD DPLR       RVG+  PKTRE   FI D        RY
Sbjct: 1   MSGKGLSPAPFNAQPMIVQDADPLR------FRVGEQDPKTREFAAFIGDH-------RY 47

Query: 59  FRPQPTMFTEHHPERRDPPQAREWSGNATSPSTDESDGEDDDVDDDEDDDDVDEAEKNNN 118
           F          +P                 P  +                      + N 
Sbjct: 48  FAAAAAAAAAANPH----------------PHLE---------------------FRQNF 70

Query: 119 HNSNSNVTNCNNNNNSTNCGILTAGVEKMGNGKAKNQLNFGKIGNAGQ-NVNNGAIVTVA 177
           ++    + N N++  S     +    E   +    N+ + G   +AG+ +V+ GA++ V 
Sbjct: 71  YSEKPIIGNPNDSGGSDGEDDVDVEEEDEDDDLDGNEGDIGMNKDAGEDSVSAGAVIVVG 130

Query: 178 EADSDVYYSQYLQQGTEGSSGSGQKECVAVDNGCGISGSGD----------SLRAILSDP 227
           + D+  YYSQ+ +          ++  +A DNGC  SG  D          SLR ILSDP
Sbjct: 131 Q-DNAAYYSQHFKTVEASFVSRNEESSIAADNGCDFSGRRDLSSSSSNSIESLRTILSDP 189

Query: 228 VTGNLMDDAMILPCGHSFGAAGVQHVIRMKACYTCSRPVLEDSIAPNL 275
            TG+LM DAMILPCGH+FGA G++ V +MKAC TCS+PV EDSI PNL
Sbjct: 190 TTGSLMADAMILPCGHTFGAGGIEQVKQMKACCTCSQPVSEDSITPNL 237

Functions as an E3 ubiquitin ligase.
Arabidopsis thaliana (taxid: 3702)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q58FY4|PUB63_ARATH U-box domain-containing protein 63 OS=Arabidopsis thaliana GN=PUB63 PE=2 SV=1

 Score = 94.4 bits (233), Expect = 7e-19,   Method: Compositional matrix adjust.
 Identities = 42/60 (70%), Positives = 50/60 (83%)

Query: 216 SGDSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIRMKACYTCSRPVLEDSIAPNL 275
           S +SL+AILSDPVTG LM+DA ILPCGHSFGA G++ V +MKAC+TCS+P LE S  PNL
Sbjct: 198 SWESLKAILSDPVTGALMNDATILPCGHSFGAGGLKEVKKMKACFTCSQPTLEGSEKPNL 257


  Database: swissprot
    Posted date:  Mar 23, 2013  2:32 AM
  Number of letters in database: 191,569,459
  Number of sequences in database:  539,616
  
Lambda     K      H
   0.311    0.131    0.389 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 118,107,188
Number of Sequences: 539616
Number of extensions: 5749575
Number of successful extensions: 136680
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 1559
Number of HSP's successfully gapped in prelim test: 499
Number of HSP's that attempted gapping in prelim test: 41528
Number of HSP's gapped (non-prelim): 42605
length of query: 275
length of database: 191,569,459
effective HSP length: 116
effective length of query: 159
effective length of database: 128,974,003
effective search space: 20506866477
effective search space used: 20506866477
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 60 (27.7 bits)

Functions as an E3 ubiquitin ligase.

Arabidopsis thaliana (taxid: 3702)

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	275
147839974	452	hypothetical protein VITISV_024206 [Viti	0.974	0.592	0.472	6e-60
225448699	441	PREDICTED: U-box domain-containing prote	0.974	0.607	0.472	9e-60
356507514	426	PREDICTED: U-box domain-containing prote	0.967	0.624	0.450	2e-47
356518698	428	PREDICTED: U-box domain-containing prote	0.941	0.605	0.453	4e-46
449460185	429	PREDICTED: U-box domain-containing prote	0.938	0.601	0.45	1e-44
297736483	384	unnamed protein product [Vitis vinifera]	0.8	0.572	0.443	4e-41
388522335	432	unknown [Medicago truncatula]	0.938	0.597	0.438	1e-38
449457472	379	PREDICTED: U-box domain-containing prote	0.807	0.585	0.452	7e-35
449524615	380	PREDICTED: U-box domain-containing prote	0.807	0.584	0.465	2e-34
255559723	394	conserved hypothetical protein [Ricinus	0.345	0.241	0.629	6e-29

>gi|147839974|emb|CAN61689.1| hypothetical protein VITISV_024206 [Vitis vinifera]

 Score =  236 bits (603), Expect = 6e-60,   Method: Compositional matrix adjust.
 Identities = 152/322 (47%), Positives = 199/322 (61%), Gaps = 54/322 (16%)

Query: 1   MSSDEIAL-------NGLNTQLVFQDDPLRSFNC--QQHRVGDPGPKTRELTGFIDDKMF 51
           M+S+E+         NGLN+QLVFQD+ LR FNC   Q RVGDPGPKTREL+ FID+KMF
Sbjct: 1   MASEEVGFVPPQRLENGLNSQLVFQDEALR-FNCGAPQRRVGDPGPKTRELSSFIDEKMF 59

Query: 52  SVDRDRYFRPQ-----PTMFTEHHPERRDPPQAREWSGNATSPSTDESDGEDDDVDDDED 106
            V+RDRYF PQ      +++ +  PER   P  R W+GN  +P+      E ++ DD+E+
Sbjct: 60  CVERDRYFHPQGGEFRRSIYGDAPPER---PDGRNWNGNGNTPTPSGEGSEGEEDDDEEE 116

Query: 107 DDDVDEAEKNNNHNSNSNVTNCNNNNNSTNCGILTAGVEKMGNGKAKNQLNFGK------ 160
           +DD DE ++ +         +  N +N+ + G L +  +K+GNGKAK+  +FG       
Sbjct: 117 EDDDDEVDEGDGEVEGLVAVDDANKSNNHSSGSLHSSADKIGNGKAKDHSSFGSNRDVLM 176

Query: 161 ------------IGNAGQNVNNGAI------VTVAEADSDVYYSQYLQQGTEGSSGSGQK 202
                         +  +N   G I      VT+AE D D+YYSQ+LQ G EGS+  GQK
Sbjct: 177 KDGAIVLSTNSARASPSENHRQGRISHYQNAVTIAEPDGDMYYSQFLQ-GPEGSA-PGQK 234

Query: 203 ECVAVDNGCGISG---------SGDSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHV 253
           E +AV+NGCG SG         SG+SL+AILSDP+TG LMDDAMILPCGHSFG  G+QHV
Sbjct: 235 E-LAVENGCGFSGRKDVSLSTESGESLKAILSDPLTGALMDDAMILPCGHSFGGGGMQHV 293

Query: 254 IRMKACYTCSRPVLEDSIAPNL 275
           I+MKAC TCS+P  EDS+ PNL
Sbjct: 294 IKMKACSTCSQPFSEDSVQPNL 315

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225448699|ref|XP_002275253.1| PREDICTED: U-box domain-containing protein 62-like [Vitis vinifera]

 Score =  236 bits (602), Expect = 9e-60,   Method: Compositional matrix adjust.
 Identities = 152/322 (47%), Positives = 199/322 (61%), Gaps = 54/322 (16%)

Query: 1   MSSDEIAL-------NGLNTQLVFQDDPLRSFNC--QQHRVGDPGPKTRELTGFIDDKMF 51
           M+S+E+         NGLN+QLVFQD+ LR FNC   Q RVGDPGPKTREL+ FID+KMF
Sbjct: 1   MASEEVGFVPPQRLENGLNSQLVFQDEALR-FNCGAPQRRVGDPGPKTRELSSFIDEKMF 59

Query: 52  SVDRDRYFRPQ-----PTMFTEHHPERRDPPQAREWSGNATSPSTDESDGEDDDVDDDED 106
            V+RDRYF PQ      +++ +  PER   P  R W+GN  +P+      E ++ DD+E+
Sbjct: 60  CVERDRYFHPQGGEFRRSIYGDAPPER---PDGRNWNGNGNTPTPSGEGSEGEEDDDEEE 116

Query: 107 DDDVDEAEKNNNHNSNSNVTNCNNNNNSTNCGILTAGVEKMGNGKAKNQLNFGK------ 160
           +DD DE ++ +         +  N +N+ + G L +  +K+GNGKAK+  +FG       
Sbjct: 117 EDDDDEVDEGDGEVEGLVAVDDANKSNNHSSGSLHSSADKIGNGKAKDHSSFGSNRDVLM 176

Query: 161 ------------IGNAGQNVNNGAI------VTVAEADSDVYYSQYLQQGTEGSSGSGQK 202
                         +  +N   G I      VT+AE D D+YYSQ+LQ G EGS+  GQK
Sbjct: 177 KDGAIVLSTNSARASPSENHRQGRISHYQNAVTIAEPDGDMYYSQFLQ-GPEGSA-PGQK 234

Query: 203 ECVAVDNGCGISG---------SGDSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHV 253
           E +AV+NGCG SG         SG+SL+AILSDP+TG LMDDAMILPCGHSFG  G+QHV
Sbjct: 235 E-LAVENGCGFSGRKDVSLSTESGESLKAILSDPLTGALMDDAMILPCGHSFGGGGMQHV 293

Query: 254 IRMKACYTCSRPVLEDSIAPNL 275
           I+MKAC TCS+P  EDS+ PNL
Sbjct: 294 IKMKACSTCSQPFSEDSVQPNL 315

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356507514|ref|XP_003522509.1| PREDICTED: U-box domain-containing protein 62-like [Glycine max]

 Score =  195 bits (495), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 140/311 (45%), Positives = 173/311 (55%), Gaps = 45/311 (14%)

Query: 1   MSSDEIAL-------NGLNTQLVFQDDPLRSFNC---QQHRVGDPGPKTRELTGFIDDKM 50
           MSS++I L       NGLN+ LVFQDDPLR FNC    Q RVGDP PKTREL  FIDD  
Sbjct: 1   MSSEDITLVPDQRIENGLNSPLVFQDDPLR-FNCPTPHQRRVGDPPPKTRELGAFIDDNK 59

Query: 51  FSVDRDRYFRP-QPTMFTEHH--PERRDPPQAREWSGNATSPSTDESDGEDD-------D 100
             +DRDR+F   Q   F  +     RRDPP AR WS       +D+ D +DD       +
Sbjct: 60  MFIDRDRFFAAAQNPEFRRYADCSARRDPPHARNWSATDDDEESDDDDEDDDDDEADDTE 119

Query: 101 VDDDEDDDDVDEAEKNNNHNSNSNVTNCNNNNNSTNCGILTAGVEKM-GNGKAKNQLNFG 159
           V     D    E   NNN+N  +N+    N    +      +G E +  +G    QL   
Sbjct: 120 VGGLVGDGTKSELNNNNNNNGGANLPAVANGKAHS----YVSGRELLVKDGGDIGQLVHS 175

Query: 160 KIGNAGQNVNNGAI------VTVAEADSDVYYSQYLQQGTEGSSGSGQKECVAVDNGCGI 213
            +    ++     +      VTVAE D + YYS YL  G EG+SG   ++ +  D+GCG 
Sbjct: 176 NVSGGDEDHRQEGLGKSQNSVTVAETDCEEYYSHYLH-GGEGASG---QKVMVDDSGCGF 231

Query: 214 SG---------SGDSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIRMKACYTCSR 264
           SG         SG+SLRAILSDPVTG LMDDAMILPCGHSFG  G++H IRMKAC TCS+
Sbjct: 232 SGRKDAMYSSESGESLRAILSDPVTGALMDDAMILPCGHSFGGGGIEHAIRMKACCTCSQ 291

Query: 265 PVLEDSIAPNL 275
           P  E+SI+PNL
Sbjct: 292 PTTEESISPNL 302

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356518698|ref|XP_003528015.1| PREDICTED: U-box domain-containing protein 62-like [Glycine max]

 Score =  191 bits (484), Expect = 4e-46,   Method: Compositional matrix adjust.
 Identities = 145/320 (45%), Positives = 180/320 (56%), Gaps = 61/320 (19%)

Query: 1   MSSDEIAL-------NGLNTQLVFQDDPLRSFNC---QQHRVGDPGPKTRELTGFIDDKM 50
           MSS++I L       NGLN+ LVFQDDPLR FNC      RVGDP PKTREL  FIDD  
Sbjct: 1   MSSEDITLVPDQRIENGLNSPLVFQDDPLR-FNCPTPHHRRVGDPPPKTRELGSFIDDNK 59

Query: 51  FSVDRDRYFRPQPTMFTEHHPE---------RRDPPQAREWSGNATSPSTDESDGEDDDV 101
             +DRDR+F         H+PE         RRDP   R W+ N ++  T++ D +DDD 
Sbjct: 60  MFIDRDRFFA------AAHNPEFRRYADCSARRDP---RNWNTNGSA--TEDDDSDDDDE 108

Query: 102 DDDEDDDDVDEAEKNNNHNSNSNVTNCNNNNNSTNCGILTAGVEKMGNGKAKNQLNFGKI 161
           DDD+D++D  E E      + S +   NNN       +      K  +  A  QL     
Sbjct: 109 DDDDDEEDDTEVEGLVGDGTKSELKINNNNGAGGGGNLPAVANGKAHSYVAGRQLLVKDG 168

Query: 162 GNAGQNVNNGAI-----------------VTVAEADSDVYYSQYLQQGTEGSSGSGQKEC 204
           G+ GQ V++                    VTVAE D + YYS +LQ G EG+SG   ++ 
Sbjct: 169 GDIGQLVHSNVSGGDEDHRQEGLGKSQNSVTVAETDCEEYYSHFLQ-GGEGASG---QKV 224

Query: 205 VAVDNGCGISG---------SGDSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIR 255
           +  D+GCG SG         SG+SLRAILSDPVTG LMDDA+ILPCGHSFG  G+QHVIR
Sbjct: 225 MVDDSGCGFSGRKDAMYSSESGESLRAILSDPVTGALMDDAVILPCGHSFGGGGIQHVIR 284

Query: 256 MKACYTCSRPVLEDSIAPNL 275
           MKAC TCS+P  E+SI+PNL
Sbjct: 285 MKACCTCSQPTTEESISPNL 304

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449460185|ref|XP_004147826.1| PREDICTED: U-box domain-containing protein 62-like [Cucumis sativus] gi|449476988|ref|XP_004154895.1| PREDICTED: U-box domain-containing protein 62-like [Cucumis sativus]

 Score =  186 bits (472), Expect = 1e-44,   Method: Compositional matrix adjust.
 Identities = 144/320 (45%), Positives = 193/320 (60%), Gaps = 62/320 (19%)

Query: 1   MSSDEIALNGLNTQLVFQDDPLRSFNCQ---QHRVGDPGPKTRELTGFIDDKMFS-VDRD 56
           MSS++I  NGL++ LVFQ++ L  FNC      R+ DP PKTREL GF+DDK+F  VDRD
Sbjct: 1   MSSEDI--NGLDSHLVFQNESL-PFNCSSTPHRRLPDPPPKTRELCGFMDDKLFPIVDRD 57

Query: 57  RYFRPQPTMFTEHHPERRDPPQAREWSGNATSPSTDESDGEDDDVDDDEDD--------- 107
           R+F  Q   F      R      R W+G+A + S   SD EDDD DDD++D         
Sbjct: 58  RFFSQQGEDF-----RRNVFGHNRNWNGSARTGSGKGSDEEDDDDDDDDEDEVDDGDDDV 112

Query: 108 ------DDVDEAEKNNNHNSNSNVTNCNNNNNSTNCGILTAGVEKMGNGKAKNQLNF--- 158
                 DDV++  K       +N  + NN+ +  +   L  G+ K+GNGK K   +F   
Sbjct: 113 EGLVSLDDVNKCSKT------ANPIDSNNDRSDQSSEGLKNGINKLGNGKLKQHSSFCGT 166

Query: 159 -----GKIGNAG--QNVNN--GAI------VTVAEADSDVYYSQYLQQGTEGSSGSGQKE 203
                  +G++G  Q+ NN  G +      VTVAE DS+ YYSQYLQ   EGS+ SGQK 
Sbjct: 167 LLVKDAFVGSSGATQSENNPQGRLGNYPNAVTVAEPDSEAYYSQYLQS-NEGSA-SGQKN 224

Query: 204 CVAVDNGCGI-------SGS-GDSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIR 255
            ++++NGCG        SG  G+SLR+IL+DPVTG LM+DAMILPCGHSFG+ G+QHV++
Sbjct: 225 -LSMENGCGFGRRDVSFSGEPGESLRSILTDPVTGALMNDAMILPCGHSFGSGGIQHVLK 283

Query: 256 MKACYTCSRPVLEDSIAPNL 275
           +++CY+CS+ V EDSIA NL
Sbjct: 284 VRSCYSCSQSVSEDSIAQNL 303

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297736483|emb|CBI25354.3| unnamed protein product [Vitis vinifera]

 Score =  174 bits (441), Expect = 4e-41,   Method: Compositional matrix adjust.
 Identities = 117/264 (44%), Positives = 157/264 (59%), Gaps = 44/264 (16%)

Query: 50  MFSVDRDRYFRPQ-----PTMFTEHHPERRDPPQAREWSGNATSPSTDESDGEDDDVDDD 104
           MF V+RDRYF PQ      +++ +  PER   P  R W+GN  +P+      E ++ DD+
Sbjct: 1   MFCVERDRYFHPQGGEFRRSIYGDAPPER---PDGRNWNGNGNTPTPSGEGSEGEEDDDE 57

Query: 105 EDDDDVDEAEKNNNHNSNSNVTNCNNNNNSTNCGILTAGVEKMGNGKAKNQLNFGK---- 160
           E++DD DE ++ +         +  N +N+ + G L +  +K+GNGKAK+  +FG     
Sbjct: 58  EEEDDDDEVDEGDGEVEGLVAVDDANKSNNHSSGSLHSSADKIGNGKAKDHSSFGSNRDV 117

Query: 161 --------------IGNAGQNVNNGAI------VTVAEADSDVYYSQYLQQGTEGSSGSG 200
                           +  +N   G I      VT+AE D D+YYSQ+LQ G EGS+  G
Sbjct: 118 LMKDGAIVLSTNSARASPSENHRQGRISHYQNAVTIAEPDGDMYYSQFLQ-GPEGSA-PG 175

Query: 201 QKECVAVDNGCGISG---------SGDSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQ 251
           QKE +AV+NGCG SG         SG+SL+AILSDP+TG LMDDAMILPCGHSFG  G+Q
Sbjct: 176 QKE-LAVENGCGFSGRKDVSLSTESGESLKAILSDPLTGALMDDAMILPCGHSFGGGGMQ 234

