Citrus Sinensis ID: 018110

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360
Protein Sequence
MELQLQRHRKFIKYSINEAATADICPSYCDLSDTSSFCSPPCLTSCPSYCHNFLQSLIPTPSPVTFKYHVHHKSRKFLIITASALATTIVAVLCYVVFVKFYLRRRSSSEPRILNETHDDFLDEDHGPVVDHPIWYINTVGLQSSVIREIAVLKYKKSDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKINHAARAPPSSSTWESNNEDSGTRESTQVGILTENGGRNDMESEIGAVERRNINERNDQDSDDEIQPIRRSVSLDSLSASKMIHALGNFDPEETTRNSDTQLAKERYLSVKTVPKKVGRSESLMRPLENAPVSLKRSLSCSGKFLL
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccHHHHHHccEEEEEccccccccccccccccccccccccccccccccccccccHHHHHccccccccccccccccccccccccccccccccccccccccccccccEEccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccEHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccHcccccccccHHHHHHccEEEEEccccccccccEEEEEccccccccEEEcccccccccHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccEEEEccccccccccccccccccccccccccccccccEEccccEcccccccccccccccccccccccccccccccccccccccccEEEEEccccccEEEccccccccccccccccEEEc
Coil and Loop (DISEMBL)
MELQLQRHRKFIKYSIneaatadicpsycdlsdtssfcsppcltscpsychnflqsliptpspvtfkyhvhhksRKFLIITASALATTIVAVLCYVVFVKFYLRrrssseprilnethddfldedhgpvvdhpiwYINTVGLQSSVIREIAVLKYkksdglvegtecsvclsefqedetlrllpkcnhafHISCIDTWlrshtncplcrspivkinhaarappssstwesnnedsgtrestqvgiltenggrndmeseiGAVErrninerndqdsddeiqpirrsvsldsLSASKMIHalgnfdpeettrnsdtqLAKERYLSvktvpkkvgrseslmrplenapvslkrslscsgkfll
Flexible Loop (DISEMBL)
MELQLQRHRKFIKYSINEAATADICPSYCDLSDTSSFCSPPCLTSCPSYCHNFLQSLIPTPSPVTFKYHVHHKSRKFLIITASALATTIVAVLCYVVFVKFYLrrrssseprilNETHDDFLDEDHGPVVDHPIWYINTVGLQSSVIREIAVLKYKKSDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKINHaarappssstwesnnedsgtrestqvgiltenggrndmeseigaverrninerndqdsddeiqpiRRSVSLDSLSASKMIHalgnfdpeettrnsdtqlakerylsvktvpkkvgrseslmrplenapvslkrslscsgkfll
Low Complexity Region (SEG)
MELQLQRHRKFIKYSINEAATADICPSYCDLSDTSSFCSPPCLTSCPSYCHNFLQSLIPTPSPVTFKYHVHHKSRKFLIITASALATTIVAVLCYVVFVKFYLRRRSSSEPRILNETHDDFLDEDHGPVVDHPIWYINTVGLQSSVIREIAVLKYKKSDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKINHAARAPPSSSTWESNNEDSGTRESTQVGILTENGGRNDMESEIGAVERRNINERNDQDSDDEIQPIRRSVSLDSLSASKMIHALGNFDPEETTRNSDTQLAKERYLSVKTVPKKVGRSESLMRPLENAPVSLKRSLSCSGKFLL
Disordered region (IsUnstruct)
********RKFIKYSINEAATADICPSYCDLSDTSSFCSPPCLTSCPSYCHNFLQSLIPTPSPVTFKYHVHHKSRKFLIITASALATTIVAVLCYVVFVKFYLRR********L**THDDFLDEDHGPVVDHPIWYINTVGLQSSVIREIAVLKYKKSDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKINH***********************************************************************************************************************************************
Disordered Region (DISOPRED)
**********FIKYSINEAATADICPSYCDLSDTSSFCSPPCLTSCPSYCHNFL*********************KFLIITASALATTIVAVLCYVVFVKFYLRRR***********************************L**SVIREIAVLKYKKSDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIV********************************************************************************************************************************************CSGKFLL
Disordered Region (DISEMBL)
MELQLQRHRKFIKYSINEAATADICPSYCDLSDTSSFCSPPCLTSCPSYCHNFLQSLIPTPSPVTFKYHVHHKSRKFLIITASALATTIVAVLCYVVFVKFYLRRRSSSEPRILNETHDDFLDEDHGPVVDHPIWYINTVGLQSSVIREIAVLKYKKSDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKINHA**********************TQVGILTENGGRNDMESEIGAVERRNINERNDQDSDDEIQPIRRSVSLDSLSASKMIHALGNFDPE*********LAKERYLSVKTVPKKVGRSESLMRPLENA****************
Disordered Region (DISPRO)
*ELQLQRHRKFIKYSINEAATADICPSYCDLSDTSSFCSPPCLTSCPSYCHNFLQSLIPTPSPVTFKYHVHHKSRKFLIITASALATTIVAVLCYVVFVKFYLRRR**************************PIWYINTVGLQSSVIREIAVLKYKKSDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIV************************************************************************************************************LSVKTVPKKVGRSESLMRPLEN*****************
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MELQLQRHRKFIKYSINEAATADICPSYCDLSDTSSFCSPPCLTSCPSYCHNFLQSLIPTPSPVTFKYHVHHKSRKFLIITASALATTIVAVLCYVVFVKFYLRRRSSSEPRILNETHDDFLDEDHGPVVDHPIWYINTVGLQSSVIREIAVLKYKKSDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKINHAARAPPSSSTWESNNEDSGTRESTQVGILTENGGRNDMESEIGAVERRNINERNDQDSDDEIQPIRRSVSLDSLSASKMIHALGNFDPEETTRNSDTQLAKERYLSVKTVPKKVGRSESLMRPLENAPVSLKRSLSCSGKFLL
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	360	2.2.26 [Sep-21-2011]
Q8LFY8	413	RING-H2 finger protein AT	no	no	0.386	0.336	0.503	4e-36
Q9LF64	362	RING-H2 finger protein AT	no	no	0.711	0.707	0.340	3e-32
Q9LX93	301	E3 ubiquitin-protein liga	no	no	0.277	0.332	0.567	2e-30
Q9SRQ8	356	RING-H2 finger protein AT	no	no	0.461	0.466	0.401	8e-29
P0C041	310	Putative RING-H2 finger p	no	no	0.461	0.535	0.358	1e-24
Q7XLY8	383	E3 ubiquitin-protein liga	no	no	0.386	0.362	0.402	4e-24
Q8GW38	369	RING-H2 finger protein AT	no	no	0.452	0.441	0.329	6e-23
Q84W40	404	RING-H2 finger protein AT	no	no	0.344	0.306	0.373	1e-20
P93823	381	RING-H2 finger protein AT	no	no	0.322	0.304	0.394	7e-20
Q9SL78	390	Putative RING-H2 finger p	no	no	0.344	0.317	0.384	9e-19

>sp|Q8LFY8|ATL54_ARATH RING-H2 finger protein ATL54 OS=Arabidopsis thaliana GN=ATL54 PE=2 SV=2

 Score =  152 bits (384), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 71/141 (50%), Positives = 90/141 (63%), Gaps = 2/141 (1%)

Query: 77  FLIITASALATTIVAVLCYVVFVKFYLRRRSSSEPRILNETHDDFLDEDHG--PVVDHPI 134
            + IT + LA  +        F    + R +    +  NE +D  ++E+      VDHPI
Sbjct: 85  IITITGAVLAILLTGFFLVAKFFSDSVNRVNQGTYQSDNEDNDTVMEEEFQDREQVDHPI 144

Query: 135 WYINTVGLQSSVIREIAVLKYKKSDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISC 194
           W I T GLQ S+I  I +  YK+ DGL+E T+C VCL+EF+EDE+LRLLPKCNHAFHISC
Sbjct: 145 WLIRTTGLQQSIINSITICNYKRGDGLIERTDCPVCLNEFEEDESLRLLPKCNHAFHISC 204

Query: 195 IDTWLRSHTNCPLCRSPIVKI 215
           IDTWL SHTNCPLCR+ I  I
Sbjct: 205 IDTWLSSHTNCPLCRAGIAMI 225

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LF64|ATL52_ARATH RING-H2 finger protein ATL52 OS=Arabidopsis thaliana GN=ATL52 PE=2 SV=1

 Score =  139 bits (350), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 98/288 (34%), Positives = 136/288 (47%), Gaps = 32/288 (11%)

Query: 42  CLTSCPSYCHNFLQSLIPTPSPVTFKYHVHHKSRKFLIITASALATTIVAVLCYVVFVKF 101
           C   CP +C+       P+                 LI     L + ++ V  Y +  K+
Sbjct: 22  CNIYCPQWCYLIFPPPPPSFFLDDDSSSSSSSFSPLLIALIGILTSALILVSYYTLISKY 81

Query: 102 YLRRRSSSEPRILNETHDDFLDEDHGPVVDHPIWYINTVGLQSSVIREIAVLKYKKSDGL 161
             R   +S    LN  H+       G          N  GL  S+I+ I V KYK  DG 
Sbjct: 82  CHRHHQTSSSETLNLNHNG-----EGFFSSTQRISTNGDGLNESMIKSITVYKYKSGDGF 136

Query: 162 VEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKINH-AAR 220
           V+G++CSVCLSEF+E+E+LRLLPKCNHAFH+ CIDTWL+SH+NCPLCR+ +  +N+  A 
Sbjct: 137 VDGSDCSVCLSEFEENESLRLLPKCNHAFHLPCIDTWLKSHSNCPLCRAFVTGVNNPTAS 196

Query: 221 APPSSSTWESNNEDSGTRESTQVGILTE-NGGRNDMESEIG------AVERRNINERNDQ 273
              + S   +N  +S    + Q G ++E N      ES+ G       +E   I  RN  
Sbjct: 197 VGQNVSVVVANQSNS----AHQTGSVSEINLNLAGYESQTGDFDSVVVIEDLEIGSRN-S 251

Query: 274 DSDDEIQ--------------PIRRSVSLDSLSASKMIHALGNFDPEE 307
           D+  E+Q              PIRRSVSL+S     +   L   + EE
Sbjct: 252 DARSELQLPEERRETKDEDSLPIRRSVSLNSGVVVSIADVLREIEDEE 299

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LX93|ATL55_ARATH E3 ubiquitin-protein ligase RING1 OS=Arabidopsis thaliana GN=ATL55 PE=1 SV=1

 Score =  133 bits (334), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 59/104 (56%), Positives = 77/104 (74%), Gaps = 4/104 (3%)

Query: 132 HPIWYINTVGLQSSVIREIAVLKYKKSDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFH 191
           H +W I TVGL  S I  I V+ +KK +G+++GTECSVCL+EF+EDE+LRLLPKC+HAFH
Sbjct: 100 HHVWQIPTVGLHRSAINSITVVGFKKGEGIIDGTECSVCLNEFEEDESLRLLPKCSHAFH 159

Query: 192 ISCIDTWLRSHTNCPLCRSPIVKINHAARAPPSSSTWESNNEDS 235
           ++CIDTWL SH NCPLCR+P++ I      PP   T  ++  DS
Sbjct: 160 LNCIDTWLLSHKNCPLCRAPVLLITE----PPHQETETNHQPDS 199

E3 ubiquitin-protein ligase that may be involved in positive regulation of programmed cell death (PCD) by facilitating degradation of negative regulators of PCD. May be involved in the early steps of the plant defense signaling pathway. Undergoes auto-ubiquitination.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9SRQ8|ATL51_ARATH RING-H2 finger protein ATL51 OS=Arabidopsis thaliana GN=ATL51 PE=2 SV=2

 Score =  128 bits (321), Expect = 8e-29,   Method: Compositional matrix adjust.
 Identities = 75/187 (40%), Positives = 98/187 (52%), Gaps = 21/187 (11%)

Query: 42  CLTSCPSYCHNFLQSLIPTPSPVTFKYHVHHKSRK-----FLIITASALATTIVAVLCYV 96
           C   CP +C+         P P +F       S        LI     LA+  + V  Y 
Sbjct: 25  CSVYCPQWCYVIF------PPPPSFYLDDEDDSSSSDFSPLLIALIGILASAFILVSYYT 78

Query: 97  VFVKFYLRRR---SSSEPRILNETHDDFLDEDHGPVVD-------HPIWYINTVGLQSSV 146
           +  K+  RRR   SS+    +N    D+  +      +         I      GL  S+
Sbjct: 79  LISKYCHRRRHNSSSTSAAAINRISSDYTWQGTNNNNNNGATNPNQTIGGGGGDGLDESL 138

Query: 147 IREIAVLKYKKSDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCP 206
           I+ I V KY+K DG VE ++CSVCLSEFQE+E+LRLLPKCNHAFH+ CIDTWL+SH+NCP
Sbjct: 139 IKSITVYKYRKMDGFVESSDCSVCLSEFQENESLRLLPKCNHAFHVPCIDTWLKSHSNCP 198

Query: 207 LCRSPIV 213
           LCR+ IV
Sbjct: 199 LCRAFIV 205

Arabidopsis thaliana (taxid: 3702)

>sp|P0C041|ATL53_ARATH Putative RING-H2 finger protein ATL53 OS=Arabidopsis thaliana GN=ATL53 PE=3 SV=2

 Score =  114 bits (285), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 66/184 (35%), Positives = 99/184 (53%), Gaps = 18/184 (9%)

Query: 42  CLTSCPSYCH--NFLQSLIPTPSPVTFKYHVH-----HKSRKFLIITASALATTIVAVLC 94
           C T CP +C   NF      +P P++++  ++     + +   L+I    +  T   +  
Sbjct: 24  CSTFCPQWCTYINF------SPPPISYEQFLNDGVASNPNLSPLVIAIFGIFATAFLLAA 77

Query: 95  YVVFVKFYLRRRSSSEPRILNETHDDFLD---EDHGPVVDHPIWYINTVGLQSSVIREIA 151
           Y   V  Y    +++E    +   D  LD    + G   D      +T GL  ++I++I 
Sbjct: 78  YYTLVSKYCANDTTNEAASESGRSDIILDVNSPERGDQDDPFALESSTAGLDDTLIKKIG 137

Query: 152 VLKYKK-SDGL-VEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCR 209
             K KK  +G  + GT+CS+CL EF EDE+LRLLPKCNH FH+ CID WL+SH+NCPLCR
Sbjct: 138 FFKLKKHQNGFKINGTDCSICLGEFNEDESLRLLPKCNHTFHVVCIDRWLKSHSNCPLCR 197

Query: 210 SPIV 213
           + I+
Sbjct: 198 AKII 201

Arabidopsis thaliana (taxid: 3702)

>sp|Q7XLY8|ATL41_ORYSJ E3 ubiquitin-protein ligase Os04g0590900 OS=Oryza sativa subsp. japonica GN=Os04g0590900 PE=2 SV=2

 Score =  112 bits (281), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 60/149 (40%), Positives = 89/149 (59%), Gaps = 10/149 (6%)

Query: 132 HPIWYINT-VGLQSSVIREIAVLKYKKSDGLVEGTECSVCLSEFQEDETLRLLPKCNHAF 190
           H  W ++   GL  ++I +I V KY++ DG V  T+CSVCL EF + E+LRLLP+C+HAF
Sbjct: 121 HESWNVSPPSGLDETLINKITVCKYRRGDGFVHTTDCSVCLGEFSDGESLRLLPRCSHAF 180

Query: 191 HISCIDTWLRSHTNCPLCRSPI--VKINHAARAPPSSSTWESNNEDSGTRESTQVGILTE 248
           H  CIDTWL+SH+NCPLCR+ I  V +  A+  P   +  E+  ++      T   ++  
Sbjct: 181 HQQCIDTWLKSHSNCPLCRANITFVTVGLASPEPEGCAPGETGGDN------THEVVVVM 234

Query: 249 NGGRNDMESEIGAVERRNINERNDQDSDD 277
           +G  N  E +  AV R +  + +D D+ D
Sbjct: 235 DGLENLCEEQQEAVSRASTAD-DDHDAKD 262

Possesses E3 ubiquitin-protein ligase in vitro.

Oryza sativa subsp. japonica (taxid: 39947)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q8GW38|ATL47_ARATH RING-H2 finger protein ATL47 OS=Arabidopsis thaliana GN=ATL47 PE=2 SV=1

 Score =  108 bits (270), Expect = 6e-23,   Method: Compositional matrix adjust.
 Identities = 58/176 (32%), Positives = 95/176 (53%), Gaps = 13/176 (7%)

Query: 60  TPSPVTFKYHV---------HHKSRKFLIITASALATTIVAVLCYVV--FVKFYLRRRSS 108
            PSP+T  + +            +R   II    +  +++  +C ++   V++YL+++ S
Sbjct: 24  APSPITLNHQLTDSSSSSSSGGNNRISPIILFIIVLLSVIFFICSILHLLVRYYLKKKRS 83

Query: 109 SEPRILNETHDD--FLDEDHGPVVDHPIWYINTVGLQSSVIREIAVLKYKKSDGLVEGTE 166
           +     NE++ +  F D D        +++++  GL  ++I  + V  YK+  G  E  +
Sbjct: 84  NLSSSPNESNQNPEFSDSDTYQRQLQQLFHLHDSGLDQALIDALPVFLYKEIKGTKEPFD 143

Query: 167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKINHAARAP 222
           C+VCL EF ED+ LRLLP C+HAFHI CIDTWL S++ CPLCR  +  + H    P
Sbjct: 144 CAVCLCEFSEDDKLRLLPNCSHAFHIDCIDTWLLSNSTCPLCRGTLFSLGHQFEYP 199

Arabidopsis thaliana (taxid: 3702)

>sp|Q84W40|ATL11_ARATH RING-H2 finger protein ATL11 OS=Arabidopsis thaliana GN=ATL11 PE=2 SV=2

 Score =  100 bits (249), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 53/142 (37%), Positives = 73/142 (51%), Gaps = 18/142 (12%)

Query: 81  TASALATTIVAVLCYVVFVKFYLRRRSSSEPRILNETHDDFLDEDHGPVVDHPIWYI--- 137
           T + L   +V+V  ++ F   Y+RR             +  +  D+G   D   W     
Sbjct: 62  TMAILMIVLVSVFFFLGFFSVYIRR-----------CLERVMGMDYGNPNDAGNWLATNR 110

Query: 138 -NTVGLQSSVIREIAVLKYKKSDGL---VEGTECSVCLSEFQEDETLRLLPKCNHAFHIS 193
               GL +S+I      +Y     L    E  ECSVCL+EF++DETLRL+PKC H FH  
Sbjct: 111 QQARGLDASIIETFPTFQYSTVKTLRIGKEALECSVCLNEFEDDETLRLIPKCCHVFHPG 170

Query: 194 CIDTWLRSHTNCPLCRSPIVKI 215
           CID WLRSHT CPLCR+ ++ +
Sbjct: 171 CIDAWLRSHTTCPLCRADLIPV 192

Arabidopsis thaliana (taxid: 3702)

>sp|P93823|ATL1_ARATH RING-H2 finger protein ATL1 OS=Arabidopsis thaliana GN=ATL1 PE=2 SV=1

 Score = 98.6 bits (244), Expect = 7e-20,   Method: Compositional matrix adjust.
 Identities = 60/152 (39%), Positives = 76/152 (50%), Gaps = 36/152 (23%)

Query: 79  IITASALATTIVAVLCYVVFVK----------FYLRRRSSSEPRILNETHDDFLDEDHGP 128
           I     LAT  + V  Y+  +K          F  RRRSS                D  P
Sbjct: 46  IAVIGILATAFLLVSYYIFVIKCCLNWHQIDIFRRRRRSS----------------DQNP 89

Query: 129 VVDHPIWYINTVGLQSSVIREIAVLKYKKSDGLVEG--------TECSVCLSEFQEDETL 180
           ++ +    +N  GL  S IR I V K+KK D +V G         ECSVCL+EFQEDE L
Sbjct: 90  LMIYSPHEVNR-GLDESAIRAIPVFKFKKRD-VVAGEEDQSKNSQECSVCLNEFQEDEKL 147

Query: 181 RLLPKCNHAFHISCIDTWLRSHTNCPLCRSPI 212
           R++P C H FHI CID WL+ + NCPLCR+ +
Sbjct: 148 RIIPNCCHVFHIDCIDIWLQGNANCPLCRTSV 179

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SL78|ATL12_ARATH Putative RING-H2 finger protein ATL12 OS=Arabidopsis thaliana GN=ATL12 PE=3 SV=1

 Score = 94.7 bits (234), Expect = 9e-19,   Method: Compositional matrix adjust.
 Identities = 48/125 (38%), Positives = 67/125 (53%), Gaps = 1/125 (0%)

Query: 141 GLQSSVIREIAVLKYKKSDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLR 200
           GL    I  +   ++    GL +G ECSVCLS+F++ E LRLLPKC HAFHI CID WL 
Sbjct: 98  GLDKKAIESLPFFRFSALKGLKQGLECSVCLSKFEDVEILRLLPKCRHAFHIGCIDQWLE 157

Query: 201 SHTNCPLCRSPIVKINHAARAPPSSSTWESNNEDSGTRESTQVGILTE-NGGRNDMESEI 259
            H  CPLCR+ +   +  +    SS++    N+     E +++ I  E   G ND  S  
Sbjct: 158 QHATCPLCRNRVNIEDDLSVLGNSSTSLRILNQSETREEDSRLEIYIEREEGTNDGSSRF 217

Query: 260 GAVER 264
            +  +
Sbjct: 218 SSFRK 222

Arabidopsis thaliana (taxid: 3702)

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	360
255563198	378	ring finger protein, putative [Ricinus c	0.938	0.894	0.470	2e-79
225465766	379	PREDICTED: RING-H2 finger protein ATL54	0.927	0.881	0.454	3e-72
147769273	404	hypothetical protein VITISV_008030 [Viti	0.941	0.839	0.377	3e-58
359492465	404	PREDICTED: RING-H2 finger protein ATL54-	0.941	0.839	0.377	3e-58
359480496	372	PREDICTED: uncharacterized protein LOC10	0.772	0.747	0.398	1e-56
255587015	344	ring finger protein, putative [Ricinus c	0.758	0.793	0.415	1e-55
388491910	360	unknown [Medicago truncatula]	0.85	0.85	0.397	1e-55
357476255	360	RING-H2 finger protein ATL1O [Medicago t	0.85	0.85	0.397	2e-55
224063285	389	predicted protein [Populus trichocarpa]	0.922	0.853	0.384	1e-54
449479061	360	PREDICTED: RING-H2 finger protein ATL54-	0.847	0.847	0.414	1e-53

>gi|255563198|ref|XP_002522602.1| ring finger protein, putative [Ricinus communis] gi|223538078|gb|EEF39689.1| ring finger protein, putative [Ricinus communis]

 Score =  302 bits (773), Expect = 2e-79,   Method: Compositional matrix adjust.
 Identities = 182/387 (47%), Positives = 234/387 (60%), Gaps = 49/387 (12%)

Query: 1   MELQLQRHRKFIKYSINEAATADICPSYCDLSDTSSFCSPPCLTSCPSYCHNFLQSLIPT 60
           M LQ    RK +  S NE A + IC S C L + +  C   C     SYC+      +P 
Sbjct: 1   MGLQF---RKLLDDSYNETALSKICSSKCVLEEDTYSCDGVC-----SYCYVNCSYKLPP 52

Query: 61  PSPVTFKYHVHHKSRKFLIITASALATTIVAVLCYVVFVKFYL--RRRSSSEPR-ILNET 117
           PS        H       +I    L++    V CY ++ KFY   RR  SS+P+   NET
Sbjct: 53  PS-------THRSISGKFLIAGLVLSSVFFLVFCYAIYYKFYSGSRRGRSSQPQDQRNET 105

Query: 118 -HDDFLDEDHGPVVDHPIWYINTVGLQSSVIREIAVLKYKKSDGLVEGTECSVCLSEFQE 176
            H++FLDEDHGP++DHP+WYINT+GLQ SVI  I+V KYK+ DGLVEGT+CSVCL+EF+E
Sbjct: 106 THEEFLDEDHGPILDHPVWYINTIGLQPSVINSISVCKYKRGDGLVEGTDCSVCLNEFEE 165

Query: 177 DETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKINHAARAPPSSSTWESNNEDSG 236
           DETLRLLPKC+HAFHI CIDTWLRSHTNCPLCR+PIV   ++ARA  S  T ES +    
Sbjct: 166 DETLRLLPKCSHAFHIPCIDTWLRSHTNCPLCRAPIVA--NSARATSSEGTSESLS---- 219

Query: 237 TRESTQVGILTENGGRNDMESEIGAVERR------------NINERND--QDSDDEIQPI 282
           + E T++G+ +EN   ++ E E G  E R            N  +R++     ++ IQPI
Sbjct: 220 SGEETRIGV-SENDQESERELEGGDGELRVGIEEEREVEDENTRKRSEFLNGEEEGIQPI 278

Query: 283 RRSVSLDSLSASKMIHALGNFDPEETTRNSDTQLAKERYLSVKTVPKKVGRSESLM---- 338
           RRSVSLDSLSA K+  AL +  P E+ RNS T L  E   S++ VPK+VG ++SL+    
Sbjct: 279 RRSVSLDSLSAFKISQALVSVCPVESDRNSRTGLVNESESSMEIVPKRVGSNQSLLKFMA 338

Query: 339 -----RPLENAPVSLKRSLSCSGKFLL 360
                R L+  P S+KRSLSC GK  L
Sbjct: 339 SSSIGRSLQIGPSSIKRSLSCGGKLFL 365

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225465766|ref|XP_002266755.1| PREDICTED: RING-H2 finger protein ATL54 [Vitis vinifera]

 Score =  278 bits (710), Expect = 3e-72,   Method: Compositional matrix adjust.
 Identities = 173/381 (45%), Positives = 217/381 (56%), Gaps = 47/381 (12%)

Query: 8   HRKFIKYSINEAATADICPSYCDL-SDTSSFCSPPCLTSCPSYCHNFLQSLIPTPSPVTF 66
           HRK    S N   T + C  YCD  S+ S  C P C + CP  C     +  P       
Sbjct: 5   HRKLFSDSDN---TTEECRWYCDSGSNDSGICPPSCCSDCPLVCSYSTSTRSPP------ 55

Query: 67  KYHVHHKSRKFLIITASALATTIVAVLCYVVFVKFYLRRRSSSEPRI---LNETHDDFLD 123
                 K   +L+I  S LATT   V  YV + K+Y RRR S            HDDF+D
Sbjct: 56  --RKAEKLSPYLVICLSVLATTFFVVFLYVFYKKYYSRRRLSRRRNSQAPAEGAHDDFID 113

Query: 124 EDHGPVVDHPIWYINTVGLQSSVIREIAVLKYKKSDGLVEGTECSVCLSEFQEDETLRLL 183
           ED  PVVDHPIWYI TVGLQ SVI  I + KYK+ DGLVEGTECSVCL+EF+EDE +RLL
Sbjct: 114 EDQEPVVDHPIWYIRTVGLQPSVISAITICKYKRGDGLVEGTECSVCLAEFEEDEAVRLL 173

Query: 184 PKCNHAFHISCIDTWLRSHTNCPLCRSPIVKINHAARAPPSSSTWESNNEDSGTRESTQV 243
           PKCNHAFHI CIDTWL SHTNCP+CR+ IV     A +P      E + E+SG  E  +V
Sbjct: 174 PKCNHAFHIPCIDTWLSSHTNCPMCRAGIVSSTAGAPSP------EQSVENSGPLEEARV 227

Query: 244 GILTENGGR-NDMESEIGAVE--------------RRNINERNDQDSDDEIQPIRRSVSL 288
            I  ENGG+  ++E E+  +                R+  E   ++  DEIQP+RRSVS+
Sbjct: 228 EI-PENGGQFEEIEDEVCELRIGREEEGELGGVENERSSCEVAKEEV-DEIQPMRRSVSM 285

Query: 289 DSLSASKMIHALGNFDPEETTRNSDTQLAKERYLSVKTVPKKVGRSESLM---------R 339
           DSLSAS +  AL N  P+++  NSD+QLA  +   +  VPK+VG ++SL+         R
Sbjct: 286 DSLSASMISLALANVHPQKSNGNSDSQLANSKKSIMPIVPKRVGGNQSLVKLMESSSMGR 345

Query: 340 PLENAPVSLKRSLSCSGKFLL 360
            L++   S+KRS SCSGK  L
Sbjct: 346 ILQSGSTSMKRSFSCSGKLFL 366

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147769273|emb|CAN61577.1| hypothetical protein VITISV_008030 [Vitis vinifera]

 Score =  231 bits (590), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 152/403 (37%), Positives = 206/403 (51%), Gaps = 64/403 (15%)

Query: 7   RHRKFIKYSINEAATADICPSYCDLSDTSSFCSPPCLTSCPSYCHNFLQSLIPTPSPV-- 64
           +HRK          + D C  +CD             ++CP  C+ +  SLIP P P   
Sbjct: 4   KHRKLFPTQTATNQSVD-CLDFCD-------------STCPYNCYIYPDSLIPPPPPASP 49

Query: 65  ------TFKYHVHHKSRKFLIITASALATTIVAVLCYVVFVKF--YLRRRSSSEPRILNE 116
                 T   +       ++IIT + LA   + V    + VK+    RRR+ S P   + 
Sbjct: 50  RPPTLSTLDQNDSPNISPYVIITVALLAGFFLLVCFNAIIVKYCCGWRRRNRSPPSESDG 109

Query: 117 THDDFLDEDHGPVVDHPIWYINTVGLQSSVIREIAVLKYKKSDGLVEGTECSVCLSEFQE 176
             ++FLDE+ GP +DHPIW+I T GLQ ++I  I V KYK+ +GL+EGTECSVCLSEFQE
Sbjct: 110 RDEEFLDENRGPAIDHPIWFITTAGLQQAIINSITVCKYKRGEGLIEGTECSVCLSEFQE 169

Query: 177 DETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK-----------INHAARAPPSS 225
           DETLRLLPKCNHAFHI CIDTWL SHTNCPLCR+ I+             N  +  P   
Sbjct: 170 DETLRLLPKCNHAFHIPCIDTWLSSHTNCPLCRARIISDIVNPPLESNDQNSRSLGPNEQ 229

Query: 226 STWESNNEDS----------GTREST-------QVGILT-ENGGRNDMESEIGAVERRNI 267
           +  E+++ D+          G  EST       ++ IL  E   +  + S    V   N 
Sbjct: 230 TQMENSSNDTELXNNLVRSRGVYESTVGRGGTGELQILDDERTSKEGVNSNGDVVLEVNG 289

Query: 268 NERNDQDSDDEIQPIRRSVSLDSLSASKMIHALGNFDPEETTRNSDTQLAKERYLSVKTV 327
           N  N+   D EIQP+RRSVS+DS SA+ +   L  F  +E+  N   +    R     +V
Sbjct: 290 NSANNHVVDSEIQPVRRSVSMDSSSAATIFFGLAKFHADESKGNWVDETMDGRKFDSGSV 349

Query: 328 PKK----------VGRSESLMRPLENAPVSLKRSLSCSGKFLL 360
           PK+          +G S S+ + L   P+S+KRS SC G+F L
Sbjct: 350 PKRDVAYTSTFRQMG-SPSIAQCLHKGPISMKRSNSCGGRFFL 391

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359492465|ref|XP_003634417.1| PREDICTED: RING-H2 finger protein ATL54-like [Vitis vinifera]

 Score =  231 bits (590), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 152/403 (37%), Positives = 206/403 (51%), Gaps = 64/403 (15%)

Query: 7   RHRKFIKYSINEAATADICPSYCDLSDTSSFCSPPCLTSCPSYCHNFLQSLIPTPSPV-- 64
           +HRK          + D C  +CD             ++CP  C+ +  SLIP P P   
Sbjct: 4   KHRKLFPTQTATNQSVD-CLDFCD-------------STCPYNCYIYPDSLIPPPPPASP 49

Query: 65  ------TFKYHVHHKSRKFLIITASALATTIVAVLCYVVFVKF--YLRRRSSSEPRILNE 116
                 T   +       ++IIT + LA   + V    + VK+    RRR+ S P   + 
Sbjct: 50  RPPTLSTLDQNDSPNISPYVIITVALLAGFFLLVCFNAIIVKYCCGWRRRNRSPPSESDG 109

Query: 117 THDDFLDEDHGPVVDHPIWYINTVGLQSSVIREIAVLKYKKSDGLVEGTECSVCLSEFQE 176
             ++FLDE+ GP +DHPIW+I T GLQ ++I  I V KYK+ +GL+EGTECSVCLSEFQE
Sbjct: 110 RDEEFLDENRGPAIDHPIWFITTAGLQQAIINSITVCKYKRGEGLIEGTECSVCLSEFQE 169

Query: 177 DETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK-----------INHAARAPPSS 225
           DETLRLLPKCNHAFHI CIDTWL SHTNCPLCR+ I+             N  +  P   
Sbjct: 170 DETLRLLPKCNHAFHIPCIDTWLSSHTNCPLCRARIISDIVNPPLESNDQNSRSLGPNEQ 229

Query: 226 STWESNNEDS----------GTREST-------QVGILT-ENGGRNDMESEIGAVERRNI 267
           +  E+++ D+          G  EST       ++ IL  E   +  + S    V   N 
Sbjct: 230 TQMENSSNDTELDNNLVRSRGVYESTVGRGGTGELQILDDERTSKEGVNSNGDVVLEVNG 289

Query: 268 NERNDQDSDDEIQPIRRSVSLDSLSASKMIHALGNFDPEETTRNSDTQLAKERYLSVKTV 327
           N  N+   D EIQP+RRSVS+DS SA+ +   L  F  +E+  N   +    R     +V
Sbjct: 290 NSANNHVVDSEIQPVRRSVSMDSSSAATIFFGLAKFHADESKGNWVDETMDGRKFDSGSV 349

Query: 328 PKK----------VGRSESLMRPLENAPVSLKRSLSCSGKFLL 360
           PK+          +G S S+ + L   P+S+KRS SC G+F L
Sbjct: 350 PKRDVAYTSTFRQMG-SPSIAQCLHKGPISMKRSNSCGGRFFL 391

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359480496|ref|XP_003632477.1| PREDICTED: uncharacterized protein LOC100854068 [Vitis vinifera]

 Score =  226 bits (576), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 130/326 (39%), Positives = 182/326 (55%), Gaps = 48/326 (14%)

Query: 72  HKSRKFLIITASALATTIVAVLCYVVFVKFY--LRRRSSSEPRILNETHDDFLDEDHGPV 129
           H+    LI     L      V C  V +K+Y    R   S+P + N TH+DF+DE+  PV
Sbjct: 32  HEISPILIFIVCTLGAVFFVVSCCTVVLKYYSGWNRSRRSDPPVQNHTHEDFIDEEQSPV 91

Query: 130 VDHPIWYINTVGLQSSVIREIAVLKYKKSDGLVEGTECSVCLSEFQEDETLRLLPKCNHA 189
           V HPIW INTVGLQ SVI  I V+KY K +GL+EGTECSVCL EF+EDE+LRLLPKC+HA
Sbjct: 92  VYHPIWLINTVGLQQSVIDLITVIKYNKEEGLIEGTECSVCLGEFEEDESLRLLPKCSHA 151

Query: 190 FHISCIDTWLRSHTNCPLCRSPIVKINHAARAPPSSSTWESNNEDSGTRESTQV------ 243
           FH+ CIDTWLRSH NCPLCR+PI+  N  +      +  E ++ DSG+RE  ++      
Sbjct: 152 FHVPCIDTWLRSHKNCPLCRAPIIHENVGSHL----NAVEQDSNDSGSREDMEIDNSETH 207

Query: 244 -GILTE---NGGRNDMESEIGAVERRNINE-----------------------RNDQDSD 276
            G+ +     GG  ++   + AVE    NE                        N + S+
Sbjct: 208 SGLGSSEVGEGGTAEVGVGVLAVEEARTNEIVRKGLPYMNAGKYELRVLSDLVDNHRASE 267

