Citrus Sinensis ID: 007785

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-------570-------580-------590

MEDSFSGDEDYYYSDRDSLDGLENDEADLQWVPPKGSSTKVITRESLLAAQKEDLRRVMELLSLREHHARTLLIHYRWDVEKLLAVLVENGKESLFNEAGVTVIDDADPMLPLSSTVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEAVVRNLVSKKHPNLAEKFERFLLESFIEDNKMVKWCPSTPHCGNAIRVEEVEVCEVECACGAQFCFSCLSEAHSPCSCSMWDLWAKKCRDESETVNWITVHTKPCPKCHKPVEKNGGCNLVSCICGQAFCWLCGGATGRDHTWSRIAGHSCGRYKEDKAKKTERAKRELYRYMHYHNRYKAHTDSFKLESKLKETVLEKVSISEERESRLRDFSWVTNGLYRLFRSRRVLSYSYPFAFYMFGEELFKDEMTDEEREIKQHLFEDQQQQLEANVEKLSKFLEEPFDQYPDDKVMEIRMQVINLSVITDTLCKKMYECIENDLLGCLQLGTHNIARYQSKGIERASELSTCWTSVNTTTDKRQRSDADTSGGTLEHDRPSGSRSSDDSGCSSQKRVRKEDCLSGRFDLNLPAEVIDRN

cccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHccccHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHcccccccccccccccccccHHHHHHHcccccHHHHHHHHHHHHHHHHHcccccEEcccccccccEEEEccccccccccccccccccccccccccccccccHHHHHHHHccHHHHHHHHHccccccccccccEEEcccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHccccEEEEccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHccccccccccccccHHHHccc

ccccccccccccccccccccccccccccccccccccccEEEccHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHccccHHHHHHHHHcccHHHHHHHcccccccccccccccccccEccEEEcccccHccccccccccHHHHHHHHHHHHHHcccccEEEEcccccccccccHHHHHHHHccccHHHHHHHHHHHHHHHHccccccEEcccccccccEEEEccccccEEEEEcccEEEEcccccccccccHHHHHHHHHHcccccccHHHHHHcccccccccccEEccccccEEEEEcccEEEEEEccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHccccccHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccHHcHccccccEEcccccHHHEccc

medsfsgdedyyysdrdsldglendeadlqwvppkgsstkvITRESLLAAQKEDLRRVMELLSLREHHARTLLIHYRWDVEKLLAVLVENGKeslfneagvtviddadpmlplsstvmcdicmeevagdkatkmdcghcfcndcwtEHFIVKINEGQSKRIRCMAHKCNAICDEAVVRNLVSKKHPNLAEKFERFLLESFiednkmvkwcpstphcgnairVEEVEVCevecacgaqfcfsclseahspcscsmwdlwakkcrdesetvnwitvhtkpcpkchkpveknggcnlvscicgqafcwlcggatgrdhtwsriaghscgrykedkAKKTERAKRELYRYMHYHNrykahtdsfKLESKLKETVLEKVSISEERESRLRDFSWVTNGLYRLFRSrrvlsysypfaFYMFGEELFKDEMTDEEREIKQHLFEDQQQQLEANVEKLSKFLeepfdqypddkVMEIRMQVINLSVITDTLCKKMYECIENDLLGCLQLGTHNIARYQSKGIERASELSTcwtsvntttdkrqrsdadtsggtlehdrpsgsrssddsgcssqkrvrkedclsgrfdlnlpaevidrn

medsfsgdedyyysDRDSLDGLEndeadlqwvppkgsstkvitRESLLAAQKEDLRRVMELLSLREHHARTLLIHYRWDVEKLLAVLVENGKESLFNEAGVTVIDDADPMLPLSSTVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEAVVRNLVSKKHPNLAEKFERFLLESFIEDNKMVKWCPSTPHCGNAIRVEEVEVCEVECACGAQFCFSCLSEAHSPCSCSMWDLWAKKCRDESETVNWITVHTKPCPKCHKPVEKNGGCNLVSCICGQAFCWLCGGATGRDHTWsriaghscgrykedkakkterAKRELYRYMHYHnrykahtdsfklESKLKETVlekvsiseeresrlrdfswvtnglyrLFRSRRVLSYSYPFAFYMFGEELFKDEMTDEEREIKQHLFEDQQQQLEANVEKLSKFLEEPFDQYPDDKVMEIRMQVINLSVITDTLCKKMYECIENDLLGCLQLGTHNIARYQSKGIERASELSTCWtsvntttdkrqrsdadtsggtlehdrpsgsrssddsgcssqkrvrkedclsgrfdlnlpaevidrn

