Citrus Sinensis ID: 017405

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370--
Protein Sequence
MRMNPPADAAETSPLLAHSLPDHLIRSRRLLRRPPPPLRGAAARLLRRASGRRLMLREPSVRVRETAAEQLEERQSYWAYSRPIIVLDVLWNLVFVIVAFAVLGVSINEKPEVPLRLRIVGYALQCLFHVFCVSLEFKRRRRGEGVVFGDSVSGSSSTTVTGDEEERFHGENDSSVAKNLESANTFLSFLWWIVGFYWITASGETLISCSPQLYWLCVTFLAFDVVFVMICVGVACLIGIAVCCCLPCILGILYALTEREGATEEEIDRLPKFKFSRIDGLEKVNGEIQEPFGGIMIECDTDMPMEHVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMSNERGSEEV
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHccccccccEEEEHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccHHHHHcccccHHHHHHHHHHHHHHHHHHHHHEEEEEEcccccccccccccccEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEccccccccccHHHHHHccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHEEEEEHHHHHHEEHHHEHHHHHHHcccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHcHEEEEccccccHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHcccEEEEEEcccccccccccccccccEEEcccccccEEcccccccEEEEEEEEcccccEEcEccccccHcHHHHHHHHHHcccccHcHHHHcccccccccccc
Coil and Loop (DISEMBL)
mrmnppadaaetspllahslpdhlirsrrllrrpppplRGAAARLLRRASGrrlmlrepsvRVRETAAEQLEERQsywaysrpiIVLDVLWNLVFVIVAFAVLGvsinekpevplRLRIVGYALQCLFHVFCVslefkrrrrgegvvfgdsvsgsssttvtgdeeerfhgendssVAKNLESANTFLSFLWWIVGFYWITAsgetliscspqLYWLCVTFLAFDVVFVMICVGVACLIGIAVCCCLPCILGILYAlteregateeeidrlpkfkfsridglekvngeiqepfggimiecdtdmpmehviseddaecciclsayddgtelrelpclhhfhcscldkwlyinstcplckfnilkmsnergseev
Flexible Loop (DISEMBL)
mrmnppadaaetspllahSLPDHLIrsrrllrrpppplrgAAARLlrrasgrrlmlrepsvrvrETAAEQLeerqsywaysRPIIVLDVLWNLVFVIVAFAVLGVSINEKPEVPLRLRIVGYALQCLFHVFCVSLEFKRRRRGegvvfgdsvsgsssttvtgdeeerfhgendssVAKNLESANTFLSFLWWIVGFYWITASGETLISCSPQLYWLCVTFLAFDVVFVMICVGVACLIGIAVCCCLPCILGILYALTEREGATeeeidrlpkfkfsridglekvngeiqepfGGIMIECDTDMPMEHVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILkmsnergseev
Low Complexity Region (SEG)
MRMNPPADAAETSPLLAHSLPDHLIrsrrllrrpppplrgaaarllrrasgrrlmlrEPSVRVRETAAEQLEERQSYWAYSRPIIVLDVLWNLVFVIVAFAVLGVSINEKPEVPLRLRIVGYALQCLFHVFCVSLEFKRRRRgegvvfgdsvsgsssttvtgdeeeRFHGENDSSVAKNLESANTFLSFLWWIVGFYWITASGETLISCSPQLYWLCVTFLAFDVVFVMICVGVACLIGIAVCCCLPCILGILYALTEREGATEEEIDRLPKFKFSRIDGLEKVNGEIQEPFGGIMIECDTDMPMEHVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMSNERGSEEV
Disordered region (IsUnstruct)
**************************************************************************QSYWAYSRPIIVLDVLWNLVFVIVAFAVLGVSINEKPEVPLRLRIVGYALQCLFHVFCVSLEFKRRRRGEGVVF**********************************ANTFLSFLWWIVGFYWITASGETLISCSPQLYWLCVTFLAFDVVFVMICVGVACLIGIAVCCCLPCILGILYALTEREGATEEEIDRLPKFKFSRIDGLEKVNGEIQEPFGGIMIECDTDMPMEHVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILK**********
Disordered Region (DISOPRED)
*****************************************************************************WAYSRPIIVLDVLWNLVFVIVAFAVLGVSINEKPEVPLRLRIVGYALQCLFHVFCVSLEFK************************************SVAKNLESANTFLSFLWWIVGFYWITASGETLISCSPQLYWLCVTFLAFDVVFVMICVGVACLIGIAVCCCLPCILGILYALT**********DRLPKFKFSR*********************************EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLC****************
Disordered Region (DISEMBL)
***********TSPLLAHSLPDHLIRSRRLLRRPPPPLRGAAARLLRRASGRRLMLREPSVRVRETAAEQLEERQSYWAYSRPIIVLDVLWNLVFVIVAFAVLGVSINEKPEVPLRLRIVGYALQCLFHVFCVSLEFKRRRRGEGVVFG**************************VAKNLESANTFLSFLWWIVGFYWITASGETLISCSPQLYWLCVTFLAFDVVFVMICVGVACLIGIAVCCCLPCILGILYALTEREGATEEEIDRLPKFKFSRIDGLEKVNGEIQEPFGGIMIECDTDMPMEHVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMSNERGSEEV
Disordered Region (DISPRO)
****************************************************RLMLREPSVRVRETAAEQLEERQSYWAYSRPIIVLDVLWNLVFVIVAFAVLGVSINEKPEVPLRLRIVGYALQCLFHVFCVSLEFKRRRR*****************************NDSSVAKNLESANTFLSFLWWIVGFYWITASGETLISCSPQLYWLCVTFLAFDVVFVMICVGVACLIGIAVCCCLPCILGILYALTEREGATEEEIDRLPKFKFSRIDGL************GIMIECDTDMPMEHVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILK**********
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooHHHHHHHHHHHHHHHHHHiiiiiiHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHooooooooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHoooooooooooooHHHHHHHHHHHHHHHHHHHiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHoooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHoooooooooooHHHHHHHHHHHHHHHHHHHHiiiiHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MRMNPPADAAETSPLLAHSLPDHLIRSRRLLRRPPPPLRGAAARLLRRASGRRLMLREPSVRVRETAAEQLEERQSYWAYSRPIIVLDVLWNLVFVIVAFAVLGVSINEKPEVPLRLRIVGYALQCLFHVFCVSLEFKRRRRGEGVVFGDSVSGSSSTTVTGDEEERFHGENDSSVAKNLESANTFLSFLWWIVGFYWITASGETLISCSPQLYWLCVTFLAFDVVFVMICVGVACLIGIAVCCCLPCILGILYALTEREGATEEEIDRLPKFKFSRIDGLEKVNGEIQEPFGGIMIECDTDMPMEHVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMSNERGSEEV
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	372	2.2.26 [Sep-21-2011]
Q93Z92	390	E3 ubiquitin-protein liga	no	no	0.927	0.884	0.547	1e-102
Q9LN71	408	E3 ubiquitin-protein liga	no	no	0.897	0.818	0.545	9e-99
Q8LDB8	381	E3 ubiquitin-protein liga	no	no	0.889	0.868	0.568	8e-97
Q8GUU2	359	E3 ubiquitin protein liga	no	no	0.857	0.888	0.435	1e-74
Q641J8	622	E3 ubiquitin-protein liga	N/A	no	0.147	0.088	0.473	1e-11
Q9WTV7	600	E3 ubiquitin-protein liga	yes	no	0.147	0.091	0.456	2e-11
Q9M0R5	345	Putative RING-H2 finger p	no	no	0.306	0.330	0.294	2e-11
Q7T037	757	E3 ubiquitin-protein liga	N/A	no	0.147	0.072	0.456	2e-11
Q9NVW2	624	E3 ubiquitin-protein liga	yes	no	0.190	0.113	0.369	3e-11
Q07G42	639	E3 ubiquitin-protein liga	yes	no	0.147	0.086	0.456	3e-11

>sp|Q93Z92|RING4_ARATH E3 ubiquitin-protein ligase At4g11680 OS=Arabidopsis thaliana GN=At4g11680 PE=2 SV=1

 Score =  373 bits (958), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 200/365 (54%), Positives = 259/365 (70%), Gaps = 20/365 (5%)

Query: 6   PADAAETSPLLAHSLPDHLIRSRRLLRRPPPPLRGAAARLLRRASGRRLMLREPSVRVRE 65
           P     T  +   S P H    R+ LR         AAR LR A  RR+M REPS+ VRE
Sbjct: 40  PPTVTRTISVDEESNPIHRSARRQGLRE--------AARFLRHAGSRRMM-REPSMLVRE 90

Query: 66  TAAEQLEERQSYWAYSRPIIVLDVLWNLVFVIVAFAVLGVSINEKPEVPLRLRIVGYALQ 125
           TAAEQLEERQS WAYS+P++ LD+LWNL FV +  AVL +S +EKP +PLR+ +VGY +Q
Sbjct: 91  TAAEQLEERQSDWAYSKPVVFLDILWNLAFVAIGVAVLILSRDEKPNMPLRVWVVGYGIQ 150

Query: 126 CLFHVFCVSLEFKRRRRG----EGVVFGDSVSGSSSTTVTGDEEERFHGENDSSVAKNLE 181
           C  H+ CV +E++RRRR     +G   G + S S         E+R  GE  S+ AK+LE
Sbjct: 151 CWLHMACVCVEYRRRRRRRHPEDGGGSGLTNSSSQQYVSLAQLEDR--GET-SNPAKHLE 207

Query: 182 SANTFLSFLWWIVGFYWITASGETLISCSPQLYWLCVTFLAFDVVFVMICVGVACLIGIA 241
           SANT  SF+WWI+GFYW++A G+TL S SPQLYWLC+ FL FDV FV+ CV +AC+IG+A
Sbjct: 208 SANTMFSFIWWIIGFYWVSAGGQTLSSDSPQLYWLCIIFLGFDVFFVVFCVALACVIGLA 267

Query: 242 VCCCLPCILGILYALTEREGATEEEIDRLPKFKFSRIDGLEKVNGEIQEPFGGIMIECDT 301
           VCCCLPCI+ ILYA+ ++EGA++ +ID++PKF+F++   +EK++G+ +    GIM EC T
Sbjct: 268 VCCCLPCIIAILYAVADQEGASKNDIDQMPKFRFTKTGNVEKLSGKAR----GIMTECGT 323

Query: 302 DMPMEHVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNIL 361
           D P+E  +S +DAECCICL  Y+DG ELRELPC HHFHC+C+DKWL+INS CPLCKFNIL
Sbjct: 324 DSPIERSLSPEDAECCICLCEYEDGVELRELPCNHHFHCTCIDKWLHINSRCPLCKFNIL 383

Query: 362 KMSNE 366
           K +N 
Sbjct: 384 KNANN 388

Mediates E2-dependent protein ubiquitination in vitro.
Arabidopsis thaliana (taxid: 3702)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q9LN71|RING1_ARATH E3 ubiquitin-protein ligase At1g12760 OS=Arabidopsis thaliana GN=At1g12760 PE=2 SV=1

 Score =  360 bits (924), Expect = 9e-99,   Method: Compositional matrix adjust.
 Identities = 196/359 (54%), Positives = 250/359 (69%), Gaps = 25/359 (6%)

Query: 28  RRLLRRPPPPLRGAAARLLRRASGRRLMLREPSVRVRETAAEQLEERQSYWAYSRPIIVL 87
           RR +RR    LR  AAR L RAS  R+M REPS+ VRE AAEQLEERQS WAYS+P++VL
Sbjct: 48  RRSVRRQG--LR-EAARFLSRASSGRVM-REPSMLVREAAAEQLEERQSDWAYSKPVVVL 103

Query: 88  DVLWNLVFVIVAFAVLGVSINEKPEVPLRLRIVGYALQCLFHVFCVSLEFKRRRRGEGVV 147
           D++WNL FV VA A+L +S  E P +PLR+ ++GYALQC+ H+ CV +E++RR R     
Sbjct: 104 DIVWNLAFVSVATAILVMSRKEHPIMPLRVWLLGYALQCVLHMVCVCVEYRRRNRRRTNR 163

Query: 148 --------------------FGDSVSGSSSTTVTGDEEERFHGENDSSVAKNLESANTFL 187
                                 +   GS   +   D          SSVAK+LESANT  
Sbjct: 164 TTTTTPPRSRSSSSSSSSSSLEEEALGSRRNSGVQDLSLGHLDTESSSVAKHLESANTMF 223

Query: 188 SFLWWIVGFYWITASGETLISCSPQLYWLCVTFLAFDVVFVMICVGVACLIGIAVCCCLP 247
           SF+WWI+GFYW++A G+ L   SP++YWL + FL FDV FV+ CV +AC+IGIAVCCCLP
Sbjct: 224 SFIWWIIGFYWVSAGGQELAQESPRIYWLSIVFLGFDVFFVVFCVALACVIGIAVCCCLP 283

Query: 248 CILGILYALTEREGATEEEIDRLPKFKFSRI-DGLEKVNGEIQEPFGGIMIECDTDMPME 306
           CI+ +LYA+ ++EGA++E+I++L KFKF ++ D  +  N E Q    GIM EC TD P+E
Sbjct: 284 CIIAVLYAVADQEGASKEDIEQLTKFKFRKLGDANKHTNDEAQGTTEGIMTECGTDSPIE 343

Query: 307 HVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMSN 365
           H + ++DAECCICLSAY+DGTELRELPC HHFHCSC+DKWLYIN+TCPLCK+NILK SN
Sbjct: 344 HTLLQEDAECCICLSAYEDGTELRELPCGHHFHCSCVDKWLYINATCPLCKYNILKSSN 402

Mediates E2-dependent protein ubiquitination in vitro.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q8LDB8|RING2_ARATH E3 ubiquitin-protein ligase At1g63170 OS=Arabidopsis thaliana GN=At1g63170 PE=2 SV=2

 Score =  353 bits (907), Expect = 8e-97,   Method: Compositional matrix adjust.
 Identities = 199/350 (56%), Positives = 255/350 (72%), Gaps = 19/350 (5%)

Query: 42  AARLLRRASGRRLMLREPSVRVRETAAEQLEERQSYWAYSRPIIVLDVLWNLVFVIVAFA 101
           AARLLR AS  R+M+REPS+ VRE AAEQLEERQS WAYS+P++VLD +WNL FV+VA A
Sbjct: 32  AARLLRHASSGRMMMREPSMLVREAAAEQLEERQSDWAYSKPVVVLDFVWNLAFVVVATA 91

Query: 102 VLGVSINEKPEVPLRLRIVGYALQCLFHVFCVSLEFKRRRRGEGVVFGDSVSGSSSTTVT 161
           VL +S +E P +PLR+ I+GY LQC+ H+ CV +E++RR            S SSS++ +
Sbjct: 92  VLVLSSDENPNMPLRVWIIGYGLQCMMHMVCVCVEYRRRNSRRRRDLSPRSSSSSSSSSS 151

Query: 162 GDEEERFHG---------------EN-DSSVAKNLESANTFLSFLWWIVGFYWITASGET 205
             +EE   G               EN ++S AK+LESANT +SF+WW++GFYW+++ G+ 
Sbjct: 152 SMDEEEGLGLSRNSDERYLELGQLENENNSFAKHLESANTMISFIWWVIGFYWVSSGGQE 211

Query: 206 LISCSPQLYWLCVTFLAFDVVFVMICVGVACLIGIAVCCCLPCILGILYALTEREGATEE 265
           L   SPQLYWLC+ FL FDV FV+ CV +AC+IGIAVCCCLPCI+ +LYA+ E+EGA++E
Sbjct: 212 LAQGSPQLYWLCIVFLGFDVFFVVFCVALACVIGIAVCCCLPCIIAVLYAVAEQEGASKE 271

Query: 266 EIDRLPKFKFSRIDGLEK--VNGEI-QEPFGGIMIECDTDMPMEHVISEDDAECCICLSA 322
           +ID+L KFKF ++    K  V+ E  Q   GG+M EC TD P+EH +  +DAECCICLSA
Sbjct: 272 DIDQLTKFKFRKVGDTMKHTVDEEQGQGDSGGVMTECGTDSPVEHALPHEDAECCICLSA 331

Query: 323 YDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMSNERGSEEV 372
           Y+D TELRELPC HHFHC C+DKWLYIN+TCPLCK+NILK SN    EEV
Sbjct: 332 YEDETELRELPCGHHFHCGCVDKWLYINATCPLCKYNILKSSNYEEGEEV 381

Mediates E2-dependent protein ubiquitination.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q8GUU2|RIE1_ARATH E3 ubiquitin protein ligase RIE1 OS=Arabidopsis thaliana GN=RIE1 PE=2 SV=1

 Score =  280 bits (717), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 144/331 (43%), Positives = 196/331 (59%), Gaps = 12/331 (3%)

Query: 41  AAARLLRRASGRRLMLREPSVRVRETAAEQLEERQSYWAYSRPIIVLDVLWNLVFVIVAF 100
           A A LL R +G R     PS+ VRETAA  LEER+  W YS+P++  D+LWN   V+ + 
Sbjct: 38  ALAVLLGRITGHR----APSMLVRETAARALEERRIDWGYSKPVVAADILWNAALVLASA 93

Query: 101 AVLGVSINEKPEVPLRLRIVGYALQCLFHVFCVSLEFKRRRRGEGVVFGDSVSGSSSTTV 160
            +L  ++ E+P  P+R+ I  Y LQCLFHV  V  E+ RR         +S         
Sbjct: 94  VMLVGTVEERPNEPIRVWICVYGLQCLFHVVLVWSEYWRRNSTRRARDLESYDHEDYNIE 153

Query: 161 TGDEEERFHGENDSSVAKNLESANTFLSFLWWIVGFYWITASGETLISCSPQLYWLCVTF 220
              E++        S  K  ES NT +SF+WWI+GFYW+   G+ L+  +P LYWL V F
Sbjct: 154 YDYEQDSDDNSTTYSFVKRCESINTVISFIWWIIGFYWVVEGGDKLLGEAPNLYWLSVIF 213

Query: 221 LAFDVVFVMICVGVACLIGIAVCCCLPCILGILYALTEREGATEEEIDRLPKFKFSRIDG 280
           LA DV F + CV +ACL+GIA+CCCLPCI+ +LYA+   EG +E E+  LP +KF     
Sbjct: 214 LAIDVFFAVFCVVLACLVGIALCCCLPCIIALLYAVAGTEGVSEAELGVLPLYKFKAFHS 273

Query: 281 LEKVNGEIQEPFGGIMIECDTD---MPMEHVISEDDAECCICLSAYDDGTELRELPCLHH 337
            EK    I  P  G M+    +   +  E  +  +DA+CCICLS+Y+DG EL  LPC HH
Sbjct: 274 NEK---NITGP--GKMVPIPINGLCLATERTLLAEDADCCICLSSYEDGAELHALPCNHH 328

Query: 338 FHCSCLDKWLYINSTCPLCKFNILKMSNERG 368
           FH +C+ KWL + +TCPLCK+NILK + ++ 
Sbjct: 329 FHSTCIVKWLKMRATCPLCKYNILKGTTDQS 359

Probable E3 ubiquitin-protein ligase required for embryo development.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q641J8|RF12A_XENLA E3 ubiquitin-protein ligase RNF12-A OS=Xenopus laevis GN=rnf12-a PE=1 SV=1

 Score = 71.2 bits (173), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 27/57 (47%), Positives = 40/57 (70%), Gaps = 2/57 (3%)

Query: 311 EDDA--ECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMSN 365
           E+DA   C +C++ Y +G +LR+LPC H +H  C+D+WL  NSTCP+C+  +L  SN
Sbjct: 561 ENDALKTCSVCITEYTEGNKLRKLPCSHEYHIHCIDRWLSENSTCPICRRAVLVASN 617

Acts as a E3 ubiquitin-protein ligase specific for ldb1, mediating ubiquitination and proteasome-dependent degradation of excess ldb1 in a RING-dependent manner. Does not degrade ldb1 bound to lhx1/lim1, nor lim1 itself and thus contributes to the establishment of proper ldb1-lhx1/lim1 stoichiometry and the formation of a ldb1-lhx1/lim1 complex. Interferes with Spemann organizer function and suppresses secondary axis formation induced by ldb1 and lhx1/lim1.

Xenopus laevis (taxid: 8355)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9WTV7|RNF12_MOUSE E3 ubiquitin-protein ligase RLIM OS=Mus musculus GN=Rlim PE=1 SV=2

 Score = 70.5 bits (171), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 26/57 (45%), Positives = 39/57 (68%), Gaps = 2/57 (3%)

Query: 311 EDDA--ECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMSN 365
           E+DA   C +C++ Y +G +LR+LPC H +H  C+D+WL  NSTCP+C+  +L   N
Sbjct: 539 ENDALKTCSVCITEYTEGNKLRKLPCSHEYHVHCIDRWLSENSTCPICRRAVLSSGN 595

E3 ubiquitin-protein ligase. Acts as a negative coregulator for LIM homeodomain transcription factors by mediating the ubiquitination and subsequent degradation of LIM cofactors LDB1 and LDB2 and by mediating the recruitment the SIN3a/histone deacetylase corepressor complex. Ubiquitination and degradation of LIM cofactors LDB1 and LDB2 allows DNA-bound LIM homeodomain transcription factors to interact with other protein partners such as RLIM. Plays a role in telomere length-mediated growth suppression by mediating the ubiquitination and degradation of TERF1. Acts as an activator of random inactivation of X chromosome in the embryo, a stochastic process in which one X chromosome is inactivated to minimize sex-related dosage differences of X-encoded genes in somatic cells of female placental mammals.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9M0R5|ATL36_ARATH Putative RING-H2 finger protein ATL36 OS=Arabidopsis thaliana GN=ATL36 PE=3 SV=1

 Score = 70.5 bits (171), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 45/153 (29%), Positives = 70/153 (45%), Gaps = 39/153 (25%)

Query: 219 TFLAFDVVFVMICVGVACLIGIAVCCCLPCIL----------GILYALTEREGATEEEID 268
           T L+ D +  ++ + +   +G+ V CCL CI            +L++   R G  +E I+
Sbjct: 44  TNLSADSIIAIVVLAIFISLGM-VSCCLHCIFYREEIGAAGQDVLHSRARR-GLEKEVIE 101

Query: 269 RLPKFKFSRIDGLEKVNGEIQEPFGGIMIECDTDMPMEHVISEDDAECCICLSAYDDGTE 328
             P F +S + GL+                          I +   EC ICLS ++D   
Sbjct: 102 SFPTFLYSEVKGLK--------------------------IGKGGVECAICLSEFEDQET 135

Query: 329 LRELP-CLHHFHCSCLDKWLYINSTCPLCKFNI 360
           LR +P C H FH +C+D WL   STCP+C+ N+
Sbjct: 136 LRWMPPCSHTFHANCIDVWLSSWSTCPVCRANL 168

Arabidopsis thaliana (taxid: 3702)

>sp|Q7T037|RF12B_XENLA E3 ubiquitin-protein ligase RNF12-B OS=Xenopus laevis GN=rnf12-b PE=2 SV=1

 Score = 70.1 bits (170), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 26/57 (45%), Positives = 39/57 (68%), Gaps = 2/57 (3%)

Query: 311 EDDA--ECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMSN 365
           E+DA   C +C++ Y +G +LR+LPC H +H  C+D+WL  NSTCP+C+  +L   N
Sbjct: 696 ENDALKTCSVCITEYTEGNKLRKLPCSHEYHIHCIDRWLSENSTCPICRRAVLVAGN 752

Acts as a E3 ubiquitin-protein ligase specific for ldb1, mediating ubiquitination and proteasome-dependent degradation of excess ldb1 in a RING-dependent manner. Does not degrade ldb1 bound to lhx1/lim1, nor lim1 itself and thus contributes to the establishment of proper ldb1-lhx1/lim1 stoichiometry and the formation of a ldb1-lhx1/lim1 complex. Interferes with Spemann organizer function and suppresses secondary axis formation induced by ldb1 and lhx1/lim1.

Xenopus laevis (taxid: 8355)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9NVW2|RNF12_HUMAN E3 ubiquitin-protein ligase RLIM OS=Homo sapiens GN=RLIM PE=1 SV=3

 Score = 70.1 bits (170), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 31/84 (36%), Positives = 47/84 (55%), Gaps = 13/84 (15%)

Query: 295 IMIECDTDMP----MEHV-------ISEDDA--ECCICLSAYDDGTELRELPCLHHFHCS 341
           ++ E D D P     E +         E+DA   C +C++ Y +G +LR+LPC H +H  
Sbjct: 536 LLNEDDDDQPRGLTKEQIDNLAMRSFGENDALKTCSVCITEYTEGNKLRKLPCSHEYHVH 595

Query: 342 CLDKWLYINSTCPLCKFNILKMSN 365
           C+D+WL  NSTCP+C+  +L   N
Sbjct: 596 CIDRWLSENSTCPICRRAVLASGN 619

E3 ubiquitin-protein ligase. Acts as a negative coregulator for LIM homeodomain transcription factors by mediating the ubiquitination and subsequent degradation of LIM cofactors LDB1 and LDB2 and by mediating the recruitment the SIN3a/histone deacetylase corepressor complex. Ubiquitination and degradation of LIM cofactors LDB1 and LDB2 allows DNA-bound LIM homeodomain transcription factors to interact with other protein partners such as RLIM. Plays a role in telomere length-mediated growth suppression by mediating the ubiquitination and degradation of TERF1. Acts as an activator of random inactivation of X chromosome in the embryo, a stochastic process in which one X chromosome is inactivated to minimize sex-related dosage differences of X-encoded genes in somatic cells of female placental mammals.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q07G42|RNF12_XENTR E3 ubiquitin-protein ligase RNF12 OS=Xenopus tropicalis GN=rnf12 PE=2 SV=1

 Score = 69.7 bits (169), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 26/57 (45%), Positives = 39/57 (68%), Gaps = 2/57 (3%)

Query: 311 EDDA--ECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMSN 365
           E+DA   C +C++ Y +G +LR+LPC H +H  C+D+WL  NSTCP+C+  +L   N
Sbjct: 578 ENDALKTCSVCITEYTEGNKLRKLPCSHEYHVHCIDRWLSENSTCPICRRAVLVAGN 634

Acts as a E3 ubiquitin-protein ligase specific for ldb1, mediating ubiquitination and proteasome-dependent degradation of excess ldb1 in a RING-dependent manner. Does not degrade ldb1 bound to lhx1/lim1, nor lim1 itself and thus contributes to the establishment of proper ldb1-lhx1/lim1 stoichiometry and the formation of a ldb1-lhx1/lim1 complex. Interferes with Spemann organizer function and suppresses secondary axis formation induced by ldb1 and lhx1/lim1.

Xenopus tropicalis (taxid: 8364)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	372
449432181	385	PREDICTED: E3 ubiquitin-protein ligase A	0.981	0.948	0.620	1e-137
255541482	375	cleavage and polyadenylation specificity	0.991	0.984	0.643	1e-130
297817430	377	hypothetical protein ARALYDRAFT_486593 [	0.970	0.957	0.598	1e-123
224063987	378	predicted protein [Populus trichocarpa]	0.975	0.960	0.628	1e-122
18411876	379	RING/U-box domain-containing protein [Ar	0.970	0.952	0.595	1e-122
6850885	362	putative protein [Arabidopsis thaliana]	0.903	0.928	0.632	1e-121
225453718	382	PREDICTED: E3 ubiquitin-protein ligase A	0.970	0.945	0.643	1e-121
301133592	363	C3HC4 type zinc finger protein [Brassica	0.935	0.958	0.597	1e-119
225453720	365	PREDICTED: E3 ubiquitin-protein ligase A	0.956	0.975	0.645	1e-119
356565289	379	PREDICTED: E3 ubiquitin-protein ligase A	0.884	0.868	0.601	1e-116

>gi|449432181|ref|XP_004133878.1| PREDICTED: E3 ubiquitin-protein ligase At4g11680-like [Cucumis sativus] gi|449480146|ref|XP_004155812.1| PREDICTED: E3 ubiquitin-protein ligase At4g11680-like [Cucumis sativus]

 Score =  492 bits (1267), Expect = e-137,   Method: Compositional matrix adjust.
 Identities = 234/377 (62%), Positives = 294/377 (77%), Gaps = 12/377 (3%)

Query: 6   PADAAETSPLLAHSLPDHLIRSRRLLRRPPPPLRGAAARLLRRASGRRLMLREPSVRVRE 65
           P  A + SPLL HS+ + L RSR  +RR P PLRGA  RLLRRASGR++MLREPSVRVRE
Sbjct: 11  PFRAVDNSPLLGHSVTNGLFRSRGFIRRSPQPLRGAV-RLLRRASGRQMMLREPSVRVRE 69

Query: 66  TAAEQLEERQSYWAYSRPIIVLDVLWNLVFVIVAFAVLGVSINEKPEVPLRLRIVGYALQ 125
           TAAEQLEERQS WAYS+PII+LD+LWNL FVI++F VLG+S +EKP VPLR  I+GYALQ
Sbjct: 70  TAAEQLEERQSDWAYSKPIILLDLLWNLAFVIISFTVLGLSTSEKPSVPLRFWIIGYALQ 129

Query: 126 CLFHVFCVSLEFKRRRRGEGVV----FGDSVSGSSSTTVTGDE------EERFHGENDSS 175
           C+ H+ CV++E+KRRR            D  SG  S +V+G +      E+  + +  S+
Sbjct: 130 CIIHMSCVAVEYKRRRSTREPTGLDRNSDWTSGEDSNSVSGSDGDDYATEQTVNEDESSN 189

Query: 176 VAKNLESANTFLSFLWWIVGFYWITASGETLISCSPQLYWLCVTFLAFDVVFVMICVGVA 235
           + K++ESANT  SF+WW++GFYW+TA G+ LI  SPQLYWL +TFLAFDVVFV+ICV +A
Sbjct: 190 LVKHIESANTMFSFIWWLLGFYWVTAGGQELIEGSPQLYWLSITFLAFDVVFVLICVAIA 249

Query: 236 CLIGIAVCCCLPCILGILYALTEREGATEEEIDRLPKFKFSRIDGLEKVNGEIQEPFGGI 295
           CL+G+A+CCCLPCI+ ILYA+T++EGAT+EEI+RLPK+ F+R   +EKVNG+IQE  GGI
Sbjct: 250 CLVGVAICCCLPCIIAILYAVTDQEGATKEEIERLPKYTFNRTGDVEKVNGDIQESSGGI 309

Query: 296 MIECDTDMPMEHVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPL 355
           M  CDTD P E  +  +D+ECCICLSAY++G ELRELPC HHFHC+C+DKWL++N+TCPL
Sbjct: 310 MSNCDTDAPTERFLRPEDSECCICLSAYENGAELRELPCNHHFHCNCIDKWLHMNATCPL 369

Query: 356 CKFNILKMSNERGSEEV 372
           CKFNILK  N   SEEV
Sbjct: 370 CKFNILK-PNSSSSEEV 385

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255541482|ref|XP_002511805.1| cleavage and polyadenylation specificity factor, putative [Ricinus communis] gi|223548985|gb|EEF50474.1| cleavage and polyadenylation specificity factor, putative [Ricinus communis]

 Score =  469 bits (1208), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 240/373 (64%), Positives = 292/373 (78%), Gaps = 4/373 (1%)

Query: 4   NPPADAAETSPLLAHSLPDHLIRSRRLLRRPPPPLRGAAARLLRRASGRRLMLREPSVRV 63
           +P +D+ + SPLL HS+ DHL+RSRR+LRR PPP RGAAARLLRRAS RR+MLREPSVRV
Sbjct: 3   SPQSDSVDMSPLLTHSIADHLLRSRRILRRQPPPFRGAAARLLRRASSRRMMLREPSVRV 62

Query: 64  RETAAEQLEERQSYWAYSRPIIVLDVLWNLVFVIVAFAVLGVSINEKPEVPLRLRIVGYA 123
           RE AAEQLEERQ+ WAYS+PII LDVLWNL FV +   VLG+S+ E+P++PLR+ I+GY+
Sbjct: 63  RENAAEQLEERQTDWAYSKPIIFLDVLWNLAFVGIGVVVLGLSVKEEPQLPLRVWIIGYS 122

Query: 124 LQCLFHVFCVSLEFKRRRRGEGVVFGDSVSGSSSTTVTGDEE----ERFHGENDSSVAKN 179
           LQCLFH+ CV  E+KRR  G       S S S S +  GD      E+   + D+ V K 
Sbjct: 123 LQCLFHIGCVIFEYKRRLFGTSARLEASDSTSVSESDGGDSVDDGVEQRGNDGDTCVVKQ 182

Query: 180 LESANTFLSFLWWIVGFYWITASGETLISCSPQLYWLCVTFLAFDVVFVMICVGVACLIG 239
           LESANT  SF+WWIVGFYW+TA G+ L + SPQLYWLC+TFLAFDV+FV+IC+ VACLIG
Sbjct: 183 LESANTMFSFIWWIVGFYWVTAGGQNLTNDSPQLYWLCITFLAFDVIFVIICIAVACLIG 242

Query: 240 IAVCCCLPCILGILYALTEREGATEEEIDRLPKFKFSRIDGLEKVNGEIQEPFGGIMIEC 299
           +A+CCCLPCI+GILYA+T+REGAT+EEI++LP +KF RI   EKVN + Q  FGG+M EC
Sbjct: 243 LAICCCLPCIIGILYAMTDREGATQEEIEQLPMYKFRRIGDFEKVNADFQATFGGMMTEC 302

Query: 300 DTDMPMEHVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFN 359
           + D P E  +S +DAECCICLSAY+DGTELR+LPC HHFH +C+DKWLYIN+TCPLCK N
Sbjct: 303 EIDTPTERRLSHEDAECCICLSAYEDGTELRQLPCQHHFHSTCIDKWLYINATCPLCKLN 362

Query: 360 ILKMSNERGSEEV 372
           ILK SN     EV
Sbjct: 363 ILKASNHIAGGEV 375

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297817430|ref|XP_002876598.1| hypothetical protein ARALYDRAFT_486593 [Arabidopsis lyrata subsp. lyrata] gi|297322436|gb|EFH52857.1| hypothetical protein ARALYDRAFT_486593 [Arabidopsis lyrata subsp. lyrata]

 Score =  446 bits (1147), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 224/374 (59%), Positives = 266/374 (71%), Gaps = 13/374 (3%)

Query: 4   NPPADAAETSPLLAHSLPDHLIRSRRLLRRPPPPLRGAAARLLRRASGRRLMLREPSVRV 63
           +P  D  + SPLL  +  +    S+        PLRGAA+RLLRRAS RR+MLREPSVRV
Sbjct: 12  SPATDTMDVSPLLGRNRRNRPRSSQ--------PLRGAASRLLRRASNRRMMLREPSVRV 63

Query: 64  RETAAEQLEERQSYWAYSRPIIVLDVLWNLVFVIVAFAVLGVSINEKPEVPLRLRIVGYA 123
           RE AAEQLEERQS WAYS+PIIVLD+LWN VFVIV+ A+LG S  E P+VPLRL I+GY 
Sbjct: 64  REVAAEQLEERQSQWAYSKPIIVLDILWNFVFVIVSIAILGFSSEEDPDVPLRLWIIGYN 123

Query: 124 LQCLFHVFCVSLEFKRRRRGEGVVFGDSVSGSSSTTVTGDEEERF-----HGENDSSVAK 178
            QCL HV CV  E+KRRR       G+  S   S + + DE + +       ++ +S  K
Sbjct: 124 FQCLLHVGCVIAEYKRRREANSPPSGEDSSNHESLSGSDDESDGYSINDTDDDHGTSFTK 183

Query: 179 NLESANTFLSFLWWIVGFYWITASGETLISCSPQLYWLCVTFLAFDVVFVMICVGVACLI 238
           +LESANT  SF+WWI+GFYW+TA  E L   SPQLYWLCV FLAFDV+FV+ICV VA LI
Sbjct: 184 HLESANTMFSFVWWIIGFYWVTADTEALAQSSPQLYWLCVAFLAFDVMFVVICVAVASLI 243

Query: 239 GIAVCCCLPCILGILYALTEREGATEEEIDRLPKFKFSRIDGLEKVNGEIQEPFGGIMIE 298
           GIAVCCCLPCI+ ILYAL ++EGA +EEI+RL KFKF  +   EKVNGEI+E  GGIM  
Sbjct: 244 GIAVCCCLPCIIAILYALADQEGAPDEEIERLLKFKFLVVKNSEKVNGEIRETQGGIMTG 303

Query: 299 CDTDMPMEHVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKF 358
              +   E V+S +DAEC ICL AY+DG ELRELPC HHFH  C+DKWL IN+TCPLCKF
Sbjct: 304 LGAESQTERVLSSEDAECSICLCAYEDGVELRELPCRHHFHSLCVDKWLRINATCPLCKF 363

Query: 359 NILKMSNERGSEEV 372
           NILK     GSE+V
Sbjct: 364 NILKNGEPSGSEQV 377

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224063987|ref|XP_002301335.1| predicted protein [Populus trichocarpa] gi|222843061|gb|EEE80608.1| predicted protein [Populus trichocarpa]

 Score =  445 bits (1144), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 235/374 (62%), Positives = 288/374 (77%), Gaps = 11/374 (2%)