Query: 252 HVIRMKACYTCSRPVLEDSIAPNL 275
           HVI+MKAC TCS+P  EDS+ PNL
Sbjct: 235 HVIKMKACSTCSQPFSEDSVQPNL 258

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388522335|gb|AFK49229.1| unknown [Medicago truncatula]

 Score =  166 bits (419), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 140/319 (43%), Positives = 174/319 (54%), Gaps = 61/319 (19%)

Query: 1   MSSDEIAL-------NGLNTQLVFQDDPLRSFNC---QQHRVGDPGPKTRELTGFIDDKM 50
           MSSD+I L       NGL + LVF D  LR FNC      +VGDP PKT    GFIDDKM
Sbjct: 1   MSSDDINLTPDQRIENGLTSPLVFPDHSLR-FNCGGAPPRQVGDPVPKT---GGFIDDKM 56

Query: 51  FSVDRDRYFRPQPTMFTEH-HPERRDPPQAREWSGNATSPSTDESDGEDDDVDDDEDDDD 109
           F+V+RD++F  Q T F  +   +R +P     WS    +PS+++SDGEDD+ DD++DD  
Sbjct: 57  FTVNRDQFFPSQGTEFRRNVFSDRGNPSDVLNWS--EGTPSSNDSDGEDDEGDDEDDDGG 114

Query: 110 VDEAEKNNNHNSNSNVTNCNNNNNSTNCGILTAGVEKMGNGKAKNQLN---------FGK 160
               ++         V   + +  S+N  I             K+QL+          GK
Sbjct: 115 DTVVDRL--------VGVGDGSKRSSNSIIDVNNNNGGNVTNRKSQLHSAYVSGREIMGK 166

Query: 161 IGNAGQNVNNGAIVTV---------------AEADSDVYYSQYLQQGTEGSSGSGQKECV 205
            G   Q V+N A                   +  D + YYS YLQ GTEGS  S QK  V
Sbjct: 167 DGEIVQLVHNNASGATMGGDDQRERLGKNHNSVTDCEEYYSHYLQ-GTEGSP-SVQKVMV 224

Query: 206 AVDNGCGISG---------SGDSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIRM 256
             D+GCG SG         SG+SLRAILSDPV+G LMDDAMILPCGHSFG  G+QHVIRM
Sbjct: 225 D-DDGCGFSGRKDFVYSSESGESLRAILSDPVSGTLMDDAMILPCGHSFGGGGIQHVIRM 283

Query: 257 KACYTCSRPVLEDSIAPNL 275
           KAC TCS+  LE+SI+PNL
Sbjct: 284 KACCTCSQATLEESISPNL 302

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449457472|ref|XP_004146472.1| PREDICTED: U-box domain-containing protein 62-like [Cucumis sativus]

 Score =  153 bits (387), Expect = 7e-35,   Method: Compositional matrix adjust.
 Identities = 118/261 (45%), Positives = 158/261 (60%), Gaps = 39/261 (14%)

Query: 46  IDDKMF-SVDRDRYFRPQPTMFTEHHPERRDPPQAREWSGNATSPSTDESDGEDDDVDDD 104
           +DDK+F +VDRDR+F  Q   F      R      R W+G A + S + SD E+++ DDD
Sbjct: 1   MDDKLFPAVDRDRFFSQQGEDF-----RRNVFGHNRNWNGTARTGSEEGSDEEEEEDDDD 55

Query: 105 EDDDDVDEAEKNNNHNSNSNVTNC---------NNNNNSTNCGILTAGVEKMGNGKAKNQ 155
           ++D+  D  +      S  +V  C         NN+ +  + G L  G +K+GNGK K  
Sbjct: 56  DEDEVDDGDDGVKGLVSLDDVNKCSKTANPICSNNDRSDQSSGGLKNGTDKLGNGKRKQH 115

Query: 156 LNFGKIGNAG-----QNVNN--GAI------VTVAEADSDVYYSQYLQQGTEGSSGSGQK 202
            +F K   AG     Q+ NN  G +      VT AE DS+ YYSQYLQ   EGS+ S QK
Sbjct: 116 SSFVKDALAGSSGVTQSENNPQGRLGNYPNAVTAAEPDSEAYYSQYLQ-SNEGSA-SEQK 173

Query: 203 ECVAVDNGCG-----ISGSGD---SLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVI 254
           + ++++NGCG     +S SG+   SLRAIL+DPVTG LMDDAMILPCGHSFG+ G+QHV+
Sbjct: 174 D-LSIENGCGFGRRDVSFSGEPRESLRAILTDPVTGALMDDAMILPCGHSFGSGGIQHVL 232

Query: 255 RMKACYTCSRPVLEDSIAPNL 275
           R+K+CY+CS+ V EDSIA NL
Sbjct: 233 RLKSCYSCSQSVSEDSIAQNL 253

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449524615|ref|XP_004169317.1| PREDICTED: U-box domain-containing protein 62-like [Cucumis sativus]

 Score =  152 bits (383), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 122/262 (46%), Positives = 165/262 (62%), Gaps = 40/262 (15%)

Query: 46  IDDKMF-SVDRDRYFRPQPTMFTEHHPERRDPPQAREWSGNATSPSTDESDGEDDDVDDD 104
           +DDK+F +VDRDR+F  Q   F      R      R W+G A + S + SD E+++ DDD
Sbjct: 1   MDDKLFPAVDRDRFFSQQGEDF-----RRNVFGHNRNWNGTARTGSEEGSDEEEEEDDDD 55

Query: 105 EDDDDVDEAEKN-------NNHNSNSNVTN--CNNNNNS-TNCGILTAGVEKMGNGKAKN 154
           +D+D+VD+ +         ++ N  S + N  C+NN+ S  + G L  G +K+GNGK K 
Sbjct: 56  DDEDEVDDGDDGVKGLVSLDDVNKCSKIANPICSNNDRSDQSSGGLKNGTDKLGNGKRKQ 115

Query: 155 QLNFGKIGNAG-----QNVNN--GAI------VTVAEADSDVYYSQYLQQGTEGSSGSGQ 201
             +F K   AG     Q+ NN  G +      VT AE DS+ YYSQYLQ   EGS+ S Q
Sbjct: 116 HSSFVKDALAGSSGVTQSENNPQGRLGNYPNAVTAAEPDSEAYYSQYLQ-SNEGSA-SEQ 173

Query: 202 KECVAVDNGCG-----ISGSGD---SLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHV 253
           K+ ++++NGCG     +S SG+   SLRAIL+DPVTG LMDDAMILPCGHSFG+ G+QHV
Sbjct: 174 KD-LSIENGCGFGRRDVSFSGEPRESLRAILTDPVTGALMDDAMILPCGHSFGSGGIQHV 232

Query: 254 IRMKACYTCSRPVLEDSIAPNL 275
           +R+K+CY+CS+ V EDSIA NL
Sbjct: 233 LRLKSCYSCSQSVSEDSIAQNL 254

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255559723|ref|XP_002520881.1| conserved hypothetical protein [Ricinus communis] gi|223540012|gb|EEF41590.1| conserved hypothetical protein [Ricinus communis]

 Score =  134 bits (336), Expect = 6e-29,   Method: Compositional matrix adjust.
 Identities = 68/108 (62%), Positives = 81/108 (75%), Gaps = 13/108 (12%)

Query: 178 EADSDVYYSQYLQQGTEGSSGSGQKECVAVDNGCGISGSGDS----------LRAILSDP 227
           EAD ++YYSQYLQ   EGS G+G K+ +A++NGCG SG  ++          LRAILSDP
Sbjct: 164 EADGEIYYSQYLQ-ANEGS-GNGGKD-MALENGCGFSGRKEASSFSSDSGDSLRAILSDP 220

Query: 228 VTGNLMDDAMILPCGHSFGAAGVQHVIRMKACYTCSRPVLEDSIAPNL 275
           VTG LMDDAMILPCGHSFG  G+QH+IR KACYTCS+   EDS+APNL
Sbjct: 221 VTGALMDDAMILPCGHSFGVGGIQHIIRTKACYTCSQSTTEDSVAPNL 268

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

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	275
TAIR|locus:2153484	363	AT5G05230 [Arabidopsis thalian	0.429	0.325	0.488	1.1e-31
TAIR|locus:2061823	383	AT2G40640 "AT2G40640" [Arabido	0.352	0.253	0.5	2.2e-21
TAIR|locus:504955744	554	AT3G19895 "AT3G19895" [Arabido	0.203	0.101	0.428	3.1e-08

TAIR|locus:2153484 AT5G05230 [Arabidopsis thaliana (taxid:3702)]

 Score = 293 (108.2 bits), Expect = 1.1e-31, Sum P(2) = 1.1e-31
 Identities = 65/133 (48%), Positives = 84/133 (63%)

Query:   157 NFGKIG---NAGQN-VNNGAIVTVAEADSDVYYSQYLQQGTEXXXXXXQKECVAVDNGCG 212
             N G IG   +AG++ V+ GA++ V + D+  YYSQ+ +          ++  +A DNGC 
Sbjct:   106 NEGDIGMNKDAGEDSVSAGAVIVVGQ-DNAAYYSQHFKTVEASFVSRNEESSIAADNGCD 164

Query:   213 ISGSGD----------SLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIRMKACYTC 262
              SG  D          SLR ILSDP TG+LM DAMILPCGH+FGA G++ V +MKAC TC
Sbjct:   165 FSGRRDLSSSSSNSIESLRTILSDPTTGSLMADAMILPCGHTFGAGGIEQVKQMKACCTC 224

Query:   263 SRPVLEDSIAPNL 275
             S+PV EDSI PNL
Sbjct:   225 SQPVSEDSITPNL 237

GO:0000151 "ubiquitin ligase complex" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISM

GO:0016567 "protein ubiquitination" evidence=IEA

TAIR|locus:2061823 AT2G40640 "AT2G40640" [Arabidopsis thaliana (taxid:3702)]

 Score = 222 (83.2 bits), Expect = 2.2e-21, Sum P(2) = 2.2e-21
 Identities = 51/102 (50%), Positives = 66/102 (64%)

Query:   174 VTVAEADSDVYYSQYLQQGTEXXXXXXQKECVAVDNGCGISGSGDSLRAILSDPVTGNLM 233
             V + + D +V  S    Q  +      +KE V   +   +S S +SL+AILSDPVTG LM
Sbjct:   161 VRITKPDGNVSNSHRNTQ-QKRDFASVEKERVTTTS---VS-SWESLKAILSDPVTGALM 215

Query:   234 DDAMILPCGHSFGAAGVQHVIRMKACYTCSRPVLEDSIAPNL 275
             +DA ILPCGHSFGA G++ V +MKAC+TCS+P LE S  PNL
Sbjct:   216 NDATILPCGHSFGAGGLKEVKKMKACFTCSQPTLEGSEKPNL 257

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:504955744 AT3G19895 "AT3G19895" [Arabidopsis thaliana (taxid:3702)]

 Score = 147 (56.8 bits), Expect = 3.1e-08, Sum P(2) = 3.1e-08
 Identities = 24/56 (42%), Positives = 38/56 (67%)

Query:   219 SLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIRMKACYTCSRPVLEDSIAPN 274
             SLR++LSDP++G  ++DAM++ CGHSFG   ++ V+ M  C  C+  +   S+ PN
Sbjct:   369 SLRSVLSDPISGAFLEDAMVVSCGHSFGGLMLRRVLEMSRCTLCNTEIESGSLVPN 424

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

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: GSVIVG00029454001 SubName- Full=Chromosome chr13 scaffold_48, whole genome shotgun sequence; (225 aa) (Vitis vinifera)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	275
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	99.3
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	99.1
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.57
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	97.51
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	97.2
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	96.75
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	96.75
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	96.67
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	96.66
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	96.64
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	96.37
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	96.19
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	96.19
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	95.94
PF04641	260	Rtf2: Rtf2 RING-finger	95.86
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	95.8
PHA02929	238	N1R/p28-like protein; Provisional	94.95
PF14634	44	zf-RING_5: zinc-RING finger domain	94.34
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	93.93
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	93.93
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	93.66
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	93.18
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	92.71
KOG3113	293	consensus Uncharacterized conserved protein [Funct	91.85
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	91.14
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	90.21
KOG2042	943	consensus Ubiquitin fusion degradation protein-2 [	89.27
COG5152	259	Uncharacterized conserved protein, contains RING a	89.06
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	87.72
PHA02926	242	zinc finger-like protein; Provisional	87.29
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	87.22
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	85.75
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	85.68
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	84.9
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	84.56

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

Probab=99.30  E-value=8.5e-13  Score=96.35  Aligned_cols=54  Identities=28%  Similarity=0.519  Sum_probs=45.3

Q ss_pred             hhhcCcccccccccceeccCCcccCchhHHHHHhc--cccccCCCccccCCCCCCC
Q 023944          222 AILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIRM--KACYTCSRPVLEDSIAPNL  275 (275)
Q Consensus       222 aILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~m--k~C~lCs~~Ite~sL~PNl  275 (275)
                      .-|.+|||+.+|.|+||++|||+|.+..|++|++.  .+||+|.+++++..|+||.
T Consensus         3 ~~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn~   58 (73)
T PF04564_consen    3 DEFLCPITGELMRDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPNR   58 (73)
T ss_dssp             GGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-H
T ss_pred             cccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceECH
Confidence            35889999999999999999999999999999987  9999999999999999984

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 ....

>smart00504 Ubox Modified RING finger domain

Probab=99.10  E-value=4.6e-11  Score=81.75  Aligned_cols=52  Identities=21%  Similarity=0.469  Sum_probs=48.3

Q ss_pred             hcCcccccccccceeccCCcccCchhHHHHHh-ccccccCCCccccCCCCCCC
Q 023944          224 LSDPVTGNLMDDAMILPCGHSFGAAGVQHVIR-MKACYTCSRPVLEDSIAPNL  275 (275)
Q Consensus       224 LSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite~sL~PNl  275 (275)
                      |..|||+.+|+|+|+++|||+|....|+++++ ...||.|.++++..+|+||+
T Consensus         2 ~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~~~~   54 (63)
T smart00504        2 FLCPISLEVMKDPVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLIPNL   54 (63)
T ss_pred             cCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhceeCH
Confidence            67899999999999999999999999999766 77899999999999999984

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

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

Probab=97.57  E-value=3.1e-05  Score=55.96  Aligned_cols=39  Identities=28%  Similarity=0.522  Sum_probs=28.8

Q ss_pred             hhcCcccccccccceec-cCCcccCchhHHHHHh---cccccc
Q 023944          223 ILSDPVTGNLMDDAMIL-PCGHSFGAAGVQHVIR---MKACYT  261 (275)
Q Consensus       223 ILSDPlSGalMEDAMIl-~CGHSFG~~giq~Vi~---mk~C~l  261 (275)
                      -|.+|||+..|+|+|.. .|||+|....|..+++   ...||.
T Consensus        11 ~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   11 SLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             -SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             ccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            37899999999999997 6999999999999883   667887

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=97.51  E-value=4.6e-05  Score=67.25  Aligned_cols=49  Identities=20%  Similarity=0.385  Sum_probs=41.8

Q ss_pred             cccccccccceeccCCcccCchhHHHHHh-----------------ccccccCCCccccCCCCCCC
Q 023944          227 PVTGNLMDDAMILPCGHSFGAAGVQHVIR-----------------MKACYTCSRPVLEDSIAPNL  275 (275)
Q Consensus       227 PlSGalMEDAMIl~CGHSFG~~giq~Vi~-----------------mk~C~lCs~~Ite~sL~PNl  275 (275)
                      ||-...+.|++|++|||+|=..=|.+|+.                 ...||.|.++|+...|+|.|
T Consensus        22 pICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPiy   87 (193)
T PLN03208         22 NICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPIY   87 (193)
T ss_pred             ccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEee
Confidence            45555678999999999999999999864                 35899999999999999975

>TIGR00599 rad18 DNA repair protein rad18

Probab=97.20  E-value=0.00021  Score=68.36  Aligned_cols=52  Identities=17%  Similarity=0.399  Sum_probs=42.2

Q ss_pred             hcCcccccccccceeccCCcccCchhHHHHHhc-cccccCCCccccCCCCCCC
Q 023944          224 LSDPVTGNLMDDAMILPCGHSFGAAGVQHVIRM-KACYTCSRPVLEDSIAPNL  275 (275)
Q Consensus       224 LSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~m-k~C~lCs~~Ite~sL~PNl  275 (275)
                      |.=||=..++.++++++|||.|-..=|+++++. ..||+|.+++....|.+|+
T Consensus        27 l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~Lr~N~   79 (397)
T TIGR00599        27 LRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESKLRSNW   79 (397)
T ss_pred             cCCCcCchhhhCccCCCCCCchhHHHHHHHHhCCCCCCCCCCccccccCccch
Confidence            333444556678889999999999999998874 5699999999988888874

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

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

Probab=96.75  E-value=0.00094  Score=45.24  Aligned_cols=36  Identities=33%  Similarity=0.791  Sum_probs=26.4

Q ss_pred             cccccccccceeccCCcccCchhHHHHHhcc-----ccccC
Q 023944          227 PVTGNLMDDAMILPCGHSFGAAGVQHVIRMK-----ACYTC  262 (275)
Q Consensus       227 PlSGalMEDAMIl~CGHSFG~~giq~Vi~mk-----~C~lC  262 (275)
                      ||=-.++.|+|.|+|||||=..=|+++.+..     .||.|
T Consensus         2 piC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    2 PICLDLFKDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             TTTTSB-SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CccchhhCCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            4556789999999999999999999977643     68877

>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=96.75  E-value=0.00096  Score=45.23  Aligned_cols=36  Identities=33%  Similarity=0.786  Sum_probs=29.5

Q ss_pred             cccceeccCCcc-cCchhHHHHH-hccccccCCCcccc
Q 023944          233 MDDAMILPCGHS-FGAAGVQHVI-RMKACYTCSRPVLE  268 (275)
Q Consensus       233 MEDAMIl~CGHS-FG~~giq~Vi-~mk~C~lCs~~Ite  268 (275)
                      ..+++++||||. |=..=+++++ ..+.||+|.++|+.
T Consensus        12 ~~~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~   49 (50)
T PF13920_consen   12 PRDVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIES   49 (50)
T ss_dssp             BSSEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-SE
T ss_pred             CCceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhcC
Confidence            567999999999 8777777765 48999999999973

...