MEDSFSGDEDYYYSDRDSLDGLENDEADLQWVPPKGSSTKVITRESLLAAQKEDLRRVMELLSLREHHARTLLIHYRWDVEKLLAVLVENGKESLFNEAGVTVIDDADPMLPLSSTVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEAVVRNLVSKKHPNLAEKFERFLLESFIEDNKMVKWCPSTPHCGNAIRveevevcevecACGAQFCFSCLSEAHSPCSCSMWDLWAKKCRDESETVNWITVHTKPCPKCHKPVEKNGGCNLVSCICGQAFCWLCGGATGRDHTWSRIAGHSCGRYKEDKAKKTERAKRELYRYMHYHNRYKAHTDSFKLESKLKETVLEKVSISEERESRLRDFSWVTNGLYRLFRSRRVLSYSYPFAFYMFGEELFKDEMTDEEREIKQHLFEDQQQQLEANVEKLSKFLEEPFDQYPDDKVMEIRMQVINLSVITDTLCKKMYECIENDLLGCLQLGTHNIARYQSKGIERASELSTCWTSVNTTTDKRQRSDADTSGGTLEHDRPsgsrssddsgcssQKRVRKEDCLSGRFDLNLPAEVIDRN

**********************************************LLAAQKEDLRRVMELLSLREHHARTLLIHYRWDVEKLLAVLVENGKESLFNEAGVTVIDDADPMLPLSSTVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEAVVRNLVSKKHPNLAEKFERFLLESFIEDNKMVKWCPSTPHCGNAIRVEEVEVCEVECACGAQFCFSCLSEAHSPCSCSMWDLWAKKCRDESETVNWITVHTKPCPKCHKPVEKNGGCNLVSCICGQAFCWLCGGATGRDHTWSRIAGHSCGRY************RELYRYMHYHNRYKAHTDSFKLE**L**TVL***********RLRDFSWVTNGLYRLFRSRRVLSYSYPFAFYMFGEELFK*******************************FLEEPFDQYPDDKVMEIRMQVINLSVITDTLCKKMYECIENDLLGCLQLGTHNIARYQSKGIERASELSTCWTSV***************************************************************

***SFSGDEDYYYSDRDSLDGLENDEAD**WVPPKGSSTKVITRESLLAAQKEDLRRVMELLSLREHHARTLLIHYRWDVEKLLAVLVENGKESLFNEAGV**************TVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEAVVRNLVSKKHPNLAEKFERFLLESFIEDNKMVKWCPSTPHCGNAIRVEEVEVCEVECACGAQFCFSCLSEAHSPCSCSMWDLWAKKCRDESETVNWITVHTKPCPKCHKPVEKNGGCNLVSCICGQAFCWLCGGATGRDHTWSRIAGHSCGRYKEDKAKKTERAKRELYRYMHYHNRYKAHTDSFKLESKLK******************DFSWVTNGLYRLFRSRRVLSYSYPFAFYMFGEELFKDEMTDEEREIKQHLFEDQQQQLEANVEKLSKFLEEPFDQYPDDKVMEIRMQVINLSVITDTLCKKMYECIENDLLGCLQLG*************************************************************************GRFDLNLPAE*****