Query: 277 DEIQPIRRSVSLDSLSASKMIHALGNFDPEETTRNSDTQLAKERYLSVKTVPKKVGRSES 336
           ++I+P+RRSVS+D  +AS++  A+ N  P E    SD +    + L+++ V ++  R+ S
Sbjct: 268 EQIEPVRRSVSMDLSAASEIYLAMANAVPVEHEGTSDMRSVPGKKLNLEIVARQSCRNSS 327

Query: 337 LMR---------PLENAPVSLKRSLS 353
           L +          L   P+S+K+SLS
Sbjct: 328 LYKLMKSSSIGCSLHRGPLSMKKSLS 353

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255587015|ref|XP_002534099.1| ring finger protein, putative [Ricinus communis] gi|223525847|gb|EEF28281.1| ring finger protein, putative [Ricinus communis]

 Score =  223 bits (568), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 132/318 (41%), Positives = 179/318 (56%), Gaps = 45/318 (14%)

Query: 77  FLIITASALATTIVAVLCYVVFVKFYLRRRSSSEPRILNETHDDFLDEDHGPVVDHPIWY 136
            +I+     A  +V +L  ++  +  +  RS S P I+  T +DFLDED GP +DHPIWY
Sbjct: 1   MIIMGGFIGAAILVCILATILRARNRISTRSRSLPPIIFATQEDFLDEDQGPQLDHPIWY 60

Query: 137 INTVGLQSSVIREIAVLKYKKSDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCID 196
           INTVGLQ SVI  IAV KYKK +GL+EGTECSVCL+EFQEDE+LRLLPKC+HAFHI CID
Sbjct: 61  INTVGLQQSVIDSIAVFKYKKDEGLIEGTECSVCLNEFQEDESLRLLPKCSHAFHIPCID 120

Query: 197 TWLRSHTNCPLCRSPIVKINHAARA--PPSSSTWESNNEDSGTREST-QVGILT------ 247
           TWLRSH NCPLCR+P++  N   +   P S+S+  S+   S T  ST   G++T      
Sbjct: 121 TWLRSHKNCPLCRAPVISDNFDVQVELPESTSSDLSSTGGSQTENSTNNSGLITISNSVG 180

Query: 248 ENGGRNDMESE------------IGAVERRNIN-------ERNDQDSDD-------EIQP 281
           E+G     + +            IG   +  +N        R   D  D       E+QP
Sbjct: 181 EDGTDEVRDGDDTNCALPIEDETIGGNSKTGLNFAVLGNHSRVQSDLVDTRLTIKAEMQP 240

Query: 282 IRRSVSLDSLSASKMIHALGNFDPEETTRNSDTQLAKERYLSVKTVPK----------KV 331
           +RRS SLDS SA  +  ++G   P +   N D Q+ + ++   K V K          K+
Sbjct: 241 VRRSASLDSSSAMAIYSSVGKVIPGKHGENLDIQMVRLKHSKSKNVLKRGSNGNISFRKL 300

Query: 332 GRSESLMRPLENAPVSLK 349
            +S S+   L+ AP+++K
Sbjct: 301 MKSSSISHALQKAPIAMK 318

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388491910|gb|AFK34021.1| unknown [Medicago truncatula]

 Score =  223 bits (567), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 141/355 (39%), Positives = 195/355 (54%), Gaps = 49/355 (13%)

Query: 32  SDTSSFCSPPCLTSCPSYCHN---FLQSLIPTPSPVTFKYHVHHKSRKFLIITASALATT 88
           S+    C   C T+  S C N   F  S  P P+P     H  HK+  +LII+ S +A  
Sbjct: 12  SECERICDEDCTTATSSNCVNCLKFCNSYNPPPTPSD---HTKHKTTTYLIISFSIVAVI 68

Query: 89  IVAVLCYVVFVKFY-----------LRRRSSSEPRILNETHDDFLDEDHGPVVDHPIWYI 137
            + + CY  +VKF+           L R+ + +  ++ E HDD      G VVDHPIWYI
Sbjct: 69  FLVLCCYAFYVKFFSRRNRSRRRALLTRQQTEQGFVVGEEHDD------GSVVDHPIWYI 122

Query: 138 NTVGLQSSVIREIAVLKYKKSDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDT 197
            T GLQ S+I  I V+KYKK +GL++G++CSVCLSEF+EDE LRLLPKCNHAFH+ CIDT
Sbjct: 123 RTPGLQQSIINAITVVKYKKDEGLIDGSDCSVCLSEFEEDENLRLLPKCNHAFHLPCIDT 182

Query: 198 WLRSHTNCPLCRSPIVKINHAARAPPSSSTWESNNEDSGTRESTQVGILTENGGRND--- 254
           WLRSH NCP+CR+PIV      R P        + E +   ES+Q+ +   + G  D   
Sbjct: 183 WLRSHINCPMCRAPIVV--DPLRIP--------SMEPNVFVESSQIEVFENSDGNGDSVV 232

Query: 255 ---------MESEIGAVERRNINERNDQDSDDEIQPIRRSVSLDSLSASKMIHALGNFDP 305
                       E+    RR   + +       +QP RRSVSLDS +A+K+  AL  F  
Sbjct: 233 SQLRNGEEEPGEEVEENGRRACEDGSSGLEMVNMQP-RRSVSLDSSAAAKINLALSKFLS 291

Query: 306 EETTRNSDTQLAKERYLSVKTVPKKVGRSESLMRPLENAPVSLKRSLSCSGKFLL 360
            E+ RN + +   E  ++ + V KKVG + +++  + +AP S+ RS S +GK LL
Sbjct: 292 VESQRNCNREQVGE--VNEQIVSKKVGENGNMVN-MHSAPCSMNRSRSFNGKHLL 343

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357476255|ref|XP_003608413.1| RING-H2 finger protein ATL1O [Medicago truncatula] gi|355509468|gb|AES90610.1| RING-H2 finger protein ATL1O [Medicago truncatula]

 Score =  222 bits (566), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 141/355 (39%), Positives = 195/355 (54%), Gaps = 49/355 (13%)

Query: 32  SDTSSFCSPPCLTSCPSYCHN---FLQSLIPTPSPVTFKYHVHHKSRKFLIITASALATT 88
           S+    C   C T+  S C N   F  S  P P+P     H  HK+  +LII+ S +A  
Sbjct: 12  SECERICDEDCTTATSSNCVNCLKFCNSYNPPPTPSD---HTKHKTTTYLIISFSIVAAI 68

Query: 89  IVAVLCYVVFVKFY-----------LRRRSSSEPRILNETHDDFLDEDHGPVVDHPIWYI 137
            + + CY  +VKF+           L R+ + +  ++ E HDD      G VVDHPIWYI
Sbjct: 69  FLVLCCYAFYVKFFSRRNRSRRRALLTRQQTEQGFVVGEEHDD------GSVVDHPIWYI 122

Query: 138 NTVGLQSSVIREIAVLKYKKSDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDT 197
            T GLQ S+I  I V+KYKK +GL++G++CSVCLSEF+EDE LRLLPKCNHAFH+ CIDT
Sbjct: 123 RTPGLQQSIINAITVVKYKKDEGLIDGSDCSVCLSEFEEDENLRLLPKCNHAFHLPCIDT 182

Query: 198 WLRSHTNCPLCRSPIVKINHAARAPPSSSTWESNNEDSGTRESTQVGILTENGGRND--- 254
           WLRSH NCP+CR+PIV      R P        + E +   ES+Q+ +   + G  D   
Sbjct: 183 WLRSHINCPMCRAPIVV--DPLRIP--------SMEPNVFVESSQIEVFENSDGNGDSVV 232

Query: 255 ---------MESEIGAVERRNINERNDQDSDDEIQPIRRSVSLDSLSASKMIHALGNFDP 305
                       E+    RR   + +       +QP RRSVSLDS +A+K+  AL  F  
Sbjct: 233 SQLRNGEEEPGEEVEENGRRVCEDGSSGLEMVNMQP-RRSVSLDSSAAAKINLALSKFLS 291

Query: 306 EETTRNSDTQLAKERYLSVKTVPKKVGRSESLMRPLENAPVSLKRSLSCSGKFLL 360
            E+ RN + +   E  ++ + V KKVG + +++  + +AP S+ RS S +GK LL
Sbjct: 292 VESQRNCNREQVGE--VNEQIVSKKVGENGNMVN-MHSAPCSMNRSRSFNGKHLL 343

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224063285|ref|XP_002301077.1| predicted protein [Populus trichocarpa] gi|222842803|gb|EEE80350.1| predicted protein [Populus trichocarpa]

 Score =  219 bits (559), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 151/393 (38%), Positives = 205/393 (52%), Gaps = 61/393 (15%)

Query: 7   RHRKFIKYSINEAATADICPSYCDLSDTSSFCSPPCLTSCPSYCHNFLQSLIPTPSPVTF 66
           +HRK          T D CP +CD              +CP  C+ +    +  P P   
Sbjct: 4   KHRKLFPIGTETNQTID-CPDFCD-------------PACPYNCYPYSDYYLLPPPPPPP 49

Query: 67  KYHVHHKSRKFLIITASALATTIVAVLCYVVFVK---FYLRRRSSSEPRIL-NETHDDFL 122
                H    ++II  + LA+  + V  YV+  K    +   R+++EP+   ++T ++FL
Sbjct: 50  FLPQEHHLSPYVIIIVALLASFFLIVSYYVIVAKSCSGWCGSRNNTEPQAQEDDTDEEFL 109

Query: 123 DEDHGPVVDHPIWYINTVGLQSSVIREIAVLKYKKSDGLVEGTECSVCLSEFQEDETLRL 182
           DE+    VDHPIW+I T+GLQ S+I  I V KYKK +GL+EGTECSVCLSEFQ+DETLRL
Sbjct: 110 DENR---VDHPIWFITTIGLQQSIINSITVCKYKKGEGLIEGTECSVCLSEFQQDETLRL 166

Query: 183 LPKCNHAFHISCIDTWLRSHTNCPLCR---------SPIVKI--NHAARAPPSSSTWESN 231
           LPKCNHAFHISCIDTWLRSHTNCPLCR         +P++ +  NH    P  S+  E++
Sbjct: 167 LPKCNHAFHISCIDTWLRSHTNCPLCRTHIINGPASTPLISVGQNHDNLNPTFSTQMENS 226

Query: 232 NEDSGTRESTQVGILTENGGRNDMESEIGAV--ERRNINERNDQD--------------- 274
           + DSG   + +     EN    +   EI  V  ER   +E N  D               
Sbjct: 227 DVDSGLGNNQESNEPCENRAGTEEVGEILQVGEERTLKDEVNSNDIGDLQVLCSSVDKHQ 286

Query: 275 -SDDEIQPIRRSVSLDSLSASKMIHALGN-------FDPEETTRNSDTQLAKERYLSVKT 326
             D++I+ +RRS S+DSL A+ M   L +        D +E  R S+  L ++   S  +
Sbjct: 287 AEDNDIKLLRRSSSMDSLRATTMCIGLNDHKNLVNQIDIDE-ERKSNMVLKRDGGYS--S 343

Query: 327 VPKKVGRSESLMRPLENAPVSLKRSLSCSGKFL 359
           V K  G S S    L   PVS+KRS SC G+F 
Sbjct: 344 VFKLTGTS-SFSLSLHKGPVSMKRSFSCGGRFF 375

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449479061|ref|XP_004155494.1| PREDICTED: RING-H2 finger protein ATL54-like [Cucumis sativus]

 Score =  216 bits (551), Expect = 1e-53,   Method: Compositional matrix adjust.
 Identities = 141/340 (41%), Positives = 189/340 (55%), Gaps = 35/340 (10%)

Query: 35  SSFCSPPCLTSCPSYCHNFLQSLIPTPSP---VTFKYHVHHKSRKFLIITASALATTIVA 91
           S  CS  CL  C  YC+N    + P  +     T      HK    +  T + L+ T + 
Sbjct: 29  SDSCSSDCLEKCRDYCYNINIPIRPPDADHINPTSSIKSPHKLSNLVTSTIALLSFTFLL 88

Query: 92  VLCYVVFVKFYL--RRRSSSEPRILNETHD--DFLDEDHGPVVDHPIWYINTVGLQSSVI 147
           VLCY ++ +FY   RRR         ETH   DFLDE+ GPV+DHPIWYI T+GL  +VI
Sbjct: 89  VLCYAIYARFYAGRRRRIRLPDPPPPETHHQHDFLDEEQGPVLDHPIWYIRTIGLPPAVI 148

Query: 148 REIAVLKYKKSDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPL 207
             IAV K+K  +GL++GTECSVCLSEF+EDETLRLLPKC+HAFH+ CIDTWLRSHTNCP+
Sbjct: 149 DAIAVCKFKSGEGLIDGTECSVCLSEFEEDETLRLLPKCSHAFHLPCIDTWLRSHTNCPM 208

Query: 208 CRSPIVKINHAA-------RAPPSSSTWESNNEDSGTRESTQVGILTENGGRNDMESEIG 260
           CR+P+V  + AA       R P  +   E        RE      L E+  R + E E  
Sbjct: 209 CRAPVVAQSAAAAASPPQLRPPAETQIGELQ------REEGDGANLGESSARTEEEQEEQ 262

Query: 261 AVERRNINERNDQDSDDEIQPIRRSVSLDSLSASKMIHALGNFDPEETTRNSDTQLAKER 320
             +  +  + + ++   +IQP+RRSVSLDSLSA ++              +SD     E+
Sbjct: 263 EEQETHFADEDLEERSSDIQPMRRSVSLDSLSALRI--------------SSDFANVNEK 308

Query: 321 YLSVKTVPKKVGRSESLMRPLENAPVSLKRSLSCSGKFLL 360
             S     ++ G+  S  R   ++  S+ RS+SCSGKFL+
Sbjct: 309 MDSEAETIQRNGKKSSQGRG-HSSTSSMNRSVSCSGKFLM 347

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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	360
TAIR|locus:505006547	367	AT4G33565 [Arabidopsis thalian	0.811	0.795	0.406	2.4e-51
TAIR|locus:2207066	413	AT1G72220 [Arabidopsis thalian	0.736	0.641	0.363	2.4e-37
TAIR|locus:2151421	362	AT5G17600 [Arabidopsis thalian	0.677	0.674	0.348	6.7e-33
TAIR|locus:2142449	301	RING1 [Arabidopsis thaliana (t	0.572	0.684	0.384	8.5e-33
TAIR|locus:2096444	356	AT3G03550 [Arabidopsis thalian	0.686	0.693	0.356	7.7e-32
UNIPROTKB|Q7XLY8	383	LOC_Os04g50100 "E3 ubiquitin-p	0.691	0.650	0.298	1e-27
TAIR|locus:4515103413	310	ATL4H [Arabidopsis thaliana (t	0.466	0.541	0.351	3.2e-26
TAIR|locus:2199902	369	AT1G23980 [Arabidopsis thalian	0.594	0.579	0.3	1.6e-24
TAIR|locus:2018334	381	AT1G04360 [Arabidopsis thalian	0.380	0.359	0.388	2.1e-21
TAIR|locus:2081740	257	ATL5 "AtL5" [Arabidopsis thali	0.411	0.575	0.318	2e-19

TAIR|locus:505006547 AT4G33565 [Arabidopsis thaliana (taxid:3702)]

 Score = 533 (192.7 bits), Expect = 2.4e-51, P = 2.4e-51
 Identities = 131/322 (40%), Positives = 183/322 (56%)

Query:     1 MELQLQR--HRKFIKYSINEAATADICPSYC--DLSDTSSFCSPPCLTSCPSYCHNFLQS 56
             +E ++ R  HR  ++    E  +  +C + C  +L  T  +CS  CL  CPS C   + S
Sbjct:    49 LEARIMRFLHRFLLEDMPKETFSDSLCKNNCIQELK-TLGYCSSYCLDECPSICEIVVIS 107

Query:    57 LIPTPSPVTFKYHVHHKSRKFLIITASALATTIVAVLCYVVFVKFYLRRRSS---SEPRI 113
              +  P+ +    H     ++ LII+AS++ TT+  +   V+  KFY RRR S   S    
Sbjct:   108 GLSPPAEI----HHDDNLKRILIISASSIITTLFLLTLLVLCFKFYYRRRRSITTSRRWS 163

Query:   114 LNETHD-DFLDEDHGPVVDHPIWYINTVGLQSSVIREIAVLKYKKSDGLVEGTECSVCLS 172
             + E  + DF D     +VDHPIW+I T+GL  +VI  I V +Y K DG+VEGT+CSVCLS
Sbjct:   164 MEEARNWDF-DGPAPVIVDHPIWHIRTIGLNPTVISSIKVCQYSKKDGVVEGTDCSVCLS 222

Query:   173 EFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKINHAARAPPSSSTWESNN 232
             EF+E+ETLRLLPKC HAFH+ CIDTWLRSHTNCPLCR+PIV+ N         +  + ++
Sbjct:   223 EFEEEETLRLLPKCKHAFHLYCIDTWLRSHTNCPLCRAPIVEAN---------TMIDDHS 273

Query:   233 EDSGTRESTQVGILTENGGRNDMESEIGAVERRNINERNDQD-SDDEIQPIRRSVSLDSL 291
             E  G  E + V I  ENG   D E E    ER        +D  + + Q +RRSVSLDSL
Sbjct:   274 E--GLEEIS-VMIPEENGDDTDEEIE---EERDGFVSNISRDHGESQQQRVRRSVSLDSL 327

Query:   292 SASKMIHALGNFDPEETTRNSD 313
             S  ++   +   + E+  R ++
Sbjct:   328 SGLRVSEVVVGREKEKLKRGNN 349

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

GO:0005886 "plasma membrane" evidence=IDA

TAIR|locus:2207066 AT1G72220 [Arabidopsis thaliana (taxid:3702)]

 Score = 401 (146.2 bits), Expect = 2.4e-37, P = 2.4e-37
 Identities = 106/292 (36%), Positives = 150/292 (51%)

Query:     6 QRHRKFIKYSINEA-ATADICPSYCD-LSDTSSFCSPPCLT---SCPSYCHNFLQSLIPT 60
             ++HRK      +E   T D     CD +   + +  P   T     P +  +   S  P+
Sbjct:     4 KKHRKLFPTLASETNKTLDCSNGVCDPICPYNCYPEPDYYTISPQLPPWSSSPQPSPCPS 63

Query:    61 PSPVTFKYHVHHKSRKFL-IITASALATTIVAVLC--YVVFVKFY---LRRRSSSEPRIL 114
             PS ++  Y     S   L  I+   +   ++A+L   + +  KF+   + R +    +  
Sbjct:    64 PS-ISAVYLPSQDSSSSLDAISIITITGAVLAILLTGFFLVAKFFSDSVNRVNQGTYQSD 122

Query:   115 NETHDDFLDEDHGP--VVDHPIWYINTVGLQSSVIREIAVLKYKKSDGLVEGTECSVCLS 172
             NE +D  ++E+      VDHPIW I T GLQ S+I  I +  YK+ DGL+E T+C VCL+
Sbjct:   123 NEDNDTVMEEEFQDREQVDHPIWLIRTTGLQQSIINSITICNYKRGDGLIERTDCPVCLN 182

Query:   173 EFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKINHAARAPPSSSTWESNN 232
             EF+EDE+LRLLPKCNHAFHISCIDTWL SHTNCPLCR+ I  I+     P  S   E   
Sbjct:   183 EFEEDESLRLLPKCNHAFHISCIDTWLSSHTNCPLCRAGIAMIS--VTTPRYSGPVEVTP 240

Query:   233 EDSGTRESTQVGILTENGGRNDMESEIGAVERRNINE-RNDQDSDDEIQPIR 283
               SG+          EN G +  E + G +E R  ++ +   DSD  I+  R
Sbjct:   241 GGSGSH--------LENDGVD--EEDHGEIENRVDSDFKESDDSDIRIEIYR 282

GO:0005634 "nucleus" evidence=ISM

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

GO:0010413 "glucuronoxylan metabolic process" evidence=RCA

GO:0045492 "xylan biosynthetic process" evidence=RCA

TAIR|locus:2151421 AT5G17600 [Arabidopsis thaliana (taxid:3702)]

 Score = 359 (131.4 bits), Expect = 6.7e-33, P = 6.7e-33
 Identities = 94/270 (34%), Positives = 134/270 (49%)

Query:    33 DTSSFCSPP-CLTSCPSYCHNFLQSLIPTPSPVTF-KYHVHHKSRKF--LIITASALATT 88
             D+ + CS   C   CP +C+     + P P P  F        S  F  L+I    + T+
Sbjct:    12 DSYNDCSQGICNIYCPQWCY----LIFPPPPPSFFLDDDSSSSSSSFSPLLIALIGILTS 67

Query:    89 IVAVLCYVVFVKFYLRRR---SSSEPRILNETHDDFLDEDHGPVVDHPIWYINTVGLQSS 145
              + ++ Y   +  Y  R    SSSE   LN   + F                N  GL  S
Sbjct:    68 ALILVSYYTLISKYCHRHHQTSSSETLNLNHNGEGFFSSTQRIST-------NGDGLNES 120

Query:   146 VIREIAVLKYKKSDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNC 205
             +I+ I V KYK  DG V+G++CSVCLSEF+E+E+LRLLPKCNHAFH+ CIDTWL+SH+NC
Sbjct:   121 MIKSITVYKYKSGDGFVDGSDCSVCLSEFEENESLRLLPKCNHAFHLPCIDTWLKSHSNC 180

Query:   206 PLCRSPIVKINH-AARAPPSSSTWESNNEDS----GTRESTQVGILTENGGRNDMESEIG 260
             PLCR+ +  +N+  A    + S   +N  +S    G+     + +        D +S + 
Sbjct:   181 PLCRAFVTGVNNPTASVGQNVSVVVANQSNSAHQTGSVSEINLNLAGYESQTGDFDSVV- 239

Query:   261 AVERRNINERNDQDSDDEIQ-PIRRSVSLD 289
              +E   I  RN  D+  E+Q P  R  + D
Sbjct:   240 VIEDLEIGSRNS-DARSELQLPEERRETKD 268

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2142449 RING1 [Arabidopsis thaliana (taxid:3702)]

 Score = 358 (131.1 bits), Expect = 8.5e-33, P = 8.5e-33
 Identities = 85/221 (38%), Positives = 127/221 (57%)

Query:    78 LIITASALATTIVAVLCYVVFVKFYL---RRRSSSE--PRILNETHDDFLDEDHGPVVDH 132
             L+ T+  +  +I+  L  V F+  ++   RR S++   P   N+  D+   E+      H
Sbjct:    41 LLPTSICVVGSIILFLFLVFFLYLHITQQRRISAASVTPGDTNQQEDEDETEERDFSDFH 100

Query:   133 PIWYINTVGLQSSVIREIAVLKYKKSDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHI 192
              +W I TVGL  S I  I V+ +KK +G+++GTECSVCL+EF+EDE+LRLLPKC+HAFH+
Sbjct:   101 HVWQIPTVGLHRSAINSITVVGFKKGEGIIDGTECSVCLNEFEEDESLRLLPKCSHAFHL 160

Query:   193 SCIDTWLRSHTNCPLCRSPIVKINHAARAPPSSSTWESNNEDSGTRESTQVGILTENGGR 252
             +CIDTWL SH NCPLCR+P++ I      PP   T E+N++      +   G   ++  R
Sbjct:   161 NCIDTWLLSHKNCPLCRAPVLLITE----PPHQET-ETNHQPDSESSNDLRG--RQDSSR 213

Query:   253 NDMESEIGAVERRNINERNDQDSDDEIQPIRRSVSLD-SLS 292
             +     I  + R   +  N   S   ++ +RRS S+  SLS
Sbjct:   214 SRRNHNI-FLPRAQSDLANYCGSG-RVENVRRSFSIGGSLS 252

GO:0005576 "extracellular region" evidence=ISM

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

GO:0010200 "response to chitin" evidence=IEP

GO:0002238 "response to molecule of fungal origin" evidence=IEP

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

GO:0005886 "plasma membrane" evidence=IDA

GO:0009617 "response to bacterium" evidence=IEP;RCA

GO:0012501 "programmed cell death" evidence=IC

GO:0016567 "protein ubiquitination" evidence=IDA

GO:0043068 "positive regulation of programmed cell death" evidence=IMP

GO:0051865 "protein autoubiquitination" evidence=IDA

GO:0000165 "MAPK cascade" evidence=RCA

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

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

GO:0009627 "systemic acquired resistance" evidence=RCA

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

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

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

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

GO:0019761 "glucosinolate biosynthetic process" evidence=RCA

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

GO:0034976 "response to endoplasmic reticulum stress" evidence=RCA

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

TAIR|locus:2096444 AT3G03550 [Arabidopsis thaliana (taxid:3702)]

 Score = 349 (127.9 bits), Expect = 7.7e-32, P = 7.7e-32
 Identities = 98/275 (35%), Positives = 137/275 (49%)

Query:    33 DTSSFCSPP-CLTSCPSYCHNFLQSLIPTPSPVTFKYHVHHKSRKF---LIITASALATT 88
             D+   CS   C   CP +C+     + P P            S  F   LI     LA+ 
Sbjct:    15 DSYRDCSQGVCSVYCPQWCY----VIFPPPPSFYLDDEDDSSSSDFSPLLIALIGILASA 70

Query:    89 IVAVLCYVVFVKFYLRRR---SSSEPRILNETHDDFL----DEDHGPVVDHPIWYINTVG 141
              + V  Y +  K+  RRR   SS+    +N    D+     + ++     +P   I   G
Sbjct:    71 FILVSYYTLISKYCHRRRHNSSSTSAAAINRISSDYTWQGTNNNNNNGATNPNQTIGGGG 130

Query:   142 ---LQSSVIREIAVLKYKKSDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTW 198
                L  S+I+ I V KY+K DG VE ++CSVCLSEFQE+E+LRLLPKCNHAFH+ CIDTW
Sbjct:   131 GDGLDESLIKSITVYKYRKMDGFVESSDCSVCLSEFQENESLRLLPKCNHAFHVPCIDTW 190

Query:   199 LRSHTNCPLCRSPIVKINHAARAPPSSS--TWESNNEDSGTRESTQVGILTENG-GRNDM 255
             L+SH+NCPLCR+ IV  +       ++     E+N+  +G      V +  EN   RN+ 
Sbjct:   191 LKSHSNCPLCRAFIVTSSAVEIVDLTNQQIVTENNSISTGDDSVVVVNLDLENSRSRNET 250

Query:   256 ESEIGAVERRNINERNDQDSDDEIQPIRRSVSLDS 290
              +E G+  +    E  D    +E    RRS SL+S
Sbjct:   251 VNE-GSTPKPP--EMQDSRDGEE----RRSASLNS 278

GO:0005634 "nucleus" evidence=ISM

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

GO:0080167 "response to karrikin" evidence=IEP

UNIPROTKB|Q7XLY8 LOC_Os04g50100 "E3 ubiquitin-protein ligase Os04g0590900" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 310 (114.2 bits), Expect = 1.0e-27, P = 1.0e-27
 Identities = 80/268 (29%), Positives = 120/268 (44%)

Query:    22 ADICPSYCDLSDTSSFCSPPCLTSCPSYCHNFLQSLIPTPSPVTFKYHVHHKSRKF--LI 79
             A   P++     T       C   CP +C+       P P  V            F  L+
Sbjct:     2 ASSAPAWVPYEPTRDCSQGLCSMYCPQWCYFIFPP--PPPFDVAGTSADDSSGPVFSPLV 59

Query:    80 ITASALATTIVAVLCYVVFVKFYLRRRSSSEPRILNETHDDFL---------DEDHGPVV 130
             I    +  +   ++ Y  F+  Y    SS   R+   +                 HG   
Sbjct:    60 IAIIGVLASAFLLVSYYTFISKYCGTVSSLRGRVFGSSSGGAAYGGGAGSGGRHGHGQSR 119

Query:   131 DHPIWYINTV-GLQSSVIREIAVLKYKKSDGLVEGTECSVCLSEFQEDETLRLLPKCNHA 189
              H  W ++   GL  ++I +I V KY++ DG V  T+CSVCL EF + E+LRLLP+C+HA
Sbjct:   120 SHESWNVSPPSGLDETLINKITVCKYRRGDGFVHTTDCSVCLGEFSDGESLRLLPRCSHA 179

Query:   190 FHISCIDTWLRSHTNCPLCRSPIVKINHAARAPPSSSTWESNNEDSGTRESTQVGILTEN 249
             FH  CIDTWL+SH+NCPLCR+ I  +     +P       +  E  G  ++T   ++  +
Sbjct:   180 FHQQCIDTWLKSHSNCPLCRANITFVTVGLASPEPEGC--APGETGG--DNTHEVVVVMD 235

Query:   250 GGRNDMESEIGAVERRNINERNDQDSDD 277
             G  N  E +  AV R +  + +D D+ D
Sbjct:   236 GLENLCEEQQEAVSRASTAD-DDHDAKD 262

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

GO:0016567 "protein ubiquitination" evidence=IDA

TAIR|locus:4515103413 ATL4H [Arabidopsis thaliana (taxid:3702)]

 Score = 296 (109.3 bits), Expect = 3.2e-26, P = 3.2e-26
 Identities = 64/182 (35%), Positives = 99/182 (54%)

Query:    42 CLTSCPSYCHNFLQSLIPTPSPVTFKYHVH-----HKSRKFLIITASALATTIVAVLCYV 96
             C T CP +C  ++     +P P++++  ++     + +   L+I    +  T   +  Y 
Sbjct:    24 CSTFCPQWC-TYINF---SPPPISYEQFLNDGVASNPNLSPLVIAIFGIFATAFLLAAYY 79

Query:    97 VFVKFYLRRRSSSEPRILNETHDDFLD---EDHGPVVDHPIWYINTVGLQSSVIREIAVL 153
               V  Y    +++E    +   D  LD    + G   D      +T GL  ++I++I   
Sbjct:    80 TLVSKYCANDTTNEAASESGRSDIILDVNSPERGDQDDPFALESSTAGLDDTLIKKIGFF 139

Query:   154 KYKK-SDGL-VEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSP 211
             K KK  +G  + GT+CS+CL EF EDE+LRLLPKCNH FH+ CID WL+SH+NCPLCR+ 
Sbjct:   140 KLKKHQNGFKINGTDCSICLGEFNEDESLRLLPKCNHTFHVVCIDRWLKSHSNCPLCRAK 199

Query:   212 IV 213
             I+
Sbjct:   200 II 201

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2199902 AT1G23980 [Arabidopsis thaliana (taxid:3702)]

 Score = 280 (103.6 bits), Expect = 1.6e-24, P = 1.6e-24
 Identities = 69/230 (30%), Positives = 115/230 (50%)

Query:    54 LQSLIPT--PSPVTFKYHVHHKS---------RKFLIITASALATTIVAVLCYVV--FVK 100
             L  + P+  PSP+T  + +   S         R   II    +  +++  +C ++   V+
Sbjct:    16 LNQISPSSAPSPITLNHQLTDSSSSSSSGGNNRISPIILFIIVLLSVIFFICSILHLLVR 75

Query:   101 FYLRRRSSSEPRILNETHD--DFLDEDHGPVVDHPIWYINTVGLQSSVIREIAVLKYKKS 158
             +YL+++ S+     NE++   +F D D        +++++  GL  ++I  + V  YK+ 
Sbjct:    76 YYLKKKRSNLSSSPNESNQNPEFSDSDTYQRQLQQLFHLHDSGLDQALIDALPVFLYKEI 135

Query:   159 DGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKINHA 218
              G  E  +C+VCL EF ED+ LRLLP C+HAFHI CIDTWL S++ CPLCR  +  + H 
Sbjct:   136 KGTKEPFDCAVCLCEFSEDDKLRLLPNCSHAFHIDCIDTWLLSNSTCPLCRGTLFSLGHQ 195

Query:   219 ARAPPSSSTWESNNEDSGTRESTQVGILTENG-GRNDMESEIGAVERRNI 267
                P  +  + + ++  G    + V    EN  G+      +G     NI
Sbjct:   196 FEYPDFNFGFFAGDDGGGGVRVSPVQKPAENEIGKRVFSVRLGKFRSSNI 245

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2018334 AT1G04360 [Arabidopsis thaliana (taxid:3702)]

 Score = 238 (88.8 bits), Expect = 2.1e-21, Sum P(2) = 2.1e-21
 Identities = 59/152 (38%), Positives = 84/152 (55%)

Query:   125 DHGPVVDHPIWYINTVGLQSSVIREIAVLKYKKSDGLVEGTE--------CSVCLSEFQE 176
             D  P++ +    +N  GL  S IR I V K+KK D +V G E        CSVCL+EFQE
Sbjct:    86 DQNPLMIYSPHEVNR-GLDESAIRAIPVFKFKKRD-VVAGEEDQSKNSQECSVCLNEFQE 143

Query:   177 DETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPI-VKINHAARAPPSSSTWESNNEDS 235
             DE LR++P C H FHI CID WL+ + NCPLCR+ +  + +       + S+   N+  S
Sbjct:   144 DEKLRIIPNCCHVFHIDCIDIWLQGNANCPLCRTSVSCEASFTLDLISAPSSPRENSPHS 203

Query:   236 GTRESTQVGILTENGGRND-MESEIGAVERRN 266
               R + + G++   GG +D +  E+GA    N
Sbjct:   204 RNR-NLEPGLVL--GGDDDFVVIELGASNGNN 232

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2081740 ATL5 "AtL5" [Arabidopsis thaliana (taxid:3702)]

 Score = 233 (87.1 bits), Expect = 2.0e-19, P = 2.0e-19
 Identities = 50/157 (31%), Positives = 82/157 (52%)

Query:    76 KFLIITASALATTIVAVLCYVVFVKFYLRRRSSSEPRILNETHDDFLDEDHGPVVDHPIW 135
             K ++ +   L   ++ +LC+  + ++  RR++    R ++  H   L     P       
Sbjct:    27 KIMLASVIILFVAVILILCFHSYARWLFRRQNRRIRRRIS-AHLRSLAAARDPTQSSS-- 83

Query:   136 YINTVGLQSSVIREIAVLKY--KKSDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHIS 193
               +   L  +V+ +I +  Y  K  +  +E  ECSVCLSEF+ED+  R+LPKC H FH+ 
Sbjct:    84 --SLSPLDPTVLEKIPIFVYSVKTHESPLE--ECSVCLSEFEEDDEGRVLPKCGHVFHVD 139

Query:   194 CIDTWLRSHTNCPLCRSPIVKINHAARAPPSSSTWES 230
             CIDTW RS ++CPLCR+P+          P ++ + S
Sbjct:   140 CIDTWFRSRSSCPLCRAPVQPAQPVTEPEPVAAVFPS 176

GO:0005634 "nucleus" evidence=ISM

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

GO:0006461 "protein complex assembly" evidence=TAS

GO:0016020 "membrane" evidence=ISS

---

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

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	360
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	2e-15
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	3e-12
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	4e-12
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	6e-11
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	3e-09
smart00184	40	smart00184, RING, Ring finger	1e-07
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	2e-06
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	5e-06
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	9e-06
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	2e-05
PHA02926	242	PHA02926, PHA02926, zinc finger-like protein; Prov	4e-05
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	5e-05
pfam11793	70	pfam11793, FANCL_C, FANCL C-terminal domain	2e-04
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	4e-04
TIGR00599	397	TIGR00599, rad18, DNA repair protein rad18	0.002
pfam13920	49	pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RI	0.003

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

 Score = 69.3 bits (170), Expect = 2e-15
 Identities = 25/46 (54%), Positives = 31/46 (67%), Gaps = 1/46 (2%)

Query: 166 ECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSP 211
           EC +CL EF+  E + +LP C H FH  C+D WLRS   CPLCR+P
Sbjct: 2   ECPICLDEFEPGEEVVVLP-CGHVFHKECLDKWLRSSNTCPLCRAP 46

Length = 46

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

 Score = 60.2 bits (146), Expect = 3e-12
 Identities = 25/48 (52%), Positives = 30/48 (62%), Gaps = 4/48 (8%)

Query: 166 ECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS-HTNCPLCRSPI 212
           EC +CL EF+E     +L  C H F  SCID WL+S    CPLCR+PI
Sbjct: 1   ECPICLEEFREP---VVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 66.2 bits (161), Expect = 4e-12
 Identities = 31/96 (32%), Positives = 47/96 (48%), Gaps = 16/96 (16%)

