Citrus Sinensis ID: 008581

Local Sequence Feature Prediction

Prediction and (Method)	Result

Residue Number Marker

Protein Sequence

Secondary Structure (PSIPRED)

Secondary Structure Prediction (SSPRO)

Coil and Loop (DISEMBL)

Flexible Loop (DISEMBL)

Low Complexity Region (SEG)

Disordered region (IsUnstruct)

Disordered Region (DISOPRED)

Disordered Region (DISEMBL)

Disordered Region (DISPRO)

Transmembrane Helix (TMHMM)

Transmembrane Helix (HMMTOP)

Transmembrane Helix (MEMSAT)

TM Helix, Signal Peptide (MEMSAT_SVM)

TM Helix, Signal Peptide (Phobius)

Signal Peptide (SignalP HMM Mode)

Signal Peptide (SignalP NN Mode)

Coiled Coils (COILS)

Positional Conservation

--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-

MDSEEDDFYSGEAMDDDNDYYNSDDAAADYGVEDDEDDDDGYGFIEEDPDHDDFDNASFRRQQHSYTVLREADIKCQQEDDITKVSTVLSISRVDASILLRHYNWSVSKVHDAWFADEDAVRKSVGFLDKPVVEFSNARELTCGICFDTYSCDKVVSAACGHPFCRACWRVNDGPGCLMLRCPDPSCCAAVGQDMIDMLASDEDKKKYSRYLLRSYVEDNRKTKWCPAPGCEHAIDFAAGSGNFDVSCLCSYNFCWNCTEEAHRPVDCGTVAKWILKNCAESENMNWILANSKPCPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCLGAWSDHGERTGGFYACNRYETAKQQGDYDETERRREMAKNSLEKYTHYYERWASNQSSRQKALADLHQMQTVHLEKLSDIQCTPESQLKFIIDAWLQIVECRRVLKWTYAYGYYLPEHEHAKRQFFEYLQGEAESGLERLHQCAEKELLQFLNDESQSKEFNDFRTKLAGLTSVTKNYFENLVRALENGLADVDSHAACSKTTNSKYGGGGGASKGKSGRGKGSGKIGGSHDAGR

ccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccccEEEEHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHccccHHHHHHHHHccHHHHHHHHccccccccccccccccccccccccccccccccccccccccHHHHHHHccccccccccccccccccccHHHHHHcccHHHHHHHHHHHHHHHHHccccccccccccccccEEcccccccccccccccccHHHccccccccccccHHHHHHHHHHHHHHccHHHHHccccccccccccEEEccccccEEEcccccccccccccccccccccccccccccccHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccc

cccccHccccccccccccccccccccccccccccccccccccccccccccccccHHHccccccccEEEccHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHccccHHHHHHHHHccHHHHHHHcccccccccccccccccEEEEEEcccccHHccccccccHHHHHHHHHHHcccEEEEEccccccccEccHHHHHHHccHHHHHHHHHHHHHHHHccccccEEccccccccEEEEEccccccEEEEccccEEEEcccccccccccHHHHHHHHHHcccccHcHHHHHHcccccccccccEEcccccccEEEccccccEEEEEEccccccccccccccEccccccHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccc

mdseeddfysgeamdddndyynsddaaadygveddeddddgygfieedpdhddfdnasfrrqqHSYTVLREAdikcqqedditkVSTVLSISRVDASILLRHYnwsvskvhdawfadEDAVRKSvgfldkpvvefsnareltcgicfdtyscdkvvsaacghpfcracwrvndgpgclmlrcpdpsccaavGQDMIDMLASDEDKKKYSRYLLRSYVednrktkwcpapgcehaidfaagsgnfdvsclcsynfcwncteeahrpvdcgtVAKWILKNCaesenmnwilanskpcpkckrpieknqgcmhmtcsppckfefcwlclgawsdhgertggfyacnryetakqqgdydeTERRREMAKNSLEKYTHYYERWASNQSSRQKALADLHQMQTVHLeklsdiqctpesQLKFIIDAWLQIVECRRVLKWTYaygyylpehehAKRQFFEYLQGEAESGLERLHQCAEKELLQFLNDESQSKEFNDFRTKLAGLTSVTKNYFENLVRALENGladvdshaacskttnskygggggaskgksgrgkgsgkiggshdagr

mdseeddfYSGEAMDDDNDYYNSDDAAADYGVEDDEDDDDGYGFIEedpdhddfdnaSFRRQQHSYTVLReadikcqqedditkvstvlSISRVDASILLRHYNWSVSKVHDAWFADEDAVRKSVGFLDKPVVEFSNARELTCGICFDTYSCDKVVSAACGHPFCRACWRVNDGPGCLMLRCPDPSCCAAVGQDMIDMLasdedkkkySRYLLRSYVEDNRKTKWCPAPGCEHAIDFAAGSGNFDVSCLCSYNFCWNCTEEAHRPVDCGTVAKWILKNCAESENMNWILANSKPCPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCLGAWSDHGERTGGFYACNRyetakqqgdydeterRREMAKNSLEKYTHYYERWASNQSSRQKALADLHQMQTVHLEKLSDIQCTPESQLKFIIDAWLQIVECRRVLKWTYAYGYYLPEHEHAKRQFFEYLQGEAESGLERLHQCAEKELLQFLNDESQSKEFNDFRTKLAGLTSVTKNYFENLVRALENGLADVDSHAAcskttnskygggggaskgksgrgkgsgkiggshdagr

MDSEEDDFYSGEAMdddndyynsddaaadygveddeddddgygFIEEDPDHDDFDNASFRRQQHSYTVLREADIKCQQEDDITKVSTVLSISRVDASILLRHYNWSVSKVHDAWFADEDAVRKSVGFLDKPVVEFSNARELTCGICFDTYSCDKVVSAACGHPFCRACWRVNDGPGCLMLRCPDPSCCAAVGQDMIDMLASDEDKKKYSRYLLRSYVEDNRKTKWCPAPGCEHAIDFAAGSGNFDVSCLCSYNFCWNCTEEAHRPVDCGTVAKWILKNCAESENMNWILANSKPCPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCLGAWSDHGERTGGFYACNRYETAKQQGDYDETERRREMAKNSLEKYTHYYERWASNQSSRQKALADLHQMQTVHLEKLSDIQCTPESQLKFIIDAWLQIVECRRVLKWTYAYGYYLPEHEHAKRQFFEYLQGEAESGLERLHQCAEKELLQFLNDESQSKEFNDFRTKLAGLTSVTKNYFENLVRALENGLADVDSHAACSKTTNskygggggaskgksgrgkgsgkiggsHDAGR

****************************************************************SYTVLREADIKCQQEDDITKVSTVLSISRVDASILLRHYNWSVSKVHDAWFADEDAVRKSVGFLDKPVVEFSNARELTCGICFDTYSCDKVVSAACGHPFCRACWRVNDGPGCLMLRCPDPSCCAAVGQDMIDMLASDEDKKKYSRYLLRSYVEDNRKTKWCPAPGCEHAIDFAAGSGNFDVSCLCSYNFCWNCTEEAHRPVDCGTVAKWILKNCAESENMNWILANSKPCPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCLGAWSDHGERTGGFYACNRYET***********************YTHYYERWA************LHQMQTVHLEKLSDIQCTPESQLKFIIDAWLQIVECRRVLKWTYAYGYYLPEHEHAKRQFFEYLQGEAESGLERLHQCAEKELLQFLN*******FNDFRTKLAGLTSVTKNYFENLVRALENGLADV******************************************

*DSEED****************************DEDDDDGYGFIEEDPD************QHSYTVLREADIKCQQEDDITKVSTVLSISRVDASILLRHYNWSVSKVHDAWFADEDAVR*****************ELTCGICFDTYSCDKVVSAACGHPFCRACWRVNDGPGCLMLRCPDPSCCAAVGQDMIDMLASDEDKKKYSRYLLRSYVEDNRKTKWCPAPGCEHAIDFAAGSGNFDVSCLCSYNFCWNCTEEAHRPVDCGTVAKWILK*C**SE*MNWILANSKPCPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCLGAWSDHGERTGGFYACNRYETAKQQG************KNSLEKYTHYYERWASNQSSRQKALADL******************ESQLKFIIDAWLQIVECRRVLKWTYAYGYYLPEHEHAKRQFFEYLQGEAESGLERLHQCAEKELLQFLNDESQSKEFNDFRTKLAGLTSVTKNYFENLVRALENGLAD*******************************************

*********SGEAMDDDNDYYNSDDAAADYGVEDDEDDDDGYGFIEEDPDHDDFDNASFRRQQHSYTVLREADIKCQQEDDITKVSTVLSISRVDASILLRHYNWSVSKVHDAWFADEDAVRKSVGFLDKPVVEFSNARELTCGICFDTYSCDKVVSAACGHPFCRACWRVNDGPGCLMLRCPDPSCCAAVGQDMIDMLASDEDKKKYSRYLLRSYVEDNRKTKWCPAPGCEHAIDFAAGSGNFDVSCLCSYNFCWNCTEEAHRPVDCGTVAKWILKNCAESENMNWILANSKPCPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCLGAWSDHGERTGGFYACNRYETAK**************AKNSLEKYTHYYERWA**********ADLHQMQTVHLEKLSDIQCTPESQLKFIIDAWLQIVECRRVLKWTYAYGYYLPEHEHAKRQFFEYLQGEAESGLERLHQCAEKELLQFLNDESQSKEFNDFRTKLAGLTSVTKNYFENLVRALENGLADVDSHAACSKTTNSK*****************************