*********DYYYSDRDSLDGLENDEADLQWVPPKGSSTKVITRESLLAAQKEDLRRVMELLSLREHHARTLLIHYRWDVEKLLAVLVENGKESLFNEAGVTVIDDADPMLPLSSTVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEAVVRNLVSKKHPNLAEKFERFLLESFIEDNKMVKWCPSTPHCGNAIRVEEVEVCEVECACGAQFCFSCLSEAHSPCSCSMWDLWAKKCRDESETVNWITVHTKPCPKCHKPVEKNGGCNLVSCICGQAFCWLCGGATGRDHTWSRIAGHSCGRYKEDKAKKTERAKRELYRYMHYHNRYKAHTDSFKLESKLKETVLEKVSISEERESRLRDFSWVTNGLYRLFRSRRVLSYSYPFAFYMFGEELFKDEMTDEEREIKQHLFEDQQQQLEANVEKLSKFLEEPFDQYPDDKVMEIRMQVINLSVITDTLCKKMYECIENDLLGCLQLGTHNIARYQSKGIERASELSTCWTSVNT*****************************************EDCLSGRFDLNLPAEVIDRN

**********************************KGSSTKVITRESLLAAQKEDLRRVMELLSLREHHARTLLIHYRWDVEKLLAVLVENGKESLFNEAGVTVID*A**M**LSSTVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEAVVRNLVSKKHPNLAEKFERFLLESFIEDNKMVKWCPSTPHCGNAIRVEEVEVCEVECACGAQFCFSCLSEAHSPCSCSMWDLWAKKCRDESETVNWITVHTKPCPKCHKPVEKNGGCNLVSCICGQAFCWLCGGATGRDHTWSRIAGHSCGRYKEDKAKKTERAKRELYRYMHYHNRYKAHTDSFKLESKLKETVLEKVSISEERESRLRDFSWVTNGLYRLFRSRRVLSYSYPFAFYMFGEELFKDEMTDEEREIKQHLFEDQQQQLEANVEKLSKFLEEPFDQYPDDKVMEIRMQVINLSVITDTLCKKMYECIENDLLGCLQLGTHNIARYQSKGIERASELS***************************************************CLSGRFDLNLPAEVIDRN

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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		590	2.2.26 [Sep-21-2011]
Q949V6		597	Probable E3 ubiquitin-pro	yes	no	0.996	0.984	0.704	0.0
Q84RR2		593	Probable E3 ubiquitin-pro	no	no	0.988	0.983	0.707	0.0
Q9LVX0		537	Probable E3 ubiquitin-pro	no	no	0.840	0.923	0.628	0.0
Q9LVW9		529	Putative E3 ubiquitin-pro	no	no	0.847	0.945	0.617	0.0
Q94981		503	Protein ariadne-1 OS=Dros	yes	no	0.669	0.785	0.337	1e-65
Q6NW85		533	E3 ubiquitin-protein liga	yes	no	0.696	0.771	0.331	2e-64
B1H1E4		529	E3 ubiquitin-protein liga	yes	no	0.696	0.776	0.333	2e-64
Q32NS4		529	E3 ubiquitin-protein liga	N/A	no	0.696	0.776	0.333	6e-64
Q9Y4X5		557	E3 ubiquitin-protein liga	yes	no	0.696	0.737	0.333	7e-64
Q9Z1K5		555	E3 ubiquitin-protein liga	yes	no	0.696	0.740	0.333	7e-64

>sp\|Q949V6\|ARI1_ARATH Probable E3 ubiquitin-protein ligase ARI1 OS=Arabidopsis thaliana GN=ARI1 PE=2 SV=1	Back alignment and function desciption

 Score =  876 bits (2263), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 422/599 (70%), Positives = 503/599 (83%), Gaps = 11/599 (1%)

Query: 1   MEDSFSGDED--YYYSDRDSLDGLENDEADLQWVPPKGSSTKVITRESLLAAQKEDLRRV 58
           M+D FS +E+  YY SD+DSLDG++N+E++LQ +  K S+T+VIT+ESLLAAQ+EDL RV
Sbjct: 1   MDDYFSAEEEACYYSSDQDSLDGIDNEESELQPLSSKRSNTQVITQESLLAAQREDLLRV 60

Query: 59  MELLSLREHHARTLLIHYRWDVEKLLAVLVENGKESLFNEAGVTVIDD--ADPMLPLSST 116
           MELLS++EHHARTLLIHY+WDVEKL AV VE GK+SLF+ AGVTV D    +   P SS 
Sbjct: 61  MELLSIKEHHARTLLIHYQWDVEKLFAVFVEKGKDSLFSGAGVTVFDYQYGNSSFPQSSQ 120