Query: 129 VVDHPIWYINTVGLQSSVIREIAVLKYKKSDGLVE-----------GTECSVCLSEFQED 177
            +   I     VG  SS     A+        L             G EC++C+S F ++
Sbjct: 280 NIILEIQINFDVGFYSS---SEAIPTTTTKGSLKPLSIERAVEADKGVECAICMSNFIKN 336

Query: 178 ETLRLLPKCNHAFHISCIDTWLRSHTN-CPLCRSPI 212
           + LR+LP C+H FH+ C+D WL  ++N CP+CR+ I
Sbjct: 337 DRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAI 371

Length = 374

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

 Score = 57.4 bits (139), Expect = 6e-11
 Identities = 18/52 (34%), Positives = 27/52 (51%), Gaps = 9/52 (17%)

Query: 167 CSVCLSEFQE---------DETLRLLPKCNHAFHISCIDTWLRSHTNCPLCR 209
           C++C + F           D+   +  +C HAFH+ CI  WL++   CPLCR
Sbjct: 22  CAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLCR 73

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

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

 Score = 56.3 bits (136), Expect = 3e-09
 Identities = 21/68 (30%), Positives = 36/68 (52%), Gaps = 4/68 (5%)

Query: 152 VLKYKKSDGLVEGTECSVCLSEFQEDET----LRLLPKCNHAFHISCIDTWLRSHTNCPL 207
           + +Y+K     +  EC++C+ +  + E       +L  CNH F I CID W +    CP+
Sbjct: 162 LSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPV 221

Query: 208 CRSPIVKI 215
           CR+P + +
Sbjct: 222 CRTPFISV 229

Length = 238

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

 Score = 47.5 bits (113), Expect = 1e-07
 Identities = 20/43 (46%), Positives = 25/43 (58%), Gaps = 4/43 (9%)

Query: 167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTN-CPLC 208
           C +CL E+ +D    +LP C H F  SCI  WL S  N CP+C
Sbjct: 1   CPICLEEYLKD--PVILP-CGHTFCRSCIRKWLESGNNTCPIC 40

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

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

 Score = 43.6 bits (103), Expect = 2e-06
 Identities = 18/43 (41%), Positives = 24/43 (55%), Gaps = 4/43 (9%)

Query: 167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS-HTNCPLC 208
           C +CL E    + + +LP C H F   CI +WL S +  CPLC
Sbjct: 1   CPICLEEP--KDPVTILP-CGHLFCSKCILSWLESGNVTCPLC 40

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

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

 Score = 44.1 bits (104), Expect = 5e-06
 Identities = 15/29 (51%), Positives = 16/29 (55%)

Query: 185 KCNHAFHISCIDTWLRSHTNCPLCRSPIV 213
            CNHAFH  CI  WL +   CPL R   V
Sbjct: 53  VCNHAFHDHCIYRWLDTKGVCPLDRQTWV 81

Length = 88

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

 Score = 42.1 bits (99), Expect = 9e-06
 Identities = 15/45 (33%), Positives = 23/45 (51%), Gaps = 3/45 (6%)

Query: 166 ECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRS 210
           EC +CL   ++   L     C H F   CI  +L+  + CP+CR+
Sbjct: 4   ECPICLDLLRDPVVL---TPCGHVFCRECILRYLKKKSKCPICRT 45

Length = 45

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

 Score = 46.1 bits (109), Expect = 2e-05
 Identities = 23/96 (23%), Positives = 37/96 (38%), Gaps = 15/96 (15%)

Query: 167 CSVCLSEFQE----------DETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKIN 216
           C++C+ E             D T + LP C H  H+ C+  WL     CP+CR P++   
Sbjct: 290 CTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPVI--- 345

Query: 217 HAARAPPSSSTWESNNEDSGTRESTQ-VGILTENGG 251
               +P  +S    N + +    +       T   G
Sbjct: 346 FDQSSPTPASPNVRNTQIATQVPNPDNTPTTTAVPG 381

Length = 491

>gnl|CDD|165237 PHA02926, PHA02926, zinc finger-like protein; Provisional

 Score = 44.3 bits (104), Expect = 4e-05
 Identities = 27/97 (27%), Positives = 42/97 (43%), Gaps = 21/97 (21%)

Query: 135 WYINTVGL------QSSVIREIAVLK----YKKSDGLVEGTECSVCLS-----EFQEDET 179
           WYI            ++ I E+ ++K    Y+    + +  EC +C         + D  
Sbjct: 131 WYIANNTYTPNTPNNTTTISELDIIKILDKYEDVYRVSKEKECGICYEVVYSKRLENDRY 190

Query: 180 LRLLPKCNHAFHISCIDTWLRSH------TNCPLCRS 210
             LL  CNH F I+CI+ W R+        NCP+CR+
Sbjct: 191 FGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRT 227

Length = 242

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

 Score = 45.0 bits (106), Expect = 5e-05
 Identities = 22/78 (28%), Positives = 34/78 (43%), Gaps = 5/78 (6%)

Query: 140  VGLQSSVIREIAVLKYKKSDGLVEGTECSVCLSEFQE-DETL--RLLPKCNHAFHISCID 196
            +    S +  + + K    +      EC++C S     D +L  +    C + FH  C+ 
Sbjct: 1445 IKKNGSFMDLLGLWKKNIDEKFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLY 1504

Query: 197  TWLRS--HTNCPLCRSPI 212
             W  S   +NCPLCRS I
Sbjct: 1505 KWFASSARSNCPLCRSEI 1522

Length = 1525

>gnl|CDD|204746 pfam11793, FANCL_C, FANCL C-terminal domain

 Score = 39.3 bits (92), Expect = 2e-04
 Identities = 17/62 (27%), Positives = 27/62 (43%), Gaps = 15/62 (24%)

Query: 166 ECSVCLSEFQEDETLRLL----PKCNHAFHISCIDTWLRSHT-----------NCPLCRS 210
           EC +C +   +   +  +    PKC   FHI+C+  WLR+              CP C++
Sbjct: 4   ECGICYAYRLDGGEIPDISCDNPKCGLPFHIACLYEWLRTLRDSRQSFNVSFGTCPYCKA 63

Query: 211 PI 212
            I
Sbjct: 64  KI 65

This domain is found at the C-terminus of the Fancl protein in humans which is the putative E3 ubiquitin ligase subunit of the FA complex (Fanconi anaemia). Eight subunits of the Fanconi anaemia gene products form a multisubunit nuclear complex which is required for mono-ubiquitination of a downstream FA protein, FANCD2. Length = 70

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

 Score = 38.6 bits (90), Expect = 4e-04
 Identities = 18/46 (39%), Positives = 25/46 (54%), Gaps = 5/46 (10%)

Query: 167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTN---CPLCR 209
           C  C  +F  D+   +  KC H FH+ CI  WL + T+   CP+CR
Sbjct: 35  CPQC--KFPGDDCPLVWGKCKHNFHMHCILKWLATETSKGLCPMCR 78

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

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

 Score = 39.2 bits (91), Expect = 0.002
 Identities = 15/45 (33%), Positives = 20/45 (44%), Gaps = 4/45 (8%)

Query: 167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSP 211
           C +C   F       +L  C+H F   CI   L +   CPLCR+ 
Sbjct: 29  CHICKDFFDVP----VLTSCSHTFCSLCIRRCLSNQPKCPLCRAE 69

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

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

 Score = 35.0 bits (81), Expect = 0.003
 Identities = 18/54 (33%), Positives = 22/54 (40%), Gaps = 6/54 (11%)

Query: 163 EGTECSVCLSEFQEDETLRLLPKCNH-AFHISCIDTWLRSHTNCPLCRSPIVKI 215
           E   C +CL        +  LP C H      C    LRS   CP+CR PI  +
Sbjct: 1   EDDLCVICLER---PRNVVFLP-CGHLCLCEECAKR-LRSKKKCPICRQPIESV 49

Length = 49

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	360
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.76
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.44
PHA02929	238	N1R/p28-like protein; Provisional	99.24
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.21
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.19
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.16
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.87
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.86
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.79
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.73
PHA02926	242	zinc finger-like protein; Provisional	98.73
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.72
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	98.67
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.66
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	98.66
PF14634	44	zf-RING_5: zinc-RING finger domain	98.57
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.56
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.52
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.5
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.46
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.36
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.35
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.35
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.25
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.22
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.2
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	98.16
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.08
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	97.97
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	97.97
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	97.95
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	97.85
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	97.82
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	97.77
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	97.74
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	97.71
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	97.68
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	97.64
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	97.53
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.52
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	97.49
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.37
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.36
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	97.35
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.24
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.06
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.06
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	97.01
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	96.99
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	96.59
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	96.46
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	96.41
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.33
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	96.24
KOG0297	391	consensus TNF receptor-associated factor [Signal t	96.19
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	96.18
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	96.06
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	95.71
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	95.64
PHA02862	156	5L protein; Provisional	95.14
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	95.01
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	94.96
PHA02825	162	LAP/PHD finger-like protein; Provisional	94.94
PHA03096	284	p28-like protein; Provisional	94.94
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	94.93
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	94.87
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	94.72
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	94.56
KOG2660	331	consensus Locus-specific chromosome binding protei	94.47
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	94.32
KOG1002	791	consensus Nucleotide excision repair protein RAD16	94.1
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	93.82
KOG3039	303	consensus Uncharacterized conserved protein [Funct	93.38
COG5152	259	Uncharacterized conserved protein, contains RING a	93.3
PF15102	146	TMEM154: TMEM154 protein family	92.88
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	92.63
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	92.41
KOG4739	233	consensus Uncharacterized protein involved in syna	92.33
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	91.47
PF04641	260	Rtf2: Rtf2 RING-finger	91.42
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	91.16
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	90.35
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	90.18
PF02439	38	Adeno_E3_CR2: Adenovirus E3 region protein CR2; In	89.81
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	88.95
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	88.7
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	88.48
KOG1940	276	consensus Zn-finger protein [General function pred	87.78
COG5236	493	Uncharacterized conserved protein, contains RING Z	87.41
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	87.09
COG5175	480	MOT2 Transcriptional repressor [Transcription]	86.73
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	86.25
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	86.11
COG5222	427	Uncharacterized conserved protein, contains RING Z	85.7
PF01708	91	Gemini_mov: Geminivirus putative movement protein	85.63
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	85.0
KOG1001	674	consensus Helicase-like transcription factor HLTF/	84.5
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	83.42
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	83.11
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	82.69
KOG0298	1394	consensus DEAD box-containing helicase-like transc	82.53
PF02009	299	Rifin_STEVOR: Rifin/stevor family; InterPro: IPR00	81.11
PF05568	189	ASFV_J13L: African swine fever virus J13L protein;	80.65
KOG3653	534	consensus Transforming growth factor beta/activin	80.62
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	80.2
PF10577	807	UPF0560: Uncharacterised protein family UPF0560; I	80.03

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

Probab=99.76  E-value=3.2e-18  Score=167.45  Aligned_cols=76  Identities=32%  Similarity=0.832  Sum_probs=66.4

Q ss_pred             CCCCHHHHHhhcceEeecCCCCcCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCC-CCCcccCCccccC
Q 018110          140 VGLQSSVIREIAVLKYKKSDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHT-NCPLCRSPIVKIN  216 (360)
Q Consensus       140 ~gl~~~~i~~lp~~~~~~~~~~~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~-tCP~CR~~l~~~~  216 (360)
                      ..+.+..++++|...|+..+.......|+||||+|+.++++|+|| |+|.||..||++||.... .||+||+++....
T Consensus       205 ~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~  281 (348)
T KOG4628|consen  205 NRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDS  281 (348)
T ss_pred             hhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCCCC
Confidence            456788999999999998776544579999999999999999999 999999999999998764 5999999887643

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

Probab=99.44  E-value=2.2e-14  Score=100.64  Aligned_cols=44  Identities=50%  Similarity=1.282  Sum_probs=40.3

Q ss_pred             CcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCccc
Q 018110          165 TECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCR  209 (360)
Q Consensus       165 ~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR  209 (360)
                      ++|+||+++|..++.+..++ |+|.||.+||.+|++.+.+||+||
T Consensus         1 d~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    1 DECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             -CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhCCcCCccC
Confidence            47999999999989999998 999999999999999999999997

...

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.24  E-value=5.9e-12  Score=118.46  Aligned_cols=77  Identities=26%  Similarity=0.698  Sum_probs=59.2

Q ss_pred             cCCCCHHHHHhhcceEeecC--CCCcCCCcccccCCccccCc----ceeecCCCCCCCChhhHHHHHhcCCCCCcccCCc
Q 018110          139 TVGLQSSVIREIAVLKYKKS--DGLVEGTECSVCLSEFQEDE----TLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPI  212 (360)
Q Consensus       139 ~~gl~~~~i~~lp~~~~~~~--~~~~~~~~C~ICl~~~~~~~----~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l  212 (360)
                      ..+..+..++.+|.+.....  .....+.+|+||++.+...+    .+.+++.|+|.||..||.+|++.+.+||+||.++
T Consensus       147 k~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~  226 (238)
T PHA02929        147 KGKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPF  226 (238)
T ss_pred             hcchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEe
Confidence            45668889999998764432  22335689999999987643    1334556999999999999999999999999988


Q ss_pred             ccc
Q 018110          213 VKI  215 (360)
Q Consensus       213 ~~~  215 (360)
                      ..+
T Consensus       227 ~~v  229 (238)
T PHA02929        227 ISV  229 (238)
T ss_pred             eEE
Confidence            653

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

Probab=99.21  E-value=1.9e-11  Score=119.34  Aligned_cols=52  Identities=37%  Similarity=1.066  Sum_probs=44.0

Q ss_pred             cCCCcccccCCc-cccC---------cceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          162 VEGTECSVCLSE-FQED---------ETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       162 ~~~~~C~ICl~~-~~~~---------~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      ..+..|.||+++ |..+         ...+.|| |||+||.+|++.|++++++||+||.++.-
T Consensus       285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~if  346 (491)
T COG5243         285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPVIF  346 (491)
T ss_pred             CCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCcccc
Confidence            357899999999 4443         2456788 99999999999999999999999999654

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

Probab=99.19  E-value=8.8e-12  Score=97.04  Aligned_cols=45  Identities=36%  Similarity=1.071  Sum_probs=35.8

Q ss_pred             CCcccccCCcccc----------CcceeecCCCCCCCChhhHHHHHhcCCCCCccc
Q 018110          164 GTECSVCLSEFQE----------DETLRLLPKCNHAFHISCIDTWLRSHTNCPLCR  209 (360)
Q Consensus       164 ~~~C~ICl~~~~~----------~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR  209 (360)
                      ++.|+||++.|.+          .-.+...+ |+|.||..||.+||+.+.+||+||
T Consensus        19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   19 DDNCAICREPLEDPCPECQAPQDECPIVWGP-CGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             CSBETTTTSBTTSTTCCHHHCTTTS-EEEET-TSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             CCcccccChhhhChhhhhcCCccccceEecc-cCCCEEHHHHHHHHhcCCcCCCCC
Confidence            4569999999933          22444455 999999999999999999999998

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 ....

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

Probab=99.16  E-value=1.6e-11  Score=117.17  Aligned_cols=51  Identities=45%  Similarity=1.229  Sum_probs=47.0

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHh-cCCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLR-SHTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~-~~~tCP~CR~~l~~  214 (360)
                      .+.+|+|||+.|..++.++++| |.|.||..||++|+. -+..||+||.++++
T Consensus       322 ~GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         322 KGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             CCceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            4589999999999999999999 999999999999998 57789999999875

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

Probab=98.87  E-value=1.7e-09  Score=74.00  Aligned_cols=44  Identities=61%  Similarity=1.396  Sum_probs=36.9

Q ss_pred             cccccCCccccCcceeecCCCCCCCChhhHHHHHhc-CCCCCcccCCc
Q 018110          166 ECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS-HTNCPLCRSPI  212 (360)
Q Consensus       166 ~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~-~~tCP~CR~~l  212 (360)
                      +|+||++.+  .+.+...+ |+|.||..|+..|++. +..||+||..+
T Consensus         1 ~C~iC~~~~--~~~~~~~~-C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEF--REPVVLLP-CGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhh--hCceEecC-CCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            599999998  33555565 9999999999999987 77899999764

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

Probab=98.86  E-value=1.2e-09  Score=86.95  Aligned_cols=52  Identities=33%  Similarity=0.852  Sum_probs=40.0

Q ss_pred             CCCcccccCCcccc--------C-cceeecCCCCCCCChhhHHHHHhc---CCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQE--------D-ETLRLLPKCNHAFHISCIDTWLRS---HTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~--------~-~~~r~lp~C~H~FH~~CI~~Wl~~---~~tCP~CR~~l~~  214 (360)
                      .++.|.||...|+.        + +-..+...|+|.||.+||.+||..   +..||+||+++..
T Consensus        20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~   83 (85)
T PF12861_consen   20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF   83 (85)
T ss_pred             CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence            47889999999973        1 112234469999999999999975   5679999998753

>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A

Probab=98.79  E-value=2.1e-09  Score=77.27  Aligned_cols=47  Identities=36%  Similarity=0.955  Sum_probs=39.4

Q ss_pred             CCcccccCCccccCcceeecCCCCCC-CChhhHHHHHhcCCCCCcccCCccc
Q 018110          164 GTECSVCLSEFQEDETLRLLPKCNHA-FHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       164 ~~~C~ICl~~~~~~~~~r~lp~C~H~-FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      +..|.||++...   .+..+| |||. |+..|+..|++....||+||+++..
T Consensus         2 ~~~C~iC~~~~~---~~~~~p-CgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~   49 (50)
T PF13920_consen    2 DEECPICFENPR---DVVLLP-CGHLCFCEECAERLLKRKKKCPICRQPIES   49 (50)
T ss_dssp             HSB-TTTSSSBS---SEEEET-TCEEEEEHHHHHHHHHTTSBBTTTTBB-SE
T ss_pred             cCCCccCCccCC---ceEEeC-CCChHHHHHHhHHhcccCCCCCcCChhhcC
Confidence            468999999854   367778 9999 9999999999999999999999854

...

>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A

Probab=98.73  E-value=4.8e-09  Score=71.66  Aligned_cols=39  Identities=36%  Similarity=1.135  Sum_probs=33.0

Q ss_pred             ccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcc
Q 018110          167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLC  208 (360)
Q Consensus       167 C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~C  208 (360)
                      |+||++.+.+  .+..++ |||.|+..||.+|++.+..||+|
T Consensus         1 C~iC~~~~~~--~~~~~~-CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRD--PVVVTP-CGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SS--EEEECT-TSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccC--cCEECC-CCCchhHHHHHHHHHCcCCCcCC
Confidence            8999998866  556776 99999999999999998999998

>PHA02926 zinc finger-like protein; Provisional

Probab=98.73  E-value=3.9e-09  Score=97.48  Aligned_cols=54  Identities=37%  Similarity=0.914  Sum_probs=41.8

Q ss_pred             cCCCcccccCCccccC-----cceeecCCCCCCCChhhHHHHHhcC------CCCCcccCCcccc
Q 018110          162 VEGTECSVCLSEFQED-----ETLRLLPKCNHAFHISCIDTWLRSH------TNCPLCRSPIVKI  215 (360)
Q Consensus       162 ~~~~~C~ICl~~~~~~-----~~~r~lp~C~H~FH~~CI~~Wl~~~------~tCP~CR~~l~~~  215 (360)
                      ..+.+|+|||+..-..     ....+|+.|+|.||..||..|.+.+      .+||+||..+..+
T Consensus       168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I  232 (242)
T PHA02926        168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNI  232 (242)
T ss_pred             cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeee
Confidence            3568999999986432     2345677799999999999999743      4599999987654

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

Probab=98.72  E-value=1.1e-08  Score=95.03  Aligned_cols=53  Identities=23%  Similarity=0.671  Sum_probs=40.3

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhc---CCCCCcccCCccccCCCC
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS---HTNCPLCRSPIVKINHAA  219 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~---~~tCP~CR~~l~~~~~~~  219 (360)
                      ...+|.|||+.-+  +.|. +. |||.||+.||.+||..   .+.||+||..+....-..
T Consensus        46 ~~FdCNICLd~ak--dPVv-Tl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvP  101 (230)
T KOG0823|consen   46 GFFDCNICLDLAK--DPVV-TL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVP  101 (230)
T ss_pred             CceeeeeeccccC--CCEE-ee-cccceehHHHHHHHhhcCCCeeCCccccccccceEEe
Confidence            4579999999744  3454 44 9999999999999975   445999999886544333

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=98.67  E-value=1.5e-08  Score=92.27  Aligned_cols=49  Identities=27%  Similarity=0.811  Sum_probs=39.3

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhc----------------CCCCCcccCCcccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS----------------HTNCPLCRSPIVKI  215 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~----------------~~tCP~CR~~l~~~  215 (360)
                      ++.+|+||++.+.+   ..+++ |||.||..||..|+..                ...||+||.++...
T Consensus        17 ~~~~CpICld~~~d---PVvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~   81 (193)
T PLN03208         17 GDFDCNICLDQVRD---PVVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEA   81 (193)
T ss_pred             CccCCccCCCcCCC---cEEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChh
Confidence            45789999998754   34466 9999999999999852                24699999998653

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

Probab=98.66  E-value=6.8e-09  Score=108.88  Aligned_cols=51  Identities=33%  Similarity=0.925  Sum_probs=44.9

Q ss_pred             CCCcccccCCccccCcc--eeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDET--LRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~--~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      .+..|+||++++..+..  .+.+| |+|+||..|+..|+++..+||+||..+..
T Consensus       290 ~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~~  342 (543)
T KOG0802|consen  290 SDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLYD  342 (543)
T ss_pred             cCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhhc
Confidence            46789999999987654  67788 99999999999999999999999995554

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

Probab=98.66  E-value=9.7e-09  Score=97.95  Aligned_cols=48  Identities=35%  Similarity=0.818  Sum_probs=41.2

Q ss_pred             CCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCcccc
Q 018110          164 GTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKI  215 (360)
Q Consensus       164 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  215 (360)
                      ...|.+||+....   ...+| |||+||..||..|......||+||..+.+.
T Consensus       239 ~~kC~LCLe~~~~---pSaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~ps  286 (293)
T KOG0317|consen  239 TRKCSLCLENRSN---PSATP-CGHIFCWSCILEWCSEKAECPLCREKFQPS  286 (293)
T ss_pred             CCceEEEecCCCC---CCcCc-CcchHHHHHHHHHHccccCCCcccccCCCc
Confidence            3689999998755   34466 999999999999999999999999998763

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.57  E-value=3.7e-08  Score=69.10  Aligned_cols=44  Identities=30%  Similarity=0.896  Sum_probs=38.3

Q ss_pred             cccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccC
Q 018110          166 ECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRS  210 (360)
Q Consensus       166 ~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~  210 (360)
                      .|.||++.|......++++ |||+|+..||..+......||+||+
T Consensus         1 ~C~~C~~~~~~~~~~~l~~-CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTS-CGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcc-cCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            4999999996666777887 9999999999999867788999985

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

Probab=98.56  E-value=2.8e-08  Score=77.67  Aligned_cols=51  Identities=33%  Similarity=0.686  Sum_probs=38.1

Q ss_pred             CcccccCCcccc-----------Cc-ceeecCCCCCCCChhhHHHHHhcCCCCCcccCCcccc
Q 018110          165 TECSVCLSEFQE-----------DE-TLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKI  215 (360)
Q Consensus       165 ~~C~ICl~~~~~-----------~~-~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  215 (360)
                      +.|+||...|-.           ++ -...-..|+|.||.+||.+||..+..||++|+++...
T Consensus        21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~   83 (88)
T COG5194          21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLA   83 (88)
T ss_pred             chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEe
Confidence            567777665532           22 2222334999999999999999999999999998753

>smart00184 RING Ring finger

Probab=98.52  E-value=6.6e-08  Score=63.73  Aligned_cols=38  Identities=45%  Similarity=1.251  Sum_probs=32.2

Q ss_pred             ccccCCccccCcceeecCCCCCCCChhhHHHHHh-cCCCCCcc
Q 018110          167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLR-SHTNCPLC  208 (360)
Q Consensus       167 C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~-~~~tCP~C  208 (360)
                      |+||++..   .....++ |+|.||..|++.|++ .+..||+|
T Consensus         1 C~iC~~~~---~~~~~~~-C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEEL---KDPVVLP-CGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCC---CCcEEec-CCChHHHHHHHHHHHhCcCCCCCC
Confidence            78999883   3566777 999999999999998 66779987

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

>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=98.50  E-value=4.4e-08  Score=67.21  Aligned_cols=39  Identities=44%  Similarity=1.255  Sum_probs=33.1

Q ss_pred             ccccCCccccCcceeecCCCCCCCChhhHHHHHh--cCCCCCcc
Q 018110          167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLR--SHTNCPLC  208 (360)
Q Consensus       167 C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~--~~~tCP~C  208 (360)
                      |+||++.+...  +++++ |+|.|+..||.+|++  ....||+|
T Consensus         1 C~iC~~~~~~~--~~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDP--VILLP-CGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSE--EEETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCC--CEEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence            89999998764  35676 999999999999998  45679998

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 ....

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

Probab=98.46  E-value=5.8e-08  Score=86.87  Aligned_cols=49  Identities=33%  Similarity=0.790  Sum_probs=40.9

Q ss_pred             CCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          164 GTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       164 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      -..|+|||+.+.+...  ...+|||+||..||..-++....||+||..|..
T Consensus       131 ~~~CPiCl~~~sek~~--vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~  179 (187)
T KOG0320|consen  131 TYKCPICLDSVSEKVP--VSTKCGHVFCSQCIKDALKNTNKCPTCRKKITH  179 (187)
T ss_pred             ccCCCceecchhhccc--cccccchhHHHHHHHHHHHhCCCCCCcccccch
Confidence            3689999999877443  334699999999999999999999999986643

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

Probab=98.36  E-value=5.4e-08  Score=75.48  Aligned_cols=52  Identities=33%  Similarity=0.781  Sum_probs=38.8

Q ss_pred             CCCcccccCCcccc---------CcceeecCCCCCCCChhhHHHHHhc---CCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQE---------DETLRLLPKCNHAFHISCIDTWLRS---HTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~---------~~~~r~lp~C~H~FH~~CI~~Wl~~---~~tCP~CR~~l~~  214 (360)
                      .++.|.||...|..         ++-..++..|.|.||..||.+|+..   +..||+||+.+..
T Consensus        19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~   82 (84)
T KOG1493|consen   19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQF   82 (84)
T ss_pred             CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEe
Confidence            34589999999864         2222234459999999999999964   4569999998753

>smart00504 Ubox Modified RING finger domain

Probab=98.35  E-value=4e-07  Score=67.77  Aligned_cols=45  Identities=24%  Similarity=0.603  Sum_probs=39.1

Q ss_pred             CcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCcc
Q 018110          165 TECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIV  213 (360)
Q Consensus       165 ~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~  213 (360)
                      ..|+||++.+.+.   .+++ |||+|+..||.+|++.+.+||+|+.++.
T Consensus         2 ~~Cpi~~~~~~~P---v~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~   46 (63)
T smart00504        2 FLCPISLEVMKDP---VILP-SGQTYERRAIEKWLLSHGTDPVTGQPLT   46 (63)
T ss_pred             cCCcCCCCcCCCC---EECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCC
Confidence            4699999998763   4566 9999999999999998899999998874

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

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

Probab=98.35  E-value=2.6e-07  Score=64.41  Aligned_cols=38  Identities=37%  Similarity=0.989  Sum_probs=28.1

Q ss_pred             ccccCCccccCcceeecCCCCCCCChhhHHHHHhcC----CCCCcc
Q 018110          167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSH----TNCPLC  208 (360)
Q Consensus       167 C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~----~tCP~C  208 (360)
                      |+||++.|.+   ...|+ |||.|+..||..|++..    ..||+|
T Consensus         1 CpiC~~~~~~---Pv~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKD---PVSLP-CGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SS---EEE-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCC---ccccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            8999999976   34566 99999999999999753    369988

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

Probab=98.25  E-value=1.8e-07  Score=100.41  Aligned_cols=63  Identities=30%  Similarity=0.725  Sum_probs=45.2

Q ss_pred             cceEeecCCCCcCCCcccccCCccccCc---ceeecCCCCCCCChhhHHHHHhc--CCCCCcccCCcc
Q 018110          151 AVLKYKKSDGLVEGTECSVCLSEFQEDE---TLRLLPKCNHAFHISCIDTWLRS--HTNCPLCRSPIV  213 (360)
Q Consensus       151 p~~~~~~~~~~~~~~~C~ICl~~~~~~~---~~r~lp~C~H~FH~~CI~~Wl~~--~~tCP~CR~~l~  213 (360)
                      -.++.+......+.++||||+..+..-+   .-...++|.|.||..|+-+|++.  +.+||+||..+.
T Consensus      1456 ~l~kkNi~~~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1456 GLWKKNIDEKFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             HHHHhhhhhhcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            3333333344456789999998776322   22445679999999999999975  678999998764

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

Probab=98.22  E-value=1.1e-06  Score=89.17  Aligned_cols=51  Identities=29%  Similarity=0.882  Sum_probs=39.6

Q ss_pred             CCCcccccCCccccCc--------------ceeecCCCCCCCChhhHHHHHh-cCCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDE--------------TLRLLPKCNHAFHISCIDTWLR-SHTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~--------------~~r~lp~C~H~FH~~CI~~Wl~-~~~tCP~CR~~l~~  214 (360)
                      ...+|+|||.++.--.              .-..+| |.|+||..|+..|+. .+-.||+||.++.+
T Consensus       570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             ccccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            3468999999875311              112346 999999999999998 45589999999875

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.20  E-value=8.9e-07  Score=89.26  Aligned_cols=50  Identities=32%  Similarity=0.698  Sum_probs=42.0

Q ss_pred             CcCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          161 LVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       161 ~~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      +.....|+||++.|...   .+++ |+|.||..||..|+.....||+||..+..
T Consensus        23 Le~~l~C~IC~d~~~~P---vitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~   72 (397)
T TIGR00599        23 LDTSLRCHICKDFFDVP---VLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQE   72 (397)
T ss_pred             cccccCCCcCchhhhCc---cCCC-CCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence            34567899999998653   3566 99999999999999988899999998754

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

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

Probab=98.16  E-value=5.8e-07  Score=73.61  Aligned_cols=52  Identities=33%  Similarity=0.719  Sum_probs=38.9

Q ss_pred             CCCcccccCCccc-------------cCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQ-------------EDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~-------------~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      .-+.|+||...+-             .++-+..-..|+|.||..||.+||+.+..||+|.++...
T Consensus        45 ~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~~  109 (114)
T KOG2930|consen   45 VVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWVF  109 (114)
T ss_pred             eechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcceeE
Confidence            3467999975541             122223333599999999999999999999999888754

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

Probab=98.08  E-value=2.1e-06  Score=61.85  Aligned_cols=42  Identities=21%  Similarity=0.817  Sum_probs=32.7

Q ss_pred             cccccCCccccCcceeecCCCC-----CCCChhhHHHHHhc--CCCCCccc
Q 018110          166 ECSVCLSEFQEDETLRLLPKCN-----HAFHISCIDTWLRS--HTNCPLCR  209 (360)
Q Consensus       166 ~C~ICl~~~~~~~~~r~lp~C~-----H~FH~~CI~~Wl~~--~~tCP~CR  209 (360)
                      .|.||++ ...++...+.| |.     |.||..||.+|+..  +.+||+|+
T Consensus         1 ~CrIC~~-~~~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHD-EGDEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCC-CCCCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4899999 33444555788 85     89999999999964  45899995

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

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

Probab=97.97  E-value=3.1e-06  Score=80.10  Aligned_cols=49  Identities=33%  Similarity=0.809  Sum_probs=40.2

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHH-HHhcCCC-CCcccCCcccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDT-WLRSHTN-CPLCRSPIVKI  215 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~-Wl~~~~t-CP~CR~~l~~~  215 (360)
                      .+..|+||++..+.   ...++ |||+||..||.. |-.++.. ||+||+.+.+.
T Consensus       214 ~d~kC~lC~e~~~~---ps~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk  264 (271)
T COG5574         214 ADYKCFLCLEEPEV---PSCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPK  264 (271)
T ss_pred             cccceeeeecccCC---ccccc-ccchhhHHHHHHHHHhhccccCchhhhhccch
Confidence            46789999998654   44566 999999999999 9877666 99999988763

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

Probab=97.97  E-value=1.7e-06  Score=66.80  Aligned_cols=51  Identities=35%  Similarity=0.836  Sum_probs=24.2

Q ss_pred             CCcccccCCccc-cCc-ceeecC--CCCCCCChhhHHHHHhc----C-------CCCCcccCCccc
Q 018110          164 GTECSVCLSEFQ-EDE-TLRLLP--KCNHAFHISCIDTWLRS----H-------TNCPLCRSPIVK  214 (360)
Q Consensus       164 ~~~C~ICl~~~~-~~~-~~r~lp--~C~H~FH~~CI~~Wl~~----~-------~tCP~CR~~l~~  214 (360)
                      +.+|.||++.+. .++ ...+.+  +|++.||..||.+||..    +       .+||.|+.+|.-
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~   67 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW   67 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence            468999999876 332 223333  69999999999999962    1       249999998753

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

Probab=97.95  E-value=3.8e-06  Score=58.88  Aligned_cols=34  Identities=29%  Similarity=0.830  Sum_probs=21.5

Q ss_pred             ccccCCccccCc-ceeecCCCCCCCChhhHHHHHhcC
Q 018110          167 CSVCLSEFQEDE-TLRLLPKCNHAFHISCIDTWLRSH  202 (360)
Q Consensus       167 C~ICl~~~~~~~-~~r~lp~C~H~FH~~CI~~Wl~~~  202 (360)
                      |+||++ |...+ ..++|+ |||.|+.+||.+|++.+
T Consensus         1 CpIc~e-~~~~~n~P~~L~-CGH~~c~~cl~~l~~~~   35 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLP-CGHVFCKDCLQKLSKKS   35 (43)
T ss_dssp             -TTT-----TTSS-EEE-S-SS-EEEHHHHHHHHHH-
T ss_pred             CCcccc-ccCCCCCCEEEe-CccHHHHHHHHHHHhcC
Confidence            899999 75544 557798 99999999999999853

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

Probab=97.85  E-value=3.8e-06  Score=79.71  Aligned_cols=51  Identities=29%  Similarity=0.720  Sum_probs=42.1

Q ss_pred             CCCcccccCCccccCc-------ceeecCCCCCCCChhhHHHHH--hcCCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDE-------TLRLLPKCNHAFHISCIDTWL--RSHTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~-------~~r~lp~C~H~FH~~CI~~Wl--~~~~tCP~CR~~l~~  214 (360)
                      ++..|+||-..+....       .+..|. |+|+||..||+-|.  ..+++||-|+..+..
T Consensus       223 ~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVdl  282 (328)
T KOG1734|consen  223 SDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVDL  282 (328)
T ss_pred             CcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhhH
Confidence            5678999998886544       566787 99999999999997  467899999887653

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

Probab=97.82  E-value=9.9e-06  Score=82.87  Aligned_cols=47  Identities=30%  Similarity=0.694  Sum_probs=37.0

Q ss_pred             CCcccccCCccccCcceeecCCCCCCCChhhHHHHHhc-----CCCCCcccCCccc
Q 018110          164 GTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS-----HTNCPLCRSPIVK  214 (360)
Q Consensus       164 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~-----~~tCP~CR~~l~~  214 (360)
                      +..|+|||+.....  + .+ .|||+||..||-.++..     ...||+||..+..
T Consensus       186 ~~~CPICL~~~~~p--~-~t-~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~  237 (513)
T KOG2164|consen  186 DMQCPICLEPPSVP--V-RT-NCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL  237 (513)
T ss_pred             CCcCCcccCCCCcc--c-cc-ccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence            67899999986543  2 22 49999999999998753     3569999998876

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

Probab=97.77  E-value=1.1e-05  Score=81.31  Aligned_cols=51  Identities=37%  Similarity=0.874  Sum_probs=40.2

Q ss_pred             CCcCCCcccccCCccccCc-ceeecCCCCCCCChhhHHHHHhcCCCCCcccCCcc
Q 018110          160 GLVEGTECSVCLSEFQEDE-TLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIV  213 (360)
Q Consensus       160 ~~~~~~~C~ICl~~~~~~~-~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~  213 (360)
                      +..+-.+|+||||.+.... .++... |.|.||..|+..|  ...+||+||.-..
T Consensus       171 ~~tELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w--~~~scpvcR~~q~  222 (493)
T KOG0804|consen  171 GLTELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKW--WDSSCPVCRYCQS  222 (493)
T ss_pred             CcccCCCcchhHhhcCccccceeeee-cccccchHHHhhc--ccCcChhhhhhcC
Confidence            3456679999999997654 334455 9999999999999  4568999998654

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=97.74  E-value=2.3e-05  Score=76.46  Aligned_cols=52  Identities=27%  Similarity=0.613  Sum_probs=38.1

Q ss_pred             CCcccccCCccccCcc--eeecCCCCCCCChhhHHHHHh-cCCCCCcccCCccccC
Q 018110          164 GTECSVCLSEFQEDET--LRLLPKCNHAFHISCIDTWLR-SHTNCPLCRSPIVKIN  216 (360)
Q Consensus       164 ~~~C~ICl~~~~~~~~--~r~lp~C~H~FH~~CI~~Wl~-~~~tCP~CR~~l~~~~  216 (360)
                      +..|+||+.+-...-.  +.+.+ |||.||..||+..+. ....||.|+.++...+
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~-CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~   57 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGSGSCPECDTPLRKNN   57 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCC-CCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence            4679999986333222  33334 999999999999664 4567999999887643

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).