**********************************************************FRRQQHSYTVLREADIKCQQEDDITKVSTVLSISRVDASILLRHYNWSVSKVHDAWFADEDAVRKSVGFLDKPVVEFSNARELTCGICFDTYSCDKVVSAACGHPFCRACWRVNDGPGCLMLRCPDPSCCAAVGQDMIDMLASDEDKKKYSRYLLRSYVEDNRKTKWCPAPGCEHAIDFAAGSGNFDVSCLCSYNFCWNCTEEAHRPVDCGTVAKWILKNCAESENMNWILANSKPCPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCLGAWSDHGERTGGFYACNRYETAKQQ***********MAKNSLEKYTHYYERWASNQSSRQKALADLHQMQTVHLEKLSDIQCTPESQLKFIIDAWLQIVECRRVLKWTYAYGYYLPEHEHAKRQFFEYLQGEAESGLERLHQCAEKELLQFLNDESQSKEFNDFRTKLAGLTSVTKNYFENLVRALENGL*********************************************

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no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Alignment graph	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query		561	2.2.26 [Sep-21-2011]
Q84RR0		562	Probable E3 ubiquitin-pro	yes	no	0.955	0.953	0.724	0.0
Q8W468		567	Probable E3 ubiquitin-pro	no	no	0.935	0.925	0.712	0.0
Q8L829		552	Probable E3 ubiquitin-pro	no	no	0.896	0.911	0.706	0.0
P0C8K8		552	Putative E3 ubiquitin-pro	no	no	0.900	0.914	0.664	0.0
Q9SKC3		543	Probable E3 ubiquitin-pro	no	no	0.857	0.885	0.543	1e-165
Q9SKC2		542	Probable E3 ubiquitin-pro	no	no	0.875	0.905	0.530	1e-161
Q9SKC4		514	Probable E3 ubiquitin-pro	no	no	0.784	0.856	0.580	1e-161
Q84RQ9		496	Probable E3 ubiquitin-pro	no	no	0.839	0.949	0.388	3e-89
Q6T486		520	Probable E3 ubiquitin-pro	yes	no	0.855	0.923	0.345	5e-80
Q9P3U4		504	Uncharacterized RING fing	yes	no	0.739	0.823	0.334	2e-63

>sp\|Q84RR0\|ARI7_ARATH Probable E3 ubiquitin-protein ligase ARI7 OS=Arabidopsis thaliana GN=ARI7 PE=2 SV=1	Back alignment and function desciption

 Score =  835 bits (2158), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 407/562 (72%), Positives = 459/562 (81%), Gaps = 26/562 (4%)

Query: 1   MDSEEDDFYSGEAMDDDNDYYNSDDAAADYGVEDDEDDDDGYGFIEEDPDHDDFDNASFR 60
           M+S EDDFYSG   DD ND   SDD   DYG            F+EED D  D    +  
Sbjct: 13  MESGEDDFYSG-GTDDCND---SDDGEPDYG------------FVEEDAD--DSAMIASH 54

Query: 61  RQQHSYTVLREADIKCQQEDDITKVSTVLSISRVDASILLRHYNWSVSKVHDAWFADEDA 120
           R Q ++ VLRE DI+  Q D+I +VS VLSI+ V+ASILLRH++WSV +VHD WFADE+ 
Sbjct: 55  RSQKNFCVLREEDIRRHQMDNIERVSVVLSITEVEASILLRHFHWSVGRVHDEWFADEER 114

Query: 121 VRKSVGFLDKPVVEFSNARELTCGICFDTYSCDKVVSAACGHPFCRACWR------VNDG 174
           VRK+VG L+  VV  S+  ELTCGICFD+Y  +K+ S +CGHPFC  CW       +NDG
Sbjct: 115 VRKTVGILESHVVPPSDDSELTCGICFDSYPPEKIASVSCGHPFCTTCWTGYISTTINDG 174

Query: 175 PGCLMLRCPDPSCCAAVGQDMIDMLASDEDKKKYSRYLLRSYVEDNRKTKWCPAPGCEHA 234
           PGCLMLRCPDPSC AAVG DM+D LAS+++K+KY+RY LRSY+EDNRK KWCPAPGC+ A
Sbjct: 175 PGCLMLRCPDPSCLAAVGHDMVDKLASEDEKEKYNRYFLRSYIEDNRKMKWCPAPGCDFA 234

Query: 235 IDFAAGSGNFDVSCLCSYNFCWNCTEEAHRPVDCGTVAKWILKNCAESENMNWILANSKP 294
           IDF AGSGN+DVSCLCS++FCWNCTEEAHRPVDC TV+KWILKN AESENMNWILANSKP
Sbjct: 235 IDFVAGSGNYDVSCLCSFSFCWNCTEEAHRPVDCSTVSKWILKNSAESENMNWILANSKP 294

Query: 295 CPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCLGAWSDHGERTGGFYACNRYETAKQQGDY 354
           CP+CKRPIEKNQGCMHMTC+PPCK+EFCWLCLGAW DHGERTGGFYACNRYE AKQ+G Y
Sbjct: 295 CPRCKRPIEKNQGCMHMTCTPPCKYEFCWLCLGAWMDHGERTGGFYACNRYEVAKQEGQY 354

Query: 355 DETERRREMAKNSLEKYTHYYERWASNQSSRQKALADLHQMQTVHLEKLSDIQCTPESQL 414
           DETERRREMAKNSLE+YTHYYERWASNQ+SRQKA+ADL Q Q  +LEKLSD QCTPESQL
Sbjct: 355 DETERRREMAKNSLERYTHYYERWASNQTSRQKAMADLQQAQMQNLEKLSDKQCTPESQL 414

Query: 415 KFIIDAWLQIVECRRVLKWTYAYGYYLPEHEHAKRQFFEYLQGEAESGLERLHQCAEKEL 474
           KFI++AWLQI+ECRRVLKWTYAYGYYLPEHEHAKRQFFEYLQGEAESGLERLHQC EK+L
Sbjct: 415 KFILEAWLQIIECRRVLKWTYAYGYYLPEHEHAKRQFFEYLQGEAESGLERLHQCVEKDL 474

Query: 475 LQFLNDESQSKEFNDFRTKLAGLTSVTKNYFENLVRALENGLADVDSHAACSKTTNSKYG 534
           +QFL  E  SK+FNDFRTKLAGLTSVTKNYFENLV+ALENGLADVDSHAACS  + S   
Sbjct: 475 VQFLIAEGPSKDFNDFRTKLAGLTSVTKNYFENLVKALENGLADVDSHAACSSKSTSS-- 532

Query: 535 GGGGASKGKSGRGKGSGKIGGS 556
              G S    G+GKGS + GGS
Sbjct: 533 KSTGCSSKTRGKGKGSSRTGGS 554

Might act as an E3 ubiquitin-protein ligase, or as part of E3 complex, which accepts ubiquitin from specific E2 ubiquitin-conjugating enzymes and then transfers it to substrates.
Arabidopsis thaliana (taxid: 3702)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp\|Q8W468\|ARI8_ARATH Probable E3 ubiquitin-protein ligase ARI8 OS=Arabidopsis thaliana GN=ARI8 PE=2 SV=1	Back alignment and function description

>sp\|Q8L829\|ARI5_ARATH Probable E3 ubiquitin-protein ligase ARI5 OS=Arabidopsis thaliana GN=ARI5 PE=2 SV=1	Back alignment and function description

>sp\|P0C8K8\|ARI6_ARATH Putative E3 ubiquitin-protein ligase ARI6 OS=Arabidopsis thaliana GN=ARI6 PE=5 SV=1	Back alignment and function description

>sp\|Q9SKC3\|ARI9_ARATH Probable E3 ubiquitin-protein ligase ARI9 OS=Arabidopsis thaliana GN=ARI9 PE=2 SV=1	Back alignment and function description

>sp\|Q9SKC2\|ARI11_ARATH Probable E3 ubiquitin-protein ligase ARI11 OS=Arabidopsis thaliana GN=ARI11 PE=2 SV=1	Back alignment and function description

>sp\|Q9SKC4\|ARI10_ARATH Probable E3 ubiquitin-protein ligase ARI10 OS=Arabidopsis thaliana GN=ARI10 PE=2 SV=1	Back alignment and function description

>sp\|Q84RQ9\|ARI12_ARATH Probable E3 ubiquitin-protein ligase ARI12 OS=Arabidopsis thaliana GN=ARI12 PE=2 SV=2	Back alignment and function description

>sp\|Q6T486\|RBRA_DICDI Probable E3 ubiquitin-protein ligase rbrA OS=Dictyostelium discoideum GN=rbrA PE=3 SV=1	Back alignment and function description