>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=96.67  E-value=0.0013  Score=42.86  Aligned_cols=33  Identities=27%  Similarity=0.673  Sum_probs=25.6

Q ss_pred             ccccccc-eeccCCcccCchhHHHHHh-ccccccC
Q 023944          230 GNLMDDA-MILPCGHSFGAAGVQHVIR-MKACYTC  262 (275)
Q Consensus       230 GalMEDA-MIl~CGHSFG~~giq~Vi~-mk~C~lC  262 (275)
                      -.++.++ ++++|||+|=..=|+++++ .+.||.|
T Consensus         5 ~~~~~~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    5 LDELRDPVVVTPCGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             TSB-SSEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCcccCcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence            3456678 6889999999999999777 7888887

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

Probab=96.66  E-value=0.00092  Score=46.26  Aligned_cols=30  Identities=30%  Similarity=0.704  Sum_probs=20.4

Q ss_pred             ccccccccc----ceeccCCcccCchhHHHHHhcc
Q 023944          227 PVTGNLMDD----AMILPCGHSFGAAGVQHVIRMK  257 (275)
Q Consensus       227 PlSGalMED----AMIl~CGHSFG~~giq~Vi~mk  257 (275)
                      ||+-. +.+    +|+|+|||.|-..-|+++.+.+
T Consensus         2 pIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~   35 (43)
T PF13445_consen    2 PICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKS   35 (43)
T ss_dssp             TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-
T ss_pred             Ccccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcC
Confidence            56666 566    9999999999999999988854

>smart00184 RING Ring finger

Probab=96.64  E-value=0.0016  Score=38.61  Aligned_cols=30  Identities=30%  Similarity=0.892  Sum_probs=26.0

Q ss_pred             cccceeccCCcccCchhHHHHHh--ccccccC
Q 023944          233 MDDAMILPCGHSFGAAGVQHVIR--MKACYTC  262 (275)
Q Consensus       233 MEDAMIl~CGHSFG~~giq~Vi~--mk~C~lC  262 (275)
                      ..++++++|||.|-..=++++++  ...||.|
T Consensus         8 ~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        8 LKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            67899999999999999999876  6678887

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)

>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=96.37  E-value=0.0036  Score=38.44  Aligned_cols=32  Identities=28%  Similarity=0.816  Sum_probs=25.4

Q ss_pred             cceeccCCcccCchhHHHHHhc--cccccCCCcc
Q 023944          235 DAMILPCGHSFGAAGVQHVIRM--KACYTCSRPV  266 (275)
Q Consensus       235 DAMIl~CGHSFG~~giq~Vi~m--k~C~lCs~~I  266 (275)
                      ..++.+|||.|-..=++++++.  ..||.|.+++
T Consensus        12 ~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162          12 PVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             ceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            3444559999999999998874  6799999864

>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=96.19  E-value=0.0028  Score=41.81  Aligned_cols=30  Identities=27%  Similarity=0.729  Sum_probs=25.2

Q ss_pred             cccceeccCCcccCchhHHHHHh-ccccccC
Q 023944          233 MDDAMILPCGHSFGAAGVQHVIR-MKACYTC  262 (275)
Q Consensus       233 MEDAMIl~CGHSFG~~giq~Vi~-mk~C~lC  262 (275)
                      -+.+++++|||.|-..=|+.|++ ...||+|
T Consensus        13 ~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~C   43 (44)
T PF13639_consen   13 GEKVVKLPCGHVFHRSCIKEWLKRNNSCPVC   43 (44)
T ss_dssp             TSCEEEETTSEEEEHHHHHHHHHHSSB-TTT
T ss_pred             CCeEEEccCCCeeCHHHHHHHHHhCCcCCcc
Confidence            35677889999999999999877 7889998

...

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

Probab=96.19  E-value=0.0022  Score=49.70  Aligned_cols=56  Identities=25%  Similarity=0.510  Sum_probs=43.9

Q ss_pred             hhhHhhhhcCcccccccccceeccCCcccCchhHHHHHh-ccccccCCCccccCCCCCC
Q 023944          217 GDSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIR-MKACYTCSRPVLEDSIAPN  274 (275)
Q Consensus       217 ~eSLRaILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite~sL~PN  274 (275)
                      ...+...|..||--..+.+++|++|||+|=..-|+.+.. .-.||.|.. ... .|.||
T Consensus         7 ~~~~~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~-~~~-~~~~n   63 (386)
T KOG2177|consen    7 LEVLQEELTCPICLEYFREPVLLPCGHNFCRACLTRSWEGPLSCPVCRP-PSR-NLRPN   63 (386)
T ss_pred             hhhccccccChhhHHHhhcCccccccchHhHHHHHHhcCCCcCCcccCC-chh-ccCcc
Confidence            345567788999999999999999999999999988665 568999985 222 44454

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

Probab=95.94  E-value=0.0029  Score=61.60  Aligned_cols=45  Identities=27%  Similarity=0.527  Sum_probs=39.7

Q ss_pred             ccccccceeccCCcccCchhHHHHHh-ccccccCCCccccCCCCCC
Q 023944          230 GNLMDDAMILPCGHSFGAAGVQHVIR-MKACYTCSRPVLEDSIAPN  274 (275)
Q Consensus       230 GalMEDAMIl~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite~sL~PN  274 (275)
                      -.|+.=+||.||||.|=+.-|+..++ ...||+|-.+++|..|.-|
T Consensus        30 ~eyf~ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~n   75 (442)
T KOG0287|consen   30 FEYFNIPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLRNN   75 (442)
T ss_pred             HHHhcCceeccccchHHHHHHHHHhccCCCCCceecccchhhhhhh
Confidence            45778899999999999999999666 9999999999999877654

>PF04641 Rtf2: Rtf2 RING-finger

Probab=95.86  E-value=0.0048  Score=54.56  Aligned_cols=56  Identities=29%  Similarity=0.637  Sum_probs=46.2

Q ss_pred             hhHhhhhcCccccccccc----ceeccCCcccCchhHHHHHhccccccCCCccccCCCCC
Q 023944          218 DSLRAILSDPVTGNLMDD----AMILPCGHSFGAAGVQHVIRMKACYTCSRPVLEDSIAP  273 (275)
Q Consensus       218 eSLRaILSDPlSGalMED----AMIl~CGHSFG~~giq~Vi~mk~C~lCs~~Ite~sL~P  273 (275)
                      +.....+.-|||+.-|..    +.|.||||=|....|+.+.....|+.|++|.++..|+|
T Consensus       108 ~~~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k~~~~Cp~c~~~f~~~DiI~  167 (260)
T PF04641_consen  108 DNSEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELKKSKKCPVCGKPFTEEDIIP  167 (260)
T ss_pred             ccCCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhcccccccccCCccccCCEEE
Confidence            345677889999988865    35668999999999999964568999999999887765

>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=95.80  E-value=0.0077  Score=38.71  Aligned_cols=32  Identities=31%  Similarity=0.749  Sum_probs=25.2

Q ss_pred             cccccce-eccCCcccCchhHHHHHh---ccccccC
Q 023944          231 NLMDDAM-ILPCGHSFGAAGVQHVIR---MKACYTC  262 (275)
Q Consensus       231 alMEDAM-Il~CGHSFG~~giq~Vi~---mk~C~lC  262 (275)
                      ..+++++ +++|||+|-..=|+++++   ...||+|
T Consensus         6 ~~~~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    6 EPFEDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             SBCSSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             ccccCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            3445555 999999999999999776   5668877

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 ....

>PHA02929 N1R/p28-like protein; Provisional

Probab=94.95  E-value=0.013  Score=52.87  Aligned_cols=32  Identities=19%  Similarity=0.539  Sum_probs=28.6

Q ss_pred             ceeccCCcccCchhHHHHHh-ccccccCCCccc
Q 023944          236 AMILPCGHSFGAAGVQHVIR-MKACYTCSRPVL  267 (275)
Q Consensus       236 AMIl~CGHSFG~~giq~Vi~-mk~C~lCs~~It  267 (275)
                      +++.+|||.|=..=|.+|++ ...||+|.+++.
T Consensus       195 ~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~  227 (238)
T PHA02929        195 GILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI  227 (238)
T ss_pred             eecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence            57788999999999999887 678999999886

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=94.34  E-value=0.022  Score=38.11  Aligned_cols=29  Identities=21%  Similarity=0.575  Sum_probs=24.6

Q ss_pred             ceeccCCcccCchhHHHHH-hccccccCCC
Q 023944          236 AMILPCGHSFGAAGVQHVI-RMKACYTCSR  264 (275)
Q Consensus       236 AMIl~CGHSFG~~giq~Vi-~mk~C~lCs~  264 (275)
                      ++|++|||+|=..=|+.+. ....||+|.+
T Consensus        15 ~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen   15 PRLTSCGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             eEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            7899999999888887776 5679999975

>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=93.93  E-value=0.032  Score=41.32  Aligned_cols=27  Identities=26%  Similarity=0.627  Sum_probs=22.6

Q ss_pred             eeccCCcccCchhHHHHHh-ccccccCC
Q 023944          237 MILPCGHSFGAAGVQHVIR-MKACYTCS  263 (275)
Q Consensus       237 MIl~CGHSFG~~giq~Vi~-mk~C~lCs  263 (275)
                      ++.+|||.|...=|++|++ ..+||+|.
T Consensus        46 ~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   46 VWGPCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             EEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             EecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            5567999999999999887 77999994

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=93.93  E-value=0.037  Score=52.13  Aligned_cols=38  Identities=21%  Similarity=0.510  Sum_probs=31.3

Q ss_pred             ceeccCCcccCchhHHHHHh--ccccccCCCccccCCCCC
Q 023944          236 AMILPCGHSFGAAGVQHVIR--MKACYTCSRPVLEDSIAP  273 (275)
Q Consensus       236 AMIl~CGHSFG~~giq~Vi~--mk~C~lCs~~Ite~sL~P  273 (275)
                      .||.+|||+|=..=|.++..  ...||.|.+++....+.|
T Consensus        21 l~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr~   60 (309)
T TIGR00570        21 LMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFRV   60 (309)
T ss_pred             cccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhhccc
Confidence            46778999999999999654  568999999999877544

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).

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

Probab=93.66  E-value=0.026  Score=58.02  Aligned_cols=56  Identities=23%  Similarity=0.422  Sum_probs=47.0

Q ss_pred             hhHhhhhcCcccccccccceeccCCcccCchhHHHHHh--ccccccCCCccccCCCCC
Q 023944          218 DSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIR--MKACYTCSRPVLEDSIAP  273 (275)
Q Consensus       218 eSLRaILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~--mk~C~lCs~~Ite~sL~P  273 (275)
                      .-+|.+|.=|+=-.=--|++|+.|||=|=-.=|+.-++  +..||+|+.+...-.+.|
T Consensus       638 k~yK~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~~  695 (698)
T KOG0978|consen  638 KEYKELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVHR  695 (698)
T ss_pred             HHHHhceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccccc
Confidence            34677777777777778999999999999999999665  899999999998766655

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

Probab=93.18  E-value=0.063  Score=41.16  Aligned_cols=55  Identities=20%  Similarity=0.437  Sum_probs=30.0

Q ss_pred             hHhhhhcCcccccccccce-eccCCcccCchhHHHHHhccccccCCCccccCCCCCC
Q 023944          219 SLRAILSDPVTGNLMDDAM-ILPCGHSFGAAGVQHVIRMKACYTCSRPVLEDSIAPN  274 (275)
Q Consensus       219 SLRaILSDPlSGalMEDAM-Il~CGHSFG~~giq~Vi~mk~C~lCs~~Ite~sL~PN  274 (275)
                      -|+++|.=+.-..+|..++ +-.|.|.|=+.=|.+-+.. .||.|+.|..+..+.=|
T Consensus         3 ~le~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~-~CPvC~~Paw~qD~~~N   58 (65)
T PF14835_consen    3 RLEELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGS-ECPVCHTPAWIQDIQIN   58 (65)
T ss_dssp             HHHHTTS-SSS-S--SS-B---SSS--B-TTTGGGGTTT-B-SSS--B-S-SS----
T ss_pred             HHHHhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcCC-CCCCcCChHHHHHHHhh
Confidence            4778888888999999996 5669999999999886665 49999999988877543

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

Probab=92.71  E-value=0.061  Score=49.20  Aligned_cols=45  Identities=27%  Similarity=0.520  Sum_probs=39.6

Q ss_pred             cccccceeccCCcccCchhHHHHHh----ccccccCCCccccCCCCCCC
Q 023944          231 NLMDDAMILPCGHSFGAAGVQHVIR----MKACYTCSRPVLEDSIAPNL  275 (275)
Q Consensus       231 alMEDAMIl~CGHSFG~~giq~Vi~----mk~C~lCs~~Ite~sL~PNl  275 (275)
                      .+-+|+||..|||=|==.=|-+|+.    .+-||.|+..|+.+.|+|=|
T Consensus        55 d~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlY  103 (230)
T KOG0823|consen   55 DLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLY  103 (230)
T ss_pred             cccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEeee
Confidence            4568999999999999888999887    56789999999999999854

>KOG3113 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.85  E-value=0.099  Score=49.33  Aligned_cols=57  Identities=26%  Similarity=0.464  Sum_probs=47.4

Q ss_pred             ChhhHhhhhcCccccccccc----ceeccCCcccCchhHHHHHhccccccCCCccccCCCCC
Q 023944          216 SGDSLRAILSDPVTGNLMDD----AMILPCGHSFGAAGVQHVIRMKACYTCSRPVLEDSIAP  273 (275)
Q Consensus       216 s~eSLRaILSDPlSGalMED----AMIl~CGHSFG~~giq~Vi~mk~C~lCs~~Ite~sL~P  273 (275)
                      +-+--++-+.=||||--|.+    +.|.+|||=|..--|+.|. .+.|..|+++..++.+++
T Consensus       104 ~~D~~~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik-as~C~~C~a~y~~~dvIv  164 (293)
T KOG3113|consen  104 HDDTQRARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK-ASVCHVCGAAYQEDDVIV  164 (293)
T ss_pred             ccccccceeecccccceecceEEEEEEeccceeccHHHHHHhh-hccccccCCcccccCeEe
Confidence            34444667788999999988    5788999999999999887 789999999999877654

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

Probab=91.14  E-value=0.095  Score=46.94  Aligned_cols=36  Identities=19%  Similarity=0.549  Sum_probs=32.1

Q ss_pred             ccCCcccCchhHHHHHh-ccccccCCCccccCCCCCC
Q 023944          239 LPCGHSFGAAGVQHVIR-MKACYTCSRPVLEDSIAPN  274 (275)
Q Consensus       239 l~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite~sL~PN  274 (275)
                      ..|||=|=..=|+.+++ +-.||+|++-|+...++|=
T Consensus       149 TkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~~~rI  185 (187)
T KOG0320|consen  149 TKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQFHRI  185 (187)
T ss_pred             cccchhHHHHHHHHHHHhCCCCCCcccccchhhheec
Confidence            56999999999999777 8899999999999988763

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

Probab=90.21  E-value=0.16  Score=50.31  Aligned_cols=29  Identities=34%  Similarity=0.794  Sum_probs=26.7

Q ss_pred             eccCCcccCchhHHHHHh-ccccccCCCcc
Q 023944          238 ILPCGHSFGAAGVQHVIR-MKACYTCSRPV  266 (275)
Q Consensus       238 Il~CGHSFG~~giq~Vi~-mk~C~lCs~~I  266 (275)
                      =|||||=|==.-|+-|+| +++||+|..|+
T Consensus       315 rLpCGHilHl~CLknW~ERqQTCPICr~p~  344 (491)
T COG5243         315 RLPCGHILHLHCLKNWLERQQTCPICRRPV  344 (491)
T ss_pred             cccccceeeHHHHHHHHHhccCCCcccCcc
Confidence            478999999999999998 99999999995

>KOG2042 consensus Ubiquitin fusion degradation protein-2 [Posttranslational modification, protein turnover, chaperones]

Probab=89.27  E-value=0.27  Score=52.28  Aligned_cols=51  Identities=24%  Similarity=0.443  Sum_probs=47.6

Q ss_pred             hcCcccccccccceecc-CCcccCchhHHH-HHhccccccCCCccccCCCCCC
Q 023944          224 LSDPVTGNLMDDAMILP-CGHSFGAAGVQH-VIRMKACYTCSRPVLEDSIAPN  274 (275)
Q Consensus       224 LSDPlSGalMEDAMIl~-CGHSFG~~giq~-Vi~mk~C~lCs~~Ite~sL~PN  274 (275)
                      .-|||++++|-|.+++| =|+...+..|++ .+...+=|-|-+|++++.++||
T Consensus       871 f~DPlm~Tlm~dPV~LP~Srv~vDRsti~rhlLs~~tdPFNR~pLt~d~v~pn  923 (943)
T KOG2042|consen  871 FLDPLMSTLMSDPVVLPSSRVTVDRSTIERHLLSDCTDPFNREPLTEDMVSPN  923 (943)
T ss_pred             hhCccccccCCCCccCCcccccccHHHHHHHHhcCCCCccccccCchhhcCCC
Confidence            45999999999999999 999999999998 6668888999999999999998

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

Probab=89.06  E-value=0.12  Score=47.76  Aligned_cols=34  Identities=21%  Similarity=0.610  Sum_probs=27.0

Q ss_pred             cccceeccCCcccCch-hHHHHHhccccccCCCcc
Q 023944          233 MDDAMILPCGHSFGAA-GVQHVIRMKACYTCSRPV  266 (275)
Q Consensus       233 MEDAMIl~CGHSFG~~-giq~Vi~mk~C~lCs~~I  266 (275)
                      .+.+++..|||||=+. -|++......|..|++.+
T Consensus       206 y~spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t  240 (259)
T COG5152         206 YESPVVTECGHSFCSLCAIRKYQKGDECGVCGKAT  240 (259)
T ss_pred             ccchhhhhcchhHHHHHHHHHhccCCcceecchhh
Confidence            3567788899999765 466677789999999875

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

Probab=87.72  E-value=0.28  Score=47.72  Aligned_cols=32  Identities=28%  Similarity=0.623  Sum_probs=28.6

Q ss_pred             ceeccCCcccCchhHHHHHh-ccccccCCCccc
Q 023944          236 AMILPCGHSFGAAGVQHVIR-MKACYTCSRPVL  267 (275)
Q Consensus       236 AMIl~CGHSFG~~giq~Vi~-mk~C~lCs~~It  267 (275)
                      +-+++|||-|-..-|+.|.| .++||+|...+.
T Consensus       309 ~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~  341 (543)
T KOG0802|consen  309 PKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLY  341 (543)
T ss_pred             cceeecccchHHHHHHHHHHHhCcCCcchhhhh
Confidence            67899999999999999888 999999998544

>PHA02926 zinc finger-like protein; Provisional

Probab=87.29  E-value=0.34  Score=44.93  Aligned_cols=35  Identities=20%  Similarity=0.413  Sum_probs=28.9

Q ss_pred             eeccCCcccCchhHHHHHhcc-------ccccCCCccccCCCCC
Q 023944          237 MILPCGHSFGAAGVQHVIRMK-------ACYTCSRPVLEDSIAP  273 (275)
Q Consensus       237 MIl~CGHSFG~~giq~Vi~mk-------~C~lCs~~Ite~sL~P  273 (275)
                      ++.+|+|+|=-.=|++|.+.+       .||+|-+++.  .++|
T Consensus       193 IL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~--~I~p  234 (242)
T PHA02926        193 LLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR--NITM  234 (242)
T ss_pred             ccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee--eecc
Confidence            566899999999999999853       4999999876  5555