Query: 4   NPPADAAETSPLLAHSLPDHLIRSRRLLRRPPPPLRGAAARLLRRASGRRLMLREPSVRV 63
           +P +DA ++SPLLAHS+ +HL+RSRRLLRRPP  LRGAAAR+LRRAS RR+MLREPSVRV
Sbjct: 11  SPQSDAIDSSPLLAHSIANHLLRSRRLLRRPPQ-LRGAAARILRRASSRRMMLREPSVRV 69

Query: 64  RETAAEQLEERQSYWAYSRPIIVLDVLWNLVFVIVAFAVLGVSINEKPEVPLRLRIVGYA 123
           RE AAEQLEERQS W YS+P++V+DVLW+L  VI+A  VLG+S+ EKP VP R  IV Y 
Sbjct: 70  RENAAEQLEERQSDWGYSKPVVVIDVLWSLAIVIIAVGVLGLSLEEKPRVPFRAWIVAYI 129

Query: 124 LQCLFHVFCVSLEFKRRR----RGEGVVFGDSVSGSSSTTVTGDEEERFHGENDSSVAKN 179
           L C  HV CV +E+++RR    R  G++  DS  G S    T   E    G+N +SVAK 
Sbjct: 130 LLCSCHVVCVVVEYRKRRNLGLRESGILSSDS--GDSLDFSTQQSEN--DGQN-TSVAKR 184

Query: 180 LESANTFLSFLWWIVGFYWITASG-ETLISCSPQLYWLCVTFLAFDVVFVMICVGVACLI 238
           +ESA T  S +WWI+GFYW+T +G + +   SPQLYWLC+ FLA D +FV+IC+ VACLI
Sbjct: 185 VESAMTTFSIIWWIIGFYWVTTAGRQNVAKDSPQLYWLCIAFLAADTLFVIICIAVACLI 244

Query: 239 GIAVCCCLPCILGILYALTEREGATEEEIDRLPKFKFSRIDGLEKVNGEIQEPFGGIMIE 298
           GIAVCC LPCI+GILYA+ ++EGAT+EEIDRL K+KF RI   EKVN E QE FGG+M E
Sbjct: 245 GIAVCCFLPCIIGILYAMADQEGATKEEIDRLLKYKFHRIGNCEKVNDESQESFGGMMTE 304

Query: 299 CDTDMPMEHVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKF 358
           CDTD P+E  +S +D ECCICLSAY+DG+ELRELPC HHFHC C+DKWL IN+TCPLCKF
Sbjct: 305 CDTDTPIERALSREDTECCICLSAYEDGSELRELPCGHHFHCMCIDKWLCINATCPLCKF 364

Query: 359 NILKMSNERGSEEV 372
           +ILK  ++ GSEE 
Sbjct: 365 DILKADSQSGSEEA 378

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18411876|ref|NP_567110.1| RING/U-box domain-containing protein [Arabidopsis thaliana] gi|16648921|gb|AAL24312.1| putative protein [Arabidopsis thaliana] gi|17978715|gb|AAL47351.1| putative protein [Arabidopsis thaliana] gi|332646647|gb|AEE80168.1| RING/U-box domain-containing protein [Arabidopsis thaliana]

 Score =  444 bits (1143), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 224/376 (59%), Positives = 269/376 (71%), Gaps = 15/376 (3%)

Query: 4   NPPADAAETSPLLAHSLPDHLIRSRRLLRRPPPPLRGAAARLLRRASGRRLMLREPSVRV 63
           +P  D  + SPLL  +  +    S+        P+RGAA+RLLRRAS RR+MLREPSVRV
Sbjct: 12  SPTTDTMDASPLLGRNRRNRPRSSQ--------PIRGAASRLLRRASNRRMMLREPSVRV 63

Query: 64  RETAAEQLEERQSYWAYSRPIIVLDVLWNLVFVIVAFAVLGVSINEKPEVPLRLRIVGYA 123
           RE AAEQLEERQS WAYS+PIIVLD+LWN +FVIV+ A+LG S +E P+VPLRL I+GY 
Sbjct: 64  REVAAEQLEERQSQWAYSKPIIVLDILWNFLFVIVSIAILGFSSDEDPDVPLRLWIIGYN 123

Query: 124 LQCLFHVFCVSLEFKRRR-------RGEGVVFGDSVSGSSSTTVTGDEEERFHGENDSSV 176
           +QCLFHV CV  E+KRRR        GE     +S+SGS   +           ++ +S 
Sbjct: 124 VQCLFHVGCVIAEYKRRRVANSPPPSGEDSSNHESLSGSEDESDGYSINNTDDDDHGTSF 183

Query: 177 AKNLESANTFLSFLWWIVGFYWITASGETLISCSPQLYWLCVTFLAFDVVFVMICVGVAC 236
            K+LESANT  SF+WWI+GFYW+TA  E L   SPQLYWLCV FLAFDV+FV+ICV VA 
Sbjct: 184 TKHLESANTMFSFVWWIIGFYWVTADTEALAQSSPQLYWLCVAFLAFDVMFVVICVAVAS 243

Query: 237 LIGIAVCCCLPCILGILYALTEREGATEEEIDRLPKFKFSRIDGLEKVNGEIQEPFGGIM 296
           LIGIAVCCCLPCI+ ILYAL ++EGA +EEI+RL KFKF  +   EKVNGEI+E  GGIM
Sbjct: 244 LIGIAVCCCLPCIIAILYALADQEGAPDEEIERLLKFKFLTVKNSEKVNGEIRETQGGIM 303

Query: 297 IECDTDMPMEHVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLC 356
              DT+   E ++  +DAEC ICL AY+DG ELRELPC HHFH  C+DKWL IN+TCPLC
Sbjct: 304 TGLDTESQTERMLLSEDAECSICLCAYEDGVELRELPCRHHFHSLCVDKWLRINATCPLC 363

Query: 357 KFNILKMSNERGSEEV 372
           KFNILK     GSE+V
Sbjct: 364 KFNILKNGEPSGSEQV 379

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|6850885|emb|CAB71048.1| putative protein [Arabidopsis thaliana]

 Score =  441 bits (1133), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 217/343 (63%), Positives = 257/343 (74%), Gaps = 7/343 (2%)

Query: 37  PLRGAAARLLRRASGRRLMLREPSVRVRETAAEQLEERQSYWAYSRPIIVLDVLWNLVFV 96
           P+RGAA+RLLRRAS RR+MLREPSVRVRE AAEQLEERQS WAYS+PIIVLD+LWN +FV
Sbjct: 20  PIRGAASRLLRRASNRRMMLREPSVRVREVAAEQLEERQSQWAYSKPIIVLDILWNFLFV 79

Query: 97  IVAFAVLGVSINEKPEVPLRLRIVGYALQCLFHVFCVSLEFKRRR-------RGEGVVFG 149
           IV+ A+LG S +E P+VPLRL I+GY +QCLFHV CV  E+KRRR        GE     
Sbjct: 80  IVSIAILGFSSDEDPDVPLRLWIIGYNVQCLFHVGCVIAEYKRRRVANSPPPSGEDSSNH 139

Query: 150 DSVSGSSSTTVTGDEEERFHGENDSSVAKNLESANTFLSFLWWIVGFYWITASGETLISC 209
           +S+SGS   +           ++ +S  K+LESANT  SF+WWI+GFYW+TA  E L   
Sbjct: 140 ESLSGSEDESDGYSINNTDDDDHGTSFTKHLESANTMFSFVWWIIGFYWVTADTEALAQS 199

Query: 210 SPQLYWLCVTFLAFDVVFVMICVGVACLIGIAVCCCLPCILGILYALTEREGATEEEIDR 269
           SPQLYWLCV FLAFDV+FV+ICV VA LIGIAVCCCLPCI+ ILYAL ++EGA +EEI+R
Sbjct: 200 SPQLYWLCVAFLAFDVMFVVICVAVASLIGIAVCCCLPCIIAILYALADQEGAPDEEIER 259

Query: 270 LPKFKFSRIDGLEKVNGEIQEPFGGIMIECDTDMPMEHVISEDDAECCICLSAYDDGTEL 329
           L KFKF  +   EKVNGEI+E  GGIM   DT+   E ++  +DAEC ICL AY+DG EL
Sbjct: 260 LLKFKFLTVKNSEKVNGEIRETQGGIMTGLDTESQTERMLLSEDAECSICLCAYEDGVEL 319

Query: 330 RELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMSNERGSEEV 372
           RELPC HHFH  C+DKWL IN+TCPLCKFNILK     GSE+V
Sbjct: 320 RELPCRHHFHSLCVDKWLRINATCPLCKFNILKNGEPSGSEQV 362

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225453718|ref|XP_002271651.1| PREDICTED: E3 ubiquitin-protein ligase At4g11680-like isoform 1 [Vitis vinifera]

 Score =  439 bits (1129), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 242/376 (64%), Positives = 294/376 (78%), Gaps = 15/376 (3%)

Query: 7   ADAAETSPLLAHSLPDHLIRSRRLLRRPPPPLRGAAARLLRRASGRRLMLREPSVRVRET 66
           ADA +T+PLL  S+ D ++RSRRL+RRPP  LRGAA R LRRAS RR+M REPS+RVRET
Sbjct: 8   ADATDTTPLLHASVSDQILRSRRLIRRPPS-LRGAA-RFLRRASSRRIM-REPSMRVRET 64

Query: 67  AAEQLEERQSYWAYSRPIIVLDVLWNLVFVIVAFAVLGVSINEKPEVPLRLRIVGYALQC 126
           AAEQLEERQS WAYS+PI++LD++WNL FV+VA  VL +S +E P  PLRL I+GY LQC
Sbjct: 65  AAEQLEERQSDWAYSKPIVILDIVWNLAFVVVAMTVLVMSRDETPSTPLRLWIIGYGLQC 124

Query: 127 LFHVFCVSLEFKRRRR----GEGVVFGDSVSGSSSTTVTGDE--------EERFHGENDS 174
           + H+ CV +E+KRRRR    G     G   SG  S++   DE        E R   E+++
Sbjct: 125 VLHMVCVCVEYKRRRRLVSSGALERSGGWGSGHLSSSSGSDEGDPIDYRVEVRNRDEDET 184

Query: 175 SVAKNLESANTFLSFLWWIVGFYWITASGETLISCSPQLYWLCVTFLAFDVVFVMICVGV 234
           SVAK+LESANT  SF+WWI+GFYW++A G+ L   SPQLYWLC+ FLAFDV FV+ICV V
Sbjct: 185 SVAKHLESANTMFSFIWWIIGFYWVSAGGQDLTRDSPQLYWLCIVFLAFDVFFVVICVAV 244

Query: 235 ACLIGIAVCCCLPCILGILYALTEREGATEEEIDRLPKFKFSRIDGLEKVNGEIQEPFGG 294
           AC+IGIAVCCCLPCI+ ILY + ++EGAT+EEI+RLPK+KF RI   EK+NGEIQE FGG
Sbjct: 245 ACVIGIAVCCCLPCIIAILYTVADQEGATKEEIERLPKYKFRRIGESEKLNGEIQESFGG 304

Query: 295 IMIECDTDMPMEHVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCP 354
           IM ECDTD PMEHVI ++DAECCICLSAY+D TELRELPC H FHC+C+DKWLYIN+TCP
Sbjct: 305 IMTECDTDTPMEHVIPQEDAECCICLSAYEDETELRELPCRHRFHCTCIDKWLYINATCP 364

Query: 355 LCKFNILKMSNERGSE 370
           LCK NILK +++ G E
Sbjct: 365 LCKLNILKNASQSGCE 380

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|301133592|gb|ADK63418.1| C3HC4 type zinc finger protein [Brassica rapa]

 Score =  434 bits (1117), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 220/368 (59%), Positives = 260/368 (70%), Gaps = 20/368 (5%)

Query: 6   PADAAETSPLLAHSLPDHLIRSRRLLRRPPPPLRGAAARLLRRASGRRLMLREPSVRVRE 65
           PA    +SPLL  +            RRP  PLRGAA+RLLRRAS R +MLRE SVRVRE
Sbjct: 15  PATDDASSPLLNRN------------RRPSQPLRGAASRLLRRASSRGMMLRESSVRVRE 62

Query: 66  TAAEQLEERQSYWAYSRPIIVLDVLWNLVFVIVAFAVLGVSINEKPEVPLRLRIVGYALQ 125
           TAAEQ+EERQS WAYS+P+IVLDVLWNL FV V   V   S  E P  PLR  IVGY LQ
Sbjct: 63  TAAEQIEERQSEWAYSKPVIVLDVLWNLAFVFVTVGVSWFSSEEDPRAPLRFWIVGYNLQ 122

Query: 126 CLFHVFCVSLEFKRRRRGEGVVFG-DSVSGSSSTTVTGDEEERFHGENDSSVAKNLESAN 184
           CL H+ CV  E++RR     +  G  SV GSS     G E      E+ +SVAK++ES N
Sbjct: 123 CLIHIACVIAEYRRRESNRDLDSGLSSVQGSSDGY--GAE-----IESGNSVAKHIESTN 175

Query: 185 TFLSFLWWIVGFYWITASGETLISCSPQLYWLCVTFLAFDVVFVMICVGVACLIGIAVCC 244
              SF+WW++GFYW+TA  E L   SPQLYWLCV FLAFDV+FV++CV VACLIGIAVCC
Sbjct: 176 AIFSFVWWVIGFYWVTADAEELAQSSPQLYWLCVAFLAFDVIFVVLCVAVACLIGIAVCC 235

Query: 245 CLPCILGILYALTEREGATEEEIDRLPKFKFSRIDGLEKVNGEIQEPFGGIMIECDTDMP 304
           CLPCI+ +LYAL +REGA++EEI++LPKFKF  +   EKVNGEI+E  GGIM +   D P
Sbjct: 236 CLPCIIAVLYALADREGASDEEIEKLPKFKFLTVRNSEKVNGEIRETRGGIMTQLGVDFP 295

Query: 305 MEHVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMS 364
            E V+S D+AECCICL  Y+DGTELREL C HHFH +C+DKWL IN+TCPLCKFNILK  
Sbjct: 296 SERVLSSDEAECCICLCDYEDGTELRELFCRHHFHEACIDKWLRINATCPLCKFNILKTG 355

Query: 365 NERGSEEV 372
            + G + V
Sbjct: 356 EQSGDDAV 363

Source: Brassica rapa

Species: Brassica rapa

Genus: Brassica

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225453720|ref|XP_002271690.1| PREDICTED: E3 ubiquitin-protein ligase At4g11680-like isoform 2 [Vitis vinifera]

 Score =  433 bits (1113), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 235/364 (64%), Positives = 283/364 (77%), Gaps = 8/364 (2%)

Query: 7   ADAAETSPLLAHSLPDHLIRSRRLLRRPPPPLRGAAARLLRRASGRRLMLREPSVRVRET 66
           ADA +T+PLL  S+ D ++RSRRL+RRPP  LRGAA R LRRAS RR+M REPS+RVRET
Sbjct: 8   ADATDTTPLLHASVSDQILRSRRLIRRPPS-LRGAA-RFLRRASSRRIM-REPSMRVRET 64

Query: 67  AAEQLEERQSYWAYSRPIIVLDVLWNLVFVIVAFAVLGVSINEKPEVPLRLRIVGYALQC 126
           AAEQLEERQS WAYS+PI++LD++WNL FV+VA  VL +S +E P  PLRL I+GY LQC
Sbjct: 65  AAEQLEERQSDWAYSKPIVILDIVWNLAFVVVAMTVLVMSRDETPSTPLRLWIIGYGLQC 124

Query: 127 LFHVFCVSLEFKRRRRGEGVVFGDSVSGSSSTTVTGDEEERFHGENDSSVAKNLESANTF 186
           + H+ CV +E+KRRRR        S +   S            G    SVAK+LESANT 
Sbjct: 125 VLHMVCVCVEYKRRRR-----LVSSGALERSGGWGSGHLSSSSGNFSCSVAKHLESANTM 179

Query: 187 LSFLWWIVGFYWITASGETLISCSPQLYWLCVTFLAFDVVFVMICVGVACLIGIAVCCCL 246
            SF+WWI+GFYW++A G+ L   SPQLYWLC+ FLAFDV FV+ICV VAC+IGIAVCCCL
Sbjct: 180 FSFIWWIIGFYWVSAGGQDLTRDSPQLYWLCIVFLAFDVFFVVICVAVACVIGIAVCCCL 239

Query: 247 PCILGILYALTEREGATEEEIDRLPKFKFSRIDGLEKVNGEIQEPFGGIMIECDTDMPME 306
           PCI+ ILY + ++EGAT+EEI+RLPK+KF RI   EK+NGEIQE FGGIM ECDTD PME
Sbjct: 240 PCIIAILYTVADQEGATKEEIERLPKYKFRRIGESEKLNGEIQESFGGIMTECDTDTPME 299

Query: 307 HVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMSNE 366
           HVI ++DAECCICLSAY+D TELRELPC H FHC+C+DKWLYIN+TCPLCK NILK +++
Sbjct: 300 HVIPQEDAECCICLSAYEDETELRELPCRHRFHCTCIDKWLYINATCPLCKLNILKNASQ 359

Query: 367 RGSE 370
            G E
Sbjct: 360 SGCE 363

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356565289|ref|XP_003550874.1| PREDICTED: E3 ubiquitin-protein ligase At4g11680-like [Glycine max]

 Score =  425 bits (1092), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 202/336 (60%), Positives = 252/336 (75%), Gaps = 7/336 (2%)

Query: 42  AARLLRRASGRRLMLREPSVRVRETAAEQLEERQSYWAYSRPIIVLDVLWNLVFVIVAFA 101
           AAR LR+ASGRRLM REPS+ VRE AAEQLEERQS WAYS+P++VLD+LWN  FV  A  
Sbjct: 46  AARFLRQASGRRLM-REPSMVVREAAAEQLEERQSDWAYSKPVVVLDILWNCAFVAAAAT 104

Query: 102 VLGVSINEKPEVPLRLRIVGYALQCLFHVFCVSLEFKRRRR-----GEGVVFGDSVSGSS 156
           VL +S NE P +PLRL IVGYALQ + HV CV +E++RR R         V GD     S
Sbjct: 105 VLVLSRNENPNMPLRLWIVGYALQSVLHVACVCVEYRRRLRHREHSNAAAVSGDGSGDLS 164

Query: 157 STTVTGDEEERFHGENDSSVAKNLESANTFLSFLWWIVGFYWITASGETLISCSPQLYWL 216
           S ++ G        ++  S+AK+LESANT  SF+WW+VGFYW++A  E L+  SP LYWL
Sbjct: 165 SPSMDGSGHYVSFDDDGISMAKHLESANTMFSFIWWVVGFYWVSADSEALVQDSPLLYWL 224

Query: 217 CVTFLAFDVVFVMICVGVACLIGIAVCCCLPCILGILYALTEREGATEEEIDRLPKFKFS 276
           C+ FL FDV FV+ C+ +AC+IGIAVCCCLPCI+ +LYA+ ++EGA++E+I++L KFKF 
Sbjct: 225 CIAFLGFDVFFVVFCIALACIIGIAVCCCLPCIIALLYAVADQEGASKEDIEQLSKFKFQ 284

Query: 277 RIDGLEKVNGEIQEPFGGIMIECDTDMPMEHVISEDDAECCICLSAYDDGTELRELPCLH 336
           R +  EK  G  Q   GGIMIECD D P+EHV+S++DAECCICLSAYDDG ELR+LPC H
Sbjct: 285 RTETNEKHAGNTQGAAGGIMIECDADSPIEHVLSDEDAECCICLSAYDDGVELRKLPCSH 344

Query: 337 HFHCSCLDKWLYINSTCPLCKFNILKMSNERGSEEV 372
           HFHC+C+DKWL+IN+TCPLCK+NILK S   G +EV
Sbjct: 345 HFHCACVDKWLHINATCPLCKYNILK-STSHGQDEV 379

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	372
TAIR|locus:2098916	379	AT3G61180 [Arabidopsis thalian	0.846	0.831	0.605	3.7e-103
TAIR|locus:2195077	408	AT1G12760 [Arabidopsis thalian	0.532	0.485	0.64	1.4e-101
TAIR|locus:2139717	390	AT4G11680 [Arabidopsis thalian	0.817	0.779	0.563	1.7e-100
TAIR|locus:2015248	381	AT1G63170 [Arabidopsis thalian	0.846	0.826	0.553	1.9e-99
TAIR|locus:2200301	343	AT1G68070 [Arabidopsis thalian	0.795	0.862	0.485	3.8e-78
TAIR|locus:1005452975	359	RIE1 "RING-finger protein for	0.814	0.844	0.431	3.7e-71
TAIR|locus:2125652	453	AT4G32600 [Arabidopsis thalian	0.456	0.375	0.421	4.5e-38
TAIR|locus:2034210	407	AT1G80400 [Arabidopsis thalian	0.430	0.393	0.410	9.2e-36
TAIR|locus:2161740	343	AT5G55970 [Arabidopsis thalian	0.153	0.166	0.526	6.5e-24
TAIR|locus:2133877	335	AT4G26580 [Arabidopsis thalian	0.129	0.143	0.562	7.9e-23

TAIR|locus:2098916 AT3G61180 [Arabidopsis thaliana (taxid:3702)]

 Score = 1022 (364.8 bits), Expect = 3.7e-103, P = 3.7e-103
 Identities = 195/322 (60%), Positives = 229/322 (71%)

Query:    58 EPSVRVRETAAEQLEERQSYWAYSRPIIVLDVLWNLVFVIVAFAVLGVSINEKPEVPLRL 117
             EPSVRVRE AAEQLEERQS WAYS+PIIVLD+LWN +FVIV+ A+LG S +E P+VPLRL
Sbjct:    58 EPSVRVREVAAEQLEERQSQWAYSKPIIVLDILWNFLFVIVSIAILGFSSDEDPDVPLRL 117

Query:   118 RIVGYALQCLFHVFCVSLEFKRRRRXXX---XXXXXXXXXXXXXXXXXXXXXRFHGEND- 173
              I+GY +QCLFHV CV  E+KRRR                              +  +D 
Sbjct:   118 WIIGYNVQCLFHVGCVIAEYKRRRVANSPPPSGEDSSNHESLSGSEDESDGYSINNTDDD 177

Query:   174 ---SSVAKNLESANTFLSFLWWIVGFYWITASGETLISCSPQLYWLCVTFLAFDVVFVMI 230
                +S  K+LESANT  SF+WWI+GFYW+TA  E L   SPQLYWLCV FLAFDV+FV+I
Sbjct:   178 DHGTSFTKHLESANTMFSFVWWIIGFYWVTADTEALAQSSPQLYWLCVAFLAFDVMFVVI 237

Query:   231 CVGVACLIGIAVCCCLPCILGILYALTEREGATEEEIDRLPKFKFSRIDGLEKVNGEIQE 290
             CV VA LIGIAVCCCLPCI+ ILYAL ++EGA +EEI+RL KFKF  +   EKVNGEI+E
Sbjct:   238 CVAVASLIGIAVCCCLPCIIAILYALADQEGAPDEEIERLLKFKFLTVKNSEKVNGEIRE 297

Query:   291 PFGGIMIECDTDMPMEHVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYIN 350
               GGIM   DT+   E ++  +DAEC ICL AY+DG ELRELPC HHFH  C+DKWL IN
Sbjct:   298 TQGGIMTGLDTESQTERMLLSEDAECSICLCAYEDGVELRELPCRHHFHSLCVDKWLRIN 357

Query:   351 STCPLCKFNILKMSNERGSEEV 372
             +TCPLCKFNILK     GSE+V
Sbjct:   358 ATCPLCKFNILKNGEPSGSEQV 379

GO:0005634 "nucleus" evidence=ISM

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

GO:0005774 "vacuolar membrane" evidence=IDA

TAIR|locus:2195077 AT1G12760 [Arabidopsis thaliana (taxid:3702)]

 Score = 743 (266.6 bits), Expect = 1.4e-101, Sum P(2) = 1.4e-101
 Identities = 128/200 (64%), Positives = 161/200 (80%)

Query:   174 SSVAKNLESANTFLSFLWWIVGFYWITASGETLISCSPQLYWLCVTFLAFDVVFVMICVG 233
             SSVAK+LESANT  SF+WWI+GFYW++A G+ L   SP++YWL + FL FDV FV+ CV 
Sbjct:   210 SSVAKHLESANTMFSFIWWIIGFYWVSAGGQELAQESPRIYWLSIVFLGFDVFFVVFCVA 269

Query:   234 VACLIGIAVCCCLPCILGILYALTEREGATEEEIDRLPKFKFSRI-DGLEKVNGEIQEPF 292
             +AC+IGIAVCCCLPCI+ +LYA+ ++EGA++E+I++L KFKF ++ D  +  N E Q   
Sbjct:   270 LACVIGIAVCCCLPCIIAVLYAVADQEGASKEDIEQLTKFKFRKLGDANKHTNDEAQGTT 329

Query:   293 GGIMIECDTDMPMEHVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINST 352
              GIM EC TD P+EH + ++DAECCICLSAY+DGTELRELPC HHFHCSC+DKWLYIN+T
Sbjct:   330 EGIMTECGTDSPIEHTLLQEDAECCICLSAYEDGTELRELPCGHHFHCSCVDKWLYINAT 389

Query:   353 CPLCKFNILKMSNERGSEEV 372
             CPLCK+NILK SN    EEV
Sbjct:   390 CPLCKYNILKSSN-LDREEV 408

GO:0005634 "nucleus" evidence=ISM

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

GO:0009507 "chloroplast" evidence=ISM

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

TAIR|locus:2139717 AT4G11680 [Arabidopsis thaliana (taxid:3702)]

 Score = 997 (356.0 bits), Expect = 1.7e-100, P = 1.7e-100
 Identities = 174/309 (56%), Positives = 229/309 (74%)

Query:    58 EPSVRVRETAAEQLEERQSYWAYSRPIIVLDVLWNLVFVIVAFAVLGVSINEKPEVPLRL 117
             EPS+ VRETAAEQLEERQS WAYS+P++ LD+LWNL FV +  AVL +S +EKP +PLR+
Sbjct:    83 EPSMLVRETAAEQLEERQSDWAYSKPVVFLDILWNLAFVAIGVAVLILSRDEKPNMPLRV 142

Query:   118 RIVGYALQCLFHVFCVSLEFKRRRRXXXXXXXXXXXXXXXXXXXXXXXXRFHGENDSS-V 176
              +VGY +QC  H+ CV +E++RRRR                        +     ++S  
Sbjct:   143 WVVGYGIQCWLHMACVCVEYRRRRRRRHPEDGGGSGLTNSSSQQYVSLAQLEDRGETSNP 202

Query:   177 AKNLESANTFLSFLWWIVGFYWITASGETLISCSPQLYWLCVTFLAFDVVFVMICVGVAC 236
             AK+LESANT  SF+WWI+GFYW++A G+TL S SPQLYWLC+ FL FDV FV+ CV +AC
Sbjct:   203 AKHLESANTMFSFIWWIIGFYWVSAGGQTLSSDSPQLYWLCIIFLGFDVFFVVFCVALAC 262

Query:   237 LIGIAVCCCLPCILGILYALTEREGATEEEIDRLPKFKFSRIDGLEKVNGEIQEPFGGIM 296
             +IG+AVCCCLPCI+ ILYA+ ++EGA++ +ID++PKF+F++   +EK++G+ +    GIM
Sbjct:   263 VIGLAVCCCLPCIIAILYAVADQEGASKNDIDQMPKFRFTKTGNVEKLSGKAR----GIM 318

Query:   297 IECDTDMPMEHVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLC 356
              EC TD P+E  +S +DAECCICL  Y+DG ELRELPC HHFHC+C+DKWL+INS CPLC
Sbjct:   319 TECGTDSPIERSLSPEDAECCICLCEYEDGVELRELPCNHHFHCTCIDKWLHINSRCPLC 378

Query:   357 KFNILKMSN 365
             KFNILK +N
Sbjct:   379 KFNILKNAN 387

GO:0005634 "nucleus" evidence=ISM

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

GO:0005774 "vacuolar membrane" evidence=IDA

TAIR|locus:2015248 AT1G63170 [Arabidopsis thaliana (taxid:3702)]

 Score = 987 (352.5 bits), Expect = 1.9e-99, P = 1.9e-99
 Identities = 185/334 (55%), Positives = 236/334 (70%)

Query:    58 EPSVRVRETAAEQLEERQSYWAYSRPIIVLDVLWNLVFVIVAFAVLGVSINEKPEVPLRL 117
             EPS+ VRE AAEQLEERQS WAYS+P++VLD +WNL FV+VA AVL +S +E P +PLR+
Sbjct:    48 EPSMLVREAAAEQLEERQSDWAYSKPVVVLDFVWNLAFVVVATAVLVLSSDENPNMPLRV 107

Query:   118 RIVGYALQCLFHVFCVSLEFKRR--RRXXXXXXXXXXXXXXXXXX---------XXXXXX 166
              I+GY LQC+ H+ CV +E++RR  RR                                 
Sbjct:   108 WIIGYGLQCMMHMVCVCVEYRRRNSRRRRDLSPRSSSSSSSSSSSMDEEEGLGLSRNSDE 167

Query:   167 RFH--G--ENDS-SVAKNLESANTFLSFLWWIVGFYWITASGETLISCSPQLYWLCVTFL 221
             R+   G  EN++ S AK+LESANT +SF+WW++GFYW+++ G+ L   SPQLYWLC+ FL
Sbjct:   168 RYLELGQLENENNSFAKHLESANTMISFIWWVIGFYWVSSGGQELAQGSPQLYWLCIVFL 227

Query:   222 AFDVVFVMICVGVACLIGIAVCCCLPCILGILYALTEREGATEEEIDRLPKFKFSRIDGL 281
              FDV FV+ CV +AC+IGIAVCCCLPCI+ +LYA+ E+EGA++E+ID+L KFKF ++   
Sbjct:   228 GFDVFFVVFCVALACVIGIAVCCCLPCIIAVLYAVAEQEGASKEDIDQLTKFKFRKVGDT 287

Query:   282 EK--VNGEI-QEPFGGIMIECDTDMPMEHVISEDDAECCICLSAYDDGTELRELPCLHHF 338
              K  V+ E  Q   GG+M EC TD P+EH +  +DAECCICLSAY+D TELRELPC HHF
Sbjct:   288 MKHTVDEEQGQGDSGGVMTECGTDSPVEHALPHEDAECCICLSAYEDETELRELPCGHHF 347

Query:   339 HCSCLDKWLYINSTCPLCKFNILKMSNERGSEEV 372
             HC C+DKWLYIN+TCPLCK+NILK SN    EEV
Sbjct:   348 HCGCVDKWLYINATCPLCKYNILKSSNYEEGEEV 381

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2200301 AT1G68070 [Arabidopsis thaliana (taxid:3702)]

 Score = 786 (281.7 bits), Expect = 3.8e-78, P = 3.8e-78
 Identities = 151/311 (48%), Positives = 200/311 (64%)

Query:    60 SVRVRETAAEQLEERQSYWAYSRPIIVLDVLWNLVFVIVAFAVLGVSINEKPEVPLRLRI 119
             S+ VRETAA++LEER++ W YS+P++ LD+LWN  FV+VA  +L V   EKP VP+R+ I
Sbjct:    44 SMVVRETAAQELEERRADWGYSKPVVALDMLWNTAFVLVAIVMLLVFKEEKPNVPIRIWI 103

Query:   120 VGYALQCLFHVFCVSLEFKRRRRXXXXXXXXXXXXXXXXXXXXXXXXRFHGENDSSVAKN 179
              GYA+QCL HV  V LEF++R                          RF         K 
Sbjct:   104 CGYAIQCLVHVVLVWLEFRKRNARSRPGDLEAAQATNQDSEDEDNDERFLS------TKT 157

Query:   180 LESANTFLSFLWWIVGFYWITASGETLISCSPQLYWLCVTFLAFDVVFVMICVGVACLIG 239
              ES NT +SF+WWIVGFYW+ + G+ L+  +  LYWL   FLAFDV F + CV +ACLIG
Sbjct:   158 CESMNTIISFVWWIVGFYWLVSGGDILLQNATHLYWLTFVFLAFDVFFAIFCVVLACLIG 217

Query:   240 IAVCCCLPCILGILYALTEREGATEEEIDRLPKFKFSRIDGLEKVNGEIQEPFGGIMIEC 299
             IA+CCCLPCI+ +LYA+  +EGA+E ++  LPK++F  ++     N E Q   GG MI  
Sbjct:   218 IALCCCLPCIIALLYAVAGQEGASEADLSILPKYRFHTMN-----NDEKQSDGGGKMIPV 272

Query:   300 DT---DMPMEHVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLC 356
             D    ++  E V+  +DA+CCICLS+Y+DG EL  LPC HHFH +C+ KWL +N+TCPLC
Sbjct:   273 DAASENLGNERVLLPEDADCCICLSSYEDGAELVSLPCNHHFHSTCIVKWLKMNATCPLC 332

Query:   357 KFNILKMSNER 367
             KFNILK  NE+
Sbjct:   333 KFNILK-GNEQ 342

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

GO:0005774 "vacuolar membrane" evidence=IDA

GO:0006661 "phosphatidylinositol biosynthetic process" evidence=RCA

TAIR|locus:1005452975 RIE1 "RING-finger protein for embryogenesis" [Arabidopsis thaliana (taxid:3702)]

 Score = 720 (258.5 bits), Expect = 3.7e-71, P = 3.7e-71
 Identities = 135/313 (43%), Positives = 184/313 (58%)

Query:    59 PSVRVRETAAEQLEERQSYWAYSRPIIVLDVLWNLVFVIVAFAVLGVSINEKPEVPLRLR 118
             PS+ VRETAA  LEER+  W YS+P++  D+LWN   V+ +  +L  ++ E+P  P+R+ 
Sbjct:    52 PSMLVRETAARALEERRIDWGYSKPVVAADILWNAALVLASAVMLVGTVEERPNEPIRVW 111

Query:   119 IVGYALQCLFHVFCVSLEFKRRRRXXXXXXXXXXXXXXXXXXXXXXXXRFHGENDSSVAK 178
             I  Y LQCLFHV  V  E+ RR                                  S  K
Sbjct:   112 ICVYGLQCLFHVVLVWSEYWRRNSTRRARDLESYDHEDYNIEYDYEQDSDDNSTTYSFVK 171

Query:   179 NLESANTFLSFLWWIVGFYWITASGETLISCSPQLYWLCVTFLAFDVVFVMICVGVACLI 238
               ES NT +SF+WWI+GFYW+   G+ L+  +P LYWL V FLA DV F + CV +ACL+
Sbjct:   172 RCESINTVISFIWWIIGFYWVVEGGDKLLGEAPNLYWLSVIFLAIDVFFAVFCVVLACLV 231

Query:   239 GIAVCCCLPCILGILYALTEREGATEEEIDRLPKFKFSRIDGLEK-VNGE---IQEPFGG 294
             GIA+CCCLPCI+ +LYA+   EG +E E+  LP +KF      EK + G    +  P  G
Sbjct:   232 GIALCCCLPCIIALLYAVAGTEGVSEAELGVLPLYKFKAFHSNEKNITGPGKMVPIPING 291

Query:   295 IMIECDTDMPMEHVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCP 354
             +   C   +  E  +  +DA+CCICLS+Y+DG EL  LPC HHFH +C+ KWL + +TCP
Sbjct:   292 L---C---LATERTLLAEDADCCICLSSYEDGAELHALPCNHHFHSTCIVKWLKMRATCP 345

Query:   355 LCKFNILKMSNER 367
             LCK+NILK + ++
Sbjct:   346 LCKYNILKGTTDQ 358

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

GO:0009790 "embryo development" evidence=IMP

TAIR|locus:2125652 AT4G32600 [Arabidopsis thaliana (taxid:3702)]

 Score = 355 (130.0 bits), Expect = 4.5e-38, Sum P(2) = 4.5e-38
 Identities = 81/192 (42%), Positives = 112/192 (58%)

Query:   190 LWWIVGFYWITASGETLISCSPQLYWLCVTFLAFDVVFVMICVGVAC--LIGIAVCCCLP 247
             +W++VG  WI   G +  + +P LY LC+ FL F       C+G A   ++   +CCCLP
Sbjct:   241 VWFVVGNVWIFG-GHSSAAEAPNLYRLCLVFLTFS------CIGYAMPFILCTTICCCLP 293

Query:   248 CILGIL-YA--LTEREGATEEEIDRLPKFKF----SRIDGLEKVNGEIQEPFGGIMIECD 300
             CI+ IL Y   LT+  GAT E I+ LP  KF    SR +G +  NG      GG+ +   
Sbjct:   294 CIISILGYREDLTQPRGATPESINALPTHKFKLKKSRSNGDD--NGSSTSE-GGV-VAAG 349

Query:   301 TDMPMEHVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNI 360
             TD   E  IS +DA CCICL+ Y +  ELRELPC H FH  C+DKWL IN++CPLCK  +
Sbjct:   350 TDN--ERAISGEDAVCCICLAKYANNEELRELPCSHFFHKECVDKWLKINASCPLCKSEV 407

Query:   361 LKMSNERGSEEV 372
              + +++  S+ +
Sbjct:   408 GEKNSDLTSQGI 419

GO:0005634 "nucleus" evidence=ISM

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

GO:0005886 "plasma membrane" evidence=IDA

TAIR|locus:2034210 AT1G80400 [Arabidopsis thaliana (taxid:3702)]

 Score = 338 (124.0 bits), Expect = 9.2e-36, Sum P(2) = 9.2e-36
 Identities = 76/185 (41%), Positives = 107/185 (57%)

Query:   190 LWWIVGFYWITASGETLISCSPQLYWLCVTFLAFDVVFVMICVGVAC--LIGIAVCCCLP 247
             +W++VG  WI   G +  S SP+LY LC+ FL F       C+G A   ++   +CCCLP
Sbjct:   236 VWFVVGNVWIFG-GHSSPSDSPKLYRLCIAFLTFS------CIGYAMPFILCATICCCLP 288

Query:   248 CILGIL---YALTEREGATEEEIDRLPKFKF---SRIDGLE-KVNGEIQEPFGGIMIECD 300
             C++ +L      ++  GAT E I+ LP ++F   SR D LE    GE     GG ++   
Sbjct:   289 CLISVLGFRENFSQTRGATAEAINALPVYRFKSKSRND-LEFSEEGE-----GGFLL--- 339

Query:   301 TDMPMEHVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNI 360
                  + +IS +DA CCICL+ Y D  ++RELPC H FH  C+DKWL IN+TCPLCK  +
Sbjct:   340 LGSQKKRLISGEDASCCICLTRYGDDEQVRELPCSHVFHVDCVDKWLKINATCPLCKNEV 399

Query:   361 LKMSN 365
              + S+
Sbjct:   400 GESSS 404

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2161740 AT5G55970 [Arabidopsis thaliana (taxid:3702)]

 Score = 179 (68.1 bits), Expect = 6.5e-24, Sum P(2) = 6.5e-24
 Identities = 30/57 (52%), Positives = 37/57 (64%)

Query:   301 TDMPMEHVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCK 357
             +D   +     DD ECCICL+ Y D  E+R+LPC H FH  C+D+WL I S CPLCK
Sbjct:   282 SDSDSDSATVTDDPECCICLAKYKDKEEVRKLPCSHKFHSKCVDQWLRIISCCPLCK 338

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

TAIR|locus:2133877 AT4G26580 [Arabidopsis thaliana (taxid:3702)]

 Score = 171 (65.3 bits), Expect = 7.9e-23, Sum P(2) = 7.9e-23
 Identities = 27/48 (56%), Positives = 35/48 (72%)

Query:   310 SEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCK 357
             + +D ECCICL+ Y +  E+R+LPC H FH  C+D+WL I S CPLCK
Sbjct:   283 ANNDPECCICLAKYKEKEEVRKLPCSHRFHLKCVDQWLRIISCCPLCK 330

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

No EC number assignment, probably not an enzyme!