>sp\|Q9P3U4\|YKX2_SCHPO Uncharacterized RING finger protein C328.02 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPAC328.02 PE=3 SV=1	Back alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Alignment Graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		561
224095704		569	predicted protein [Populus trichocarpa]	0.855	0.843	0.852	0.0
224132684		546	predicted protein [Populus trichocarpa]	0.853	0.877	0.843	0.0
356550364		589	PREDICTED: probable E3 ubiquitin-protein	0.843	0.803	0.829	0.0
356557318		589	PREDICTED: probable E3 ubiquitin-protein	0.843	0.803	0.822	0.0
356545498		586	PREDICTED: probable E3 ubiquitin-protein	0.871	0.834	0.785	0.0
356538909		586	PREDICTED: probable E3 ubiquitin-protein	0.882	0.844	0.772	0.0
359478116		587	PREDICTED: probable E3 ubiquitin-protein	0.873	0.834	0.787	0.0
359495753		652	PREDICTED: probable E3 ubiquitin-protein	0.871	0.75	0.804	0.0
224109192		591	predicted protein [Populus trichocarpa]	0.946	0.898	0.738	0.0
298205054		581	unnamed protein product [Vitis vinifera]	0.871	0.841	0.804	0.0

>gi\|224095704\|ref\|XP_002310443.1\| predicted protein [Populus trichocarpa] gi\|222853346\|gb\|EEE90893.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

 Score =  875 bits (2261), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 415/487 (85%), Positives = 446/487 (91%), Gaps = 7/487 (1%)

Query: 52  DDFDNASFRRQQHSYTVLREADIKCQQEDDITKVSTVLSISRVDASILLRHYNWSVSKVH 111
           DD D+ SFR QQ SYTVL+E DI  +QEDD+T+VSTVLSI+RV ASILLRHYNWSVSKVH
Sbjct: 58  DDTDDLSFRFQQ-SYTVLKEEDILNRQEDDVTRVSTVLSITRVAASILLRHYNWSVSKVH 116

Query: 112 DAWFADEDAVRKSVGFLDKPVVEFSNARELTCGICFDTYSCDKVVSAACGHPFCRACWR- 170
           DAWFADEDAVRKSVG LDK VV+FSNARELTCGICF++  CDK++SAACGHPFC  CW  
Sbjct: 117 DAWFADEDAVRKSVGLLDKQVVQFSNARELTCGICFESIPCDKIISAACGHPFCNTCWSG 176

Query: 171 -----VNDGPGCLMLRCPDPSCCAAVGQDMIDMLASDEDKKKYSRYLLRSYVEDNRKTKW 225
                +NDGPGCLMLRCPDPSC AAVGQDMI++LA   DK+KYSRYLLRSY+EDNRKTKW
Sbjct: 177 YISTTINDGPGCLMLRCPDPSCRAAVGQDMINLLAPGGDKEKYSRYLLRSYIEDNRKTKW 236

Query: 226 CPAPGCEHAIDFAAGSGNFDVSCLCSYNFCWNCTEEAHRPVDCGTVAKWILKNCAESENM 285
           CPAPGCE+AIDFAAGSG+FDVSCLCS++FCWNC EEAHRPVDCGTV KWILKN AESENM
Sbjct: 237 CPAPGCEYAIDFAAGSGSFDVSCLCSHSFCWNCAEEAHRPVDCGTVTKWILKNSAESENM 296

Query: 286 NWILANSKPCPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCLGAWSDHGERTGGFYACNRY 345
           NWILANSKPCPKCKRPIEKNQGCMH+TC+PPCKFEFCWLCLGAWSDHGERTGGFYACNRY
Sbjct: 297 NWILANSKPCPKCKRPIEKNQGCMHITCTPPCKFEFCWLCLGAWSDHGERTGGFYACNRY 356

Query: 346 ETAKQQGDYDETERRREMAKNSLEKYTHYYERWASNQSSRQKALADLHQMQTVHLEKLSD 405
           E AKQ+G YDE+ERRREMAKNSLE+YTHYYERWASNQ SRQKAL DLHQMQTVHLEKLSD
Sbjct: 357 EAAKQEGAYDESERRREMAKNSLERYTHYYERWASNQLSRQKALVDLHQMQTVHLEKLSD 416

Query: 406 IQCTPESQLKFIIDAWLQIVECRRVLKWTYAYGYYLPEHEHAKRQFFEYLQGEAESGLER 465
           I CTPESQLKFI +AWLQIVECRRVLKWTYAYG+YL EHEHAKRQFFEYLQGEAESGLER
Sbjct: 417 IHCTPESQLKFIAEAWLQIVECRRVLKWTYAYGFYLHEHEHAKRQFFEYLQGEAESGLER 476

Query: 466 LHQCAEKELLQFLNDESQSKEFNDFRTKLAGLTSVTKNYFENLVRALENGLADVDSHAAC 525
           LHQCAEKEL QFL  +  SKEF++FRTKLAGLTSVTKNYFENLVRALENGLADVDSH AC
Sbjct: 477 LHQCAEKELQQFLAADGPSKEFDEFRTKLAGLTSVTKNYFENLVRALENGLADVDSHGAC 536

Query: 526 SKTTNSK 532
           SKTT+SK
Sbjct: 537 SKTTSSK 543

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|224132684\|ref\|XP_002327855.1\| predicted protein [Populus trichocarpa] gi\|222837264\|gb\|EEE75643.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|356550364\|ref\|XP_003543557.1\| PREDICTED: probable E3 ubiquitin-protein ligase ARI7-like [Glycine max]	Back alignment and taxonomy information

>gi\|356557318\|ref\|XP_003546964.1\| PREDICTED: probable E3 ubiquitin-protein ligase ARI7-like [Glycine max]	Back alignment and taxonomy information

>gi\|356545498\|ref\|XP_003541178.1\| PREDICTED: probable E3 ubiquitin-protein ligase ARI7-like [Glycine max]	Back alignment and taxonomy information

>gi\|356538909\|ref\|XP_003537943.1\| PREDICTED: probable E3 ubiquitin-protein ligase ARI7-like [Glycine max]	Back alignment and taxonomy information

>gi\|359478116\|ref\|XP_003632072.1\| PREDICTED: probable E3 ubiquitin-protein ligase ARI7-like [Vitis vinifera] gi\|147800085\|emb\|CAN64272.1\| hypothetical protein VITISV_008933 [Vitis vinifera]	Back alignment and taxonomy information

>gi\|359495753\|ref\|XP_002268068.2\| PREDICTED: probable E3 ubiquitin-protein ligase ARI8-like [Vitis vinifera]	Back alignment and taxonomy information

>gi\|224109192\|ref\|XP_002315117.1\| predicted protein [Populus trichocarpa] gi\|222864157\|gb\|EEF01288.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|298205054\|emb\|CBI38350.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Alignment graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		561
TAIR\|locus:2065954		562	ARI7 "ARIADNE 7" [Arabidopsis	0.864	0.862	0.771	5.1e-223
TAIR\|locus:2206315		567	ARI8 "ARIADNE 8" [Arabidopsis	0.860	0.851	0.746	2e-214
TAIR\|locus:2045188		543	ARI9 "ARIADNE 9" [Arabidopsis	0.814	0.841	0.564	3.8e-156
TAIR\|locus:2045223		514	ARI10 "ARIADNE 10" [Arabidopsi	0.784	0.856	0.580	3.1e-154
DICTYBASE\|DDB_G0286961		520	rbrA "IBR zinc finger-containi	0.787	0.85	0.355	1.1e-78
POMBASE\|SPAC328.02		504	SPAC328.02 "ubiquitin-protein	0.729	0.811	0.337	3.1e-67
ASPGD\|ASPL0000014787		511	AN3689 [Emericella nidulans (t	0.741	0.814	0.337	3.2e-65
UNIPROTKB\|G4NDZ4		522	MGG_00859 "Ariadne-1" [Magnapo	0.828	0.890	0.322	3.2e-65
DICTYBASE\|DDB_G0289043		1818	DDB_G0289043 [Dictyostelium di	0.600	0.185	0.344	9.3e-62
TAIR\|locus:2116184		597	ARI1 "ARIADNE 1" [Arabidopsis	0.809	0.760	0.318	1e-59

TAIR\|locus:2065954 ARI7 "ARIADNE 7" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 2127 (753.8 bits), Expect = 5.1e-223, Sum P(2) = 5.1e-223
 Identities = 381/494 (77%), Positives = 431/494 (87%)

Query:    44 FIEEDPDHDDFDNASFRRQQHSYTVLREADIKCQQEDDITKVSTVLSISRVDASILLRHY 103
             F+EED D D    AS R Q++ + VLRE DI+  Q D+I +VS VLSI+ V+ASILLRH+
Sbjct:    40 FVEEDAD-DSAMIASHRSQKN-FCVLREEDIRRHQMDNIERVSVVLSITEVEASILLRHF 97

Query:   104 NWSVSKVHDAWFADEDAVRKSVGFLDKPVVEFSNARELTCGICFDTYSCDKVVSAACGHP 163
             +WSV +VHD WFADE+ VRK+VG L+  VV  S+  ELTCGICFD+Y  +K+ S +CGHP
Sbjct:    98 HWSVGRVHDEWFADEERVRKTVGILESHVVPPSDDSELTCGICFDSYPPEKIASVSCGHP 157