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

Probab=87.22  E-value=0.18  Score=48.04  Aligned_cols=46  Identities=20%  Similarity=0.444  Sum_probs=36.2

Q ss_pred             hhhcCccc--------ccccccceeccCCcccC-chhHHHHHhccccccCCCccc
Q 023944          222 AILSDPVT--------GNLMDDAMILPCGHSFG-AAGVQHVIRMKACYTCSRPVL  267 (275)
Q Consensus       222 aILSDPlS--------GalMEDAMIl~CGHSFG-~~giq~Vi~mk~C~lCs~~It  267 (275)
                      .|..|+-.        .....+.|+..|||.|= .-.|++..+...|++|++.+-
T Consensus       232 ~~~~D~~~~Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~  286 (313)
T KOG1813|consen  232 VKIEDIELLPFKCFICRKYFYRPVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTH  286 (313)
T ss_pred             eecCCcccCCccccccccccccchhhcCCceeehhhhccccccCCcceecccccc
Confidence            66676544        45567889999999995 446777888899999999874

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=85.75  E-value=0.45  Score=35.52  Aligned_cols=35  Identities=29%  Similarity=0.517  Sum_probs=26.4

Q ss_pred             ceeccCCcccCchhHHHHHhccccccCCCccccCCC
Q 023944          236 AMILPCGHSFGAAGVQHVIRMKACYTCSRPVLEDSI  271 (275)
Q Consensus       236 AMIl~CGHSFG~~giq~Vi~mk~C~lCs~~Ite~sL  271 (275)
                      -+++||||-.=...-. .-+-..||.|+++++.+++
T Consensus        20 ~~~~pCgH~I~~~~f~-~~rYngCPfC~~~~~~~~~   54 (55)
T PF14447_consen   20 GTVLPCGHLICDNCFP-GERYNGCPFCGTPFEFDDP   54 (55)
T ss_pred             cccccccceeeccccC-hhhccCCCCCCCcccCCCC
Confidence            4689999975444432 3467899999999998875

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

Probab=85.68  E-value=0.57  Score=45.01  Aligned_cols=37  Identities=30%  Similarity=0.560  Sum_probs=31.0

Q ss_pred             ceeccCCcccCchhHHHHHhc--cccccCCCccccCCCC
Q 023944          236 AMILPCGHSFGAAGVQHVIRM--KACYTCSRPVLEDSIA  272 (275)
Q Consensus       236 AMIl~CGHSFG~~giq~Vi~m--k~C~lCs~~Ite~sL~  272 (275)
                      ..||||.|=|=..=|..|+-.  +.||+|++.|.++.-.
T Consensus       245 lRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~~~  283 (348)
T KOG4628|consen  245 LRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDSGS  283 (348)
T ss_pred             eeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCCCC
Confidence            358999999999999998874  4599999998876543

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

Probab=84.90  E-value=0.5  Score=45.88  Aligned_cols=48  Identities=21%  Similarity=0.376  Sum_probs=35.8

Q ss_pred             hhHhhhhcCcccccccccceeccCCcccCchhHHHHHh-ccccccCCCccccC
Q 023944          218 DSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIR-MKACYTCSRPVLED  269 (275)
Q Consensus       218 eSLRaILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite~  269 (275)
                      .+||-.+.|    -++-=.++.+|||.|=..-|++-+. +..||.|-.+--+-
T Consensus        24 s~lrC~IC~----~~i~ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~es   72 (391)
T COG5432          24 SMLRCRICD----CRISIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCES   72 (391)
T ss_pred             hHHHhhhhh----heeecceecccccchhHHHHHHHhcCCCCCccccccHHhh
Confidence            345555554    3455578899999999999999555 99999998875543

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

Probab=84.56  E-value=0.37  Score=47.94  Aligned_cols=38  Identities=29%  Similarity=0.606  Sum_probs=31.9

Q ss_pred             ceeccCCcccCchhHHHHHh---ccccccCCCccccCCCCC
Q 023944          236 AMILPCGHSFGAAGVQHVIR---MKACYTCSRPVLEDSIAP  273 (275)
Q Consensus       236 AMIl~CGHSFG~~giq~Vi~---mk~C~lCs~~Ite~sL~P  273 (275)
                      .+++-|||=||..-|++|+-   .++|+.|+..-+.-+|+|
T Consensus        22 ~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~i~~   62 (463)
T KOG1645|consen   22 IVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQIRP   62 (463)
T ss_pred             EeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHHHHH
Confidence            35667999999999999875   568999999888777766

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	275
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	5e-05

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

 Score = 40.5 bits (95), Expect = 5e-05
 Identities = 14/68 (20%), Positives = 30/68 (44%), Gaps = 5/68 (7%)

Query: 213 ISGSGDSLRAILSDPVTGNLMDDAMILP-CGHSFGAAGVQHVIRMKACYTC----SRPVL 267
           +    D +   L   +  ++M DA+++P CG+S+    ++  +     +TC       V 
Sbjct: 3   LGSEDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVS 62

Query: 268 EDSIAPNL 275
            D++  N 
Sbjct: 63  PDALIANK 70

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	275
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.14
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.09
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.0
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	98.98
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.92
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.92
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.9
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.81
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	98.54
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	98.53
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	98.46
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	98.46
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	98.43
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	98.38
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.37
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	98.34
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	98.29
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	98.27
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	98.27
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.24
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	98.22
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	98.22
1z6u_A	150	NP95-like ring finger protein isoform B; structura	98.2
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	98.19
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.18
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	98.17
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	98.13
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	98.1
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	98.08
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	98.01
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	97.99
2ect_A	78	Ring finger protein 126; metal binding protein, st	97.98
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	97.98
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	97.94
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	97.86
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	97.75
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	97.68
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	97.67
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	97.63
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	97.56
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	97.49
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	97.48
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	97.47
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	97.44
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	97.44
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	97.37
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	97.37
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	97.36
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	97.23
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	97.19
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	97.08
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	97.07
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	96.96
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	96.94
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	96.64
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	96.61
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	96.6
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	96.52
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	96.23
2ea5_A	68	Cell growth regulator with ring finger domain prot	96.13
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	96.08
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	96.01
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	95.53
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	95.49
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	95.29
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	94.7
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	94.05
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	87.78
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	87.44
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	85.14
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	84.7
4fo9_A	360	E3 SUMO-protein ligase PIAS2; E3 ligase, pinit dom	81.74

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

Probab=99.14  E-value=1.3e-11  Score=90.21  Aligned_cols=57  Identities=18%  Similarity=0.209  Sum_probs=52.5

Q ss_pred             hHhhhhcCcccccccccceeccCCcccCchhHHHHHh-ccccccCCCccccCCCCCCC
Q 023944          219 SLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIR-MKACYTCSRPVLEDSIAPNL  275 (275)
Q Consensus       219 SLRaILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite~sL~PNl  275 (275)
                      .+..-|.+||++.+|.|+|+++|||+|-+.-|+++++ ...||.|.++++...|+||.
T Consensus        10 ~~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~l~pn~   67 (85)
T 2kr4_A           10 DAPDEFRDPLMDTLMTDPVRLPSGTVMDRSIILRHLLNSPTDPFNRQMLTESMLEPVP   67 (85)
T ss_dssp             TCCTTTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCGGGCEECH
T ss_pred             cCchheECcccCchhcCCeECCCCCEECHHHHHHHHhcCCCCCCCcCCCChHhcchHH
Confidence            4566789999999999999999999999999999876 78999999999999999983

>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=99.09  E-value=2.4e-11  Score=91.99  Aligned_cols=57  Identities=18%  Similarity=0.219  Sum_probs=52.9

Q ss_pred             hHhhhhcCcccccccccceeccCCcccCchhHHHHHh-ccccccCCCccccCCCCCCC
Q 023944          219 SLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIR-MKACYTCSRPVLEDSIAPNL  275 (275)
Q Consensus       219 SLRaILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite~sL~PNl  275 (275)
                      .+..-|.+||++.+|.|+|+++|||+|-+.-|+++++ ...||.|.++++...|+||.
T Consensus        25 ~~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~L~pn~   82 (100)
T 2kre_A           25 DAPDEFRDPLMDTLMTDPVRLPSGTIMDRSIILRHLLNSPTDPFNRQTLTESMLEPVP   82 (100)
T ss_dssp             SCSTTTBCTTTCSBCSSEEEETTTEEEEHHHHHHHTTSCSBCSSSCCBCCTTSSEECH
T ss_pred             cCcHhhCCcCccCcccCCeECCCCCEEchHHHHHHHHcCCCCCCCCCCCChhhceECH
Confidence            4567799999999999999999999999999999886 88999999999999999983

>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=99.00  E-value=1.1e-10  Score=88.03  Aligned_cols=57  Identities=21%  Similarity=0.298  Sum_probs=52.5

Q ss_pred             hHhhhhcCcccccccccceeccCC-cccCchhHHHHHh-ccccccCCCccccCCCCCCC
Q 023944          219 SLRAILSDPVTGNLMDDAMILPCG-HSFGAAGVQHVIR-MKACYTCSRPVLEDSIAPNL  275 (275)
Q Consensus       219 SLRaILSDPlSGalMEDAMIl~CG-HSFG~~giq~Vi~-mk~C~lCs~~Ite~sL~PNl  275 (275)
                      .+..-|.+||++.+|.|+|+++|| |+|-+.-|+++++ ...||.|.++++...|+||.
T Consensus        18 ~~p~~~~CpI~~~~m~dPV~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~~L~pn~   76 (98)
T 1wgm_A           18 DACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIRPNT   76 (98)
T ss_dssp             SCCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTSEECH
T ss_pred             cCcHhcCCcCccccccCCeECCCCCeEECHHHHHHHHHhCCCCCCCCCCCChhhceEcH
Confidence            456778999999999999999999 9999999999876 78899999999999999984

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

Probab=98.98  E-value=1.2e-10  Score=81.15  Aligned_cols=58  Identities=21%  Similarity=0.472  Sum_probs=52.7

Q ss_pred             hhHhhhhcCcccccccccceeccCCcccCchhHHHHHh--ccccccCCCccccCCCCCCC
Q 023944          218 DSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIR--MKACYTCSRPVLEDSIAPNL  275 (275)
Q Consensus       218 eSLRaILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~--mk~C~lCs~~Ite~sL~PNl  275 (275)
                      +.+..-|.-||...+|.|+++++|||+|-..-|+++++  ...||.|.++++...|.||+
T Consensus         3 ~~~~~~~~C~IC~~~~~~Pv~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~~l~~n~   62 (78)
T 1t1h_A            3 PEFPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNY   62 (78)
T ss_dssp             CCCSSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCEECT
T ss_pred             cCCcccCCCCCccccccCCEEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCChhhCccCH
Confidence            34667788999999999999999999999999999887  57899999999999999985

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

Probab=98.92  E-value=4.2e-10  Score=91.59  Aligned_cols=54  Identities=19%  Similarity=0.384  Sum_probs=49.2

Q ss_pred             hhhcCcccccccccceeccCCcccCchhHHHHHhc--cccccCCCccccCCCCCCC
Q 023944          222 AILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIRM--KACYTCSRPVLEDSIAPNL  275 (275)
Q Consensus       222 aILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~m--k~C~lCs~~Ite~sL~PNl  275 (275)
                      ..|..||+..+|.|+|+++|||||-+.-|+++++.  ..||.|.++++...|+||.
T Consensus       207 ~~~~c~i~~~~~~dPv~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~~l~~n~  262 (281)
T 2c2l_A          207 DYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPNL  262 (281)
T ss_dssp             STTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCEECH
T ss_pred             cccCCcCcCCHhcCCeECCCCCEECHHHHHHHHHHCCCCCcCCCCCCchhcCcccH
Confidence            46788999999999999999999999999998874  3499999999999999984

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

Probab=98.92  E-value=3.5e-10  Score=95.09  Aligned_cols=57  Identities=19%  Similarity=0.380  Sum_probs=51.6

Q ss_pred             hHhhhhcCcccccccccceeccCCcccCchhHHHHHhc--cccccCCCccccCCCCCCC
Q 023944          219 SLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIRM--KACYTCSRPVLEDSIAPNL  275 (275)
Q Consensus       219 SLRaILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~m--k~C~lCs~~Ite~sL~PNl  275 (275)
                      .+..-|.+|||+.+|.|+|+++|||||-+..|+++++.  ..||.|.++++...|+||+
T Consensus       102 ~ip~~f~CPI~~elm~DPV~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~~L~pN~  160 (179)
T 2f42_A          102 EIPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQLIPNL  160 (179)
T ss_dssp             CCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCEECH
T ss_pred             CCcHhhcccCccccCCCCeECCCCCEECHHHHHHHHHhCCCCCCCCcCCCChhhCcchH
Confidence            45667899999999999999999999999999998875  3599999999999999994

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

Probab=98.90  E-value=2.5e-10  Score=84.29  Aligned_cols=56  Identities=18%  Similarity=0.409  Sum_probs=50.3

Q ss_pred             HhhhhcCcccccccccceecc-CCcccCchhHHHHHhcc-------cccc--CCCc-cccCCCCCCC
Q 023944          220 LRAILSDPVTGNLMDDAMILP-CGHSFGAAGVQHVIRMK-------ACYT--CSRP-VLEDSIAPNL  275 (275)
Q Consensus       220 LRaILSDPlSGalMEDAMIl~-CGHSFG~~giq~Vi~mk-------~C~l--Cs~~-Ite~sL~PNl  275 (275)
                      +..-|..||++.+|.|+|+++ |||+|-+.-|+++++..       .||.  |.++ ++...|+||+
T Consensus         4 ~~~~~~CPI~~~~~~dPV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~~~L~pn~   70 (94)
T 2yu4_A            4 GSSGFTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKSDLIQDE   70 (94)
T ss_dssp             CSSCCBCTTTCSBCSSEEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCGGGEEECH
T ss_pred             CCcEeECcCcCchhcCCEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCHhhCcCCH
Confidence            455688999999999999996 99999999999998864       8999  9988 9999999984

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

Probab=98.81  E-value=1.4e-09  Score=76.42  Aligned_cols=52  Identities=8%  Similarity=0.140  Sum_probs=48.4

Q ss_pred             hcCcccccccccceec-cCCcccCchhHHHHHh-ccccccCCCccccCCCCCCC
Q 023944          224 LSDPVTGNLMDDAMIL-PCGHSFGAAGVQHVIR-MKACYTCSRPVLEDSIAPNL  275 (275)
Q Consensus       224 LSDPlSGalMEDAMIl-~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite~sL~PNl  275 (275)
                      +..|||+.+|+|+||+ +|||.|.+..|++|++ .++||.++++++.+.|+||.
T Consensus         4 ~~CpIs~~~m~dPV~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~~~Lip~~   57 (61)
T 2bay_A            4 MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEIVEIV   57 (61)
T ss_dssp             CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGCEECC
T ss_pred             EEecCCCCCCCCCEEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCChhhcEECc
Confidence            6789999999999999 8999999999999886 66899999999999999983

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

Probab=98.54  E-value=1.2e-08  Score=70.40  Aligned_cols=59  Identities=19%  Similarity=0.383  Sum_probs=49.9

Q ss_pred             hhhHhhhhcCcccccccccceeccCCcccCchhHHHHHh--------ccccccCCCccccCCCCCCC
Q 023944          217 GDSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIR--------MKACYTCSRPVLEDSIAPNL  275 (275)
Q Consensus       217 ~eSLRaILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~--------mk~C~lCs~~Ite~sL~PNl  275 (275)
                      .+.|+..+.=||-...+.++++++|||+|=..=|+++++        ...||+|.+++....|.||+
T Consensus         6 ~~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~~l~~n~   72 (79)
T 2egp_A            6 SGNVQEEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEHLQANQ   72 (79)
T ss_dssp             SCCCCCCCEETTTTEECSSCCCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSSGGGTCS
T ss_pred             HhhcccCCCCcCCCcccCCeeECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHhhCCcCH
Confidence            344555666778888889999999999999999998776        46899999999999999985

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

Probab=98.53  E-value=1e-07  Score=69.53  Aligned_cols=59  Identities=19%  Similarity=0.401  Sum_probs=52.4

Q ss_pred             hhhHhhhhcCcccccccccceeccCCcccCchhHHHHHhcc----ccccCCCccccCCCCCCC
Q 023944          217 GDSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIRMK----ACYTCSRPVLEDSIAPNL  275 (275)
Q Consensus       217 ~eSLRaILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~mk----~C~lCs~~Ite~sL~PNl  275 (275)
                      .+.|+..+.=||-...+.++++++|||+|-..=|+++++.+    .||.|.+++....|.||+
T Consensus        15 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~   77 (112)
T 1jm7_A           15 INAMQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQEST   77 (112)
T ss_dssp             HHHHHHHTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTCBCCC
T ss_pred             HHhccCCCCCcccChhhcCeEECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHhhcCccH
Confidence            34567777889999999999999999999999999999864    799999999999999884

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

Probab=98.46  E-value=6.7e-08  Score=68.97  Aligned_cols=60  Identities=23%  Similarity=0.486  Sum_probs=51.7

Q ss_pred             ChhhHhhhhcCcccccccccceecc-CCcccCchhHHHHHhc---cccccCCCcc-ccCCCCCCC
Q 023944          216 SGDSLRAILSDPVTGNLMDDAMILP-CGHSFGAAGVQHVIRM---KACYTCSRPV-LEDSIAPNL  275 (275)
Q Consensus       216 s~eSLRaILSDPlSGalMEDAMIl~-CGHSFG~~giq~Vi~m---k~C~lCs~~I-te~sL~PNl  275 (275)
                      ..+.|+..|.=||-..+|.|+++++ |||+|=..=|++++..   ..||+|.+++ ..+.|.||+
T Consensus         6 ~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~n~   70 (92)
T 3ztg_A            6 EDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALIANK   70 (92)
T ss_dssp             SCCCCCTTTEETTTTEECSSCEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSCCTTSCEECH
T ss_pred             ccccCCcCCCCCCCChhhcCceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCCCccccCcCH
Confidence            3556777888899999999999999 9999999999998753   5899999997 678888873

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

Probab=98.46  E-value=1.1e-07  Score=65.50  Aligned_cols=57  Identities=25%  Similarity=0.483  Sum_probs=48.1