---

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	372
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	1e-13
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	2e-09
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	7e-08
smart00184	40	smart00184, RING, Ring finger	3e-07
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	1e-06
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	2e-06
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	3e-06
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	1e-04
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	3e-04
smart00744	49	smart00744, RINGv, The RING-variant domain is a C4	0.001

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

 Score = 64.3 bits (157), Expect = 1e-13
 Identities = 24/43 (55%), Positives = 30/43 (69%)

Query: 315 ECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCK 357
           EC ICL  ++ G E+  LPC H FH  CLDKWL  ++TCPLC+
Sbjct: 2   ECPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSNTCPLCR 44

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 = 52.1 bits (125), Expect = 2e-09
 Identities = 23/47 (48%), Positives = 28/47 (59%), Gaps = 3/47 (6%)

Query: 315 ECCICLSAYDDGTELRELPCLHHFHCSCLDKWL-YINSTCPLCKFNI 360
           EC ICL  + +   L  LPC H F  SC+DKWL    +TCPLC+  I
Sbjct: 1   ECPICLEEFREPVVL--LPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 53.5 bits (128), Expect = 7e-08
 Identities = 22/44 (50%), Positives = 27/44 (61%), Gaps = 1/44 (2%)

Query: 315 ECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINS-TCPLCK 357
           EC IC+S +     LR LPC H FH  C+DKWL   S  CP+C+
Sbjct: 325 ECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCR 368

Length = 374

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

 Score = 46.0 bits (109), Expect = 3e-07
 Identities = 20/42 (47%), Positives = 24/42 (57%), Gaps = 3/42 (7%)

Query: 316 CCICLSAYDDGTELRELPCLHHFHCSCLDKWLYI-NSTCPLC 356
           C ICL  Y    +   LPC H F  SC+ KWL   N+TCP+C
Sbjct: 1   CPICLEEYL--KDPVILPCGHTFCRSCIRKWLESGNNTCPIC 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|221705 pfam12678, zf-rbx1, RING-H2 zinc finger

 Score = 45.5 bits (108), Expect = 1e-06
 Identities = 18/56 (32%), Positives = 26/56 (46%), Gaps = 10/56 (17%)

Query: 312 DDAECCICLSAYD----------DGTELRELPCLHHFHCSCLDKWLYINSTCPLCK 357
           +D  C IC + +D          D   +    C H FH  C+ +WL   +TCPLC+
Sbjct: 18  EDDVCAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLCR 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|215715 pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING finger)

 Score = 43.6 bits (103), Expect = 2e-06
 Identities = 19/42 (45%), Positives = 21/42 (50%), Gaps = 3/42 (7%)

Query: 316 CCICLSAYDDGTELRELPCLHHFHCSCLDKWL-YINSTCPLC 356
           C ICL    D   +  LPC H F   C+  WL   N TCPLC
Sbjct: 1   CPICLEEPKDPVTI--LPCGHLFCSKCILSWLESGNVTCPLC 40

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

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

 Score = 43.3 bits (102), Expect = 3e-06
 Identities = 16/46 (34%), Positives = 24/46 (52%), Gaps = 2/46 (4%)

Query: 312 DDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCK 357
           ++ EC ICL    D   +   PC H F   C+ ++L   S CP+C+
Sbjct: 1   EELECPICLDLLRD--PVVLTPCGHVFCRECILRYLKKKSKCPICR 44

Length = 45

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

 Score = 43.9 bits (103), Expect = 1e-04
 Identities = 28/96 (29%), Positives = 36/96 (37%), Gaps = 23/96 (23%)

Query: 276  SRIDGLEKVNGEIQEPFGGIMIECDTDMPMEHVISEDDAECCIC---LSAYDDGTELREL 332
             R + + K NG   +  G  + + + D            EC IC   L   D     R L
Sbjct: 1439 LRQNEMIKKNGSFMDLLG--LWKKNIDEKFSGH-----EECAICYSVLDMVD-----RSL 1486

Query: 333  P------CLHHFHCSCLDKWLYI--NSTCPLCKFNI 360
            P      C + FH  CL KW      S CPLC+  I
Sbjct: 1487 PSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEI 1522

Length = 1525

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

 Score = 42.3 bits (99), Expect = 3e-04
 Identities = 18/62 (29%), Positives = 24/62 (38%), Gaps = 10/62 (16%)

Query: 306 EHVISEDDAECCICLSAY----------DDGTELRELPCLHHFHCSCLDKWLYINSTCPL 355
           E  ++  D  C IC+                   + LPC H  H  CL  WL    TCP+
Sbjct: 280 EEQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPI 339

Query: 356 CK 357
           C+
Sbjct: 340 CR 341

Length = 491

>gnl|CDD|128983 smart00744, RINGv, The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins

 Score = 36.1 bits (84), Expect = 0.001
 Identities = 18/49 (36%), Positives = 24/49 (48%), Gaps = 8/49 (16%)

Query: 316 CCICLSAYDDGTELRELPC-----LHHFHCSCLDKWLYI--NSTCPLCK 357
           C IC    D+G  L   PC     L + H  CL++W+    N TC +CK
Sbjct: 2   CRICHDEGDEGDPL-VSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49

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 Classical RING domain: C-x (2) -C-x (9-39)-C-x(1-3)-H-x(2-3)-C-x(2)-C-x(4-48) -C-x(2)-C. Length = 49

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	372
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.78
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.53
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.3
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.26
PHA02929	238	N1R/p28-like protein; Provisional	99.24
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.15
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.02
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	98.99
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.94
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.91
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.9
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.84
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.81
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.81
PF14634	44	zf-RING_5: zinc-RING finger domain	98.67
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.66
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.65
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.63
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.63
PHA02926	242	zinc finger-like protein; Provisional	98.61
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.56
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.45
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.41
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.4
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.38
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.23
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.22
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.2
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	98.19
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.14
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.02
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	98.01
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.0
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	97.95
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	97.88
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	97.86
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	97.84
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	97.83
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	97.7
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.68
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.53
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	97.52
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	97.43
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.32
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	97.24
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.19
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.18
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	97.07
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	96.98
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	96.94
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	96.87
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	96.81
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.74
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	96.68
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	96.57
KOG0297	391	consensus TNF receptor-associated factor [Signal t	96.42
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	96.37
PHA02862	156	5L protein; Provisional	96.25
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	96.08
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	95.73
PHA02825	162	LAP/PHD finger-like protein; Provisional	95.71
COG5152	259	Uncharacterized conserved protein, contains RING a	95.53
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	95.49
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	95.45
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	95.41
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	95.39
KOG1002	791	consensus Nucleotide excision repair protein RAD16	95.03
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	94.72
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	94.64
KOG2660	331	consensus Locus-specific chromosome binding protei	94.59
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	94.46
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	94.2
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	94.17
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	93.87
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	93.84
PHA03096	284	p28-like protein; Provisional	93.62
KOG3039	303	consensus Uncharacterized conserved protein [Funct	93.23
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	92.7
KOG1609	323	consensus Protein involved in mRNA turnover and st	92.36
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	92.09
COG5236	493	Uncharacterized conserved protein, contains RING Z	91.72
PF04641	260	Rtf2: Rtf2 RING-finger	91.23
KOG1940	276	consensus Zn-finger protein [General function pred	91.09
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	90.9
COG5222	427	Uncharacterized conserved protein, contains RING Z	90.27
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	89.55
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	88.99
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	88.73
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	88.23
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	88.23
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	88.05
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	87.97
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	87.84
PF11023	114	DUF2614: Protein of unknown function (DUF2614); In	87.63
KOG1001	674	consensus Helicase-like transcription factor HLTF/	86.6
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	85.08
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	84.74
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	84.47
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	82.7
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	82.55
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	81.2
KOG0298	1394	consensus DEAD box-containing helicase-like transc	80.82
COG5175	480	MOT2 Transcriptional repressor [Transcription]	80.48

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

Probab=99.78  E-value=3e-19  Score=175.18  Aligned_cols=79  Identities=38%  Similarity=0.822  Sum_probs=68.5

Q ss_pred             ccCCCCHHHHhcCCceEeeeccCcccccCCCCCCCCccccccCCCCCcccccCCCCceeeeecccccCCCceEEeCCCCc
Q 017405          258 EREGATEEEIDRLPKFKFSRIDGLEKVNGEIQEPFGGIMIECDTDMPMEHVISEDDAECCICLSAYDDGTELRELPCLHH  337 (372)
Q Consensus       258 ~~~g~s~~~I~~Lp~~k~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~e~~~~~ed~eC~ICL~~y~~~d~lr~LPC~H~  337 (372)
                      +.+++.++.+.++|..+|+..+..++                            . ..|+|||++|+.||++|.|||+|.
T Consensus       203 ~~~r~~k~~l~~~p~~~f~~~~~~~~----------------------------~-~~CaIClEdY~~GdklRiLPC~H~  253 (348)
T KOG4628|consen  203 RRNRLIKRLLKKLPVRTFTKGDDEDA----------------------------T-DTCAICLEDYEKGDKLRILPCSHK  253 (348)
T ss_pred             hhhhhHHHHHhhCCcEEeccccccCC----------------------------C-ceEEEeecccccCCeeeEecCCCc
Confidence            45688999999999999988765421                            1 589999999999999999999999


Q ss_pred             ccHHHHHHHHhcCCC-CccccccccccCC
Q 017405          338 FHCSCLDKWLYINST-CPLCKFNILKMSN  365 (372)
Q Consensus       338 FH~~CId~WL~~~~t-CPlCR~~I~~~~~  365 (372)
                      ||..|||+||..+.+ ||+||+++.+...
T Consensus       254 FH~~CIDpWL~~~r~~CPvCK~di~~~~~  282 (348)
T KOG4628|consen  254 FHVNCIDPWLTQTRTFCPVCKRDIRTDSG  282 (348)
T ss_pred             hhhccchhhHhhcCccCCCCCCcCCCCCC
Confidence            999999999998755 9999999976553

>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=99.53  E-value=2.6e-15  Score=105.68  Aligned_cols=44  Identities=48%  Similarity=1.205  Sum_probs=40.9

Q ss_pred             ceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCcccc
Q 017405          314 AECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCK  357 (372)
Q Consensus       314 ~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR  357 (372)
                      ++|+||+++|++++.++.|+|+|.||.+||.+|++.+.+||+||
T Consensus         1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence            37999999999999999999999999999999999999999997

...

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

Probab=99.30  E-value=1.1e-12  Score=125.23  Aligned_cols=51  Identities=43%  Similarity=1.040  Sum_probs=47.2

Q ss_pred             CCceeeeecccccCCCceEEeCCCCcccHHHHHHHHh-cCCCCccccccccc
Q 017405          312 DDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLY-INSTCPLCKFNILK  362 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~-~~~tCPlCR~~I~~  362 (372)
                      ...+|+|||++|-.+|.++.|||+|.||..||++|+. -+..||+||.++++
T Consensus       322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            3479999999999999999999999999999999998 57789999999976

>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=99.26  E-value=3.4e-12  Score=99.67  Aligned_cols=45  Identities=42%  Similarity=0.988  Sum_probs=36.9

Q ss_pred             CceeeeecccccCC----------CceEEeCCCCcccHHHHHHHHhcCCCCcccc
Q 017405          313 DAECCICLSAYDDG----------TELRELPCLHHFHCSCLDKWLYINSTCPLCK  357 (372)
Q Consensus       313 d~eC~ICL~~y~~~----------d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR  357 (372)
                      ++.|+||++.|.+.          -.+...+|+|.||..||.+||+.+.+||+||
T Consensus        19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            45699999999432          3556668999999999999999999999997

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

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.24  E-value=4.5e-12  Score=119.70  Aligned_cols=50  Identities=32%  Similarity=0.748  Sum_probs=41.8

Q ss_pred             CCceeeeecccccCCCc----eEE-eCCCCcccHHHHHHHHhcCCCCcccccccc
Q 017405          312 DDAECCICLSAYDDGTE----LRE-LPCLHHFHCSCLDKWLYINSTCPLCKFNIL  361 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~----lr~-LPC~H~FH~~CId~WL~~~~tCPlCR~~I~  361 (372)
                      .+.+|+||++.+.+++.    +.. ++|+|.||.+||.+|++.+.+||+||.++.
T Consensus       173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~  227 (238)
T PHA02929        173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI  227 (238)
T ss_pred             CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence            45799999999876531    233 469999999999999999999999999875

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

Probab=99.15  E-value=4.9e-11  Score=116.83  Aligned_cols=53  Identities=32%  Similarity=0.910  Sum_probs=44.5

Q ss_pred             cCCCCceeeeeccc-ccCCC---------ceEEeCCCCcccHHHHHHHHhcCCCCcccccccc
Q 017405          309 ISEDDAECCICLSA-YDDGT---------ELRELPCLHHFHCSCLDKWLYINSTCPLCKFNIL  361 (372)
Q Consensus       309 ~~~ed~eC~ICL~~-y~~~d---------~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~  361 (372)
                      +..+|..|.||+++ ++.+.         +-..|||||.||.+|++.|+++.++||+||.++.
T Consensus       283 l~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~i  345 (491)
T COG5243         283 LTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVI  345 (491)
T ss_pred             hcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccc
Confidence            34567899999999 55441         3368999999999999999999999999999953

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

Probab=99.02  E-value=2.1e-10  Score=109.44  Aligned_cols=57  Identities=28%  Similarity=0.638  Sum_probs=49.6

Q ss_pred             cccccCCCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCccccccccccC
Q 017405          305 MEHVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMS  364 (372)
Q Consensus       305 ~e~~~~~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~~~  364 (372)
                      .+..+.+.+..|.+||+..+++   -.+||||+||+.||..|+..+..||+||....+..
T Consensus       231 ~~~~i~~a~~kC~LCLe~~~~p---SaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~psk  287 (293)
T KOG0317|consen  231 SLSSIPEATRKCSLCLENRSNP---SATPCGHIFCWSCILEWCSEKAECPLCREKFQPSK  287 (293)
T ss_pred             CCccCCCCCCceEEEecCCCCC---CcCcCcchHHHHHHHHHHccccCCCcccccCCCcc
Confidence            3445566778999999999888   78999999999999999999999999999887643

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=98.99  E-value=3.5e-10  Score=103.20  Aligned_cols=51  Identities=35%  Similarity=0.787  Sum_probs=42.8

Q ss_pred             CCCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhc----------------CCCCcccccccccc
Q 017405          310 SEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYI----------------NSTCPLCKFNILKM  363 (372)
Q Consensus       310 ~~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~----------------~~tCPlCR~~I~~~  363 (372)
                      ..++.+|+||++.++++   ..++|+|.||+.||.+|+..                ...||+||.++...
T Consensus        15 ~~~~~~CpICld~~~dP---VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~   81 (193)
T PLN03208         15 SGGDFDCNICLDQVRDP---VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEA   81 (193)
T ss_pred             CCCccCCccCCCcCCCc---EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChh
Confidence            44568999999999887   67899999999999999852                24799999988653

>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=98.94  E-value=6.5e-10  Score=76.47  Aligned_cols=44  Identities=50%  Similarity=1.056  Sum_probs=36.8

Q ss_pred             eeeeecccccCCCceEEeCCCCcccHHHHHHHHhc-CCCCccccccc
Q 017405          315 ECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYI-NSTCPLCKFNI  360 (372)
Q Consensus       315 eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~-~~tCPlCR~~I  360 (372)
                      +|+||++.+  .+.+...+|+|.||.+|+++|++. +..||.||.++
T Consensus         1 ~C~iC~~~~--~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEF--REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhh--hCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            499999998  334555669999999999999997 77899999764

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

Probab=98.91  E-value=1.4e-09  Score=101.17  Aligned_cols=51  Identities=31%  Similarity=0.621  Sum_probs=43.1

Q ss_pred             CCCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcC---CCCcccccccccc
Q 017405          310 SEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYIN---STCPLCKFNILKM  363 (372)
Q Consensus       310 ~~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~---~tCPlCR~~I~~~  363 (372)
                      .....+|.|||+.-+|+   +...|||.||+.||.+||+..   ..||+||.+|...
T Consensus        44 ~~~~FdCNICLd~akdP---VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~   97 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKDP---VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSID   97 (230)
T ss_pred             CCCceeeeeeccccCCC---EEeecccceehHHHHHHHhhcCCCeeCCccccccccc
Confidence            34567999999998888   677899999999999999863   4599999988653

>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=98.90  E-value=6.7e-10  Score=80.18  Aligned_cols=47  Identities=36%  Similarity=0.762  Sum_probs=40.2

Q ss_pred             CceeeeecccccCCCceEEeCCCCc-ccHHHHHHHHhcCCCCccccccccc
Q 017405          313 DAECCICLSAYDDGTELRELPCLHH-FHCSCLDKWLYINSTCPLCKFNILK  362 (372)
Q Consensus       313 d~eC~ICL~~y~~~d~lr~LPC~H~-FH~~CId~WL~~~~tCPlCR~~I~~  362 (372)
                      +..|.||++...+   +..+||+|. |+.+|+.+|++.+..||+||++|..
T Consensus         2 ~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~   49 (50)
T PF13920_consen    2 DEECPICFENPRD---VVLLPCGHLCFCEECAERLLKRKKKCPICRQPIES   49 (50)
T ss_dssp             HSB-TTTSSSBSS---EEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-SE
T ss_pred             cCCCccCCccCCc---eEEeCCCChHHHHHHhHHhcccCCCCCcCChhhcC
Confidence            4689999998655   588999999 9999999999999999999998853

...

>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=98.84  E-value=1.9e-09  Score=73.85  Aligned_cols=39  Identities=41%  Similarity=0.962  Sum_probs=33.8

Q ss_pred             eeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCccc
Q 017405          316 CCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLC  356 (372)
Q Consensus       316 C~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlC  356 (372)
                      |+||++.+.+  .+..++|||.|+.+||.+|++.+..||.|
T Consensus         1 C~iC~~~~~~--~~~~~~CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRD--PVVVTPCGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SS--EEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccC--cCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence            8999999887  45688999999999999999999999998

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

Probab=98.81  E-value=1.8e-09  Score=113.80  Aligned_cols=57  Identities=35%  Similarity=0.779  Sum_probs=49.1

Q ss_pred             ccCCCCceeeeecccccCCCc--eEEeCCCCcccHHHHHHHHhcCCCCccccccccccC
Q 017405          308 VISEDDAECCICLSAYDDGTE--LRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMS  364 (372)
Q Consensus       308 ~~~~ed~eC~ICL~~y~~~d~--lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~~~  364 (372)
                      .....+..|+||++.+..+++  ...|||+|.||..|+.+|+++.++||.||..+....
T Consensus       286 ~~~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~~~~  344 (543)
T KOG0802|consen  286 GLALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLYDYV  344 (543)
T ss_pred             hhhhcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhhccc
Confidence            345568999999999999765  688999999999999999999999999999554443

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

Probab=98.81  E-value=4e-09  Score=84.18  Aligned_cols=51  Identities=35%  Similarity=0.780  Sum_probs=40.2

Q ss_pred             CCceeeeecccccC--------CC--ceEEeCCCCcccHHHHHHHHhc---CCCCccccccccc
Q 017405          312 DDAECCICLSAYDD--------GT--ELRELPCLHHFHCSCLDKWLYI---NSTCPLCKFNILK  362 (372)
Q Consensus       312 ed~eC~ICL~~y~~--------~d--~lr~LPC~H~FH~~CId~WL~~---~~tCPlCR~~I~~  362 (372)
                      +|+.|.||...|+.        ||  .+..-.|+|.||..||.+|+..   +..||+||++..-
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            47899999999982        22  4444459999999999999985   4679999987643

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.67  E-value=1.5e-08  Score=71.36  Aligned_cols=44  Identities=32%  Similarity=0.707  Sum_probs=39.3

Q ss_pred             eeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCccccc
Q 017405          315 ECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKF  358 (372)
Q Consensus       315 eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~  358 (372)
                      +|.||.+.|.+....+.++|+|.|+.+|+++.......||+||+
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            49999999977778899999999999999999966778999985

>smart00184 RING Ring finger

Probab=98.66  E-value=1.9e-08  Score=66.64  Aligned_cols=38  Identities=50%  Similarity=1.050  Sum_probs=32.7

Q ss_pred             eeeecccccCCCceEEeCCCCcccHHHHHHHHh-cCCCCccc
Q 017405          316 CCICLSAYDDGTELRELPCLHHFHCSCLDKWLY-INSTCPLC  356 (372)
Q Consensus       316 C~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~-~~~tCPlC  356 (372)
                      |+||++.   ......+||+|.||.+|+++|++ .+..||+|
T Consensus         1 C~iC~~~---~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEE---LKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccC---CCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            7899988   34558899999999999999998 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)

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

Probab=98.65  E-value=1.3e-08  Score=71.10  Aligned_cols=38  Identities=42%  Similarity=0.917  Sum_probs=30.7

Q ss_pred             eeeecccccCCCceEEeCCCCcccHHHHHHHHhcC----CCCccc
Q 017405          316 CCICLSAYDDGTELRELPCLHHFHCSCLDKWLYIN----STCPLC  356 (372)
Q Consensus       316 C~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~----~tCPlC  356 (372)
                      |+||++.|+++   ..|+|||.|+..||.+|.+..    ..||.|
T Consensus         1 CpiC~~~~~~P---v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDP---VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSE---EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCc---cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            89999999999   899999999999999999754    369988

>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=98.63  E-value=1.4e-08  Score=70.01  Aligned_cols=39  Identities=49%  Similarity=1.081  Sum_probs=34.5

Q ss_pred             eeeecccccCCCceEEeCCCCcccHHHHHHHHh--cCCCCccc
Q 017405          316 CCICLSAYDDGTELRELPCLHHFHCSCLDKWLY--INSTCPLC  356 (372)
Q Consensus       316 C~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~--~~~tCPlC  356 (372)
                      |+||++.++++.  +.++|+|.|+.+||.+|++  ....||+|
T Consensus         1 C~iC~~~~~~~~--~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPV--ILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEE--EETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCCC--EEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            899999988873  5889999999999999999  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 ....

>smart00504 Ubox Modified RING finger domain

Probab=98.63  E-value=2.9e-08  Score=74.29  Aligned_cols=46  Identities=24%  Similarity=0.397  Sum_probs=41.7

Q ss_pred             ceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCccccccccc
Q 017405          314 AECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILK  362 (372)
Q Consensus       314 ~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~  362 (372)
                      ..|+||.+.++++   ..+||||.|+..||.+|++.+.+||.|+.++..
T Consensus         2 ~~Cpi~~~~~~~P---v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~   47 (63)
T smart00504        2 FLCPISLEVMKDP---VILPSGQTYERRAIEKWLLSHGTDPVTGQPLTH   47 (63)
T ss_pred             cCCcCCCCcCCCC---EECCCCCEEeHHHHHHHHHHCCCCCCCcCCCCh
Confidence            4699999999998   678999999999999999999999999988754

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

>PHA02926 zinc finger-like protein; Provisional

Probab=98.61  E-value=1.9e-08  Score=93.19  Aligned_cols=51  Identities=25%  Similarity=0.681  Sum_probs=37.9

Q ss_pred             CCCceeeeecccccCC-----CceEEe-CCCCcccHHHHHHHHhcC------CCCcccccccc
Q 017405          311 EDDAECCICLSAYDDG-----TELREL-PCLHHFHCSCLDKWLYIN------STCPLCKFNIL  361 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~-----d~lr~L-PC~H~FH~~CId~WL~~~------~tCPlCR~~I~  361 (372)
                      ..+.+|+||++..-+.     ...-.| +|+|.||..||++|-+.+      .+||+||....
T Consensus       168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~  230 (242)
T PHA02926        168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR  230 (242)
T ss_pred             cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence            3568999999886332     112244 599999999999999753      35999998664

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

Probab=98.56  E-value=1.6e-08  Score=95.79  Aligned_cols=52  Identities=31%  Similarity=0.657  Sum_probs=44.7

Q ss_pred             CCCceeeeecccccCCC-------ceEEeCCCCcccHHHHHHHHh--cCCCCccccccccc
Q 017405          311 EDDAECCICLSAYDDGT-------ELRELPCLHHFHCSCLDKWLY--INSTCPLCKFNILK  362 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d-------~lr~LPC~H~FH~~CId~WL~--~~~tCPlCR~~I~~  362 (372)
                      .+|..|+||-..+....       +..+|.|+|.||..||+.|.-  ++++||-||..+..
T Consensus       222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl  282 (328)
T KOG1734|consen  222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDL  282 (328)
T ss_pred             CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhH
Confidence            46789999999997665       788999999999999999964  67899999987653

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

Probab=98.45  E-value=8.2e-08  Score=86.12  Aligned_cols=50  Identities=26%  Similarity=0.574  Sum_probs=42.8

Q ss_pred             CceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCcccccccccc
Q 017405          313 DAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKM  363 (372)
Q Consensus       313 d~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~~  363 (372)
                      -..|+|||+.|.+... .-..|||+||++||+.-++....||+|++.|.++
T Consensus       131 ~~~CPiCl~~~sek~~-vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k  180 (187)
T KOG0320|consen  131 TYKCPICLDSVSEKVP-VSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHK  180 (187)
T ss_pred             ccCCCceecchhhccc-cccccchhHHHHHHHHHHHhCCCCCCcccccchh
Confidence            4679999999988633 2467999999999999999999999999877654

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.41  E-value=1.3e-07  Score=95.62  Aligned_cols=48  Identities=27%  Similarity=0.610  Sum_probs=43.1

Q ss_pred             CCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCccccccccc
Q 017405          312 DDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILK  362 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~  362 (372)
                      ....|+||++.|.++   ..+||+|.||..||..|+.....||+||..+..
T Consensus        25 ~~l~C~IC~d~~~~P---vitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~   72 (397)
T TIGR00599        25 TSLRCHICKDFFDVP---VLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQE   72 (397)
T ss_pred             cccCCCcCchhhhCc---cCCCCCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence            457899999999887   578999999999999999988899999998764

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

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

Probab=98.40  E-value=2e-07  Score=73.08  Aligned_cols=48  Identities=29%  Similarity=0.622  Sum_probs=34.7

Q ss_pred             eeeecccccCCCceEEe--CCCCcccHHHHHHHHhcCCCCcccccccccc
Q 017405          316 CCICLSAYDDGTELREL--PCLHHFHCSCLDKWLYINSTCPLCKFNILKM  363 (372)
Q Consensus       316 C~ICL~~y~~~d~lr~L--PC~H~FH~~CId~WL~~~~tCPlCR~~I~~~  363 (372)
                      |+-|......+++....  -|+|.||..||.+||..+..||++++...-.
T Consensus        34 C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~   83 (88)
T COG5194          34 CPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLA   83 (88)
T ss_pred             CcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEe
Confidence            33444444445543322  3999999999999999999999999876543

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

Probab=98.38  E-value=2.4e-07  Score=66.93  Aligned_cols=42  Identities=33%  Similarity=0.794  Sum_probs=33.7

Q ss_pred             eeeeecccccCCCceEEeCCC-----CcccHHHHHHHHhcC--CCCcccc
Q 017405          315 ECCICLSAYDDGTELRELPCL-----HHFHCSCLDKWLYIN--STCPLCK  357 (372)
Q Consensus       315 eC~ICL~~y~~~d~lr~LPC~-----H~FH~~CId~WL~~~--~tCPlCR  357 (372)
                      .|-||++ .+++++....||.     |.+|.+|+++|+..+  .+||+|+
T Consensus         1 ~CrIC~~-~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHD-EGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCC-CCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            3889999 4455555689986     999999999999654  4899995

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

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

Probab=98.23  E-value=4.4e-07  Score=92.14  Aligned_cols=50  Identities=32%  Similarity=0.847  Sum_probs=40.1

Q ss_pred             CceeeeecccccC---CC-----------ceEEeCCCCcccHHHHHHHHh-cCCCCccccccccc
Q 017405          313 DAECCICLSAYDD---GT-----------ELRELPCLHHFHCSCLDKWLY-INSTCPLCKFNILK  362 (372)
Q Consensus       313 d~eC~ICL~~y~~---~d-----------~lr~LPC~H~FH~~CId~WL~-~~~tCPlCR~~I~~  362 (372)
                      ...|+||+.+.+-   +.           .....||+|+||..|+.+|.. .+-.||+||.++++
T Consensus       571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             cccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            3689999998752   11           233569999999999999999 56689999999875

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

Probab=98.22  E-value=9.2e-07  Score=83.91  Aligned_cols=52  Identities=31%  Similarity=0.641  Sum_probs=45.1

Q ss_pred             CCCCceeeeecccccCCCceEEeCCCCcccHHHHHH-HHhcCCC-CccccccccccC
Q 017405          310 SEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDK-WLYINST-CPLCKFNILKMS  364 (372)
Q Consensus       310 ~~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~-WL~~~~t-CPlCR~~I~~~~  364 (372)
                      ...|..|.||++..++.   ..+||||+|++.||-. |-+.+.. ||+||+.+.++.
T Consensus       212 p~~d~kC~lC~e~~~~p---s~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~  265 (271)
T COG5574         212 PLADYKCFLCLEEPEVP---SCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK  265 (271)
T ss_pred             cccccceeeeecccCCc---ccccccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence            35688999999998887   7889999999999999 9888777 999998876654

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

Probab=98.20  E-value=3.6e-07  Score=71.08  Aligned_cols=49  Identities=37%  Similarity=0.892  Sum_probs=36.4

Q ss_pred             CceeeeecccccC--------CCceE-Ee-CCCCcccHHHHHHHHhcC---CCCcccccccc
Q 017405          313 DAECCICLSAYDD--------GTELR-EL-PCLHHFHCSCLDKWLYIN---STCPLCKFNIL  361 (372)
Q Consensus       313 d~eC~ICL~~y~~--------~d~lr-~L-PC~H~FH~~CId~WL~~~---~tCPlCR~~I~  361 (372)
                      +.+|.||...|+.        ||..- .+ -|.|.||..||.+|+...   ..||+||++..
T Consensus        20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            4589999999973        22211 22 299999999999999754   45999998754

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

Probab=98.19  E-value=7.2e-07  Score=89.86  Aligned_cols=51  Identities=37%  Similarity=0.897  Sum_probs=42.8

Q ss_pred             cCCCCceeeeecccccCCC-ceEEeCCCCcccHHHHHHHHhcCCCCcccccccc
Q 017405          309 ISEDDAECCICLSAYDDGT-ELRELPCLHHFHCSCLDKWLYINSTCPLCKFNIL  361 (372)
Q Consensus       309 ~~~ed~eC~ICL~~y~~~d-~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~  361 (372)
                      ...|-.+|++||+.+++.. .++...|+|.||..|+.+|-  ..+||+||+-..
T Consensus       171 ~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~q~  222 (493)
T KOG0804|consen  171 GLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRYCQS  222 (493)
T ss_pred             CcccCCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhhhcC
Confidence            3446789999999998774 67778899999999999997  567999998554

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

Probab=98.14  E-value=1.2e-06  Score=61.52  Aligned_cols=34  Identities=32%  Similarity=0.588  Sum_probs=21.7

Q ss_pred             eeeecccccCCC-ceEEeCCCCcccHHHHHHHHhcC
Q 017405          316 CCICLSAYDDGT-ELRELPCLHHFHCSCLDKWLYIN  350 (372)
Q Consensus       316 C~ICL~~y~~~d-~lr~LPC~H~FH~~CId~WL~~~  350 (372)
                      |+||.+ |.+++ .-+.|||||.|+.+||+++++.+
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~   35 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKS   35 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcC
Confidence            899999 86643 44779999999999999999854

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

Probab=98.02  E-value=2.6e-06  Score=66.41  Aligned_cols=49  Identities=24%  Similarity=0.385  Sum_probs=39.5

Q ss_pred             CCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhc-CCCCcccccccccc
Q 017405          312 DDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYI-NSTCPLCKFNILKM  363 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~-~~tCPlCR~~I~~~  363 (372)
                      +...|+|+.+-+.++   ..+||||.|...||.+|++. +.+||+|+.++...
T Consensus         3 ~~f~CpIt~~lM~dP---Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~   52 (73)
T PF04564_consen    3 DEFLCPITGELMRDP---VILPSGHTYERSAIERWLEQNGGTDPFTRQPLSES   52 (73)
T ss_dssp             GGGB-TTTSSB-SSE---EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGG
T ss_pred             cccCCcCcCcHhhCc---eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcc
Confidence            346899999999999   88999999999999999998 88999999888754

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 ....