Query:   164 FCRACWR------VNDGPGCLMLRCPDPSCCAAVGQDMIDMLASDEDKKKYSRYLLRSYV 217
             FC  CW       +NDGPGCLMLRCPDPSC AAVG DM+D LAS+++K+KY+RY LRSY+
Sbjct:   158 FCTTCWTGYISTTINDGPGCLMLRCPDPSCLAAVGHDMVDKLASEDEKEKYNRYFLRSYI 217

Query:   218 EDNRKTKWCPAPGCEHAIDFAAGSGNFDVSCLCSYNFCWNCTEEAHRPVDCGTVAKWILK 277
             EDNRK KWCPAPGC+ AIDF AGSGN+DVSCLCS++FCWNCTEEAHRPVDC TV+KWILK
Sbjct:   218 EDNRKMKWCPAPGCDFAIDFVAGSGNYDVSCLCSFSFCWNCTEEAHRPVDCSTVSKWILK 277

Query:   278 NCAESENMNWILANSKPCPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCLGAWSDHGERTG 337
             N AESENMNWILANSKPCP+CKRPIEKNQGCMHMTC+PPCK+EFCWLCLGAW DHGERTG
Sbjct:   278 NSAESENMNWILANSKPCPRCKRPIEKNQGCMHMTCTPPCKYEFCWLCLGAWMDHGERTG 337

Query:   338 GFYACNRYETAKQQGDYDETERRREMAKNSLEKYTHYYERWASNQSSRQKALADLHQMQT 397
             GFYACNRYE AKQ+G YDETERRREMAKNSLE+YTHYYERWASNQ+SRQKA+ADL Q Q 
Sbjct:   338 GFYACNRYEVAKQEGQYDETERRREMAKNSLERYTHYYERWASNQTSRQKAMADLQQAQM 397

Query:   398 VHLEKLSDIQCTPESQLKFIIDAWLQIVECRRVLKWTYAYGYYLPEHEHAKRQFFEYLQG 457
              +LEKLSD QCTPESQLKFI++AWLQI+ECRRVLKWTYAYGYYLPEHEHAKRQFFEYLQG
Sbjct:   398 QNLEKLSDKQCTPESQLKFILEAWLQIIECRRVLKWTYAYGYYLPEHEHAKRQFFEYLQG 457

Query:   458 EAESGLERLHQCAEKELLQFLNDESQSKEFNDFRTKLAGLTSVTKNYFENLVRALENGLA 517
             EAESGLERLHQC EK+L+QFL  E  SK+FNDFRTKLAGLTSVTKNYFENLV+ALENGLA
Sbjct:   458 EAESGLERLHQCVEKDLVQFLIAEGPSKDFNDFRTKLAGLTSVTKNYFENLVKALENGLA 517

Query:   518 DVDSHAACS-KTTN 530
             DVDSHAACS K+T+
Sbjct:   518 DVDSHAACSSKSTS 531

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

TAIR\|locus:2206315 ARI8 "ARIADNE 8" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2045188 ARI9 "ARIADNE 9" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2045223 ARI10 "ARIADNE 10" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

DICTYBASE\|DDB_G0286961 rbrA "IBR zinc finger-containing protein" [Dictyostelium discoideum (taxid:44689)]	Back alignment and assigned GO terms

POMBASE\|SPAC328.02 SPAC328.02 "ubiquitin-protein ligase involved in sporulation" [Schizosaccharomyces pombe (taxid:4896)]	Back alignment and assigned GO terms

ASPGD\|ASPL0000014787 AN3689 [Emericella nidulans (taxid:162425)]	Back alignment and assigned GO terms

UNIPROTKB\|G4NDZ4 MGG_00859 "Ariadne-1" [Magnaporthe oryzae 70-15 (taxid:242507)]	Back alignment and assigned GO terms

DICTYBASE\|DDB_G0289043 DDB_G0289043 [Dictyostelium discoideum (taxid:44689)]	Back alignment and assigned GO terms

TAIR\|locus:2116184 ARI1 "ARIADNE 1" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q84RR0	ARI7_ARATH	6, ., 3, ., 2, ., -	0.7241	0.9554	0.9537	yes	no
Q6T486	RBRA_DICDI	6, ., 3, ., 2, ., -	0.3452	0.8556	0.9230	yes	no
Q8L829	ARI5_ARATH	6, ., 3, ., 2, ., -	0.7063	0.8966	0.9112	no	no
Q8W468	ARI8_ARATH	6, ., 3, ., 2, ., -	0.7121	0.9358	0.9259	no	no

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	Alignment Graph	Length	Definition	E-value
Query		561
smart00647		64	smart00647, IBR, In Between Ring fingers	5e-18
pfam01485		63	pfam01485, IBR, IBR domain	1e-11
pfam01485		63	pfam01485, IBR, IBR domain	8e-05

>gnl\|CDD\|214763 smart00647, IBR, In Between Ring fingers	Back alignment and domain information

 Score = 77.8 bits (192), Expect = 5e-18
 Identities = 30/64 (46%), Positives = 35/64 (54%), Gaps = 1/64 (1%)

Query: 206 KKYSRYLLRSYVEDNRKTKWCPAPGCEHAIDFAAGSGNFDVSC-LCSYNFCWNCTEEAHR 264
           +KY R LL SYVE N   KWCPAP C  AI      G   V+C  C ++FC+ C    H 
Sbjct: 1   EKYERLLLESYVESNPDLKWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVPWHS 60

Query: 265 PVDC 268
           PV C
Sbjct: 61  PVSC 64

the domains occurs between pairs og RING fingers. Length = 64

>gnl\|CDD\|216524 pfam01485, IBR, IBR domain	Back alignment and domain information

>gnl\|CDD\|216524 pfam01485, IBR, IBR domain	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		561
KOG1815		444	consensus Predicted E3 ubiquitin ligase [Posttrans	100.0
KOG1812		384	consensus Predicted E3 ubiquitin ligase [Posttrans	100.0
KOG1814		445	consensus Predicted E3 ubiquitin ligase [Posttrans	99.97
KOG0006		446	consensus E3 ubiquitin-protein ligase (Parkin prot	99.89
smart00647		64	IBR In Between Ring fingers. the domains occurs be	99.27
PF01485		64	IBR: IBR domain; InterPro: IPR002867 Zinc finger (	99.13
PF15227		42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.56
KOG0320		187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.07
KOG4367		699	consensus Predicted Zn-finger protein [Function un	98.02
smart00647		64	IBR In Between Ring fingers. the domains occurs be	97.97
PF13445		43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	97.95
PF01485		64	IBR: IBR domain; InterPro: IPR002867 Zinc finger (	97.92
PLN03208		193	E3 ubiquitin-protein ligase RMA2; Provisional	97.84
PF13923		39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	97.82
PF00097		41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	97.79
KOG0804		493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	97.74
PF13639		44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	97.71
PF14634		44	zf-RING_5: zinc-RING finger domain	97.64
KOG2177		386	consensus Predicted E3 ubiquitin ligase [Posttrans	97.6
PF13920		50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	97.55
PHA02929		238	N1R/p28-like protein; Provisional	97.44
TIGR00599		397	rad18 DNA repair protein rad18. This family is bas	97.34
cd00162		45	RING RING-finger (Really Interesting New Gene) dom	97.3
KOG0823		230	consensus Predicted E3 ubiquitin ligase [Posttrans	97.18
KOG0317		293	consensus Predicted E3 ubiquitin ligase, integral	97.17
smart00504		63	Ubox Modified RING finger domain. Modified RING fi	97.17
KOG0287		442	consensus Postreplication repair protein RAD18 [Re	97.16
PHA02926		242	zinc finger-like protein; Provisional	97.02
KOG2164		513	consensus Predicted E3 ubiquitin ligase [Posttrans	97.01
smart00184		39	RING Ring finger. E3 ubiquitin-protein ligase acti	96.92
TIGR00570		309	cdk7 CDK-activating kinase assembly factor MAT1. A	96.8
PF14835		65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	96.39
KOG0978		698	consensus E3 ubiquitin ligase involved in syntaxin	96.29
PF04564		73	U-box: U-box domain; InterPro: IPR003613 Quality c	96.23
PF14555		43	UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A	96.22
COG5574		271	PEX10 RING-finger-containing E3 ubiquitin ligase [	96.08
KOG1814		445	consensus Predicted E3 ubiquitin ligase [Posttrans	95.61
COG5540		374	RING-finger-containing ubiquitin ligase [Posttrans	95.51
KOG0824		324	consensus Predicted E3 ubiquitin ligase [Posttrans	95.49
PF11789		57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	95.42
KOG4628		348	consensus Predicted E3 ubiquitin ligase [Posttrans	95.32
KOG2879		298	consensus Predicted E3 ubiquitin ligase [Posttrans	94.98
KOG1812		384	consensus Predicted E3 ubiquitin ligase [Posttrans	94.97
COG5432		391	RAD18 RING-finger-containing E3 ubiquitin ligase [	94.49
COG5152		259	Uncharacterized conserved protein, contains RING a	94.43
PF12678		73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	93.99
PF14570		48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	93.64
KOG1002		791	consensus Nucleotide excision repair protein RAD16	93.33
KOG4159		398	consensus Predicted E3 ubiquitin ligase [Posttrans	93.13
KOG0006		446	consensus E3 ubiquitin-protein ligase (Parkin prot	92.97
KOG1039		344	consensus Predicted E3 ubiquitin ligase [Posttrans	92.85
KOG0311		381	consensus Predicted E3 ubiquitin ligase [Posttrans	92.68
PF10571		26	UPF0547: Uncharacterised protein family UPF0547; I	91.92
KOG4265		349	consensus Predicted E3 ubiquitin ligase [Posttrans	91.49
KOG4739		233	consensus Uncharacterized protein involved in syna	90.71
PRK00420		112	hypothetical protein; Validated	90.04
KOG0317		293	consensus Predicted E3 ubiquitin ligase, integral	89.71
COG5243		491	HRD1 HRD ubiquitin ligase complex, ER membrane com	89.63
KOG1815		444	consensus Predicted E3 ubiquitin ligase [Posttrans	89.27
PF14447		55	Prok-RING_4: Prokaryotic RING finger family 4	88.58
KOG1813		313	consensus Predicted E3 ubiquitin ligase [Posttrans	87.47
KOG0297		391	consensus TNF receptor-associated factor [Signal t	87.02
TIGR00570		309	cdk7 CDK-activating kinase assembly factor MAT1. A	86.97
PF13240		23	zinc_ribbon_2: zinc-ribbon domain	86.1
KOG2817		394	consensus Predicted E3 ubiquitin ligase [Posttrans	85.91
KOG1785		563	consensus Tyrosine kinase negative regulator CBL [	85.6
PF13248		26	zf-ribbon_3: zinc-ribbon domain	85.45
KOG1734		328	consensus Predicted RING-containing E3 ubiquitin l	85.09
KOG1645		463	consensus RING-finger-containing E3 ubiquitin liga	84.96
smart00661		52	RPOL9 RNA polymerase subunit 9.	84.7
COG5220		314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	84.66
PF15227		42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	83.95
KOG1428		3738	consensus Inhibitor of type V adenylyl cyclases/Ne	83.86
KOG0802		543	consensus E3 ubiquitin ligase [Posttranslational m	83.85
KOG4185		296	consensus Predicted E3 ubiquitin ligase [Posttrans	83.73
KOG4275		350	consensus Predicted E3 ubiquitin ligase [Posttrans	83.69
PHA00626		59	hypothetical protein	83.37
COG5175		480	MOT2 Transcriptional repressor [Transcription]	82.62
PF14835		65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	82.23
PF09297		32	zf-NADH-PPase: NADH pyrophosphatase zinc ribbon do	81.33
KOG2660		331	consensus Locus-specific chromosome binding protei	81.0
PF14952		44	zf-tcix: Putative treble-clef, zinc-finger, Zn-bin	80.92
KOG1001		674	consensus Helicase-like transcription factor HLTF/	80.86
KOG4692		489	consensus Predicted E3 ubiquitin ligase [Posttrans	80.64
KOG0823		230	consensus Predicted E3 ubiquitin ligase [Posttrans	80.45
PF12861		85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	80.19