Query: 117 VMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEAV 176
           + CD+CME++ GD  T+MDCGHCFCN+CWTEHF V+INEGQSKRIRCMAH+CNAICDE +
Sbjct: 121 MSCDVCMEDLPGDHMTRMDCGHCFCNNCWTEHFTVQINEGQSKRIRCMAHQCNAICDEDI 180

Query: 177 VRNLVSKKHPNLAEKFERFLLESFIEDNKMVKWCPSTPHCGNAIRVEEVEVCEVECACGA 236
           VR+LVSKK P+LA KF+R+LLES+IEDN+MVKWCPSTPHCGNAIR E+ ++CEVEC+CG 
Sbjct: 181 VRSLVSKKRPDLAAKFDRYLLESYIEDNRMVKWCPSTPHCGNAIRAEDDKLCEVECSCGL 240

Query: 237 QFCFSCLSEAHSPCSCSMWDLWAKKCRDESETVNWITVHTKPCPKCHKPVEKNGGCNLVS 296
           QFCFSCL +AHSPCSC MW+LW KKCRDESET+NWITVHTK CPKC+KPVEKNGGCNLV 
Sbjct: 241 QFCFSCLCQAHSPCSCLMWELWRKKCRDESETINWITVHTKLCPKCYKPVEKNGGCNLVR 300

Query: 297 CICGQAFCWLCGGATGRDHTWSRIAGHSCGRYKEDKAKKTERAKRELYRYMHYHNRYKAH 356
           CICGQ FCWLCGGATG DHT+  IAGHSCGRY++DK K+ ERAKR+L RY HYH+RYKAH
Sbjct: 301 CICGQCFCWLCGGATGSDHTYRSIAGHSCGRYQDDKEKQMERAKRDLNRYTHYHHRYKAH 360

Query: 357 TDSFKLESKLKETVLEKVSISEERESRLRDFSWVTNGLYRLFRSRRVLSYSYPFAFYMFG 416
           TDS KLE KL++T+ EKVS SE+RE +L+DFSWVTNGL RLFRSRRVLSYSY FA+YMFG
Sbjct: 361 TDSSKLEDKLRDTIHEKVSKSEKRELKLKDFSWVTNGLDRLFRSRRVLSYSYAFAYYMFG 420

Query: 417 EELFKDEMTDEEREIKQHLFEDQQQQLEANVEKLSKFLEEPFDQYPDDKVMEIRMQVINL 476
           EE+FKDEMT EEREIK++LFEDQQQQLE+NVEKLS+FLEEPFD++ +DKVM IR+Q+INL
Sbjct: 421 EEMFKDEMTPEEREIKKNLFEDQQQQLESNVEKLSQFLEEPFDEFSNDKVMAIRIQIINL 480

Query: 477 SVITDTLCKKMYECIENDLLGCLQLGTHNIARYQSKGIERASELSTCWTSVNTTTDKRQR 536
           SV  DTLCKKMYECIENDLLG LQLG HNI+ Y+SKGIE+A++    W S +   DK Q 
Sbjct: 481 SVAVDTLCKKMYECIENDLLGSLQLGIHNISPYRSKGIEQAAQFYASWNSKD--ADKFQP 538

Query: 537 SDADTSGGTLEHDRPSGSRSSDDSGC-SSQKRVRKEDCLSGR----FDLNLPAEVIDRN 590
            D+ TSG T   ++ SGSRSS+D+ C SSQKR +KE           DLNLPA+ +D+N
Sbjct: 539 LDSGTSGVTSRPEQASGSRSSEDTICSSSQKRPKKEGSFLNNKVTLLDLNLPADFVDQN 597

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\|Q84RR2\|ARI2_ARATH Probable E3 ubiquitin-protein ligase ARI2 OS=Arabidopsis thaliana GN=ARI2 PE=2 SV=1	Back alignment and function description