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

Probab=98.01  E-value=2.6e-06  Score=70.01  Aligned_cols=27  Identities=37%  Similarity=0.942  Sum_probs=25.2

Q ss_pred             CCCcccHHHHHHHHhcCCCCccccccc
Q 017405          334 CLHHFHCSCLDKWLYINSTCPLCKFNI  360 (372)
Q Consensus       334 C~H~FH~~CId~WL~~~~tCPlCR~~I  360 (372)
                      |+|.||..||.+||+.++.||||.++=
T Consensus        81 CNHaFH~hCisrWlktr~vCPLdn~eW  107 (114)
T KOG2930|consen   81 CNHAFHFHCISRWLKTRNVCPLDNKEW  107 (114)
T ss_pred             cchHHHHHHHHHHHhhcCcCCCcCcce
Confidence            999999999999999999999997653

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

Probab=98.00  E-value=1.4e-06  Score=93.99  Aligned_cols=48  Identities=46%  Similarity=1.007  Sum_probs=39.1

Q ss_pred             CCCceeeeeccccc-CCCceEEeC------CCCcccHHHHHHHHhc--CCCCcccccccc
Q 017405          311 EDDAECCICLSAYD-DGTELRELP------CLHHFHCSCLDKWLYI--NSTCPLCKFNIL  361 (372)
Q Consensus       311 ~ed~eC~ICL~~y~-~~d~lr~LP------C~H~FH~~CId~WL~~--~~tCPlCR~~I~  361 (372)
                      +...||+||..-.. .+   |.||      |.|-||..|+.||++.  +++||+||.+|+
T Consensus      1467 sG~eECaICYsvL~~vd---r~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1467 SGHEECAICYSVLDMVD---RSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             CCcchhhHHHHHHHHHh---ccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            45679999998877 33   5555      7899999999999986  457999998875

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

Probab=97.95  E-value=1.7e-06  Score=67.11  Aligned_cols=49  Identities=35%  Similarity=0.732  Sum_probs=24.4

Q ss_pred             ceeeeecccccCCCceEEe-----CCCCcccHHHHHHHHhc-----------CCCCccccccccc
Q 017405          314 AECCICLSAYDDGTELREL-----PCLHHFHCSCLDKWLYI-----------NSTCPLCKFNILK  362 (372)
Q Consensus       314 ~eC~ICL~~y~~~d~lr~L-----PC~H~FH~~CId~WL~~-----------~~tCPlCR~~I~~  362 (372)
                      .+|.||.+...+++++-.+     .|++.||..|+.+||..           ..+||.|+.+|.-
T Consensus         3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~   67 (70)
T PF11793_consen    3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW   67 (70)
T ss_dssp             -S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred             CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence            5899999987744433222     38899999999999963           1249999998864

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

Probab=97.88  E-value=6.4e-06  Score=81.77  Aligned_cols=46  Identities=39%  Similarity=0.931  Sum_probs=37.2

Q ss_pred             CceeeeecccccCCCceEEeC-CCCcccHHHHHHHHhc---CCCCccccc
Q 017405          313 DAECCICLSAYDDGTELRELP-CLHHFHCSCLDKWLYI---NSTCPLCKF  358 (372)
Q Consensus       313 d~eC~ICL~~y~~~d~lr~LP-C~H~FH~~CId~WL~~---~~tCPlCR~  358 (372)
                      .++|.||.+-+....++--.. |||+||..|+.+|+..   +.+||.||-
T Consensus         4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~i   53 (465)
T KOG0827|consen    4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQI   53 (465)
T ss_pred             cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceee
Confidence            379999966666666676666 9999999999999985   347999993

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

Probab=97.86  E-value=7.4e-06  Score=84.05  Aligned_cols=48  Identities=27%  Similarity=0.603  Sum_probs=39.1

Q ss_pred             CceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcC-----CCCcccccccccc
Q 017405          313 DAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYIN-----STCPLCKFNILKM  363 (372)
Q Consensus       313 d~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~-----~tCPlCR~~I~~~  363 (372)
                      +..|+|||+...-.   ..+.|||+||..||-+.+...     ..||+|+..|..+
T Consensus       186 ~~~CPICL~~~~~p---~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~k  238 (513)
T KOG2164|consen  186 DMQCPICLEPPSVP---VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLK  238 (513)
T ss_pred             CCcCCcccCCCCcc---cccccCceeeHHHHHHHHhhhcccCCccCCchhhhcccc
Confidence            88999999997766   344499999999999987644     4699999888664

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=97.84  E-value=1.1e-05  Score=79.01  Aligned_cols=53  Identities=28%  Similarity=0.548  Sum_probs=39.7

Q ss_pred             CCceeeeeccc-ccCCC-ceEEeCCCCcccHHHHHHHHh-cCCCCccccccccccC
Q 017405          312 DDAECCICLSA-YDDGT-ELRELPCLHHFHCSCLDKWLY-INSTCPLCKFNILKMS  364 (372)
Q Consensus       312 ed~eC~ICL~~-y~~~d-~lr~LPC~H~FH~~CId~WL~-~~~tCPlCR~~I~~~~  364 (372)
                      ++..|++|..+ |-.++ .+..-+|||.||..||+..+. ....||.|+.++.+.+
T Consensus         2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~   57 (309)
T TIGR00570         2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN   57 (309)
T ss_pred             CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence            34689999996 55544 233337999999999999654 4567999999887654

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).

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

Probab=97.83  E-value=5.8e-06  Score=77.32  Aligned_cols=44  Identities=32%  Similarity=0.787  Sum_probs=39.9

Q ss_pred             CCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCcccc
Q 017405          311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCK  357 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR  357 (372)
                      .+...|+||++.|.++   ..|||+|.|+..|+..++.....||.||
T Consensus        11 ~~~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~~~~~Cp~cr   54 (386)
T KOG2177|consen   11 QEELTCPICLEYFREP---VLLPCGHNFCRACLTRSWEGPLSCPVCR   54 (386)
T ss_pred             cccccChhhHHHhhcC---ccccccchHhHHHHHHhcCCCcCCcccC
Confidence            4567899999999999   8899999999999999998556799999

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

Probab=97.70  E-value=1.3e-05  Score=78.56  Aligned_cols=47  Identities=28%  Similarity=0.701  Sum_probs=43.4

Q ss_pred             ceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCcccccccccc
Q 017405          314 AECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKM  363 (372)
Q Consensus       314 ~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~~  363 (372)
                      ..|.||.+-|..+   ...||+|.||.-||.+.|..+..||.|+.++.+.
T Consensus        24 LRC~IC~eyf~ip---~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es   70 (442)
T KOG0287|consen   24 LRCGICFEYFNIP---MITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTES   70 (442)
T ss_pred             HHHhHHHHHhcCc---eeccccchHHHHHHHHHhccCCCCCceecccchh
Confidence            5799999999999   8899999999999999999999999999887653

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

Probab=97.68  E-value=1.4e-05  Score=77.07  Aligned_cols=51  Identities=27%  Similarity=0.748  Sum_probs=43.6

Q ss_pred             ceeeeecccccCCCceEEeCCCCcccHHHHHHHHh-----------------------cCCCCccccccccccC
Q 017405          314 AECCICLSAYDDGTELRELPCLHHFHCSCLDKWLY-----------------------INSTCPLCKFNILKMS  364 (372)
Q Consensus       314 ~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~-----------------------~~~tCPlCR~~I~~~~  364 (372)
                      ..|.|||..|.+++++...+|.|.||..|+...|.                       ..+.||+||..|....
T Consensus       116 gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~  189 (368)
T KOG4445|consen  116 GQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEE  189 (368)
T ss_pred             CceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccc
Confidence            58999999999999999999999999999987761                       2346999999886543

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

Probab=97.53  E-value=1.6e-05  Score=84.74  Aligned_cols=51  Identities=25%  Similarity=0.475  Sum_probs=45.5

Q ss_pred             CCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCccccccccc
Q 017405          312 DDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILK  362 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~  362 (372)
                      ....|++|+..+.++...-..+|+|.||..||+.|-+.-.+||+||.++..
T Consensus       122 ~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~  172 (1134)
T KOG0825|consen  122 VENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGE  172 (1134)
T ss_pred             hhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhhe
Confidence            345799999999999888888899999999999999999999999987653

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

Probab=97.52  E-value=9e-05  Score=73.27  Aligned_cols=52  Identities=37%  Similarity=0.752  Sum_probs=42.9

Q ss_pred             cCCCCceeeeecccccCCCceEEeCCCCc-ccHHHHHHHHhcCCCCcccccccccc
Q 017405          309 ISEDDAECCICLSAYDDGTELRELPCLHH-FHCSCLDKWLYINSTCPLCKFNILKM  363 (372)
Q Consensus       309 ~~~ed~eC~ICL~~y~~~d~lr~LPC~H~-FH~~CId~WL~~~~tCPlCR~~I~~~  363 (372)
                      .+++..+|.|||.+-.|-   ..|||.|. .|..|-+.---+.+.||+||++|..-
T Consensus       286 ~~~~gkeCVIClse~rdt---~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~l  338 (349)
T KOG4265|consen  286 ESESGKECVICLSESRDT---VVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEEL  338 (349)
T ss_pred             cccCCCeeEEEecCCcce---EEecchhhehhHhHHHHHHHhhcCCCccccchHhh
Confidence            345568999999987765   89999994 78999988777788899999998653

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

Probab=97.43  E-value=6.7e-05  Score=72.22  Aligned_cols=46  Identities=26%  Similarity=0.546  Sum_probs=42.1

Q ss_pred             ceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCccccccccc
Q 017405          314 AECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILK  362 (372)
Q Consensus       314 ~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~  362 (372)
                      ..|-||-+-+..+   .+.+|||-||.-||...|..+..||+||.+-.+
T Consensus        26 lrC~IC~~~i~ip---~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~e   71 (391)
T COG5432          26 LRCRICDCRISIP---CETTCGHTFCSLCIRRHLGTQPFCPVCREDPCE   71 (391)
T ss_pred             HHhhhhhheeecc---eecccccchhHHHHHHHhcCCCCCccccccHHh
Confidence            5799999999988   788999999999999999999999999987654

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

Probab=97.32  E-value=0.00011  Score=71.22  Aligned_cols=49  Identities=29%  Similarity=0.614  Sum_probs=41.4

Q ss_pred             CCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhc-CCCCcccccccccc
Q 017405          312 DDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYI-NSTCPLCKFNILKM  363 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~-~~tCPlCR~~I~~~  363 (372)
                      .+++|.||+..-.-+   ..|+|+|.|+-.||+.=.+. +.+||+||++|.+.
T Consensus         6 ~~~eC~IC~nt~n~P---v~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~   55 (324)
T KOG0824|consen    6 KKKECLICYNTGNCP---VNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDST   55 (324)
T ss_pred             cCCcceeeeccCCcC---ccccccchhhhhhhcchhhcCCCCCceecCCCCcc
Confidence            357999999987777   78999999999999986654 56799999999764

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

Probab=97.24  E-value=0.0002  Score=71.79  Aligned_cols=46  Identities=37%  Similarity=0.880  Sum_probs=36.7

Q ss_pred             ceeeeecccccCCC--ceEEeCCCCcccHHHHHHHHhc--CCCCcccccc
Q 017405          314 AECCICLSAYDDGT--ELRELPCLHHFHCSCLDKWLYI--NSTCPLCKFN  359 (372)
Q Consensus       314 ~eC~ICL~~y~~~d--~lr~LPC~H~FH~~CId~WL~~--~~tCPlCR~~  359 (372)
                      ..|+|||+.|.-.-  .+..|.|+|.|-.+||++||.+  ...||.|+..
T Consensus         5 ~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~k   54 (463)
T KOG1645|consen    5 TTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGK   54 (463)
T ss_pred             ccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCCh
Confidence            58999999998654  3445669999999999999963  2359999754

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

Probab=97.19  E-value=5.6e-05  Score=74.54  Aligned_cols=54  Identities=31%  Similarity=0.567  Sum_probs=44.6

Q ss_pred             CCceeeeecccccCCCceEEeC-CCCcccHHHHHHHHhc-CCCCccccccccccCCcCC
Q 017405          312 DDAECCICLSAYDDGTELRELP-CLHHFHCSCLDKWLYI-NSTCPLCKFNILKMSNERG  368 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~lr~LP-C~H~FH~~CId~WL~~-~~tCPlCR~~I~~~~~~~~  368 (372)
                      .+..|+|||+-++.-   +..+ |.|.||.+||.+=++. +++||.||+.+..+-+..+
T Consensus        42 ~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsLr~   97 (381)
T KOG0311|consen   42 IQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSLRI   97 (381)
T ss_pred             hhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccCCC
Confidence            457899999998876   5555 9999999999999874 7789999999887665543

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

Probab=97.18  E-value=0.00019  Score=71.50  Aligned_cols=52  Identities=29%  Similarity=0.793  Sum_probs=39.9

Q ss_pred             CCCceeeeecccccCCC----ceEEeC-CCCcccHHHHHHHH--hc-----CCCCccccccccc
Q 017405          311 EDDAECCICLSAYDDGT----ELRELP-CLHHFHCSCLDKWL--YI-----NSTCPLCKFNILK  362 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d----~lr~LP-C~H~FH~~CId~WL--~~-----~~tCPlCR~~I~~  362 (372)
                      ..+.+|.||++...+..    ....|| |+|.|+..||++|-  ++     +..||.||.....
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~  222 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSF  222 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccc
Confidence            46789999999876653    123456 99999999999998  33     5679999976643

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

Probab=97.07  E-value=0.00042  Score=64.66  Aligned_cols=55  Identities=29%  Similarity=0.637  Sum_probs=45.4

Q ss_pred             CCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhc--------CCCCccccccccccCCc
Q 017405          311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYI--------NSTCPLCKFNILKMSNE  366 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~--------~~tCPlCR~~I~~~~~~  366 (372)
                      ..+..|..|-..+..+|.+| |-|-|.||++|++.|--.        ...||.|..+|.+.-+.
T Consensus        48 DY~pNC~LC~t~La~gdt~R-LvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~Nl  110 (299)
T KOG3970|consen   48 DYNPNCRLCNTPLASGDTTR-LVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPINL  110 (299)
T ss_pred             CCCCCCceeCCccccCccee-ehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCccc
Confidence            34568999999999998875 779999999999999742        33599999999876553

>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=96.98  E-value=0.00029  Score=61.01  Aligned_cols=35  Identities=23%  Similarity=0.535  Sum_probs=31.9

Q ss_pred             CceeeeecccccCCCceEEeCCC------CcccHHHHHHHH
Q 017405          313 DAECCICLSAYDDGTELRELPCL------HHFHCSCLDKWL  347 (372)
Q Consensus       313 d~eC~ICL~~y~~~d~lr~LPC~------H~FH~~CId~WL  347 (372)
                      ..||.||++...+++.++.++|+      |+||.+|+.+|-
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~   66 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWR   66 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHH
Confidence            46999999999997889999998      999999999993

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.

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

Probab=96.94  E-value=0.00018  Score=54.63  Aligned_cols=47  Identities=26%  Similarity=0.576  Sum_probs=23.9

Q ss_pred             ceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCccccccccccC
Q 017405          314 AECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMS  364 (372)
Q Consensus       314 ~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~~~  364 (372)
                      -.|++|.+-++++  +..-.|.|.|+..||..-+.  ..||+|+.+...++
T Consensus         8 LrCs~C~~~l~~p--v~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD   54 (65)
T PF14835_consen    8 LRCSICFDILKEP--VCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQD   54 (65)
T ss_dssp             TS-SSS-S--SS---B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS
T ss_pred             cCCcHHHHHhcCC--ceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHH
Confidence            4699999998887  22345999999999988554  45999998775443

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

Probab=96.87  E-value=0.00048  Score=70.02  Aligned_cols=51  Identities=33%  Similarity=0.791  Sum_probs=44.9

Q ss_pred             CCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCccccccccccC
Q 017405          311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMS  364 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~~~  364 (372)
                      ..+.+|+||...+..+   ..+||||.|+..||++-+..+..||+||.++.+-.
T Consensus        82 ~sef~c~vc~~~l~~p---v~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e~~  132 (398)
T KOG4159|consen   82 RSEFECCVCSRALYPP---VVTPCGHSFCLECLDRSLDQETECPLCRDELVELP  132 (398)
T ss_pred             cchhhhhhhHhhcCCC---ccccccccccHHHHHHHhccCCCCcccccccccch
Confidence            4568999999999888   77899999999999998888889999999987543

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

Probab=96.81  E-value=0.00092  Score=75.34  Aligned_cols=58  Identities=28%  Similarity=0.552  Sum_probs=46.5

Q ss_pred             cccccCCCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcC----------CCCccccccccc
Q 017405          305 MEHVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYIN----------STCPLCKFNILK  362 (372)
Q Consensus       305 ~e~~~~~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~----------~tCPlCR~~I~~  362 (372)
                      ++..-...|+.|-||..+--.....++|.|+|+||..|...-|...          -+||+|+.+|.+
T Consensus      3478 ks~tkQD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3478 KSATKQDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred             hhhhhcccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence            3444566789999999988777888899999999999998766532          259999998864

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

Probab=96.74  E-value=0.00044  Score=69.09  Aligned_cols=46  Identities=35%  Similarity=0.744  Sum_probs=39.3

Q ss_pred             CceeeeecccccCC-CceEEeCCCCcccHHHHHHHHhcCC--CCccccc
Q 017405          313 DAECCICLSAYDDG-TELRELPCLHHFHCSCLDKWLYINS--TCPLCKF  358 (372)
Q Consensus       313 d~eC~ICL~~y~~~-d~lr~LPC~H~FH~~CId~WL~~~~--tCPlCR~  358 (372)
                      +.-|..|-+.|... +.+-.|||.|+||..|+...|..+.  +||-||+
T Consensus       365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            45799999999754 5688899999999999999998765  6999984

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

Probab=96.68  E-value=0.00053  Score=50.31  Aligned_cols=46  Identities=26%  Similarity=0.533  Sum_probs=33.6

Q ss_pred             CceeeeecccccCCCceEEeCCCCc-ccHHHHHH-HHhcCCCCcccccccc
Q 017405          313 DAECCICLSAYDDGTELRELPCLHH-FHCSCLDK-WLYINSTCPLCKFNIL  361 (372)
Q Consensus       313 d~eC~ICL~~y~~~d~lr~LPC~H~-FH~~CId~-WL~~~~tCPlCR~~I~  361 (372)
                      ++||.||.+.-.|.   ....|||. .+-+|-.+ |-..+..||+||.+|.
T Consensus         7 ~dECTICye~pvds---VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~   54 (62)
T KOG4172|consen    7 SDECTICYEHPVDS---VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK   54 (62)
T ss_pred             ccceeeeccCcchH---HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence            48999999876655   34459996 45566544 4447889999999875

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

Probab=96.57  E-value=0.00084  Score=59.74  Aligned_cols=36  Identities=36%  Similarity=0.865  Sum_probs=31.9

Q ss_pred             cccccCCCCceeeeecccccCCCceEEeCCCCcccH
Q 017405          305 MEHVISEDDAECCICLSAYDDGTELRELPCLHHFHC  340 (372)
Q Consensus       305 ~e~~~~~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~  340 (372)
                      ++.+++.+.-||.|||++++.++.+..|||-.+||+
T Consensus       169 NdDVL~ddkGECvICLEdL~~GdtIARLPCLCIYHK  204 (205)
T KOG0801|consen  169 NDDVLKDDKGECVICLEDLEAGDTIARLPCLCIYHK  204 (205)
T ss_pred             ccchhcccCCcEEEEhhhccCCCceeccceEEEeec
Confidence            445666777899999999999999999999999997

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

Probab=96.42  E-value=0.0013  Score=67.06  Aligned_cols=51  Identities=27%  Similarity=0.656  Sum_probs=44.0

Q ss_pred             CCCceeeeecccccCCCceEE-eCCCCcccHHHHHHHHhcCCCCccccccccccC
Q 017405          311 EDDAECCICLSAYDDGTELRE-LPCLHHFHCSCLDKWLYINSTCPLCKFNILKMS  364 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~-LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~~~  364 (372)
                      .++..|++|.....++   .. ..|+|.|+..|+.+|+..+..||.|+.++....
T Consensus        19 ~~~l~C~~C~~vl~~p---~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~   70 (391)
T KOG0297|consen   19 DENLLCPICMSVLRDP---VQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAE   70 (391)
T ss_pred             cccccCccccccccCC---CCCCCCCCcccccccchhhccCcCCcccccccchhh
Confidence            4567899999999998   33 579999999999999999999999988776543

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

Probab=96.37  E-value=0.0014  Score=48.76  Aligned_cols=41  Identities=22%  Similarity=0.591  Sum_probs=28.7

Q ss_pred             CceeeeecccccCCCceEEeCCCCcccHHHHHHHHhc--CCCCcc
Q 017405          313 DAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYI--NSTCPL  355 (372)
Q Consensus       313 d~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~--~~tCPl  355 (372)
                      ...|+|.+..|+++  ++...|+|.|-++.|.+|++.  +..||+
T Consensus        11 ~~~CPiT~~~~~~P--V~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   11 SLKCPITLQPFEDP--VKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             -SB-TTTSSB-SSE--EEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             ccCCCCcCChhhCC--cCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            46899999999977  566689999999999999954  345998

>PHA02862 5L protein; Provisional

Probab=96.25  E-value=0.0036  Score=54.84  Aligned_cols=45  Identities=27%  Similarity=0.629  Sum_probs=34.6

Q ss_pred             CceeeeecccccCCCceEEeCCC-----CcccHHHHHHHHhc--CCCCcccccccc
Q 017405          313 DAECCICLSAYDDGTELRELPCL-----HHFHCSCLDKWLYI--NSTCPLCKFNIL  361 (372)
Q Consensus       313 d~eC~ICL~~y~~~d~lr~LPC~-----H~FH~~CId~WL~~--~~tCPlCR~~I~  361 (372)
                      ++.|=||.++-+++    .-||.     ..-|.+|+.+|++.  +..||+||++..
T Consensus         2 ~diCWIC~~~~~e~----~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~   53 (156)
T PHA02862          2 SDICWICNDVCDER----NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN   53 (156)
T ss_pred             CCEEEEecCcCCCC----cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence            36899999985433    35765     67899999999974  457999998654

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

Probab=96.08  E-value=0.003  Score=45.12  Aligned_cols=40  Identities=35%  Similarity=0.904  Sum_probs=27.9

Q ss_pred             eeeecccccCCCceEEeCCC-----CcccHHHHHHHHhc--CCCCccc
Q 017405          316 CCICLSAYDDGTELRELPCL-----HHFHCSCLDKWLYI--NSTCPLC  356 (372)
Q Consensus       316 C~ICL~~y~~~d~lr~LPC~-----H~FH~~CId~WL~~--~~tCPlC  356 (372)
                      |-||+++-++++. ...||+     ..-|.+|+.+|+..  +.+|++|
T Consensus         1 CrIC~~~~~~~~~-li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDEP-LISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCCc-eecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            6799998777663 357865     47899999999974  5679987

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

Probab=95.73  E-value=0.0038  Score=62.68  Aligned_cols=45  Identities=33%  Similarity=0.780  Sum_probs=37.6

Q ss_pred             eeeeecccccCCCceEEeCCCCcccHHHHHHHHhc--CCCCccccccccc
Q 017405          315 ECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYI--NSTCPLCKFNILK  362 (372)
Q Consensus       315 eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~--~~tCPlCR~~I~~  362 (372)
                      -|.||-+.   +..++.=||||..|..|+..|-..  .++||.||.+|..
T Consensus       371 LCKICaen---dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG  417 (563)
T KOG1785|consen  371 LCKICAEN---DKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG  417 (563)
T ss_pred             HHHHhhcc---CCCcccccccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence            59999875   345677899999999999999853  5789999999864

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=95.71  E-value=0.011  Score=52.69  Aligned_cols=47  Identities=28%  Similarity=0.627  Sum_probs=34.8

Q ss_pred             CCCceeeeecccccCCCceEEeCCC--C---cccHHHHHHHHhcC--CCCcccccccc
Q 017405          311 EDDAECCICLSAYDDGTELRELPCL--H---HFHCSCLDKWLYIN--STCPLCKFNIL  361 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC~--H---~FH~~CId~WL~~~--~tCPlCR~~I~  361 (372)
                      ..+.+|=||.++..  ++  .-||.  .   .-|.+|+++|+..+  ..||+|+++..
T Consensus         6 ~~~~~CRIC~~~~~--~~--~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~   59 (162)
T PHA02825          6 LMDKCCWICKDEYD--VV--TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN   59 (162)
T ss_pred             CCCCeeEecCCCCC--Cc--cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence            45679999998854  22  24865  3   66999999999754  46999987654

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

Probab=95.53  E-value=0.0048  Score=56.72  Aligned_cols=44  Identities=23%  Similarity=0.444  Sum_probs=39.4

Q ss_pred             ceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCccccccc
Q 017405          314 AECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNI  360 (372)
Q Consensus       314 ~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I  360 (372)
                      ..|.||-++|+.+   +...|||+||..|.-+=++...+|-+|....
T Consensus       197 F~C~iCKkdy~sp---vvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t  240 (259)
T COG5152         197 FLCGICKKDYESP---VVTECGHSFCSLCAIRKYQKGDECGVCGKAT  240 (259)
T ss_pred             eeehhchhhccch---hhhhcchhHHHHHHHHHhccCCcceecchhh
Confidence            3799999999998   7778999999999999999999999997654

>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=95.49  E-value=0.0051  Score=50.35  Aligned_cols=33  Identities=24%  Similarity=0.711  Sum_probs=28.4

Q ss_pred             CCCceeeeecccccCCCceEEeCCCCcccHHHHH
Q 017405          311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLD  344 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId  344 (372)
                      .++..|++|-..+.+ ..+...||||.||..|++
T Consensus        76 ~~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   76 TESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence            455679999999988 577889999999999975

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 [].

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

Probab=95.45  E-value=0.0072  Score=61.01  Aligned_cols=46  Identities=35%  Similarity=0.702  Sum_probs=38.5

Q ss_pred             CceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcC--------CCCccccc
Q 017405          313 DAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYIN--------STCPLCKF  358 (372)
Q Consensus       313 d~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~--------~tCPlCR~  358 (372)
                      ...|+||+++....+-+..|||+|+|++.|....+.+.        -.||-|+.
T Consensus       184 lf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C  237 (445)
T KOG1814|consen  184 LFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC  237 (445)
T ss_pred             cccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence            46899999998887899999999999999999998642        24887754

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

Probab=95.41  E-value=0.0041  Score=66.96  Aligned_cols=49  Identities=20%  Similarity=0.467  Sum_probs=39.1

Q ss_pred             CceeeeecccccCCCceEEeCCCCcccHHHHHHHHhc-CCCCccccccccccC
Q 017405          313 DAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYI-NSTCPLCKFNILKMS  364 (372)
Q Consensus       313 d~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~-~~tCPlCR~~I~~~~  364 (372)
                      --.|+.|-...++-   ....|+|.||.+||.+-+.. ...||.|-..+...+
T Consensus       643 ~LkCs~Cn~R~Kd~---vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD  692 (698)
T KOG0978|consen  643 LLKCSVCNTRWKDA---VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAND  692 (698)
T ss_pred             ceeCCCccCchhhH---HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence            35799999877775   44559999999999999975 457999988776543

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

Probab=95.39  E-value=0.017  Score=55.66  Aligned_cols=54  Identities=24%  Similarity=0.388  Sum_probs=41.6

Q ss_pred             ccCCCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhc--CCCCcccccccccc
Q 017405          308 VISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYI--NSTCPLCKFNILKM  363 (372)
Q Consensus       308 ~~~~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~--~~tCPlCR~~I~~~  363 (372)
                      .....+.+|++|-+.-..+  ....+|+|+||--||..=+.-  .-+||.|-.+..+.
T Consensus       234 s~~t~~~~C~~Cg~~PtiP--~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~l  289 (298)
T KOG2879|consen  234 STGTSDTECPVCGEPPTIP--HVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEPL  289 (298)
T ss_pred             ccccCCceeeccCCCCCCC--eeeccccceeehhhhhhhhcchhhcccCccCCCCcch
Confidence            3445678999999986555  345679999999999997654  35899999887743

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

Probab=95.03  E-value=0.0093  Score=61.90  Aligned_cols=52  Identities=29%  Similarity=0.652  Sum_probs=41.0

Q ss_pred             CCceeeeecccccCCCceEEeCCCCcccHHHHHHHHh-----cCCCCccccccccccCCc
Q 017405          312 DDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLY-----INSTCPLCKFNILKMSNE  366 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~-----~~~tCPlCR~~I~~~~~~  366 (372)
                      +..+|.+|-+.-++.   .+..|.|.||.-||.+...     .+-+||.|...+.-..++
T Consensus       535 ~~~~C~lc~d~aed~---i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse  591 (791)
T KOG1002|consen  535 GEVECGLCHDPAEDY---IESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSE  591 (791)
T ss_pred             CceeecccCChhhhh---HhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccccc
Confidence            456899999987776   6778999999999998874     356899998776554443

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

Probab=94.72  E-value=0.016  Score=41.65  Aligned_cols=44  Identities=23%  Similarity=0.495  Sum_probs=20.4

Q ss_pred             eeeecccccCCCceEEeC--CCCcccHHHHHHHHh-cCCCCccccccc
Q 017405          316 CCICLSAYDDGTELRELP--CLHHFHCSCLDKWLY-INSTCPLCKFNI  360 (372)
Q Consensus       316 C~ICL~~y~~~d~lr~LP--C~H~FH~~CId~WL~-~~~tCPlCR~~I  360 (372)
                      |++|.++++.. ..-.+|  |++..+..|...-++ .+..||-||.+.
T Consensus         1 cp~C~e~~d~~-d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDET-DKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CC-CTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccC-CCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            78899998332 333456  788888888666665 467899999763

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

Probab=94.64  E-value=0.011  Score=57.33  Aligned_cols=46  Identities=22%  Similarity=0.332  Sum_probs=41.3

Q ss_pred             ceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCccccccccc
Q 017405          314 AECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILK  362 (372)
Q Consensus       314 ~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~  362 (372)
                      ..|-||-..|.++   +...|+|.|+..|--+=++....|++|.+++-.
T Consensus       242 f~c~icr~~f~~p---Vvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g  287 (313)
T KOG1813|consen  242 FKCFICRKYFYRP---VVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHG  287 (313)
T ss_pred             ccccccccccccc---hhhcCCceeehhhhccccccCCcceeccccccc
Confidence            4599999999999   778899999999999999999999999887654

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

Probab=94.59  E-value=0.0096  Score=58.59  Aligned_cols=49  Identities=35%  Similarity=0.664  Sum_probs=40.7

Q ss_pred             CCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCccccccccc
Q 017405          312 DDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILK  362 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~  362 (372)
                      ...+|.+|-.-+-|...+  .-|-|-||+.||-+.|..+.+||.|.-.|-.
T Consensus        14 ~~itC~LC~GYliDATTI--~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~   62 (331)
T KOG2660|consen   14 PHITCRLCGGYLIDATTI--TECLHTFCKSCIVKYLEESKYCPTCDIVIHK   62 (331)
T ss_pred             cceehhhccceeecchhH--HHHHHHHHHHHHHHHHHHhccCCccceeccC
Confidence            457899999988887432  2399999999999999999999999876654

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

Probab=94.46  E-value=0.024  Score=61.83  Aligned_cols=51  Identities=29%  Similarity=0.724  Sum_probs=38.0

Q ss_pred             cCCCCceeeeecccccCCCceEEeC-CCCcccHHHHHHHHhcCC-------CCcccccc
Q 017405          309 ISEDDAECCICLSAYDDGTELRELP-CLHHFHCSCLDKWLYINS-------TCPLCKFN  359 (372)
Q Consensus       309 ~~~ed~eC~ICL~~y~~~d~lr~LP-C~H~FH~~CId~WL~~~~-------tCPlCR~~  359 (372)
                      ++....+|.||.+.+..-+.+---. |-|+||..||.+|-+...       .||-|+..
T Consensus       187 l~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv  245 (950)
T KOG1952|consen  187 LSNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV  245 (950)
T ss_pred             HhcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence            3445679999999988766554322 779999999999986421       39999843

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

Probab=94.20  E-value=0.0028  Score=63.39  Aligned_cols=52  Identities=23%  Similarity=0.524  Sum_probs=46.8

Q ss_pred             CceeeeecccccCC-CceEEeCCCCcccHHHHHHHHhcCCCCccccccccccC
Q 017405          313 DAECCICLSAYDDG-TELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMS  364 (372)
Q Consensus       313 d~eC~ICL~~y~~~-d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~~~  364 (372)
                      ...|+||..+|+.. +++-.+-|+|.+|.+|+.+||.....||.|+.++....
T Consensus       196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~~  248 (465)
T KOG0827|consen  196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPKNG  248 (465)
T ss_pred             HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhhhh
Confidence            35799999999988 88889999999999999999999888999999887654

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

Probab=94.17  E-value=0.057  Score=53.25  Aligned_cols=49  Identities=18%  Similarity=0.432  Sum_probs=39.0

Q ss_pred             cCCCCceeeeecccccCCCceEEeC-CCCcccHHHHHHHHhcCCCCccccccc
Q 017405          309 ISEDDAECCICLSAYDDGTELRELP-CLHHFHCSCLDKWLYINSTCPLCKFNI  360 (372)
Q Consensus       309 ~~~ed~eC~ICL~~y~~~d~lr~LP-C~H~FH~~CId~WL~~~~tCPlCR~~I  360 (372)
                      ...+...|++|+..-.++   ..|. -|.+||..||-+.+..++.||+=-.+.
T Consensus       296 l~~~~~~CpvClk~r~Np---tvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~  345 (357)
T KOG0826|consen  296 LPPDREVCPVCLKKRQNP---TVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA  345 (357)
T ss_pred             CCCccccChhHHhccCCC---ceEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence            345667899999998877   3333 589999999999999999999854443

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

Probab=93.87  E-value=0.047  Score=54.31  Aligned_cols=48  Identities=25%  Similarity=0.562  Sum_probs=41.6

Q ss_pred             CCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCcccccccc
Q 017405          311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNIL  361 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~  361 (372)
                      .||+.|+||...--..   ...||+|.=|..||.+-|-.++.|=.||..+.
T Consensus       420 sEd~lCpICyA~pi~A---vf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~  467 (489)
T KOG4692|consen  420 SEDNLCPICYAGPINA---VFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI  467 (489)
T ss_pred             cccccCcceecccchh---hccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence            5789999998764433   67899999999999999999999999998776

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

Probab=93.84  E-value=0.041  Score=54.83  Aligned_cols=45  Identities=24%  Similarity=0.489  Sum_probs=33.3

Q ss_pred             CCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCcccccccc
Q 017405          311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNIL  361 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~  361 (372)
                      ...+.|.||+++.++-   ..+||||.-+  |..-- +...+||+||+.|.
T Consensus       303 ~~p~lcVVcl~e~~~~---~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI~  347 (355)
T KOG1571|consen  303 PQPDLCVVCLDEPKSA---VFVPCGHVCC--CTLCS-KHLPQCPVCRQRIR  347 (355)
T ss_pred             CCCCceEEecCCccce---eeecCCcEEE--chHHH-hhCCCCchhHHHHH
Confidence            3457899999987774   7899999855  55443 33455999998775

>PHA03096 p28-like protein; Provisional

Probab=93.62  E-value=0.033  Score=54.43  Aligned_cols=36  Identities=25%  Similarity=0.509  Sum_probs=28.6

Q ss_pred             ceeeeecccccCC----CceEEeC-CCCcccHHHHHHHHhc
Q 017405          314 AECCICLSAYDDG----TELRELP-CLHHFHCSCLDKWLYI  349 (372)
Q Consensus       314 ~eC~ICL~~y~~~----d~lr~LP-C~H~FH~~CId~WL~~  349 (372)
                      .+|.||++.-...    ...-.|+ |.|.|+..||..|-..
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~  219 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTE  219 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHh
Confidence            6899999887643    2334677 9999999999999864

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.23  E-value=0.1  Score=49.69  Aligned_cols=53  Identities=15%  Similarity=0.209  Sum_probs=46.3

Q ss_pred             CCceeeeecccccCCCceEEe-CCCCcccHHHHHHHHhcCCCCccccccccccC
Q 017405          312 DDAECCICLSAYDDGTELREL-PCLHHFHCSCLDKWLYINSTCPLCKFNILKMS  364 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~lr~L-PC~H~FH~~CId~WL~~~~tCPlCR~~I~~~~  364 (372)
                      ....|++|.+.+.+-.....| ||||+|..+|+.+..+....||+|-.++.+.+
T Consensus       220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrd  273 (303)
T KOG3039|consen  220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRD  273 (303)
T ss_pred             cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccc
Confidence            457899999999998877777 49999999999999999999999988776544

>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=92.70  E-value=0.1  Score=46.55  Aligned_cols=34  Identities=29%  Similarity=0.593  Sum_probs=23.7

Q ss_pred             CCceeeeecccccCCCceEEeC------------CC-CcccHHHHHHHHh
Q 017405          312 DDAECCICLSAYDDGTELRELP------------CL-HHFHCSCLDKWLY  348 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~lr~LP------------C~-H~FH~~CId~WL~  348 (372)
                      ||..|+|||+--.+.   +.|-            |+ -.=|..|+|+.-+
T Consensus         1 ed~~CpICme~PHNA---VLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk   47 (162)
T PF07800_consen    1 EDVTCPICMEHPHNA---VLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK   47 (162)
T ss_pred             CCccCceeccCCCce---EEEEeccccCCccccccCCccchhHHHHHHHH
Confidence            468999999875554   3333            44 3458999999864

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.