>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

Probab=100.00  E-value=1.7e-71  Score=597.56  Aligned_cols=432  Identities=47%  Similarity=0.905  Sum_probs=392.0

Q ss_pred             EecHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHcCCChhhhhHhhhcChHHHHHHcCCCCCCccccCCCCcccccccc
Q 008581           68 VLREADIKCQQEDDITKVSTVLSISRVDASILLRHYNWSVSKVHDAWFADEDAVRKSVGFLDKPVVEFSNARELTCGICF  147 (561)
Q Consensus        68 vlt~~~i~~~~~~~i~~v~~vl~i~~~~a~~LL~~~~W~~~~l~e~~~~~~~~~~~~~gl~~~~~~~~~~~~~~~C~IC~  147 (561)
                      |++.++|...|.++|..|+++|++++.+|++||.+|.|+.+++++.|+.+++.++..+|+...+    .......|.||+
T Consensus         2 vl~~~~~~~~~~~~i~~~~~~ls~~~~~~~~ll~~~~W~~~kl~~~~~~~~~~~~~~~g~~~~~----~~~~~~~c~ic~   77 (444)
T KOG1815|consen    2 VLTPDDIAALMREDIIEVSDILSLSHAVARILLAHFCWNVEKLLEEWVEDEETGCFFVGLLLWP----KKKGDVQCGICV   77 (444)
T ss_pred             CCchHhhhHHhHhhHHHHHHhhcCCHHHHHHHHHhcCcchHHHHHHHHhcCcchhhhccccccC----CCCccccCCccc
Confidence            6889999999999999999999999999999999999999999999999999999999986653    345578999999


Q ss_pred             ccccCCCeeeccCCCccccccce------eccCCcccccccCCCCCCCcchhhHHhhhCCh-HHHHHHHHHHHHHHHhcC
Q 008581          148 DTYSCDKVVSAACGHPFCRACWR------VNDGPGCLMLRCPDPSCCAAVGQDMIDMLASD-EDKKKYSRYLLRSYVEDN  220 (561)
Q Consensus       148 e~~~~~~~~~l~CgH~fC~~C~~------i~~g~~~~~i~CP~~~C~~~v~~~~i~~ll~~-e~~~ky~~~l~~~~v~~~  220 (561)
                      +.++. .+..+.|||.||..||.      |..+.... |+||..+|...+..+.|..++++ +..++|.+++.++|++.+
T Consensus        78 ~~~~~-~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~-i~cp~~~C~a~v~~~~i~~~~s~~~~~~ky~~~i~~syve~~  155 (444)
T KOG1815|consen   78 ESYDG-EIIGLGCGHPFCPPCWTGYLGTKIHEGEEAK-IKCPAHGCPALVGEDTVEKLVSDKEDKEKYQRYILRSYVEDN  155 (444)
T ss_pred             CCCcc-hhhhcCCCcHHHHHHHHHHhhheeecccccc-ccCCCCCccccCCCceeeeecCCHHHHHHHHHHHHHHHHhcC
Confidence            98865 67888999999999999      66665433 99999999999999999999988 599999999999999999


Q ss_pred             CCceecCCCCCCCeeecccCCCCceeEecCCcccccccCcccCCCCCchhHHHHHHHhHhhhHhHHHHHhcCCCCCCCCc
Q 008581          221 RKTKWCPAPGCEHAIDFAAGSGNFDVSCLCSYNFCWNCTEEAHRPVDCGTVAKWILKNCAESENMNWILANSKPCPKCKR  300 (561)
Q Consensus       221 ~~~~~CP~~~C~~~i~~~~~~~~~~v~C~C~~~fC~~C~~~~H~p~~C~~~~~~~~k~~~~~~~~~wi~~ntK~CP~C~~  300 (561)
                      ..++|||+|+|++++.+. ......|.|.|++.|||.|+.+||.|.+|.....|+.+..+++++.+||..|+++||+|..
T Consensus       156 ~~lkwCP~~~C~~av~~~-~~~~~~v~C~~g~~FC~~C~~~~H~p~~C~~~~~wl~k~~~~se~~~wi~~ntk~CP~c~~  234 (444)
T KOG1815|consen  156 VPLKWCPAPGCGLAVKFG-SLESVEVDCGCGHEFCFACGEESHSPVSCPGAKKWLKKCRDDSETINWILANTKECPKCKV  234 (444)
T ss_pred             CccccCCCCCCCceeecc-CCCccceeCCCCchhHhhccccccCCCcccchHHHHHhhhhhhhhhhhhhccCccCCCccc
Confidence            999999999999999875 4556789999999999999999999999999999999999999999999999999999999


Q ss_pred             ceeecCCCCceEeCCC--CcchhhhhhhcCccCCCCCCCCcccCCcchhhhhcCCchHHHHHHHHHHHHHhhhHHHHHHH
Q 008581          301 PIEKNQGCMHMTCSPP--CKFEFCWLCLGAWSDHGERTGGFYACNRYETAKQQGDYDETERRREMAKNSLEKYTHYYERW  378 (561)
Q Consensus       301 ~IEK~~GCnhm~C~~~--C~~~FCw~C~~~w~~h~~~~g~~y~C~~~~~~~~~~~~~~~~~~~~~~~~~l~ry~~y~~r~  378 (561)
                      +|||++|||||+|. .  |++.|||+|++.|..|+..+  +|.||+|...+..      . .+++++..|.||.|||+||
T Consensus       235 ~iek~~gc~~~~~~-~~~c~~~FCw~Cl~~~~~h~~~~--~~~c~~~~~~~~~------~-~~~~a~~~l~r~~~~~~~~  304 (444)
T KOG1815|consen  235 PIEKDGGCNHMTCK-SASCKHEFCWVCLASLSDHGSST--GYSCNRYVDGKSK------S-ARSKARRSLKRYTHYYNRW  304 (444)
T ss_pred             chhccCCccccccc-cCCcCCeeceeeecccccccccc--eeeeeeeechhhh------h-HHHHHHHHHHHHHHHHhhH
Confidence            99999999999998 6  99999999999999999754  8999999764421      1 4678899999999999999


Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHhhhcCCCchhHHHHHHHHHHHHHHHHHhhcccceecccCccchhhhhHHHHHHHH
Q 008581          379 ASNQSSRQKALADLHQMQTVHLEKLSDIQCTPESQLKFIIDAWLQIVECRRVLKWTYAYGYYLPEHEHAKRQFFEYLQGE  458 (561)
Q Consensus       379 ~~h~~s~~~~~~~l~~~~~~~~~~l~~~~~~~~~~~~fl~~a~~~l~~~r~~L~~sy~~~yy~~~~~~~~~~~fe~~Q~~  458 (561)
                      ++|+.+++++...+......+..++......++++++|+.+++.+|.++|++|+|||+|+||+.  ...++++||++|.+
T Consensus       305 ~~~q~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~e~r~~l~~s~~~~~~~~--~~~~~~~fe~~q~~  382 (444)
T KOG1815|consen  305 MEHQVSLKLEGKLLSKVEEVKKPKLSDSLSLSWIDVQFLRDAGDVLVECRRTLKWTYAYAYYLS--ENNKRNLFEDNQTD  382 (444)
T ss_pred             HhhhhhhhhhhhhHHHHHHHhhhhhhcccCeeeeeeeeechhHHHHHhhhhhhhhhhhhhhhhc--ccchhhhhHHHHHH
Confidence            9999999998877777777777777777677789999999999999999999999999999997  44567999999999


Q ss_pred             HHHhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccccccc
Q 008581          459 AESGLERLHQCAEKELLQFLNDESQSKEFNDFRTKLAGLTSVTKNYFENLVRALENGLADVDSHA  523 (561)
Q Consensus       459 ~e~~~e~L~~~le~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~e~~l~~~~~~~  523 (561)
                      |+..+|.|+..+|.++.     +.+...+..+|.++.++|.++++|+++++..+++||.++.+..
T Consensus       383 ~~~~~e~ls~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  442 (444)
T KOG1815|consen  383 LESAVEPLSSCLEESLK-----DISSETLAEFKQKLTDLTSYVRNRFENLLKHLEEGLEDVGSEA  442 (444)
T ss_pred             HhhhhhhhHHHhccccc-----cCCcccHHHHHhhccccchhhhhHHHHHHHHHHhccccccccc
Confidence            99999999999998776     4555789999999999999999999999999999999987643

>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>smart00647 IBR In Between Ring fingers	Back alignment and domain information

>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule	Back alignment and domain information

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

>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG4367 consensus Predicted Zn-finger protein [Function unknown]	Back alignment and domain information

>smart00647 IBR In Between Ring fingers	Back alignment and domain information

>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A	Back alignment and domain information

>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule	Back alignment and domain information

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional	Back alignment and domain information

>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	Back alignment and domain information

>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	Back alignment and domain information

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]	Back alignment and domain information

>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	Back alignment and domain information

>PF14634 zf-RING_5: zinc-RING finger domain	Back alignment and domain information

>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>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	Back alignment and domain information

>PHA02929 N1R/p28-like protein; Provisional	Back alignment and domain information

>TIGR00599 rad18 DNA repair protein rad18	Back alignment and domain information

>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)

Back alignment and domain information

>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>smart00504 Ubox Modified RING finger domain	Back alignment and domain information

>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]	Back alignment and domain information

>PHA02926 zinc finger-like protein; Provisional	Back alignment and domain information

>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>smart00184 RING Ring finger	Back alignment and domain information

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1	Back alignment and domain information

>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B	Back alignment and domain information

>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

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

>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A	Back alignment and domain information

>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

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

>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]	Back alignment and domain information

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

>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	Back alignment and domain information

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

>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]	Back alignment and domain information

>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines	Back alignment and domain information

>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

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

>PRK00420 hypothetical protein; Validated	Back alignment and domain information

>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4	Back alignment and domain information

>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]	Back alignment and domain information

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1	Back alignment and domain information

>PF13240 zinc_ribbon_2: zinc-ribbon domain	Back alignment and domain information

>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]	Back alignment and domain information

>PF13248 zf-ribbon_3: zinc-ribbon domain	Back alignment and domain information

>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>smart00661 RPOL9 RNA polymerase subunit 9	Back alignment and domain information

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

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

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

>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PHA00626 hypothetical protein	Back alignment and domain information

>COG5175 MOT2 Transcriptional repressor [Transcription]	Back alignment and domain information

>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B	Back alignment and domain information

>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains	Back alignment and domain information

>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]	Back alignment and domain information

>PF14952 zf-tcix: Putative treble-clef, zinc-finger, Zn-binding	Back alignment and domain information

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

>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger	Back alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Alignment Graph	Length	Definition	E-value
Query		561
1wd2_A		60	Solution Structure Of The C-Terminal Ring From A Ri		9e-12

>pdb|1WD2|A Chain A, Solution Structure Of The C-Terminal Ring From A Ring-Ibr- Ring (Triad) Motif Length = 60

Back alignment and structure

Iteration: 1
 Score = 68.6 bits (166), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 34/60 (56%), Positives = 39/60 (65%), Gaps = 4/60 (6%)
Query: 287 WILANSKPCPKCKRPIEKNQGCMHMTC-SPPCKFEFCWLCLGAWSDHGERTGGFYACNRY 345
           WI AN+K CPKC   IEK+ GC HM C +  CK EFCW+CLG W  HG     +Y CNRY
Sbjct: 1   WIAANTKECPKCHVTIEKDGGCNHMVCRNQNCKAEFCWVCLGPWEPHGS---AWYNCNRY 57

PyMOL of 1wd2

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Alignment Graph	Length	Definition	E-value
Query		561
1wd2_A		60	Ariadne-1 protein homolog; ring, IBR, triad, zinc	4e-26
1wim_A		94	KIAA0161 protein; ring finger domain, UBCM4-intera	2e-15
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-10
2ct7_A		86	Ring finger protein 31; IBR, structural genomics,	5e-05
2egp_A		79	Tripartite motif-containing protein 34; ZF-C3HC4 d	1e-04
1jm7_B		117	BARD1, BRCA1-associated ring domain protein 1; rin	1e-04
2ysj_A		63	Tripartite motif-containing protein 31; ring-type	2e-04
2djb_A		72	Polycomb group ring finger protein 6; PCGF6, ring	3e-04
2ysl_A		73	Tripartite motif-containing protein 31; ring-type	3e-04
1bor_A		56	Transcription factor PML; proto-oncogene, nuclear	4e-04
2ecw_A		85	Tripartite motif-containing protein 30; metal bind	5e-04
2y43_A		99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	6e-04
2ckl_A		108	Polycomb group ring finger protein 4; BMI1, RING1B	6e-04
3lrq_A		100	E3 ubiquitin-protein ligase TRIM37; structural gen	7e-04
2yur_A		74	Retinoblastoma-binding protein 6; P53-associated c	7e-04
1jm7_A		112	BRCA1, breast cancer type 1 susceptibility protein	7e-04
2xeu_A		64	Ring finger protein 4; transcription, zinc-finger,	8e-04
3ztg_A		92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	8e-04
2ecj_A		58	Tripartite motif-containing protein 39; TRIM39, ri	8e-04

>1wd2_A Ariadne-1 protein homolog; ring, IBR, triad, zinc finger, ligase; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 60	Back alignment and structure

 Score =  100 bits (250), Expect = 4e-26
 Identities = 34/61 (55%), Positives = 38/61 (62%), Gaps = 4/61 (6%)

Query: 287 WILANSKPCPKCKRPIEKNQGCMHMTCSPP-CKFEFCWLCLGAWSDHGERTGGFYACNRY 345
           WI AN+K CPKC   IEK+ GC HM C    CK EFCW+CLG W  HG     +Y CNRY
Sbjct: 1   WIAANTKECPKCHVTIEKDGGCNHMVCRNQNCKAEFCWVCLGPWEPHGS---AWYNCNRY 57

Query: 346 E 346
            
Sbjct: 58  N 58

PyMOL of 1wd2

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

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

>2ct7_A Ring finger protein 31; IBR, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.4 Length = 86	Back alignment and structure

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

>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	Back alignment and structure

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

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

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

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

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

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

>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	Back alignment and structure

>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	Back alignment and structure

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

>1jm7_A BRCA1, breast cancer type 1 susceptibility protein; ring finger, zinc-binding protein, heterodimer, ubiquitin ligase, antitumor; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 112	Back alignment and structure