Q ss_pred             hHhhhhcCcccccccccceeccCCcccCchhHHHHHh-------ccccccCCCccccCCCCCCC
Q 023944          219 SLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIR-------MKACYTCSRPVLEDSIAPNL  275 (275)
Q Consensus       219 SLRaILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~-------mk~C~lCs~~Ite~sL~PNl  275 (275)
                      .|+..+.=||-...+.++++++|||+|=..=|+++++       ...||.|.+++....|.||+
T Consensus        15 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~n~   78 (85)
T 2ecv_A           15 NVKEEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENIRPNR   78 (85)
T ss_dssp             CCCCCCCCTTTCSCCSSCBCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSSCCCSC
T ss_pred             HccCCCCCCCCCcccCCceeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHhcCccH
Confidence            3444556677777888999999999999999999776       47899999999999999985

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

Probab=98.43  E-value=1.2e-07  Score=65.26  Aligned_cols=58  Identities=22%  Similarity=0.442  Sum_probs=49.4

Q ss_pred             hhHhhhhcCcccccccccceeccCCcccCchhHHHHHhc-------cccccCCCccccCCCCCCC
Q 023944          218 DSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIRM-------KACYTCSRPVLEDSIAPNL  275 (275)
Q Consensus       218 eSLRaILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~m-------k~C~lCs~~Ite~sL~PNl  275 (275)
                      +.|+..+.=||-...+.++++++|||+|-..=|+++++.       ..||+|.+++..+.|.||+
T Consensus        14 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~n~   78 (85)
T 2ecw_A           14 EMIKEEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNLKPNL   78 (85)
T ss_dssp             CCCCTTTSCTTTCSCCSSCEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTTCCEECS
T ss_pred             HhCccCCCCcCCChhhCcceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHHhCCcCH
Confidence            345556677788888899999999999999999997764       5899999999999999985

>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=98.38  E-value=2.8e-07  Score=69.57  Aligned_cols=59  Identities=12%  Similarity=0.173  Sum_probs=51.6

Q ss_pred             hhhHhhhhcCcccccccccceeccCCcccCchhHHHHHh--ccccccCCCcccc-CCCCCCC
Q 023944          217 GDSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIR--MKACYTCSRPVLE-DSIAPNL  275 (275)
Q Consensus       217 ~eSLRaILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~--mk~C~lCs~~Ite-~sL~PNl  275 (275)
                      .+.|..-|.=||-..+|.++++++|||+|-..=|+++++  ...||+|.+++.. ..+.||+
T Consensus        46 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~n~  107 (124)
T 3fl2_A           46 LSKVEETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGRSYAMQVNQ  107 (124)
T ss_dssp             HHHHHHHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTTCCCCCCH
T ss_pred             HHhCccCCCCCcCChHHcCcEEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCCCCCCCCCH
Confidence            456777788999999999999999999999999999886  3489999999997 7888873

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

Probab=98.37  E-value=2e-07  Score=70.18  Aligned_cols=58  Identities=24%  Similarity=0.406  Sum_probs=52.6

Q ss_pred             hhhHhhhhcCcccccccccceec-cCCcccCchhHHHHHhccccccCCCccccCCCCCCC
Q 023944          217 GDSLRAILSDPVTGNLMDDAMIL-PCGHSFGAAGVQHVIRMKACYTCSRPVLEDSIAPNL  275 (275)
Q Consensus       217 ~eSLRaILSDPlSGalMEDAMIl-~CGHSFG~~giq~Vi~mk~C~lCs~~Ite~sL~PNl  275 (275)
                      .+.|+..|.=||-..++.+++++ +|||+|=..=|+++++ ..||+|.+++....|.||+
T Consensus        16 ~~~l~~~~~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~-~~CP~Cr~~~~~~~~~~n~   74 (117)
T 1jm7_B           16 LDRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG-TGCPVCYTPAWIQDLKINR   74 (117)
T ss_dssp             HHHHHHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT-TBCSSSCCBCSCSSCCCCH
T ss_pred             HHhchhCCCCCCCChHhhCccEeCCCCCHHHHHHHHHHhc-CCCcCCCCcCccccccccH
Confidence            45677788889999999999999 9999999999999988 8999999999999999984

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

Probab=98.34  E-value=4.7e-07  Score=62.56  Aligned_cols=58  Identities=16%  Similarity=0.245  Sum_probs=50.3

Q ss_pred             hhHhhhhcCcccccccccceec-cCCcccCchhHHHHHh-ccccccCCCccccCCCCCCC
Q 023944          218 DSLRAILSDPVTGNLMDDAMIL-PCGHSFGAAGVQHVIR-MKACYTCSRPVLEDSIAPNL  275 (275)
Q Consensus       218 eSLRaILSDPlSGalMEDAMIl-~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite~sL~PNl  275 (275)
                      +.|+..+.=||-...+.|++++ +|||+|=..=|++|++ ...||+|.++|....+.+|+
T Consensus        10 ~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~   69 (72)
T 2djb_A           10 SELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQPLSGP   69 (72)
T ss_dssp             CCCCGGGSCTTTSSCCSSCEECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCSSCSCCCC
T ss_pred             hhcCCCCCCCCCChHHHCcCEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCcccccccC
Confidence            4456667778888889999987 9999999999999877 77999999999999999875

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

Probab=98.29  E-value=3.3e-07  Score=66.54  Aligned_cols=59  Identities=20%  Similarity=0.394  Sum_probs=52.1

Q ss_pred             hhhHhhhhcCcccccccccceec-cCCcccCchhHHHHHh-ccccccCCCccccCCCCCCC
Q 023944          217 GDSLRAILSDPVTGNLMDDAMIL-PCGHSFGAAGVQHVIR-MKACYTCSRPVLEDSIAPNL  275 (275)
Q Consensus       217 ~eSLRaILSDPlSGalMEDAMIl-~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite~sL~PNl  275 (275)
                      .+.|+..+.=||-...+.+++++ +|||+|=..=|++|++ ...||.|.+++....|.||+
T Consensus        16 ~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~l~~n~   76 (99)
T 2y43_A           16 MKTIDDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEPDLKNNR   76 (99)
T ss_dssp             GHHHHHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGGGCEECH
T ss_pred             HHhCCCCCCcccCChhhCCcCEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCChhhCCcCH
Confidence            45677778889999999999988 8999999999999887 67999999999998898883

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

Probab=98.27  E-value=4.6e-07  Score=61.28  Aligned_cols=39  Identities=21%  Similarity=0.533  Sum_probs=36.2

Q ss_pred             eeccCCcccCchhHHHHHh-ccccccCCCccccCCCCCCC
Q 023944          237 MILPCGHSFGAAGVQHVIR-MKACYTCSRPVLEDSIAPNL  275 (275)
Q Consensus       237 MIl~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite~sL~PNl  275 (275)
                      ++++|||+|-..=|++|++ ...||+|.++++...+.|+|
T Consensus        31 ~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~   70 (71)
T 3ng2_A           31 VSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHPIY   70 (71)
T ss_dssp             EECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCCCSCCCCC
T ss_pred             EeCCCCChHhHHHHHHHHHcCCCCCCCCCccChhheeecc
Confidence            8899999999999999876 78999999999999999986

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

Probab=98.27  E-value=7.2e-07  Score=62.29  Aligned_cols=59  Identities=22%  Similarity=0.466  Sum_probs=49.6

Q ss_pred             hhhHhhhhcCcccccccccceecc-CCcccCchhHHHHHhc---cccccCCCcc-ccCCCCCCC
Q 023944          217 GDSLRAILSDPVTGNLMDDAMILP-CGHSFGAAGVQHVIRM---KACYTCSRPV-LEDSIAPNL  275 (275)
Q Consensus       217 ~eSLRaILSDPlSGalMEDAMIl~-CGHSFG~~giq~Vi~m---k~C~lCs~~I-te~sL~PNl  275 (275)
                      .+.++..+.=||-..+|.|+++++ |||+|=..=|++|++.   ..||+|.+++ ..+.|.||.
T Consensus         9 ~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~n~   72 (74)
T 2yur_A            9 DDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALSGPS   72 (74)
T ss_dssp             CCCSCGGGSCSSSCCCCTTCEECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCTTTTTCTT
T ss_pred             cccCCCCCCCcCCChHHhCCeEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCccccccCC
Confidence            345566677788899999999999 9999999999999985   4899999995 477888873

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

Probab=98.24  E-value=1e-06  Score=65.57  Aligned_cols=59  Identities=14%  Similarity=0.341  Sum_probs=52.9

Q ss_pred             ChhhHhhhhcCcccccccccceeccCCcccCchhHHHHHhc--cccccCCCccccCCCCCC
Q 023944          216 SGDSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIRM--KACYTCSRPVLEDSIAPN  274 (275)
Q Consensus       216 s~eSLRaILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~m--k~C~lCs~~Ite~sL~PN  274 (275)
                      ..+.|+..+.=||-..++.|+++++|||+|-..=|++|++.  ..||+|.+++....|.|+
T Consensus        16 ~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~   76 (116)
T 1rmd_A           16 FPAHFVKSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESP   76 (116)
T ss_dssp             CCHHHHHHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCBCC
T ss_pred             hHHhccCCCCCCCCCcHhcCcEEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCHhhcccc
Confidence            35678888999999999999999999999999999998874  689999999999888765

>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=98.22  E-value=8.2e-07  Score=65.52  Aligned_cols=60  Identities=13%  Similarity=0.222  Sum_probs=53.6

Q ss_pred             ChhhHhhhhcCccccccccccee-ccCCcccCchhHHHHHhcc--ccccCCCccccCCCCCCC
Q 023944          216 SGDSLRAILSDPVTGNLMDDAMI-LPCGHSFGAAGVQHVIRMK--ACYTCSRPVLEDSIAPNL  275 (275)
Q Consensus       216 s~eSLRaILSDPlSGalMEDAMI-l~CGHSFG~~giq~Vi~mk--~C~lCs~~Ite~sL~PNl  275 (275)
                      ..++|+..|.=||=..++.++++ ++|||+|-..=|++|++.+  .||+|.+++....|.+|.
T Consensus        15 ~~~~l~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~l~~~~   77 (100)
T 3lrq_A           15 SVESIAEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRELVNCR   77 (100)
T ss_dssp             HHHHHHHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCEECT
T ss_pred             ccccCCCCCCCccCCccccCccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCHHHhHhhH
Confidence            46788888888999999999999 9999999999999988854  899999999999988773

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

Probab=98.22  E-value=4.3e-07  Score=59.95  Aligned_cols=39  Identities=21%  Similarity=0.533  Sum_probs=35.9

Q ss_pred             eeccCCcccCchhHHHHHh-ccccccCCCccccCCCCCCC
Q 023944          237 MILPCGHSFGAAGVQHVIR-MKACYTCSRPVLEDSIAPNL  275 (275)
Q Consensus       237 MIl~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite~sL~PNl  275 (275)
                      ++++|||.|-..=|++|++ ...||+|.++++...+.|+|
T Consensus        24 ~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~   63 (64)
T 2xeu_A           24 VSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHPIY   63 (64)
T ss_dssp             EEETTSCEEEHHHHHHHHHHCSBCTTTCCBCTTTCEEECC
T ss_pred             EeCCCCCchhHHHHHHHHHcCCCCCCCCccCCccceeeee
Confidence            8899999999999999876 77999999999999998876

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

Probab=98.20  E-value=9.4e-07  Score=70.42  Aligned_cols=59  Identities=15%  Similarity=0.256  Sum_probs=52.1

Q ss_pred             hhhHhhhhcCcccccccccceeccCCcccCchhHHHHHhcc--ccccCCCccccC-CCCCCC
Q 023944          217 GDSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIRMK--ACYTCSRPVLED-SIAPNL  275 (275)
Q Consensus       217 ~eSLRaILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~mk--~C~lCs~~Ite~-sL~PNl  275 (275)
                      .+.|+..|.=||-..+|.|+++++|||+|=..=|+++++..  .||+|.+++... .|.||+
T Consensus        72 ~~~l~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~l~~n~  133 (150)
T 1z6u_A           72 LKKLEQSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNYIMIPNE  133 (150)
T ss_dssp             HHHHHHHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTTCCCCBCH
T ss_pred             HHhCccCCEeecCChhhcCCEEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCCCCCCCCCH
Confidence            45677788899999999999999999999999999998853  799999999988 888873

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

Probab=98.19  E-value=7.2e-07  Score=62.67  Aligned_cols=56  Identities=16%  Similarity=0.370  Sum_probs=45.9

Q ss_pred             hhHhhhhcCcccccccccceeccCCcccCchhHHHHHh-ccccccCCCccccCCCCCC
Q 023944          218 DSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIR-MKACYTCSRPVLEDSIAPN  274 (275)
Q Consensus       218 eSLRaILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite~sL~PN  274 (275)
                      +.++.-+.=||-...+.++++++|||+|=..=|++|++ ...||+|.+++. ..+.||
T Consensus        10 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~-~~~~~~   66 (81)
T 2csy_A           10 EEEEIPFRCFICRQAFQNPVVTKCRHYFCESCALEHFRATPRCYICDQPTG-GIFNPA   66 (81)
T ss_dssp             SCCCCCSBCSSSCSBCCSEEECTTSCEEEHHHHHHHHHHCSBCSSSCCBCC-SCCEEC
T ss_pred             ccCCCCCCCcCCCchhcCeeEccCCCHhHHHHHHHHHHCCCcCCCcCcccc-ccCCcH
Confidence            34455566788888899999999999999999999877 789999999997 555554

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

Probab=98.18  E-value=3.7e-07  Score=82.04  Aligned_cols=56  Identities=23%  Similarity=0.439  Sum_probs=50.7

Q ss_pred             HhhhhcCcccccccccceec-cCCcccCchhHHHHHhc---ccccc--CCCccccCCCCCCC
Q 023944          220 LRAILSDPVTGNLMDDAMIL-PCGHSFGAAGVQHVIRM---KACYT--CSRPVLEDSIAPNL  275 (275)
Q Consensus       220 LRaILSDPlSGalMEDAMIl-~CGHSFG~~giq~Vi~m---k~C~l--Cs~~Ite~sL~PNl  275 (275)
                      ++.-|..|||+.+|.|+|++ .|||+|-+..|+++++.   ..||.  |.++++...|.||.
T Consensus       178 ~~~el~CPIcl~~f~DPVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~dL~pN~  239 (267)
T 3htk_C          178 GKIELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRDFVRDP  239 (267)
T ss_dssp             SBCCSBCTTTSSBCSSEEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGGGEEECH
T ss_pred             CceeeECcCccCcccCCeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCchhhCCcCH
Confidence            56678999999999999986 89999999999998875   47999  99999999999983

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

Probab=98.17  E-value=7.1e-07  Score=60.40  Aligned_cols=39  Identities=23%  Similarity=0.526  Sum_probs=34.5

Q ss_pred             eeccCCcccCchhHHHHHh--ccccccCCCccccCCCCCCC
Q 023944          237 MILPCGHSFGAAGVQHVIR--MKACYTCSRPVLEDSIAPNL  275 (275)
Q Consensus       237 MIl~CGHSFG~~giq~Vi~--mk~C~lCs~~Ite~sL~PNl  275 (275)
                      ++++|||+|=..=|++++.  ...||+|.++++...|.|++
T Consensus        22 ~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~   62 (65)
T 1g25_A           22 MVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFRVQL   62 (65)
T ss_dssp             EECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCCCEEEC
T ss_pred             ecCCCCCHhHHHHHHHHHHcCCCcCCCCCCccccccceeec
Confidence            6789999999999999854  46799999999999998875

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

Probab=98.13  E-value=1e-06  Score=59.78  Aligned_cols=53  Identities=13%  Similarity=0.327  Sum_probs=44.8

Q ss_pred             HhhhhcCcccccccccceeccCCcccCchhHHHHHh--ccccccCCCccccCCCC
Q 023944          220 LRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIR--MKACYTCSRPVLEDSIA  272 (275)
Q Consensus       220 LRaILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~--mk~C~lCs~~Ite~sL~  272 (275)
                      |+.-+.=||-...+.++++++|||+|=..=|++|++  ...||+|.++|+.+.|+
T Consensus        12 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~if   66 (66)
T 2ecy_A           12 VEDKYKCEKCHLVLCSPKQTECGHRFCESCMAALLSSSSPKCTACQESIVKDKVF   66 (66)
T ss_dssp             CCCCEECTTTCCEESSCCCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCTTTCC
T ss_pred             CCcCCCCCCCChHhcCeeECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCChhhcC
Confidence            444566677788889999999999999999999984  56899999999988764

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

Probab=98.10  E-value=1.7e-06  Score=63.80  Aligned_cols=58  Identities=24%  Similarity=0.344  Sum_probs=50.2

Q ss_pred             hhhHhhhhcCcccccccccceec-cCCcccCchhHHHHHh-ccccccCCCccccC----CCCCC
Q 023944          217 GDSLRAILSDPVTGNLMDDAMIL-PCGHSFGAAGVQHVIR-MKACYTCSRPVLED----SIAPN  274 (275)
Q Consensus       217 ~eSLRaILSDPlSGalMEDAMIl-~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite~----sL~PN  274 (275)
                      .+.|+.-|.=||-..++.|++++ +|||+|=..=|++|++ ...||+|.+++...    .|.||
T Consensus         9 ~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~l~~n   72 (108)
T 2ckl_A            9 ITELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLLNIRSD   72 (108)
T ss_dssp             HHHHGGGTBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHTSCSBCTTTCCBSCSSCGGGGEEEC
T ss_pred             hhccCCcCCCccCChHHhCcCEeCCCCChhhHHHHHHHHHhCCcCcCCCccccccCcccccCcC
Confidence            45778888889999999999998 9999999999999887 67899999999875    56665

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

Probab=98.08  E-value=1.2e-06  Score=65.87  Aligned_cols=57  Identities=26%  Similarity=0.455  Sum_probs=50.0

Q ss_pred             hhHhhhhcCcccccccccceeccCCcccCchhHHHHHhc--cccccCCCccccCCCCCC
Q 023944          218 DSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIRM--KACYTCSRPVLEDSIAPN  274 (275)
Q Consensus       218 eSLRaILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~m--k~C~lCs~~Ite~sL~PN  274 (275)
                      +.|..-|.=||-..++.++++++|||+|-..=|++|++.  ..||+|.+++....+.||
T Consensus        13 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~   71 (118)
T 3hct_A           13 PPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPD   71 (118)
T ss_dssp             SCCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGGCEEC
T ss_pred             cCCCCCCCCCcCChhhcCeEECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCHHhcccC
Confidence            456667778899999999999999999999999998874  389999999999988886

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

Probab=98.01  E-value=2e-06  Score=58.63  Aligned_cols=53  Identities=19%  Similarity=0.468  Sum_probs=44.9

Q ss_pred             hHhhhhcCcccccccccceeccCCcccCchhHHHHHh----ccccccCCCccccCCC
Q 023944          219 SLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIR----MKACYTCSRPVLEDSI  271 (275)
Q Consensus       219 SLRaILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~----mk~C~lCs~~Ite~sL  271 (275)
                      .|+..+.=||-...+.++++++|||+|=..=|++|++    ...||+|.++|....|
T Consensus        16 ~~~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~   72 (73)
T 2ysl_A           16 KLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNAI   72 (73)
T ss_dssp             CCCCCCBCTTTCSBCSSEEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCCCC
T ss_pred             hCccCCEeccCCcccCCeEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCcccC
Confidence            4455566778888888999999999999999999985    5689999999998765