>sp\|Q9LVX0\|ARI3_ARATH Probable E3 ubiquitin-protein ligase ARI3 OS=Arabidopsis thaliana GN=ARI3 PE=2 SV=1	Back alignment and function description

>sp\|Q9LVW9\|ARI4_ARATH Putative E3 ubiquitin-protein ligase ARI4 OS=Arabidopsis thaliana GN=ARI4 PE=5 SV=2	Back alignment and function description

>sp\|Q94981\|ARI1_DROME Protein ariadne-1 OS=Drosophila melanogaster GN=ari-1 PE=1 SV=2	Back alignment and function description

>sp\|Q6NW85\|ARI1L_DANRE E3 ubiquitin-protein ligase arih1l OS=Danio rerio GN=arih1l PE=2 SV=1	Back alignment and function description

>sp\|B1H1E4\|ARI1_XENTR E3 ubiquitin-protein ligase arih1 OS=Xenopus tropicalis GN=arih1 PE=2 SV=1	Back alignment and function description

>sp\|Q32NS4\|ARI1_XENLA E3 ubiquitin-protein ligase arih1 OS=Xenopus laevis GN=arih1 PE=2 SV=1	Back alignment and function description

>sp\|Q9Y4X5\|ARI1_HUMAN E3 ubiquitin-protein ligase ARIH1 OS=Homo sapiens GN=ARIH1 PE=1 SV=2	Back alignment and function description

>sp\|Q9Z1K5\|ARI1_MOUSE E3 ubiquitin-protein ligase ARIH1 OS=Mus musculus GN=Arih1 PE=2 SV=3	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		590
255556141		592	Protein ariadne-1, putative [Ricinus com	0.996	0.993	0.823	0.0
449455196		589	PREDICTED: probable E3 ubiquitin-protein	0.996	0.998	0.795	0.0
225428572		589	PREDICTED: probable E3 ubiquitin-protein	0.996	0.998	0.790	0.0
224103473		591	predicted protein [Populus trichocarpa]	0.983	0.981	0.781	0.0
359475257		573	PREDICTED: probable E3 ubiquitin-protein	0.969	0.998	0.769	0.0
356538831		595	PREDICTED: probable E3 ubiquitin-protein	0.996	0.988	0.733	0.0
356538827		580	PREDICTED: probable E3 ubiquitin-protein	0.976	0.993	0.735	0.0
297836632		598	hypothetical protein ARALYDRAFT_480784 [	0.998	0.984	0.711	0.0
18418437		597	putative E3 ubiquitin-protein ligase ARI	0.996	0.984	0.704	0.0
356545317		580	PREDICTED: probable E3 ubiquitin-protein	0.976	0.993	0.742	0.0

>gi\|255556141\|ref\|XP_002519105.1\| Protein ariadne-1, putative [Ricinus communis] gi\|223541768\|gb\|EEF43316.1\| Protein ariadne-1, putative [Ricinus communis]	Back alignment and taxonomy information

 Score =  979 bits (2530), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 489/594 (82%), Positives = 538/594 (90%), Gaps = 6/594 (1%)

Query: 1   MEDSFSGDEDYYYS--DRDSLDGLENDEADLQWVPPKGSSTKVITRESLLAAQKEDLRRV 58
           MED    DE+YYYS  DR+SLDG+EN+E+D  W PPKG +TK+IT+ESLLAAQ+EDLRRV
Sbjct: 1   MEDYGGSDEEYYYSSDDRESLDGIENEESDFHWAPPKGPTTKIITKESLLAAQREDLRRV 60

Query: 59  MELLSLREHHARTLLIHYRWDVEKLLAVLVENGKESLFNEAGVTVIDDADPMLPL--SST 116
           MELLSLREHHARTLLIHYRWDVE+L AV VE GK  LF EAGVT ++  D   PL  SS 
Sbjct: 61  MELLSLREHHARTLLIHYRWDVERLFAVFVEKGKTFLFTEAGVTGVEQLDRDAPLTSSSI 120