>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]

Probab=92.36  E-value=0.12  Score=50.25  Aligned_cols=50  Identities=34%  Similarity=0.690  Sum_probs=38.4

Q ss_pred             CceeeeecccccCCCc-eEEeCCC-----CcccHHHHHHHHh--cCCCCccccccccc
Q 017405          313 DAECCICLSAYDDGTE-LRELPCL-----HHFHCSCLDKWLY--INSTCPLCKFNILK  362 (372)
Q Consensus       313 d~eC~ICL~~y~~~d~-lr~LPC~-----H~FH~~CId~WL~--~~~tCPlCR~~I~~  362 (372)
                      +..|=||..+....+. ....||.     +..|..|+++|+.  .+..|.+|++....
T Consensus        78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~  135 (323)
T KOG1609|consen   78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFIN  135 (323)
T ss_pred             CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeeccccccee
Confidence            5789999998765432 4577876     7789999999998  45679999875543

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=92.09  E-value=0.095  Score=38.70  Aligned_cols=45  Identities=24%  Similarity=0.454  Sum_probs=33.3

Q ss_pred             ceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCcccccccccc
Q 017405          314 AECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKM  363 (372)
Q Consensus       314 ~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~~  363 (372)
                      ..|-.|...=..+   ..+||+|.-+..|-+-+  +-+-||.|..++...
T Consensus         8 ~~~~~~~~~~~~~---~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~~~   52 (55)
T PF14447_consen    8 QPCVFCGFVGTKG---TVLPCGHLICDNCFPGE--RYNGCPFCGTPFEFD   52 (55)
T ss_pred             eeEEEcccccccc---ccccccceeeccccChh--hccCCCCCCCcccCC
Confidence            4566666654444   78999999999996654  456699999888654

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

Probab=91.72  E-value=0.26  Score=49.07  Aligned_cols=48  Identities=29%  Similarity=0.762  Sum_probs=37.2

Q ss_pred             CCCCceeeeecccccCCCceEEeCCCCcccHHHHHHH--HhcCCCCccccccc
Q 017405          310 SEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKW--LYINSTCPLCKFNI  360 (372)
Q Consensus       310 ~~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~W--L~~~~tCPlCR~~I  360 (372)
                      .++...|-||-....-.   -.+||+|..|-.|--.-  |.....||+||.+-
T Consensus        58 DEen~~C~ICA~~~TYs---~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~  107 (493)
T COG5236          58 DEENMNCQICAGSTTYS---ARYPCGHQICHACAVRLRALYMQKGCPLCRTET  107 (493)
T ss_pred             ccccceeEEecCCceEE---EeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence            34556799998876543   78999999999996553  56788999999753

>PF04641 Rtf2: Rtf2 RING-finger

Probab=91.23  E-value=0.22  Score=47.98  Aligned_cols=52  Identities=19%  Similarity=0.369  Sum_probs=40.6

Q ss_pred             CCCceeeeecccccCCCceEEe-CCCCcccHHHHHHHHhcCCCCcccccccccc
Q 017405          311 EDDAECCICLSAYDDGTELREL-PCLHHFHCSCLDKWLYINSTCPLCKFNILKM  363 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~L-PC~H~FH~~CId~WL~~~~tCPlCR~~I~~~  363 (372)
                      .....|+|...+|........| ||||+|-..+|++- +....||+|-.++...
T Consensus       111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~  163 (260)
T PF04641_consen  111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEE  163 (260)
T ss_pred             CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccC
Confidence            3456899999999666555555 79999999999997 3356799998876644

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

Probab=91.09  E-value=0.082  Score=51.39  Aligned_cols=45  Identities=27%  Similarity=0.561  Sum_probs=38.6

Q ss_pred             ceeeeecccccCCC-ceEEeCCCCcccHHHHHHHHhcCCCCccccc
Q 017405          314 AECCICLSAYDDGT-ELRELPCLHHFHCSCLDKWLYINSTCPLCKF  358 (372)
Q Consensus       314 ~eC~ICL~~y~~~d-~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~  358 (372)
                      ..|+||.+.+-+.. .+..++|+|.-|..|...-...+-+||+|..
T Consensus       159 ~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  159 FNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             CCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence            34999999887664 4567899999999999999888899999987

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

Probab=90.90  E-value=0.16  Score=49.31  Aligned_cols=47  Identities=32%  Similarity=0.602  Sum_probs=38.2

Q ss_pred             ceeeeecccccCCCce---EEeCCCCcccHHHHHHHHhcC-CCCccccccc
Q 017405          314 AECCICLSAYDDGTEL---RELPCLHHFHCSCLDKWLYIN-STCPLCKFNI  360 (372)
Q Consensus       314 ~eC~ICL~~y~~~d~l---r~LPC~H~FH~~CId~WL~~~-~tCPlCR~~I  360 (372)
                      .+|-||-++|..++..   +.|.|||.|+..|+.+-+... ..||.||...
T Consensus         4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen    4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             CceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence            5799999999977433   456699999999999887654 4599999874

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

Probab=90.27  E-value=0.14  Score=49.99  Aligned_cols=45  Identities=27%  Similarity=0.649  Sum_probs=34.9

Q ss_pred             ceeeeecccccCCCceEEeC-CCCcccHHHHHHHHh-cCCCCcccc-cccc
Q 017405          314 AECCICLSAYDDGTELRELP-CLHHFHCSCLDKWLY-INSTCPLCK-FNIL  361 (372)
Q Consensus       314 ~eC~ICL~~y~~~d~lr~LP-C~H~FH~~CId~WL~-~~~tCPlCR-~~I~  361 (372)
                      ..|+.|-.-..+.   ...| |+|.|+.+||..-|. ....||.|. ++|.
T Consensus       275 LkCplc~~Llrnp---~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvl  322 (427)
T COG5222         275 LKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVL  322 (427)
T ss_pred             ccCcchhhhhhCc---ccCccccchHHHHHHhhhhhhccccCCCcccccch
Confidence            5799988887777   4556 899999999998765 566899994 4544

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

Probab=89.55  E-value=0.61  Score=47.08  Aligned_cols=29  Identities=24%  Similarity=0.734  Sum_probs=22.6

Q ss_pred             CCCcccHHHHHHHHh-------------cCCCCccccccccc
Q 017405          334 CLHHFHCSCLDKWLY-------------INSTCPLCKFNILK  362 (372)
Q Consensus       334 C~H~FH~~CId~WL~-------------~~~tCPlCR~~I~~  362 (372)
                      |.-+.|.+|+-+|+-             .+..||.||+...-
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi  352 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI  352 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence            557789999999983             34579999987654

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

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

Probab=88.99  E-value=0.18  Score=55.50  Aligned_cols=37  Identities=27%  Similarity=0.468  Sum_probs=30.3

Q ss_pred             CCCCceeeeecccccCCCceEEeCCCCcccHHHHHHHH
Q 017405          310 SEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWL  347 (372)
Q Consensus       310 ~~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL  347 (372)
                      -+.++.|.+|...+-.. ....-||+|.||++||.+-.
T Consensus       814 ~ep~d~C~~C~~~ll~~-pF~vf~CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  814 LEPQDSCDHCGRPLLIK-PFYVFPCGHCFHRDCLIRHV  850 (911)
T ss_pred             ecCccchHHhcchhhcC-cceeeeccchHHHHHHHHHH
Confidence            34567899999988765 66788999999999998764

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

Probab=88.73  E-value=0.26  Score=44.84  Aligned_cols=35  Identities=31%  Similarity=0.652  Sum_probs=27.2

Q ss_pred             EeCCCCcccHHHHHHHHhcC-----------CCCccccccccccCC
Q 017405          331 ELPCLHHFHCSCLDKWLYIN-----------STCPLCKFNILKMSN  365 (372)
Q Consensus       331 ~LPC~H~FH~~CId~WL~~~-----------~tCPlCR~~I~~~~~  365 (372)
                      ...||.-||.-|+..||+.-           ..||-|..+|.-+-+
T Consensus       187 N~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKmS  232 (234)
T KOG3268|consen  187 NIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKMS  232 (234)
T ss_pred             ccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeecc
Confidence            34599999999999999631           259999998865543

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

Probab=88.23  E-value=0.4  Score=52.42  Aligned_cols=55  Identities=25%  Similarity=0.612  Sum_probs=41.6

Q ss_pred             cCCCCceeeeecccccCCCceEEeCCC-----CcccHHHHHHHHhcCC--CCccccccccccC
Q 017405          309 ISEDDAECCICLSAYDDGTELRELPCL-----HHFHCSCLDKWLYINS--TCPLCKFNILKMS  364 (372)
Q Consensus       309 ~~~ed~eC~ICL~~y~~~d~lr~LPC~-----H~FH~~CId~WL~~~~--tCPlCR~~I~~~~  364 (372)
                      ..+++..|-||..+=..++++- =||.     ...|.+|+-+|+.-++  .|-+|++++.-+.
T Consensus         8 mN~d~~~CRICr~e~~~d~pLf-hPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~   69 (1175)
T COG5183           8 MNEDKRSCRICRTEDIRDDPLF-HPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKD   69 (1175)
T ss_pred             CCccchhceeecCCCCCCCcCc-ccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeee
Confidence            3456688999998877776664 3765     5789999999998544  4999999876443

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

Probab=88.23  E-value=0.095  Score=51.02  Aligned_cols=43  Identities=30%  Similarity=0.612  Sum_probs=31.4

Q ss_pred             CceeeeecccccCCCceEEeCCCCcc-cHHHHHHHHhcCCCCccccccccc
Q 017405          313 DAECCICLSAYDDGTELRELPCLHHF-HCSCLDKWLYINSTCPLCKFNILK  362 (372)
Q Consensus       313 d~eC~ICL~~y~~~d~lr~LPC~H~F-H~~CId~WL~~~~tCPlCR~~I~~  362 (372)
                      +.-|.||++.-.|   ...|+|||.- +.+|=    ++-+.||+||+-|..
T Consensus       300 ~~LC~ICmDaP~D---CvfLeCGHmVtCt~CG----krm~eCPICRqyi~r  343 (350)
T KOG4275|consen  300 RRLCAICMDAPRD---CVFLECGHMVTCTKCG----KRMNECPICRQYIVR  343 (350)
T ss_pred             HHHHHHHhcCCcc---eEEeecCcEEeehhhc----cccccCchHHHHHHH
Confidence            6789999987554   4889999964 44452    234589999987754

>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=88.05  E-value=0.17  Score=35.40  Aligned_cols=41  Identities=27%  Similarity=0.663  Sum_probs=21.0

Q ss_pred             eeeecccccCCCceEEeCCCCcccHHHHHHHHhcCC--CCccc
Q 017405          316 CCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINS--TCPLC  356 (372)
Q Consensus       316 C~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~--tCPlC  356 (372)
                      |.+|-+-.-.|..--.-.|+=.+|..|++++++...  .||.|
T Consensus         1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            445555555552111123888899999999998655  79988

; PDB: 3NW0_A 2CT0_A.

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

Probab=87.97  E-value=0.19  Score=49.42  Aligned_cols=44  Identities=27%  Similarity=0.518  Sum_probs=30.9

Q ss_pred             eeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCccccccccc
Q 017405          315 ECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILK  362 (372)
Q Consensus       315 eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~  362 (372)
                      .|--|-..+..  .-|.+||+|+||.+|-..  ...+.||+|-..|..
T Consensus        92 fCd~Cd~PI~I--YGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~Vqr  135 (389)
T KOG2932|consen   92 FCDRCDFPIAI--YGRMIPCKHVFCLECARS--DSDKICPLCDDRVQR  135 (389)
T ss_pred             eecccCCccee--eecccccchhhhhhhhhc--CccccCcCcccHHHH
Confidence            45566555432  237899999999999654  345689999776654

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

Probab=87.84  E-value=0.29  Score=53.77  Aligned_cols=42  Identities=26%  Similarity=0.671  Sum_probs=33.3

Q ss_pred             ceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCccccccc
Q 017405          314 AECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNI  360 (372)
Q Consensus       314 ~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I  360 (372)
                      ..|..|--..+-+  ....-|+|.||..|+.   .....||-|+-+.
T Consensus       841 skCs~C~~~LdlP--~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~  882 (933)
T KOG2114|consen  841 SKCSACEGTLDLP--FVHFLCGHSYHQHCLE---DKEDKCPKCLPEL  882 (933)
T ss_pred             eeecccCCccccc--eeeeecccHHHHHhhc---cCcccCCccchhh
Confidence            5899999887776  3445599999999998   5556799998743

>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins

Probab=87.63  E-value=5.1  Score=33.89  Aligned_cols=24  Identities=25%  Similarity=0.247  Sum_probs=16.8

Q ss_pred             HHHhcCCCCccccccccccCCcCC
Q 017405          345 KWLYINSTCPLCKFNILKMSNERG  368 (372)
Q Consensus       345 ~WL~~~~tCPlCR~~I~~~~~~~~  368 (372)
                      +-+.+...|+-|++++.-..+.++
T Consensus        80 KmLGr~D~CM~C~~pLTLd~~leg  103 (114)
T PF11023_consen   80 KMLGRVDACMHCKEPLTLDPSLEG  103 (114)
T ss_pred             hhhchhhccCcCCCcCccCchhhc
Confidence            345555679999998877666554

; GO: 0005887 integral to plasma membrane

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

Probab=86.60  E-value=0.24  Score=53.94  Aligned_cols=47  Identities=30%  Similarity=0.578  Sum_probs=37.2

Q ss_pred             ceeeeecccccCCCceEEeCCCCcccHHHHHHHHhc--CCCCccccccccccC
Q 017405          314 AECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYI--NSTCPLCKFNILKMS  364 (372)
Q Consensus       314 ~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~--~~tCPlCR~~I~~~~  364 (372)
                      ..|.||++    .+.....+|+|.|+.+|+.+-+..  +..||+||..+.+..
T Consensus       455 ~~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~  503 (674)
T KOG1001|consen  455 HWCHICCD----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKK  503 (674)
T ss_pred             cccccccc----cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHH
Confidence            68999999    344577889999999999887754  335999998876544

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

Probab=85.08  E-value=0.23  Score=53.63  Aligned_cols=50  Identities=38%  Similarity=0.587  Sum_probs=40.8

Q ss_pred             CceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcC---CCCccccccccccCC
Q 017405          313 DAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYIN---STCPLCKFNILKMSN  365 (372)
Q Consensus       313 d~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~---~tCPlCR~~I~~~~~  365 (372)
                      ..+|+||+..|.++   ..+.|.|.|...|+..-+...   ..||+|+.++.+.+.
T Consensus        21 ~lEc~ic~~~~~~p---~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s~   73 (684)
T KOG4362|consen   21 ILECPICLEHVKEP---SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRSL   73 (684)
T ss_pred             hccCCceeEEeecc---chhhhhHHHHhhhhhceeeccCccccchhhhhhhhhhhc
Confidence            46899999999998   677899999999988866543   359999988776543

>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=84.74  E-value=0.4  Score=34.39  Aligned_cols=32  Identities=25%  Similarity=0.585  Sum_probs=23.0

Q ss_pred             eCCC-CcccHHHHHHHHhcCCCCcccccccccc
Q 017405          332 LPCL-HHFHCSCLDKWLYINSTCPLCKFNILKM  363 (372)
Q Consensus       332 LPC~-H~FH~~CId~WL~~~~tCPlCR~~I~~~  363 (372)
                      ..|+ |..+..|+..-|.++..||+|+.+++.+
T Consensus        16 i~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk   48 (50)
T PF03854_consen   16 IKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK   48 (50)
T ss_dssp             EE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred             eeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence            4586 9999999999999999999999998764

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.

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=84.47  E-value=1.2  Score=32.93  Aligned_cols=38  Identities=26%  Similarity=0.709  Sum_probs=31.2

Q ss_pred             ceeeeecccccCCCceEEeC-CCCcccHHHHHHHHhcCCCCcc
Q 017405          314 AECCICLSAYDDGTELRELP-CLHHFHCSCLDKWLYINSTCPL  355 (372)
Q Consensus       314 ~eC~ICL~~y~~~d~lr~LP-C~H~FH~~CId~WL~~~~tCPl  355 (372)
                      ..|.+|-+.|++++.+.+-| |+-.+|.+|-++    ...|-.
T Consensus         6 ~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~   44 (54)
T PF14446_consen    6 CKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCIN   44 (54)
T ss_pred             ccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEe
Confidence            57999999999998898888 999999999433    445644

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

Probab=82.70  E-value=1  Score=39.19  Aligned_cols=48  Identities=29%  Similarity=0.594  Sum_probs=36.6

Q ss_pred             ceeeeecccccCCCceEEe-C---CCCcccHHHHHHHHh---cCCCCccccccccccC
Q 017405          314 AECCICLSAYDDGTELREL-P---CLHHFHCSCLDKWLY---INSTCPLCKFNILKMS  364 (372)
Q Consensus       314 ~eC~ICL~~y~~~d~lr~L-P---C~H~FH~~CId~WL~---~~~tCPlCR~~I~~~~  364 (372)
                      .+|.||-+.-.+.   +-| |   ||...+..|--.-++   .++.||+||.......
T Consensus        81 YeCnIC~etS~ee---~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~  135 (140)
T PF05290_consen   81 YECNICKETSAEE---RFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS  135 (140)
T ss_pred             eeccCcccccchh---hcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence            6899999987666   444 3   898888888777544   4678999999886544

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

Probab=82.55  E-value=0.38  Score=51.43  Aligned_cols=44  Identities=30%  Similarity=0.539  Sum_probs=33.5

Q ss_pred             ceeeeecccccCCC-ceEEeCCCCcccHHHHHHHHhcCCCCccccccc
Q 017405          314 AECCICLSAYDDGT-ELRELPCLHHFHCSCLDKWLYINSTCPLCKFNI  360 (372)
Q Consensus       314 ~eC~ICL~~y~~~d-~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I  360 (372)
                      ..|.||+..|-... +-+-|-|||..|..|+.+-.  +.+|| |+++=
T Consensus        12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly--n~scp-~~~De   56 (861)
T KOG3161|consen   12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY--NASCP-TKRDE   56 (861)
T ss_pred             hhchHHHHHHHHHhcCcccccccchHHHHHHHhHh--hccCC-CCccc
Confidence            56999998887663 22345599999999998854  77899 87653

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

Probab=81.20  E-value=1.2  Score=47.29  Aligned_cols=51  Identities=35%  Similarity=0.840  Sum_probs=41.6

Q ss_pred             ccCCCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCccccccccccCC
Q 017405          308 VISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMSN  365 (372)
Q Consensus       308 ~~~~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~~~~  365 (372)
                      .+.+....|.||+.+.    ..+..+|.   |..|..+|+..+.+||+|...+...+.
T Consensus       474 ~l~~~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~  524 (543)
T KOG0802|consen  474 QLREPNDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYMKEDDF  524 (543)
T ss_pred             hhhcccCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhhhcccc
Confidence            3455678899999998    44777898   999999999999999999877665443

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

Probab=80.82  E-value=0.46  Score=54.39  Aligned_cols=45  Identities=36%  Similarity=0.771  Sum_probs=37.9

Q ss_pred             CceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCcccccc
Q 017405          313 DAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFN  359 (372)
Q Consensus       313 d~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~  359 (372)
                      ...|.||++......  ...-|+|.+++.|...|+..+..||.|+..
T Consensus      1153 ~~~c~ic~dil~~~~--~I~~cgh~~c~~c~~~~l~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQG--GIAGCGHEPCCRCDELWLYASSRCPICKSI 1197 (1394)
T ss_pred             ccchHHHHHHHHhcC--CeeeechhHhhhHHHHHHHHhccCcchhhh
Confidence            348999999988432  345699999999999999999999999853

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=80.48  E-value=1.1  Score=44.59  Aligned_cols=51  Identities=20%  Similarity=0.495  Sum_probs=34.4

Q ss_pred             CCceeeeecccccCCCc-eEEeCCCCcccHHHHHHHH-hcCCCCccccccccc
Q 017405          312 DDAECCICLSAYDDGTE-LRELPCLHHFHCSCLDKWL-YINSTCPLCKFNILK  362 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~-lr~LPC~H~FH~~CId~WL-~~~~tCPlCR~~I~~  362 (372)
                      +++-|+.|+++++..|+ ..--|||...|.-|-..-- .-+..||-||....+
T Consensus        13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~d   65 (480)
T COG5175          13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDD   65 (480)
T ss_pred             ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccc
Confidence            45569999999987653 4556788776666632221 136679999976543

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	372
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		1e-08
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		4e-08
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		6e-08
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		3e-06
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		2e-05
2ecn_A	70	Solution Structure Of The Ring Domain Of The Human		4e-05
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		1e-04

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

Iteration: 1
 Score = 57.4 bits (137), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 22/46 (47%), Positives = 33/46 (71%)
Query: 315 ECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNI 360
           +C ICLS  ++G ++R LPC+H FH  C+D+WL  N  CP+C+ +I
Sbjct: 16  KCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDI 61

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

Iteration: 1
 Score = 55.8 bits (133), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 25/52 (48%), Positives = 34/52 (65%), Gaps = 1/52 (1%)
Query: 311 EDDAECCICLSAYDDGTELRELP-CLHHFHCSCLDKWLYINSTCPLCKFNIL 361
           +D  EC +CL+  +DG E R LP C H FH  C+D WL  +STCPLC+  ++
Sbjct: 3   DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV 54

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

Iteration: 1
 Score = 55.1 bits (131), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 20/42 (47%), Positives = 27/42 (64%)
Query: 316 CCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCK 357
           C +C+  ++    LR LPC H FH  C+DKWL  N TCP+C+
Sbjct: 26  CVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICR 67

>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 = 49.3 bits (116), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 23/52 (44%), Positives = 31/52 (59%), Gaps = 2/52 (3%)
Query: 306 EHVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCK 357
           EHV S    EC +C   Y  G  +R+LPC H FH SC+  WL  + +CP+C+
Sbjct: 10  EHVGS--GLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCR 59

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

Iteration: 1
 Score = 47.0 bits (110), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 21/53 (39%), Positives = 28/53 (52%)
Query: 316 CCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMSNERG 368
           C +CL  +    EL   PC H FH  CL KWL +   CPLC   +L+++   G
Sbjct: 18  CAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQLSG 70

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

Iteration: 1
 Score = 45.8 bits (107), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 21/57 (36%), Positives = 29/57 (50%), Gaps = 4/57 (7%)
Query: 312 DDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMSNERG 368
           D+ ECCIC+    DG     LPC H F   C+DKW   +  CP+C+  +   +   G
Sbjct: 14  DEEECCICM----DGRADLILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGANESSG 66

>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 = 44.3 bits (103), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 20/42 (47%), Positives = 25/42 (59%)
Query: 316 CCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCK 357
           C IC S Y  G    ELPC H+FH  C+  WL  + TCP+C+
Sbjct: 43  CPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCR 84

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	372
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	3e-27
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	4e-25
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	8e-25
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	4e-22
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	2e-21
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	6e-20
2ect_A	78	Ring finger protein 126; metal binding protein, st	9e-20
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	9e-15
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	3e-14
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	3e-11
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	2e-10
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	3e-10
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	5e-10
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	3e-09
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	1e-08
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	5e-08
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	6e-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	2e-07
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	3e-07
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	3e-07
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	3e-07
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	4e-07
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	5e-07
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	6e-07
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	7e-07
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	5e-06
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	8e-06
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	5e-05
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	5e-05
3nw0_A	238	Non-structural maintenance of chromosomes element	6e-05
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	6e-05
1z6u_A	150	NP95-like ring finger protein isoform B; structura	1e-04
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	2e-04
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	2e-04
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	2e-04
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	4e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-04
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	8e-04

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

 Score =  101 bits (254), Expect = 3e-27
 Identities = 23/101 (22%), Positives = 38/101 (37%), Gaps = 29/101 (28%)

Query: 262 ATEEEIDRLPKFKFSRIDGLEKVNGEIQEPFGGIMIECDTDMPMEHVISEDDAECCICLS 321
            +     +LP ++F+  +                                +   C +C+ 
Sbjct: 1   GSSGSSGQLPSYRFNPNNH-----------------------------QSEQTLCVVCMC 31

Query: 322 AYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILK 362
            ++    LR LPC H FH  C+DKWL  N TCP+C+ +   
Sbjct: 32  DFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSGP 72

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

 Score = 96.0 bits (239), Expect = 4e-25
 Identities = 21/62 (33%), Positives = 28/62 (45%)

Query: 310 SEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMSNERGS 369
                 C +CL  +    EL   PC H FH  CL KWL +   CPLC   +L+++   G 
Sbjct: 12  LNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQLSGP 71

Query: 370 EE 371
             
Sbjct: 72  SS 73

>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 = 95.1 bits (237), Expect = 8e-25
 Identities = 23/55 (41%), Positives = 36/55 (65%)

Query: 306 EHVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNI 360
           E    + + +C ICLS  ++G ++R LPC+H FH  C+D+WL  N  CP+C+ +I
Sbjct: 7   EGTEEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDI 61

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

 Score = 88.6 bits (220), Expect = 4e-22
 Identities = 27/100 (27%), Positives = 38/100 (38%), Gaps = 28/100 (28%)

Query: 261 GATEEEIDRLPKFKFSRIDGLEKVNGEIQEPFGGIMIECDTDMPMEHVISEDDAECCICL 320
            A++E ID LP+   +                             +H     +  C IC 
Sbjct: 16  PASKESIDALPEILVTE----------------------------DHGAVGQEMCCPICC 47

Query: 321 SAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNI 360
           S Y  G    ELPC H+FH  C+  WL  + TCP+C+   
Sbjct: 48  SEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMF 87

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

 Score = 85.3 bits (212), Expect = 2e-21
 Identities = 25/53 (47%), Positives = 34/53 (64%), Gaps = 1/53 (1%)

Query: 310 SEDDAECCICLSAYDDGTELRELP-CLHHFHCSCLDKWLYINSTCPLCKFNIL 361
            +D  EC +CL+  +DG E R LP C H FH  C+D WL  +STCPLC+  ++
Sbjct: 2   MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV 54

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

 Score = 82.1 bits (203), Expect = 6e-20
 Identities = 21/60 (35%), Positives = 29/60 (48%), Gaps = 4/60 (6%)

Query: 311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMSNERGSE 370
            D+ ECCIC+    DG     LPC H F   C+DKW   +  CP+C+  +   +   G  
Sbjct: 13  TDEEECCICM----DGRADLILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGANESSGPS 68

>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 = 81.7 bits (202), Expect = 9e-20
 Identities = 22/55 (40%), Positives = 32/55 (58%), Gaps = 2/55 (3%)

Query: 306 EHVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNI 360
           EHV      EC +C   Y  G  +R+LPC H FH SC+  WL  + +CP+C+ ++
Sbjct: 10  EHV--GSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSL 62

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

 Score = 67.4 bits (165), Expect = 9e-15
 Identities = 20/62 (32%), Positives = 31/62 (50%), Gaps = 2/62 (3%)

Query: 309 ISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMSNERG 368
           ++     C ICL    + +    LPCLH F   C+ +W+  N TCPLCK  +  + +   
Sbjct: 1   MATVAERCPICLEDPSNYS--MALPCLHAFCYVCITRWIRQNPTCPLCKVPVESVVHTIE 58

Query: 369 SE 370
           S+
Sbjct: 59  SD 60

>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 = 65.8 bits (161), Expect = 3e-14
 Identities = 16/52 (30%), Positives = 21/52 (40%), Gaps = 1/52 (1%)

Query: 310 SEDDAECCICLSAYDDGTEL-RELPCLHHFHCSCLDKWLYINSTCPLCKFNI 360
           S   + C ICL        +   LPC H  H +C ++ L     CPLC    
Sbjct: 2   SSGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPS 53

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

 Score = 57.6 bits (139), Expect = 3e-11
 Identities = 15/55 (27%), Positives = 20/55 (36%), Gaps = 4/55 (7%)

Query: 310 SEDDAECCICLSAYDDGTELRE----LPCLHHFHCSCLDKWLYINSTCPLCKFNI 360
                 C IC+  Y +  +         C H F   CL   L   +TCP C+  I
Sbjct: 12  PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 66

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

 Score = 61.0 bits (147), Expect = 2e-10
 Identities = 17/78 (21%), Positives = 26/78 (33%), Gaps = 16/78 (20%)

Query: 299 CDTDMPMEHVISEDDAECCICLSAYDDGTELRELPCL-----HHFHCSCLDKWL------ 347
             +D P       ++  C IC +   DG E+  + C         H  CL++W       
Sbjct: 294 DWSDGPKLDEEDNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDG 353

Query: 348 -----YINSTCPLCKFNI 360
                     CP CK  +
Sbjct: 354 KTFLEVSFGQCPFCKAKL 371

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

 Score = 55.3 bits (133), Expect = 3e-10
 Identities = 13/45 (28%), Positives = 18/45 (40%), Gaps = 1/45 (2%)

Query: 313 DAECCICLSAYDDGTELRELP-CLHHFHCSCLDKWLYINSTCPLC 356
              C  C +       +     C H FH  C+  W+  N+ CPLC
Sbjct: 26  MDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLC 70

>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 = 54.1 bits (130), Expect = 5e-10
 Identities = 15/57 (26%), Positives = 20/57 (35%), Gaps = 4/57 (7%)

Query: 310 SEDDAECCICLSAYDDGTELRE----LPCLHHFHCSCLDKWLYINSTCPLCKFNILK 362
                 C IC+  Y +  +         C H F   CL   L   +TCP C+  I  
Sbjct: 7   PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH 63

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

 Score = 51.7 bits (124), Expect = 3e-09
 Identities = 15/52 (28%), Positives = 20/52 (38%), Gaps = 4/52 (7%)

Query: 315 ECCICLSAYDDGTELRE----LPCLHHFHCSCLDKWLYINSTCPLCKFNILK 362
            C IC+  Y +  +         C H F   CL   L   +TCP C+  I  
Sbjct: 5   SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH 56

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

 Score = 50.5 bits (121), Expect = 1e-08
 Identities = 15/52 (28%), Positives = 22/52 (42%), Gaps = 2/52 (3%)

Query: 311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILK 362
                C IC     D T +    CLH F  SC+ +  Y ++ CP C   + +
Sbjct: 13  TPYILCSICKGYLIDATTI--TECLHTFCKSCIVRHFYYSNRCPKCNIVVHQ 62

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

 Score = 48.8 bits (116), Expect = 5e-08
 Identities = 12/53 (22%), Positives = 15/53 (28%), Gaps = 4/53 (7%)

Query: 307 HVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYI--NSTCPLCK 357
               +    C IC S    G       C    H  C+ K+        CP C 
Sbjct: 9   ETYPDAVKICNICHSLLIQGQSCE--TCGIRMHLPCVAKYFQSNAEPRCPHCN 59

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

 Score = 48.3 bits (115), Expect = 6e-08
 Identities = 15/48 (31%), Positives = 19/48 (39%), Gaps = 3/48 (6%)

Query: 310 SEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCK 357
           S    EC ICL        L   PC H F   C+    ++   C LC+
Sbjct: 12  SLTVPECAICLQTCVHPVSL---PCKHVFCYLCVKGASWLGKRCALCR 56

>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 = 48.7 bits (116), Expect = 1e-07
 Identities = 14/52 (26%), Positives = 25/52 (48%), Gaps = 2/52 (3%)

Query: 311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILK 362
                C +C   + D T +  + CLH F  +C+ ++L  +  CP+C   + K
Sbjct: 13  NPHLMCVLCGGYFIDATTI--IECLHSFCKTCIVRYLETSKYCPICDVQVHK 62

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

 Score = 49.3 bits (117), Expect = 2e-07
 Identities = 13/49 (26%), Positives = 25/49 (51%), Gaps = 3/49 (6%)

Query: 309 ISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCK 357
           + E++ +C IC   + +   L    C H F   C+++W+     CP+C+
Sbjct: 60  VLENELQCIICSEYFIEAVTL---NCAHSFCSYCINEWMKRKIECPICR 105

>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 = 47.9 bits (113), Expect = 3e-07
 Identities = 15/60 (25%), Positives = 19/60 (31%), Gaps = 15/60 (25%)

Query: 312 DDAECCICL---------------SAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLC 356
               C IC                SA  +   +    C H FH  C+ +WL     CPL 
Sbjct: 47  VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLD 106

>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 = 50.9 bits (121), Expect = 3e-07
 Identities = 14/64 (21%), Positives = 22/64 (34%), Gaps = 4/64 (6%)

Query: 300 DTDMPMEHVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINS-TCPLCKF 358
                +   +      C IC    ++  +++  PC H    SCL  W       CP C+ 
Sbjct: 319 QEQYELYCEMGSTFQLCKICA---ENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRC 375

Query: 359 NILK 362
            I  
Sbjct: 376 EIKG 379

>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 = 47.2 bits (112), Expect = 3e-07
 Identities = 12/48 (25%), Positives = 18/48 (37%), Gaps = 3/48 (6%)

Query: 311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYI-NSTCPLCK 357
            +   C IC+    D        C      SC+ +WL    + CP C+
Sbjct: 20  AEVFRCFICMEKLRDARLC--PHCSKLCCFSCIRRWLTEQRAQCPHCR 65

>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 = 47.1 bits (111), Expect = 4e-07
 Identities = 11/42 (26%), Positives = 15/42 (35%), Gaps = 1/42 (2%)

Query: 316 CCICLSAYDDGTELRELP-CLHHFHCSCLDKWLYINSTCPLC 356
           C    ++            C H FH  C+ +WL     CPL 
Sbjct: 54  CQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLD 95

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

 Score = 46.0 bits (109), Expect = 5e-07
 Identities = 12/47 (25%), Positives = 17/47 (36%), Gaps = 3/47 (6%)

Query: 311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCK 357
           E    C IC  A+ +        C H+F  SC  +       C +C 
Sbjct: 13  EIPFRCFICRQAFQNPVVT---KCRHYFCESCALEHFRATPRCYICD 56

>2d8s_A Cellular modulator of immune recognition; C-MIR, march8, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 80

 Score = 45.7 bits (108), Expect = 6e-07
 Identities = 18/62 (29%), Positives = 24/62 (38%), Gaps = 8/62 (12%)

Query: 304 PMEHVISEDDAECCICLSAYDDGTELRELPC-----LHHFHCSCLDKWLYI--NSTCPLC 356
               +       C IC    DD + L   PC     LH  H +CL +W+       C LC
Sbjct: 6   SGTSITPSSQDICRICHCEGDDESPL-ITPCHCTGSLHFVHQACLQQWIKSSDTRCCELC 64

Query: 357 KF 358
           K+
Sbjct: 65  KY 66

>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 = 46.8 bits (110), Expect = 7e-07
 Identities = 19/73 (26%), Positives = 25/73 (34%), Gaps = 20/73 (27%)

Query: 305 MEHVISEDDAECCICL------SAYDDGTE---------LRELPCLHHFHCSCLDKWLYI 349
            E +    + +C IC+      S Y D T+          R   C H FH  CL      
Sbjct: 17  TEELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCN 76

Query: 350 NS-----TCPLCK 357
            +      CP CK
Sbjct: 77  GNKDGSLQCPSCK 89

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

 Score = 44.4 bits (104), Expect = 5e-06
 Identities = 15/55 (27%), Positives = 20/55 (36%), Gaps = 4/55 (7%)

Query: 310 SEDDAECCICLSAYDDGTELRE----LPCLHHFHCSCLDKWLYINSTCPLCKFNI 360
                 C IC+  Y +  +         C H F   CL   L   +TCP C+  I
Sbjct: 4   GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 58

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

 Score = 43.2 bits (102), Expect = 8e-06
 Identities = 12/47 (25%), Positives = 22/47 (46%), Gaps = 2/47 (4%)

Query: 311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCK 357
           +D   C IC   ++    + +  C H++   C+ K+L   + CP C 
Sbjct: 20  DDLLRCGICFEYFNIAMIIPQ--CSHNYCSLCIRKFLSYKTQCPTCC 64

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

 Score = 40.5 bits (95), Expect = 5e-05
 Identities = 14/51 (27%), Positives = 22/51 (43%), Gaps = 4/51 (7%)

Query: 311 EDDAECCICLSAYDDGTEL-RELPCLHHFHCSCLDKWLYINS---TCPLCK 357
            +  EC IC+ ++ +     + L C H     CL+K L  +     CP C 
Sbjct: 13  REVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCS 63

>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 = 41.4 bits (97), Expect = 5e-05
 Identities = 14/56 (25%), Positives = 23/56 (41%), Gaps = 4/56 (7%)

Query: 303 MPMEHVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWL-YINSTCPLCK 357
           +P + + S  + +C IC+       E   LPC H     C    +   +  CP C+
Sbjct: 5   LPKDAIPSLSECQCGICMEIL---VEPVTLPCNHTLCKPCFQSTVEKASLCCPFCR 57

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

 Score = 42.8 bits (100), Expect = 6e-05
 Identities = 18/86 (20%), Positives = 27/86 (31%), Gaps = 7/86 (8%)

Query: 274 KFSRIDGLEKVNGEIQEPFGGIMIECDTDMPMEHVISEDDAECCICLSAYDDGTELRELP 333
           KF +   L +  GE       I+   + +  +     +    C IC S    G       
Sbjct: 144 KFVQNKWLIEKEGEFTLHGRAIL---EMEQYIRETYPDAVKICNICHSLLIQGQSCET-- 198

Query: 334 CLHHFHCSCLDKWLYI--NSTCPLCK 357
           C    H  C+ K+        CP C 
Sbjct: 199 CGIRMHLPCVAKYFQSNAEPRCPHCN 224

>1vyx_A ORF K3, K3RING; zinc-binding protein, ring domain, cross-brace motif; NMR {Human herpesvirus 8} SCOP: g.44.1.3 Length = 60

 Score = 39.3 bits (92), Expect = 6e-05
 Identities = 18/56 (32%), Positives = 23/56 (41%), Gaps = 10/56 (17%)

Query: 310 SEDDAECCICLSAYDDGTELRELPC-----LHHFHCSCLDKWLYI--NSTCPLCKF 358
            ED   C IC    ++    R   C     L + H SCL  WL I  N+ C +C  
Sbjct: 3   DEDVPVCWICN---EELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGV 55

>1z6u_A NP95-like ring finger protein isoform B; structural genomics consortium, ligase, ubiquitin-protein ligase, cell cycle regulation, SGC; 2.10A {Homo sapiens} Length = 150