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

Probab=97.99  E-value=2.6e-06  Score=59.51  Aligned_cols=52  Identities=23%  Similarity=0.461  Sum_probs=42.3

Q ss_pred             hHhhhhcCccccccccc----ceeccCCcccCchhHHHHHhc----cccccCCCccccCC
Q 023944          219 SLRAILSDPVTGNLMDD----AMILPCGHSFGAAGVQHVIRM----KACYTCSRPVLEDS  270 (275)
Q Consensus       219 SLRaILSDPlSGalMED----AMIl~CGHSFG~~giq~Vi~m----k~C~lCs~~Ite~s  270 (275)
                      .++..+.=||-...+.+    +++++|||+|-..=|++|++.    ..||+|.+++....
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   70 (88)
T 2ct2_A           11 ALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITS   70 (88)
T ss_dssp             CCCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCSS
T ss_pred             hccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccchh
Confidence            34445555677777777    999999999999999999886    69999999998653

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

Probab=97.98  E-value=4.7e-06  Score=57.76  Aligned_cols=39  Identities=23%  Similarity=0.511  Sum_probs=35.0

Q ss_pred             ceeccCCcccCchhHHHHHh-ccccccCCCccccCCCCCC
Q 023944          236 AMILPCGHSFGAAGVQHVIR-MKACYTCSRPVLEDSIAPN  274 (275)
Q Consensus       236 AMIl~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite~sL~PN  274 (275)
                      .++++|||.|-..=|++|++ ...||+|.++|+...+.||
T Consensus        31 ~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~   70 (78)
T 2ect_A           31 VRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTATN   70 (78)
T ss_dssp             EEECTTSCEEETTTTHHHHTTTCSCTTTCCCCCCSCSCCC
T ss_pred             EEEeCCCCeecHHHHHHHHHcCCcCcCcCCccCCcccCCC
Confidence            46789999999999999887 6799999999999999876

>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=97.98  E-value=2.8e-06  Score=66.85  Aligned_cols=59  Identities=29%  Similarity=0.533  Sum_probs=49.4

Q ss_pred             ChhhHhhhhcCcccccccccceec-cCCcccCchhHHHHHh--ccccccCCCccc-cCCCCCC
Q 023944          216 SGDSLRAILSDPVTGNLMDDAMIL-PCGHSFGAAGVQHVIR--MKACYTCSRPVL-EDSIAPN  274 (275)
Q Consensus       216 s~eSLRaILSDPlSGalMEDAMIl-~CGHSFG~~giq~Vi~--mk~C~lCs~~It-e~sL~PN  274 (275)
                      ..++|...+.=||-..++.+++++ +|||+|=..=|++|++  ...||+|.+++. .+.|.||
T Consensus        47 ~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~l~~~  109 (165)
T 2ckl_B           47 SPRSLHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPD  109 (165)
T ss_dssp             ---CCHHHHBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCSGGGEEEC
T ss_pred             chhhCCCCCCCcccChHhhCcCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCCcccCCcC
Confidence            356778888999999999999988 9999999999999988  567999999995 5667776

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

Probab=97.94  E-value=5.3e-06  Score=64.09  Aligned_cols=50  Identities=20%  Similarity=0.384  Sum_probs=42.6

Q ss_pred             hHhhhhcCcccccccccceeccCCcccCchhHHHHHh-ccccccCCCcccc
Q 023944          219 SLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIR-MKACYTCSRPVLE  268 (275)
Q Consensus       219 SLRaILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite  268 (275)
                      .|..-|+=||-..+|.|+++++|||+|-..=|++|++ ...||+|.++|..
T Consensus        49 ~~~~~~~C~iC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   99 (138)
T 4ayc_A           49 VLENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICRKDIKS   99 (138)
T ss_dssp             HHHHHSBCTTTCSBCSSEEEETTSCEEEHHHHHHHTTTCSBCTTTCCBCCC
T ss_pred             hccccCCCcccCcccCCceECCCCCCccHHHHHHHHHcCCcCCCCCCcCCC
Confidence            3444556688888999999999999999999999876 7889999999864

>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=97.86  E-value=5.2e-06  Score=65.41  Aligned_cols=57  Identities=26%  Similarity=0.455  Sum_probs=51.0

Q ss_pred             hhHhhhhcCcccccccccceeccCCcccCchhHHHHHhc--cccccCCCccccCCCCCC
Q 023944          218 DSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIRM--KACYTCSRPVLEDSIAPN  274 (275)
Q Consensus       218 eSLRaILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~m--k~C~lCs~~Ite~sL~PN  274 (275)
                      +.|...|.=||-..+|.++++++|||+|=..=|+++++.  ..||+|.++|+...|+|+
T Consensus        13 ~~~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~   71 (170)
T 3hcs_A           13 PPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPD   71 (170)
T ss_dssp             SCCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGGCEEC
T ss_pred             cCCCCCCCCCCCChhhcCcEECCCCCHHHHHHHHHHHHhCCCCCCCCccCcchhhhhhh
Confidence            357778889999999999999999999999999998874  499999999999888886

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

Probab=97.75  E-value=7.8e-06  Score=59.95  Aligned_cols=48  Identities=19%  Similarity=0.480  Sum_probs=38.9

Q ss_pred             cccccccccc-------eeccCCcccCchhHHHHHh-ccccccCCCccccCCCCCC
Q 023944          227 PVTGNLMDDA-------MILPCGHSFGAAGVQHVIR-MKACYTCSRPVLEDSIAPN  274 (275)
Q Consensus       227 PlSGalMEDA-------MIl~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite~sL~PN  274 (275)
                      ||-...+.++       ++++|||+|-..=|++|++ ...||+|.++++...+.|+
T Consensus        11 ~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~l~~l   66 (133)
T 4ap4_A           11 PICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHPI   66 (133)
T ss_dssp             TTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTTTCEEEC
T ss_pred             cccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCcccccccc
Confidence            3334445555       8999999999999999876 6789999999998887765

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

Probab=97.68  E-value=9.8e-06  Score=59.41  Aligned_cols=39  Identities=21%  Similarity=0.533  Sum_probs=36.3

Q ss_pred             eeccCCcccCchhHHHHHh-ccccccCCCccccCCCCCCC
Q 023944          237 MILPCGHSFGAAGVQHVIR-MKACYTCSRPVLEDSIAPNL  275 (275)
Q Consensus       237 MIl~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite~sL~PNl  275 (275)
                      ++++|||.|-..=|++|++ .+.||+|.++|.++.|+|+|
T Consensus        93 ~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~  132 (133)
T 4ap4_A           93 VSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHPIY  132 (133)
T ss_dssp             EEETTSBEEEHHHHHHHHHHCSBCTTTCCBCCGGGEEEEC
T ss_pred             EeCCCCChhhHHHHHHHHHcCCCCCCCCCcCChhcceeee
Confidence            8899999999999999776 88999999999999999876

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

Probab=97.67  E-value=8.3e-06  Score=56.14  Aligned_cols=45  Identities=24%  Similarity=0.371  Sum_probs=37.5

Q ss_pred             cccccccccceeccCCcccCchhHHHHHh-ccccccCCCccccCCC
Q 023944          227 PVTGNLMDDAMILPCGHSFGAAGVQHVIR-MKACYTCSRPVLEDSI  271 (275)
Q Consensus       227 PlSGalMEDAMIl~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite~sL  271 (275)
                      ||-...+.++++++|||.|=..=|++|++ ...||+|.++|....|
T Consensus        19 ~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~   64 (71)
T 2d8t_A           19 AICLQTCVHPVSLPCKHVFCYLCVKGASWLGKRCALCRQEIPEDFL   64 (71)
T ss_dssp             SSSSSBCSSEEEETTTEEEEHHHHHHCTTCSSBCSSSCCBCCHHHH
T ss_pred             ccCCcccCCCEEccCCCHHHHHHHHHHHHCCCcCcCcCchhCHhhc
Confidence            45556678889999999999999999766 6799999999986553

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

Probab=97.63  E-value=2.3e-05  Score=52.20  Aligned_cols=32  Identities=22%  Similarity=0.612  Sum_probs=29.0

Q ss_pred             eeccCCcccCchhHHHHHh-ccccccCCCcccc
Q 023944          237 MILPCGHSFGAAGVQHVIR-MKACYTCSRPVLE  268 (275)
Q Consensus       237 MIl~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite  268 (275)
                      ++++|||.|-..=|++|++ ...||+|.++|+.
T Consensus        36 ~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           36 VSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   68 (69)
T ss_dssp             EECSSSCEEEHHHHHHHHHHCSSCTTTCCCCCC
T ss_pred             EeCCCCChhcHHHHHHHHHcCCCCCCCCCccCc
Confidence            8899999999999999876 7799999999874

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

Probab=97.56  E-value=5.3e-05  Score=51.01  Aligned_cols=36  Identities=33%  Similarity=0.596  Sum_probs=30.8

Q ss_pred             ccc-ceeccCCcccCchhHHHHHh-ccccccCCCcccc
Q 023944          233 MDD-AMILPCGHSFGAAGVQHVIR-MKACYTCSRPVLE  268 (275)
Q Consensus       233 MED-AMIl~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite  268 (275)
                      +.+ +++++|||+|-..=|++|++ ...||+|.+++..
T Consensus        15 ~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   52 (68)
T 1chc_A           15 PSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCSCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             ccCCcEecCCCCeeHHHHHHHHHhCcCcCcCCChhhHh
Confidence            345 48899999999999999877 7889999999874

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

Probab=97.49  E-value=1.9e-05  Score=53.72  Aligned_cols=45  Identities=22%  Similarity=0.399  Sum_probs=36.1

Q ss_pred             cccccccccceeccCCcccCchhHHHHHh-ccccccCCCccccCCCC
Q 023944          227 PVTGNLMDDAMILPCGHSFGAAGVQHVIR-MKACYTCSRPVLEDSIA  272 (275)
Q Consensus       227 PlSGalMEDAMIl~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite~sL~  272 (275)
                      ||=...+.+ ++++|||+|-..=|++|++ ...||+|.++|......
T Consensus        19 ~IC~~~~~~-~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~   64 (70)
T 2ecn_A           19 CICMDGRAD-LILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGANES   64 (70)
T ss_dssp             SSSCCSCCS-EEETTTEEECHHHHHHSSCCCSSCHHHHHCTTCCCCC
T ss_pred             eeCCcCccC-cccCCCCcccHHHHHHHHHCcCcCCCcCCcccCCCcc
Confidence            344445556 8999999999999999776 88999999999866543

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

Probab=97.48  E-value=4.9e-05  Score=49.41  Aligned_cols=43  Identities=26%  Similarity=0.453  Sum_probs=34.3

Q ss_pred             HhhhhcCcccccccccceeccCCcccCchhHHHHHh----ccccccC
Q 023944          220 LRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIR----MKACYTC  262 (275)
Q Consensus       220 LRaILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~----mk~C~lC  262 (275)
                      ++..+.=||=...+.++++++|||+|=..=|++|++    ...||+|
T Consensus        12 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           12 LQVEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             SCCCCBCSSSCCBCSSCCCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             cccCCCCccCCcccCccEeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            444455567777788899999999999999999854    4789988

>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=97.47  E-value=7.7e-05  Score=48.19  Aligned_cols=32  Identities=31%  Similarity=0.652  Sum_probs=28.8

Q ss_pred             ceeccCCcccCchhHHHHHh-ccccccCCCccc
Q 023944          236 AMILPCGHSFGAAGVQHVIR-MKACYTCSRPVL  267 (275)
Q Consensus       236 AMIl~CGHSFG~~giq~Vi~-mk~C~lCs~~It  267 (275)
                      +++++|||.|-..=|++|++ ...||+|.++|.
T Consensus        22 ~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A           22 AHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             EEECTTSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             eEecCCCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            78899999999999999877 679999999875

>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=97.44  E-value=3.1e-05  Score=57.49  Aligned_cols=50  Identities=18%  Similarity=0.334  Sum_probs=42.2

Q ss_pred             hHhhhhcCcccccccccceeccCCcccCchhHHHHHh--ccccccCCCcccc
Q 023944          219 SLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIR--MKACYTCSRPVLE  268 (275)
Q Consensus       219 SLRaILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~--mk~C~lCs~~Ite  268 (275)
                      .+..-|.=||-..++.++++++|||+|-..=|+++++  ...||+|.+++..
T Consensus        11 ~~~~~~~C~iC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           11 PSLSECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             CCHHHHBCTTTCSBCSSCEECTTSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             CCCCCCCCccCCcccCceeEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            4455566788888999999999999999999999775  5689999999874

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

Probab=97.44  E-value=4.6e-05  Score=50.95  Aligned_cols=44  Identities=18%  Similarity=0.488  Sum_probs=36.2

Q ss_pred             hHhhhhcCcccccccccceeccCCcccCchhHHHHHh----ccccccC
Q 023944          219 SLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIR----MKACYTC  262 (275)
Q Consensus       219 SLRaILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~----mk~C~lC  262 (275)
                      .|+..+.=||-...+.++++++|||+|=..=|++|++    ...||+|
T Consensus        16 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           16 KLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCCBCTTTCSBCSSCEECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             hCccCCCCCcCCchhCCeEEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            3455556677778888999999999999999999986    4579998

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

Probab=97.37  E-value=8.1e-05  Score=49.97  Aligned_cols=45  Identities=18%  Similarity=0.295  Sum_probs=34.7

Q ss_pred             cccccccccceeccCCcccCchhHHHHHhccccccCCCccccCCCCC
Q 023944          227 PVTGNLMDDAMILPCGHSFGAAGVQHVIRMKACYTCSRPVLEDSIAP  273 (275)
Q Consensus       227 PlSGalMEDAMIl~CGHSFG~~giq~Vi~mk~C~lCs~~Ite~sL~P  273 (275)
                      ||=...+.++++++|||+|=..=|++  ....||+|.+++....--.
T Consensus        10 ~IC~~~~~~p~~l~CgH~fC~~Ci~~--~~~~CP~Cr~~~~~~~~~~   54 (56)
T 1bor_A           10 QQCQAEAKCPKLLPCLHTLCSGCLEA--SGMQCPICQAPWPLGADTP   54 (56)
T ss_dssp             SSSCSSCBCCSCSTTSCCSBTTTCSS--SSSSCSSCCSSSSCCSSCC
T ss_pred             eEeCCccCCeEEcCCCCcccHHHHcc--CCCCCCcCCcEeecCCcCc
Confidence            44455667889999999998777766  4678999999998655433

>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=97.37  E-value=9.5e-05  Score=50.06  Aligned_cols=36  Identities=28%  Similarity=0.481  Sum_probs=31.3

Q ss_pred             ccceeccCCcccCchhHHHHHh-ccccccCCCccccC
Q 023944          234 DDAMILPCGHSFGAAGVQHVIR-MKACYTCSRPVLED  269 (275)
Q Consensus       234 EDAMIl~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite~  269 (275)
                      +.+++++|||.|-..=|++|++ ...||+|.++|...
T Consensus        28 ~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   64 (69)
T 2kiz_A           28 EDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQ   64 (69)
T ss_dssp             SCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBSCSC
T ss_pred             CcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCccccCc
Confidence            4578899999999999999876 78899999999764

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

Probab=97.36  E-value=0.00012  Score=50.68  Aligned_cols=35  Identities=29%  Similarity=0.563  Sum_probs=30.6

Q ss_pred             ceeccCCcccCchhHHHHHh-ccccccCCCccccCC
Q 023944          236 AMILPCGHSFGAAGVQHVIR-MKACYTCSRPVLEDS  270 (275)
Q Consensus       236 AMIl~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite~s  270 (275)
                      .++++|||.|-..=|++|++ ...||+|.++|++.+
T Consensus        39 ~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~~   74 (75)
T 1x4j_A           39 LRVLPCNHEFHAKCVDKWLKANRTCPICRADSGPSS   74 (75)
T ss_dssp             EEEETTTEEEETTHHHHHHHHCSSCTTTCCCCCCCC
T ss_pred             EEEECCCCHhHHHHHHHHHHcCCcCcCcCCcCCCCC
Confidence            47899999999999999876 778999999998653

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

Probab=97.23  E-value=0.00019  Score=46.49  Aligned_cols=32  Identities=38%  Similarity=0.697  Sum_probs=28.4

Q ss_pred             ceecc-CCcccCchhHHHHHh-ccccccCCCccc
Q 023944          236 AMILP-CGHSFGAAGVQHVIR-MKACYTCSRPVL  267 (275)
Q Consensus       236 AMIl~-CGHSFG~~giq~Vi~-mk~C~lCs~~It  267 (275)
                      +++++ |||.|-..=|++|++ ...||+|.++|.
T Consensus        21 ~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   54 (55)
T 1iym_A           21 ARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             eEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeE
Confidence            67787 999999999999877 789999999875

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

Probab=97.19  E-value=0.00017  Score=52.24  Aligned_cols=33  Identities=27%  Similarity=0.425  Sum_probs=29.6

Q ss_pred             ceeccCCcccCchhHHHHHh-ccccccCCCcccc
Q 023944          236 AMILPCGHSFGAAGVQHVIR-MKACYTCSRPVLE  268 (275)
Q Consensus       236 AMIl~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite  268 (275)
                      +++++|||.|-..=|..|++ ...||+|.++|..
T Consensus        56 ~~~l~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           56 ATELPCHHYFHKPCVSIWLQKSGTCPVCRCMFPP   89 (91)
T ss_dssp             EEEETTTEEEEHHHHHHHHTTTCBCTTTCCBSSC
T ss_pred             EEecCCCChHHHHHHHHHHHcCCcCcCcCccCCC
Confidence            77899999999999999877 7789999998864

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

Probab=97.08  E-value=0.00018  Score=73.84  Aligned_cols=54  Identities=19%  Similarity=0.283  Sum_probs=49.4

Q ss_pred             hhhcCcccccccccceeccCC-cccCchhHHHHHh-ccccccCCCccccCCCCCCC
Q 023944          222 AILSDPVTGNLMDDAMILPCG-HSFGAAGVQHVIR-MKACYTCSRPVLEDSIAPNL  275 (275)
Q Consensus       222 aILSDPlSGalMEDAMIl~CG-HSFG~~giq~Vi~-mk~C~lCs~~Ite~sL~PNl  275 (275)
                      .-+.||||+.+|.|+||+|.| |+|-+..|++|+. -.+||.=.++++...|+||+
T Consensus       890 ~~F~cPIs~~lM~DPVilpsG~~TydR~~I~~wl~~~~tdP~Tr~~L~~~~liPN~  945 (968)
T 3m62_A          890 DEFLDPLMYTIMKDPVILPASKMNIDRSTIKAHLLSDSTDPFNRMPLKLEDVTPNE  945 (968)
T ss_dssp             GGGBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGGGCEECH
T ss_pred             HHhCCcchhhHHhCCeEcCCCCEEECHHHHHHHHhcCCCCCCCCCCCCcccccccH
Confidence            457799999999999999998 6999999999886 78899999999999999994