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

Probab=97.71  E-value=1.3e-05  Score=79.42  Aligned_cols=48  Identities=29%  Similarity=0.944  Sum_probs=36.5

Q ss_pred             CcccccCCccccCcceeecCCCCCCCChhhHHHHHhc---CCCCCcccCCc
Q 018110          165 TECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS---HTNCPLCRSPI  212 (360)
Q Consensus       165 ~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~---~~tCP~CR~~l  212 (360)
                      .+|.||.+-+.....+.-...|||+||..|+..|+..   +.+||+|+-.+
T Consensus         5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~   55 (465)
T KOG0827|consen    5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKL   55 (465)
T ss_pred             ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecc
Confidence            5799996555555555555569999999999999974   45799999433

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

Probab=97.68  E-value=1.5e-05  Score=74.00  Aligned_cols=43  Identities=40%  Similarity=0.952  Sum_probs=38.3

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCR  209 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR  209 (360)
                      +...|+||++.|...   +++| |+|.||..||..|+.....||.||
T Consensus        12 ~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr   54 (386)
T KOG2177|consen   12 EELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCR   54 (386)
T ss_pred             ccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccC
Confidence            567899999999886   7787 999999999999988556799999

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

Probab=97.64  E-value=1.6e-05  Score=77.70  Aligned_cols=47  Identities=28%  Similarity=0.740  Sum_probs=40.6

Q ss_pred             CCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          164 GTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       164 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      -..|.||.+-|..   ..++| |+|.||.-||+.+|..+..||.|+.++..
T Consensus        23 lLRC~IC~eyf~i---p~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~E   69 (442)
T KOG0287|consen   23 LLRCGICFEYFNI---PMITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTE   69 (442)
T ss_pred             HHHHhHHHHHhcC---ceecc-ccchHHHHHHHHHhccCCCCCceecccch
Confidence            3579999998865   34567 99999999999999999999999998754

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

Probab=97.53  E-value=4e-05  Score=73.57  Aligned_cols=48  Identities=25%  Similarity=0.585  Sum_probs=40.0

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      .-..|-||-+-|..    ..+..|||-||.-||+..|..+..||+||.+...
T Consensus        24 s~lrC~IC~~~i~i----p~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~e   71 (391)
T COG5432          24 SMLRCRICDCRISI----PCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCE   71 (391)
T ss_pred             hHHHhhhhhheeec----ceecccccchhHHHHHHHhcCCCCCccccccHHh
Confidence            44689999988754    3333499999999999999999999999998754

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

Probab=97.52  E-value=4.8e-05  Score=75.49  Aligned_cols=54  Identities=35%  Similarity=0.980  Sum_probs=42.4

Q ss_pred             CCCcccccCCccccCc----ceeecCCCCCCCChhhHHHHH--hc-----CCCCCcccCCccccC
Q 018110          163 EGTECSVCLSEFQEDE----TLRLLPKCNHAFHISCIDTWL--RS-----HTNCPLCRSPIVKIN  216 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~----~~r~lp~C~H~FH~~CI~~Wl--~~-----~~tCP~CR~~l~~~~  216 (360)
                      .+.+|.||++...+..    ...++|+|.|.||..||+.|-  .+     ...||.||.....+.
T Consensus       160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~  224 (344)
T KOG1039|consen  160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVN  224 (344)
T ss_pred             ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccccc
Confidence            4679999999876533    245678899999999999997  33     467999999876543

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

Probab=97.49  E-value=5.4e-05  Score=58.73  Aligned_cols=48  Identities=23%  Similarity=0.542  Sum_probs=36.3

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhc-CCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS-HTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~-~~tCP~CR~~l~~  214 (360)
                      +...|+|+.+.|.+   ..++| +||.|...||..||.. +.+||+|+.++..
T Consensus         3 ~~f~CpIt~~lM~d---PVi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~   51 (73)
T PF04564_consen    3 DEFLCPITGELMRD---PVILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSE   51 (73)
T ss_dssp             GGGB-TTTSSB-SS---EEEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SG
T ss_pred             cccCCcCcCcHhhC---ceeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCc
Confidence            34679999999876   33567 9999999999999998 8899999988765

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 ....

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

Probab=97.37  E-value=4.1e-05  Score=56.01  Aligned_cols=47  Identities=30%  Similarity=0.716  Sum_probs=34.3

Q ss_pred             CCcccccCCccccCcceeecCCCCCC-CChhhHH-HHHhcCCCCCcccCCccc
Q 018110          164 GTECSVCLSEFQEDETLRLLPKCNHA-FHISCID-TWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       164 ~~~C~ICl~~~~~~~~~r~lp~C~H~-FH~~CI~-~Wl~~~~tCP~CR~~l~~  214 (360)
                      +++|.||++.-.+  .+ +. .|||+ .+.+|-. .|-..+..||+||+++..
T Consensus         7 ~dECTICye~pvd--sV-lY-tCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~d   55 (62)
T KOG4172|consen    7 SDECTICYEHPVD--SV-LY-TCGHMCMCYACGLRLKKALHGCCPICRAPIKD   55 (62)
T ss_pred             ccceeeeccCcch--HH-HH-HcchHHhHHHHHHHHHHccCCcCcchhhHHHH
Confidence            4789999987443  33 33 39998 6778854 454578899999999854

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

Probab=97.36  E-value=3.7e-05  Score=81.80  Aligned_cols=52  Identities=21%  Similarity=0.530  Sum_probs=43.6

Q ss_pred             CCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccccC
Q 018110          164 GTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKIN  216 (360)
Q Consensus       164 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~~  216 (360)
                      ...|++|+..+.++......+ |+|+||..||..|-+...+||+||..+..+.
T Consensus       123 ~~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~  174 (1134)
T KOG0825|consen  123 ENQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFGEVK  174 (1134)
T ss_pred             hhhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhheee
Confidence            357999999887766555555 9999999999999999999999999886543

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

Probab=97.35  E-value=0.00012  Score=72.15  Aligned_cols=48  Identities=40%  Similarity=0.913  Sum_probs=40.4

Q ss_pred             CCCcccccCCccccCcceeecCCCCCC-CChhhHHHHHhcCCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHA-FHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~-FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      ...+|.|||.+-.   .+.+|| |.|. .|..|.+.---+++.||+||+++..
T Consensus       289 ~gkeCVIClse~r---dt~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~  337 (349)
T KOG4265|consen  289 SGKECVICLSESR---DTVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEE  337 (349)
T ss_pred             CCCeeEEEecCCc---ceEEec-chhhehhHhHHHHHHHhhcCCCccccchHh
Confidence            4679999999754   467899 9998 7999998876678899999999875

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

Probab=97.24  E-value=7.7e-05  Score=71.92  Aligned_cols=82  Identities=24%  Similarity=0.545  Sum_probs=57.6

Q ss_pred             CCccccccCCCCHHHHHhhcceEe-----ec----------------CCCCcCCCcccccCCccccCcceeecCCCCCCC
Q 018110          132 HPIWYINTVGLQSSVIREIAVLKY-----KK----------------SDGLVEGTECSVCLSEFQEDETLRLLPKCNHAF  190 (360)
Q Consensus       132 ~~i~~~~~~gl~~~~i~~lp~~~~-----~~----------------~~~~~~~~~C~ICl~~~~~~~~~r~lp~C~H~F  190 (360)
                      ..+...+.+|+.+..+..|...-.     +.                .+.......|.|||.-|..++.+.+++ |.|.|
T Consensus        62 Ptvtl~nPRGl~d~~~~~i~~~~~~iikq~~g~pii~~lie~~~e~LT~nn~p~gqCvICLygfa~~~~ft~T~-C~Hy~  140 (368)
T KOG4445|consen   62 PTVTLSNPRGLGDPEFREIQRQIQEIIKQNSGMPIICQLIEHCSEFLTENNHPNGQCVICLYGFASSPAFTVTA-CDHYM  140 (368)
T ss_pred             CceEecCCCCCCcHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHcccCCCCCCceEEEEEeecCCCceeeeh-hHHHH
Confidence            344556678888876666542211     00                122234578999999999999888888 99999


Q ss_pred             ChhhHHHHHh-----------------------cCCCCCcccCCccc
Q 018110          191 HISCIDTWLR-----------------------SHTNCPLCRSPIVK  214 (360)
Q Consensus       191 H~~CI~~Wl~-----------------------~~~tCP~CR~~l~~  214 (360)
                      |..|+..+|.                       ....||+||..|..
T Consensus       141 H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~  187 (368)
T KOG4445|consen  141 HFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI  187 (368)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence            9999987662                       12349999999875

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

Probab=97.06  E-value=0.00056  Score=68.32  Aligned_cols=49  Identities=31%  Similarity=0.855  Sum_probs=40.4

Q ss_pred             CcccccCCccccCcceeecCCCCCCCChhhHHHHHhc--CCCCCcccCCccccCC
Q 018110          165 TECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS--HTNCPLCRSPIVKINH  217 (360)
Q Consensus       165 ~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~--~~tCP~CR~~l~~~~~  217 (360)
                      ..|-||-+.   ++.+++-| |||..|..|+..|-..  ..+||.||..|...+.
T Consensus       370 eLCKICaen---dKdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~  420 (563)
T KOG1785|consen  370 ELCKICAEN---DKDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEP  420 (563)
T ss_pred             HHHHHhhcc---CCCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEeccccc
Confidence            469999874   45688888 9999999999999843  6789999999876443

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

Probab=97.06  E-value=6.9e-05  Score=73.69  Aligned_cols=50  Identities=32%  Similarity=0.670  Sum_probs=40.8

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHh-cCCCCCcccCCcccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLR-SHTNCPLCRSPIVKI  215 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~-~~~tCP~CR~~l~~~  215 (360)
                      .+..|+|||+-+..   .+..+.|.|.||.+||..-++ .+++||.||+.+...
T Consensus        42 ~~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk   92 (381)
T KOG0311|consen   42 IQVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK   92 (381)
T ss_pred             hhhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence            46789999998764   344457999999999999886 578899999988753

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

Probab=97.01  E-value=0.00041  Score=69.43  Aligned_cols=50  Identities=32%  Similarity=0.844  Sum_probs=37.4

Q ss_pred             CCCcccccCCccccCcce-eecCCCCCCCChhhHHHHHhc--CCCCCcccCCc
Q 018110          163 EGTECSVCLSEFQEDETL-RLLPKCNHAFHISCIDTWLRS--HTNCPLCRSPI  212 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~-r~lp~C~H~FH~~CI~~Wl~~--~~tCP~CR~~l  212 (360)
                      .+.+|+|||+.++..-.. ...+.|||.|-..||+.||.+  ...||.|...-
T Consensus         3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka   55 (463)
T KOG1645|consen    3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA   55 (463)
T ss_pred             ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence            357899999999864432 233459999999999999952  34599997643

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

Probab=96.99  E-value=0.00021  Score=54.10  Aligned_cols=46  Identities=35%  Similarity=0.804  Sum_probs=23.0

Q ss_pred             CCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          164 GTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       164 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      ...|++|.+-+..  .+ .+..|.|+|+..||..-+..  .||+|+.+...
T Consensus         7 lLrCs~C~~~l~~--pv-~l~~CeH~fCs~Ci~~~~~~--~CPvC~~Paw~   52 (65)
T PF14835_consen    7 LLRCSICFDILKE--PV-CLGGCEHIFCSSCIRDCIGS--ECPVCHTPAWI   52 (65)
T ss_dssp             TTS-SSS-S--SS---B----SSS--B-TTTGGGGTTT--B-SSS--B-S-
T ss_pred             hcCCcHHHHHhcC--Cc-eeccCccHHHHHHhHHhcCC--CCCCcCChHHH
Confidence            3569999998765  33 33359999999999886553  49999887644

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

Probab=96.59  E-value=0.001  Score=64.42  Aligned_cols=47  Identities=30%  Similarity=0.600  Sum_probs=37.6

Q ss_pred             CCcccccCCccccCcceeecCCCCCCCChhhHHHHHhc-CCCCCcccCCccc
Q 018110          164 GTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS-HTNCPLCRSPIVK  214 (360)
Q Consensus       164 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~-~~tCP~CR~~l~~  214 (360)
                      ..+|+||+....-.   ..|+ |+|.||..||.-=... ..+|++||.++..
T Consensus         7 ~~eC~IC~nt~n~P---v~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids   54 (324)
T KOG0824|consen    7 KKECLICYNTGNCP---VNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDS   54 (324)
T ss_pred             CCcceeeeccCCcC---cccc-ccchhhhhhhcchhhcCCCCCceecCCCCc
Confidence            46899999986543   4566 9999999999876554 5679999999875

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

Probab=96.46  E-value=0.0017  Score=65.89  Aligned_cols=49  Identities=37%  Similarity=0.844  Sum_probs=41.8

Q ss_pred             cCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          162 VEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       162 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      ..+.+|.||+..+..   ...+| |||.|+..||++-+.....||.||..+..
T Consensus        82 ~sef~c~vc~~~l~~---pv~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   82 RSEFECCVCSRALYP---PVVTP-CGHSFCLECLDRSLDQETECPLCRDELVE  130 (398)
T ss_pred             cchhhhhhhHhhcCC---Ccccc-ccccccHHHHHHHhccCCCCccccccccc
Confidence            467899999888765   33457 99999999999988888889999999985

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

Probab=96.41  E-value=0.0027  Score=59.24  Aligned_cols=49  Identities=29%  Similarity=0.749  Sum_probs=42.0

Q ss_pred             CCcccccCCccccCcceeecCCCCCCCChhhHHHHHhc--------CCCCCcccCCccc
Q 018110          164 GTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS--------HTNCPLCRSPIVK  214 (360)
Q Consensus       164 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~--------~~tCP~CR~~l~~  214 (360)
                      ...|..|-..+..++.+|+.  |-|+||..|+++|-..        ...||.|..+|++
T Consensus        50 ~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP  106 (299)
T KOG3970|consen   50 NPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP  106 (299)
T ss_pred             CCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence            35699999999999999865  9999999999999752        3459999999987

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

Probab=96.33  E-value=0.0015  Score=65.20  Aligned_cols=48  Identities=33%  Similarity=0.809  Sum_probs=38.6

Q ss_pred             CCcccccCCcccc-CcceeecCCCCCCCChhhHHHHHhcC--CCCCcccCCc
Q 018110          164 GTECSVCLSEFQE-DETLRLLPKCNHAFHISCIDTWLRSH--TNCPLCRSPI  212 (360)
Q Consensus       164 ~~~C~ICl~~~~~-~~~~r~lp~C~H~FH~~CI~~Wl~~~--~tCP~CR~~l  212 (360)
                      +.-|..|-+.+-. ++.+.-|| |.|+||..|+.+.|..+  .+||.||.-.
T Consensus       365 ~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crklr  415 (518)
T KOG1941|consen  365 ELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRKLR  415 (518)
T ss_pred             hhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHHHH
Confidence            3569999988864 44677788 99999999999999764  5699999443

>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.24  E-value=0.0013  Score=58.40  Aligned_cols=30  Identities=30%  Similarity=0.769  Sum_probs=27.3

Q ss_pred             cCCCcccccCCccccCcceeecCCCCCCCCh
Q 018110          162 VEGTECSVCLSEFQEDETLRLLPKCNHAFHI  192 (360)
Q Consensus       162 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~  192 (360)
                      ....+|.||||+++.++.+..|| |-.+||+
T Consensus       175 ddkGECvICLEdL~~GdtIARLP-CLCIYHK  204 (205)
T KOG0801|consen  175 DDKGECVICLEDLEAGDTIARLP-CLCIYHK  204 (205)
T ss_pred             ccCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence            34579999999999999999999 9999996

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

Probab=96.19  E-value=0.003  Score=64.12  Aligned_cols=53  Identities=26%  Similarity=0.694  Sum_probs=43.1

Q ss_pred             cCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccccCC
Q 018110          162 VEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKINH  217 (360)
Q Consensus       162 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~~~  217 (360)
                      .++..|+||...+.+.-..  . .|||.||..|+..|+..+..||.|+..+.....
T Consensus        19 ~~~l~C~~C~~vl~~p~~~--~-~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~   71 (391)
T KOG0297|consen   19 DENLLCPICMSVLRDPVQT--T-TCGHRFCAGCLLESLSNHQKCPVCRQELTQAEE   71 (391)
T ss_pred             cccccCccccccccCCCCC--C-CCCCcccccccchhhccCcCCcccccccchhhc
Confidence            3567899999998764332  3 499999999999999999999999988876443

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

Probab=96.18  E-value=0.0014  Score=56.74  Aligned_cols=38  Identities=18%  Similarity=0.597  Sum_probs=31.1

Q ss_pred             CCcccccCCccccCcceeecCCCC------CCCChhhHHHHHhcC
Q 018110          164 GTECSVCLSEFQEDETLRLLPKCN------HAFHISCIDTWLRSH  202 (360)
Q Consensus       164 ~~~C~ICl~~~~~~~~~r~lp~C~------H~FH~~CI~~Wl~~~  202 (360)
                      ..+|+||++.+..++.+..++ |+      |+||.+|+.+|-+.+
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~~~   69 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRRER   69 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHhhc
Confidence            478999999998866676776 76      999999999995433

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

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

Probab=96.06  E-value=0.002  Score=69.06  Aligned_cols=47  Identities=28%  Similarity=0.715  Sum_probs=37.1

Q ss_pred             CCcccccCCccccCcceeecCCCCCCCChhhHHHHHh-cCCCCCcccCCccc
Q 018110          164 GTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLR-SHTNCPLCRSPIVK  214 (360)
Q Consensus       164 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~-~~~tCP~CR~~l~~  214 (360)
                      -..|++|-..+.+   .. +++|+|+||..||.+-+. ++..||.|.+.+-+
T Consensus       643 ~LkCs~Cn~R~Kd---~v-I~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFga  690 (698)
T KOG0978|consen  643 LLKCSVCNTRWKD---AV-ITKCGHVFCEECVQTRYETRQRKCPKCNAAFGA  690 (698)
T ss_pred             ceeCCCccCchhh---HH-HHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence            3579999976543   32 335999999999999996 57789999888754

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

Probab=95.71  E-value=0.0054  Score=45.55  Aligned_cols=42  Identities=21%  Similarity=0.642  Sum_probs=27.7

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhc--CCCCCc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS--HTNCPL  207 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~--~~tCP~  207 (360)
                      -...|+|.+..|++  .++-.. |+|.|-++.|..||+.  ...||+
T Consensus        10 ~~~~CPiT~~~~~~--PV~s~~-C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   10 ISLKCPITLQPFED--PVKSKK-CGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             --SB-TTTSSB-SS--EEEESS-S--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             eccCCCCcCChhhC--CcCcCC-CCCeecHHHHHHHHHhcCCCCCCC
Confidence            45789999999876  555554 9999999999999944  445998

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

Probab=95.64  E-value=0.0066  Score=68.71  Aligned_cols=51  Identities=27%  Similarity=0.719  Sum_probs=39.4

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhc-----C-----CCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS-----H-----TNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~-----~-----~tCP~CR~~l~~  214 (360)
                      .++.|.||+.+--.......|. |+|+||..|.+.-|.+     +     -.||+|+.++..
T Consensus      3485 ~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3485 ADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred             cCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence            5678999998766666667786 9999999999775543     2     359999998754

>PHA02862 5L protein; Provisional

Probab=95.14  E-value=0.014  Score=51.08  Aligned_cols=46  Identities=24%  Similarity=0.637  Sum_probs=34.8

Q ss_pred             CCcccccCCccccCcceeecCCCC-----CCCChhhHHHHHhc--CCCCCcccCCccc
Q 018110          164 GTECSVCLSEFQEDETLRLLPKCN-----HAFHISCIDTWLRS--HTNCPLCRSPIVK  214 (360)
Q Consensus       164 ~~~C~ICl~~~~~~~~~r~lp~C~-----H~FH~~CI~~Wl~~--~~tCP~CR~~l~~  214 (360)
                      ++.|-||+++-++  .+  -| |.     ..-|..|+.+|++.  +..|++|+.++.-
T Consensus         2 ~diCWIC~~~~~e--~~--~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I   54 (156)
T PHA02862          2 SDICWICNDVCDE--RN--NF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI   54 (156)
T ss_pred             CCEEEEecCcCCC--Cc--cc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence            3679999998433  33  34 54     57899999999964  5679999998864

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

Probab=95.01  E-value=0.011  Score=64.19  Aligned_cols=50  Identities=32%  Similarity=0.794  Sum_probs=40.1

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcC-------CCCCcccCCc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSH-------TNCPLCRSPI  212 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~-------~tCP~CR~~l  212 (360)
                      ...+|.||++.+...+.+.-...|-|+||..||.+|-+..       -.||.|....
T Consensus       190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~  246 (950)
T KOG1952|consen  190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVS  246 (950)
T ss_pred             CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchh
Confidence            4479999999998888776666699999999999998631       2499998443

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

Probab=94.96  E-value=0.019  Score=41.25  Aligned_cols=45  Identities=27%  Similarity=0.637  Sum_probs=22.2

Q ss_pred             ccccCCccccCc-ceeecCCCCCCCChhhHHHHHh-cCCCCCcccCCc
Q 018110          167 CSVCLSEFQEDE-TLRLLPKCNHAFHISCIDTWLR-SHTNCPLCRSPI  212 (360)
Q Consensus       167 C~ICl~~~~~~~-~~r~lp~C~H~FH~~CI~~Wl~-~~~tCP~CR~~l  212 (360)
                      |++|.+++...+ .+.-.+ |++..+..|...-+. ....||-||.++
T Consensus         1 cp~C~e~~d~~d~~~~PC~-Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCE-CGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SST-TS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCCCccccCc-CCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            789999994433 444444 889999999777765 477899999875

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=94.94  E-value=0.023  Score=50.57  Aligned_cols=50  Identities=20%  Similarity=0.670  Sum_probs=36.3

Q ss_pred             cCCCcccccCCccccCcceeecC-CCCC---CCChhhHHHHHhc--CCCCCcccCCcccc
Q 018110          162 VEGTECSVCLSEFQEDETLRLLP-KCNH---AFHISCIDTWLRS--HTNCPLCRSPIVKI  215 (360)
Q Consensus       162 ~~~~~C~ICl~~~~~~~~~r~lp-~C~H---~FH~~CI~~Wl~~--~~tCP~CR~~l~~~  215 (360)
                      ..+..|-||.++..  +..  .| .|..   .-|.+|+..|+..  ...|++|+.++...
T Consensus         6 ~~~~~CRIC~~~~~--~~~--~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~   61 (162)
T PHA02825          6 LMDKCCWICKDEYD--VVT--NYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK   61 (162)
T ss_pred             CCCCeeEecCCCCC--Ccc--CCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence            35678999998843  222  34 2444   5699999999964  55699999988653

>PHA03096 p28-like protein; Provisional

Probab=94.94  E-value=0.011  Score=57.46  Aligned_cols=46  Identities=26%  Similarity=0.665  Sum_probs=33.9

Q ss_pred             CcccccCCccccC----cceeecCCCCCCCChhhHHHHHhc---CCCCCcccC
Q 018110          165 TECSVCLSEFQED----ETLRLLPKCNHAFHISCIDTWLRS---HTNCPLCRS  210 (360)
Q Consensus       165 ~~C~ICl~~~~~~----~~~r~lp~C~H~FH~~CI~~Wl~~---~~tCP~CR~  210 (360)
                      .+|.||++.....    ....+|+.|.|.|+..||..|-..   ..+||.||.
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~  231 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR  231 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence            6799999987653    244578889999999999999853   233444443

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

Probab=94.93  E-value=0.0096  Score=48.47  Aligned_cols=32  Identities=41%  Similarity=0.901  Sum_probs=26.9

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHH
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCID  196 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~  196 (360)
                      ++..|++|-..+.. ..+.+.| |||+||..|++
T Consensus        77 ~~~~C~vC~k~l~~-~~f~~~p-~~~v~H~~C~~  108 (109)
T PF10367_consen   77 ESTKCSVCGKPLGN-SVFVVFP-CGHVVHYSCIK  108 (109)
T ss_pred             CCCCccCcCCcCCC-ceEEEeC-CCeEEeccccc
Confidence            46789999999976 5667788 99999999975

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

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

Probab=94.87  E-value=0.028  Score=53.99  Aligned_cols=51  Identities=27%  Similarity=0.493  Sum_probs=38.8

Q ss_pred             cCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhc--CCCCCcccCCcccc
Q 018110          162 VEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS--HTNCPLCRSPIVKI  215 (360)
Q Consensus       162 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~--~~tCP~CR~~l~~~  215 (360)
                      ..+.+|++|-+.-..  ...+.+ |+|+||.-||..=+..  .-+||.|-.+..+.
T Consensus       237 t~~~~C~~Cg~~Pti--P~~~~~-C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~l  289 (298)
T KOG2879|consen  237 TSDTECPVCGEPPTI--PHVIGK-CGHIYCYYCIATSRLWDASFTCPLCGENVEPL  289 (298)
T ss_pred             cCCceeeccCCCCCC--Ceeecc-ccceeehhhhhhhhcchhhcccCccCCCCcch
Confidence            356899999987544  344455 9999999999986653  46899998887654

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

Probab=94.72  E-value=0.053  Score=53.30  Aligned_cols=46  Identities=26%  Similarity=0.567  Sum_probs=35.9

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCC
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSP  211 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~  211 (360)
                      ....|+||+.....+..+-   .-|-+||..||-.++..+..||+=-.+
T Consensus       299 ~~~~CpvClk~r~Nptvl~---vSGyVfCY~Ci~~Yv~~~~~CPVT~~p  344 (357)
T KOG0826|consen  299 DREVCPVCLKKRQNPTVLE---VSGYVFCYPCIFSYVVNYGHCPVTGYP  344 (357)
T ss_pred             ccccChhHHhccCCCceEE---ecceEEeHHHHHHHHHhcCCCCccCCc
Confidence            4578999998876543322   268999999999999999999975444

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

Probab=94.56  E-value=0.023  Score=40.44  Aligned_cols=40  Identities=38%  Similarity=1.023  Sum_probs=26.9

Q ss_pred             ccccCCccccCcceeecCCCC--C---CCChhhHHHHHh--cCCCCCcc
Q 018110          167 CSVCLSEFQEDETLRLLPKCN--H---AFHISCIDTWLR--SHTNCPLC  208 (360)
Q Consensus       167 C~ICl~~~~~~~~~r~lp~C~--H---~FH~~CI~~Wl~--~~~tCP~C  208 (360)
                      |-||++.-.... ..+.| |.  =   ..|..||..|+.  .+.+|++|
T Consensus         1 CrIC~~~~~~~~-~li~p-C~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDE-PLISP-CRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS--EE-S-SS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCC-ceecc-cccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            779998877655 23455 55  3   789999999997  45679987

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

Probab=94.47  E-value=0.0084  Score=58.82  Aligned_cols=49  Identities=31%  Similarity=0.649  Sum_probs=41.0

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      ...+|.+|-.-|.+...+.   .|-|.||+.||-+.|....+||.|...+-.
T Consensus        14 ~~itC~LC~GYliDATTI~---eCLHTFCkSCivk~l~~~~~CP~C~i~ih~   62 (331)
T KOG2660|consen   14 PHITCRLCGGYLIDATTIT---ECLHTFCKSCIVKYLEESKYCPTCDIVIHK   62 (331)
T ss_pred             cceehhhccceeecchhHH---HHHHHHHHHHHHHHHHHhccCCccceeccC
Confidence            5678999998887755443   499999999999999999999999877654

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

Probab=94.32  E-value=0.0044  Score=61.37  Aligned_cols=45  Identities=31%  Similarity=0.693  Sum_probs=32.4

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      ....|.||+++...   ...+| |||+-+  |..-- +....||+||+.+..
T Consensus       304 ~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs-~~l~~CPvCR~rI~~  348 (355)
T KOG1571|consen  304 QPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCS-KHLPQCPVCRQRIRL  348 (355)
T ss_pred             CCCceEEecCCccc---eeeec-CCcEEE--chHHH-hhCCCCchhHHHHHH
Confidence            45789999998765   56677 999966  54432 334559999998753

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

Probab=94.10  E-value=0.02  Score=59.35  Aligned_cols=51  Identities=22%  Similarity=0.578  Sum_probs=38.8

Q ss_pred             CCcCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHh-----cCCCCCcccCCccc
Q 018110          160 GLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLR-----SHTNCPLCRSPIVK  214 (360)
Q Consensus       160 ~~~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~-----~~~tCP~CR~~l~~  214 (360)
                      ...+..+|.+|-++-++   .... .|.|.||.-||.++..     .+.+||.|...+.-
T Consensus       532 enk~~~~C~lc~d~aed---~i~s-~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Lsi  587 (791)
T KOG1002|consen  532 ENKGEVECGLCHDPAED---YIES-SCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSI  587 (791)
T ss_pred             cccCceeecccCChhhh---hHhh-hhhHHHHHHHHHHHHHhhhcccCCCCccccccccc
Confidence            33466799999987543   2234 3999999999999885     35789999888764

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

Probab=93.82  E-value=0.028  Score=56.75  Aligned_cols=46  Identities=26%  Similarity=0.717  Sum_probs=37.1

Q ss_pred             CCcccccCCccccCcceeecCCCCCCCChhhHHHHHhc--------CCCCCcccC
Q 018110          164 GTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS--------HTNCPLCRS  210 (360)
Q Consensus       164 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~--------~~tCP~CR~  210 (360)
                      -..|.||+++......+..+| |+|+||..|+..++..        .-.||-+.-
T Consensus       184 lf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C  237 (445)
T KOG1814|consen  184 LFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC  237 (445)
T ss_pred             cccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence            468999999987768888998 9999999999999852        234876643

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.38  E-value=0.063  Score=50.96  Aligned_cols=52  Identities=15%  Similarity=0.350  Sum_probs=46.1

Q ss_pred             CcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccccC
Q 018110          165 TECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKIN  216 (360)
Q Consensus       165 ~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~~  216 (360)
                      ..|+||.+.+........|..|||+|..+|+.+.+.....||+|-.++...+
T Consensus       222 yiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrd  273 (303)
T KOG3039|consen  222 YICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRD  273 (303)
T ss_pred             eecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccc
Confidence            5799999999988888778779999999999999999999999988876533

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

Probab=93.30  E-value=0.04  Score=50.72  Aligned_cols=45  Identities=18%  Similarity=0.547  Sum_probs=37.1

Q ss_pred             CCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCc
Q 018110          164 GTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPI  212 (360)
Q Consensus       164 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l  212 (360)
                      ...|.||..+|+..   .+. .|||.||..|...-++...+|-+|.+..
T Consensus       196 PF~C~iCKkdy~sp---vvt-~CGH~FC~~Cai~~y~kg~~C~~Cgk~t  240 (259)
T COG5152         196 PFLCGICKKDYESP---VVT-ECGHSFCSLCAIRKYQKGDECGVCGKAT  240 (259)
T ss_pred             ceeehhchhhccch---hhh-hcchhHHHHHHHHHhccCCcceecchhh
Confidence            35799999999763   233 4999999999999888999999997654

>PF15102 TMEM154: TMEM154 protein family

Probab=92.88  E-value=0.039  Score=48.50  Aligned_cols=14  Identities=36%  Similarity=0.747  Sum_probs=6.6

Q ss_pred             HHHHHHHHhccCCC
Q 018110           96 VVFVKFYLRRRSSS  109 (360)
Q Consensus        96 ~llv~~~~rRr~~~  109 (360)
                      ++++.+++|+|.++
T Consensus        76 V~lv~~~kRkr~K~   89 (146)
T PF15102_consen   76 VCLVIYYKRKRTKQ   89 (146)
T ss_pred             HHheeEEeecccCC
Confidence            44444555444433

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

Probab=92.63  E-value=0.12  Score=51.36  Aligned_cols=50  Identities=22%  Similarity=0.614  Sum_probs=41.2

Q ss_pred             cCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCcccc
Q 018110          162 VEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKI  215 (360)
Q Consensus       162 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  215 (360)
                      .++..|+||.-.-   -.....| |+|.=|..||.+.|...+.|=.|+..+...
T Consensus       420 sEd~lCpICyA~p---i~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~~~  469 (489)
T KOG4692|consen  420 SEDNLCPICYAGP---INAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVIDV  469 (489)
T ss_pred             cccccCcceeccc---chhhccC-CCCchHHHHHHHHHhcCCeeeEecceeeeh
Confidence            4678999998652   2334566 999999999999999999999999988753

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

Probab=92.41  E-value=0.064  Score=37.48  Aligned_cols=41  Identities=24%  Similarity=0.710  Sum_probs=23.0

Q ss_pred             ccccCCccccCcceeecCCCCCCCChhhHHHHHhcCC--CCCcc
Q 018110          167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHT--NCPLC  208 (360)
Q Consensus       167 C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~--tCP~C  208 (360)
                      |.+|.+....+..-... .|+=.+|..|+..+++...  .||.|
T Consensus         1 C~~C~~iv~~G~~C~~~-~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNR-DCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeeccCCCC-ccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            67787776665433222 4888999999999998655  79987

; PDB: 3NW0_A 2CT0_A.