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

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

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

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		561
1wd2_A		60	Ariadne-1 protein homolog; ring, IBR, triad, zinc	99.82
1wim_A		94	KIAA0161 protein; ring finger domain, UBCM4-intera	99.4
2ct7_A		86	Ring finger protein 31; IBR, structural genomics,	99.29
2jmo_A		80	Parkin; IBR, E3 ligase, zinc binding domain, RBR;	99.09
4ap4_A		133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.0
3hcs_A		170	TNF receptor-associated factor 6; cross-brace, bet	98.52
1rmd_A		116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.36
3l11_A		115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	98.36
2ecy_A		66	TNF receptor-associated factor 3; metal binding pr	98.36
3ztg_A		92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	98.35
2d8t_A		71	Dactylidin, ring finger protein 146; RNF146, ring	98.34
1t1h_A		78	Gspef-atpub14, armadillo repeat containing protein	98.33
3hct_A		118	TNF receptor-associated factor 6; cross-brace, bet	98.31
1jm7_A		112	BRCA1, breast cancer type 1 susceptibility protein	98.29
2ysl_A		73	Tripartite motif-containing protein 31; ring-type	98.27
3knv_A		141	TNF receptor-associated factor 2; cross-brace, alt	98.25
2yu4_A		94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.24
2ct2_A		88	Tripartite motif protein 32; zinc-finger protein H	98.23
2egp_A		79	Tripartite motif-containing protein 34; ZF-C3HC4 d	98.22
1e4u_A		78	Transcriptional repressor NOT4; gene regulation, t	98.22
3lrq_A		100	E3 ubiquitin-protein ligase TRIM37; structural gen	98.21
3fl2_A		124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	98.21
2yur_A		74	Retinoblastoma-binding protein 6; P53-associated c	98.19
2y43_A		99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	98.15
2ysj_A		63	Tripartite motif-containing protein 31; ring-type	98.13
4ayc_A		138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	98.12
2csy_A		81	Zinc finger protein 183-like 1; ring finger protei	98.11
2ecj_A		58	Tripartite motif-containing protein 39; TRIM39, ri	98.11
2c2l_A		281	CHIP, carboxy terminus of HSP70-interacting protei	98.11
1bor_A		56	Transcription factor PML; proto-oncogene, nuclear	98.08
2djb_A		72	Polycomb group ring finger protein 6; PCGF6, ring	98.07
1z6u_A		150	NP95-like ring finger protein isoform B; structura	98.07
1jm7_B		117	BARD1, BRCA1-associated ring domain protein 1; rin	98.06
1g25_A		65	CDK-activating kinase assembly factor MAT1; ring f	98.05
2ecw_A		85	Tripartite motif-containing protein 30; metal bind	98.03
2ecv_A		85	Tripartite motif-containing protein 5; metal bindi	98.03
2kr4_A		85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	98.03
2kre_A		100	Ubiquitin conjugation factor E4 B; U-box domain, E	98.02
3ng2_A		71	RNF4, snurf, ring finger protein 4; ring domain, E	98.0
3htk_C		267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.0
2ect_A		78	Ring finger protein 126; metal binding protein, st	97.97
2ckl_A		108	Polycomb group ring finger protein 4; BMI1, RING1B	97.95
2xeu_A		64	Ring finger protein 4; transcription, zinc-finger,	97.94
2ea6_A		69	Ring finger protein 4; RNF4, RES4-26, ring domain,	97.94
1wgm_A		98	Ubiquitin conjugation factor E4A; ubiquitinating e	97.93
2ecm_A		55	Ring finger and CHY zinc finger domain- containing	97.93
2kiz_A		69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	97.86
1iym_A		55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	97.82
2l0b_A		91	E3 ubiquitin-protein ligase praja-1; zinc finger,	97.81
2ecn_A		70	Ring finger protein 141; RNF141, ring domain, zinc	97.75
4ic3_A		74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	97.73
2f42_A		179	STIP1 homology and U-box containing protein 1; cha	97.72
2ckl_B		165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	97.69
1chc_A		68	Equine herpes virus-1 ring domain; viral protein;	97.69
1x4j_A		75	Ring finger protein 38; structural genomics, NPPSF	97.63
2ep4_A		74	Ring finger protein 24; zinc binding, ubiquitin, E	97.58
2ecg_A		75	Baculoviral IAP repeat-containing protein 4; BIRC4	97.56
1v87_A		114	Deltex protein 2; ring-H2 domain, zinc-binding dom	97.55
2yho_A		79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	97.38
2ea5_A		68	Cell growth regulator with ring finger domain prot	97.35
2ct7_A		86	Ring finger protein 31; IBR, structural genomics,	97.28
2ecl_A		81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	97.21
2vje_A		64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	97.19
2y1n_A		389	E3 ubiquitin-protein ligase; ligase-transferase co	97.16
2vje_B		63	MDM4 protein; proto-oncogene, phosphorylation, alt	97.09
3t6p_A		345	Baculoviral IAP repeat-containing protein 2; ring,	97.04
4ap4_A		133	E3 ubiquitin ligase RNF4; ligase-signalling protei	96.98
2jmo_A		80	Parkin; IBR, E3 ligase, zinc binding domain, RBR;	96.73
3dpl_R		106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	96.65
2d8s_A		80	Cellular modulator of immune recognition; C-MIR, m	96.32
4a0k_B		117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	95.83
1wd2_A		60	Ariadne-1 protein homolog; ring, IBR, triad, zinc	95.15
1v92_A		46	NSFL1 cofactor P47; 3-helix bundle, recombination;	94.66
2bay_A		61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	94.42
2dal_A		62	Protein KIAA0794; FAS associted factor 1, UBA-like	93.25
3k1l_B		381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	92.88
2jun_A		101	Midline-1; B-BOX, TRIM, ring finger, alternative s	92.69
2jun_A		101	Midline-1; B-BOX, TRIM, ring finger, alternative s	91.28
2dam_A		67	ETEA protein; KIAA0887, UBA-like domain, structura	90.51
2dzl_A		66	Protein FAM100B; UBA-like domain, structural genom	90.02
1wj7_A		104	Hypothetical protein (RSGI RUH-015); UBA domain, u	89.66
2ct0_A		74	Non-SMC element 1 homolog; ring domain, structural	89.32
3vk6_A		101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	88.81
3e21_A		45	HFAF1, FAS-associated factor 1; UBA, alternative s	86.0
3lrq_A		100	E3 ubiquitin-protein ligase TRIM37; structural gen	85.38
3vk6_A		101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	83.58
1g25_A		65	CDK-activating kinase assembly factor MAT1; ring f	83.43
1z96_A		40	DNA-damage, UBA-domain protein MUD1; ubiquitin, th	83.39
2jne_A		101	Hypothetical protein YFGJ; zinc fingers, two zinc,	82.43
2di0_A		71	Activating signal cointegrator 1 complex subunit 2	81.82
2jrp_A		81	Putative cytoplasmic protein; two-zinc binding pro	81.43
1x4j_A		75	Ring finger protein 38; structural genomics, NPPSF	80.89

>1wd2_A Ariadne-1 protein homolog; ring, IBR, triad, zinc finger, ligase; NMR {Homo sapiens} SCOP: g.44.1.1	Back alignment and structure

Probab=99.82  E-value=5.8e-22  Score=151.65  Aligned_cols=57  Identities=60%  Similarity=1.448  Sum_probs=53.3

Q ss_pred             HHHhcCCCCCCCCcceeecCCCCceEeCCC--CcchhhhhhhcCccCCCCCCCCcccCCcchh
Q 008581          287 WILANSKPCPKCKRPIEKNQGCMHMTCSPP--CKFEFCWLCLGAWSDHGERTGGFYACNRYET  347 (561)
Q Consensus       287 wi~~ntK~CP~C~~~IEK~~GCnhm~C~~~--C~~~FCw~C~~~w~~h~~~~g~~y~C~~~~~  347 (561)
                      ||.+++|+||+|+.+|||++|||||+|+ .  |+++|||+|+++|..|+.   .+|+||+|++
T Consensus         1 wi~~~~k~CP~C~~~Iek~~GCnhmtC~-~~~C~~~FCw~C~~~~~~~~~---~~y~C~~y~~   59 (60)
T 1wd2_A            1 WIAANTKECPKCHVTIEKDGGCNHMVCR-NQNCKAEFCWVCLGPWEPHGS---AWYNCNRYNE   59 (60)
T ss_dssp             CCCCCCCCCTTTCCCCSSCCSCCSSSCC-SSGGGSCCSSSSCSCSGGGGT---SSSSSCSCCC
T ss_pred             CccccceECcCCCCeeEeCCCCCcEEEC-CCCcCCEEeeCcCCCcccCCC---ccccCCCccc
Confidence            7888999999999999999999999998 7  999999999999999985   6899999963

PyMOL of 1wd2

>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	Back alignment and structure

>2ct7_A Ring finger protein 31; IBR, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.4	Back alignment and structure

>2jmo_A Parkin; IBR, E3 ligase, zinc binding domain, RBR; NMR {Homo sapiens}	Back alignment and structure

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

>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}	Back alignment and structure

>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	Back alignment and structure

>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}	Back alignment and structure

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

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

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

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

>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	Back alignment and structure

>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	Back alignment and structure

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

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

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

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

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

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

>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}	Back alignment and structure

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

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

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

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

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

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

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

>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	Back alignment and structure

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

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

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

>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	Back alignment and structure

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

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

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

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

>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	Back alignment and structure

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

>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}	Back alignment and structure

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

>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	Back alignment and structure

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

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

>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	Back alignment and structure

>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	Back alignment and structure

>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}	Back alignment and structure

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

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

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

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

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

>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	Back alignment and structure

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

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

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

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

>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	Back alignment and structure

>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	Back alignment and structure

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

>2ct7_A Ring finger protein 31; IBR, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.4	Back alignment and structure