 Score = 41.1 bits (96), Expect = 1e-04
 Identities = 10/48 (20%), Positives = 14/48 (29%), Gaps = 4/48 (8%)

Query: 311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINS-TCPLCK 357
           E    C  C              C H+    CL +       +CP C+
Sbjct: 76  EQSFMCVCCQELVYQPVTT---ECFHNVCKDCLQRSFKAQVFSCPACR 120

>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 = 40.3 bits (94), Expect = 2e-04
 Identities = 18/66 (27%), Positives = 27/66 (40%), Gaps = 7/66 (10%)

Query: 302 DMPMEHVIS----EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWL-YINSTCPLC 356
              +E V+S      +  C ICL    +    +E  CLH F   C+   L   N  CP C
Sbjct: 39  TDGLEIVVSPRSLHSELMCPICLDMLKNTMTTKE--CLHRFCADCIITALRSGNKECPTC 96

Query: 357 KFNILK 362
           +  ++ 
Sbjct: 97  RKKLVS 102

>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 = 39.5 bits (92), Expect = 2e-04
 Identities = 12/47 (25%), Positives = 18/47 (38%), Gaps = 4/47 (8%)

Query: 311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCK 357
           E    C  C +   +   L    C H F  +C+     I + CP+C 
Sbjct: 20  EKLLRCSRCTNILREPVCL--GGCEHIFCSNCVSDC--IGTGCPVCY 62

>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 = 39.6 bits (92), Expect = 2e-04
 Identities = 11/48 (22%), Positives = 17/48 (35%), Gaps = 4/48 (8%)

Query: 311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWL-YINSTCPLCK 357
           E+  +C  C              C H+    CLD+       +CP C+
Sbjct: 50  EETFQCICCQELV---FRPITTVCQHNVCKDCLDRSFRAQVFSCPACR 94

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

 Score = 37.8 bits (87), Expect = 4e-04
 Identities = 12/50 (24%), Positives = 18/50 (36%), Gaps = 2/50 (4%)

Query: 310 SEDDAECCICLSAYD-DGTELRELPCLHHFHCSCLDKWLY-INSTCPLCK 357
            ED  EC +C+   + D        C +     C  +     N  CP C+
Sbjct: 8   KEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACR 57

>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 = 40.6 bits (94), Expect = 8e-04
 Identities = 42/346 (12%), Positives = 86/346 (24%), Gaps = 135/346 (39%)

Query: 6   PADAAETSPLL----AHSLPDHLIRSRRLLRRPPPPLRGAAARLLRRASGRRLMLREPSV 61
           P +   T+P      A S+ D L                              +  +   
Sbjct: 319 PREVLTTNPRRLSIIAESIRDGLATWDNWKH----------------------VNCDKLT 356

Query: 62  RVRETAAEQL---EERQSYWAYSR-------PIIVLDVLWN-----LVFVIVAFAVLGVS 106
            + E++   L   E R+ +   S        P I+L ++W       V V+V        
Sbjct: 357 TIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSL 416

Query: 107 INEKPEVPLRLRIVGYALQCLFHVFCVSLEFKRRRRGEGVVFGDSVSGSSSTTVTGDEEE 166
           + ++P+    + I   ++          LE K +                      + E 
Sbjct: 417 VEKQPK-ESTISI--PSIY---------LELKVKL---------------------ENEY 443

Query: 167 RFHGENDSSVAKNLESANTFLSFLWWIVG-------FYW------ITASGETLISCSPQL 213
             H          ++  N   +F    +        FY               ++    +
Sbjct: 444 ALH-------RSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMV 496

Query: 214 YWLCVTFLAFDVVFV---MICVGVACLIGIAVCCCLPCILGIL-----YA--LTEREGAT 263
           +         D  F+   +     A             IL  L     Y   + + +   
Sbjct: 497 F--------LDFRFLEQKIRHDSTA-------WNASGSILNTLQQLKFYKPYICDNDPKY 541

Query: 264 EEEIDRLPKF-----------KFSRIDGLEKVNGEIQEPFGGIMIE 298
           E  ++ +  F           K++ +     +   +      I  E
Sbjct: 542 ERLVNAILDFLPKIEENLICSKYTDL-----LRIALMAEDEAIFEE 582

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

 Score = 36.7 bits (85), Expect = 8e-04
 Identities = 14/53 (26%), Positives = 21/53 (39%), Gaps = 4/53 (7%)

Query: 311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWL-YINSTCPLCKFNILK 362
           ED  +C  C        +     C H F  SC+   L   +  C  C+ +I+K
Sbjct: 13  EDKYKCEKCHLVLCSPKQT---ECGHRFCESCMAALLSSSSPKCTACQESIVK 62

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	372
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.71
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.66
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.56
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.54
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.54
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.52
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.47
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.44
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.43
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.41
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.4
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.39
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.38
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.37
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.35
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.34
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.34
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.31
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.28
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.27
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.27
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.26
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.25
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.24
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.2
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.19
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.18
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.15
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.14
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.14
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.14
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.13
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.12
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.11
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.1
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.09
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.09
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.08
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.07
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.05
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	98.98
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	98.97
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	98.97
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	98.95
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.92
1z6u_A	150	NP95-like ring finger protein isoform B; structura	98.92
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.85
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	98.84
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.84
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.82
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	98.8
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	98.8
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.79
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.79
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.75
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.74
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.72
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.71
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.66
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.62
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.59
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.56
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.56
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.46
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.42
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.38
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.34
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.24
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.17
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.06
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.66
3nw0_A	238	Non-structural maintenance of chromosomes element	97.46
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	94.37
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	93.5
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	93.39
2l43_A	88	N-teminal domain from histone H3.3, linker, PHD1 f	88.98
2xb1_A	105	Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro;	87.42
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	87.38
1xwh_A	66	Autoimmune regulator; PHD domain, Zn binding domai	85.63
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	84.92
1we9_A	64	PHD finger family protein; structural genomics, PH	83.71
2yt5_A	66	Metal-response element-binding transcription facto	82.02
2puy_A	60	PHD finger protein 21A; PHD finger, histone CODE,	81.06
1fp0_A	88	KAP-1 corepressor; PHD domain, C3HC4 type zinc bin	80.73
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	80.39

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

Probab=99.71  E-value=8.3e-18  Score=134.91  Aligned_cols=78  Identities=35%  Similarity=0.691  Sum_probs=67.3

Q ss_pred             hccCCCCHHHHhcCCceEeeeccCcccccCCCCCCCCccccccCCCCCcccccCCCCceeeeecccccCCCceEEeCCCC
Q 017405          257 TEREGATEEEIDRLPKFKFSRIDGLEKVNGEIQEPFGGIMIECDTDMPMEHVISEDDAECCICLSAYDDGTELRELPCLH  336 (372)
Q Consensus       257 ~~~~g~s~~~I~~Lp~~k~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~e~~~~~ed~eC~ICL~~y~~~d~lr~LPC~H  336 (372)
                      ....|++++.|++||.+++......                            ..++.+|+||++.|.+++.++.|||+|
T Consensus        12 ~~~~~~s~~~i~~lp~~~~~~~~~~----------------------------~~~~~~C~IC~~~~~~~~~~~~l~C~H   63 (91)
T 2l0b_A           12 VANPPASKESIDALPEILVTEDHGA----------------------------VGQEMCCPICCSEYVKGDVATELPCHH   63 (91)
T ss_dssp             SCCCCCCHHHHHTSCEEECCTTCSS----------------------------SSSCSEETTTTEECCTTCEEEEETTTE
T ss_pred             cCCCCCCHHHHHhCCCeeecccccc----------------------------cCCCCCCcccChhhcCCCcEEecCCCC
Confidence            3468999999999999887654321                            134578999999999999999999999


Q ss_pred             cccHHHHHHHHhcCCCCccccccccc
Q 017405          337 HFHCSCLDKWLYINSTCPLCKFNILK  362 (372)
Q Consensus       337 ~FH~~CId~WL~~~~tCPlCR~~I~~  362 (372)
                      .||..||++|++.+.+||+||.++..
T Consensus        64 ~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           64 YFHKPCVSIWLQKSGTCPVCRCMFPP   89 (91)
T ss_dssp             EEEHHHHHHHHTTTCBCTTTCCBSSC
T ss_pred             hHHHHHHHHHHHcCCcCcCcCccCCC
Confidence            99999999999999999999998864

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

Probab=99.66  E-value=1.8e-17  Score=127.72  Aligned_cols=52  Identities=38%  Similarity=0.973  Sum_probs=48.5

Q ss_pred             CCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCcccccccccc
Q 017405          312 DDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKM  363 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~~  363 (372)
                      ++.+|+||+++|++++.++.|||+|.||.+||++|++.+.+||+||+++.+.
T Consensus        22 ~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~   73 (75)
T 1x4j_A           22 EQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSGPS   73 (75)
T ss_dssp             SCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHCSSCTTTCCCCCCC
T ss_pred             CCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcCCcCcCcCCcCCCC
Confidence            4578999999999999999999999999999999999999999999998764

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

Probab=99.56  E-value=3.6e-15  Score=114.24  Aligned_cols=57  Identities=35%  Similarity=0.845  Sum_probs=51.4

Q ss_pred             CCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCccccccccccCCcC
Q 017405          311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMSNER  367 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~~~~~~  367 (372)
                      .++.+|+||++.|.+++.++.|||+|.||.+||++|++.+.+||+||+++.......
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~   69 (74)
T 2ep4_A           13 NLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQLS   69 (74)
T ss_dssp             CCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHCSBCTTTCCBCSSCCSCC
T ss_pred             CCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcCCcCCCcCcccccccccC
Confidence            456799999999999999999999999999999999999999999999997765543

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

Probab=99.54  E-value=2e-15  Score=108.99  Aligned_cols=50  Identities=50%  Similarity=1.158  Sum_probs=46.7

Q ss_pred             CCceeeeecccccCCCceEEeC-CCCcccHHHHHHHHhcCCCCcccccccc
Q 017405          312 DDAECCICLSAYDDGTELRELP-CLHHFHCSCLDKWLYINSTCPLCKFNIL  361 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~lr~LP-C~H~FH~~CId~WL~~~~tCPlCR~~I~  361 (372)
                      ++.+|+||+++|++++.+..+| |+|.||.+||++|++.+.+||+||+++.
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            5578999999999999999998 9999999999999999999999998874

>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=99.54  E-value=6e-15  Score=111.48  Aligned_cols=55  Identities=40%  Similarity=1.067  Sum_probs=49.7

Q ss_pred             CCCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCccccccccccC
Q 017405          310 SEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMS  364 (372)
Q Consensus       310 ~~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~~~  364 (372)
                      ..++.+|+||++.|.+++.++.+||+|.||..||.+|++.+.+||+||.++....
T Consensus        11 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   65 (69)
T 2kiz_A           11 EDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQL   65 (69)
T ss_dssp             TTCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBSCSCC
T ss_pred             CCCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCccccCcC
Confidence            3456789999999999999999999999999999999999999999999987543

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

Probab=99.52  E-value=6.8e-15  Score=113.83  Aligned_cols=56  Identities=34%  Similarity=0.819  Sum_probs=50.6

Q ss_pred             CCCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCccccccccccCC
Q 017405          310 SEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMSN  365 (372)
Q Consensus       310 ~~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~~~~  365 (372)
                      ..++.+|+||++.|.+++.++.|||+|.||.+||.+|++.+.+||+||.++.....
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   67 (78)
T 2ect_A           12 VGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNT   67 (78)
T ss_dssp             SSSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCCCCSCS
T ss_pred             CCCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCccCCccc
Confidence            34567999999999999999999999999999999999999999999999876543

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

Probab=99.47  E-value=1.5e-14  Score=113.60  Aligned_cols=52  Identities=29%  Similarity=0.663  Sum_probs=42.8

Q ss_pred             CCceeeeecccccC-----------CCceEEeC-CCCcccHHHHHHHHhcCCCCcccccccccc
Q 017405          312 DDAECCICLSAYDD-----------GTELRELP-CLHHFHCSCLDKWLYINSTCPLCKFNILKM  363 (372)
Q Consensus       312 ed~eC~ICL~~y~~-----------~d~lr~LP-C~H~FH~~CId~WL~~~~tCPlCR~~I~~~  363 (372)
                      ++++|+||+++|++           ++.++.+| |+|.||.+||++||+.+.+||+||+++...
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~   77 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVVQ   77 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCEE
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcchh
Confidence            45667777777754           45577776 999999999999999999999999987643

>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=99.44  E-value=4.5e-14  Score=101.72  Aligned_cols=50  Identities=30%  Similarity=0.608  Sum_probs=44.3

Q ss_pred             CCceeeeecccccCC-CceEEeCCCCcccHHHHHHHHhcCCCCcccccccc
Q 017405          312 DDAECCICLSAYDDG-TELRELPCLHHFHCSCLDKWLYINSTCPLCKFNIL  361 (372)
Q Consensus       312 ed~eC~ICL~~y~~~-d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~  361 (372)
                      ++.+|+||++.|.++ +..+.+||+|.||.+||++|++.+.+||+||.++.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            457899999999765 45788999999999999999999999999998874

>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=99.43  E-value=1e-13  Score=114.79  Aligned_cols=54  Identities=26%  Similarity=0.461  Sum_probs=44.6

Q ss_pred             CCceeeeecccccCCC---------------ceEEeCCCCcccHHHHHHHH-----hcCCCCccccccccccCC
Q 017405          312 DDAECCICLSAYDDGT---------------ELRELPCLHHFHCSCLDKWL-----YINSTCPLCKFNILKMSN  365 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d---------------~lr~LPC~H~FH~~CId~WL-----~~~~tCPlCR~~I~~~~~  365 (372)
                      .+.+|+||++.|.+++               .++.+||+|.||.+||++|+     +.+.+||+||..+.....
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~~g   97 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKTG   97 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCSS
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCCCC
Confidence            4569999999997753               45578999999999999999     457799999998865543

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

Probab=99.41  E-value=1.1e-13  Score=103.91  Aligned_cols=53  Identities=28%  Similarity=0.593  Sum_probs=46.2

Q ss_pred             CCCCceeeeecccccCC----CceEEeCCCCcccHHHHHHHHhcCCCCccccccccc
Q 017405          310 SEDDAECCICLSAYDDG----TELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILK  362 (372)
Q Consensus       310 ~~ed~eC~ICL~~y~~~----d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~  362 (372)
                      ..++.+|+||++.|.++    +.+..++|+|.||.+||++|++.+.+||+||.++..
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           12 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   68 (69)
T ss_dssp             TTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHCSSCTTTCCCCCC
T ss_pred             CCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcCCCCCCCCCccCc
Confidence            34678999999999874    455789999999999999999999999999998864

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

Probab=99.40  E-value=7.9e-14  Score=105.49  Aligned_cols=54  Identities=28%  Similarity=0.570  Sum_probs=47.4

Q ss_pred             CCCceeeeecccccCC----CceEEeCCCCcccHHHHHHHHhcCCCCccccccccccC
Q 017405          311 EDDAECCICLSAYDDG----TELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMS  364 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~----d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~~~  364 (372)
                      .++.+|+||++.|.++    +..+.++|+|.||.+||++|++.+.+||+||.++...+
T Consensus         8 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   65 (71)
T 3ng2_A            8 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR   65 (71)
T ss_dssp             TTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCCCS
T ss_pred             CCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCccChhh
Confidence            4567999999999764    66788999999999999999999999999999987543

>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=99.39  E-value=1.9e-13  Score=113.05  Aligned_cols=50  Identities=28%  Similarity=0.533  Sum_probs=43.9

Q ss_pred             CCceeeeecccccCC---------------CceEEeCCCCcccHHHHHHHHhcCCCCcccccccc
Q 017405          312 DDAECCICLSAYDDG---------------TELRELPCLHHFHCSCLDKWLYINSTCPLCKFNIL  361 (372)
Q Consensus       312 ed~eC~ICL~~y~~~---------------d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~  361 (372)
                      +++.|+||++.|++.               ..++.+||+|.||..||++||+.+.+||+||.+..
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~  100 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  100 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCCcCcCCCCcce
Confidence            567899999999865               14778999999999999999999999999999854

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

Probab=99.38  E-value=2.4e-13  Score=106.87  Aligned_cols=54  Identities=31%  Similarity=0.767  Sum_probs=46.0

Q ss_pred             CCCCceeeeecccccCCCceEEeCCC-----CcccHHHHHHHHhcC--CCCccccccccccC
Q 017405          310 SEDDAECCICLSAYDDGTELRELPCL-----HHFHCSCLDKWLYIN--STCPLCKFNILKMS  364 (372)
Q Consensus       310 ~~ed~eC~ICL~~y~~~d~lr~LPC~-----H~FH~~CId~WL~~~--~tCPlCR~~I~~~~  364 (372)
                      ..++.+|.||+++|++++.+ .+||+     |.||.+||++||+.+  .+||+||+++....
T Consensus        12 ~~~~~~C~IC~~~~~~~~~l-~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~   72 (80)
T 2d8s_A           12 PSSQDICRICHCEGDDESPL-ITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMET   72 (80)
T ss_dssp             CTTSCCCSSSCCCCCSSSCE-ECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCCC
T ss_pred             CCCCCCCeEcCccccCCCee-EeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecCc
Confidence            44567999999999988877 59997     999999999999876  48999999886543

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

Probab=99.37  E-value=1.4e-13  Score=101.79  Aligned_cols=52  Identities=29%  Similarity=0.570  Sum_probs=45.9

Q ss_pred             CCceeeeecccccCC----CceEEeCCCCcccHHHHHHHHhcCCCCcccccccccc
Q 017405          312 DDAECCICLSAYDDG----TELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKM  363 (372)
Q Consensus       312 ed~eC~ICL~~y~~~----d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~~  363 (372)
                      ++.+|+||++.|.++    +.+..++|+|.||.+||++|++.+.+||+||.++...
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   57 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK   57 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHCSBCTTTCCBCTTT
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcCCCCCCCCccCCcc
Confidence            457899999999864    5667899999999999999999999999999988764

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

Probab=99.35  E-value=4.8e-13  Score=100.54  Aligned_cols=50  Identities=38%  Similarity=0.850  Sum_probs=44.1

Q ss_pred             CCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCccccccccc
Q 017405          311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILK  362 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~  362 (372)
                      .++.+|+||++.+.++  ...+||+|.||..||.+|++.+.+||+||.++..
T Consensus         3 ~~~~~C~IC~~~~~~~--~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   52 (68)
T 1chc_A            3 TVAERCPICLEDPSNY--SMALPCLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCCSSCCSCCCSC--EEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCCCeeCCccccCC--cEecCCCCeeHHHHHHHHHhCcCcCcCCChhhHh
Confidence            3567899999998764  4789999999999999999999999999998864

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

Probab=99.34  E-value=4.2e-13  Score=101.52  Aligned_cols=51  Identities=37%  Similarity=0.996  Sum_probs=45.3

Q ss_pred             CCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCccccccccccCC
Q 017405          311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMSN  365 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~~~~  365 (372)
                      .++.+|+||++.+.+    ..+||+|.||..||.+|++.+.+||+||.++...+.
T Consensus        13 ~~~~~C~IC~~~~~~----~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   63 (70)
T 2ecn_A           13 TDEEECCICMDGRAD----LILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGANE   63 (70)
T ss_dssp             CCCCCCSSSCCSCCS----EEETTTEEECHHHHHHSSCCCSSCHHHHHCTTCCCC
T ss_pred             CCCCCCeeCCcCccC----cccCCCCcccHHHHHHHHHCcCcCCCcCCcccCCCc
Confidence            456799999999887    689999999999999999999999999999876543

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

Probab=99.34  E-value=4.4e-13  Score=102.00  Aligned_cols=50  Identities=30%  Similarity=0.631  Sum_probs=44.8

Q ss_pred             CCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCcccccccccc
Q 017405          311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKM  363 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~~  363 (372)
                      .++.+|+||++.+.+.   ..+||+|.||.+||++|++.+.+||+||..+...
T Consensus        13 ~~~~~C~IC~~~~~~~---~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   62 (71)
T 2d8t_A           13 LTVPECAICLQTCVHP---VSLPCKHVFCYLCVKGASWLGKRCALCRQEIPED   62 (71)
T ss_dssp             SSCCBCSSSSSBCSSE---EEETTTEEEEHHHHHHCTTCSSBCSSSCCBCCHH
T ss_pred             CCCCCCccCCcccCCC---EEccCCCHHHHHHHHHHHHCCCcCcCcCchhCHh
Confidence            4567899999999876   7789999999999999999999999999988654

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

Probab=99.31  E-value=1.4e-12  Score=99.54  Aligned_cols=51  Identities=27%  Similarity=0.654  Sum_probs=44.8

Q ss_pred             CCCceeeeecccccCCCceEEe-CCCCcccHHHHHHHHhcCCCCccccccccccC
Q 017405          311 EDDAECCICLSAYDDGTELREL-PCLHHFHCSCLDKWLYINSTCPLCKFNILKMS  364 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~L-PC~H~FH~~CId~WL~~~~tCPlCR~~I~~~~  364 (372)
                      .++..|+||++.+.++   ..+ +|+|.||..||.+|++.+..||+||.++...+
T Consensus        13 ~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~   64 (72)
T 2djb_A           13 TPYILCSICKGYLIDA---TTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQ   64 (72)
T ss_dssp             CGGGSCTTTSSCCSSC---EECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCSSC
T ss_pred             CCCCCCCCCChHHHCc---CEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCccc
Confidence            4567899999999886   555 99999999999999999999999999987654

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

Probab=99.28  E-value=2.7e-12  Score=98.53  Aligned_cols=53  Identities=26%  Similarity=0.539  Sum_probs=45.2

Q ss_pred             CCCceeeeecccccCCCceEEeC-CCCcccHHHHHHHHhcC--CCCccccccccccCCc
Q 017405          311 EDDAECCICLSAYDDGTELRELP-CLHHFHCSCLDKWLYIN--STCPLCKFNILKMSNE  366 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LP-C~H~FH~~CId~WL~~~--~tCPlCR~~I~~~~~~  366 (372)
                      .++..|+||++.|.++   ..+| |+|.||..||++|++.+  .+||+||.++...+..
T Consensus        13 ~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~   68 (74)
T 2yur_A           13 PDELLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDAL   68 (74)
T ss_dssp             CGGGSCSSSCCCCTTC---EECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCTTTT
T ss_pred             CCCCCCcCCChHHhCC---eEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCcccc
Confidence            4567899999999987   7799 99999999999999876  6899999987655443

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

Probab=99.27  E-value=3.5e-12  Score=100.23  Aligned_cols=54  Identities=26%  Similarity=0.527  Sum_probs=46.5

Q ss_pred             CCCCceeeeecccccCCCc-eEEeCCCCcccHHHHHHHHhcC---CCCcccccccccc
Q 017405          310 SEDDAECCICLSAYDDGTE-LRELPCLHHFHCSCLDKWLYIN---STCPLCKFNILKM  363 (372)
Q Consensus       310 ~~ed~eC~ICL~~y~~~d~-lr~LPC~H~FH~~CId~WL~~~---~tCPlCR~~I~~~  363 (372)
                      ..++.+|+||++.|.+++. .+.+||+|.||.+||.+|++.+   .+||+||..+...
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   69 (88)
T 2ct2_A           12 LREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRIT   69 (88)
T ss_dssp             CCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCS
T ss_pred             ccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccch
Confidence            3456789999999998764 6789999999999999999876   7899999987654

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

Probab=99.27  E-value=3e-12  Score=99.70  Aligned_cols=48  Identities=25%  Similarity=0.446  Sum_probs=43.3

Q ss_pred             CCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCcccccccc
Q 017405          311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNIL  361 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~  361 (372)
                      .++.+|+||++.|.++   ..+||+|.||..||.+|++.+.+||+||..+.
T Consensus        13 ~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           13 EIPFRCFICRQAFQNP---VVTKCRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             CCCSBCSSSCSBCCSE---EECTTSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             CCCCCCcCCCchhcCe---eEccCCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            4567899999999876   57999999999999999999999999999875

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

Probab=99.26  E-value=3.7e-12  Score=96.83  Aligned_cols=51  Identities=27%  Similarity=0.546  Sum_probs=43.6

Q ss_pred             CCCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHh---cCCCCcccccccccc
Q 017405          310 SEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLY---INSTCPLCKFNILKM  363 (372)
Q Consensus       310 ~~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~---~~~tCPlCR~~I~~~  363 (372)
                      ..++.+|+||++.|.++   ..+||+|.||.+||.+|++   .+..||+||.++...
T Consensus        17 ~~~~~~C~IC~~~~~~~---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   70 (73)
T 2ysl_A           17 LQEEVICPICLDILQKP---VTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKN   70 (73)
T ss_dssp             CCCCCBCTTTCSBCSSE---EECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCC
T ss_pred             CccCCEeccCCcccCCe---EEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCcc
Confidence            34568999999999876   6789999999999999997   456899999988654

>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=99.25  E-value=6.6e-13  Score=111.62  Aligned_cols=50  Identities=28%  Similarity=0.536  Sum_probs=1.1

Q ss_pred             CCceeeeecccccCC-------------C--ceEEeCCCCcccHHHHHHHHhcCCCCcccccccc
Q 017405          312 DDAECCICLSAYDDG-------------T--ELRELPCLHHFHCSCLDKWLYINSTCPLCKFNIL  361 (372)
Q Consensus       312 ed~eC~ICL~~y~~~-------------d--~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~  361 (372)
                      +++.|+||+++|++.             +  .+..+||+|.||..||++||+.+.+||+||.+..
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~  111 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  111 (117)
T ss_dssp             CC---------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCeee
Confidence            467899999999763             2  3334689999999999999999999999999854

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

Probab=99.24  E-value=4.9e-12  Score=94.69  Aligned_cols=50  Identities=28%  Similarity=0.532  Sum_probs=43.2

Q ss_pred             CCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHh-cCCCCcccccccccc
Q 017405          311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLY-INSTCPLCKFNILKM  363 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~-~~~tCPlCR~~I~~~  363 (372)
                      .++..|+||++.+.++   ..++|+|.||..||.+|++ .+.+||+||.++...
T Consensus        13 ~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   63 (66)
T 2ecy_A           13 EDKYKCEKCHLVLCSP---KQTECGHRFCESCMAALLSSSSPKCTACQESIVKD   63 (66)
T ss_dssp             CCCEECTTTCCEESSC---CCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCTT
T ss_pred             CcCCCCCCCChHhcCe---eECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCChh
Confidence            4568999999999987   4479999999999999994 567899999988754

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

Probab=99.20  E-value=3.2e-12  Score=109.71  Aligned_cols=48  Identities=27%  Similarity=0.800  Sum_probs=43.4

Q ss_pred             CceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCcccccccccc
Q 017405          313 DAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKM  363 (372)
Q Consensus       313 d~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~~  363 (372)
                      +..|+||++.|.++   +.+||||.||..||.+|++.+.+||+||.++...
T Consensus        53 ~~~C~iC~~~~~~~---~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~  100 (138)
T 4ayc_A           53 ELQCIICSEYFIEA---VTLNCAHSFCSYCINEWMKRKIECPICRKDIKSK  100 (138)
T ss_dssp             HSBCTTTCSBCSSE---EEETTSCEEEHHHHHHHTTTCSBCTTTCCBCCCE
T ss_pred             cCCCcccCcccCCc---eECCCCCCccHHHHHHHHHcCCcCCCCCCcCCCC
Confidence            45799999999876   7899999999999999999999999999988643

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

Probab=99.19  E-value=2.2e-11  Score=90.22  Aligned_cols=44  Identities=27%  Similarity=0.603  Sum_probs=38.7

Q ss_pred             CCCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHh---cCCCCccc
Q 017405          310 SEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLY---INSTCPLC  356 (372)
Q Consensus       310 ~~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~---~~~tCPlC  356 (372)
                      ..++.+|+||++.|.++   +.+||+|.||.+||.+|++   .+..||+|
T Consensus        17 ~~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           17 LQEEVICPICLDILQKP---VTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCBCTTTCSBCSSC---EECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             CccCCCCCcCCchhCCe---EEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            34678999999999987   7789999999999999998   45689998

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

Probab=99.18  E-value=7.1e-12  Score=105.16  Aligned_cols=54  Identities=28%  Similarity=0.570  Sum_probs=47.4

Q ss_pred             CCCceeeeecccccCC----CceEEeCCCCcccHHHHHHHHhcCCCCccccccccccC
Q 017405          311 EDDAECCICLSAYDDG----TELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMS  364 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~----d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~~~  364 (372)
                      .++.+|+||++.|+++    +..+.++|||.||.+||++|++.+.+||+||..+....
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   62 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR   62 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTTTC
T ss_pred             CCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCcccc
Confidence            4567999999999865    56688999999999999999999999999999887544

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

Probab=99.15  E-value=3.3e-11  Score=93.55  Aligned_cols=50  Identities=22%  Similarity=0.538  Sum_probs=44.2

Q ss_pred             CCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhc------CCCCcccccccccc
Q 017405          311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYI------NSTCPLCKFNILKM  363 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~------~~tCPlCR~~I~~~  363 (372)
                      .++.+|+||++.|.++   ..+||+|.||..||.+|++.      +..||+||..+...
T Consensus        17 ~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~   72 (85)
T 2ecw_A           17 KEEVTCPICLELLKEP---VSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFG   72 (85)
T ss_dssp             CTTTSCTTTCSCCSSC---EECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTT
T ss_pred             ccCCCCcCCChhhCcc---eeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHH
Confidence            4567999999999887   57999999999999999987      67899999988754

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

Probab=99.14  E-value=9.4e-12  Score=95.88  Aligned_cols=50  Identities=24%  Similarity=0.534  Sum_probs=43.5

Q ss_pred             CCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhc-------CCCCcccccccccc
Q 017405          311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYI-------NSTCPLCKFNILKM  363 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~-------~~tCPlCR~~I~~~  363 (372)
                      .++.+|+||++.|.++   +.+||+|.||.+||.+|++.       +..||+||..+...
T Consensus        10 ~~~~~C~IC~~~~~~p---~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~   66 (79)
T 2egp_A           10 QEEVTCPICLELLTEP---LSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFE   66 (79)
T ss_dssp             CCCCEETTTTEECSSC---CCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSS
T ss_pred             ccCCCCcCCCcccCCe---eECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHh
Confidence            4568999999999887   56899999999999999987       56899999988653

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

Probab=99.14  E-value=2.8e-11  Score=87.75  Aligned_cols=43  Identities=28%  Similarity=0.830  Sum_probs=37.4

Q ss_pred             CCCceeeeecccccCCCceEEeCCCCcccHHHHHHHH---hcCCCCccc
Q 017405          311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWL---YINSTCPLC  356 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL---~~~~tCPlC  356 (372)
                      .++..|+||++.|.++   +.+||+|.||.+||.+|+   +.+.+||+|
T Consensus        13 ~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           13 QVEASCSVCLEYLKEP---VIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CCCCBCSSSCCBCSSC---CCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             ccCCCCccCCcccCcc---EeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            4567999999999987   568999999999999995   456789998

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

Probab=99.14  E-value=1.8e-11  Score=94.33  Aligned_cols=50  Identities=24%  Similarity=0.419  Sum_probs=44.2

Q ss_pred             CCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhc-CCCCcccccccccc
Q 017405          311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYI-NSTCPLCKFNILKM  363 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~-~~tCPlCR~~I~~~  363 (372)
                      .++..|+||++.|.++   ..+||||.||..||.+|++. +.+||+||.++...
T Consensus         6 ~~~~~C~IC~~~~~~P---v~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~   56 (78)
T 1t1h_A            6 PEYFRCPISLELMKDP---VIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHA   56 (78)
T ss_dssp             SSSSSCTTTSCCCSSE---EEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSC
T ss_pred             cccCCCCCccccccCC---EEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCChh
Confidence            3567899999999987   67899999999999999987 78899999988653

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

Probab=99.13  E-value=1e-11  Score=100.86  Aligned_cols=49  Identities=27%  Similarity=0.648  Sum_probs=43.0

Q ss_pred             CCceeeeecccccCCCceEE-eCCCCcccHHHHHHHHhcC-CCCcccccccccc
Q 017405          312 DDAECCICLSAYDDGTELRE-LPCLHHFHCSCLDKWLYIN-STCPLCKFNILKM  363 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~lr~-LPC~H~FH~~CId~WL~~~-~tCPlCR~~I~~~  363 (372)
                      ++..|+||++.|.++   +. ++|+|.||..||.+|++.+ .+||+||.++...
T Consensus        21 ~~~~C~IC~~~~~~p---~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~   71 (100)
T 3lrq_A           21 EVFRCFICMEKLRDA---RLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLR   71 (100)
T ss_dssp             HHTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             CCCCCccCCccccCc---cccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCHH
Confidence            457899999999876   56 8999999999999999987 6999999988643

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

Probab=99.12  E-value=3.5e-11  Score=93.43  Aligned_cols=50  Identities=28%  Similarity=0.624  Sum_probs=44.1

Q ss_pred             CCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhc------CCCCcccccccccc
Q 017405          311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYI------NSTCPLCKFNILKM  363 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~------~~tCPlCR~~I~~~  363 (372)
                      .++.+|+||++.|.+.   ..+||+|.||.+||.+|++.      +..||+||..+...
T Consensus        17 ~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~   72 (85)
T 2ecv_A           17 KEEVTCPICLELLTQP---LSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPE   72 (85)
T ss_dssp             CCCCCCTTTCSCCSSC---BCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSS
T ss_pred             cCCCCCCCCCcccCCc---eeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHH
Confidence            4568999999999887   56899999999999999987      78899999988754

>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=4.4e-11  Score=92.56  Aligned_cols=54  Identities=24%  Similarity=0.460  Sum_probs=44.5

Q ss_pred             cCCCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcC--CCCccccccccccC
Q 017405          309 ISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYIN--STCPLCKFNILKMS  364 (372)
Q Consensus       309 ~~~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~--~tCPlCR~~I~~~~  364 (372)
                      ..+...+|+||.+.+..++...  .|+|.||..||++||+.+  .+||+||.+.....
T Consensus        11 y~~~i~~C~IC~~~i~~g~~C~--~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~~~   66 (74)
T 2ct0_A           11 YPDAVKICNICHSLLIQGQSCE--TCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEI   66 (74)
T ss_dssp             CSSSSCBCSSSCCBCSSSEECS--SSCCEECHHHHHHHSTTCSSCCCTTTCSCCCSCC
T ss_pred             ccCCCCcCcchhhHcccCCccC--CCCchhhHHHHHHHHHhcCCCCCCCCcCcCCCCC
Confidence            4455689999999999774332  799999999999999987  88999998876443

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

Probab=99.10  E-value=1.8e-11  Score=98.84  Aligned_cols=48  Identities=25%  Similarity=0.695  Sum_probs=42.8

Q ss_pred             CCceeeeecccccCCCceEEe-CCCCcccHHHHHHHHhcCCCCccccccccc
Q 017405          312 DDAECCICLSAYDDGTELREL-PCLHHFHCSCLDKWLYINSTCPLCKFNILK  362 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~lr~L-PC~H~FH~~CId~WL~~~~tCPlCR~~I~~  362 (372)
                      ++..|+||++.|.++   ..+ ||||.||..||.+|++.+.+||+||..+..
T Consensus        21 ~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   69 (99)
T 2y43_A           21 DLLRCGICFEYFNIA---MIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTE   69 (99)
T ss_dssp             HHTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCG
T ss_pred             CCCCcccCChhhCCc---CEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCCh
Confidence            456899999999886   556 899999999999999999999999998865

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

Probab=99.09  E-value=3.2e-11  Score=101.15  Aligned_cols=55  Identities=27%  Similarity=0.562  Sum_probs=47.3

Q ss_pred             CCCCceeeeecccccCC----CceEEeCCCCcccHHHHHHHHhcCCCCccccccccccC
Q 017405          310 SEDDAECCICLSAYDDG----TELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMS  364 (372)
Q Consensus       310 ~~ed~eC~ICL~~y~~~----d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~~~  364 (372)
                      .+++.+|+||++.|++.    .....++|+|.||..||++|++.+.+||+||.++.+++
T Consensus        69 ~~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~  127 (133)
T 4ap4_A           69 GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR  127 (133)
T ss_dssp             SSSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCChhc
Confidence            34567899999999863    45578899999999999999999999999999987653

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

Probab=99.09  E-value=4.4e-11  Score=89.20  Aligned_cols=53  Identities=28%  Similarity=0.511  Sum_probs=43.0

Q ss_pred             CCceeeeecc-cccCCCc-eEEeCCCCcccHHHHHHHHhc-CCCCccccccccccC
Q 017405          312 DDAECCICLS-AYDDGTE-LRELPCLHHFHCSCLDKWLYI-NSTCPLCKFNILKMS  364 (372)
Q Consensus       312 ed~eC~ICL~-~y~~~d~-lr~LPC~H~FH~~CId~WL~~-~~tCPlCR~~I~~~~  364 (372)
                      ++..|+||++ .|.++.. ...++|||.||..||++|+.. +..||+||..+...+
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   57 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSN   57 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCC
T ss_pred             CCCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCcccccc
Confidence            3568999999 7877754 346899999999999999765 467999999987543