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

Probab=92.33  E-value=0.053  Score=51.24  Aligned_cols=47  Identities=30%  Similarity=0.689  Sum_probs=34.1

Q ss_pred             cccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccccC
Q 018110          166 ECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKIN  216 (360)
Q Consensus       166 ~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~~  216 (360)
                      .|..|.---. ++...++. |+|+||..|...-  ....||+||.++..+.
T Consensus         5 hCn~C~~~~~-~~~f~LTa-C~HvfC~~C~k~~--~~~~C~lCkk~ir~i~   51 (233)
T KOG4739|consen    5 HCNKCFRFPS-QDPFFLTA-CRHVFCEPCLKAS--SPDVCPLCKKSIRIIQ   51 (233)
T ss_pred             EeccccccCC-CCceeeee-chhhhhhhhcccC--Cccccccccceeeeee
Confidence            4777775443 66777776 9999999997652  2238999999965543

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

Probab=91.47  E-value=0.076  Score=51.59  Aligned_cols=46  Identities=22%  Similarity=0.480  Sum_probs=38.0

Q ss_pred             CcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          165 TECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       165 ~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      ..|-||...|...  | +. +|+|.||..|...-++....|++|-+....
T Consensus       242 f~c~icr~~f~~p--V-vt-~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g  287 (313)
T KOG1813|consen  242 FKCFICRKYFYRP--V-VT-KCGHYFCEVCALKPYQKGEKCYVCSQQTHG  287 (313)
T ss_pred             ccccccccccccc--h-hh-cCCceeehhhhccccccCCcceeccccccc
Confidence            5699999999764  2 23 499999999999988999999999776643

>PF04641 Rtf2: Rtf2 RING-finger

Probab=91.42  E-value=0.2  Score=48.04  Aligned_cols=54  Identities=20%  Similarity=0.483  Sum_probs=42.4

Q ss_pred             cCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccccC
Q 018110          162 VEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKIN  216 (360)
Q Consensus       162 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~~  216 (360)
                      .....|+|...+|........+-.|||+|-..+|..- .....||+|-.++...+
T Consensus       111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~D  164 (260)
T PF04641_consen  111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEED  164 (260)
T ss_pred             CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccCC
Confidence            3557899999999766666666559999999999997 33567999998887543

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

Probab=91.16  E-value=0.018  Score=57.71  Aligned_cols=50  Identities=22%  Similarity=0.648  Sum_probs=42.8

Q ss_pred             CCcccccCCccccC-cceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          164 GTECSVCLSEFQED-ETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       164 ~~~C~ICl~~~~~~-~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      ...|+||.+.+... +.+..+- |||.+|..||.+||.....||-||+.+..
T Consensus       196 v~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~~  246 (465)
T KOG0827|consen  196 VGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELPK  246 (465)
T ss_pred             HhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhhh
Confidence            35799999999876 5565665 99999999999999998899999998865

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

Probab=90.35  E-value=0.18  Score=48.82  Aligned_cols=47  Identities=28%  Similarity=0.805  Sum_probs=38.2

Q ss_pred             CcccccCCccccCc---ceeecCCCCCCCChhhHHHHHhc-CCCCCcccCCc
Q 018110          165 TECSVCLSEFQEDE---TLRLLPKCNHAFHISCIDTWLRS-HTNCPLCRSPI  212 (360)
Q Consensus       165 ~~C~ICl~~~~~~~---~~r~lp~C~H~FH~~CI~~Wl~~-~~tCP~CR~~l  212 (360)
                      ..|-||-++|...+   ..|.|. |||.|+..|+.+-+.. ...||.||.+.
T Consensus         4 ~~c~~c~~~~s~~~~~~~p~~l~-c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen    4 PECEICNEDYSSEDGDHIPRVLK-CGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             CceeecCccccccCcccCCcccc-cCceehHhHHHHHhcCceeeccCCCCcc
Confidence            57999999998764   446675 9999999999887764 45699999985

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

Probab=90.18  E-value=0.14  Score=46.49  Aligned_cols=30  Identities=40%  Similarity=1.133  Sum_probs=24.5

Q ss_pred             CCCCCCChhhHHHHHhc----C-------CCCCcccCCccc
Q 018110          185 KCNHAFHISCIDTWLRS----H-------TNCPLCRSPIVK  214 (360)
Q Consensus       185 ~C~H~FH~~CI~~Wl~~----~-------~tCP~CR~~l~~  214 (360)
                      .||.-||.-|+..||+.    +       ..||.|-.++..
T Consensus       189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial  229 (234)
T KOG3268|consen  189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL  229 (234)
T ss_pred             ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence            49999999999999963    1       349999888753

>PF02439 Adeno_E3_CR2: Adenovirus E3 region protein CR2; InterPro: IPR003470 Early region 3 (E3) of human adenoviruses (Ads) codes for proteins that appear to control viral interactions with the host []

Probab=89.81  E-value=0.66  Score=31.64  Aligned_cols=29  Identities=14%  Similarity=0.459  Sum_probs=14.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 018110           78 LIITASALATTIVAVLCYVVFVKFYLRRR  106 (360)
Q Consensus        78 lIiii~iL~~v~llll~~~llv~~~~rRr  106 (360)
                      +-|++++++.++++++++++++++++|.+
T Consensus         6 IaIIv~V~vg~~iiii~~~~YaCcykk~~   34 (38)
T PF02439_consen    6 IAIIVAVVVGMAIIIICMFYYACCYKKHR   34 (38)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHcccc
Confidence            44445555555555555555555444433

This region called CR1 (conserved region 1) [] is found three times in Human adenovirus 19 (a subgroup D adenovirus) 49 kDa protein in the E3 region. CR1 is also found in the 20.1 Kd protein of subgroup B adenoviruses. The function of this 80 amino acid region is unknown. This region is probably a divergent immunoglobulin domain.

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=88.95  E-value=0.48  Score=34.88  Aligned_cols=33  Identities=30%  Similarity=0.896  Sum_probs=29.7

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhH
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCI  195 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI  195 (360)
                      ....|.+|-+.|..++.+.+.|.|+=.+|..|.
T Consensus         4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~   36 (54)
T PF14446_consen    4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCW   36 (54)
T ss_pred             cCccChhhCCcccCCCCEEECCCCCCcccHHHH
Confidence            456899999999988889999999999999994

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=88.70  E-value=0.23  Score=36.58  Aligned_cols=45  Identities=24%  Similarity=0.538  Sum_probs=31.3

Q ss_pred             CcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCcccc
Q 018110          165 TECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKI  215 (360)
Q Consensus       165 ~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  215 (360)
                      ..|..|...   +..-.++| |+|+.+..|.+-|  +-+.||+|-+++...
T Consensus         8 ~~~~~~~~~---~~~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~~~   52 (55)
T PF14447_consen    8 QPCVFCGFV---GTKGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFEFD   52 (55)
T ss_pred             eeEEEcccc---cccccccc-ccceeeccccChh--hccCCCCCCCcccCC
Confidence            345555432   23345677 9999999997653  667799999988653

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

Probab=88.48  E-value=0.33  Score=48.83  Aligned_cols=54  Identities=22%  Similarity=0.588  Sum_probs=33.4

Q ss_pred             CcCCCcccccCCccccCcceee-------------cCC-----CCCCCChhhHHHHHhc-------------CCCCCccc
Q 018110          161 LVEGTECSVCLSEFQEDETLRL-------------LPK-----CNHAFHISCIDTWLRS-------------HTNCPLCR  209 (360)
Q Consensus       161 ~~~~~~C~ICl~~~~~~~~~r~-------------lp~-----C~H~FH~~CI~~Wl~~-------------~~tCP~CR  209 (360)
                      ..+.+.|--|+..-..-+..+.             .+.     |.-++|.+|+.+|+..             +-+||+||
T Consensus       268 ~~e~e~CigC~~~~~~vkl~k~C~~~~~~g~~~~~~~~C~~C~CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCR  347 (358)
T PF10272_consen  268 GQELEPCIGCMQAQPNVKLVKRCADEEQEGSPLPNEPPCQQCYCRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCR  347 (358)
T ss_pred             ccccCCccccccCCCCcEEEeccCCcccCCcccccCCCCccccccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCc
Confidence            3466789999975432111111             112     4456678999998842             34699999


Q ss_pred             CCccc
Q 018110          210 SPIVK  214 (360)
Q Consensus       210 ~~l~~  214 (360)
                      +.+--
T Consensus       348 a~FCi  352 (358)
T PF10272_consen  348 AKFCI  352 (358)
T ss_pred             cccee
Confidence            98653

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

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

Probab=87.78  E-value=0.28  Score=47.59  Aligned_cols=46  Identities=22%  Similarity=0.600  Sum_probs=38.0

Q ss_pred             CCcccccCCccccCc-ceeecCCCCCCCChhhHHHHHhcCCCCCcccC
Q 018110          164 GTECSVCLSEFQEDE-TLRLLPKCNHAFHISCIDTWLRSHTNCPLCRS  210 (360)
Q Consensus       164 ~~~C~ICl~~~~~~~-~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~  210 (360)
                      ...|+||.+.+-... .+..++ |||.-|..|+......+-+||+|..
T Consensus       158 ~~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  158 EFNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             cCCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence            345999999877655 445666 9999999999998877799999988

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

Probab=87.41  E-value=0.5  Score=47.01  Aligned_cols=52  Identities=27%  Similarity=0.574  Sum_probs=39.0

Q ss_pred             CCCcCCCcccccCCccccCcceeecCCCCCCCChhhHHHH--HhcCCCCCcccCCccc
Q 018110          159 DGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTW--LRSHTNCPLCRSPIVK  214 (360)
Q Consensus       159 ~~~~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~W--l~~~~tCP~CR~~l~~  214 (360)
                      +...+...|.||-+.+.   .+-++| |+|..|..|--.-  |-..+.||+||.....
T Consensus        56 dtDEen~~C~ICA~~~T---Ys~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~  109 (493)
T COG5236          56 DTDEENMNCQICAGSTT---YSARYP-CGHQICHACAVRLRALYMQKGCPLCRTETEA  109 (493)
T ss_pred             ccccccceeEEecCCce---EEEecc-CCchHHHHHHHHHHHHHhccCCCccccccce
Confidence            33345678999998764   456788 9999999996443  4567899999998654

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

Probab=87.09  E-value=0.27  Score=53.77  Aligned_cols=42  Identities=24%  Similarity=0.775  Sum_probs=32.5

Q ss_pred             CcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCc
Q 018110          165 TECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPI  212 (360)
Q Consensus       165 ~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l  212 (360)
                      ..|..|--.++-+  .+... |||.||.+|+.   .....||-|+..+
T Consensus       841 skCs~C~~~LdlP--~VhF~-CgHsyHqhC~e---~~~~~CP~C~~e~  882 (933)
T KOG2114|consen  841 SKCSACEGTLDLP--FVHFL-CGHSYHQHCLE---DKEDKCPKCLPEL  882 (933)
T ss_pred             eeecccCCccccc--eeeee-cccHHHHHhhc---cCcccCCccchhh
Confidence            5899998887653  33343 99999999998   4566799998743

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=86.73  E-value=0.38  Score=47.73  Aligned_cols=53  Identities=21%  Similarity=0.492  Sum_probs=37.3

Q ss_pred             CCCcccccCCccccCcc-eeecCCCCCCCChhhHHHHHh-cCCCCCcccCCccccC
Q 018110          163 EGTECSVCLSEFQEDET-LRLLPKCNHAFHISCIDTWLR-SHTNCPLCRSPIVKIN  216 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~-~r~lp~C~H~FH~~CI~~Wl~-~~~tCP~CR~~l~~~~  216 (360)
                      +++.|+.|++++...++ ..-.| ||...|.-|...--+ -+..||-||+.+...+
T Consensus        13 eed~cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~y~den   67 (480)
T COG5175          13 EEDYCPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRKYDDEN   67 (480)
T ss_pred             ccccCcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhhccccc
Confidence            45669999999987663 44555 998777777433222 3677999999876543

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

Probab=86.25  E-value=0.31  Score=53.64  Aligned_cols=35  Identities=23%  Similarity=0.627  Sum_probs=28.2

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHH
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWL  199 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl  199 (360)
                      .++.|.+|...+... ...+-| |||.||.+||.+-.
T Consensus       816 p~d~C~~C~~~ll~~-pF~vf~-CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  816 PQDSCDHCGRPLLIK-PFYVFP-CGHCFHRDCLIRHV  850 (911)
T ss_pred             CccchHHhcchhhcC-cceeee-ccchHHHHHHHHHH
Confidence            568999999888654 556677 99999999997654

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

Probab=86.11  E-value=0.13  Score=49.98  Aligned_cols=44  Identities=27%  Similarity=0.739  Sum_probs=30.9

Q ss_pred             CCcccccCCccccCcceeecCCCCCCC-ChhhHHHHHhcCCCCCcccCCcccc
Q 018110          164 GTECSVCLSEFQEDETLRLLPKCNHAF-HISCIDTWLRSHTNCPLCRSPIVKI  215 (360)
Q Consensus       164 ~~~C~ICl~~~~~~~~~r~lp~C~H~F-H~~CI~~Wl~~~~tCP~CR~~l~~~  215 (360)
                      ...|+||++.-.   ....|+ |||.. |..|=..    -..||+||+-+..+
T Consensus       300 ~~LC~ICmDaP~---DCvfLe-CGHmVtCt~CGkr----m~eCPICRqyi~rv  344 (350)
T KOG4275|consen  300 RRLCAICMDAPR---DCVFLE-CGHMVTCTKCGKR----MNECPICRQYIVRV  344 (350)
T ss_pred             HHHHHHHhcCCc---ceEEee-cCcEEeehhhccc----cccCchHHHHHHHH
Confidence            457999998643   356787 99974 5556322    34799999987653

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

Probab=85.70  E-value=0.6  Score=45.62  Aligned_cols=43  Identities=33%  Similarity=0.770  Sum_probs=33.0

Q ss_pred             CcccccCCccccCcceeecCCCCCCCChhhHHHHHh-cCCCCCcccC
Q 018110          165 TECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLR-SHTNCPLCRS  210 (360)
Q Consensus       165 ~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~-~~~tCP~CR~  210 (360)
                      ..|+.|..-+..  .++. |-|+|.||.+||..-|. ....||.|.+
T Consensus       275 LkCplc~~Llrn--p~kT-~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         275 LKCPLCHCLLRN--PMKT-PCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccCcchhhhhhC--cccC-ccccchHHHHHHhhhhhhccccCCCccc
Confidence            679999877654  3333 55999999999998764 5678999954

>PF01708 Gemini_mov: Geminivirus putative movement protein ; InterPro: IPR002621 This family consists of putative movement proteins from Maize streak virus and Wheat dwarf virus []

Probab=85.63  E-value=1.1  Score=36.35  Aligned_cols=47  Identities=15%  Similarity=0.081  Sum_probs=29.5

Q ss_pred             cccCCCCCCCCCCccCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 018110           56 SLIPTPSPVTFKYHVHHKSRKFLIITASALATTIVAVLCYVVFVKFY  102 (360)
Q Consensus        56 ~~~~~pp~~~~~~~~~~~~s~ilIiii~iL~~v~llll~~~llv~~~  102 (360)
                      .+++|+-|+.++.++...++.++.++|++++.+.++-+.+.+++|=+
T Consensus        16 ~y~~P~~p~~~p~ss~~~ws~vv~v~i~~lvaVg~~YL~y~~fLkDl   62 (91)
T PF01708_consen   16 SYQTPRVPTAAPSSSGLPWSRVVEVAIFTLVAVGCLYLAYTWFLKDL   62 (91)
T ss_pred             cccCCCCCCCCCCCCCCcceeEeeeeehHHHHHHHHHHHHHHHHHHH
Confidence            33444333344556677777777777777777777777777766633

; GO: 0046740 spread of virus in host, cell to cell, 0016021 integral to membrane

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

Probab=85.00  E-value=0.33  Score=47.57  Aligned_cols=45  Identities=31%  Similarity=0.747  Sum_probs=31.4

Q ss_pred             cccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCcccc
Q 018110          166 ECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKI  215 (360)
Q Consensus       166 ~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  215 (360)
                      -|--|--.+.  -.-|+.| |+|+||.+|-..  ...+.||.|-..+..+
T Consensus        92 fCd~Cd~PI~--IYGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~VqrI  136 (389)
T KOG2932|consen   92 FCDRCDFPIA--IYGRMIP-CKHVFCLECARS--DSDKICPLCDDRVQRI  136 (389)
T ss_pred             eecccCCcce--eeecccc-cchhhhhhhhhc--CccccCcCcccHHHHH
Confidence            4666644432  3457888 999999999654  3466899997776553

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

Probab=84.50  E-value=0.35  Score=52.57  Aligned_cols=47  Identities=23%  Similarity=0.730  Sum_probs=36.5

Q ss_pred             CcccccCCccccCcceeecCCCCCCCChhhHHHHHhc--CCCCCcccCCccccC
Q 018110          165 TECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS--HTNCPLCRSPIVKIN  216 (360)
Q Consensus       165 ~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~--~~tCP~CR~~l~~~~  216 (360)
                      ..|.||++    .+...+.+ |+|.|+..|+..-+..  ..-||+||..+....
T Consensus       455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~  503 (674)
T KOG1001|consen  455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLKEKK  503 (674)
T ss_pred             cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHHHHH
Confidence            68999999    34455565 9999999999887753  335999999887643

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

Probab=83.42  E-value=1.2  Score=39.80  Aligned_cols=37  Identities=22%  Similarity=0.556  Sum_probs=22.1

Q ss_pred             CCCcccccCCccccCccee---------ecCCCCC-CCChhhHHHHHh
Q 018110          163 EGTECSVCLSEFQEDETLR---------LLPKCNH-AFHISCIDTWLR  200 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r---------~lp~C~H-~FH~~CI~~Wl~  200 (360)
                      ++..|+|||+--.....+.         -.- |+- .=|..||+++-+
T Consensus         1 ed~~CpICme~PHNAVLLlCSS~~kgcRpym-c~Ts~rhSNCLdqfkk   47 (162)
T PF07800_consen    1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYM-CDTSYRHSNCLDQFKK   47 (162)
T ss_pred             CCccCceeccCCCceEEEEeccccCCccccc-cCCccchhHHHHHHHH
Confidence            3568999998755422111         111 443 347889999863

The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.

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

Probab=83.11  E-value=0.36  Score=34.55  Aligned_cols=29  Identities=28%  Similarity=0.890  Sum_probs=22.0

Q ss_pred             CC-CCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          186 CN-HAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       186 C~-H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      |. |..+..|+...|.+...||+|..+++.
T Consensus        18 C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt   47 (50)
T PF03854_consen   18 CSDHYLCLNCLTLMLSRSDRCPICGKPLPT   47 (50)
T ss_dssp             -SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred             ecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence            66 999999999999999999999998864

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

>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]

Probab=82.69  E-value=0.7  Score=50.17  Aligned_cols=23  Identities=39%  Similarity=0.973  Sum_probs=21.2

Q ss_pred             CCCCCCChhhHHHHHhcCCCCCc
Q 018110          185 KCNHAFHISCIDTWLRSHTNCPL  207 (360)
Q Consensus       185 ~C~H~FH~~CI~~Wl~~~~tCP~  207 (360)
                      .|+|+-|..|.+.|++....||-
T Consensus      1047 ~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1047 TCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred             cccccccHHHHHHHHhcCCcCCC
Confidence            49999999999999999999984

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

Probab=82.53  E-value=0.37  Score=54.97  Aligned_cols=46  Identities=26%  Similarity=0.728  Sum_probs=37.4

Q ss_pred             CCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCc
Q 018110          164 GTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPI  212 (360)
Q Consensus       164 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l  212 (360)
                      ...|.||++.+.....+.   .|||.|+..|+..|+..+..||+|+...
T Consensus      1153 ~~~c~ic~dil~~~~~I~---~cgh~~c~~c~~~~l~~~s~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQGGIA---GCGHEPCCRCDELWLYASSRCPICKSIK 1198 (1394)
T ss_pred             ccchHHHHHHHHhcCCee---eechhHhhhHHHHHHHHhccCcchhhhh
Confidence            358999999887433332   3999999999999999999999998443

>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world

Probab=81.11  E-value=2  Score=42.20  Aligned_cols=13  Identities=0%  Similarity=0.209  Sum_probs=5.0

Q ss_pred             HHHHHHHHHHHHH
Q 018110           91 AVLCYVVFVKFYL  103 (360)
Q Consensus        91 lll~~~llv~~~~  103 (360)
                      +++++.+++||++
T Consensus       271 IMvIIYLILRYRR  283 (299)
T PF02009_consen  271 IMVIIYLILRYRR  283 (299)
T ss_pred             HHHHHHHHHHHHH
Confidence            3333333444443

Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].

>PF05568 ASFV_J13L: African swine fever virus J13L protein; InterPro: IPR008385 This family consists of several African swine fever virus (ASFV) j13L proteins [, , ]

Probab=80.65  E-value=3.4  Score=36.50  Aligned_cols=10  Identities=10%  Similarity=0.325  Sum_probs=4.3

Q ss_pred             HHHHHHhccC
Q 018110           98 FVKFYLRRRS  107 (360)
Q Consensus        98 lv~~~~rRr~  107 (360)
                      ++.+|.+|++
T Consensus        48 li~lcssRKk   57 (189)
T PF05568_consen   48 LIYLCSSRKK   57 (189)
T ss_pred             HHHHHhhhhH
Confidence            3334444443

>KOG3653 consensus Transforming growth factor beta/activin receptor subfamily of serine/threonine kinases [Signal transduction mechanisms]

Probab=80.62  E-value=4  Score=42.62  Aligned_cols=14  Identities=29%  Similarity=0.634  Sum_probs=10.4

Q ss_pred             CC-hhhHHHHHhcCC
Q 018110          190 FH-ISCIDTWLRSHT  203 (360)
Q Consensus       190 FH-~~CI~~Wl~~~~  203 (360)
                      || +.++..||+.+.
T Consensus       289 fh~kGsL~dyL~~nt  303 (534)
T KOG3653|consen  289 FHPKGSLCDYLKANT  303 (534)
T ss_pred             eccCCcHHHHHHhcc
Confidence            55 458999998764

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

Probab=80.20  E-value=1.1  Score=47.49  Aligned_cols=45  Identities=31%  Similarity=0.891  Sum_probs=38.1

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCcccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKI  215 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  215 (360)
                      ....|.||++++    ..+..+ |.   |..|+.+|+..+..||+|+..+...
T Consensus       478 ~~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~~  522 (543)
T KOG0802|consen  478 PNDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMKED  522 (543)
T ss_pred             ccCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhhcc
Confidence            457899999987    455666 88   9999999999999999999887653

>PF10577 UPF0560: Uncharacterised protein family UPF0560; InterPro: IPR018890 This family of proteins has no known function

Probab=80.03  E-value=3.8  Score=45.08  Aligned_cols=37  Identities=22%  Similarity=0.213  Sum_probs=21.1

Q ss_pred             ccccCchhhhHHHhhcccCCCCCCCCCCccccccccc
Q 018110          285 SVSLDSLSASKMIHALGNFDPEETTRNSDTQLAKERY  321 (360)
Q Consensus       285 s~S~ds~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  321 (360)
                      -||||-=+.+-+=|+.-+.-.+...|+-|.-++.+++
T Consensus       634 FVSLDGr~nA~VRHSyIDLq~~~r~~snDaSLDSGVD  670 (807)
T PF10577_consen  634 FVSLDGRSNAQVRHSYIDLQRGGRNGSNDASLDSGVD  670 (807)
T ss_pred             EEecCCCcchheehhhhhhhhcccCCCccCCCCCCcc
Confidence            6777777777666665554444444544444443333

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	360
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		7e-14
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		5e-09
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		5e-09
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		9e-07
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		1e-06
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		2e-04
2ecl_A	81	Solution Structure Of The Ring Domain Of The Human		2e-04
2ecn_A	70	Solution Structure Of The Ring Domain Of The Human		5e-04

>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5 Length = 55

Iteration: 1
 Score = 74.7 bits (182), Expect = 7e-14,   Method: Composition-based stats.
 Identities = 27/51 (52%), Positives = 36/51 (70%)
Query: 163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIV 213
           +G EC+VCL+E ++ E  R LP+C H FH  C+D WL SH+ CPLCR  +V
Sbjct: 4   DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV 54

>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein 38 Length = 75

Iteration: 1
 Score = 58.9 bits (141), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 23/62 (37%), Positives = 40/62 (64%), Gaps = 1/62 (1%)
Query: 149 EIAVLKYKKSDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLC 208
           ++   ++  ++   E T C VC+ +F+  + LR+LP CNH FH  C+D WL+++  CP+C
Sbjct: 8   QLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPIC 66
Query: 209 RS 210
           R+
Sbjct: 67  RA 68

>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring Finger) Domain Of Ring Finger Protein 126 Length = 78

Iteration: 1
 Score = 58.5 bits (140), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 27/59 (45%), Positives = 34/59 (57%), Gaps = 1/59 (1%)
Query: 164 GTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKINHAARAP 222
           G EC VC  ++   E++R LP CNH FH SCI  WL  H +CP+CR  +   N A   P
Sbjct: 15  GLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTATNPP 72

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

Iteration: 1
 Score = 51.2 bits (121), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 24/59 (40%), Positives = 35/59 (59%), Gaps = 3/59 (5%)
Query: 167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKINHAARAPPSS 225
           C+VCL +F+  + L + P C HAFH  C+  WL     CPLC  P++++  A  + PSS
Sbjct: 18  CAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVLQL--AQLSGPSS 73

>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain Length = 69

Iteration: 1
 Score = 50.4 bits (119), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 22/47 (46%), Positives = 31/47 (65%), Gaps = 1/47 (2%)
Query: 166 ECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPI 212
           +C++CLS  +E E +R LP C H FH  C+D WL ++  CP+CR  I
Sbjct: 16  KCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDI 61

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

Iteration: 1
 Score = 43.5 bits (101), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/43 (39%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCR 209
           C +C SE+ + +    LP C+H FH  C+  WL+    CP+CR
Sbjct: 43  CPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCR 84

>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring-Box Protein 2 Length = 81

Iteration: 1
 Score = 43.5 bits (101), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/43 (32%), Positives = 28/43 (65%)
Query: 167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCR 209
           C  C +E ++++ + +  +CNH+FH  C+  W++ +  CPLC+
Sbjct: 29  CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71

>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring Finger Protein 141 Length = 70

Iteration: 1
 Score = 42.0 bits (97), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 23/66 (34%), Positives = 32/66 (48%), Gaps = 7/66 (10%)
Query: 161 LVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKINHAAR 220
           L +  EC +C+     D    L+  C H+F   CID W   H NCP+CR  +   N +  
Sbjct: 12  LTDEEECCICM-----DGRADLILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGANES-- 64
Query: 221 APPSSS 226
           + PSS 
Sbjct: 65  SGPSSG 70

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	360
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	2e-31
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	6e-31
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	2e-25
2ect_A	78	Ring finger protein 126; metal binding protein, st	8e-24
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	2e-22
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	2e-22
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	1e-19
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	2e-18
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	2e-18
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	2e-16
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	1e-13
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	2e-12
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	3e-12
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	3e-12
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	2e-11
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	3e-11
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	7e-10
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	8e-10
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	2e-09
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	2e-09
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	6e-09
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	3e-08
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	1e-07
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	5e-07
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	5e-07
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	1e-04
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	5e-07
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	1e-06
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	3e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-06
3nw0_A	238	Non-structural maintenance of chromosomes element	5e-06
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	5e-06
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	1e-05
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	1e-05
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	2e-05
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	3e-05
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	9e-05
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	3e-04
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	4e-04
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	6e-04
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	6e-04
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	7e-04
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	7e-04
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	7e-04

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

 Score =  112 bits (282), Expect = 2e-31
 Identities = 24/71 (33%), Positives = 41/71 (57%), Gaps = 1/71 (1%)

Query: 144 SSVIREIAVLKYKKSDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHT 203
           S    ++   ++  ++   E T C VC+ +F+  + LR+LP CNH FH  C+D WL+++ 
Sbjct: 3   SGSSGQLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANR 61

Query: 204 NCPLCRSPIVK 214
            CP+CR+    
Sbjct: 62  TCPICRADSGP 72

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

 Score =  110 bits (278), Expect = 6e-31
 Identities = 27/54 (50%), Positives = 37/54 (68%)

Query: 160 GLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIV 213
            + +G EC+VCL+E ++ E  R LP+C H FH  C+D WL SH+ CPLCR  +V
Sbjct: 1   AMDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV 54

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

 Score = 96.3 bits (240), Expect = 2e-25
 Identities = 26/62 (41%), Positives = 37/62 (59%), Gaps = 3/62 (4%)

Query: 153 LKYKKSDGLVEGT--ECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRS 210
           +K    +G  E T  +C++CLS  +E E +R LP C H FH  C+D WL ++  CP+CR 
Sbjct: 1   MKQDGEEGTEEDTEEKCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRV 59

Query: 211 PI 212
            I
Sbjct: 60  DI 61

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

 Score = 92.5 bits (230), Expect = 8e-24
 Identities = 27/65 (41%), Positives = 35/65 (53%), Gaps = 1/65 (1%)

Query: 163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKINHAARAP 222
            G EC VC  ++   E++R LP CNH FH SCI  WL  H +CP+CR  +   N A   P
Sbjct: 14  SGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTATNPP 72

Query: 223 PSSST 227
             +  
Sbjct: 73  GLTGV 77

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

 Score = 89.1 bits (221), Expect = 2e-22
 Identities = 23/63 (36%), Positives = 34/63 (53%), Gaps = 3/63 (4%)

Query: 163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKINHAARAP 222
               C+VCL +F+  + L + P C HAFH  C+  WL     CPLC  P++++     + 
Sbjct: 14  LHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVLQLA--QLSG 70

Query: 223 PSS 225
           PSS
Sbjct: 71  PSS 73

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

 Score = 89.3 bits (222), Expect = 2e-22
 Identities = 20/75 (26%), Positives = 32/75 (42%), Gaps = 2/75 (2%)

Query: 139 TVGLQSSVIREIAVLKYKKSDGLV-EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDT 197
                   I  +  +   +  G V +   C +C SE+ + +    LP C+H FH  C+  
Sbjct: 14  NPPASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSI 72

Query: 198 WLRSHTNCPLCRSPI 212
           WL+    CP+CR   
Sbjct: 73  WLQKSGTCPVCRCMF 87

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

 Score = 81.1 bits (200), Expect = 1e-19
 Identities = 15/47 (31%), Positives = 29/47 (61%)

Query: 167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIV 213
           C  C +E ++++ + +  +CNH+FH  C+  W++ +  CPLC+   V
Sbjct: 29  CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWV 75

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

 Score = 76.9 bits (190), Expect = 2e-18
 Identities = 13/48 (27%), Positives = 21/48 (43%)

Query: 165 TECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPI 212
           + C +CL +      +  +  C H  H +C +  L+    CPLC  P 
Sbjct: 6   SGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPS 53

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

 Score = 77.4 bits (191), Expect = 2e-18
 Identities = 20/64 (31%), Positives = 31/64 (48%), Gaps = 5/64 (7%)

Query: 156 KKSDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKI 215
            +   L +  EC +C+    +     +LP C H+F   CID W   H NCP+CR  +   
Sbjct: 7   GRVKQLTDEEECCICM----DGRADLILP-CAHSFCQKCIDKWSDRHRNCPICRLQMTGA 61

Query: 216 NHAA 219
           N ++
Sbjct: 62  NESS 65

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

 Score = 72.4 bits (178), Expect = 2e-16
 Identities = 17/59 (28%), Positives = 25/59 (42%), Gaps = 3/59 (5%)

Query: 163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKINHAARA 221
               C +CL +            C HAF   CI  W+R +  CPLC+ P+  + H   +
Sbjct: 4   VAERCPICLEDPSNYSMA---LPCLHAFCYVCITRWIRQNPTCPLCKVPVESVVHTIES 59

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

 Score = 65.2 bits (158), Expect = 1e-13
 Identities = 18/63 (28%), Positives = 25/63 (39%), Gaps = 2/63 (3%)

Query: 157 KSDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIV--K 214
           ++  +    EC    +    +E       CNHAFH  CI  WL++   CPL        K
Sbjct: 44  RNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEFQK 103

Query: 215 INH 217
             H
Sbjct: 104 YGH 106

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

 Score = 62.6 bits (151), Expect = 2e-12
 Identities = 16/57 (28%), Positives = 23/57 (40%)

Query: 157 KSDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIV 213
           ++  +    EC    +    +E       CNHAFH  CI  WL++   CPL      
Sbjct: 55  RNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE 111

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

 Score = 60.7 bits (147), Expect = 3e-12
 Identities = 14/51 (27%), Positives = 21/51 (41%), Gaps = 3/51 (5%)

Query: 165 TECSVCLSEFQEDETLRLLP---KCNHAFHISCIDTWLRSHTNCPLCRSPI 212
             C +C+  + E      L    +C H F   C+   L++   CP CR  I
Sbjct: 16  VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 66

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

 Score = 60.2 bits (146), Expect = 3e-12
 Identities = 14/53 (26%), Positives = 21/53 (39%), Gaps = 3/53 (5%)

Query: 163 EGTECSVCLSEFQEDETLRLLP---KCNHAFHISCIDTWLRSHTNCPLCRSPI 212
               C +C+  + E      L    +C H F   C+   L++   CP CR  I
Sbjct: 2   AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 54

>3ng2_A RNF4, snurf, ring finger protein 4; ring domain, E3 ligase, ubiquitylation, sumoylation, zinc-FI metal binding protein; 1.80A {Rattus norvegicus} Length = 71

 Score = 58.3 bits (141), Expect = 2e-11
 Identities = 14/50 (28%), Positives = 21/50 (42%), Gaps = 3/50 (6%)

Query: 166 ECSVCLSEFQEDETLRLLP---KCNHAFHISCIDTWLRSHTNCPLCRSPI 212
            C +C+  + E      L    +C H F   C+   L++   CP CR  I
Sbjct: 12  SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 61

>3lrq_A E3 ubiquitin-protein ligase TRIM37; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; HET: MSE; 2.29A {Homo sapiens} Length = 100

 Score = 58.4 bits (141), Expect = 3e-11
 Identities = 17/61 (27%), Positives = 29/61 (47%), Gaps = 4/61 (6%)

Query: 153 LKYKKSDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWL-RSHTNCPLCRSP 211
           +  +  + + E   C +C+ + ++    RL P C+     SCI  WL      CP CR+P
Sbjct: 11  MDEQSVESIAEVFRCFICMEKLRDA---RLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAP 67

Query: 212 I 212
           +
Sbjct: 68  L 68

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

 Score = 59.1 bits (142), Expect = 7e-10
 Identities = 12/65 (18%), Positives = 25/65 (38%), Gaps = 15/65 (23%)

Query: 163 EGTECSVCLSEFQEDETLRLL----PKCNHAFHISCIDTWLRS-----------HTNCPL 207
           E   C++C +   +   + L+     KC    H  C++ W ++              CP 
Sbjct: 307 EELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPF 366

Query: 208 CRSPI 212
           C++ +
Sbjct: 367 CKAKL 371

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

 Score = 53.6 bits (129), Expect = 8e-10
 Identities = 15/59 (25%), Positives = 21/59 (35%), Gaps = 4/59 (6%)

Query: 166 ECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKINHAARAPPS 224
            CS+C     +  T+    +C H F  SCI         CP C   + +       P S
Sbjct: 17  LCSICKGYLIDATTI---TECLHTFCKSCIVRHFYYSNRCPKCNIVVHQ-TQPLSGPSS 71

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

 Score = 52.9 bits (127), Expect = 2e-09
 Identities = 16/55 (29%), Positives = 21/55 (38%), Gaps = 4/55 (7%)

Query: 166 ECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKINHAAR 220
            C +C   FQ         KC H F  SC     R+   C +C  P   I + A+
Sbjct: 17  RCFICRQAFQNPVVT----KCRHYFCESCALEHFRATPRCYICDQPTGGIFNPAK 67

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

 Score = 52.6 bits (126), Expect = 2e-09
 Identities = 13/62 (20%), Positives = 26/62 (41%), Gaps = 7/62 (11%)

Query: 166 ECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTN--CPLCRSPIVKINHAARAPP 223
            C++C S   + ++      C    H+ C+  + +S+    CP C       +   ++ P
Sbjct: 17  ICNICHSLLIQGQSC---ETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP--HEIPKSGP 71

Query: 224 SS 225
           SS
Sbjct: 72  SS 73

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

 Score = 51.4 bits (123), Expect = 6e-09
 Identities = 14/47 (29%), Positives = 18/47 (38%), Gaps = 4/47 (8%)

Query: 166 ECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPI 212
           EC++CL       +L     C H F   C+         C LCR  I
Sbjct: 17  ECAICLQTCVHPVSL----PCKHVFCYLCVKGASWLGKRCALCRQEI 59

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

 Score = 50.6 bits (120), Expect = 3e-08
 Identities = 16/82 (19%), Positives = 30/82 (36%), Gaps = 19/82 (23%)

Query: 149 EIAVLKYKKSDGLVEGTECSVCLSEFQE--------------DETLRLLPKCNHAFHISC 194
           E  + KY +   +    +C +C+ +                    +  L KC+HAFH+ C
Sbjct: 10  EQVIRKYTEELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLC 69

Query: 195 IDTWLRSHTN-----CPLCRSP 211
           +     +        CP C++ 
Sbjct: 70  LLAMYCNGNKDGSLQCPSCKTI 91

>2ckl_A Polycomb group ring finger protein 4; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_B 2h0d_A Length = 108

 Score = 48.3 bits (115), Expect = 1e-07
 Identities = 14/51 (27%), Positives = 24/51 (47%), Gaps = 3/51 (5%)

Query: 166 ECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKIN 216
            C +C   F +  T+    +C H+F  +CI  +L +   CP+C   + K  
Sbjct: 17  MCVLCGGYFIDATTI---IECLHSFCKTCIVRYLETSKYCPICDVQVHKTR 64