Query: 117 VMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEAV 176
           +MCDIC+E+V G++AT+MDC HCFCNDCWTEHFIVKINEGQS+RI+CMAHKCNAICDEAV
Sbjct: 121 IMCDICIEDVPGNRATRMDCSHCFCNDCWTEHFIVKINEGQSRRIQCMAHKCNAICDEAV 180

Query: 177 VRNLVSKKHPNLAEKFERFLLESFIEDNKMVKWCPSTPHCGNAIRVEEVEVCEVECACGA 236
           VRNLVSK+HP+LAE+F+RFLLES+IEDNKMVKWCPS PHCGNAIRVEE E CEVEC+CG 
Sbjct: 181 VRNLVSKRHPDLAERFDRFLLESYIEDNKMVKWCPSAPHCGNAIRVEEDECCEVECSCGL 240

Query: 237 QFCFSCLSEAHSPCSCSMWDLWAKKCRDESETVNWITVHTKPCPKCHKPVEKNGGCNLVS 296
           QFCFSCLSEAHSPCSC MW+LW+KKCRDESETVNWITVHTKPCPKCHKPVEKNGGCNLVS
Sbjct: 241 QFCFSCLSEAHSPCSCLMWELWSKKCRDESETVNWITVHTKPCPKCHKPVEKNGGCNLVS 300

Query: 297 CICGQAFCWLCGGATGRDHTWSRIAGHSCGRYKEDKAKKTERAKRELYRYMHYHNRYKAH 356
           CICGQAFCWLCGGATG+DHTWSRI+GHSCGRYKED+ KKTERAKR+LYRYMHYHNRYKAH
Sbjct: 301 CICGQAFCWLCGGATGKDHTWSRISGHSCGRYKEDREKKTERAKRDLYRYMHYHNRYKAH 360

Query: 357 TDSFKLESKLKETVLEKVSISEERESRLRDFSWVTNGLYRLFRSRRVLSYSYPFAFYMFG 416
           TDSFKLE+KLKET+LEKVSISEE+ESRLRDFSWVTNGL RLFRSRRVLSYSYPFAFYMFG
Sbjct: 361 TDSFKLETKLKETILEKVSISEEKESRLRDFSWVTNGLCRLFRSRRVLSYSYPFAFYMFG 420

Query: 417 EELFKDEMTDEEREIKQHLFEDQQQQLEANVEKLSKFLEEPFDQYPDDKVMEIRMQVINL 476
           +ELF DEMT EEREIKQ+LFEDQQQQLE+NVEKLSKFLEEPF+QY DDKVMEIRMQVINL
Sbjct: 421 DELFNDEMTVEEREIKQNLFEDQQQQLESNVEKLSKFLEEPFEQYTDDKVMEIRMQVINL 480

Query: 477 SVITDTLCKKMYECIENDLLGCLQLGTHNIARYQSKGIERASELSTCWTSVNTTTDKRQR 536
             ITDTLCKKMYECIENDLLG LQLGTHNIA Y+SKGIE+ASELS+CW++    TDK   
Sbjct: 481 CAITDTLCKKMYECIENDLLGSLQLGTHNIAPYKSKGIEKASELSSCWSNKVNATDKCLP 540

Query: 537 SDADTSGGTLEHDRPSGSRSSDDSGCSSQKRVRKEDCLSGRFDLNLPAEVIDRN 590
           SD +TSGG+ EHDRPSGSRSSDDSGCSS+KR RKE    G FDLNLPAE++DRN
Sbjct: 541 SDGNTSGGSSEHDRPSGSRSSDDSGCSSRKRARKEG--GGFFDLNLPAEIMDRN 592

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|449455196\|ref\|XP_004145339.1\| PREDICTED: probable E3 ubiquitin-protein ligase ARI1-like [Cucumis sativus] gi\|449471519\|ref\|XP_004153333.1\| PREDICTED: probable E3 ubiquitin-protein ligase ARI1-like [Cucumis sativus] gi\|449502370\|ref\|XP_004161621.1\| PREDICTED: probable E3 ubiquitin-protein ligase ARI1-like [Cucumis sativus]	Back alignment and taxonomy information

>gi\|225428572\|ref\|XP_002284665.1\| PREDICTED: probable E3 ubiquitin-protein ligase ARI1 isoform 1 [Vitis vinifera] gi\|297741410\|emb\|CBI32541.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