>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=97.07  E-value=0.00011  Score=58.21  Aligned_cols=51  Identities=18%  Similarity=0.408  Sum_probs=43.9

Q ss_pred             hhhHhhhhcCcccccccccceeccCCcccCchhHHHHHhc--cccccCCCccc
Q 023944          217 GDSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIRM--KACYTCSRPVL  267 (275)
Q Consensus       217 ~eSLRaILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~m--k~C~lCs~~It  267 (275)
                      .+.|+.-|.=||-..+|.+++.++|||+|=..=|++|++.  ..||+|.++|.
T Consensus        25 ~~~l~~~~~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~   77 (141)
T 3knv_A           25 GTKLEAKYLCSACRNVLRRPFQAQCGHRYCSFCLASILSSGPQNCAACVHEGI   77 (141)
T ss_dssp             GGGCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHGGGSCEECHHHHHTTC
T ss_pred             hccCCcCcCCCCCChhhcCcEECCCCCccCHHHHHHHHhcCCCCCCCCCCccc
Confidence            3566777788999999999999999999999999999873  48999999864

>4ic3_A E3 ubiquitin-protein ligase XIAP; ring domain, zinc-finger, E3 ligase; 1.78A {Homo sapiens} PDB: 4ic2_A

Probab=96.96  E-value=0.00044  Score=48.63  Aligned_cols=47  Identities=17%  Similarity=0.226  Sum_probs=37.1

Q ss_pred             hHhhhhcCcccccccccceeccCCcc-cCchhHHHHHhccccccCCCcccc
Q 023944          219 SLRAILSDPVTGNLMDDAMILPCGHS-FGAAGVQHVIRMKACYTCSRPVLE  268 (275)
Q Consensus       219 SLRaILSDPlSGalMEDAMIl~CGHS-FG~~giq~Vi~mk~C~lCs~~Ite  268 (275)
                      .|+..+.=||=-..+.+++++||||. |=..=++++   ..||+|.++|+.
T Consensus        20 ~~~~~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~---~~CP~Cr~~i~~   67 (74)
T 4ic3_A           20 RLQEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAV---DKCPMCYTVITF   67 (74)
T ss_dssp             HHHHHTBCTTTSSSBCCEEEETTCCBCCCHHHHTTC---SBCTTTCCBCSE
T ss_pred             cCccCCCCCCCCCCCCCEEEcCCCChhHHHHhhhcC---ccCCCcCcCccC
Confidence            34444444666677889999999999 988877776   999999999974

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

Probab=96.94  E-value=0.00066  Score=47.55  Aligned_cols=47  Identities=15%  Similarity=0.215  Sum_probs=37.1

Q ss_pred             hHhhhhcCcccccccccceeccCCcc-cCchhHHHHHhccccccCCCcccc
Q 023944          219 SLRAILSDPVTGNLMDDAMILPCGHS-FGAAGVQHVIRMKACYTCSRPVLE  268 (275)
Q Consensus       219 SLRaILSDPlSGalMEDAMIl~CGHS-FG~~giq~Vi~mk~C~lCs~~Ite  268 (275)
                      .|+..+.=||=-..+.+++++||||+ |=..=++   +...||+|.++|..
T Consensus        21 ~~~~~~~C~IC~~~~~~~~~~pCgH~~~C~~C~~---~~~~CP~Cr~~i~~   68 (75)
T 2ecg_A           21 RLQEEKLCKICMDRNIAIVFVPCGHLVTCKQCAE---AVDKCPMCYTVITF   68 (75)
T ss_dssp             HHHHHHSCSSSCSSCCCBCCSSSCCCCBCHHHHH---HCSBCTTTCCBCCC
T ss_pred             cCCCCCCCCcCCCCCCCEEEecCCCHHHHHHHhh---CCCCCccCCceecC
Confidence            34455555677777899999999999 9877765   45899999999975

>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=96.64  E-value=0.0012  Score=48.45  Aligned_cols=32  Identities=19%  Similarity=0.343  Sum_probs=27.9

Q ss_pred             eccCCcccCchhHHHHHh------ccccccCCCccccC
Q 023944          238 ILPCGHSFGAAGVQHVIR------MKACYTCSRPVLED  269 (275)
Q Consensus       238 Il~CGHSFG~~giq~Vi~------mk~C~lCs~~Ite~  269 (275)
                      +++|||.|-..=|..|++      ...||+|.+++.+.
T Consensus        58 ~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T 1v87_A           58 LTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             ESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             cCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCC
Confidence            789999999999999984      56899999988643

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

Probab=96.61  E-value=0.0016  Score=44.54  Aligned_cols=35  Identities=31%  Similarity=0.585  Sum_probs=29.6

Q ss_pred             cceeccCCcccCchhHHHHHh-ccccccCCCccccC
Q 023944          235 DAMILPCGHSFGAAGVQHVIR-MKACYTCSRPVLED  269 (275)
Q Consensus       235 DAMIl~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite~  269 (275)
                      ..++++|||.|-..=|++|++ ...||+|.++|..-
T Consensus        30 ~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~   65 (74)
T 2ep4_A           30 ELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQL   65 (74)
T ss_dssp             CEEEETTTEEEEHHHHHHHHHHCSBCTTTCCBCSSC
T ss_pred             cEEEcCCCCEecHHHHHHHHHcCCcCCCcCcccccc
Confidence            345679999999999999877 67899999998753

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

Probab=96.60  E-value=0.00075  Score=48.16  Aligned_cols=35  Identities=17%  Similarity=0.431  Sum_probs=29.3

Q ss_pred             ceecc-CCcccCchhHHHHHh-ccccccCCCccccCC
Q 023944          236 AMILP-CGHSFGAAGVQHVIR-MKACYTCSRPVLEDS  270 (275)
Q Consensus       236 AMIl~-CGHSFG~~giq~Vi~-mk~C~lCs~~Ite~s  270 (275)
                      +++++ |||.|-..=|++|++ ..+||+|.+++....
T Consensus        42 ~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~~   78 (81)
T 2ecl_A           42 VVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVVQR   78 (81)
T ss_dssp             CEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCEEE
T ss_pred             EEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcchhh
Confidence            55555 999999999999877 678999999987553

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

Probab=96.52  E-value=0.0013  Score=47.73  Aligned_cols=39  Identities=26%  Similarity=0.493  Sum_probs=32.4

Q ss_pred             ccceecc--CCcccCchhHHHHHh--ccccccCCCccccCCCC
Q 023944          234 DDAMILP--CGHSFGAAGVQHVIR--MKACYTCSRPVLEDSIA  272 (275)
Q Consensus       234 EDAMIl~--CGHSFG~~giq~Vi~--mk~C~lCs~~Ite~sL~  272 (275)
                      .|..+++  |||+|=..=|+++.+  ...||.|.++++...+.
T Consensus        24 ~d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~~~   66 (78)
T 1e4u_A           24 DDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPAV   66 (78)
T ss_dssp             TTTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCSSC
T ss_pred             ccccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCCchh
Confidence            6777777  999999999999874  57899999999876653

>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=96.23  E-value=0.0019  Score=60.23  Aligned_cols=45  Identities=18%  Similarity=0.298  Sum_probs=37.7

Q ss_pred             cccccccccceeccCCcccCchhHHHHHh--ccccccCCCccccCCC
Q 023944          227 PVTGNLMDDAMILPCGHSFGAAGVQHVIR--MKACYTCSRPVLEDSI  271 (275)
Q Consensus       227 PlSGalMEDAMIl~CGHSFG~~giq~Vi~--mk~C~lCs~~Ite~sL  271 (275)
                      ||--..+.++++++|||.|=..=|+.|++  ...||.|.++|....+
T Consensus       336 ~ICle~~~~pv~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~~~  382 (389)
T 2y1n_A          336 KICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEP  382 (389)
T ss_dssp             TTTSSSBCCEEEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCEEEE
T ss_pred             CccCcCCCCeEEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCCcee
Confidence            45556678999999999998888999886  7899999999986543

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

Probab=96.13  E-value=0.0033  Score=44.26  Aligned_cols=34  Identities=26%  Similarity=0.502  Sum_probs=27.4

Q ss_pred             ccccceeccCCcc-cCchhHHHHHhccccccCCCcccc
Q 023944          232 LMDDAMILPCGHS-FGAAGVQHVIRMKACYTCSRPVLE  268 (275)
Q Consensus       232 lMEDAMIl~CGHS-FG~~giq~Vi~mk~C~lCs~~Ite  268 (275)
                      ..-+++++||||. |=..=++   +++.||+|.++|..
T Consensus        24 ~~~~~v~~pCgH~~~C~~C~~---~~~~CP~CR~~i~~   58 (68)
T 2ea5_A           24 GTVNWVLLPCRHTCLCDGCVK---YFQQCPMCRQFVQE   58 (68)
T ss_dssp             SCCCCEETTTTBCCSCTTHHH---HCSSCTTTCCCCCC
T ss_pred             CCCCEEEECCCChhhhHHHHh---cCCCCCCCCcchhc
Confidence            3467899999999 7666555   57999999999974

>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=96.08  E-value=0.003  Score=45.49  Aligned_cols=42  Identities=19%  Similarity=0.359  Sum_probs=31.5

Q ss_pred             hcCcccccccccceeccCCcc-cCchhHHHHHhccccccCCCcccc
Q 023944          224 LSDPVTGNLMDDAMILPCGHS-FGAAGVQHVIRMKACYTCSRPVLE  268 (275)
Q Consensus       224 LSDPlSGalMEDAMIl~CGHS-FG~~giq~Vi~mk~C~lCs~~Ite  268 (275)
                      +.=||=-....+++++||||. |=..=++++   +.||+|.++|..
T Consensus        19 ~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~~---~~CP~Cr~~i~~   61 (79)
T 2yho_A           19 MLCMVCCEEEINSTFCPCGHTVCCESCAAQL---QSCPVCRSRVEH   61 (79)
T ss_dssp             TBCTTTSSSBCCEEEETTCBCCBCHHHHTTC---SBCTTTCCBCCE
T ss_pred             CEeEEeCcccCcEEEECCCCHHHHHHHHHhc---CcCCCCCchhhC
Confidence            333555566788999999999 766555544   699999999974

>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=96.01  E-value=0.0026  Score=43.78  Aligned_cols=36  Identities=17%  Similarity=0.270  Sum_probs=28.2

Q ss_pred             cccceec--cCCcc-cCchhHHHHHh-ccccccCCCcccc
Q 023944          233 MDDAMIL--PCGHS-FGAAGVQHVIR-MKACYTCSRPVLE  268 (275)
Q Consensus       233 MEDAMIl--~CGHS-FG~~giq~Vi~-mk~C~lCs~~Ite  268 (275)
                      .-|++++  ||||. |=..=++++.+ .+.||+|.++|..
T Consensus        17 ~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~~   56 (63)
T 2vje_B           17 PRDGNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQL   56 (63)
T ss_dssp             BSCEEEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCCE
T ss_pred             CCCeEEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhhc
Confidence            3466666  99998 87777888665 5689999999963

>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=95.53  E-value=0.0058  Score=46.82  Aligned_cols=32  Identities=16%  Similarity=0.223  Sum_probs=28.0

Q ss_pred             ceeccCCcccCchhHHHHHh-ccccccCCCccc
Q 023944          236 AMILPCGHSFGAAGVQHVIR-MKACYTCSRPVL  267 (275)
Q Consensus       236 AMIl~CGHSFG~~giq~Vi~-mk~C~lCs~~It  267 (275)
                      .++++|||.|-..=|.+|++ ..+||+|.+++.
T Consensus        68 ~~~~~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~  100 (106)
T 3dpl_R           68 VAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  100 (106)
T ss_dssp             EEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             EeecccCcEECHHHHHHHHHcCCcCcCCCCcce
Confidence            46678999999999999886 778999999865

>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=95.49  E-value=0.0074  Score=41.63  Aligned_cols=35  Identities=20%  Similarity=0.413  Sum_probs=27.6

Q ss_pred             cccceec--cCCcc-cCchhHHHHHh-ccccccCCCccc
Q 023944          233 MDDAMIL--PCGHS-FGAAGVQHVIR-MKACYTCSRPVL  267 (275)
Q Consensus       233 MEDAMIl--~CGHS-FG~~giq~Vi~-mk~C~lCs~~It  267 (275)
                      ..|++++  ||||. |=..=++++.+ .+.||+|.++|+
T Consensus        18 ~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   56 (64)
T 2vje_A           18 PKNGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQ   56 (64)
T ss_dssp             CSCEEEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCC
T ss_pred             CCCEEEECCCCCChhhHHHHHHHHHHcCCcCCCcCcchh
Confidence            4566776  99999 66677777665 678999999996

>2d8s_A Cellular modulator of immune recognition; C-MIR, march8, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=95.29  E-value=0.014  Score=42.66  Aligned_cols=40  Identities=23%  Similarity=0.506  Sum_probs=33.3

Q ss_pred             ccceeccCC-----cccCchhHHHHHhcc---ccccCCCccccC-CCCC
Q 023944          234 DDAMILPCG-----HSFGAAGVQHVIRMK---ACYTCSRPVLED-SIAP  273 (275)
Q Consensus       234 EDAMIl~CG-----HSFG~~giq~Vi~mk---~C~lCs~~Ite~-sL~P  273 (275)
                      ++.+|+||.     |-|=..=|++|+..+   .|++|.+++... .+.|
T Consensus        28 ~~~l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~~~~P   76 (80)
T 2d8s_A           28 ESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMETKLSG   76 (80)
T ss_dssp             SSCEECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCCCCSCC
T ss_pred             CCeeEeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecCcccCC
Confidence            567899996     999999999999975   899999999743 3444

>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=94.70  E-value=0.014  Score=52.88  Aligned_cols=42  Identities=17%  Similarity=0.328  Sum_probs=35.1

Q ss_pred             hcCcccccccccceeccCCcc-cCchhHHHHHhccccccCCCcccc
Q 023944          224 LSDPVTGNLMDDAMILPCGHS-FGAAGVQHVIRMKACYTCSRPVLE  268 (275)
Q Consensus       224 LSDPlSGalMEDAMIl~CGHS-FG~~giq~Vi~mk~C~lCs~~Ite  268 (275)
                      +.=||=-..+.+++++||||+ |=..=++++   ..||+|.++|+.
T Consensus       296 ~~C~IC~~~~~~~v~lpCgH~~fC~~C~~~~---~~CP~CR~~i~~  338 (345)
T 3t6p_A          296 RTCKVCMDKEVSVVFIPCGHLVVCQECAPSL---RKCPICRGIIKG  338 (345)
T ss_dssp             CBCTTTSSSBCCEEEETTCCEEECTTTGGGC---SBCTTTCCBCCE
T ss_pred             CCCCccCCcCCceEEcCCCChhHhHHHHhcC---CcCCCCCCCccC
Confidence            444667778889999999999 988877766   899999999974

>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=94.05  E-value=0.0093  Score=47.02  Aligned_cols=32  Identities=16%  Similarity=0.181  Sum_probs=0.0

Q ss_pred             eeccCCcccCchhHHHHHh-ccccccCCCcccc
Q 023944          237 MILPCGHSFGAAGVQHVIR-MKACYTCSRPVLE  268 (275)
Q Consensus       237 MIl~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite  268 (275)
                      ++++|||.|-..=|.+|++ ...||+|.++...
T Consensus        80 ~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~~  112 (117)
T 4a0k_B           80 AWGVCNHAFHFHCISRWLKTRQVCPLDNREWEF  112 (117)
T ss_dssp             ---------------------------------
T ss_pred             ccCCcCceEcHHHHHHHHHcCCcCCCCCCeeee
Confidence            3458999999999999876 6789999998653

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

Probab=87.78  E-value=0.2  Score=47.44  Aligned_cols=30  Identities=13%  Similarity=0.248  Sum_probs=26.8

Q ss_pred             ccCCcccCchhHHHHHhc------------cccccCCCcccc
Q 023944          239 LPCGHSFGAAGVQHVIRM------------KACYTCSRPVLE  268 (275)
Q Consensus       239 l~CGHSFG~~giq~Vi~m------------k~C~lCs~~Ite  268 (275)
                      .+|||.|-+.-|.+|++.            ..||.|.++|+.
T Consensus       332 ~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~  373 (381)
T 3k1l_B          332 AKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLST  373 (381)
T ss_dssp             TTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEG
T ss_pred             CccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCc
Confidence            479999999999999985            579999999984

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

Probab=87.44  E-value=0.36  Score=35.36  Aligned_cols=28  Identities=18%  Similarity=0.333  Sum_probs=25.7

Q ss_pred             cCCcccCchhHHHHHhc---cccccCCCccc
Q 023944          240 PCGHSFGAAGVQHVIRM---KACYTCSRPVL  267 (275)
Q Consensus       240 ~CGHSFG~~giq~Vi~m---k~C~lCs~~It  267 (275)
                      .|+|.|=..=|.+|+++   .+||+|.++..
T Consensus        33 ~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~   63 (74)
T 2ct0_A           33 TCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP   63 (74)
T ss_dssp             SSCCEECHHHHHHHSTTCSSCCCTTTCSCCC
T ss_pred             CCCchhhHHHHHHHHHhcCCCCCCCCcCcCC
Confidence            89999999999999986   48999999876

>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication, ring E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus; 2.60A {Saccharomyces cerevisiae}

Probab=85.14  E-value=0.47  Score=44.35  Aligned_cols=54  Identities=22%  Similarity=0.225  Sum_probs=42.0

Q ss_pred             hHhhhhcCcccccccccceecc-CCcc--cCchhHHHHHh---ccccccCCCccccCCCC
Q 023944          219 SLRAILSDPVTGNLMDDAMILP-CGHS--FGAAGVQHVIR---MKACYTCSRPVLEDSIA  272 (275)
Q Consensus       219 SLRaILSDPlSGalMEDAMIl~-CGHS--FG~~giq~Vi~---mk~C~lCs~~Ite~sL~  272 (275)
                      +++-=|.+|||...|..++=.. |-|.  |....+-...+   .-.||+|++.+..++|.
T Consensus       245 s~~vSL~CPlS~~ri~~PvRg~~C~HlQCFDl~sfL~~~~~~~~W~CPIC~k~~~~~dL~  304 (371)
T 3i2d_A          245 STIMSLQCPISYTRMKYPSKSINCKHLQCFDALWFLHSQLQIPTWQCPVCQIDIALENLA  304 (371)
T ss_dssp             EEEEESBCTTTSSBCSSEEEETTCCSSCCEEHHHHHHHHHHSCCCBCTTTCCBCCGGGEE
T ss_pred             eeEEeecCCCccccccccCcCCcCCCcceECHHHHHHHhhcCCceeCCCCCcccCHHHee
Confidence            3344488999999998887655 9998  98877655433   67999999999887764