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

 Score = 47.7 bits (113), Expect = 5e-07
 Identities = 19/62 (30%), Positives = 28/62 (45%), Gaps = 4/62 (6%)

Query: 156 KKSDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKI 215
             +D L    +C +C   F E  TL     C H+F   CI+ W++    CP+CR  I   
Sbjct: 56  HMNDVLENELQCIICSEYFIEAVTL----NCAHSFCSYCINEWMKRKIECPICRKDIKSK 111

Query: 216 NH 217
            +
Sbjct: 112 TY 113

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

 Score = 47.5 bits (112), Expect = 5e-07
 Identities = 14/55 (25%), Positives = 22/55 (40%), Gaps = 3/55 (5%)

Query: 166 ECSVCLSEFQEDETLRLLP---KCNHAFHISCIDTWLRSHTNCPLCRSPIVKINH 217
            C +C+  + E      L    +C H F   C+   L++   CP CR  I    +
Sbjct: 9   SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY 63

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

 Score = 40.5 bits (94), Expect = 1e-04
 Identities = 14/56 (25%), Positives = 22/56 (39%), Gaps = 3/56 (5%)

Query: 165 TECSVCLSEFQEDETLRLLP---KCNHAFHISCIDTWLRSHTNCPLCRSPIVKINH 217
             C +C+  + E      L    +C H F   C+   L++   CP CR  I    +
Sbjct: 73  VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY 128

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

 Score = 46.3 bits (110), Expect = 5e-07
 Identities = 13/50 (26%), Positives = 23/50 (46%), Gaps = 3/50 (6%)

Query: 167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKIN 216
           C +C   F       ++P+C+H +   CI  +L   T CP C   + + +
Sbjct: 25  CGICFEYFNIA---MIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEPD 71

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

 Score = 49.0 bits (116), Expect = 1e-06
 Identities = 14/53 (26%), Positives = 22/53 (41%), Gaps = 5/53 (9%)

Query: 163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTN-CPLCRSPIVK 214
               C +C    ++   +++ P C H    SC+ +W  S    CP CR  I  
Sbjct: 331 TFQLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKG 379

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

 Score = 43.9 bits (104), Expect = 3e-06
 Identities = 18/59 (30%), Positives = 24/59 (40%), Gaps = 3/59 (5%)

Query: 158 SDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTN---CPLCRSPIV 213
            D L E  EC +C+  F E++    L  C H     C++  L S  N   CP C     
Sbjct: 9   LDALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITR 67

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

 Score = 47.9 bits (113), Expect = 4e-06
 Identities = 42/282 (14%), Positives = 83/282 (29%), Gaps = 70/282 (24%)

Query: 93  LCYVVFVKFYLRRRSSSEPRI-LNETHD---DFLDEDHGP----VVDHPIWY---INTVG 141
           L Y +   +  R   SS  ++ ++         L          V+ + +      N   
Sbjct: 205 LLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLN-VQNAKAWNAFN 263

Query: 142 LQSSVI---REIAVLKYKKSDGLVEGTECSVCLSE----FQEDETLRLLPKCNHAFHISC 194
           L   ++   R   V     +D L   T   + L         DE   LL K      + C
Sbjct: 264 LSCKILLTTRFKQV-----TDFLSAATTTHISLDHHSMTLTPDEVKSLLLKY-----LDC 313

Query: 195 IDTWLRS--HTNCPLCRSPIVKINHAARAPPSSSTWE-----SNNEDSGTRESTQVGILT 247
               L     T  P   S I     A       +TW+     + ++ +   ES+ + +L 
Sbjct: 314 RPQDLPREVLTTNPRRLSII-----AESIRDGLATWDNWKHVNCDKLTTIIESS-LNVLE 367

Query: 248 ENGGRN---DMESEIGAVERRNIN-----------ERNDQDSDDEIQPIRRSVSL---DS 290
               R     +     +V   + +           +    D    +  + +  SL     
Sbjct: 368 PAEYRKMFDRL-----SVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKY-SLVEKQP 421

Query: 291 LSASKMIHALGNFDPEETTRNSDTQLAK---ERYLSVKTVPK 329
             ++  I ++  +   +    ++  L +   + Y   KT   
Sbjct: 422 KESTISIPSI--YLELKVKLENEYALHRSIVDHYNIPKTFDS 461

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

 Score = 46.3 bits (109), Expect = 5e-06
 Identities = 10/49 (20%), Positives = 20/49 (40%), Gaps = 5/49 (10%)

Query: 166 ECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTN--CPLCRSPI 212
            C++C S   + ++      C    H+ C+  + +S+    CP C    
Sbjct: 182 ICNICHSLLIQGQSC---ETCGIRMHLPCVAKYFQSNAEPRCPHCNDYW 227

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

 Score = 44.2 bits (104), Expect = 5e-06
 Identities = 23/116 (19%), Positives = 35/116 (30%), Gaps = 15/116 (12%)

Query: 109 SEPRILNETHDDFLDEDHGPVVDHPIWYINTVGLQSSVIREIAVLKYKKSDGLVEGTECS 168
           SEP  L       + ED     +  +W      L+           +     + E  +C 
Sbjct: 2   SEPYSLTAQQSSLIREDK---SNAKLWNEVLASLKDRPASGSPFQLFLSK--VEETFQCI 56

Query: 169 VCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTN-CPLCR-----SPIVKINHA 218
            C        T      C H     C+D   R+    CP CR     S  +++N  
Sbjct: 57  CCQELVFRPITT----VCQHNVCKDCLDRSFRAQVFSCPACRYDLGRSYAMQVNQP 108

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

 Score = 41.7 bits (98), Expect = 1e-05
 Identities = 15/60 (25%), Positives = 23/60 (38%), Gaps = 6/60 (10%)

Query: 167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTN--CPLCRSPIVKINHAARAPPS 224
           C +C     +     ++P C +++   CI T L       CP C    V  + A   P S
Sbjct: 18  CLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPD-ALSGPSS 73

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

 Score = 43.0 bits (101), Expect = 1e-05
 Identities = 17/56 (30%), Positives = 25/56 (44%), Gaps = 9/56 (16%)

Query: 167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPI----VKINHA 218
           CS C +  +E   L     C H F  +C+   +   T CP+C +P     +KIN  
Sbjct: 25  CSRCTNILREPVCL---GGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQDLKINRQ 75

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

 Score = 41.3 bits (97), Expect = 2e-05
 Identities = 14/50 (28%), Positives = 20/50 (40%), Gaps = 5/50 (10%)

Query: 166 ECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHT-NCPLCRSPIVK 214
           +C  C       +      +C H F  SC+   L S +  C  C+  IVK
Sbjct: 17  KCEKCHLVLCSPKQT----ECGHRFCESCMAALLSSSSPKCTACQESIVK 62

>3l11_A E3 ubiquitin-protein ligase RNF168; E3 ligase, ring domain, DNA damage, chromatin regulator, chromosomal protein, DNA repair, metal-binding; 2.12A {Homo sapiens} Length = 115

 Score = 41.8 bits (98), Expect = 3e-05
 Identities = 16/65 (24%), Positives = 22/65 (33%), Gaps = 5/65 (7%)

Query: 166 ECSVCLSEFQEDETLRLLPKCNHAFHISCI-DTWLRSHTNCPLCRSPIVKINHAARAPPS 224
           +C +C+    E  TL     CNH     C   T  ++   CP CR  +           S
Sbjct: 17  QCGICMEILVEPVTLP----CNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRRNS 72

Query: 225 SSTWE 229
               E
Sbjct: 73  LVNVE 77

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

 Score = 39.7 bits (92), Expect = 9e-05
 Identities = 11/51 (21%), Positives = 17/51 (33%), Gaps = 1/51 (1%)

Query: 163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTN-CPLCRSPI 212
           +  EC +C+   + D+       C +     C           CP CR P 
Sbjct: 10  DPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPY 60

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

 Score = 37.6 bits (87), Expect = 3e-04
 Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 2/57 (3%)

Query: 162 VEGTECSVCLSEFQEDETLRLL-PKCNHAFHISCIDTWL-RSHTNCPLCRSPIVKIN 216
           ++   C  C +    + +L+L+   C H    SC+D    R   NCP C +P+ K N
Sbjct: 1   MDDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSN 57

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

 Score = 37.5 bits (87), Expect = 4e-04
 Identities = 14/59 (23%), Positives = 20/59 (33%), Gaps = 3/59 (5%)

Query: 158 SDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFH-ISCIDTWLRSHTNCPLCRSPIVKI 215
           S  L     C +C           +  K  H     +C     + +  CP+CR PI  I
Sbjct: 2   SLPLNAIEPCVICQGR--PKNGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQMI 58

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

 Score = 36.6 bits (85), Expect = 6e-04
 Identities = 14/47 (29%), Positives = 22/47 (46%), Gaps = 7/47 (14%)

Query: 166 ECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPI 212
            C  C +E +     +LLP C H     C++    S   CP+C++P 
Sbjct: 8   RCQQCQAEAKC---PKLLP-CLHTLCSGCLE---ASGMQCPICQAPW 47

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

 Score = 37.4 bits (87), Expect = 6e-04
 Identities = 12/49 (24%), Positives = 19/49 (38%), Gaps = 5/49 (10%)

Query: 167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTN--CPLCRSPIV 213
           C +C     +     ++P C +++   CI T L       CP C    V
Sbjct: 16  CLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV 61

>2ckl_B Ubiquitin ligase protein RING2; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_C 2h0d_B Length = 165

 Score = 39.2 bits (91), Expect = 7e-04
 Identities = 18/49 (36%), Positives = 22/49 (44%), Gaps = 4/49 (8%)

Query: 167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTN-CPLCRSPIVK 214
           C +CL   +   T     +C H F   CI T LRS    CP CR  +V 
Sbjct: 57  CPICLDMLKNTMTT---KECLHRFCADCIITALRSGNKECPTCRKKLVS 102

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

 Score = 37.5 bits (87), Expect = 7e-04
 Identities = 7/40 (17%), Positives = 16/40 (40%), Gaps = 1/40 (2%)

Query: 166 ECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNC 205
            C +CL E+  ++   +  +C   F   C+  ++      
Sbjct: 7   GCKLCLGEYPVEQMTTI-AQCQCIFCTLCLKQYVELLIKE 45

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

 Score = 36.7 bits (85), Expect = 7e-04
 Identities = 9/51 (17%), Positives = 19/51 (37%), Gaps = 3/51 (5%)

Query: 166 ECSVCLSEFQEDETLRLLPKCNHAFH-ISCIDTWLRSHTNCPLCRSPIVKI 215
            CS+C       +   +  +  H      C     ++  +CP+C+  I  +
Sbjct: 9   PCSLCEKR--PRDGNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQLV 57

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	360
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.63
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.59
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.5
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.48
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.45
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.44
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.41
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.36
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.34
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.29
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.29
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.28
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.25
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.25
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.25
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.23
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.22
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.17
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.16
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.14
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.11
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.09
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.08
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.07
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.06
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.02
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.01
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.0
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	98.98
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	98.98
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	98.97
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	98.96
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	98.95
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	98.95
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	98.94
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	98.94
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	98.93
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.92
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	98.89
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.85
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	98.85
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	98.84
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	98.83
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	98.79
1z6u_A	150	NP95-like ring finger protein isoform B; structura	98.73
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.71
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.69
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	98.69
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.63
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.63
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.63
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	98.62
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.6
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.57
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	98.56
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.56
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	98.55
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.53
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.5
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.42
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.39
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.36
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.33
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.33
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.3
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.15
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.11
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	97.97
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	97.96
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	97.87
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.85
3nw0_A	238	Non-structural maintenance of chromosomes element	97.8
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	94.81
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	93.19
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	91.22
1we9_A	64	PHD finger family protein; structural genomics, PH	85.1
2klu_A	70	T-cell surface glycoprotein CD4; cell membrane, di	83.44
2l2t_A	44	Receptor tyrosine-protein kinase ERBB-4; transmemb	83.03
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	82.42
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	82.42
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	82.22
2knc_A	54	Integrin alpha-IIB; transmembrane signaling, prote	81.7
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	80.81
2ks1_B	44	Epidermal growth factor receptor; ERBB1, ERBB2, tr	80.13

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

Probab=99.63  E-value=2.4e-16  Score=125.79  Aligned_cols=77  Identities=25%  Similarity=0.640  Sum_probs=67.7

Q ss_pred             cccCCCCHHHHHhhcceEeecCCC-CcCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          137 INTVGLQSSVIREIAVLKYKKSDG-LVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       137 ~~~~gl~~~~i~~lp~~~~~~~~~-~~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      ....+++++.|+.||.+.+..... ..++..|+||++.|..++.++.+| |+|.||..||..|++.+.+||+||+.+.+
T Consensus        12 ~~~~~~s~~~i~~lp~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~-C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           12 VANPPASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCRCMFPP   89 (91)
T ss_dssp             SCCCCCCHHHHHTSCEEECCTTCSSSSSCSEETTTTEECCTTCEEEEET-TTEEEEHHHHHHHHTTTCBCTTTCCBSSC
T ss_pred             cCCCCCCHHHHHhCCCeeecccccccCCCCCCcccChhhcCCCcEEecC-CCChHHHHHHHHHHHcCCcCcCcCccCCC
Confidence            356799999999999999876543 345678999999999988899999 99999999999999999999999998864

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

Probab=99.59  E-value=3.4e-16  Score=120.07  Aligned_cols=67  Identities=34%  Similarity=0.904  Sum_probs=59.6

Q ss_pred             HHhhcceEeecCCCCcCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          147 IREIAVLKYKKSDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       147 i~~lp~~~~~~~~~~~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      ++.+|.++++......++.+|+||++.|..++.++.++ |+|.||..||..|++.+.+||+||+++.+
T Consensus         6 i~~lp~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~   72 (75)
T 1x4j_A            6 SGQLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRADSGP   72 (75)
T ss_dssp             CSSCCCEEBCSSSCSSSCCEETTTTEECCBTCEEEEET-TTEEEETTHHHHHHHHCSSCTTTCCCCCC
T ss_pred             HhhCCcEEecCccccCCCCCCeECCcccCCCCeEEEEC-CCCHhHHHHHHHHHHcCCcCcCcCCcCCC
Confidence            45678888877666667889999999999988899998 99999999999999999999999999865

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

Probab=99.50  E-value=1.1e-14  Score=104.57  Aligned_cols=51  Identities=53%  Similarity=1.303  Sum_probs=46.7

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCcc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIV  213 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~  213 (360)
                      ++.+|+||++.|..++.++.++.|+|.||..||.+|++.+.+||+||+++.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   54 (55)
T 1iym_A            4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeE
Confidence            567899999999998888888779999999999999999999999999874

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

Probab=99.48  E-value=2.3e-14  Score=109.24  Aligned_cols=54  Identities=37%  Similarity=0.958  Sum_probs=48.9

Q ss_pred             cCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccccC
Q 018110          162 VEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKIN  216 (360)
Q Consensus       162 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~~  216 (360)
                      ..+..|+||++.|.....++.++ |+|.||..||.+|++.+.+||+||+++....
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~-C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~   66 (74)
T 2ep4_A           13 NLHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVLQLA   66 (74)
T ss_dssp             CCSCBCSSSCCBCCSSSCEEEET-TTEEEEHHHHHHHHHHCSBCTTTCCBCSSCC
T ss_pred             CCCCCCcCCCcccCCCCcEEEcC-CCCEecHHHHHHHHHcCCcCCCcCccccccc
Confidence            35678999999999988888898 9999999999999999999999999997644

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

Probab=99.45  E-value=6.6e-14  Score=107.74  Aligned_cols=54  Identities=46%  Similarity=1.038  Sum_probs=48.7

Q ss_pred             cCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccccC
Q 018110          162 VEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKIN  216 (360)
Q Consensus       162 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~~  216 (360)
                      ....+|+||++.|...+.++.++ |+|.||..||..|++.+.+||+||+.+...+
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   66 (78)
T 2ect_A           13 GSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQN   66 (78)
T ss_dssp             SSSCCCTTTTSCCCTTSCEEECT-TSCEEETTTTHHHHTTTCSCTTTCCCCCCSC
T ss_pred             CCCCCCeeCCccccCCCCEEEeC-CCCeecHHHHHHHHHcCCcCcCcCCccCCcc
Confidence            35678999999999888888898 9999999999999999999999999987643

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

Probab=99.44  E-value=6.5e-14  Score=105.29  Aligned_cols=52  Identities=42%  Similarity=1.001  Sum_probs=47.4

Q ss_pred             cCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          162 VEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       162 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      .....|+||++.|..++.++.++ |+|.||..||..|++.+.+||+||+.+..
T Consensus        12 ~~~~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   63 (69)
T 2kiz_A           12 DTEEKCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEA   63 (69)
T ss_dssp             TCCCSBTTTTBCCCSSSCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCSBSCS
T ss_pred             CCCCCCeeCCccccCCCcEEEeC-CCCHHHHHHHHHHHHcCCCCcCcCccccC
Confidence            35678999999998888888998 99999999999999999999999999875

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

Probab=99.41  E-value=6.4e-14  Score=109.47  Aligned_cols=52  Identities=29%  Similarity=0.876  Sum_probs=43.5

Q ss_pred             CCCcccccCCcccc-----------CcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQE-----------DETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~-----------~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      ++..|+||++.|..           ++.++.++.|+|.||..||++||+.+.+||+||+++..
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   76 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVV   76 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCE
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcch
Confidence            45779999888854           34466666699999999999999999999999999865

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

Probab=99.36  E-value=6.4e-13  Score=109.40  Aligned_cols=51  Identities=25%  Similarity=0.673  Sum_probs=41.9

Q ss_pred             CCCcccccCCccccCc---------------ceeecCCCCCCCChhhHHHHH-----hcCCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDE---------------TLRLLPKCNHAFHISCIDTWL-----RSHTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~---------------~~r~lp~C~H~FH~~CI~~Wl-----~~~~tCP~CR~~l~~  214 (360)
                      .+.+|+||++.|....               .+++++ |+|.||..||..||     ..+.+||+||+.+..
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~   94 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSS
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCC-CCCcccHHHHHHHHHcccCCCCCcCCCCCCccCC
Confidence            4568999999997643               334676 99999999999999     456789999998865

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

Probab=99.34  E-value=5.8e-13  Score=95.42  Aligned_cols=50  Identities=30%  Similarity=0.846  Sum_probs=43.3

Q ss_pred             CCCcccccCCccccC-cceeecCCCCCCCChhhHHHHHhcCCCCCcccCCcc
Q 018110          163 EGTECSVCLSEFQED-ETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIV  213 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~-~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~  213 (360)
                      .+.+|+||++.|..+ +.++.++ |+|.||..||.+|++.+.+||+||+++.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAHVLP-CGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEEECT-TSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCcCcccChhhcCCCcCeEecC-CCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            467899999999654 3567777 9999999999999999999999999874

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

Probab=99.29  E-value=1.3e-12  Score=97.45  Aligned_cols=52  Identities=25%  Similarity=0.666  Sum_probs=44.1

Q ss_pred             cCCCcccccCCccccC----cceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          162 VEGTECSVCLSEFQED----ETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       162 ~~~~~C~ICl~~~~~~----~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      .+...|+||++.|...    ..+..++ |+|.||..||..|++.+.+||+||.++..
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           13 SGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINH   68 (69)
T ss_dssp             TCCCCCTTTCCCHHHHTTTTCCEEECS-SSCEEEHHHHHHHHHHCSSCTTTCCCCCC
T ss_pred             CCCCCCcccCccccccccccCCeEeCC-CCChhcHHHHHHHHHcCCCCCCCCCccCc
Confidence            4567899999999763    3346677 99999999999999999999999998753

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

Probab=99.29  E-value=1.1e-12  Score=108.01  Aligned_cols=50  Identities=32%  Similarity=0.696  Sum_probs=42.9

Q ss_pred             CCCcccccCCccccCc---------------ceeecCCCCCCCChhhHHHHHhcCCCCCcccCCcc
Q 018110          163 EGTECSVCLSEFQEDE---------------TLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIV  213 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~---------------~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~  213 (360)
                      +++.|+||++.|....               .++.++ |+|.||..||.+||..+.+||+||+++.
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~  100 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWE  100 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecc-cCcEECHHHHHHHHHcCCcCcCCCCcce
Confidence            5678999999998541               356676 9999999999999999999999999864

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

Probab=99.28  E-value=1.1e-12  Score=98.75  Aligned_cols=51  Identities=25%  Similarity=0.686  Sum_probs=44.2

Q ss_pred             CCCcccccCCccccC----cceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQED----ETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~----~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      ++.+|+||++.|...    +.+..++ |||.||..||.+|++.+.+||+||.++..
T Consensus         9 ~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   63 (71)
T 3ng2_A            9 GTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINH   63 (71)
T ss_dssp             TCCBCTTTCCBHHHHHTTTCCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCCBCCC
T ss_pred             CCCCCcccChhhhccccccCCeEeCC-CCChHhHHHHHHHHHcCCCCCCCCCccCh
Confidence            567899999998763    4456777 99999999999999999999999999875

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

Probab=99.25  E-value=1.7e-12  Score=97.78  Aligned_cols=50  Identities=38%  Similarity=0.996  Sum_probs=43.7

Q ss_pred             cCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccccC
Q 018110          162 VEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKIN  216 (360)
Q Consensus       162 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~~  216 (360)
                      .+...|+||++.+..    ..++ |+|.||..||..|+..+.+||+||.++...+
T Consensus        13 ~~~~~C~IC~~~~~~----~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   62 (70)
T 2ecn_A           13 TDEEECCICMDGRAD----LILP-CAHSFCQKCIDKWSDRHRNCPICRLQMTGAN   62 (70)
T ss_dssp             CCCCCCSSSCCSCCS----EEET-TTEEECHHHHHHSSCCCSSCHHHHHCTTCCC
T ss_pred             CCCCCCeeCCcCccC----cccC-CCCcccHHHHHHHHHCcCcCCCcCCcccCCC
Confidence            456789999999876    5677 9999999999999999999999999987643

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

Probab=99.25  E-value=1.7e-12  Score=95.38  Aligned_cols=51  Identities=25%  Similarity=0.675  Sum_probs=43.7

Q ss_pred             CCCcccccCCccccC----cceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQED----ETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~----~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      ++.+|+||++.|...    +.+..++ |||.||..||.+|++.+.+||+||+++..
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   56 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINH   56 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEET-TSCEEEHHHHHHHHHHCSBCTTTCCBCTT
T ss_pred             CCCCCCccChhhhCccccCCCEEeCC-CCCchhHHHHHHHHHcCCCCCCCCccCCc
Confidence            457899999999753    3446677 99999999999999999999999999865

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

Probab=99.25  E-value=4.9e-12  Score=99.03  Aligned_cols=51  Identities=27%  Similarity=0.798  Sum_probs=43.5

Q ss_pred             CCCcccccCCccccCcceeecCCCC-----CCCChhhHHHHHhcC--CCCCcccCCcccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCN-----HAFHISCIDTWLRSH--TNCPLCRSPIVKI  215 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~-----H~FH~~CI~~Wl~~~--~tCP~CR~~l~~~  215 (360)
                      ++..|.||+++|..++.+ ++| |+     |.||..||++||..+  .+||+||+.+...
T Consensus        14 ~~~~C~IC~~~~~~~~~l-~~p-C~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~   71 (80)
T 2d8s_A           14 SQDICRICHCEGDDESPL-ITP-CHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIME   71 (80)
T ss_dssp             TSCCCSSSCCCCCSSSCE-ECS-SSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCC
T ss_pred             CCCCCeEcCccccCCCee-Eec-cccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecC
Confidence            567899999999877766 588 96     999999999999865  5899999998753

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

Probab=99.23  E-value=7.3e-12  Score=93.59  Aligned_cols=49  Identities=37%  Similarity=0.948  Sum_probs=42.8

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      .+..|+||++.+..  .++.++ |||.||..||..|++.+.+||+||.++..
T Consensus         4 ~~~~C~IC~~~~~~--~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   52 (68)
T 1chc_A            4 VAERCPICLEDPSN--YSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCSSCCSCCCS--CEEETT-TTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCCeeCCccccC--CcEecC-CCCeeHHHHHHHHHhCcCcCcCCChhhHh
Confidence            45789999999864  356787 99999999999999999999999999864

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

Probab=99.22  E-value=1e-11  Score=94.26  Aligned_cols=52  Identities=25%  Similarity=0.523  Sum_probs=43.5

Q ss_pred             CcCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCcccc
Q 018110          161 LVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKI  215 (360)
Q Consensus       161 ~~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  215 (360)
                      ..+...|+||++.|.+  .+.+++ |+|.||..||..|++.+.+||+||..+...
T Consensus        12 ~~~~~~C~IC~~~~~~--p~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   63 (72)
T 2djb_A           12 LTPYILCSICKGYLID--ATTITE-CLHTFCKSCIVRHFYYSNRCPKCNIVVHQT   63 (72)
T ss_dssp             CCGGGSCTTTSSCCSS--CEECSS-SCCEECHHHHHHHHHHCSSCTTTCCCCCSS
T ss_pred             cCCCCCCCCCChHHHC--cCEECC-CCCHHHHHHHHHHHHcCCcCCCcCcccCcc
Confidence            3456789999999875  344446 999999999999999999999999998763

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

Probab=99.17  E-value=2.9e-12  Score=107.30  Aligned_cols=51  Identities=33%  Similarity=0.704  Sum_probs=1.1

Q ss_pred             CCCcccccCCccccC-------------c--ceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQED-------------E--TLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~-------------~--~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      .++.|+||+++|...             +  .+..++ |+|.||..||.+||+.+.+||+||+++..
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~-C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~~  112 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWEF  112 (117)
T ss_dssp             CC-----------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCC-cCceEcHHHHHHHHHcCCcCCCCCCeeee
Confidence            457899999999752             1  223345 99999999999999999999999998653

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

Probab=99.16  E-value=2.2e-11  Score=95.10  Aligned_cols=53  Identities=32%  Similarity=0.746  Sum_probs=44.9

Q ss_pred             CcCCCcccccCCccccCcc-eeecCCCCCCCChhhHHHHHhcC---CCCCcccCCccc
Q 018110          161 LVEGTECSVCLSEFQEDET-LRLLPKCNHAFHISCIDTWLRSH---TNCPLCRSPIVK  214 (360)
Q Consensus       161 ~~~~~~C~ICl~~~~~~~~-~r~lp~C~H~FH~~CI~~Wl~~~---~tCP~CR~~l~~  214 (360)
                      ..+..+|+||++.|...+. .+.++ |||.||..||..|++.+   .+||+||..+..
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   68 (88)
T 2ct2_A           12 LREVLECPICMESFTEEQLRPKLLH-CGHTICRQCLEKLLASSINGVRCPFCSKITRI   68 (88)
T ss_dssp             CCSCCBCTTTCCBCCTTSSCEEECS-SSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCC
T ss_pred             ccCCCCCccCCccccccCCCeEECC-CCChhhHHHHHHHHHcCCCCcCCCCCCCcccc
Confidence            3456789999999987664 66777 99999999999999875   789999998764

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

Probab=99.14  E-value=1.2e-11  Score=93.57  Aligned_cols=49  Identities=31%  Similarity=0.658  Sum_probs=42.5

Q ss_pred             cCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          162 VEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       162 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      .+...|+||++.+..   ...++ |+|.||..||..|+..+.+||+||..+..
T Consensus        13 ~~~~~C~IC~~~~~~---~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   61 (71)
T 2d8t_A           13 LTVPECAICLQTCVH---PVSLP-CKHVFCYLCVKGASWLGKRCALCRQEIPE   61 (71)
T ss_dssp             SSCCBCSSSSSBCSS---EEEET-TTEEEEHHHHHHCTTCSSBCSSSCCBCCH
T ss_pred             CCCCCCccCCcccCC---CEEcc-CCCHHHHHHHHHHHHCCCcCcCcCchhCH
Confidence            356789999999855   35567 99999999999999999999999999875

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

Probab=99.11  E-value=6.4e-11  Score=91.40  Aligned_cols=49  Identities=20%  Similarity=0.625  Sum_probs=41.4

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcC--CCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSH--TNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~--~tCP~CR~~l~~  214 (360)
                      ...+|+||++.|..++...   .|+|.||..||.+||+.+  .+||+||+++..
T Consensus        14 ~i~~C~IC~~~i~~g~~C~---~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~   64 (74)
T 2ct0_A           14 AVKICNICHSLLIQGQSCE---TCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH   64 (74)
T ss_dssp             SSCBCSSSCCBCSSSEECS---SSCCEECHHHHHHHSTTCSSCCCTTTCSCCCS
T ss_pred             CCCcCcchhhHcccCCccC---CCCchhhHHHHHHHHHhcCCCCCCCCcCcCCC
Confidence            3478999999998654332   599999999999999877  889999999875

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

Probab=99.09  E-value=9.1e-11  Score=89.58  Aligned_cols=50  Identities=24%  Similarity=0.577  Sum_probs=40.9

Q ss_pred             cCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcC--CCCCcccCCccc
Q 018110          162 VEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSH--TNCPLCRSPIVK  214 (360)
Q Consensus       162 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~--~tCP~CR~~l~~  214 (360)
                      .+...|+||++.|...   ..++.|||.||..||..|++.+  .+||+||+.+..
T Consensus        13 ~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~   64 (74)
T 2yur_A           13 PDELLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVS   64 (74)
T ss_dssp             CGGGSCSSSCCCCTTC---EECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCC
T ss_pred             CCCCCCcCCChHHhCC---eEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCC
Confidence            3567899999998753   3355599999999999999865  689999997654

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

Probab=99.08  E-value=9.6e-11  Score=87.22  Aligned_cols=49  Identities=29%  Similarity=0.605  Sum_probs=40.6

Q ss_pred             cCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHh-cCCCCCcccCCccc
Q 018110          162 VEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLR-SHTNCPLCRSPIVK  214 (360)
Q Consensus       162 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~-~~~tCP~CR~~l~~  214 (360)
                      .+...|+||++.+....   .++ |||.||..||..|+. ...+||+||+.+..
T Consensus        13 ~~~~~C~IC~~~~~~p~---~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (66)
T 2ecy_A           13 EDKYKCEKCHLVLCSPK---QTE-CGHRFCESCMAALLSSSSPKCTACQESIVK   62 (66)
T ss_dssp             CCCEECTTTCCEESSCC---CCS-SSCCCCHHHHHHHHTTSSCCCTTTCCCCCT
T ss_pred             CcCCCCCCCChHhcCee---ECC-CCCHHHHHHHHHHHHhCcCCCCCCCcCCCh
Confidence            35678999999987542   356 999999999999994 56789999999865

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

Probab=99.07  E-value=6.7e-11  Score=91.60  Aligned_cols=47  Identities=28%  Similarity=0.583  Sum_probs=41.1

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCcc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIV  213 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~  213 (360)
                      ....|+||++.|..   ..+++ |+|.||..||..|+....+||+||..+.
T Consensus        14 ~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           14 IPFRCFICRQAFQN---PVVTK-CRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             CCSBCSSSCSBCCS---EEECT-TSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             CCCCCcCCCchhcC---eeEcc-CCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            45789999999865   33577 9999999999999999999999999985

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

Probab=99.06  E-value=1e-10  Score=88.36  Aligned_cols=49  Identities=31%  Similarity=0.732  Sum_probs=40.9

Q ss_pred             cCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHh---cCCCCCcccCCccc
Q 018110          162 VEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLR---SHTNCPLCRSPIVK  214 (360)
Q Consensus       162 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~---~~~tCP~CR~~l~~  214 (360)
                      .+...|+||++.|..   ...++ |||.||..||..|++   ....||+||..+..
T Consensus        18 ~~~~~C~IC~~~~~~---~~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   69 (73)
T 2ysl_A           18 QEEVICPICLDILQK---PVTID-CGHNFCLKCITQIGETSCGFFKCPLCKTSVRK   69 (73)
T ss_dssp             CCCCBCTTTCSBCSS---EEECT-TCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCC
T ss_pred             ccCCEeccCCcccCC---eEEcC-CCChhhHHHHHHHHHcCCCCCCCCCCCCcCCc
Confidence            456789999999874   34566 999999999999997   45689999999865

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

Probab=99.02  E-value=7.9e-11  Score=100.54  Aligned_cols=47  Identities=34%  Similarity=0.885  Sum_probs=41.0

Q ss_pred             CCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          164 GTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       164 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      +..|+||++.|..   ...+| |||.||..||..|+..+.+||+||.++..
T Consensus        53 ~~~C~iC~~~~~~---~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   99 (138)
T 4ayc_A           53 ELQCIICSEYFIE---AVTLN-CAHSFCSYCINEWMKRKIECPICRKDIKS   99 (138)
T ss_dssp             HSBCTTTCSBCSS---EEEET-TSCEEEHHHHHHHTTTCSBCTTTCCBCCC
T ss_pred             cCCCcccCcccCC---ceECC-CCCCccHHHHHHHHHcCCcCCCCCCcCCC
Confidence            4579999999865   45677 99999999999999999999999998853

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

Probab=99.01  E-value=9.7e-11  Score=97.65  Aligned_cols=51  Identities=25%  Similarity=0.686  Sum_probs=44.1

Q ss_pred             CCCcccccCCccccC----cceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQED----ETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~----~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      ++.+|+||++.|...    +.++.++ |||.||..||..|++.+.+||+||..+..
T Consensus         6 ~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   60 (133)
T 4ap4_A            6 GTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINH   60 (133)
T ss_dssp             CSCBCTTTCCBHHHHHHTTCCEEEET-TCCEEEHHHHHHHHTTCSBCTTTCCBCTT
T ss_pred             CCCCCcccChhhhCccccccCeEecC-CCChhhHHHHHHHHHhCCCCCCCCCcCcc
Confidence            457899999999764    4456777 99999999999999999999999998864

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

Probab=99.00  E-value=3.1e-10  Score=87.60  Aligned_cols=49  Identities=37%  Similarity=0.752  Sum_probs=41.5

Q ss_pred             cCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhc------CCCCCcccCCccc
Q 018110          162 VEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS------HTNCPLCRSPIVK  214 (360)
Q Consensus       162 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~------~~tCP~CR~~l~~  214 (360)
                      .+...|+||++.|...   ..++ |+|.||..||..|+..      ...||+||..+..
T Consensus        17 ~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecw_A           17 KEEVTCPICLELLKEP---VSAD-CNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPF   71 (85)
T ss_dssp             CTTTSCTTTCSCCSSC---EECT-TSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCT
T ss_pred             ccCCCCcCCChhhCcc---eeCC-CCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCH
Confidence            3567899999998653   3577 9999999999999987      6789999999864

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

Probab=98.98  E-value=3.7e-10  Score=87.12  Aligned_cols=49  Identities=27%  Similarity=0.699  Sum_probs=41.5

Q ss_pred             cCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhc------CCCCCcccCCccc
Q 018110          162 VEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS------HTNCPLCRSPIVK  214 (360)
Q Consensus       162 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~------~~tCP~CR~~l~~  214 (360)
                      .+...|+||++.|...   ..++ |+|.||..||..|+..      ...||+||..+..
T Consensus        17 ~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecv_A           17 KEEVTCPICLELLTQP---LSLD-CGHSFCQACLTANHKKSMLDKGESSCPVCRISYQP   71 (85)
T ss_dssp             CCCCCCTTTCSCCSSC---BCCS-SSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCS
T ss_pred             cCCCCCCCCCcccCCc---eeCC-CCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCH
Confidence            3567899999998653   3466 9999999999999987      7889999999875

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

Probab=98.98  E-value=2.5e-10  Score=84.70  Aligned_cols=51  Identities=25%  Similarity=0.657  Sum_probs=40.8

Q ss_pred             CCCcccccCC-ccccCcce-eecCCCCCCCChhhHHHHHhc-CCCCCcccCCccc
Q 018110          163 EGTECSVCLS-EFQEDETL-RLLPKCNHAFHISCIDTWLRS-HTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~-~~~~~~~~-r~lp~C~H~FH~~CI~~Wl~~-~~tCP~CR~~l~~  214 (360)
                      ++..|+||++ .|...... ..++ |||.||..||.+|+.. ...||+||..+..
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   55 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPLRK   55 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCCSS
T ss_pred             CCCcCCcCCCCccCCCccCeecCC-CCCHhHHHHHHHHHHcCCCcCCCCCCcccc
Confidence            3568999999 77665443 3466 9999999999999764 4679999999865