>gi\|224103473\|ref\|XP_002313070.1\| predicted protein [Populus trichocarpa] gi\|222849478\|gb\|EEE87025.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|359475257\|ref\|XP_003631625.1\| PREDICTED: probable E3 ubiquitin-protein ligase ARI1 isoform 2 [Vitis vinifera]	Back alignment and taxonomy information

>gi\|356538831\|ref\|XP_003537904.1\| PREDICTED: probable E3 ubiquitin-protein ligase ARI1-like isoform 3 [Glycine max]	Back alignment and taxonomy information

>gi\|356538827\|ref\|XP_003537902.1\| PREDICTED: probable E3 ubiquitin-protein ligase ARI1-like isoform 1 [Glycine max]	Back alignment and taxonomy information

>gi\|297836632\|ref\|XP_002886198.1\| hypothetical protein ARALYDRAFT_480784 [Arabidopsis lyrata subsp. lyrata] gi\|297332038\|gb\|EFH62457.1\| hypothetical protein ARALYDRAFT_480784 [Arabidopsis lyrata subsp. lyrata]	Back alignment and taxonomy information

>gi|18418437|ref|NP_567966.1| putative E3 ubiquitin-protein ligase ARI1 [Arabidopsis thaliana] gi|75332017|sp|Q949V6.1|ARI1_ARATH RecName: Full=Probable E3 ubiquitin-protein ligase ARI1; AltName: Full=ARIADNE-like protein ARI1; AltName: Full=Protein ariadne homolog 1 gi|15292861|gb|AAK92801.1| unknown protein [Arabidopsis thaliana] gi|21436339|gb|AAM51339.1| unknown protein [Arabidopsis thaliana] gi|29125018|emb|CAD52883.1| ARIADNE-like protein ARI1 [Arabidopsis thaliana] gi|332660964|gb|AEE86364.1| putative E3 ubiquitin-protein ligase ARI1 [Arabidopsis thaliana]

Back alignment and taxonomy information

>gi\|356545317\|ref\|XP_003541090.1\| PREDICTED: probable E3 ubiquitin-protein ligase ARI1-like [Glycine max]	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		590
TAIR\|locus:2116184		597	ARI1 "ARIADNE 1" [Arabidopsis	0.996	0.984	0.679	1.9e-227
TAIR\|locus:2052920		593	ARI2 "ARIADNE 2" [Arabidopsis	0.988	0.983	0.687	2.2e-224
TAIR\|locus:2089104		537	ARI3 "ARIADNE 3" [Arabidopsis	0.866	0.951	0.606	4.5e-178
UNIPROTKB\|A2VEA3		555	ARIH1 "E3 ubiquitin-protein li	0.696	0.740	0.335	4.2e-65
UNIPROTKB\|Q9Y4X5		557	ARIH1 "E3 ubiquitin-protein li	0.696	0.737	0.335	4.2e-65
UNIPROTKB\|F1PG97		554	ARIH1 "Uncharacterized protein	0.694	0.740	0.335	1.8e-64
FB\|FBgn0017418		503	ari-1 "ariadne" [Drosophila me	0.711	0.834	0.323	3.7e-64
UNIPROTKB\|B1H1E4		529	arih1 "E3 ubiquitin-protein li	0.696	0.776	0.335	2e-63
MGI\|MGI:1344363		555	Arih1 "ariadne ubiquitin-conju	0.696	0.740	0.335	4.2e-63
UNIPROTKB\|Q32NS4		529	arih1 "E3 ubiquitin-protein li	0.696	0.776	0.337	5.4e-63

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

 Score = 2195 (777.7 bits), Expect = 1.9e-227, P = 1.9e-227
 Identities = 407/599 (67%), Positives = 485/599 (80%)

Query:     1 MEDSFSGDED--YYYSDRDSLDGLENDEADLQWVPPKGSSTKVITRESLLAAQKEDLRRV 58
             M+D FS +E+  YY SD+DSLDG++N+E++LQ +  K S+T+VIT+ESLLAAQ+EDL RV
Sbjct:     1 MDDYFSAEEEACYYSSDQDSLDGIDNEESELQPLSSKRSNTQVITQESLLAAQREDLLRV 60