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

Probab=99.08  E-value=1e-10  Score=92.96  Aligned_cols=48  Identities=29%  Similarity=0.629  Sum_probs=42.4

Q ss_pred             CCCceeeeecccccCCCceEEeC-CCCcccHHHHHHHHhcC--CCCcccccccc
Q 017405          311 EDDAECCICLSAYDDGTELRELP-CLHHFHCSCLDKWLYIN--STCPLCKFNIL  361 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LP-C~H~FH~~CId~WL~~~--~tCPlCR~~I~  361 (372)
                      .++..|+||++.|.++   +.+| |||.||..||.+|+..+  .+||+||..+.
T Consensus        11 ~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A           11 PDELLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             CTTTEETTTTEECSSC---EECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             CcCCCCCCCChhhcCc---eECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            4668999999999988   7899 99999999999999754  58999999874

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

Probab=99.07  E-value=4.4e-11  Score=98.12  Aligned_cols=49  Identities=27%  Similarity=0.727  Sum_probs=43.3

Q ss_pred             CCceeeeecccccCCCceEEe-CCCCcccHHHHHHHHhcCCCCcccccccccc
Q 017405          312 DDAECCICLSAYDDGTELREL-PCLHHFHCSCLDKWLYINSTCPLCKFNILKM  363 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~lr~L-PC~H~FH~~CId~WL~~~~tCPlCR~~I~~~  363 (372)
                      ++..|+||++.|.++   ..+ ||||.||..||.+|++.+.+||+||..+...
T Consensus        14 ~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   63 (108)
T 2ckl_A           14 PHLMCVLCGGYFIDA---TTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKT   63 (108)
T ss_dssp             GGTBCTTTSSBCSSE---EEETTTCCEEEHHHHHHHHTSCSBCTTTCCBSCSS
T ss_pred             CcCCCccCChHHhCc---CEeCCCCChhhHHHHHHHHHhCCcCcCCCcccccc
Confidence            457899999999876   555 9999999999999999999999999988753

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

Probab=99.05  E-value=5.1e-11  Score=100.12  Aligned_cols=48  Identities=21%  Similarity=0.566  Sum_probs=42.4

Q ss_pred             CCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCC-CCccccccccc
Q 017405          312 DDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINS-TCPLCKFNILK  362 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~-tCPlCR~~I~~  362 (372)
                      ++..|+||++.|.++   ..+||||.||..||.+|+..+. +||+||..+..
T Consensus        51 ~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           51 ETFQCICCQELVFRP---ITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HHTBCTTTSSBCSSE---EECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             cCCCCCcCChHHcCc---EEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            346899999999987   7789999999999999998554 89999999876

>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=98.98  E-value=1.6e-10  Score=94.78  Aligned_cols=48  Identities=38%  Similarity=0.623  Sum_probs=41.8

Q ss_pred             CceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCC---CCcccccccccc
Q 017405          313 DAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINS---TCPLCKFNILKM  363 (372)
Q Consensus       313 d~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~---tCPlCR~~I~~~  363 (372)
                      +.+|+||++.|.++   ..+||+|.||..||.+|+..+.   +||+||..+...
T Consensus        21 ~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   71 (112)
T 1jm7_A           21 ILECPICLELIKEP---VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKR   71 (112)
T ss_dssp             HTSCSSSCCCCSSC---CBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTT
T ss_pred             CCCCcccChhhcCe---EECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHh
Confidence            45899999999887   5589999999999999998754   899999988754

>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=98.97  E-value=1.9e-10  Score=101.19  Aligned_cols=49  Identities=29%  Similarity=0.703  Sum_probs=41.7

Q ss_pred             CCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhc-CCCCccccccccc
Q 017405          312 DDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYI-NSTCPLCKFNILK  362 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~-~~tCPlCR~~I~~  362 (372)
                      ++..|+||++.|.++  +..+||+|.||..||++|++. +.+||+||..+..
T Consensus        53 ~~~~C~IC~~~~~~p--~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  102 (165)
T 2ckl_B           53 SELMCPICLDMLKNT--MTTKECLHRFCADCIITALRSGNKECPTCRKKLVS  102 (165)
T ss_dssp             HHHBCTTTSSBCSSE--EEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCS
T ss_pred             CCCCCcccChHhhCc--CEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCC
Confidence            456899999999975  333499999999999999997 7889999998854

>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=98.97  E-value=5.9e-11  Score=98.35  Aligned_cols=49  Identities=22%  Similarity=0.611  Sum_probs=43.2

Q ss_pred             CCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhc-CCCCccccccccc
Q 017405          311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYI-NSTCPLCKFNILK  362 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~-~~tCPlCR~~I~~  362 (372)
                      .++..|+||++.|.++   +.+||+|.||..||.+|++. +.+||+||..+..
T Consensus        13 ~~~~~C~iC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           13 LSECQCGICMEILVEP---VTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             HHHHBCTTTCSBCSSC---EECTTSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             CCCCCCccCCcccCce---eEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            3567899999999987   77899999999999999976 6689999998864

>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=98.95  E-value=2.5e-10  Score=95.27  Aligned_cols=50  Identities=32%  Similarity=0.580  Sum_probs=43.7

Q ss_pred             CCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCC-CCcccccccccc
Q 017405          311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINS-TCPLCKFNILKM  363 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~-tCPlCR~~I~~~  363 (372)
                      .++..|+||++.+.++   +.+||+|.||..||.+|++.+. +||+||.++...
T Consensus        16 ~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   66 (118)
T 3hct_A           16 ESKYECPICLMALREA---VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLEN   66 (118)
T ss_dssp             CGGGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCcCChhhcCe---EECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCHH
Confidence            3457899999999887   6789999999999999998765 999999988753

>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=98.92  E-value=2.2e-10  Score=94.99  Aligned_cols=50  Identities=28%  Similarity=0.622  Sum_probs=43.5

Q ss_pred             CCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhc-CCCCccccccccccC
Q 017405          312 DDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYI-NSTCPLCKFNILKMS  364 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~-~~tCPlCR~~I~~~~  364 (372)
                      ++..|+||++.+.++   ..+||||.||..||.+|++. +.+||+||.++...+
T Consensus        22 ~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   72 (116)
T 1rmd_A           22 KSISCQICEHILADP---VETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTD   72 (116)
T ss_dssp             HHTBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCCcHhcCc---EEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCHhh
Confidence            346899999999887   66899999999999999987 778999999887543

>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=98.92  E-value=3e-10  Score=99.10  Aligned_cols=49  Identities=18%  Similarity=0.498  Sum_probs=43.2

Q ss_pred             CCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCC-CCcccccccccc
Q 017405          312 DDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINS-TCPLCKFNILKM  363 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~-tCPlCR~~I~~~  363 (372)
                      ++..|+||++.|.++   ..+||+|.||..||.+|+..+. +||+||.++...
T Consensus        77 ~~~~C~IC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           77 QSFMCVCCQELVYQP---VTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HHTBCTTTSSBCSSE---EECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             cCCEeecCChhhcCC---EEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            346899999999887   6799999999999999998765 899999998765

>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=1.5e-09  Score=84.63  Aligned_cols=53  Identities=21%  Similarity=0.407  Sum_probs=41.8

Q ss_pred             CCCceeeeecccccCCCceEEe--CCCCcccHHHHHHHHh-cCCCCccccccccccC
Q 017405          311 EDDAECCICLSAYDDGTELREL--PCLHHFHCSCLDKWLY-INSTCPLCKFNILKMS  364 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~L--PC~H~FH~~CId~WL~-~~~tCPlCR~~I~~~~  364 (372)
                      +++.+|+||++.+...+. ..+  +|||.||..|+.+++. .+..||.||..+....
T Consensus         9 ~~~~~CpICle~~~~~d~-~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~   64 (78)
T 1e4u_A            9 EDPVECPLCMEPLEIDDI-NFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDP   64 (78)
T ss_dssp             CCCCBCTTTCCBCCTTTT-TCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCS
T ss_pred             ccCCcCCccCccCccccc-cccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCCc
Confidence            466799999999865432 334  4999999999999875 4568999999887654

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

Probab=98.84  E-value=1.8e-09  Score=85.36  Aligned_cols=49  Identities=16%  Similarity=0.104  Sum_probs=45.0

Q ss_pred             CCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCccccccccc
Q 017405          311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILK  362 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~  362 (372)
                      .++..|+||++-|+++   ..+||||.|+..||.+|+..+.+||+|+..+..
T Consensus        12 p~~~~CpI~~~~m~dP---V~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~   60 (85)
T 2kr4_A           12 PDEFRDPLMDTLMTDP---VRLPSGTVMDRSIILRHLLNSPTDPFNRQMLTE   60 (85)
T ss_dssp             CTTTBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             chheECcccCchhcCC---eECCCCCEECHHHHHHHHhcCCCCCCCcCCCCh
Confidence            4568999999999999   889999999999999999999999999998764

>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=98.84  E-value=6.9e-10  Score=83.09  Aligned_cols=48  Identities=25%  Similarity=0.436  Sum_probs=41.0

Q ss_pred             CCceeeeecccccCCCceEEe--CCCCc-ccHHHHHHHHhcCCCCccccccccc
Q 017405          312 DDAECCICLSAYDDGTELREL--PCLHH-FHCSCLDKWLYINSTCPLCKFNILK  362 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~lr~L--PC~H~-FH~~CId~WL~~~~tCPlCR~~I~~  362 (372)
                      ++.+|.||++...+.   ..+  ||||. |+.+|+++|.+.+..||+||.++..
T Consensus         7 ~~~~C~IC~~~~~~~---~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~~   57 (64)
T 2vje_A            7 AIEPCVICQGRPKNG---CIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQM   57 (64)
T ss_dssp             GGSCCTTTSSSCSCE---EEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCCE
T ss_pred             CcCCCCcCCCCCCCE---EEECCCCCChhhHHHHHHHHHHcCCcCCCcCcchhc
Confidence            456899999987765   444  99999 7999999999999999999998853

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

Probab=98.82  E-value=5.7e-10  Score=81.14  Aligned_cols=47  Identities=26%  Similarity=0.552  Sum_probs=40.5

Q ss_pred             CCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCccccccccccC
Q 017405          312 DDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMS  364 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~~~  364 (372)
                      ++..|+||++.|.++   +.|||+|.||..||.+|   +..||+||..+....
T Consensus         5 ~~~~C~IC~~~~~~p---~~l~CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~   51 (56)
T 1bor_A            5 QFLRCQQCQAEAKCP---KLLPCLHTLCSGCLEAS---GMQCPICQAPWPLGA   51 (56)
T ss_dssp             CCSSCSSSCSSCBCC---SCSTTSCCSBTTTCSSS---SSSCSSCCSSSSCCS
T ss_pred             cCCCceEeCCccCCe---EEcCCCCcccHHHHccC---CCCCCcCCcEeecCC
Confidence            457899999999987   67999999999999884   678999999887543

>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=98.80  E-value=4.3e-09  Score=85.48  Aligned_cols=49  Identities=18%  Similarity=0.088  Sum_probs=45.2

Q ss_pred             CCCceeeeecccccCCCceEEeCCC-CcccHHHHHHHHhcCCCCccccccccc
Q 017405          311 EDDAECCICLSAYDDGTELRELPCL-HHFHCSCLDKWLYINSTCPLCKFNILK  362 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC~-H~FH~~CId~WL~~~~tCPlCR~~I~~  362 (372)
                      .++..|+||++-|+++   +.+||| |.|+..||.+|+..+.+||+||.++..
T Consensus        20 p~~~~CpI~~~~m~dP---V~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~~   69 (98)
T 1wgm_A           20 CDEFLDPIMSTLMCDP---VVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTM   69 (98)
T ss_dssp             CTTTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCT
T ss_pred             cHhcCCcCccccccCC---eECCCCCeEECHHHHHHHHHhCCCCCCCCCCCCh
Confidence            5678999999999999   789999 999999999999999999999998864

>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=98.80  E-value=3.4e-09  Score=86.34  Aligned_cols=49  Identities=16%  Similarity=0.121  Sum_probs=45.3

Q ss_pred             CCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCccccccccc
Q 017405          311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILK  362 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~  362 (372)
                      .++..|+||++-|.++   ..+||||.|+..||.+|+..+.+||+|+.++..
T Consensus        27 p~~~~CpI~~~~m~dP---V~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~   75 (100)
T 2kre_A           27 PDEFRDPLMDTLMTDP---VRLPSGTIMDRSIILRHLLNSPTDPFNRQTLTE   75 (100)
T ss_dssp             STTTBCTTTCSBCSSE---EEETTTEEEEHHHHHHHTTSCSBCSSSCCBCCT
T ss_pred             cHhhCCcCccCcccCC---eECCCCCEEchHHHHHHHHcCCCCCCCCCCCCh
Confidence            5678999999999999   889999999999999999988999999998865

>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=98.79  E-value=1.2e-09  Score=94.45  Aligned_cols=48  Identities=21%  Similarity=0.447  Sum_probs=42.5

Q ss_pred             CCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCC-CCcccccccc
Q 017405          311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINS-TCPLCKFNIL  361 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~-tCPlCR~~I~  361 (372)
                      +++..|+||++.+.++   ..++|||.||..||.+|++.+. +||+||.++.
T Consensus        29 ~~~~~C~IC~~~~~~p---v~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~   77 (141)
T 3knv_A           29 EAKYLCSACRNVLRRP---FQAQCGHRYCSFCLASILSSGPQNCAACVHEGI   77 (141)
T ss_dssp             CGGGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHGGGSCEECHHHHHTTC
T ss_pred             CcCcCCCCCChhhcCc---EECCCCCccCHHHHHHHHhcCCCCCCCCCCccc
Confidence            4567899999999988   6789999999999999998765 8999999864

>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=98.79  E-value=2.3e-09  Score=106.75  Aligned_cols=49  Identities=31%  Similarity=0.617  Sum_probs=43.2

Q ss_pred             CceeeeecccccCCCceEEeCCCCcccHHHHHHHHh-cCCCCccccccccccC
Q 017405          313 DAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLY-INSTCPLCKFNILKMS  364 (372)
Q Consensus       313 d~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~-~~~tCPlCR~~I~~~~  364 (372)
                      ..+|+||++.+.+.   ..+||||.||..||.+|+. .+.+||+||.++....
T Consensus       332 ~~~C~ICle~~~~p---v~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~~  381 (389)
T 2y1n_A          332 FQLCKICAENDKDV---KIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE  381 (389)
T ss_dssp             SSBCTTTSSSBCCE---EEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCEEE
T ss_pred             CCCCCccCcCCCCe---EEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCCce
Confidence            46899999998765   7899999999999999999 7889999999887643

>1vyx_A ORF K3, K3RING; zinc-binding protein, ring domain, cross-brace motif; NMR {Human herpesvirus 8} SCOP: g.44.1.3

Probab=98.75  E-value=4.8e-09  Score=77.78  Aligned_cols=47  Identities=36%  Similarity=0.710  Sum_probs=37.8

Q ss_pred             CCceeeeecccccCCCceEEeCCC--C---cccHHHHHHHHhc--CCCCcccccccc
Q 017405          312 DDAECCICLSAYDDGTELRELPCL--H---HFHCSCLDKWLYI--NSTCPLCKFNIL  361 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~lr~LPC~--H---~FH~~CId~WL~~--~~tCPlCR~~I~  361 (372)
                      +...|.||+++.  ++++ .+||.  |   .||.+|+++|+..  +.+||+||+++.
T Consensus         5 ~~~~CrIC~~~~--~~~l-~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            5 DVPVCWICNEEL--GNER-FRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             SCCEETTTTEEC--SCCC-CCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCEeEEeecCC--CCce-ecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            457899999983  3445 58965  4   9999999999975  678999998764

>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=98.74  E-value=1.2e-09  Score=90.84  Aligned_cols=46  Identities=22%  Similarity=0.499  Sum_probs=41.0

Q ss_pred             CCceeeeecccccCCCceEEe-CCCCcccHHHHHHHHhcCCCCccccccccc
Q 017405          312 DDAECCICLSAYDDGTELREL-PCLHHFHCSCLDKWLYINSTCPLCKFNILK  362 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~lr~L-PC~H~FH~~CId~WL~~~~tCPlCR~~I~~  362 (372)
                      ++..|+||++.|.++   ..+ ||||.||..||.+|+.  ..||+||..+..
T Consensus        21 ~~~~C~IC~~~~~~p---v~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~   67 (117)
T 1jm7_B           21 KLLRCSRCTNILREP---VCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWI   67 (117)
T ss_dssp             HTTSCSSSCSCCSSC---BCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSC
T ss_pred             hCCCCCCCChHhhCc---cEeCCCCCHHHHHHHHHHhc--CCCcCCCCcCcc
Confidence            467899999999887   667 9999999999999998  789999998853

>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=98.72  E-value=2.7e-09  Score=79.56  Aligned_cols=47  Identities=23%  Similarity=0.457  Sum_probs=40.4

Q ss_pred             CceeeeecccccCCCceEEe--CCCCc-ccHHHHHHHHhcCCCCccccccccc
Q 017405          313 DAECCICLSAYDDGTELREL--PCLHH-FHCSCLDKWLYINSTCPLCKFNILK  362 (372)
Q Consensus       313 d~eC~ICL~~y~~~d~lr~L--PC~H~-FH~~CId~WL~~~~tCPlCR~~I~~  362 (372)
                      +.+|.||++...+.   ..+  ||||. |+.+|+.+|.+.+..||+||.+|..
T Consensus         7 ~~~C~IC~~~~~~~---~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~~   56 (63)
T 2vje_B            7 LKPCSLCEKRPRDG---NIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQL   56 (63)
T ss_dssp             GSBCTTTSSSBSCE---EEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCCE
T ss_pred             CCCCcccCCcCCCe---EEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhhc
Confidence            46899999987665   344  99998 9999999999988999999998853

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

Probab=98.71  E-value=2e-09  Score=82.64  Aligned_cols=44  Identities=25%  Similarity=0.490  Sum_probs=38.7

Q ss_pred             CCceeeeecccccCCCceEEeCCCCc-ccHHHHHHHHhcCCCCccccccccc
Q 017405          312 DDAECCICLSAYDDGTELRELPCLHH-FHCSCLDKWLYINSTCPLCKFNILK  362 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~lr~LPC~H~-FH~~CId~WL~~~~tCPlCR~~I~~  362 (372)
                      ++..|+||++.+.+.   ..+||+|. ||..|+.+|    ..||+||.++..
T Consensus        23 ~~~~C~iC~~~~~~~---~~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~   67 (74)
T 4ic3_A           23 EEKLCKICMDRNIAI---VFVPCGHLVTCKQCAEAV----DKCPMCYTVITF   67 (74)
T ss_dssp             HHTBCTTTSSSBCCE---EEETTCCBCCCHHHHTTC----SBCTTTCCBCSE
T ss_pred             cCCCCCCCCCCCCCE---EEcCCCChhHHHHhhhcC----ccCCCcCcCccC
Confidence            456899999988775   78899999 999999999    789999998864

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

Probab=98.66  E-value=4.1e-09  Score=102.83  Aligned_cols=54  Identities=28%  Similarity=0.725  Sum_probs=42.9

Q ss_pred             CCCceeeeecccccCCCceE-----EeCCCCcccHHHHHHHHhcC-----------CCCccccccccccC
Q 017405          311 EDDAECCICLSAYDDGTELR-----ELPCLHHFHCSCLDKWLYIN-----------STCPLCKFNILKMS  364 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr-----~LPC~H~FH~~CId~WL~~~-----------~tCPlCR~~I~~~~  364 (372)
                      ....+|+||++.+.++.++-     ..+|+|.||..||.+||+..           .+||.||++|..+.
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~sf  375 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLSTSF  375 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEGGG
T ss_pred             cCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCccH
Confidence            35679999999999854442     34699999999999999752           46999999987654

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

Probab=98.62  E-value=2.5e-08  Score=75.51  Aligned_cols=49  Identities=22%  Similarity=0.577  Sum_probs=40.2

Q ss_pred             ccCCCCceeeeecccccCCCceEEeCCCCc-ccHHHHHHHHhcCCCCcccccccccc
Q 017405          308 VISEDDAECCICLSAYDDGTELRELPCLHH-FHCSCLDKWLYINSTCPLCKFNILKM  363 (372)
Q Consensus       308 ~~~~ed~eC~ICL~~y~~~d~lr~LPC~H~-FH~~CId~WL~~~~tCPlCR~~I~~~  363 (372)
                      ....++.+|.||++...+.   ..+||+|. |+..|+..    ...||+||.+|...
T Consensus        10 ~~~~~~~~C~IC~~~~~~~---v~~pCgH~~~C~~C~~~----~~~CP~CR~~i~~~   59 (68)
T 2ea5_A           10 PSEENSKDCVVCQNGTVNW---VLLPCRHTCLCDGCVKY----FQQCPMCRQFVQES   59 (68)
T ss_dssp             CSCCCSSCCSSSSSSCCCC---EETTTTBCCSCTTHHHH----CSSCTTTCCCCCCE
T ss_pred             ccCCCCCCCCCcCcCCCCE---EEECCCChhhhHHHHhc----CCCCCCCCcchhce
Confidence            3445678999999987664   78999999 99999984    57899999988653

>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=98.59  E-value=1.4e-08  Score=89.63  Aligned_cols=50  Identities=32%  Similarity=0.576  Sum_probs=43.4

Q ss_pred             CCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcC-CCCcccccccccc
Q 017405          311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYIN-STCPLCKFNILKM  363 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~-~tCPlCR~~I~~~  363 (372)
                      .++..|+||++.+.++   +.++|||.|+..||.+|++.+ .+||+||.++...
T Consensus        16 ~~~~~C~IC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   66 (170)
T 3hcs_A           16 ESKYECPICLMALREA---VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLEN   66 (170)
T ss_dssp             CGGGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCCChhhcCc---EECCCCCHHHHHHHHHHHHhCCCCCCCCccCcchh
Confidence            3557899999999987   678999999999999999865 4899999988654

>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=98.56  E-value=2.5e-08  Score=93.46  Aligned_cols=49  Identities=10%  Similarity=0.024  Sum_probs=43.4

Q ss_pred             CCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcC-CCCccccccccc
Q 017405          311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYIN-STCPLCKFNILK  362 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~-~tCPlCR~~I~~  362 (372)
                      .++..|+||++.|.++   +.+||||.|+..||.+|+..+ .+||+||.++..
T Consensus       206 ~~~~~c~i~~~~~~dP---v~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~  255 (281)
T 2c2l_A          206 PDYLCGKISFELMREP---CITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQ  255 (281)
T ss_dssp             CSTTBCTTTCSBCSSE---EECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             CcccCCcCcCCHhcCC---eECCCCCEECHHHHHHHHHHCCCCCcCCCCCCch
Confidence            4567899999999999   889999999999999999864 459999998864

>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=98.56  E-value=1.9e-08  Score=80.69  Aligned_cols=46  Identities=15%  Similarity=0.352  Sum_probs=39.8

Q ss_pred             CCCceeeeecccccCCCceEEeC-CCCcccHHHHHHHHhcC------CCCcc--cccc
Q 017405          311 EDDAECCICLSAYDDGTELRELP-CLHHFHCSCLDKWLYIN------STCPL--CKFN  359 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LP-C~H~FH~~CId~WL~~~------~tCPl--CR~~  359 (372)
                      .++..|+||++.|+++   +.+| |||.|+..||.+|+..+      .+||+  |+..
T Consensus         5 ~~~~~CPI~~~~~~dP---V~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            5 SSGFTCPITKEEMKKP---VKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             SSCCBCTTTCSBCSSE---EEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCC
T ss_pred             CcEeECcCcCchhcCC---EEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCccc
Confidence            3457899999999998   7886 99999999999999864      48999  9855

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

Probab=98.46  E-value=4.7e-08  Score=74.99  Aligned_cols=44  Identities=25%  Similarity=0.493  Sum_probs=37.3

Q ss_pred             CCceeeeecccccCCCceEEeCCCCc-ccHHHHHHHHhcCCCCccccccccc
Q 017405          312 DDAECCICLSAYDDGTELRELPCLHH-FHCSCLDKWLYINSTCPLCKFNILK  362 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~lr~LPC~H~-FH~~CId~WL~~~~tCPlCR~~I~~  362 (372)
                      ++.+|+||++.+.+.   ..+||+|. |+.+|+.+    ...||+||.++..
T Consensus        24 ~~~~C~IC~~~~~~~---~~~pCgH~~~C~~C~~~----~~~CP~Cr~~i~~   68 (75)
T 2ecg_A           24 EEKLCKICMDRNIAI---VFVPCGHLVTCKQCAEA----VDKCPMCYTVITF   68 (75)
T ss_dssp             HHHSCSSSCSSCCCB---CCSSSCCCCBCHHHHHH----CSBCTTTCCBCCC
T ss_pred             CCCCCCcCCCCCCCE---EEecCCCHHHHHHHhhC----CCCCccCCceecC
Confidence            456899999998775   67899999 99999965    4789999998865

>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=98.42  E-value=6.1e-08  Score=77.42  Aligned_cols=51  Identities=22%  Similarity=0.539  Sum_probs=41.2

Q ss_pred             CCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhc--------CCCCcc--cccc--ccc
Q 017405          312 DDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYI--------NSTCPL--CKFN--ILK  362 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~--------~~tCPl--CR~~--I~~  362 (372)
                      +..+|+||++++.+++.+...+|+|.|+.+|+.+++..        ...||.  |+..  +.+
T Consensus         4 ~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~~~~~~   66 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQE   66 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSCCEECH
T ss_pred             CCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCCCccCH
Confidence            34689999999988766665689999999999999863        236999  9987  543

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

Probab=98.38  E-value=1e-07  Score=85.53  Aligned_cols=49  Identities=10%  Similarity=0.015  Sum_probs=43.2

Q ss_pred             CCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcC-CCCccccccccc
Q 017405          311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYIN-STCPLCKFNILK  362 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~-~tCPlCR~~I~~  362 (372)
                      ++...|+||++-|.++   ..+||||.|+..||.+|+..+ .+||+|+.++..
T Consensus       104 p~~f~CPI~~elm~DP---V~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~  153 (179)
T 2f42_A          104 PDYLCGKISFELMREP---CITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQ  153 (179)
T ss_dssp             CGGGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             cHhhcccCccccCCCC---eECCCCCEECHHHHHHHHHhCCCCCCCCcCCCCh
Confidence            4567899999999998   788999999999999999874 479999988764

>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=98.34  E-value=6.2e-08  Score=75.43  Aligned_cols=44  Identities=23%  Similarity=0.582  Sum_probs=37.4

Q ss_pred             CCceeeeecccccCCCceEEeCCCCc-ccHHHHHHHHhcCCCCccccccccc
Q 017405          312 DDAECCICLSAYDDGTELRELPCLHH-FHCSCLDKWLYINSTCPLCKFNILK  362 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~lr~LPC~H~-FH~~CId~WL~~~~tCPlCR~~I~~  362 (372)
                      ++..|.||++.+.+.   ..+||||. |+.+|+.+|    ..||+||.++..
T Consensus        17 ~~~~C~IC~~~~~~~---v~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~   61 (79)
T 2yho_A           17 EAMLCMVCCEEEINS---TFCPCGHTVCCESCAAQL----QSCPVCRSRVEH   61 (79)
T ss_dssp             HHTBCTTTSSSBCCE---EEETTCBCCBCHHHHTTC----SBCTTTCCBCCE
T ss_pred             CCCEeEEeCcccCcE---EEECCCCHHHHHHHHHhc----CcCCCCCchhhC
Confidence            346899999987765   78999999 999999987    389999998864

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

Probab=98.24  E-value=2.9e-07  Score=68.30  Aligned_cols=48  Identities=13%  Similarity=0.040  Sum_probs=42.7

Q ss_pred             ceeeeecccccCCCceEEe-CCCCcccHHHHHHHHhcCCCCccccccccccC
Q 017405          314 AECCICLSAYDDGTELREL-PCLHHFHCSCLDKWLYINSTCPLCKFNILKMS  364 (372)
Q Consensus       314 ~eC~ICL~~y~~~d~lr~L-PC~H~FH~~CId~WL~~~~tCPlCR~~I~~~~  364 (372)
                      ..|+||++.++++   ..+ +|||.|.+.||.+|++.+.+||+++.++...+
T Consensus         4 ~~CpIs~~~m~dP---V~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~~~   52 (61)
T 2bay_A            4 MLCAISGKVPRRP---VLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEE   52 (61)
T ss_dssp             CCCTTTCSCCSSE---EEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGG
T ss_pred             EEecCCCCCCCCC---EEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCChhh
Confidence            4799999999987   677 89999999999999998889999999886543

>3t6p_A Baculoviral IAP repeat-containing protein 2; ring, BIR, CARD, UBA, apoptosis, ubiquitin ligase, SMAC/ ubiquitin, caspase, IAP family, SMAC mimetic; 1.90A {Homo sapiens} PDB: 1qbh_A 2l9m_A 3eb5_A 3eb6_A 4auq_B

Probab=98.17  E-value=2.8e-07  Score=90.72  Aligned_cols=45  Identities=22%  Similarity=0.551  Sum_probs=39.6

Q ss_pred             CCCceeeeecccccCCCceEEeCCCCc-ccHHHHHHHHhcCCCCccccccccc
Q 017405          311 EDDAECCICLSAYDDGTELRELPCLHH-FHCSCLDKWLYINSTCPLCKFNILK  362 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC~H~-FH~~CId~WL~~~~tCPlCR~~I~~  362 (372)
                      .++..|+||++.+.+.   ..+||||. ||..|+.+|    ..||+||.++..
T Consensus       293 ~~~~~C~IC~~~~~~~---v~lpCgH~~fC~~C~~~~----~~CP~CR~~i~~  338 (345)
T 3t6p_A          293 QEERTCKVCMDKEVSV---VFIPCGHLVVCQECAPSL----RKCPICRGIIKG  338 (345)
T ss_dssp             HTTCBCTTTSSSBCCE---EEETTCCEEECTTTGGGC----SBCTTTCCBCCE
T ss_pred             cCCCCCCccCCcCCce---EEcCCCChhHhHHHHhcC----CcCCCCCCCccC
Confidence            3567999999998876   78899999 999999998    689999998864

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

Probab=98.06  E-value=1.6e-06  Score=81.92  Aligned_cols=50  Identities=22%  Similarity=0.415  Sum_probs=41.4

Q ss_pred             CCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcC--CCCcc--ccccccc
Q 017405          311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYIN--STCPL--CKFNILK  362 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~--~tCPl--CR~~I~~  362 (372)
                      ..+..|+||++.|.++  |+...|||.|++.||.+|+..+  .+||+  |+..+..
T Consensus       179 ~~el~CPIcl~~f~DP--Vts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~  232 (267)
T 3htk_C          179 KIELTCPITCKPYEAP--LISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSM  232 (267)
T ss_dssp             BCCSBCTTTSSBCSSE--EEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECG
T ss_pred             ceeeECcCccCcccCC--eeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCch
Confidence            3567899999999888  3335899999999999999864  46999  9987754

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

Probab=97.66  E-value=2.1e-05  Score=63.70  Aligned_cols=48  Identities=23%  Similarity=0.388  Sum_probs=38.4

Q ss_pred             eeeeecccccCCCceEEeCCCCcccHHHHHHHHhc-CCCCccccccccccC
Q 017405          315 ECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYI-NSTCPLCKFNILKMS  364 (372)
Q Consensus       315 eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~-~~tCPlCR~~I~~~~  364 (372)
                      -|.+|--.+..  ..|.+||+|+|+.+|+..|.+. .++||.|+.+|..-+
T Consensus         3 fC~~C~~Pi~i--ygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~rVe   51 (101)
T 3vk6_A            3 FCDKCGLPIKV--YGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQRIE   51 (101)
T ss_dssp             BCTTTCSBCSE--EEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCSEEE
T ss_pred             ecCccCCCeEE--EeeeccccccHHHHHHHHHHhccCCCCcCcCCeeeeeE
Confidence            36677666553  4689999999999999999865 688999999886543

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

Probab=97.46  E-value=0.00011  Score=68.52  Aligned_cols=48  Identities=27%  Similarity=0.535  Sum_probs=39.9

Q ss_pred             CCceeeeecccccCCCceEEeC-CCCcccHHHHHHHHhcCC--CCccccccccc
Q 017405          312 DDAECCICLSAYDDGTELRELP-CLHHFHCSCLDKWLYINS--TCPLCKFNILK  362 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~lr~LP-C~H~FH~~CId~WL~~~~--tCPlCR~~I~~  362 (372)
                      ...+|.||.+-...|   ..-+ |+|.||..|+++|++.+.  .||.|+.+.+.
T Consensus       179 ~i~~C~iC~~iv~~g---~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~  229 (238)
T 3nw0_A          179 AVKICNICHSLLIQG---QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH  229 (238)
T ss_dssp             TCCBCTTTCSBCSSC---EECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCS
T ss_pred             CCCcCcchhhHHhCC---cccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCC
Confidence            467899999999887   3334 999999999999998754  89999987654

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=93.50  E-value=0.05  Score=40.55  Aligned_cols=47  Identities=23%  Similarity=0.395  Sum_probs=33.1

Q ss_pred             CCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCC----CCcccccccc
Q 017405          312 DDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINS----TCPLCKFNIL  361 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~----tCPlCR~~I~  361 (372)
                      .+..|.||.+   .++-|.-=.|...||..|++..|....    .||.|+.+-.
T Consensus        11 ~~~~C~vC~~---~~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~~~   61 (66)
T 2lri_C           11 PGARCGVCGD---GTDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDVT   61 (66)
T ss_dssp             TTCCCTTTSC---CTTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTCCC
T ss_pred             CCCCcCCCCC---CCeEEECCCCCCceecccCCCccCcCCCCCEECccccCCCc
Confidence            4568999974   233332223889999999999887543    5999986543

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=93.39  E-value=0.038  Score=43.74  Aligned_cols=36  Identities=14%  Similarity=0.286  Sum_probs=28.7

Q ss_pred             CCceeeeecccccCCCceEEeCCCCcccHHHHHH-HH
Q 017405          312 DDAECCICLSAYDDGTELRELPCLHHFHCSCLDK-WL  347 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~-WL  347 (372)
                      ++..|.||+++|..+....-++|+|.|+..|+.. |-
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~~h~   38 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKATHP   38 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETTTTEEECHHHHHHHSC
T ss_pred             CCCCCcCCCCCCCCCceEECCcCChHHhHHHCHHHhc
Confidence            4578999998865554555599999999999998 54

>2l43_A N-teminal domain from histone H3.3, linker, PHD1 from bromodomain-containing protein...; PHD finger, histone CODE, transcription; NMR {Homo sapiens}

Probab=88.98  E-value=0.13  Score=40.34  Aligned_cols=53  Identities=19%  Similarity=0.357  Sum_probs=34.2

Q ss_pred             CCCCceeeeecccc-cCCCceEEeC-CCCcccHHHHHHHHhc--CCCCccccccccc
Q 017405          310 SEDDAECCICLSAY-DDGTELRELP-CLHHFHCSCLDKWLYI--NSTCPLCKFNILK  362 (372)
Q Consensus       310 ~~ed~eC~ICL~~y-~~~d~lr~LP-C~H~FH~~CId~WL~~--~~tCPlCR~~I~~  362 (372)
                      ..++..|.||...- .+++++..-. |.-.||..|+..=+.-  .=.||.|......
T Consensus        22 ~~~~~~C~vC~~~~s~~~~~ll~CD~C~~~fH~~Cl~p~~vP~g~W~C~~C~~~~~~   78 (88)
T 2l43_A           22 IDEDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCLQSRAR   78 (88)
T ss_dssp             CCCCCCCSSCCSSSSCSEEEEEECSSSCCCCCHHHHTCSSCCSSCCCCHHHHHHTTS
T ss_pred             CCCCCcCCcCCCCCCCCCCCEEECCCCCchhhcccCCCCccCCCceECccccCccch
Confidence            45678999999764 2333343333 8889999999853211  1249999765443

>2xb1_A Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro; fusion protein, signal transduction, transcription, metal BI WNT proteins; 1.90A {Homo sapiens}

Probab=87.42  E-value=0.068  Score=43.38  Aligned_cols=50  Identities=22%  Similarity=0.336  Sum_probs=35.0

Q ss_pred             ceeeeecccccCCCceEEe--CCCCcccHHHHHHHH----h------cCCCCcccccccccc
Q 017405          314 AECCICLSAYDDGTELREL--PCLHHFHCSCLDKWL----Y------INSTCPLCKFNILKM  363 (372)
Q Consensus       314 ~eC~ICL~~y~~~d~lr~L--PC~H~FH~~CId~WL----~------~~~tCPlCR~~I~~~  363 (372)
                      ..|.||...|.++.+.+.-  .|..=||.+|+.-=-    .      .+-.||.|+..-...
T Consensus         4 ~~C~iC~~p~~~~~~mi~Cdd~C~~WfH~~CVglt~~~~~~i~~~~~~~~~Cp~C~~~~~~~   65 (105)
T 2xb1_A            4 YPCGACRSEVNDDQDAILCEASCQKWFHRECTGMTESAYGLLTTEASAVWACDLCLKTKEGS   65 (105)
T ss_dssp             CBCTTTCSBCCTTSCEEECTTTTCCEEEGGGTTCCHHHHHHHHHCTTEEECCHHHHHTTTTC
T ss_pred             CCCCCCCCccCCCCCEEEecCCcccccccccCCcCHHHHHhhccCCCCCEECccccCcCCCC
Confidence            4799999999877665554  388899999985321    0      234599998654433