>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=98.97  E-value=1.8e-10  Score=93.05  Aligned_cols=49  Identities=29%  Similarity=0.771  Sum_probs=41.2

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcC-CCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSH-TNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~-~tCP~CR~~l~~  214 (360)
                      +...|+||++.|..  .+..++ |||.||..||..|+... .+||+||.++..
T Consensus        21 ~~~~C~IC~~~~~~--p~~~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   70 (100)
T 3lrq_A           21 EVFRCFICMEKLRD--ARLCPH-CSKLCCFSCIRRWLTEQRAQCPHCRAPLQL   70 (100)
T ss_dssp             HHTBCTTTCSBCSS--EEECTT-TCCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             CCCCCccCCccccC--ccccCC-CCChhhHHHHHHHHHHCcCCCCCCCCcCCH
Confidence            45789999999864  343376 99999999999999987 699999999854

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

Probab=98.96  E-value=1.4e-10  Score=88.80  Aligned_cols=50  Identities=26%  Similarity=0.622  Sum_probs=41.6

Q ss_pred             CcCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhc-------CCCCCcccCCccc
Q 018110          161 LVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS-------HTNCPLCRSPIVK  214 (360)
Q Consensus       161 ~~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~-------~~tCP~CR~~l~~  214 (360)
                      ..+...|+||++.|...   +.++ |||.||..||..|+..       ...||+||..+..
T Consensus         9 ~~~~~~C~IC~~~~~~p---~~l~-CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~   65 (79)
T 2egp_A            9 VQEEVTCPICLELLTEP---LSLD-CGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSF   65 (79)
T ss_dssp             CCCCCEETTTTEECSSC---CCCS-SSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCS
T ss_pred             cccCCCCcCCCcccCCe---eECC-CCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCH
Confidence            34568899999998653   3467 9999999999999986       6689999999864

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

Probab=98.95  E-value=3.8e-10  Score=86.46  Aligned_cols=49  Identities=20%  Similarity=0.550  Sum_probs=41.4

Q ss_pred             cCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhc-CCCCCcccCCccc
Q 018110          162 VEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS-HTNCPLCRSPIVK  214 (360)
Q Consensus       162 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~-~~tCP~CR~~l~~  214 (360)
                      .+...|+||++.|.+   ...++ |||.||..||..|+.. +.+||+||.++..
T Consensus         6 ~~~~~C~IC~~~~~~---Pv~~~-CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~   55 (78)
T 1t1h_A            6 PEYFRCPISLELMKD---PVIVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLH   55 (78)
T ss_dssp             SSSSSCTTTSCCCSS---EEEET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSS
T ss_pred             cccCCCCCccccccC---CEEcC-CCCeecHHHHHHHHHHCcCCCCCCcCCCCh
Confidence            456789999999865   34467 9999999999999987 7889999998754

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

Probab=98.95  E-value=5.2e-10  Score=82.35  Aligned_cols=44  Identities=34%  Similarity=0.778  Sum_probs=36.4

Q ss_pred             CcCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHh---cCCCCCcc
Q 018110          161 LVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLR---SHTNCPLC  208 (360)
Q Consensus       161 ~~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~---~~~tCP~C  208 (360)
                      ..++..|+||++.|..   .+.++ |||.||..||..|++   ....||+|
T Consensus        17 ~~~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           17 LQEEVICPICLDILQK---PVTID-CGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCBCTTTCSBCSS---CEECT-TSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             CccCCCCCcCCchhCC---eEEeC-CCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            3456789999999875   34456 999999999999998   45689998

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

Probab=98.94  E-value=5.5e-10  Score=80.44  Aligned_cols=43  Identities=35%  Similarity=0.908  Sum_probs=35.6

Q ss_pred             cCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHh---cCCCCCcc
Q 018110          162 VEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLR---SHTNCPLC  208 (360)
Q Consensus       162 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~---~~~tCP~C  208 (360)
                      .+...|+||++.|...   +.++ |+|.||..||..|+.   .+.+||+|
T Consensus        13 ~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           13 QVEASCSVCLEYLKEP---VIIE-CGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CCCCBCSSSCCBCSSC---CCCS-SCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             ccCCCCccCCcccCcc---EeCC-CCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            3567899999999764   3466 999999999999954   56789998

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

Probab=98.94  E-value=3.1e-10  Score=91.13  Aligned_cols=49  Identities=24%  Similarity=0.699  Sum_probs=41.3

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      +...|+||++.|..  .+..++ |||.||..||..|+..+.+||+||..+..
T Consensus        21 ~~~~C~IC~~~~~~--p~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   69 (99)
T 2y43_A           21 DLLRCGICFEYFNI--AMIIPQ-CSHNYCSLCIRKFLSYKTQCPTCCVTVTE   69 (99)
T ss_dssp             HHTBCTTTCSBCSS--EEECTT-TCCEEEHHHHHHHHTTCCBCTTTCCBCCG
T ss_pred             CCCCcccCChhhCC--cCEECC-CCCHhhHHHHHHHHHCCCCCCCCCCcCCh
Confidence            34689999999875  343346 99999999999999999999999998864

>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=98.93  E-value=3.6e-10  Score=92.22  Aligned_cols=49  Identities=27%  Similarity=0.692  Sum_probs=42.1

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      +...|+||++.|..  .+..++ |||.||..||..|+..+.+||+||..+..
T Consensus        14 ~~~~C~IC~~~~~~--p~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   62 (108)
T 2ckl_A           14 PHLMCVLCGGYFID--ATTIIE-CLHSFCKTCIVRYLETSKYCPICDVQVHK   62 (108)
T ss_dssp             GGTBCTTTSSBCSS--EEEETT-TCCEEEHHHHHHHHTSCSBCTTTCCBSCS
T ss_pred             CcCCCccCChHHhC--cCEeCC-CCChhhHHHHHHHHHhCCcCcCCCccccc
Confidence            46789999999865  444447 99999999999999999999999998865

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

Probab=98.92  E-value=3.1e-10  Score=94.55  Aligned_cols=51  Identities=25%  Similarity=0.686  Sum_probs=43.5

Q ss_pred             CCCcccccCCccccC----cceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQED----ETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~----~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      +...|+||++.|...    .....++ |||.||..||++|++.+.+||+||..+..
T Consensus        71 ~~~~C~iC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~  125 (133)
T 4ap4_A           71 GTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINH  125 (133)
T ss_dssp             SSCBCTTTCCBHHHHHHTTCCEEEET-TSBEEEHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CCCCCCCCCCccccccccCcceEeCC-CCChhhHHHHHHHHHcCCCCCCCCCcCCh
Confidence            457899999998753    3345666 99999999999999999999999999875

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

Probab=98.89  E-value=1.1e-09  Score=86.42  Aligned_cols=51  Identities=24%  Similarity=0.573  Sum_probs=40.8

Q ss_pred             CCcCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcC--CCCCcccCCcc
Q 018110          160 GLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSH--TNCPLCRSPIV  213 (360)
Q Consensus       160 ~~~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~--~tCP~CR~~l~  213 (360)
                      ...+...|+||++.|.+.   ..++.|||.||..||..|+...  ..||+||..+.
T Consensus         9 ~~~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A            9 PIPDELLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             CCCTTTEETTTTEECSSC---EECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             cCCcCCCCCCCChhhcCc---eECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            334668999999998753   3455599999999999999743  58999999874

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

Probab=98.85  E-value=3.3e-09  Score=82.36  Aligned_cols=54  Identities=20%  Similarity=0.464  Sum_probs=41.7

Q ss_pred             CcCCCcccccCCccccCcc-eeecCCCCCCCChhhHHHHHh-cCCCCCcccCCcccc
Q 018110          161 LVEGTECSVCLSEFQEDET-LRLLPKCNHAFHISCIDTWLR-SHTNCPLCRSPIVKI  215 (360)
Q Consensus       161 ~~~~~~C~ICl~~~~~~~~-~r~lp~C~H~FH~~CI~~Wl~-~~~tCP~CR~~l~~~  215 (360)
                      +.++.+|+||++.+...+. +..++ |||.||..||..|+. ....||+||+++...
T Consensus         8 ~~~~~~CpICle~~~~~d~~~~p~~-CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~   63 (78)
T 1e4u_A            8 KEDPVECPLCMEPLEIDDINFFPCT-CGYQICRFCWHRIRTDENGLCPACRKPYPED   63 (78)
T ss_dssp             CCCCCBCTTTCCBCCTTTTTCCSST-TSCCCCHHHHHHHTTSSCSBCTTTCCBCSSC
T ss_pred             cccCCcCCccCccCccccccccccC-CCCCcCHHHHHHHHhcCCCCCCCCCCccCCC
Confidence            3466789999999865432 23344 999999999999985 456799999998763

>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=98.85  E-value=9.2e-10  Score=96.39  Aligned_cols=49  Identities=37%  Similarity=0.772  Sum_probs=41.2

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhc-CCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS-HTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~-~~tCP~CR~~l~~  214 (360)
                      +...|+||++.|..  .+..++ |||.||..||..|+.. +..||+||..+..
T Consensus        53 ~~~~C~IC~~~~~~--p~~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  102 (165)
T 2ckl_B           53 SELMCPICLDMLKN--TMTTKE-CLHRFCADCIITALRSGNKECPTCRKKLVS  102 (165)
T ss_dssp             HHHBCTTTSSBCSS--EEEETT-TCCEEEHHHHHHHHHTTCCBCTTTCCBCCS
T ss_pred             CCCCCcccChHhhC--cCEeCC-CCChhHHHHHHHHHHhCcCCCCCCCCcCCC
Confidence            34589999999875  454456 9999999999999987 7789999999854

>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=98.84  E-value=1.2e-09  Score=91.32  Aligned_cols=48  Identities=25%  Similarity=0.570  Sum_probs=40.0

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCC-CCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHT-NCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~-tCP~CR~~l~~  214 (360)
                      +...|+||++.|..   ...++ |||.||..||..|+..+. +||+||.++..
T Consensus        51 ~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           51 ETFQCICCQELVFR---PITTV-CQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HHTBCTTTSSBCSS---EEECT-TSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             cCCCCCcCChHHcC---cEEee-CCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            34689999999874   34567 999999999999998544 89999999864

>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=98.83  E-value=2e-09  Score=87.75  Aligned_cols=47  Identities=34%  Similarity=0.743  Sum_probs=39.1

Q ss_pred             CCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCC---CCCcccCCccc
Q 018110          164 GTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHT---NCPLCRSPIVK  214 (360)
Q Consensus       164 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~---tCP~CR~~l~~  214 (360)
                      ...|+||++.|...   ..++ |||.||..||..|+..+.   +||+||..+..
T Consensus        21 ~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   70 (112)
T 1jm7_A           21 ILECPICLELIKEP---VSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK   70 (112)
T ss_dssp             HTSCSSSCCCCSSC---CBCT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCT
T ss_pred             CCCCcccChhhcCe---EECC-CCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCH
Confidence            46799999998653   3466 999999999999998654   89999998764

>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=98.79  E-value=1.5e-09  Score=90.01  Aligned_cols=50  Identities=30%  Similarity=0.669  Sum_probs=41.5

Q ss_pred             CcCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCC-CCCcccCCccc
Q 018110          161 LVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHT-NCPLCRSPIVK  214 (360)
Q Consensus       161 ~~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~-tCP~CR~~l~~  214 (360)
                      ..+...|+||++.|...   ..++ |||.||..||..|+.... +||+||.++..
T Consensus        15 ~~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (118)
T 3hct_A           15 LESKYECPICLMALREA---VQTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLE   65 (118)
T ss_dssp             CCGGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CCCCCCCCcCChhhcCe---EECC-cCChhhHHHHHHHHhhCCCCCCCCCCCcCH
Confidence            34567899999998753   4466 999999999999998765 99999998865

>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=98.73  E-value=4.3e-09  Score=91.35  Aligned_cols=48  Identities=19%  Similarity=0.511  Sum_probs=40.2

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCC-CCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHT-NCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~-tCP~CR~~l~~  214 (360)
                      +...|+||++.|..   ...++ |||.||..||..|+.... +||+||.++..
T Consensus        77 ~~~~C~IC~~~~~~---pv~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  125 (150)
T 1z6u_A           77 QSFMCVCCQELVYQ---PVTTE-CFHNVCKDCLQRSFKAQVFSCPACRHDLGQ  125 (150)
T ss_dssp             HHTBCTTTSSBCSS---EEECT-TSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             cCCEeecCChhhcC---CEEcC-CCCchhHHHHHHHHHhCCCcCCCCCccCCC
Confidence            34689999999865   33467 999999999999998754 89999999865

>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=98.71  E-value=5e-09  Score=86.37  Aligned_cols=47  Identities=28%  Similarity=0.622  Sum_probs=40.1

Q ss_pred             CCcccccCCccccCcceeecCCCCCCCChhhHHHHHhc-CCCCCcccCCccc
Q 018110          164 GTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS-HTNCPLCRSPIVK  214 (360)
Q Consensus       164 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~-~~tCP~CR~~l~~  214 (360)
                      ...|+||++.|..   ...++ |||.||..||..|+.. ..+||+||.++..
T Consensus        23 ~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   70 (116)
T 1rmd_A           23 SISCQICEHILAD---PVETS-CKHLFCRICILRCLKVMGSYCPSCRYPCFP   70 (116)
T ss_dssp             HTBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             CCCCCCCCcHhcC---cEEcC-CCCcccHHHHHHHHhHCcCcCCCCCCCCCH
Confidence            4679999999865   33466 9999999999999986 7789999999865

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

Probab=98.69  E-value=5.5e-09  Score=77.81  Aligned_cols=49  Identities=20%  Similarity=0.456  Sum_probs=40.1

Q ss_pred             CCCcccccCCccccCccee-ecCCCCCC-CChhhHHHHHhcCCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDETLR-LLPKCNHA-FHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r-~lp~C~H~-FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      ++.+|.||++.+.+  .+. .+| |||. |+..|+..|++.+..||+||+++..
T Consensus         7 ~~~~C~IC~~~~~~--~~~~~~p-CgH~~~C~~C~~~~~~~~~~CPiCR~~i~~   57 (64)
T 2vje_A            7 AIEPCVICQGRPKN--GCIVHGK-TGHLMACFTCAKKLKKRNKPCPVCRQPIQM   57 (64)
T ss_dssp             GGSCCTTTSSSCSC--EEEEETT-EEEEEECHHHHHHHHHTTCCCTTTCCCCCE
T ss_pred             CcCCCCcCCCCCCC--EEEECCC-CCChhhHHHHHHHHHHcCCcCCCcCcchhc
Confidence            45689999998654  222 238 9999 8999999999988999999998854

>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=98.69  E-value=2.3e-09  Score=88.23  Aligned_cols=48  Identities=27%  Similarity=0.744  Sum_probs=40.3

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhc-CCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS-HTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~-~~tCP~CR~~l~~  214 (360)
                      ++..|+||++.|..   ...++ |||.||..||..|+.. ...||+||..+..
T Consensus        14 ~~~~C~iC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           14 SECQCGICMEILVE---PVTLP-CNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             HHHBCTTTCSBCSS---CEECT-TSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             CCCCCccCCcccCc---eeEcC-CCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            45689999999865   34567 9999999999999976 6789999999864

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

Probab=98.63  E-value=1.3e-08  Score=73.67  Aligned_cols=45  Identities=29%  Similarity=0.725  Sum_probs=37.8

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      +...|+||++.|..   .+.++ |||.||..||..|   ...||+||+.+..
T Consensus         5 ~~~~C~IC~~~~~~---p~~l~-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~   49 (56)
T 1bor_A            5 QFLRCQQCQAEAKC---PKLLP-CLHTLCSGCLEAS---GMQCPICQAPWPL   49 (56)
T ss_dssp             CCSSCSSSCSSCBC---CSCST-TSCCSBTTTCSSS---SSSCSSCCSSSSC
T ss_pred             cCCCceEeCCccCC---eEEcC-CCCcccHHHHccC---CCCCCcCCcEeec
Confidence            56789999999975   35677 9999999999884   6689999998864

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

Probab=98.63  E-value=1.5e-08  Score=100.40  Aligned_cols=48  Identities=27%  Similarity=0.791  Sum_probs=41.4

Q ss_pred             CCcccccCCccccCcceeecCCCCCCCChhhHHHHHh-cCCCCCcccCCcccc
Q 018110          164 GTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLR-SHTNCPLCRSPIVKI  215 (360)
Q Consensus       164 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~-~~~tCP~CR~~l~~~  215 (360)
                      ...|+||++.+..   ...+| |||.||..||..|+. ...+||+||.++...
T Consensus       332 ~~~C~ICle~~~~---pv~lp-CGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~  380 (389)
T 2y1n_A          332 FQLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGT  380 (389)
T ss_dssp             SSBCTTTSSSBCC---EEEET-TCCEECHHHHHHHHHHTCSBCTTTCCBCCEE
T ss_pred             CCCCCccCcCCCC---eEEeC-CCChhhHHHHHHHHhcCCCCCCCCCCccCCc
Confidence            3689999998854   56677 999999999999998 688999999998763

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

Probab=98.63  E-value=8.6e-09  Score=100.28  Aligned_cols=52  Identities=21%  Similarity=0.685  Sum_probs=40.3

Q ss_pred             CCCcccccCCccccCccee----ecCCCCCCCChhhHHHHHhcC-----------CCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDETLR----LLPKCNHAFHISCIDTWLRSH-----------TNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r----~lp~C~H~FH~~CI~~Wl~~~-----------~tCP~CR~~l~~  214 (360)
                      ...+|+||++.+..+..+-    ..++|+|.||..||.+||+..           .+||.||+++..
T Consensus       307 ~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~  373 (381)
T 3k1l_B          307 EELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLST  373 (381)
T ss_dssp             SCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEG
T ss_pred             CCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCc
Confidence            5678999999998733331    123699999999999999742           469999998863

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

Probab=98.62  E-value=1.9e-08  Score=79.10  Aligned_cols=48  Identities=15%  Similarity=0.117  Sum_probs=41.9

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      +...|+||++.|.+   ..+++ |||.|+..||..|+..+.+||+||.++..
T Consensus        13 ~~~~CpI~~~~m~d---PV~~~-cGhtf~r~~I~~~l~~~~~cP~~~~~l~~   60 (85)
T 2kr4_A           13 DEFRDPLMDTLMTD---PVRLP-SGTVMDRSIILRHLLNSPTDPFNRQMLTE   60 (85)
T ss_dssp             TTTBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             hheECcccCchhcC---CeECC-CCCEECHHHHHHHHhcCCCCCCCcCCCCh
Confidence            56889999999876   34577 99999999999999988999999998754

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

Probab=98.60  E-value=1.4e-08  Score=75.42  Aligned_cols=50  Identities=18%  Similarity=0.406  Sum_probs=40.0

Q ss_pred             CCCcccccCCccccCcceeecCCCCCC-CChhhHHHHHhcCCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHA-FHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~-FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      ....|.||++.+.+. .+..+| |||. |+..|+..|.+.+..||+||+++..
T Consensus         6 ~~~~C~IC~~~~~~~-~~~~~p-CgH~~~C~~C~~~~~~~~~~CPiCR~~i~~   56 (63)
T 2vje_B            6 LLKPCSLCEKRPRDG-NIIHGR-TGHLVTCFHCARRLKKAGASCPICKKEIQL   56 (63)
T ss_dssp             GGSBCTTTSSSBSCE-EEEETT-EEEEEECHHHHHHHHHTTCBCTTTCCBCCE
T ss_pred             cCCCCcccCCcCCCe-EEEecC-CCCHhHHHHHHHHHHHhCCcCCCcCchhhc
Confidence            457899999975432 122347 9998 9999999999888899999999854

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

Probab=98.57  E-value=8.5e-09  Score=88.64  Aligned_cols=48  Identities=23%  Similarity=0.472  Sum_probs=40.1

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCC-CCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHT-NCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~-tCP~CR~~l~~  214 (360)
                      +...|+||++.|...   ..++ |||.||..||..|+.... +||+||.++..
T Consensus        30 ~~~~C~IC~~~~~~p---v~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   78 (141)
T 3knv_A           30 AKYLCSACRNVLRRP---FQAQ-CGHRYCSFCLASILSSGPQNCAACVHEGIY   78 (141)
T ss_dssp             GGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHGGGSCEECHHHHHTTCC
T ss_pred             cCcCCCCCChhhcCc---EECC-CCCccCHHHHHHHHhcCCCCCCCCCCcccc
Confidence            567899999998764   3466 999999999999998664 89999998743

>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=98.56  E-value=3e-08  Score=80.40  Aligned_cols=49  Identities=14%  Similarity=0.113  Sum_probs=42.2

Q ss_pred             cCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          162 VEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       162 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      .+...|+||++.|.+   ..+++ |||.|+..||..||..+.+||+||.++..
T Consensus        27 p~~~~CpI~~~~m~d---PV~~~-cGhtf~r~~I~~~l~~~~~cP~~~~~l~~   75 (100)
T 2kre_A           27 PDEFRDPLMDTLMTD---PVRLP-SGTIMDRSIILRHLLNSPTDPFNRQTLTE   75 (100)
T ss_dssp             STTTBCTTTCSBCSS---EEEET-TTEEEEHHHHHHHTTSCSBCSSSCCBCCT
T ss_pred             cHhhCCcCccCcccC---CeECC-CCCEEchHHHHHHHHcCCCCCCCCCCCCh
Confidence            356789999999876   34567 99999999999999988999999998754

>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=98.56  E-value=1.2e-08  Score=84.38  Aligned_cols=45  Identities=31%  Similarity=0.738  Sum_probs=38.1

Q ss_pred             CCCcccccCCccccCcceeec-CCCCCCCChhhHHHHHhcCCCCCcccCCcc
Q 018110          163 EGTECSVCLSEFQEDETLRLL-PKCNHAFHISCIDTWLRSHTNCPLCRSPIV  213 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~l-p~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~  213 (360)
                      +...|+||++.|..  . ..+ + |||.||..||..|+.  ..||+||..+.
T Consensus        21 ~~~~C~IC~~~~~~--p-v~~~~-CgH~fC~~Ci~~~~~--~~CP~Cr~~~~   66 (117)
T 1jm7_B           21 KLLRCSRCTNILRE--P-VCLGG-CEHIFCSNCVSDCIG--TGCPVCYTPAW   66 (117)
T ss_dssp             HTTSCSSSCSCCSS--C-BCCCS-SSCCBCTTTGGGGTT--TBCSSSCCBCS
T ss_pred             hCCCCCCCChHhhC--c-cEeCC-CCCHHHHHHHHHHhc--CCCcCCCCcCc
Confidence            45789999999865  3 344 6 999999999999998  78999999874

>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=98.55  E-value=4.2e-08  Score=79.28  Aligned_cols=48  Identities=21%  Similarity=0.220  Sum_probs=41.6

Q ss_pred             CCCcccccCCccccCcceeecCCCC-CCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCN-HAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~-H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      ++..|+||++.|.+   ..+++ || |.|+..||..||..+.+||+||.++..
T Consensus        21 ~~~~CpI~~~~m~d---PV~~~-cG~htf~r~cI~~~l~~~~~cP~~~~~l~~   69 (98)
T 1wgm_A           21 DEFLDPIMSTLMCD---PVVLP-SSRVTVDRSTIARHLLSDQTDPFNRSPLTM   69 (98)
T ss_dssp             TTTBCTTTCSBCSS---EEECT-TTCCEEEHHHHHHHTTTSCBCTTTCSBCCT
T ss_pred             HhcCCcCccccccC---CeECC-CCCeEECHHHHHHHHHhCCCCCCCCCCCCh
Confidence            56789999999876   33566 99 999999999999988999999998754

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

Probab=98.53  E-value=1.8e-08  Score=77.00  Aligned_cols=44  Identities=25%  Similarity=0.702  Sum_probs=37.2

Q ss_pred             CCCcccccCCccccCcceeecCCCCCC-CChhhHHHHHhcCCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHA-FHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~-FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      ++..|+||++.+..   ...+| |||. ||..|+..|    ..||+||..+..
T Consensus        23 ~~~~C~iC~~~~~~---~~~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i~~   67 (74)
T 4ic3_A           23 EEKLCKICMDRNIA---IVFVP-CGHLVTCKQCAEAV----DKCPMCYTVITF   67 (74)
T ss_dssp             HHTBCTTTSSSBCC---EEEET-TCCBCCCHHHHTTC----SBCTTTCCBCSE
T ss_pred             cCCCCCCCCCCCCC---EEEcC-CCChhHHHHhhhcC----ccCCCcCcCccC
Confidence            34689999998754   55677 9999 999999999    789999998865

>1vyx_A ORF K3, K3RING; zinc-binding protein, ring domain, cross-brace motif; NMR {Human herpesvirus 8} SCOP: g.44.1.3

Probab=98.50  E-value=7.2e-08  Score=71.18  Aligned_cols=47  Identities=28%  Similarity=0.666  Sum_probs=37.1

Q ss_pred             CCCcccccCCccccCcceeecCCCC--C---CCChhhHHHHHhc--CCCCCcccCCcc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCN--H---AFHISCIDTWLRS--HTNCPLCRSPIV  213 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~--H---~FH~~CI~~Wl~~--~~tCP~CR~~l~  213 (360)
                      +...|.||+++.  ++.+ ++| |.  |   .||..||.+|+..  +.+||+||..+.
T Consensus         5 ~~~~CrIC~~~~--~~~l-~~P-C~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            5 DVPVCWICNEEL--GNER-FRA-CGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             SCCEETTTTEEC--SCCC-CCS-CCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCEeEEeecCC--CCce-ecC-cCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            567899999973  3334 577 65  4   9999999999964  678999999874

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

Probab=98.42  E-value=6.8e-08  Score=84.70  Aligned_cols=50  Identities=30%  Similarity=0.674  Sum_probs=41.3

Q ss_pred             CcCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcC-CCCCcccCCccc
Q 018110          161 LVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSH-TNCPLCRSPIVK  214 (360)
Q Consensus       161 ~~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~-~tCP~CR~~l~~  214 (360)
                      ..+...|+||++.|...   ..++ |||.||..||..|+... .+||+||.++..
T Consensus        15 ~~~~~~C~IC~~~~~~p---v~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (170)
T 3hcs_A           15 LESKYECPICLMALREA---VQTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLE   65 (170)
T ss_dssp             CCGGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CCCCCCCCCCChhhcCc---EECC-CCCHHHHHHHHHHHHhCCCCCCCCccCcch
Confidence            34567899999998753   3466 99999999999999764 499999998865

>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=98.39  E-value=1.4e-07  Score=75.38  Aligned_cols=47  Identities=21%  Similarity=0.530  Sum_probs=38.1

Q ss_pred             cCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcC------CCCCc--ccCC
Q 018110          162 VEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSH------TNCPL--CRSP  211 (360)
Q Consensus       162 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~------~tCP~--CR~~  211 (360)
                      .....|+||++.|.+  .| +++.|||.|+..||..||..+      .+||+  |+..
T Consensus         5 ~~~~~CPI~~~~~~d--PV-~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            5 SSGFTCPITKEEMKK--PV-KNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             SSCCBCTTTCSBCSS--EE-EESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCC
T ss_pred             CcEeECcCcCchhcC--CE-EcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCccc
Confidence            456789999999875  34 343499999999999999754      48999  9866

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

Probab=98.36  E-value=1.2e-07  Score=75.39  Aligned_cols=48  Identities=21%  Similarity=0.675  Sum_probs=39.8

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhc--------CCCCCc--ccCC
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS--------HTNCPL--CRSP  211 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~--------~~tCP~--CR~~  211 (360)
                      +..+|+||++++...+.+.+.+ |+|.||..||..|+..        ...||.  |+..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~l~~-CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETT-TTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCcCCcccCcccccccceEcCC-CCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            4568999999998776666666 9999999999999863        236999  9988

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

Probab=98.33  E-value=5.4e-07  Score=67.86  Aligned_cols=45  Identities=29%  Similarity=0.761  Sum_probs=37.2

Q ss_pred             CCCcccccCCccccCcceeecCCCCCC-CChhhHHHHHhcCCCCCcccCCcccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHA-FHISCIDTWLRSHTNCPLCRSPIVKI  215 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~-FH~~CI~~Wl~~~~tCP~CR~~l~~~  215 (360)
                      +...|.||++.+.   .+..+| |+|. |+..|+..    ...||+||+++...
T Consensus        14 ~~~~C~IC~~~~~---~~v~~p-CgH~~~C~~C~~~----~~~CP~CR~~i~~~   59 (68)
T 2ea5_A           14 NSKDCVVCQNGTV---NWVLLP-CRHTCLCDGCVKY----FQQCPMCRQFVQES   59 (68)
T ss_dssp             CSSCCSSSSSSCC---CCEETT-TTBCCSCTTHHHH----CSSCTTTCCCCCCE
T ss_pred             CCCCCCCcCcCCC---CEEEEC-CCChhhhHHHHhc----CCCCCCCCcchhce
Confidence            4578999999754   466788 9999 99999984    57899999998753

>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=98.33  E-value=2.7e-07  Score=85.90  Aligned_cols=49  Identities=16%  Similarity=0.245  Sum_probs=40.7

Q ss_pred             cCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhc-CCCCCcccCCccc
Q 018110          162 VEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS-HTNCPLCRSPIVK  214 (360)
Q Consensus       162 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~-~~tCP~CR~~l~~  214 (360)
                      .....|+||++.|.+   ..+++ |||.|+..||..|+.. ..+||+||.++..
T Consensus       206 ~~~~~c~i~~~~~~d---Pv~~~-~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~  255 (281)
T 2c2l_A          206 PDYLCGKISFELMRE---PCITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQ  255 (281)
T ss_dssp             CSTTBCTTTCSBCSS---EEECS-SCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             CcccCCcCcCCHhcC---CeECC-CCCEECHHHHHHHHHHCCCCCcCCCCCCch
Confidence            356789999999875   34577 9999999999999986 4459999998854

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

Probab=98.30  E-value=2.5e-07  Score=70.60  Aligned_cols=43  Identities=23%  Similarity=0.695  Sum_probs=35.2

Q ss_pred             CCcccccCCccccCcceeecCCCCCC-CChhhHHHHHhcCCCCCcccCCccc
Q 018110          164 GTECSVCLSEFQEDETLRLLPKCNHA-FHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       164 ~~~C~ICl~~~~~~~~~r~lp~C~H~-FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      ...|+||++.+..   ...+| |||. ||..|+..    ...||+||.++..
T Consensus        25 ~~~C~IC~~~~~~---~~~~p-CgH~~~C~~C~~~----~~~CP~Cr~~i~~   68 (75)
T 2ecg_A           25 EKLCKICMDRNIA---IVFVP-CGHLVTCKQCAEA----VDKCPMCYTVITF   68 (75)
T ss_dssp             HHSCSSSCSSCCC---BCCSS-SCCCCBCHHHHHH----CSBCTTTCCBCCC
T ss_pred             CCCCCcCCCCCCC---EEEec-CCCHHHHHHHhhC----CCCCccCCceecC
Confidence            4579999998754   45677 9999 99999964    4789999999865

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

Probab=98.15  E-value=4.9e-07  Score=70.05  Aligned_cols=44  Identities=32%  Similarity=0.720  Sum_probs=36.7

Q ss_pred             CCcccccCCccccCcceeecCCCCCC-CChhhHHHHHhcCCCCCcccCCcccc
Q 018110          164 GTECSVCLSEFQEDETLRLLPKCNHA-FHISCIDTWLRSHTNCPLCRSPIVKI  215 (360)
Q Consensus       164 ~~~C~ICl~~~~~~~~~r~lp~C~H~-FH~~CI~~Wl~~~~tCP~CR~~l~~~  215 (360)
                      +..|.||++.+..   +..+| |||. |+..|+..|    ..||+||.++...
T Consensus        18 ~~~C~IC~~~~~~---~v~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i~~~   62 (79)
T 2yho_A           18 AMLCMVCCEEEIN---STFCP-CGHTVCCESCAAQL----QSCPVCRSRVEHV   62 (79)
T ss_dssp             HTBCTTTSSSBCC---EEEET-TCBCCBCHHHHTTC----SBCTTTCCBCCEE
T ss_pred             CCEeEEeCcccCc---EEEEC-CCCHHHHHHHHHhc----CcCCCCCchhhCe
Confidence            4689999997643   56778 9999 999999987    3999999998764

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

Probab=98.11  E-value=1.3e-06  Score=78.13  Aligned_cols=51  Identities=16%  Similarity=0.235  Sum_probs=41.6

Q ss_pred             CCcCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcC-CCCCcccCCccc
Q 018110          160 GLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSH-TNCPLCRSPIVK  214 (360)
Q Consensus       160 ~~~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~-~tCP~CR~~l~~  214 (360)
                      ...+...|+||++.|.+   ..+++ |||.|+..||..|+..+ .+||+||.++..
T Consensus       102 ~ip~~f~CPI~~elm~D---PV~~~-~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~  153 (179)
T 2f42_A          102 EIPDYLCGKISFELMRE---PCITP-SGITYDRKDIEEHLQRVGHFDPVTRSPLTQ  153 (179)
T ss_dssp             CCCGGGBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             CCcHhhcccCccccCCC---CeECC-CCCEECHHHHHHHHHhCCCCCCCCcCCCCh
Confidence            34466899999999875   34557 99999999999999864 479999998754

>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=97.97  E-value=2.6e-06  Score=80.21  Aligned_cols=49  Identities=22%  Similarity=0.540  Sum_probs=40.0

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcC--CCCCc--ccCCccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSH--TNCPL--CRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~--~tCP~--CR~~l~~  214 (360)
                      ....|+||++.|.+  .|+.+. |||.|+..||..|+..+  .+||+  ||..+..
T Consensus       180 ~el~CPIcl~~f~D--PVts~~-CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~  232 (267)
T 3htk_C          180 IELTCPITCKPYEA--PLISRK-CNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSM  232 (267)
T ss_dssp             CCSBCTTTSSBCSS--EEEESS-SCCEEEHHHHHHHSTTCSCEECSGGGCSCEECG
T ss_pred             eeeECcCccCcccC--CeeeCC-CCCcccHHHHHHHHHhCCCCCCCcccccCcCch
Confidence            45689999999965  565555 99999999999999764  46999  9997754

>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=97.96  E-value=1.7e-06  Score=84.77  Aligned_cols=44  Identities=30%  Similarity=0.779  Sum_probs=37.4

Q ss_pred             CCCcccccCCccccCcceeecCCCCCC-CChhhHHHHHhcCCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHA-FHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~-FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      ++..|+||++.+..   ...+| |||. ||..|+..|    ..||+||.++..
T Consensus       294 ~~~~C~IC~~~~~~---~v~lp-CgH~~fC~~C~~~~----~~CP~CR~~i~~  338 (345)
T 3t6p_A          294 EERTCKVCMDKEVS---VVFIP-CGHLVVCQECAPSL----RKCPICRGIIKG  338 (345)
T ss_dssp             TTCBCTTTSSSBCC---EEEET-TCCEEECTTTGGGC----SBCTTTCCBCCE
T ss_pred             CCCCCCccCCcCCc---eEEcC-CCChhHhHHHHhcC----CcCCCCCCCccC
Confidence            45789999998754   55677 9999 999999998    789999999864

>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=97.87  E-value=3.9e-06  Score=61.89  Aligned_cols=47  Identities=19%  Similarity=0.396  Sum_probs=39.9

Q ss_pred             CcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          165 TECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       165 ~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      ..|+||++.|.+  .+ +++.|||.|...||.+||+.+.+||+++.++..
T Consensus         4 ~~CpIs~~~m~d--PV-~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~   50 (61)
T 2bay_A            4 MLCAISGKVPRR--PV-LSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSI   50 (61)
T ss_dssp             CCCTTTCSCCSS--EE-EETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCG
T ss_pred             EEecCCCCCCCC--CE-EeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCCh
Confidence            579999999975  34 452399999999999999988899999998865

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

Probab=97.85  E-value=6.2e-06  Score=66.60  Aligned_cols=49  Identities=27%  Similarity=0.646  Sum_probs=40.6