>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=84.70  E-value=0.25  Score=35.47  Aligned_cols=30  Identities=17%  Similarity=0.524  Sum_probs=24.0

Q ss_pred             cCCcccCchhHHHHHhc---------ccccc--CCCc--cccC
Q 023944          240 PCGHSFGAAGVQHVIRM---------KACYT--CSRP--VLED  269 (275)
Q Consensus       240 ~CGHSFG~~giq~Vi~m---------k~C~l--Cs~~--Ite~  269 (275)
                      +|||+|=..=|++.++.         ..||.  |.+.  ++.+
T Consensus        25 ~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~~~~~~~   67 (94)
T 1wim_A           25 QCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQEN   67 (94)
T ss_dssp             TTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSCCEECHH
T ss_pred             CCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCCCccCHH
Confidence            79999999888886553         37999  9998  6654

>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=81.74  E-value=0.8  Score=42.65  Aligned_cols=54  Identities=24%  Similarity=0.277  Sum_probs=42.4

Q ss_pred             hHhhhhcCcccccccccceecc-CCcc--cCchhHHHHHh---ccccccCCCccccCCCC
Q 023944          219 SLRAILSDPVTGNLMDDAMILP-CGHS--FGAAGVQHVIR---MKACYTCSRPVLEDSIA  272 (275)
Q Consensus       219 SLRaILSDPlSGalMEDAMIl~-CGHS--FG~~giq~Vi~---mk~C~lCs~~Ite~sL~  272 (275)
                      +++==|.+|||...|.-+.=.. |-|-  |.....-...+   .-.||+|++.+..++|.
T Consensus       211 ~~~vSL~CPlS~~ri~~P~Rg~~C~HlqCFDl~sfL~~~~~~~~W~CPiC~k~~~~~dL~  270 (360)
T 4fo9_A          211 SLRVSLMCPLGKMRLTIPCRAVTCTHLQCFDAALYLQMNEKKPTWICPVCDKKAAYESLI  270 (360)
T ss_dssp             CEEEESBCTTTCSBCSSEEEETTCCCCCCEEHHHHHHHHHHSCCCBCTTTCSBCCGGGEE
T ss_pred             eeEEeeeCCCccceeccCCcCCCCCCCccCCHHHHHHHHhhCCCeECCCCCcccCHHHeE
Confidence            4455578999999998877554 9998  99887666444   68999999999887764

---

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	275
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	1e-05
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	0.003

>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 = 40.8 bits (95), Expect = 1e-05
 Identities = 11/61 (18%), Positives = 26/61 (42%), Gaps = 4/61 (6%)

Query: 218 DSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIRMK----ACYTCSRPVLEDSIAP 273
           ++++ IL  P+   L+ + +   C H F    +  ++  K     C  C   + + S+  
Sbjct: 16  NAMQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQE 75

Query: 274 N 274
           +
Sbjct: 76  S 76

>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 = 32.9 bits (75), Expect = 0.003
 Identities = 9/49 (18%), Positives = 15/49 (30%), Gaps = 2/49 (4%)

Query: 227 PVTGNLMDDAMILPCGHSFGAAGVQHVIRMKACYTCSRPVLEDSIAPNL 275
                      +LPC H+  +  ++       C  C  P    +  P L
Sbjct: 10  QQCQAEAKCPKLLPCLHTLCSGCLEA--SGMQCPICQAPWPLGADTPAL 56

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	275
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.17
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	99.09
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.07
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	98.83
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	98.66
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.54
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	98.21
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	98.04
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	97.9
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	97.56
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	97.11
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	96.96
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	96.64
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	96.53
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	96.5
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	89.69

>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=99.17  E-value=3.9e-12  Score=90.12  Aligned_cols=54  Identities=19%  Similarity=0.373  Sum_probs=49.4

Q ss_pred             hhhcCcccccccccceeccCCcccCchhHHHHHh--ccccccCCCccccCCCCCCC
Q 023944          222 AILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIR--MKACYTCSRPVLEDSIAPNL  275 (275)
Q Consensus       222 aILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~--mk~C~lCs~~Ite~sL~PNl  275 (275)
                      .-|..||+..+|.|+|+++|||||-..-|++++.  ...||.|.++++.+.|.||+
T Consensus         6 ~~l~CpIc~~l~~dPv~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~~l~pN~   61 (80)
T d2c2la2           6 DYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPNL   61 (80)
T ss_dssp             STTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCEECH
T ss_pred             ccccCcCcCchhhhhcccCCcCeecHHHHHHHHhcCCccCCCccccccccccccHH
Confidence            4578999999999999999999999999999876  35799999999999999984

>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=99.09  E-value=1.6e-11  Score=91.32  Aligned_cols=54  Identities=22%  Similarity=0.332  Sum_probs=49.0

Q ss_pred             hhhcCcccccccccceeccCC-cccCchhHHHHHh-ccccccCCCccccCCCCCCC
Q 023944          222 AILSDPVTGNLMDDAMILPCG-HSFGAAGVQHVIR-MKACYTCSRPVLEDSIAPNL  275 (275)
Q Consensus       222 aILSDPlSGalMEDAMIl~CG-HSFG~~giq~Vi~-mk~C~lCs~~Ite~sL~PNl  275 (275)
                      .-|.+|||+.+|.|+||++|| |||.+..|++|+. ...||.|.++|+.+.|+||.
T Consensus        21 ~~f~CPI~~~lm~dPV~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~~L~pN~   76 (98)
T d1wgma_          21 DEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIRPNT   76 (98)
T ss_dssp             TTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTSEECH
T ss_pred             HHhCCcCchhHHHHHHhcccccchhhHHHHHHHHHhcCCcccccccccchhhcchH
Confidence            359999999999999999976 5999999999665 88999999999999999994

>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=99.07  E-value=1.5e-11  Score=86.50  Aligned_cols=57  Identities=21%  Similarity=0.488  Sum_probs=52.2

Q ss_pred             hHhhhhcCcccccccccceeccCCcccCchhHHHHHhc--cccccCCCccccCCCCCCC
Q 023944          219 SLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIRM--KACYTCSRPVLEDSIAPNL  275 (275)
Q Consensus       219 SLRaILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~m--k~C~lCs~~Ite~sL~PNl  275 (275)
                      .+..-|..||+..+|.|+|+++|||||-..-|+++++.  ..|+.|.++++...|+||+
T Consensus         4 eiP~~l~CpIc~~~m~dPV~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~~l~pN~   62 (78)
T d1t1ha_           4 EFPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNY   62 (78)
T ss_dssp             CCSSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCEECT
T ss_pred             CCCccCCCcCcCchhhCceEccCCCcchHHHHHHHHHHCCCCCCcccccCCcccccchH
Confidence            46677999999999999999999999999999999874  5699999999999999995

>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=98.83  E-value=5.5e-10  Score=75.39  Aligned_cols=51  Identities=10%  Similarity=0.184  Sum_probs=46.2

Q ss_pred             hcCcccccccccceecc-CCcccCchhHHHHHh-ccccccCCCccccCCCCCC
Q 023944          224 LSDPVTGNLMDDAMILP-CGHSFGAAGVQHVIR-MKACYTCSRPVLEDSIAPN  274 (275)
Q Consensus       224 LSDPlSGalMEDAMIl~-CGHSFG~~giq~Vi~-mk~C~lCs~~Ite~sL~PN  274 (275)
                      |.=||++.+|+|+|+++ |||.|-..-|++|++ .+.||.|.++++.+.|+|.
T Consensus         1 l~C~Ic~~~~~~Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~dLipi   53 (56)
T d2baya1           1 MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEIVEI   53 (56)
T ss_dssp             CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGCEEC
T ss_pred             CCCccCCchHHhcCccCCCCCcccHHHHHHHHhhccCCCccCCcCCHHhceeC
Confidence            34589999999999985 999999999999776 8999999999999999874

>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=98.66  E-value=1.3e-08  Score=74.44  Aligned_cols=58  Identities=17%  Similarity=0.416  Sum_probs=51.9

Q ss_pred             hhHhhhhcCcccccccccceeccCCcccCchhHHHHHhc----cccccCCCccccCCCCCCC
Q 023944          218 DSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIRM----KACYTCSRPVLEDSIAPNL  275 (275)
Q Consensus       218 eSLRaILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~m----k~C~lCs~~Ite~sL~PNl  275 (275)
                      ..|++.|.=||-..+|.|+++++|||+|-..=|.+|++.    ..||+|.++++...|.||+
T Consensus        16 ~~l~~~l~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~l~~n~   77 (103)
T d1jm7a_          16 NAMQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQEST   77 (103)
T ss_dssp             HHHHHHTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTCBCCC
T ss_pred             HhcccCcCCCccCchhCCeEEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCChhhCCcCH
Confidence            456777888999999999999999999999999998864    3799999999999999984

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.54  E-value=2.4e-08  Score=72.26  Aligned_cols=57  Identities=25%  Similarity=0.426  Sum_probs=51.0

Q ss_pred             hhhHhhhhcCcccccccccceec-cCCcccCchhHHHHHhccccccCCCccccCCCCCC
Q 023944          217 GDSLRAILSDPVTGNLMDDAMIL-PCGHSFGAAGVQHVIRMKACYTCSRPVLEDSIAPN  274 (275)
Q Consensus       217 ~eSLRaILSDPlSGalMEDAMIl-~CGHSFG~~giq~Vi~mk~C~lCs~~Ite~sL~PN  274 (275)
                      -+.|+..|.=||...+|.|+|.+ +|||+|-..=|++|+. ..||.|.++++...|.||
T Consensus        16 l~~l~~~l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~-~~CP~Cr~~~~~~~l~~n   73 (97)
T d1jm7b_          16 LDRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG-TGCPVCYTPAWIQDLKIN   73 (97)
T ss_dssp             HHHHHHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT-TBCSSSCCBCSCSSCCCC
T ss_pred             HHhhhhcCCCccCCchhhcCceeCCCCCchhHHHHHHHHh-ccccccCCcCchhhCccc
Confidence            35677888999999999999875 7999999999999986 459999999999999998

>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=98.21  E-value=4.9e-07  Score=66.40  Aligned_cols=56  Identities=14%  Similarity=0.360  Sum_probs=49.4

Q ss_pred             hhHhhhhcCcccccccccceeccCCcccCchhHHHHHh--ccccccCCCccccCCCCC
Q 023944          218 DSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIR--MKACYTCSRPVLEDSIAP  273 (275)
Q Consensus       218 eSLRaILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~--mk~C~lCs~~Ite~sL~P  273 (275)
                      +++...|+=||-...|.|+++++|||+|-..=|+++++  ...||+|.+++....|.|
T Consensus        18 ~d~~~~l~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~l~~   75 (86)
T d1rmda2          18 AHFVKSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLES   75 (86)
T ss_dssp             HHHHHHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCBC
T ss_pred             hhhccCcCCccCCcchhcceecCCCChhhHHHHHHHHhhCCCcCcccCCCCChhhccC
Confidence            56667788899999999999999999999999999886  357999999999888875

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.04  E-value=8e-07  Score=60.49  Aligned_cols=47  Identities=19%  Similarity=0.303  Sum_probs=40.4

Q ss_pred             cccccccccceeccCCcccCchhHHHHHhccccccCCCccccCCCCCCC
Q 023944          227 PVTGNLMDDAMILPCGHSFGAAGVQHVIRMKACYTCSRPVLEDSIAPNL  275 (275)
Q Consensus       227 PlSGalMEDAMIl~CGHSFG~~giq~Vi~mk~C~lCs~~Ite~sL~PNl  275 (275)
                      ||=...+.|+++++|||+|-..=|+++  ..+||+|.++|+....+|.|
T Consensus        10 ~IC~~~~~~p~~lpCgH~fC~~Ci~~~--~~~CP~Cr~~~~~~~~~~aL   56 (56)
T d1bora_          10 QQCQAEAKCPKLLPCLHTLCSGCLEAS--GMQCPICQAPWPLGADTPAL   56 (56)
T ss_dssp             SSSCSSCBCCSCSTTSCCSBTTTCSSS--SSSCSSCCSSSSCCSSCCCC
T ss_pred             cccCcccCCCEEecCCCHHhHHHHHcC--CCcCcCCCCcccCCCCCCCC
Confidence            455567789999999999999999864  67899999999999888876

>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=97.90  E-value=4.1e-06  Score=59.30  Aligned_cols=43  Identities=19%  Similarity=0.330  Sum_probs=36.7

Q ss_pred             cccccccccceeccCCcccCchhHHHHHh--ccccccCCCccccC
Q 023944          227 PVTGNLMDDAMILPCGHSFGAAGVQHVIR--MKACYTCSRPVLED  269 (275)
Q Consensus       227 PlSGalMEDAMIl~CGHSFG~~giq~Vi~--mk~C~lCs~~Ite~  269 (275)
                      ||--..+.+++|++|||.|=..=|.+|++  .+.||+|.++|...
T Consensus        27 ~IC~~~~~~~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~   71 (79)
T d1fbva4          27 KICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGT   71 (79)
T ss_dssp             TTTSSSBCCEECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCC
T ss_pred             ccCCCcCCCeEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCC
Confidence            45566778899999999999999999986  45799999999853

>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=97.56  E-value=2.3e-05  Score=53.58  Aligned_cols=35  Identities=34%  Similarity=0.604  Sum_probs=30.4

Q ss_pred             ccceeccCCcccCchhHHHHHh-ccccccCCCcccc
Q 023944          234 DDAMILPCGHSFGAAGVQHVIR-MKACYTCSRPVLE  268 (275)
Q Consensus       234 EDAMIl~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite  268 (275)
                      +.+++++|||+|=..=|++|++ ...||+|.++|+.
T Consensus        17 ~~~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~~   52 (68)
T d1chca_          17 NYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             SCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCcEEeCCCCcCcHHHHHHHHHhCCcCCCCCcchHh
Confidence            4467799999999999999877 8899999999863

>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=97.11  E-value=0.00013  Score=49.50  Aligned_cols=36  Identities=22%  Similarity=0.538  Sum_probs=30.4

Q ss_pred             ceeccCCcccCchhHHHHHh--ccccccCCCccccCCC
Q 023944          236 AMILPCGHSFGAAGVQHVIR--MKACYTCSRPVLEDSI  271 (275)
Q Consensus       236 AMIl~CGHSFG~~giq~Vi~--mk~C~lCs~~Ite~sL  271 (275)
                      .+|++|||.|-..=|++|++  ...||+|.++|....+
T Consensus        21 ~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~~~   58 (65)
T d1g25a_          21 LMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNF   58 (65)
T ss_dssp             EEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCCC
T ss_pred             EEeCccChHhhHHHHHHHhCcCcCCCCCCCcCcccccc
Confidence            36778999999999999975  4579999999987654

>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=96.96  E-value=0.00019  Score=47.02  Aligned_cols=33  Identities=21%  Similarity=0.382  Sum_probs=28.3

Q ss_pred             eeccCCcccCchhHHHHHhc--cccccCCCccccC
Q 023944          237 MILPCGHSFGAAGVQHVIRM--KACYTCSRPVLED  269 (275)
Q Consensus       237 MIl~CGHSFG~~giq~Vi~m--k~C~lCs~~Ite~  269 (275)
                      .+++|||.|-..=|++|++.  .+||+|.+++.++
T Consensus        18 ~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~d   52 (52)
T d1ur6b_          18 FPCTCGYQICRFCWHRIRTDENGLCPACRKPYPED   52 (52)
T ss_dssp             CSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCSCC
T ss_pred             EecCCCCccchHHHHHHHhhcCCCCCccCCcCCCC
Confidence            45689999999999999983  3699999999864

>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=96.64  E-value=0.00041  Score=46.19  Aligned_cols=32  Identities=34%  Similarity=0.609  Sum_probs=27.3

Q ss_pred             ceec-cCCcccCchhHHHHHh-ccccccCCCccc
Q 023944          236 AMIL-PCGHSFGAAGVQHVIR-MKACYTCSRPVL  267 (275)
Q Consensus       236 AMIl-~CGHSFG~~giq~Vi~-mk~C~lCs~~It  267 (275)
                      ++.+ +|||.|...=|++|++ ...||.|.++|.
T Consensus        21 ~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~   54 (55)
T d1iyma_          21 ARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             EEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEeE
Confidence            4445 5999999999999887 789999999874

>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=96.53  E-value=0.00049  Score=48.73  Aligned_cols=33  Identities=15%  Similarity=0.177  Sum_probs=29.3

Q ss_pred             ceeccCCcccCchhHHHHHh-ccccccCCCcccc
Q 023944          236 AMILPCGHSFGAAGVQHVIR-MKACYTCSRPVLE  268 (275)
Q Consensus       236 AMIl~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite  268 (275)
                      .++++|||-|...=|.+|++ ..+||+|.++...
T Consensus        52 ~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   85 (88)
T d3dplr1          52 VAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEF   85 (88)
T ss_dssp             EEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCCE
T ss_pred             eEEccccCcccHHHHHHHHHHCCcCCCCCCcccc
Confidence            47788999999999999988 7899999998753

>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=96.50  E-value=0.00069  Score=48.90  Aligned_cols=34  Identities=18%  Similarity=0.313  Sum_probs=28.9

Q ss_pred             ceeccCCcccCchhHHHHHhcc------ccccCCCccccC
Q 023944          236 AMILPCGHSFGAAGVQHVIRMK------ACYTCSRPVLED  269 (275)
Q Consensus       236 AMIl~CGHSFG~~giq~Vi~mk------~C~lCs~~Ite~  269 (275)
                      .++++|||.|-..=|..|++.+      +||+|.+.+.+.
T Consensus        56 ~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T d1v87a_          56 GRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             EEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             eEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhccC
Confidence            4678899999999999999864      699999887644

>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=89.69  E-value=0.11  Score=33.79  Aligned_cols=35  Identities=11%  Similarity=0.241  Sum_probs=27.5

Q ss_pred             ccceeccC-----CcccCchhHHHHHhc---cccccCCCcccc
Q 023944          234 DDAMILPC-----GHSFGAAGVQHVIRM---KACYTCSRPVLE  268 (275)
Q Consensus       234 EDAMIl~C-----GHSFG~~giq~Vi~m---k~C~lCs~~Ite  268 (275)
                      ++.++.+|     +|-|-..=|++|++.   .+||+|.+++..
T Consensus        17 ~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~~   59 (60)
T d1vyxa_          17 GNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             SCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeeec
Confidence            34555665     599999999999864   379999998764