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}

Probab=87.38  E-value=0.24  Score=36.01  Aligned_cols=45  Identities=27%  Similarity=0.634  Sum_probs=31.0

Q ss_pred             CCCceeeeecccccCCCceEEe-CCCCcccHHHHHHHHhcC----CCCcccccc
Q 017405          311 EDDAECCICLSAYDDGTELREL-PCLHHFHCSCLDKWLYIN----STCPLCKFN  359 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~L-PC~H~FH~~CId~WL~~~----~tCPlCR~~  359 (372)
                      .++..|.+|...   + ++..- .|...||..|++.=+...    -.||.|+.+
T Consensus         9 ~~~~~C~vC~~~---g-~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~~   58 (61)
T 2l5u_A            9 DHQDYCEVCQQG---G-EIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKE   58 (61)
T ss_dssp             CCCSSCTTTSCC---S-SEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGGG
T ss_pred             CCCCCCccCCCC---C-cEEECCCCChhhhhhccCCCCCCCCCCceECcccccc
Confidence            456789999873   3 33322 388999999999865432    249999753

>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced, nucleosome, E3 ligase, transcription; NMR {Homo sapiens} PDB: 2ke1_A 2kft_A

Probab=85.63  E-value=0.17  Score=37.32  Aligned_cols=50  Identities=24%  Similarity=0.510  Sum_probs=33.0

Q ss_pred             CCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCC----CCcccccccccc
Q 017405          311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINS----TCPLCKFNILKM  363 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~----tCPlCR~~I~~~  363 (372)
                      .++..|.||-..   ++-+.-=-|...||..|++.=+....    .||.|...-...
T Consensus         6 ~~~~~C~vC~~~---g~ll~CD~C~~~fH~~Cl~ppl~~~P~g~W~C~~C~~~~~~~   59 (66)
T 1xwh_A            6 KNEDECAVCRDG---GELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQATVQE   59 (66)
T ss_dssp             SCCCSBSSSSCC---SSCEECSSCCCEECTTTSSSCCSSCCSSCCCCHHHHHTCCCC
T ss_pred             CCCCCCccCCCC---CCEEEcCCCChhhcccccCCCcCcCCCCCeECccccCccccc
Confidence            356789999863   33332223889999999986554322    499997654433

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=84.92  E-value=0.3  Score=33.88  Aligned_cols=44  Identities=30%  Similarity=0.588  Sum_probs=28.8

Q ss_pred             eeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCC----CCccccc
Q 017405          315 ECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINS----TCPLCKF  358 (372)
Q Consensus       315 eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~----tCPlCR~  358 (372)
                      .|.||...-+.++-+.--.|...||..|++.=+....    .||.|+.
T Consensus         2 ~C~vC~~~~~~~~ll~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~   49 (51)
T 1f62_A            2 RCKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCCCCCCCCCCCCEEECCCCChhhCcccCCCCcCCCCCCcEECcCccc
Confidence            5888887644443333334889999999976444322    4999964

>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=83.71  E-value=0.27  Score=35.80  Aligned_cols=48  Identities=21%  Similarity=0.394  Sum_probs=33.9

Q ss_pred             CCCceeeeecccccCCCceEEe-CCCCcccHHHHHHHHh-----cCCCCccccc
Q 017405          311 EDDAECCICLSAYDDGTELREL-PCLHHFHCSCLDKWLY-----INSTCPLCKF  358 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~L-PC~H~FH~~CId~WL~-----~~~tCPlCR~  358 (372)
                      .++..|+||...|.++...+.- .|..=||..|+.---.     ..-.||.|+.
T Consensus         4 ~e~~~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~   57 (64)
T 1we9_A            4 GSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSN   57 (64)
T ss_dssp             SSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHT
T ss_pred             CCCCCCCCCCCccCCCCCEEEccCCCCCCCccccCcChhHhcCCCcEECCCCcC
Confidence            3556799999999765544443 3888999999875432     2456999965

>2yt5_A Metal-response element-binding transcription factor 2; zinc-regulated factor 1, ZIRF1, metal-response element DNA-binding protein M96; NMR {Mus musculus}

Probab=82.02  E-value=0.2  Score=36.74  Aligned_cols=50  Identities=22%  Similarity=0.496  Sum_probs=33.4

Q ss_pred             CCCceeeeecccccC-CCceEEeC-CCCcccHHHHHHHHhc-------CCCCccccccc
Q 017405          311 EDDAECCICLSAYDD-GTELRELP-CLHHFHCSCLDKWLYI-------NSTCPLCKFNI  360 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~-~d~lr~LP-C~H~FH~~CId~WL~~-------~~tCPlCR~~I  360 (372)
                      .++..|.||...... ++.+..-. |...||..|++.=+..       .=.||.|+...
T Consensus         4 ~~~~~C~vC~~~~~~~~~~ll~Cd~C~~~~H~~C~~p~l~~~~~~p~~~W~C~~C~~~~   62 (66)
T 2yt5_A            4 GSSGVCTICQEEYSEAPNEMVICDKCGQGYHQLCHTPHIDSSVIDSDEKWLCRQCVFAT   62 (66)
T ss_dssp             CCCCCBSSSCCCCCBTTBCEEECSSSCCEEETTTSSSCCCHHHHHSSCCCCCHHHHHTT
T ss_pred             CCCCCCCCCCCCCCCCCCCEEECCCCChHHHhhhCCCcccccccCCCCCEECCCCcCcc
Confidence            456789999987643 23333333 8899999998864421       22499997543

>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC complex, transcription; 1.43A {Homo sapiens}

Probab=81.06  E-value=0.16  Score=36.68  Aligned_cols=49  Identities=31%  Similarity=0.604  Sum_probs=33.2

Q ss_pred             CCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCC----CCcccccccccc
Q 017405          312 DDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINS----TCPLCKFNILKM  363 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~----tCPlCR~~I~~~  363 (372)
                      ++..|.+|...   ++-+.-=-|...||..|++.=+....    .||.|.....++
T Consensus         4 ~~~~C~vC~~~---g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~~~~   56 (60)
T 2puy_A            4 HEDFCSVCRKS---GQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQDQMLKK   56 (60)
T ss_dssp             CCSSCTTTCCC---SSCEECSSSSCEECGGGSSSCCSSCCCSCCCCHHHHHHHHHT
T ss_pred             CCCCCcCCCCC---CcEEEcCCCCcCEECCcCCCCcCCCCCCceEChhccChhhch
Confidence            45789999874   33332223889999999996554322    499998766543

>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain, -structure, transcription; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=80.73  E-value=0.61  Score=36.66  Aligned_cols=49  Identities=22%  Similarity=0.467  Sum_probs=33.6

Q ss_pred             ccCCCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCC----CCcccccc
Q 017405          308 VISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINS----TCPLCKFN  359 (372)
Q Consensus       308 ~~~~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~----tCPlCR~~  359 (372)
                      ....++..|.+|...   ++-+.--.|.-.||..|+++=+....    .||.|+..
T Consensus        20 ~~d~n~~~C~vC~~~---g~LL~CD~C~~~fH~~Cl~PpL~~~P~g~W~C~~C~~~   72 (88)
T 1fp0_A           20 TLDDSATICRVCQKP---GDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVL   72 (88)
T ss_dssp             SSSSSSSCCSSSCSS---SCCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCC
T ss_pred             ccCCCCCcCcCcCCC---CCEEECCCCCCceecccCCCCCCCCcCCCcCCccccCC
Confidence            345567889999964   43333223778999999987665422    49999754

>3o36_A Transcription intermediary factor 1-alpha; TRIM24, PHD finger, bromodomain, H4K16 acetylation, breast C transcription-protein binding complex; HET: ALY; 1.70A {Homo sapiens} PDB: 3o33_A* 3o34_A* 3o35_A* 3o37_A

Probab=80.39  E-value=0.28  Score=43.23  Aligned_cols=47  Identities=26%  Similarity=0.454  Sum_probs=31.7

Q ss_pred             CCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCC----CCccccccc
Q 017405          311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINS----TCPLCKFNI  360 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~----tCPlCR~~I  360 (372)
                      .+++.|.+|...   |+-+.-=.|...||..|++.-+....    .||.|+..-
T Consensus         2 ~~~~~C~~C~~~---g~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~   52 (184)
T 3o36_A            2 PNEDWCAVCQNG---GELLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFCRDLS   52 (184)
T ss_dssp             CSCSSCTTTCCC---SSCEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSS
T ss_pred             CCCCccccCCCC---CeeeecCCCCcccCccccCCCCCCCCCCCEECccccCcc
Confidence            356789999853   43222223889999999987765432    499998643

---

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	372
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	1e-16
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	6e-12
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	3e-10
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	3e-10
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	2e-08
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	2e-08
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	1e-07
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	1e-07
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	8e-07
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	6e-06
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	4e-05
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	6e-04
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	7e-04

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 71.4 bits (175), Expect = 1e-16
 Identities = 25/52 (48%), Positives = 34/52 (65%), Gaps = 1/52 (1%)

Query: 311 EDDAECCICLSAYDDGTELRELP-CLHHFHCSCLDKWLYINSTCPLCKFNIL 361
           +D  EC +CL+  +DG E R LP C H FH  C+D WL  +STCPLC+  ++
Sbjct: 3   DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV 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 = 58.4 bits (141), Expect = 6e-12
 Identities = 20/63 (31%), Positives = 31/63 (49%), Gaps = 2/63 (3%)

Query: 309 ISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMSNERG 368
           ++     C ICL    + +    LPCLH F   C+ +W+  N TCPLCK  +  + +   
Sbjct: 1   MATVAERCPICLEDPSNYS--MALPCLHAFCYVCITRWIRQNPTCPLCKVPVESVVHTIE 58

Query: 369 SEE 371
           S+ 
Sbjct: 59  SDS 61

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]} Length = 79

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

 Score = 54.2 bits (130), Expect = 3e-10
 Identities = 15/53 (28%), Positives = 19/53 (35%), Gaps = 4/53 (7%)

Query: 309 ISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINS-TCPLCKFNI 360
           +      C IC     D   ++  PC H    SCL  W       CP C+  I
Sbjct: 19  MGSTFQLCKICAENDKD---VKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI 68

>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 = 14/61 (22%), Positives = 18/61 (29%), Gaps = 15/61 (24%)

Query: 312 DDAECCICLSAYDDGT---------------ELRELPCLHHFHCSCLDKWLYINSTCPLC 356
               C IC +   D                  +    C H FH  C+ +WL     CPL 
Sbjct: 20  VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLD 79

Query: 357 K 357
            
Sbjct: 80  N 80

>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 = 12/46 (26%), Positives = 17/46 (36%), Gaps = 6/46 (13%)

Query: 315 ECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNI 360
            C  C +        + LPCLH     CL+        CP+C+   
Sbjct: 8   RCQQCQAEAKCP---KLLPCLHTLCSGCLEAS---GMQCPICQAPW 47

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]} Length = 60

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

 Score = 47.9 bits (113), Expect = 2e-08
 Identities = 15/54 (27%), Positives = 19/54 (35%), Gaps = 4/54 (7%)

Query: 311 EDDAECCICLSAYDDGTEL--RELPCLHHFHCSCLDKWL--YINSTCPLCKFNI 360
           ED   C IC     +           L + H SCL  WL    N+ C +C    
Sbjct: 4   EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVY 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 = 45.9 bits (108), Expect = 1e-07
 Identities = 9/45 (20%), Positives = 15/45 (33%), Gaps = 2/45 (4%)

Query: 315 ECCICLSAYDDG-TELRELPCLHHFHCSCLDKWLYI-NSTCPLCK 357
           EC +C+   +          C +     C  +     N  CP C+
Sbjct: 2   ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACR 46

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 65

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.9 bits (108), Expect = 1e-07
 Identities = 14/54 (25%), Positives = 20/54 (37%), Gaps = 3/54 (5%)

Query: 312 DDAECCICLSAYDDGTELREL--PCLHHFHCSCLDKWLYINS-TCPLCKFNILK 362
           DD  C  C +       L+ +   C H    SC+D      +  CP C   + K
Sbjct: 2   DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRK 55

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 114

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 45.0 bits (105), Expect = 8e-07
 Identities = 18/82 (21%), Positives = 23/82 (28%), Gaps = 10/82 (12%)

Query: 281 LEKVNGEIQEPFGGIMIECDTDMPMEHVISEDDAECCICLSAYDDGTELRELPCLHHFHC 340
           + K   E++       I C     ME +             A       R   C H FH 
Sbjct: 13  IRKYTEELKVAPEEDCIIC-----MEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHL 67

Query: 341 SCLDKWL-----YINSTCPLCK 357
            CL           +  CP CK
Sbjct: 68  LCLLAMYCNGNKDGSLQCPSCK 89

>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 = 42.0 bits (98), Expect = 6e-06
 Identities = 11/56 (19%), Positives = 18/56 (32%), Gaps = 8/56 (14%)

Query: 310 SEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYI--------NSTCPLCK 357
           S   + C +CL  Y          C   F   CL +++ +          +CP   
Sbjct: 2   SSGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA 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 = 40.1 bits (93), Expect = 4e-05
 Identities = 16/50 (32%), Positives = 19/50 (38%), Gaps = 6/50 (12%)

Query: 311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINS---TCPLCK 357
           +   EC ICL    +        C H F   C+ K L        CPLCK
Sbjct: 19  QKILECPICLELIKEP---VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCK 65

>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 = 36.4 bits (84), Expect = 6e-04
 Identities = 14/48 (29%), Positives = 18/48 (37%), Gaps = 4/48 (8%)

Query: 311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYI-NSTCPLCK 357
                C IC     D  E     C H F   C+ + L +  S CP C+
Sbjct: 21  VKSISCQICEHILADPVET---SCKHLFCRICILRCLKVMGSYCPSCR 65

>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 = 36.3 bits (83), Expect = 7e-04
 Identities = 11/47 (23%), Positives = 18/47 (38%), Gaps = 4/47 (8%)

Query: 311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCK 357
           E    C  C +   +   L    C H F  +C+   +   + CP+C 
Sbjct: 20  EKLLRCSRCTNILREPVCL--GGCEHIFCSNCVSDCI--GTGCPVCY 62

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	372
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.67
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.48
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.4
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.4
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.39
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.36
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.32
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.15
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.12
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.07
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.06
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.05
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.86
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	98.82
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.82
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.62
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.34
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	92.28
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	90.13
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	89.0
d1wewa_	78	Sumoylation ligase E3, SIZ1 {Thale cress (Arabidop	88.95
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	88.06
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	85.13
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	81.19

>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=99.67  E-value=6.4e-18  Score=122.15  Aligned_cols=51  Identities=49%  Similarity=1.153  Sum_probs=46.9

Q ss_pred             CCCceeeeecccccCCCceEEeC-CCCcccHHHHHHHHhcCCCCcccccccc
Q 017405          311 EDDAECCICLSAYDDGTELRELP-CLHHFHCSCLDKWLYINSTCPLCKFNIL  361 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LP-C~H~FH~~CId~WL~~~~tCPlCR~~I~  361 (372)
                      +++.+|+||+++|++++.++.+| |+|.||.+||++|++.+++||+||++|.
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            35578999999999999999886 9999999999999999999999999874

>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=99.48  E-value=7.4e-15  Score=110.03  Aligned_cols=48  Identities=40%  Similarity=0.906  Sum_probs=42.8

Q ss_pred             CceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCccccccccc
Q 017405          313 DAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILK  362 (372)
Q Consensus       313 d~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~  362 (372)
                      .++|+||++.+.++  .+.+||+|.||.+||.+|++.+.+||+||+++..
T Consensus         5 ~d~C~IC~~~~~~~--~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~~   52 (68)
T d1chca_           5 AERCPICLEDPSNY--SMALPCLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCSSCCSCCCSC--EEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCccCCcCccCC--cEEeCCCCcCcHHHHHHHHHhCCcCCCCCcchHh
Confidence            46799999999754  5778999999999999999999999999998854

>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=99.40  E-value=6.4e-14  Score=109.98  Aligned_cols=50  Identities=28%  Similarity=0.533  Sum_probs=42.6

Q ss_pred             CCceeeeecccccCCC---------------ceEEeCCCCcccHHHHHHHHhcCCCCcccccccc
Q 017405          312 DDAECCICLSAYDDGT---------------ELRELPCLHHFHCSCLDKWLYINSTCPLCKFNIL  361 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d---------------~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~  361 (372)
                      .+++|+||++++.+..               .+..+||+|.||.+||++||+.+.+||+||++..
T Consensus        20 ~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   84 (88)
T d3dplr1          20 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE   84 (88)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCCCCCCccc
Confidence            3457999998887532               4678899999999999999999999999998764

>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=99.40  E-value=1.1e-13  Score=113.28  Aligned_cols=53  Identities=26%  Similarity=0.455  Sum_probs=42.6

Q ss_pred             CCceeeeecccccC---------------CCceEEeCCCCcccHHHHHHHHhcC-----CCCccccccccccC
Q 017405          312 DDAECCICLSAYDD---------------GTELRELPCLHHFHCSCLDKWLYIN-----STCPLCKFNILKMS  364 (372)
Q Consensus       312 ed~eC~ICL~~y~~---------------~d~lr~LPC~H~FH~~CId~WL~~~-----~tCPlCR~~I~~~~  364 (372)
                      .+.+|+||++++.+               ...++.++|+|.||.+||++||+.+     .+||+||..+..+.
T Consensus        24 ~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~~   96 (114)
T d1v87a_          24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKT   96 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCS
T ss_pred             ccccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhccCc
Confidence            45689999999854               2346778899999999999999753     47999998776554

>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=99.39  E-value=3.1e-14  Score=101.21  Aligned_cols=48  Identities=19%  Similarity=0.396  Sum_probs=41.2

Q ss_pred             eeeeecccccCCCc-eEEeCCCCcccHHHHHHHHhc-CCCCccccccccc
Q 017405          315 ECCICLSAYDDGTE-LRELPCLHHFHCSCLDKWLYI-NSTCPLCKFNILK  362 (372)
Q Consensus       315 eC~ICL~~y~~~d~-lr~LPC~H~FH~~CId~WL~~-~~tCPlCR~~I~~  362 (372)
                      +|+||+++|++++. ++.++|+|.||.+||++|++. +.+||+||+++.+
T Consensus         2 eCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           2 ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             EETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            79999999987764 455689999999999999985 5579999998864

>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=99.36  E-value=1.7e-13  Score=101.65  Aligned_cols=53  Identities=26%  Similarity=0.444  Sum_probs=42.7

Q ss_pred             CCceeeeecccccCC--CceEEeCCCCcccHHHHHHHHhc-CCCCccccccccccC
Q 017405          312 DDAECCICLSAYDDG--TELRELPCLHHFHCSCLDKWLYI-NSTCPLCKFNILKMS  364 (372)
Q Consensus       312 ed~eC~ICL~~y~~~--d~lr~LPC~H~FH~~CId~WL~~-~~tCPlCR~~I~~~~  364 (372)
                      ++.+|+||++++..+  ..+..+||+|.||.+||.+|++. +.+||+||+++...+
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~~   57 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSN   57 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCC
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCccccc
Confidence            467999999986543  34566789999999999999965 567999999986544

>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=99.32  E-value=3.5e-13  Score=103.75  Aligned_cols=49  Identities=31%  Similarity=0.623  Sum_probs=42.3

Q ss_pred             CceeeeecccccCCCceEEeCCCCcccHHHHHHHHhc-CCCCccccccccccC
Q 017405          313 DAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYI-NSTCPLCKFNILKMS  364 (372)
Q Consensus       313 d~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~-~~tCPlCR~~I~~~~  364 (372)
                      ...|+||++.+++.   +.+||||.||.+||.+||+. +.+||+||.+|....
T Consensus        23 ~~~C~IC~~~~~~~---~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~   72 (79)
T d1fbva4          23 FQLCKICAENDKDV---KIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE   72 (79)
T ss_dssp             TTBCTTTSSSBCCE---ECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCCC
T ss_pred             CCCCccCCCcCCCe---EEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCCc
Confidence            45799999988764   88999999999999999985 578999999997644

>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=99.15  E-value=3.4e-12  Score=91.71  Aligned_cols=47  Identities=15%  Similarity=0.104  Sum_probs=42.1

Q ss_pred             eeeeecccccCCCceEEeC-CCCcccHHHHHHHHhcCCCCccccccccccC
Q 017405          315 ECCICLSAYDDGTELRELP-CLHHFHCSCLDKWLYINSTCPLCKFNILKMS  364 (372)
Q Consensus       315 eC~ICL~~y~~~d~lr~LP-C~H~FH~~CId~WL~~~~tCPlCR~~I~~~~  364 (372)
                      .|+||++.++++   ..+| |||.||.+||.+|++.+.+||+||+++...+
T Consensus         2 ~C~Ic~~~~~~P---v~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~d   49 (56)
T d2baya1           2 LCAISGKVPRRP---VLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEE   49 (56)
T ss_dssp             CCTTTCSCCSSE---EEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGG
T ss_pred             CCccCCchHHhc---CccCCCCCcccHHHHHHHHhhccCCCccCCcCCHHh
Confidence            599999999987   6675 9999999999999999999999999887643

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

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

Probab=99.12  E-value=3.1e-12  Score=92.14  Aligned_cols=46  Identities=26%  Similarity=0.606  Sum_probs=40.4

Q ss_pred             ceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCccccccccccCC
Q 017405          314 AECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMSN  365 (372)
Q Consensus       314 ~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~~~~  365 (372)
                      .+|+||++.|.++   +.+||+|.||..||++|   +.+||+||.++.....
T Consensus         7 l~C~IC~~~~~~p---~~lpCgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~~   52 (56)
T d1bora_           7 LRCQQCQAEAKCP---KLLPCLHTLCSGCLEAS---GMQCPICQAPWPLGAD   52 (56)
T ss_dssp             SSCSSSCSSCBCC---SCSTTSCCSBTTTCSSS---SSSCSSCCSSSSCCSS
T ss_pred             CCCcccCcccCCC---EEecCCCHHhHHHHHcC---CCcCcCCCCcccCCCC
Confidence            5899999999987   67899999999999876   6789999999976544

>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=99.07  E-value=3.1e-11  Score=87.63  Aligned_cols=48  Identities=35%  Similarity=0.730  Sum_probs=38.3

Q ss_pred             CCCceeeeecccccCCCceEEeCC-----CCcccHHHHHHHHh--cCCCCcccccccc
Q 017405          311 EDDAECCICLSAYDDGTELRELPC-----LHHFHCSCLDKWLY--INSTCPLCKFNIL  361 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC-----~H~FH~~CId~WL~--~~~tCPlCR~~I~  361 (372)
                      ++...|.||+++++++   ...||     +|.||..||.+|+.  .+.+||+||+++.
T Consensus         4 ed~~~C~IC~~~~~~~---~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           4 EDVPVCWICNEELGNE---RFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEECSCC---CCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCCccCCccCCCc---eeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeee
Confidence            3567899999998765   33454     49999999999995  4568999998764

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.06  E-value=2.4e-11  Score=97.50  Aligned_cols=47  Identities=40%  Similarity=0.677  Sum_probs=40.9

Q ss_pred             ceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcC---CCCcccccccccc
Q 017405          314 AECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYIN---STCPLCKFNILKM  363 (372)
Q Consensus       314 ~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~---~tCPlCR~~I~~~  363 (372)
                      .+|+||++.|+++   +.+||||.||..||.+|++.+   ..||+||.++...
T Consensus        22 l~CpIC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   71 (103)
T d1jm7a_          22 LECPICLELIKEP---VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKR   71 (103)
T ss_dssp             TSCSSSCCCCSSC---CBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTT
T ss_pred             cCCCccCchhCCe---EEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCChh
Confidence            5799999999987   568999999999999999764   3799999988654

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.05  E-value=2.8e-11  Score=94.42  Aligned_cols=48  Identities=29%  Similarity=0.641  Sum_probs=42.2

Q ss_pred             ceeeeecccccCCCceEEeCCCCcccHHHHHHHHhc-CCCCccccccccccC
Q 017405          314 AECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYI-NSTCPLCKFNILKMS  364 (372)
Q Consensus       314 ~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~-~~tCPlCR~~I~~~~  364 (372)
                      ..|+||++.+.++   +.+||||.|+..||.+|++. +..||.||.++.+.+
T Consensus        24 l~C~IC~~~~~~p---v~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~   72 (86)
T d1rmda2          24 ISCQICEHILADP---VETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTD   72 (86)
T ss_dssp             TBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             cCCccCCcchhcc---eecCCCChhhHHHHHHHHhhCCCcCcccCCCCChhh
Confidence            5799999999887   78999999999999999975 457999999886543

>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=98.86  E-value=1.4e-10  Score=91.91  Aligned_cols=47  Identities=19%  Similarity=0.431  Sum_probs=38.7

Q ss_pred             CceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCCCCcccccccccc
Q 017405          313 DAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKM  363 (372)
Q Consensus       313 d~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~tCPlCR~~I~~~  363 (372)
                      ..+|+||++.|.++  +...+|||.||.+||.+|+.  ..||.||.++...
T Consensus        22 ~l~C~IC~~~~~~p--v~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~   68 (97)
T d1jm7b_          22 LLRCSRCTNILREP--VCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQ   68 (97)
T ss_dssp             TTSCSSSCSCCSSC--BCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCS
T ss_pred             cCCCccCCchhhcC--ceeCCCCCchhHHHHHHHHh--ccccccCCcCchh
Confidence            45899999999887  22347999999999999984  4599999887643

>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=98.82  E-value=8.1e-10  Score=84.39  Aligned_cols=50  Identities=10%  Similarity=0.028  Sum_probs=43.7

Q ss_pred             CCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhc-CCCCcccccccccc
Q 017405          311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYI-NSTCPLCKFNILKM  363 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~-~~tCPlCR~~I~~~  363 (372)
                      +++..|+||++-|.++   ..+||||.|+..||.+|+.. +.+||.|+.++...
T Consensus         5 P~~l~CpIc~~l~~dP---v~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~   55 (80)
T d2c2la2           5 PDYLCGKISFELMREP---CITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQE   55 (80)
T ss_dssp             CSTTBCTTTCSBCSSE---EECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGG
T ss_pred             CccccCcCcCchhhhh---cccCCcCeecHHHHHHHHhcCCccCCCcccccccc
Confidence            4667899999999998   78999999999999999975 55799999987643

>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=98.82  E-value=8.5e-10  Score=83.81  Aligned_cols=50  Identities=24%  Similarity=0.414  Sum_probs=43.9

Q ss_pred             CCCceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcC-CCCcccccccccc
Q 017405          311 EDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYIN-STCPLCKFNILKM  363 (372)
Q Consensus       311 ~ed~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~-~tCPlCR~~I~~~  363 (372)
                      .++..|+||++.|.++   +.++|||.|+..||.+|++.+ .+||.|+.++...
T Consensus         6 P~~l~CpIc~~~m~dP---V~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~   56 (78)
T d1t1ha_           6 PEYFRCPISLELMKDP---VIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHA   56 (78)
T ss_dssp             SSSSSCTTTSCCCSSE---EEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSC
T ss_pred             CccCCCcCcCchhhCc---eEccCCCcchHHHHHHHHHHCCCCCCcccccCCcc
Confidence            4668999999999998   789999999999999999865 5799999987653

>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=98.62  E-value=1.2e-08  Score=80.91  Aligned_cols=50  Identities=18%  Similarity=0.111  Sum_probs=44.7

Q ss_pred             CCCCceeeeecccccCCCceEEeCCCC-cccHHHHHHHHhcCCCCccccccccc
Q 017405          310 SEDDAECCICLSAYDDGTELRELPCLH-HFHCSCLDKWLYINSTCPLCKFNILK  362 (372)
Q Consensus       310 ~~ed~eC~ICL~~y~~~d~lr~LPC~H-~FH~~CId~WL~~~~tCPlCR~~I~~  362 (372)
                      ..++..|+||.+-|.++   +++||+| .|.+.||.+||+.+.+||+|+.++..
T Consensus        19 ~P~~f~CPI~~~lm~dP---V~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~   69 (98)
T d1wgma_          19 ACDEFLDPIMSTLMCDP---VVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTM   69 (98)
T ss_dssp             CCTTTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCT
T ss_pred             CcHHhCCcCchhHHHHH---HhcccccchhhHHHHHHHHHhcCCcccccccccc
Confidence            45678999999999999   8899765 79999999999999999999998865

>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=98.34  E-value=6.2e-08  Score=75.51  Aligned_cols=45  Identities=22%  Similarity=0.511  Sum_probs=36.7

Q ss_pred             CceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcC--------CCCcccc
Q 017405          313 DAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYIN--------STCPLCK  357 (372)
Q Consensus       313 d~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~--------~tCPlCR  357 (372)
                      ..+|+||++++..++.+..++|+|.||.+|+.+|++.+        -.||.|+
T Consensus         5 ~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~   57 (94)
T d1wima_           5 SSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA   57 (94)
T ss_dssp             BCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTT
T ss_pred             CCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCC
Confidence            36899999999877667777899999999999999631        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=92.28  E-value=0.02  Score=38.38  Aligned_cols=44  Identities=34%  Similarity=0.663  Sum_probs=30.3

Q ss_pred             ceeeeecccccCCCceEEe-CCCCcccHHHHHHHHhcCC----CCccccc
Q 017405          314 AECCICLSAYDDGTELREL-PCLHHFHCSCLDKWLYINS----TCPLCKF  358 (372)
Q Consensus       314 ~eC~ICL~~y~~~d~lr~L-PC~H~FH~~CId~WL~~~~----tCPlCR~  358 (372)
                      +.|.||-..-+.+ .+..= .|+..||..|++.-+....    .||.||.
T Consensus         1 a~C~vC~~~~~~~-~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           1 ARCKVCRKKGEDD-KLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCCTTTCCSSCCS-CCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCCcCcCCCCCCC-CEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            3588887664443 33332 3889999999998775433    4999975

>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=90.13  E-value=0.024  Score=39.88  Aligned_cols=48  Identities=21%  Similarity=0.413  Sum_probs=34.9

Q ss_pred             CCceeeeecccccCCCceEEeC-CCCcccHHHHHHHH---h--cCCCCcccccc
Q 017405          312 DDAECCICLSAYDDGTELRELP-CLHHFHCSCLDKWL---Y--INSTCPLCKFN  359 (372)
Q Consensus       312 ed~eC~ICL~~y~~~d~lr~LP-C~H~FH~~CId~WL---~--~~~tCPlCR~~  359 (372)
                      .+..|.+|.+.+++++..+.=. |+.-||..|++.=.   .  .+-.||.|+..
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            4568999999988877655444 99999999996421   1  23469999753

>d1weva_ g.50.1.2 (A:) PHD finger protein 22 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 22
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=89.00  E-value=0.016  Score=43.39  Aligned_cols=52  Identities=21%  Similarity=0.454  Sum_probs=33.2

Q ss_pred             CceeeeecccccC-CCceEEeC-CCCcccHHHHHHHHh-----c---CCCCccccccccccC
Q 017405          313 DAECCICLSAYDD-GTELRELP-CLHHFHCSCLDKWLY-----I---NSTCPLCKFNILKMS  364 (372)
Q Consensus       313 d~eC~ICL~~y~~-~d~lr~LP-C~H~FH~~CId~WL~-----~---~~tCPlCR~~I~~~~  364 (372)
                      +..|.||.....+ ++.+..=. |+..||..|++..+.     .   .-.||.|+.......
T Consensus        16 ~~~C~iC~~~~~~~~~~~v~Cd~C~~~~H~~C~~p~~~~~~~~~~~~~W~C~~C~~~~~~~~   77 (88)
T d1weva_          16 GLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQMKRMA   77 (88)
T ss_dssp             CCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHHHCCST
T ss_pred             cCCccCCCCccCCCCCeEEEcCCCCCccccccCCCcccccccccCCCeEECcccCchHhhhh
Confidence            4579999875443 33443333 889999999875432     1   235999976554433

>d1wewa_ g.50.1.2 (A:) Sumoylation ligase E3, SIZ1 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Sumoylation ligase E3, SIZ1
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=88.95  E-value=0.064  Score=39.13  Aligned_cols=46  Identities=15%  Similarity=0.364  Sum_probs=29.9

Q ss_pred             ceeeeecccccCCCceEEeC---CCCcccHHHHHH----HHh-----cCCCCccccccc
Q 017405          314 AECCICLSAYDDGTELRELP---CLHHFHCSCLDK----WLY-----INSTCPLCKFNI  360 (372)
Q Consensus       314 ~eC~ICL~~y~~~d~lr~LP---C~H~FH~~CId~----WL~-----~~~tCPlCR~~I  360 (372)
                      ...+||....+++.. ...-   |..-||..|+.-    .-.     .+-.||.|+..-
T Consensus        16 ~~~C~C~~~~~~~~~-i~c~c~~C~~W~H~~Cvgi~~~~~~~~~~~~~~~~C~~C~~~~   73 (78)
T d1wewa_          16 KVRCVCGNSLETDSM-IQCEDPRCHVWQHVGCVILPDKPMDGNPPLPESFYCEICRLTS   73 (78)
T ss_dssp             CCCCSSCCCCCCSCE-EECSSTTTCCEEEHHHHSCCCTTTCSCSCSCSSCCCHHHHHCC
T ss_pred             ccEeECCCccCCCcE-EEEeCCCCCcCCCccccCccccccccccCCCCEEECCCCcCcC
Confidence            344499988776543 4553   889999999842    111     124699997543

>d1fp0a1 g.50.1.2 (A:19-88) Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Nuclear corepressor KAP-1 (TIF-1beta)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.06  E-value=0.082  Score=37.76  Aligned_cols=45  Identities=24%  Similarity=0.406  Sum_probs=29.0

Q ss_pred             ceeeeecccccCCCceEEeCCCCcccHHHHHHHHhcCC----CCcccccccc
Q 017405          314 AECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINS----TCPLCKFNIL  361 (372)
Q Consensus       314 ~eC~ICL~~y~~~d~lr~LPC~H~FH~~CId~WL~~~~----tCPlCR~~I~  361 (372)
                      ..|.+|..   .++-+.-=.|...||..|++..+....    .||.|+..-.
T Consensus         8 ~~C~~C~~---~~~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~~   56 (70)
T d1fp0a1           8 TICRVCQK---PGDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLPD   56 (70)
T ss_dssp             SCCSSSCS---SSCCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCCS
T ss_pred             CCCCCCCC---cCEEEECCCCChhhccccCCCCcCcCCCCCEECcCCcCcCc
Confidence            45666653   343222223889999999998875433    4999975443

>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=85.13  E-value=0.2  Score=37.00  Aligned_cols=33  Identities=27%  Similarity=0.731  Sum_probs=26.0

Q ss_pred             CCCCceeeeecccccCCCceEEeC---CCCcccHHHHHHH
Q 017405          310 SEDDAECCICLSAYDDGTELRELP---CLHHFHCSCLDKW  346 (372)
Q Consensus       310 ~~ed~eC~ICL~~y~~~d~lr~LP---C~H~FH~~CId~W  346 (372)
                      ...|..|.|| +.|..++   .+|   |+-+||..|+.+-
T Consensus        12 v~~D~mC~vC-~v~t~~~---l~pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_          12 VVNDEMCDVC-EVWTAES---LFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCSCCCTTT-CCCCSSC---CSSCSSSSSCCCHHHHHHH
T ss_pred             CCcCcccccc-Ccccccc---eecceeecchhhHHHHHHh
Confidence            3467889999 7777664   347   7799999999997

>d1wepa_ g.50.1.2 (A:) PHD finger protein 8 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 8
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=81.19  E-value=1.1  Score=32.17  Aligned_cols=47  Identities=26%  Similarity=0.478  Sum_probs=32.5

Q ss_pred             ceeeeecccccCCCceEEeC-CCCcccHHHHHH--HH-h--cCCCCccccccc
Q 017405          314 AECCICLSAYDDGTELRELP-CLHHFHCSCLDK--WL-Y--INSTCPLCKFNI  360 (372)
Q Consensus       314 ~eC~ICL~~y~~~d~lr~LP-C~H~FH~~CId~--WL-~--~~~tCPlCR~~I  360 (372)
                      ..|+||...+++++..+.=. |+--||..|+.-  .- .  .+-.||.|+..-
T Consensus        12 pv~CiC~~~~~~~~~mI~Cd~C~~W~H~~C~g~~~~~~~~~~~~~C~~C~~~~   64 (79)
T d1wepa_          12 PVYCLCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVF   64 (79)
T ss_dssp             CCCSTTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTS
T ss_pred             CeEeECCCccCCCCcEEECCCCCCcEeccccCcchhcCCCCCEEECccCcCCc
Confidence            56779999887665544444 889999999952  21 1  235699998643