Q ss_pred             cccccCCccccCcceeecCCCCCCCChhhHHHHHh-cCCCCCcccCCccccCC
Q 018110          166 ECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLR-SHTNCPLCRSPIVKINH  217 (360)
Q Consensus       166 ~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~-~~~tCP~CR~~l~~~~~  217 (360)
                      -|.+|--++..  ..|+.| |+|+|+.+|+..|.+ ..++||.|+.++..+..
T Consensus         3 fC~~C~~Pi~i--ygRmIP-CkHvFCydCa~~~~~~~~k~Cp~C~~~V~rVe~   52 (101)
T 3vk6_A            3 FCDKCGLPIKV--YGRMIP-CKHVFCYDCAILHEKKGDKMCPGCSDPVQRIEQ   52 (101)
T ss_dssp             BCTTTCSBCSE--EEEEET-TCCEEEHHHHHHHHHTTCCBCTTTCCBCSEEEE
T ss_pred             ecCccCCCeEE--Eeeecc-ccccHHHHHHHHHHhccCCCCcCcCCeeeeeEE
Confidence            37888777654  678999 999999999999985 57889999999987553

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

Probab=97.80  E-value=1.6e-05  Score=74.00  Aligned_cols=48  Identities=21%  Similarity=0.610  Sum_probs=39.5

Q ss_pred             CCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCC--CCCcccCCccc
Q 018110          164 GTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHT--NCPLCRSPIVK  214 (360)
Q Consensus       164 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~--tCP~CR~~l~~  214 (360)
                      -..|.||.+.+..+.   ..++|+|.||..|+..|++.+.  .||.|+.++..
T Consensus       180 i~~C~iC~~iv~~g~---~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~  229 (238)
T 3nw0_A          180 VKICNICHSLLIQGQ---SCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH  229 (238)
T ss_dssp             CCBCTTTCSBCSSCE---ECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCS
T ss_pred             CCcCcchhhHHhCCc---ccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCC
Confidence            578999999987652   3345999999999999998654  89999998765

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=93.19  E-value=0.062  Score=39.92  Aligned_cols=46  Identities=26%  Similarity=0.513  Sum_probs=34.0

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcC----CCCCcccCCc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSH----TNCPLCRSPI  212 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~----~tCP~CR~~l  212 (360)
                      ....|.||.+.   + .+...-.|...||..|+++.|...    =.||.|++..
T Consensus        11 ~~~~C~vC~~~---~-~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~~   60 (66)
T 2lri_C           11 PGARCGVCGDG---T-DVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDV   60 (66)
T ss_dssp             TTCCCTTTSCC---T-TCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTCC
T ss_pred             CCCCcCCCCCC---C-eEEECCCCCCceecccCCCccCcCCCCCEECccccCCC
Confidence            45679999853   3 344555699999999999888653    2599997654

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=91.22  E-value=0.088  Score=41.40  Aligned_cols=35  Identities=17%  Similarity=0.439  Sum_probs=26.1

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHH
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTW  198 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~W  198 (360)
                      ++..|.||++.+.......-+. |+|.|+..|+..|
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~-C~~~~C~~Cl~~~   36 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVT-CEVSYCDECLKAT   36 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETT-TTEEECHHHHHHH
T ss_pred             CCCCCcCCCCCCCCCceEECCc-CChHHhHHHCHHH
Confidence            4568999998754433333465 9999999999984

>1we9_A PHD finger family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2

Probab=85.10  E-value=0.19  Score=36.47  Aligned_cols=49  Identities=22%  Similarity=0.516  Sum_probs=34.9

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHh-----cCCCCCcccCC
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLR-----SHTNCPLCRSP  211 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~-----~~~tCP~CR~~  211 (360)
                      +...|+||...+..+......-.|..-||..|+.--..     ..-.||.|+..
T Consensus         5 e~~~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~k   58 (64)
T 1we9_A            5 SSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             SCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCCCCCCCCccCCCCCEEEccCCCCCCCccccCcChhHhcCCCcEECCCCcCc
Confidence            56789999998865554555556999999999864322     23469999753

>2klu_A T-cell surface glycoprotein CD4; cell membrane, disulfide bond, HOST- virus interaction, immune response, immunoglobulin domain, lipoprotein; NMR {Homo sapiens}

Probab=83.44  E-value=1.1  Score=33.19  Aligned_cols=8  Identities=25%  Similarity=0.509  Sum_probs=4.6

Q ss_pred             CCCCCChh
Q 018110          186 CNHAFHIS  193 (360)
Q Consensus       186 C~H~FH~~  193 (360)
                      |.|.|-+.
T Consensus        59 C~hr~qk~   66 (70)
T 2klu_A           59 SPHRFQKT   66 (70)
T ss_dssp             CCCCCCCC
T ss_pred             CcHHHhhc
Confidence            66666543

>2l2t_A Receptor tyrosine-protein kinase ERBB-4; transmembrane dimer, membrane domain, membrane protei; NMR {Homo sapiens}

Probab=83.03  E-value=2.6  Score=28.77  Aligned_cols=8  Identities=50%  Similarity=0.982  Sum_probs=3.4

Q ss_pred             HHHHhccC
Q 018110          100 KFYLRRRS  107 (360)
Q Consensus       100 ~~~~rRr~  107 (360)
                      .++.|||+
T Consensus        31 ~~~~RRRr   38 (44)
T 2l2t_A           31 AVYVRRKS   38 (44)
T ss_dssp             HHHHHTTC
T ss_pred             HHHhhhhh
Confidence            34444443

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}

Probab=82.42  E-value=0.57  Score=33.88  Aligned_cols=44  Identities=27%  Similarity=0.712  Sum_probs=31.6

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhc----CCCCCcccC
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS----HTNCPLCRS  210 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~----~~tCP~CR~  210 (360)
                      .+..|.||...   + .+...-.|...||..|+..=+..    .-.||.|+.
T Consensus        10 ~~~~C~vC~~~---g-~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~   57 (61)
T 2l5u_A           10 HQDYCEVCQQG---G-EIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEK   57 (61)
T ss_dssp             CCSSCTTTSCC---S-SEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGG
T ss_pred             CCCCCccCCCC---C-cEEECCCCChhhhhhccCCCCCCCCCCceECccccc
Confidence            46789999873   3 44445569999999999985543    235999965

>1mm2_A MI2-beta; PHD, zinc finger, protein scaffold, DNA binding protein; NMR {Homo sapiens} SCOP: g.50.1.2 PDB: 2l75_A* 1mm3_A

Probab=82.42  E-value=0.44  Score=34.47  Aligned_cols=46  Identities=28%  Similarity=0.618  Sum_probs=31.9

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhc----CCCCCcccCCc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS----HTNCPLCRSPI  212 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~----~~tCP~CR~~l  212 (360)
                      .+..|.||.+.   + .+...-.|...||..|+.+-|..    .=.||.|+...
T Consensus         8 ~~~~C~vC~~~---g-~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~   57 (61)
T 1mm2_A            8 HMEFCRVCKDG---G-ELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             SCSSCTTTCCC---S-SCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             CCCcCCCCCCC---C-CEEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCch
Confidence            46779999852   3 34444469999999999865543    22499997654

>3lqh_A Histone-lysine N-methyltransferase MLL; PHD finger, bromodomain, leukemia, apoptosis, chromati regulator, DNA-binding, isopeptide bond; 1.72A {Homo sapiens} PDB: 3lqi_A* 3lqj_A* 2kyu_A

Probab=82.22  E-value=0.49  Score=41.97  Aligned_cols=49  Identities=22%  Similarity=0.504  Sum_probs=35.4

Q ss_pred             CCcccccCCccccCcc---eeecCCCCCCCChhhHHH------HHh-----cCCCCCcccCCc
Q 018110          164 GTECSVCLSEFQEDET---LRLLPKCNHAFHISCIDT------WLR-----SHTNCPLCRSPI  212 (360)
Q Consensus       164 ~~~C~ICl~~~~~~~~---~r~lp~C~H~FH~~CI~~------Wl~-----~~~tCP~CR~~l  212 (360)
                      +..|+||...|..++.   ....-.|..-||..|+.-      -+.     ..-.||.|+..-
T Consensus         2 G~~CpiC~k~Y~~~~~~~~MIqCd~C~~W~H~~Cvgi~~~~~e~~~~~pe~~~y~Cp~C~~~~   64 (183)
T 3lqh_A            2 GNFCPLCDKCYDDDDYESKMMQCGKCDRWVHSKCENLSDEMYEILSNLPESVAYTCVNCTERH   64 (183)
T ss_dssp             CCBCTTTCCBCTTCCTTCCEEECTTTCCEEEGGGSSCCHHHHHHHHHSHHHHCCCCTTTCCSS
T ss_pred             cCcCCCCcCccCCcccCCCeEECCCCCcccchhccccCHHHHHHhhcCCCCCeeECcCCCCCC
Confidence            3569999999988763   555556999999999732      111     156799997753

>2knc_A Integrin alpha-IIB; transmembrane signaling, protein structure, cell A cleavage on PAIR of basic residues, disease mutation, disul bond, glycoprotein; NMR {Homo sapiens}

Probab=81.70  E-value=3.6  Score=29.25  Aligned_cols=26  Identities=8%  Similarity=0.133  Sum_probs=16.0

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHH
Q 018110           76 KFLIITASALATTIVAVLCYVVFVKF  101 (360)
Q Consensus        76 ~ilIiii~iL~~v~llll~~~llv~~  101 (360)
                      ++.||++++++.++++.++..++.++
T Consensus        11 p~wiIi~svl~GLllL~li~~~LwK~   36 (54)
T 2knc_A           11 PIWWVLVGVLGGLLLLTILVLAMWKV   36 (54)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            55666666666666666665555554

>3u5n_A E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, bromodomain, TGF-beta, epigenetics, methylation, K9ME3, K14AC, transcription; HET: M3L ALY; 1.95A {Homo sapiens} PDB: 3u5m_A* 3u5o_A* 3u5p_A*

Probab=80.81  E-value=0.42  Score=42.75  Aligned_cols=46  Identities=30%  Similarity=0.550  Sum_probs=33.8

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcC----CCCCcccCCc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSH----TNCPLCRSPI  212 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~----~tCP~CR~~l  212 (360)
                      .+..|.+|...   + .+.....|...||..|+.+.+...    -.||.|+..-
T Consensus         6 ~~~~C~~C~~~---g-~ll~Cd~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~   55 (207)
T 3u5n_A            6 NEDWCAVCQNG---G-DLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFCRDIG   55 (207)
T ss_dssp             SCSSBTTTCCC---E-EEEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSS
T ss_pred             CCCCCCCCCCC---C-ceEEcCCCCCccCCccCCCCCCCCCCCCEEeCceeCcc
Confidence            45779999853   3 455566799999999998876532    3599997653

>2ks1_B Epidermal growth factor receptor; ERBB1, ERBB2, transmembrane, heterodimer, complex, tyrosine receptor, bicelles, transferase; NMR {Homo sapiens}

Probab=80.13  E-value=1.7  Score=29.62  Aligned_cols=7  Identities=43%  Similarity=1.132  Sum_probs=3.0

Q ss_pred             HHHhccC
Q 018110          101 FYLRRRS  107 (360)
Q Consensus       101 ~~~rRr~  107 (360)
                      ++.|||+
T Consensus        33 ~~~RRr~   39 (44)
T 2ks1_B           33 LFMRRRH   39 (44)
T ss_dssp             HHHHTTT
T ss_pred             HHhhhhH
Confidence            4444443

---

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	360
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	2e-20
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	7e-14
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	7e-11
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	8e-11
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	3e-10
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	2e-09
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	2e-08
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	4e-08
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	2e-07
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	6e-07
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	1e-05
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	3e-05
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	2e-04
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	0.001
d1mm2a_	61	g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens	0.001

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 81.8 bits (202), Expect = 2e-20
 Identities = 27/51 (52%), Positives = 36/51 (70%)

Query: 163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIV 213
           +G EC+VCL+E ++ E  R LP+C H FH  C+D WL SH+ CPLCR  +V
Sbjct: 4   DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV 54

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

 Score = 63.8 bits (155), Expect = 7e-14
 Identities = 17/59 (28%), Positives = 25/59 (42%), Gaps = 3/59 (5%)

Query: 163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKINHAARA 221
               C +CL +            C HAF   CI  W+R +  CPLC+ P+  + H   +
Sbjct: 4   VAERCPICLEDPSNYSMA---LPCLHAFCYVCITRWIRQNPTCPLCKVPVESVVHTIES 59

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 65

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 55.2 bits (132), Expect = 7e-11
 Identities = 16/56 (28%), Positives = 25/56 (44%), Gaps = 2/56 (3%)

Query: 163 EGTECSVCLSEFQEDETLRLLP-KCNHAFHISCIDTWLR-SHTNCPLCRSPIVKIN 216
           +   C  C +    + +L+L+   C H    SC+D        NCP C +P+ K N
Sbjct: 2   DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSN 57

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]} Length = 52

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 54.7 bits (131), Expect = 8e-11
 Identities = 11/48 (22%), Positives = 17/48 (35%), Gaps = 1/48 (2%)

Query: 166 ECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLR-SHTNCPLCRSPI 212
           EC +C+   + D+       C +     C        +  CP CR P 
Sbjct: 2   ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPY 49

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 54.4 bits (130), Expect = 3e-10
 Identities = 15/66 (22%), Positives = 22/66 (33%), Gaps = 14/66 (21%)

Query: 162 VEGTECSVCLSEFQEDETLRLLP--------------KCNHAFHISCIDTWLRSHTNCPL 207
           +    C++C +   +                       CNHAFH  CI  WL++   CPL
Sbjct: 19  IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPL 78

Query: 208 CRSPIV 213
                 
Sbjct: 79  DNREWE 84

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]} Length = 79

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

 Score = 51.9 bits (124), Expect = 2e-09
 Identities = 14/47 (29%), Positives = 22/47 (46%), Gaps = 5/47 (10%)

Query: 167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTN-CPLCRSPI 212
           C +C    ++   +++ P C H    SC+ +W  S    CP CR  I
Sbjct: 26  CKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEI 68

>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 = 48.0 bits (114), Expect = 2e-08
 Identities = 11/47 (23%), Positives = 19/47 (40%), Gaps = 7/47 (14%)

Query: 166 ECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPI 212
            C  C +E +  + L     C H     C++        CP+C++P 
Sbjct: 8   RCQQCQAEAKCPKLL----PCLHTLCSGCLEAS---GMQCPICQAPW 47

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 114

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 48.9 bits (115), Expect = 4e-08
 Identities = 15/76 (19%), Positives = 26/76 (34%), Gaps = 7/76 (9%)

Query: 166 ECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS-----HTNCPLCRSPIVKINHAAR 220
              +  S+      +  L KC+HAFH+ C+     +        CP C++   +      
Sbjct: 41  YSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE--KTGT 98

Query: 221 APPSSSTWESNNEDSG 236
            P        +   SG
Sbjct: 99  QPWGKMEVFRSGPSSG 114

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]} Length = 60

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

 Score = 45.6 bits (107), Expect = 2e-07
 Identities = 12/53 (22%), Positives = 17/53 (32%), Gaps = 3/53 (5%)

Query: 163 EGTECSVCLSEFQEDETLRLLPK-CNHAFHISCIDTWLRSH--TNCPLCRSPI 212
           +   C +C  E   +              H SC+ TWL     T C +C    
Sbjct: 5   DVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVY 57

>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 = 45.1 bits (106), Expect = 6e-07
 Identities = 16/57 (28%), Positives = 26/57 (45%), Gaps = 7/57 (12%)

Query: 159 DGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTN---CPLCRSPI 212
           + + +  EC +CL   +E  +     KC+H F   C+   L        CPLC++ I
Sbjct: 16  NAMQKILECPICLELIKEPVST----KCDHIFCKFCMLKLLNQKKGPSQCPLCKNDI 68

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 40.7 bits (95), Expect = 1e-05
 Identities = 14/53 (26%), Positives = 20/53 (37%), Gaps = 5/53 (9%)

Query: 161 LVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSH-TNCPLCRSPI 212
            V+   C +C     +     +   C H F   CI   L+   + CP CR P 
Sbjct: 20  FVKSISCQICEHILAD----PVETSCKHLFCRICILRCLKVMGSYCPSCRYPC 68

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]} Length = 94

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.1 bits (93), Expect = 3e-05
 Identities = 10/55 (18%), Positives = 19/55 (34%), Gaps = 9/55 (16%)

Query: 165 TECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTN--------CPLCRSP 211
           + C +CL E+  ++   +   C   F   C+  ++             CP    P
Sbjct: 6   SGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAACP 59

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 97

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

 Score = 38.2 bits (88), Expect = 2e-04
 Identities = 15/52 (28%), Positives = 23/52 (44%), Gaps = 5/52 (9%)

Query: 161 LVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPI 212
           L +   CS C +  +E   L     C H F  +C+   +   T CP+C +P 
Sbjct: 19  LEKLLRCSRCTNILREPVCL---GGCEHIFCSNCVSDCI--GTGCPVCYTPA 65

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 34.7 bits (79), Expect = 0.001
 Identities = 8/46 (17%), Positives = 18/46 (39%), Gaps = 3/46 (6%)

Query: 167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPI 212
           C++     +        PK    F  S ++ +++   N P+   P+
Sbjct: 3   CAISGKVPRRPVLS---PKSRTIFEKSLLEQYVKDTGNDPITNEPL 45

>d1mm2a_ g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606]} Length = 61

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Mi2-beta (CHD4)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.5 bits (79), Expect = 0.001
 Identities = 15/52 (28%), Positives = 22/52 (42%), Gaps = 8/52 (15%)

Query: 167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTN----CPLCRSPIVK 214
           C VC    ++   L     C  ++HI C++  L    N    CP C  P +K
Sbjct: 12  CRVC----KDGGELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPALK 59

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	360
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.64
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.41
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.36
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.35
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.35
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.27
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.22
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.05
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	98.99
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.95
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	98.95
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	98.91
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.78
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	98.61
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.57
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.38
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.33
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	90.04
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	86.45
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	84.61
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	83.75

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

Probab=99.64  E-value=3.7e-17  Score=117.69  Aligned_cols=52  Identities=52%  Similarity=1.259  Sum_probs=47.4

Q ss_pred             cCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCcc
Q 018110          162 VEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIV  213 (360)
Q Consensus       162 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~  213 (360)
                      .++.+|+||+++|..++.++.++.|+|.||..||.+||+.+.+||+||++|.
T Consensus         3 ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~   54 (55)
T d1iyma_           3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEeE
Confidence            3567899999999999999888779999999999999999999999999875

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

Probab=99.41  E-value=5.6e-14  Score=104.74  Aligned_cols=49  Identities=37%  Similarity=0.948  Sum_probs=42.9

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      ..++|+||++.|..  .++.++ |||.||..||.+||+.+.+||+||+++..
T Consensus         4 ~~d~C~IC~~~~~~--~~~~~~-C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~~   52 (68)
T d1chca_           4 VAERCPICLEDPSN--YSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCSSCCSCCCS--CEEETT-TTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCCccCCcCccC--CcEEeC-CCCcCcHHHHHHHHHhCCcCCCCCcchHh
Confidence            45789999999864  466777 99999999999999999999999998754

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.36  E-value=4.1e-13  Score=109.21  Aligned_cols=69  Identities=25%  Similarity=0.518  Sum_probs=48.2

Q ss_pred             CCCCHHHHHhhcceEeecCCCCcCCCcccccCCcccc---------------CcceeecCCCCCCCChhhHHHHHhc---
Q 018110          140 VGLQSSVIREIAVLKYKKSDGLVEGTECSVCLSEFQE---------------DETLRLLPKCNHAFHISCIDTWLRS---  201 (360)
Q Consensus       140 ~gl~~~~i~~lp~~~~~~~~~~~~~~~C~ICl~~~~~---------------~~~~r~lp~C~H~FH~~CI~~Wl~~---  201 (360)
                      .+..+.+++++....     ....+++|+||+++|..               ...+++++ |+|+||..||..||+.   
T Consensus         6 s~~pe~v~~~~~e~~-----~~~~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~-CgH~FH~~Ci~~Wl~~~~~   79 (114)
T d1v87a_           6 SGEPEQVIRKYTEEL-----KVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNK   79 (114)
T ss_dssp             SCCHHHHHHHHEEEC-----SSCCSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCC
T ss_pred             CCCCHHHHHHHHHHh-----cccccccccchhheecccccccccccccccccccceEECC-CCChhhHHHHHHHHHhcCc
Confidence            355566666543211     12245789999999854               22355666 9999999999999974   


Q ss_pred             --CCCCCcccCCccc
Q 018110          202 --HTNCPLCRSPIVK  214 (360)
Q Consensus       202 --~~tCP~CR~~l~~  214 (360)
                        +.+||+||+.+..
T Consensus        80 ~~~~~CP~CR~~~~~   94 (114)
T d1v87a_          80 DGSLQCPSCKTIYGE   94 (114)
T ss_dssp             SSCCBCTTTCCBSSS
T ss_pred             CCCCccccccchhcc
Confidence              3479999988754

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.35  E-value=1.2e-13  Score=97.69  Aligned_cols=48  Identities=23%  Similarity=0.535  Sum_probs=40.4

Q ss_pred             cccccCCccccCcce-eecCCCCCCCChhhHHHHHhc-CCCCCcccCCccc
Q 018110          166 ECSVCLSEFQEDETL-RLLPKCNHAFHISCIDTWLRS-HTNCPLCRSPIVK  214 (360)
Q Consensus       166 ~C~ICl~~~~~~~~~-r~lp~C~H~FH~~CI~~Wl~~-~~tCP~CR~~l~~  214 (360)
                      +|+||+++|..++.. +.++ |||.||..||++|++. +.+||+||+++..
T Consensus         2 eCpICl~~~~~~~~~~~~~~-CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           2 ECPLCMEPLEIDDINFFPCT-CGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             EETTTTEECCGGGTTCCSSS-SSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCcCCChhhhCCCceEEecC-CCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            799999999876654 4556 9999999999999986 4569999999854

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.35  E-value=1.7e-13  Score=107.15  Aligned_cols=51  Identities=31%  Similarity=0.661  Sum_probs=42.5

Q ss_pred             CCCcccccCCccccCc---------------ceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDE---------------TLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~---------------~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      .+++|+||++.+....               .+..++ |+|.||..||.+||+.+.+||+||+++..
T Consensus        20 ~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   85 (88)
T d3dplr1          20 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWEF   85 (88)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSBCCE
T ss_pred             CCCcCEEccchhhCccccccccccccccccCCeEEcc-ccCcccHHHHHHHHHHCCcCCCCCCcccc
Confidence            4567999999886532               345666 99999999999999999999999998764

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.27  E-value=1.1e-12  Score=96.85  Aligned_cols=51  Identities=27%  Similarity=0.633  Sum_probs=40.8

Q ss_pred             CCCcccccCCccccCc--ceeecCCCCCCCChhhHHHHHhc-CCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDE--TLRLLPKCNHAFHISCIDTWLRS-HTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~--~~r~lp~C~H~FH~~CI~~Wl~~-~~tCP~CR~~l~~  214 (360)
                      ++..|+||++.+..+.  .+.+++ |||.||..||.+||.. +..||+||+++..
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~   55 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPLRK   55 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCCSS
T ss_pred             CCCCCCcCCceeecCCceEEEeCc-cChHhhHHHHHHHhCcCcCCCCCCCcCccc
Confidence            4678999999875432  345566 9999999999999965 5679999998865

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.22  E-value=5.5e-12  Score=96.55  Aligned_cols=49  Identities=29%  Similarity=0.795  Sum_probs=41.2

Q ss_pred             CCcccccCCccccCcceeecCCCCCCCChhhHHHHHhc-CCCCCcccCCccccC
Q 018110          164 GTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS-HTNCPLCRSPIVKIN  216 (360)
Q Consensus       164 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~-~~tCP~CR~~l~~~~  216 (360)
                      ...|+||++.+..   .+++| |||.||..||..||.. ..+||+||..+....
T Consensus        23 ~~~C~IC~~~~~~---~~~~~-CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~   72 (79)
T d1fbva4          23 FQLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE   72 (79)
T ss_dssp             TTBCTTTSSSBCC---EECSS-SCCEECHHHHHHHHHTTCCSCTTTCCCCCCCC
T ss_pred             CCCCccCCCcCCC---eEEeC-CCCeeeHHHHHHHHHHCcCcCCCCCcCccCCc
Confidence            3579999998754   66788 9999999999999974 578999999997643

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.05  E-value=1.7e-11  Score=87.63  Aligned_cols=47  Identities=19%  Similarity=0.381  Sum_probs=40.2

Q ss_pred             cccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCcccc
Q 018110          166 ECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKI  215 (360)
Q Consensus       166 ~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~~  215 (360)
                      .|+||++.|.+  .+ .++.|||.||..||.+||+.+.+||+||.++...
T Consensus         2 ~C~Ic~~~~~~--Pv-~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~   48 (56)
T d2baya1           2 LCAISGKVPRR--PV-LSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIE   48 (56)
T ss_dssp             CCTTTCSCCSS--EE-EETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGG
T ss_pred             CCccCCchHHh--cC-ccCCCCCcccHHHHHHHHhhccCCCccCCcCCHH
Confidence            59999999864  34 4445999999999999999999999999988753

>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=98.99  E-value=5.1e-11  Score=85.33  Aligned_cols=45  Identities=29%  Similarity=0.725  Sum_probs=37.8

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      +..+|+||++.|.+   .+++| |||.||..||+.|   +.+||+||+++..
T Consensus         5 ~~l~C~IC~~~~~~---p~~lp-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~   49 (56)
T d1bora_           5 QFLRCQQCQAEAKC---PKLLP-CLHTLCSGCLEAS---GMQCPICQAPWPL   49 (56)
T ss_dssp             CCSSCSSSCSSCBC---CSCST-TSCCSBTTTCSSS---SSSCSSCCSSSSC
T ss_pred             CCCCCcccCcccCC---CEEec-CCCHHhHHHHHcC---CCcCcCCCCcccC
Confidence            34689999999865   45677 9999999999876   6689999999875

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

Probab=98.95  E-value=1.5e-10  Score=83.57  Aligned_cols=51  Identities=24%  Similarity=0.469  Sum_probs=37.5

Q ss_pred             CCCcccccCCccccCccee-ecCCCCCCCChhhHHHHHh--cCCCCCcccCCcc
Q 018110          163 EGTECSVCLSEFQEDETLR-LLPKCNHAFHISCIDTWLR--SHTNCPLCRSPIV  213 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r-~lp~C~H~FH~~CI~~Wl~--~~~tCP~CR~~l~  213 (360)
                      +...|.||++++....... ....|+|.||..||..|+.  .+.+||+||+++.
T Consensus         5 d~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           5 DVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             SCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeee
Confidence            5578999999886532221 1112569999999999995  4668999999874

>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=98.95  E-value=1.9e-10  Score=89.40  Aligned_cols=47  Identities=28%  Similarity=0.615  Sum_probs=39.6

Q ss_pred             CcccccCCccccCcceeecCCCCCCCChhhHHHHHhc-CCCCCcccCCcccc
Q 018110          165 TECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS-HTNCPLCRSPIVKI  215 (360)
Q Consensus       165 ~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~-~~tCP~CR~~l~~~  215 (360)
                      ..|+||++.|.+   ..+++ |||.||..||..|++. +.+||+||.++...
T Consensus        24 l~C~IC~~~~~~---pv~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~   71 (86)
T d1rmda2          24 ISCQICEHILAD---PVETS-CKHLFCRICILRCLKVMGSYCPSCRYPCFPT   71 (86)
T ss_dssp             TBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             cCCccCCcchhc---ceecC-CCChhhHHHHHHHHhhCCCcCcccCCCCChh
Confidence            569999999865   45677 9999999999999975 56799999988653

>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=98.91  E-value=3.2e-10  Score=90.32  Aligned_cols=47  Identities=34%  Similarity=0.753  Sum_probs=38.5

Q ss_pred             CCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcC---CCCCcccCCccc
Q 018110          164 GTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSH---TNCPLCRSPIVK  214 (360)
Q Consensus       164 ~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~---~tCP~CR~~l~~  214 (360)
                      ...|+||++.|.+.   ..++ |||.||..||..|++..   ..||+||.++..
T Consensus        21 ~l~CpIC~~~~~~p---v~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   70 (103)
T d1jm7a_          21 ILECPICLELIKEP---VSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK   70 (103)
T ss_dssp             HTSCSSSCCCCSSC---CBCT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCT
T ss_pred             CcCCCccCchhCCe---EEcC-CCCchhhHHHHHHHHHCCCCCcCcCCCCcCCh
Confidence            35799999998753   3467 99999999999999764   379999998753

>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=98.78  E-value=7.3e-10  Score=87.29  Aligned_cols=47  Identities=30%  Similarity=0.682  Sum_probs=37.7

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      +...|+||++.|..  .+...+ |||.||..||..|+.  ..||+||.++..
T Consensus        21 ~~l~C~IC~~~~~~--pv~~~~-CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~   67 (97)
T d1jm7b_          21 KLLRCSRCTNILRE--PVCLGG-CEHIFCSNCVSDCIG--TGCPVCYTPAWI   67 (97)
T ss_dssp             HTTSCSSSCSCCSS--CBCCCS-SSCCBCTTTGGGGTT--TBCSSSCCBCSC
T ss_pred             hcCCCccCCchhhc--CceeCC-CCCchhHHHHHHHHh--ccccccCCcCch
Confidence            34689999999975  344445 999999999999985  459999988753

>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=98.61  E-value=1.4e-08  Score=76.91  Aligned_cols=49  Identities=16%  Similarity=0.266  Sum_probs=40.8

Q ss_pred             cCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhc-CCCCCcccCCccc
Q 018110          162 VEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS-HTNCPLCRSPIVK  214 (360)
Q Consensus       162 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~-~~tCP~CR~~l~~  214 (360)
                      .++..|+||++.|.+  .+ +++ |||.|+..||..||.. +.+||+||.++..
T Consensus         5 P~~l~CpIc~~l~~d--Pv-~~~-cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~   54 (80)
T d2c2la2           5 PDYLCGKISFELMRE--PC-ITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQ   54 (80)
T ss_dssp             CSTTBCTTTCSBCSS--EE-ECS-SCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             CccccCcCcCchhhh--hc-ccC-CcCeecHHHHHHHHhcCCccCCCccccccc
Confidence            356789999999976  34 577 9999999999999975 5679999998754

>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=98.57  E-value=1.8e-08  Score=75.98  Aligned_cols=49  Identities=18%  Similarity=0.542  Sum_probs=40.8

Q ss_pred             cCCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcC-CCCCcccCCccc
Q 018110          162 VEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSH-TNCPLCRSPIVK  214 (360)
Q Consensus       162 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~-~tCP~CR~~l~~  214 (360)
                      .++..|+||++.|.+  .+ +++ |||.|+..||..|+..+ ..||.|+.++..
T Consensus         6 P~~l~CpIc~~~m~d--PV-~~~-cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~   55 (78)
T d1t1ha_           6 PEYFRCPISLELMKD--PV-IVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLH   55 (78)
T ss_dssp             SSSSSCTTTSCCCSS--EE-EET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSS
T ss_pred             CccCCCcCcCchhhC--ce-Ecc-CCCcchHHHHHHHHHHCCCCCCcccccCCc
Confidence            356889999999976  34 567 99999999999999764 579999998754

>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=98.38  E-value=1.1e-07  Score=75.00  Aligned_cols=49  Identities=20%  Similarity=0.212  Sum_probs=40.9

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhcCCCCCcccCCccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVK  214 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~tCP~CR~~l~~  214 (360)
                      ++..|+||++.|.+   .++++.|+|.|+..||..||..+.+||+||.++..
T Consensus        21 ~~f~CPI~~~lm~d---PV~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~   69 (98)
T d1wgma_          21 DEFLDPIMSTLMCD---PVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTM   69 (98)
T ss_dssp             TTTBCTTTCSBCSS---EEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCT
T ss_pred             HHhCCcCchhHHHH---HHhcccccchhhHHHHHHHHHhcCCcccccccccc
Confidence            46899999999976   34666355689999999999999999999998754

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.33  E-value=7.3e-08  Score=74.77  Aligned_cols=46  Identities=20%  Similarity=0.619  Sum_probs=37.1

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhc-----C---CCCCccc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS-----H---TNCPLCR  209 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~-----~---~tCP~CR  209 (360)
                      ...+|+||++++...+.++.++ |+|.||..||..|++.     .   -.||.|+
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~-C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~   57 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAA   57 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETT-TTEEEEHHHHHHHHHHHHHHCSCCCEECSCTT
T ss_pred             CCCcCccCCCcccCCceEEECC-CCCEeCCcCHHHHHHHHHhcCCccccCCcCCC
Confidence            4578999999998777676666 9999999999999952     1   2599864

>d1f62a_ g.50.1.2 (A:) Williams-Beuren syndrome transcription factor, WSTF {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Williams-Beuren syndrome transcription factor, WSTF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.04  E-value=0.052  Score=36.11  Aligned_cols=44  Identities=36%  Similarity=0.825  Sum_probs=31.3

Q ss_pred             cccccCCccccCcceeecCCCCCCCChhhHHHHHhcCC----CCCcccC
Q 018110          166 ECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHT----NCPLCRS  210 (360)
Q Consensus       166 ~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~----tCP~CR~  210 (360)
                      .|.||...-..+ .+..-..|...||..|++.-+....    .||.||.
T Consensus         2 ~C~vC~~~~~~~-~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGEDD-KLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCS-CCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCCCC-CEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            488997664433 4445557999999999998765322    4999974

>d1wila_ g.50.1.3 (A:) Hypothetical protein KIAA1045 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: variant PHD-like domain
domain: Hypothetical protein KIAA1045
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.45  E-value=0.26  Score=36.38  Aligned_cols=39  Identities=21%  Similarity=0.566  Sum_probs=28.1

Q ss_pred             CCCCcCCCcccccCCccccCcceeecCCCCCCCChhhHHHH
Q 018110          158 SDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTW  198 (360)
Q Consensus       158 ~~~~~~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~W  198 (360)
                      .+....+..|.|| +.|...+.. ...-|+-+||..|+.+-
T Consensus         9 re~v~~D~mC~vC-~v~t~~~l~-pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_           9 REPVVNDEMCDVC-EVWTAESLF-PCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCCCCSCCCTTT-CCCCSSCCS-SCSSSSSCCCHHHHHHH
T ss_pred             ccCCCcCcccccc-Cccccccee-cceeecchhhHHHHHHh
Confidence            3444567899999 677665544 22248999999999986

>d1mm2a_ g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Mi2-beta (CHD4)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.61  E-value=0.15  Score=35.15  Aligned_cols=47  Identities=28%  Similarity=0.617  Sum_probs=32.6

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHHhc----CCCCCcccCCcc
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS----HTNCPLCRSPIV  213 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl~~----~~tCP~CR~~l~  213 (360)
                      .+..|.||.+.   + .+...-.|.-.||..||...+..    .-.||.|+....
T Consensus         8 ~~~~C~~C~~~---g-~lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~~~   58 (61)
T d1mm2a_           8 HMEFCRVCKDG---G-ELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPAL   58 (61)
T ss_dssp             SCSSCTTTCCC---S-SCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTCC
T ss_pred             CcCCCcCCCCC---C-eEEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCccc
Confidence            44679999853   3 34444569999999999876643    235999976543

>d1we9a_ g.50.1.2 (A:) PHD finger protein At5g26210 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At5g26210
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=83.75  E-value=0.24  Score=34.24  Aligned_cols=49  Identities=22%  Similarity=0.523  Sum_probs=35.9

Q ss_pred             CCCcccccCCccccCcceeecCCCCCCCChhhHHHHH---h--cCCCCCcccCC
Q 018110          163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWL---R--SHTNCPLCRSP  211 (360)
Q Consensus       163 ~~~~C~ICl~~~~~~~~~r~lp~C~H~FH~~CI~~Wl---~--~~~tCP~CR~~  211 (360)
                      ....|.||...+..++.....-.|+..||..|+..=.   .  ..-.||.|+..
T Consensus         5 ~~~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~~   58 (64)
T d1we9a_           5 SSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             SCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCcCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcCc
Confidence            4578999999887766655666799999999986321   1  23469999754