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

>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	Back alignment and structure

>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*	Back alignment and structure

>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*	Back alignment and structure

>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	Back alignment and structure

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

>2jmo_A Parkin; IBR, E3 ligase, zinc binding domain, RBR; NMR {Homo sapiens}	Back alignment and structure

>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	Back alignment and structure

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

>4a0k_B E3 ubiquitin-protein ligase RBX1; ligase-DNA-binding protein-DNA complex, DNA-binding protein- complex; HET: DNA 3DR; 5.93A {Mus musculus}	Back alignment and structure

>1wd2_A Ariadne-1 protein homolog; ring, IBR, triad, zinc finger, ligase; NMR {Homo sapiens} SCOP: g.44.1.1	Back alignment and structure

>1v92_A NSFL1 cofactor P47; 3-helix bundle, recombination; NMR {Rattus norvegicus} SCOP: a.5.2.3	Back alignment and structure

>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	Back alignment and structure

>2dal_A Protein KIAA0794; FAS associted factor 1, UBA-like domain, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

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

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}	Back alignment and structure

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}	Back alignment and structure

>2dam_A ETEA protein; KIAA0887, UBA-like domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}	Back alignment and structure

>2dzl_A Protein FAM100B; UBA-like domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}	Back alignment and structure

>1wj7_A Hypothetical protein (RSGI RUH-015); UBA domain, ubiquitin associated domain, structural genomics, riken structural genomics/proteomics initiative; NMR {Mus musculus} SCOP: a.5.2.1	Back alignment and structure

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

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus}	Back alignment and structure

>3e21_A HFAF1, FAS-associated factor 1; UBA, alternative splicing, apoptosis, nucleus, phosphoprotein; 1.73A {Homo sapiens}	Back alignment and structure

>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}	Back alignment and structure

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus}	Back alignment and structure

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

>1z96_A DNA-damage, UBA-domain protein MUD1; ubiquitin, three-helix bundle, protein transport; 1.80A {Schizosaccharomyces pombe} SCOP: a.5.2.1	Back alignment and structure

>2jne_A Hypothetical protein YFGJ; zinc fingers, two zinc, structural genomics, PSI-2, protein structure initiative; NMR {Escherichia coli} SCOP: g.41.18.1	Back alignment and structure

>2di0_A Activating signal cointegrator 1 complex subunit 2; ASCC2, CUE domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.4	Back alignment and structure

>2jrp_A Putative cytoplasmic protein; two-zinc binding protein, structural genomics, PSI-2, protein structure initiative; NMR {Salmonella typhimurium LT2}	Back alignment and structure

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

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Alignment Graph	Length	Definition	E-value
Query		561
d1wd2a_		60	g.44.1.1 (A:) Ariadne-1 protein homolog {Human (Ho	7e-22
d2ct7a1		73	g.44.1.4 (A:8-80) Ring finger protein 31 {Human (H	3e-14
d2ct7a1		73	g.44.1.4 (A:8-80) Ring finger protein 31 {Human (H	5e-07
d1wima_		94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	7e-10
d1rmda2		86	g.44.1.1 (A:1-86) V(D)J recombination activating p	5e-04

>d1wd2a_ g.44.1.1 (A:) Ariadne-1 protein homolog {Human (Homo sapiens) [TaxId: 9606]} Length = 60	Back information, alignment and structure


class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Ariadne-1 protein homolog
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 86.9 bits (215), Expect = 7e-22
 Identities = 34/61 (55%), Positives = 39/61 (63%), Gaps = 4/61 (6%)

Query: 287 WILANSKPCPKCKRPIEKNQGCMHMTC-SPPCKFEFCWLCLGAWSDHGERTGGFYACNRY 345
           WI AN+K CPKC   IEK+ GC HM C +  CK EFCW+CLG W  HG     +Y CNRY
Sbjct: 1   WIAANTKECPKCHVTIEKDGGCNHMVCRNQNCKAEFCWVCLGPWEPHG---SAWYNCNRY 57

Query: 346 E 346
            
Sbjct: 58  N 58

PyMOL of d1wd2a_

>d2ct7a1 g.44.1.4 (A:8-80) Ring finger protein 31 {Human (Homo sapiens) [TaxId: 9606]} Length = 73	Back information, alignment and structure

>d2ct7a1 g.44.1.4 (A:8-80) Ring finger protein 31 {Human (Homo sapiens) [TaxId: 9606]} Length = 73	Back information, alignment and structure

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]} Length = 94	Back information, alignment and structure

>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	Back information, alignment and structure

Homologous Domains Detected by HHsearch

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

ID	Alignment Graph	Length	Definition	Probability
Query		561
d1wd2a_		60	Ariadne-1 protein homolog {Human (Homo sapiens) [T	99.81
d1wima_		94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	99.27
d2ct7a1		73	Ring finger protein 31 {Human (Homo sapiens) [TaxI	99.09
d2ct7a1		73	Ring finger protein 31 {Human (Homo sapiens) [TaxI	98.99
d1jm7a_		103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	98.44
d1t1ha_		78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.27
d2c2la2		80	STIP1 homology and U box-containing protein 1, STU	98.25
d1rmda2		86	V(D)J recombination activating protein 1 (RAG1), d	98.24
d1ur6b_		52	Not-4 N-terminal RING finger domain {Human (Homo s	98.23
d1bora_		56	Acute promyelocytic leukaemia proto-oncoprotein PM	98.2
d1jm7b_		97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.09
d1fbva4		79	CBL {Human (Homo sapiens) [TaxId: 9606]}	98.09
d1g25a_		65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	97.91
d1iyma_		55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	97.77
d1chca_		68	Immediate early protein, IEEHV {Equine herpesvirus	97.71
d2baya1		56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	97.65
d1v87a_		114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	97.41
d1wgma_		98	Ubiquitin conjugation factor E4A {Human (Homo sapi	97.35
d3dplr1		88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	96.27
d1vyxa_		60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	96.15
d1wd2a_		60	Ariadne-1 protein homolog {Human (Homo sapiens) [T	95.18
d1v92a_		46	NSFL1 (p97 ATPase) cofactor p47, UBA-like domain {	94.75
d2csva1		59	Tripartite motif-containing protein 29 {Human (Hom	86.42
d1fbva4		79	CBL {Human (Homo sapiens) [TaxId: 9606]}	85.36
d1chca_		68	Immediate early protein, IEEHV {Equine herpesvirus	84.13
d1g25a_		65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	84.0
d1jm7b_		97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	82.88
d1bora_		56	Acute promyelocytic leukaemia proto-oncoprotein PM	82.19

>d1wd2a_ g.44.1.1 (A:) Ariadne-1 protein homolog {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Ariadne-1 protein homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.81  E-value=5.8e-22  Score=149.56  Aligned_cols=58  Identities=59%  Similarity=1.422  Sum_probs=53.0

Q ss_pred             HHHhcCCCCCCCCcceeecCCCCceEeC-CCCcchhhhhhhcCccCCCCCCCCcccCCcchh
Q 008581          287 WILANSKPCPKCKRPIEKNQGCMHMTCS-PPCKFEFCWLCLGAWSDHGERTGGFYACNRYET  347 (561)
Q Consensus       287 wi~~ntK~CP~C~~~IEK~~GCnhm~C~-~~C~~~FCw~C~~~w~~h~~~~g~~y~C~~~~~  347 (561)
                      ||..|||+||+|+.+|||++|||||+|+ +.|+++|||+|+++|..|+.   ++|+||+|++
T Consensus         1 wi~~ntK~CP~C~~~ieK~~GCnhM~C~~~~C~~~fCw~C~~~~~~~~~---~~~~C~~~~e   59 (60)
T d1wd2a_           1 WIAANTKECPKCHVTIEKDGGCNHMVCRNQNCKAEFCWVCLGPWEPHGS---AWYNCNRYNE   59 (60)
T ss_dssp             CCCCCCCCCTTTCCCCSSCCSCCSSSCCSSGGGSCCSSSSCSCSGGGGT---SSSSSCSCCC
T ss_pred             CchhcCcCCCCCCCeEEECCCCCCeEeCCCCCCCeEECCCCCccccCCC---CCCCCcCCcc
Confidence            7889999999999999999999999996 24999999999999999875   7899999963

PyMOL of d1wd2a_

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d2ct7a1 g.44.1.4 (A:8-80) Ring finger protein 31 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d2ct7a1 g.44.1.4 (A:8-80) Ring finger protein 31 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]}	Back information, alignment and structure

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

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

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]}	Back information, alignment and structure

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]}	Back information, alignment and structure

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}	Back information, alignment and structure

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d1wgma_ g.44.1.2 (A:) Ubiquitin conjugation factor E4A {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}	Back information, alignment and structure

>d1wd2a_ g.44.1.1 (A:) Ariadne-1 protein homolog {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1v92a_ a.5.2.3 (A:) NSFL1 (p97 ATPase) cofactor p47, UBA-like domain {Rat (Rattus norvegicus) [TaxId: 10116]}	Back information, alignment and structure

>d2csva1 g.43.1.1 (A:8-66) Tripartite motif-containing protein 29 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]}	Back information, alignment and structure

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

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