Query:    59 MELLSLREHHARTLLIHYRWDVEKLLAVLVENGKESLFNEAGVTVIDD--ADPMLPLSST 116
             MELLS++EHHARTLLIHY+WDVEKL AV VE GK+SLF+ AGVTV D    +   P SS 
Sbjct:    61 MELLSIKEHHARTLLIHYQWDVEKLFAVFVEKGKDSLFSGAGVTVFDYQYGNSSFPQSSQ 120

Query:   117 VMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEAV 176
             + CD+CME++ GD  T+MDCGHCFCN+CWTEHF V+INEGQSKRIRCMAH+CNAICDE +
Sbjct:   121 MSCDVCMEDLPGDHMTRMDCGHCFCNNCWTEHFTVQINEGQSKRIRCMAHQCNAICDEDI 180

Query:   177 VRNLVSKKHPNLAEKFERFLLESFIEDNKMVKWCPSTPHCGNAIRXXXXXXXXXXXACGA 236
             VR+LVSKK P+LA KF+R+LLES+IEDN+MVKWCPSTPHCGNAIR           +CG 
Sbjct:   181 VRSLVSKKRPDLAAKFDRYLLESYIEDNRMVKWCPSTPHCGNAIRAEDDKLCEVECSCGL 240

Query:   237 QFCFSCLSEAHSPCSCSMWDLWAKKCRDESETVNWITVHTKPCPKCHKPVEKNGGCNLVS 296
             QFCFSCL +AHSPCSC MW+LW KKCRDESET+NWITVHTK CPKC+KPVEKNGGCNLV 
Sbjct:   241 QFCFSCLCQAHSPCSCLMWELWRKKCRDESETINWITVHTKLCPKCYKPVEKNGGCNLVR 300

Query:   297 CICGQAFCWLCGGATGRDHTWSRIAGHSCGRYKEDKAKKTERAKRELYRYMHYHNRYKAH 356
             CICGQ FCWLCGGATG DHT+  IAGHSCGRY++DK K+ ERAKR+L RY HYH+RYKAH
Sbjct:   301 CICGQCFCWLCGGATGSDHTYRSIAGHSCGRYQDDKEKQMERAKRDLNRYTHYHHRYKAH 360

Query:   357 TDSFKLESKLKETVLEKVSISEERESRLRDFSWVTNGLYRLFRSRRVLSYSYPFAFYMFG 416
             TDS KLE KL++T+ EKVS SE+RE +L+DFSWVTNGL RLFRSRRVLSYSY FA+YMFG
Sbjct:   361 TDSSKLEDKLRDTIHEKVSKSEKRELKLKDFSWVTNGLDRLFRSRRVLSYSYAFAYYMFG 420

Query:   417 EELFKDEMTDEEREIKQHLFEDQQQQLEANVEKLSKFLEEPFDQYPDDKVMEIRMQVINL 476
             EE+FKDEMT EEREIK++LFEDQQQQLE+NVEKLS+FLEEPFD++ +DKVM IR+Q+INL
Sbjct:   421 EEMFKDEMTPEEREIKKNLFEDQQQQLESNVEKLSQFLEEPFDEFSNDKVMAIRIQIINL 480

Query:   477 SVITDTLCKKMYECIENDLLGCLQLGTHNIARYQSKGIERASELSTCWTSVNTTTDKRQR 536
             SV  DTLCKKMYECIENDLLG LQLG HNI+ Y+SKGIE+A++    W S +   DK Q 
Sbjct:   481 SVAVDTLCKKMYECIENDLLGSLQLGIHNISPYRSKGIEQAAQFYASWNSKDA--DKFQP 538

Query:   537 SDADTSGGTLEHDRPXXXXXXXXXX-XXXQKRVRKEDC-LSGR---FDLNLPAEVIDRN 590
              D+ TSG T   ++               QKR +KE   L+ +    DLNLPA+ +D+N
Sbjct:   539 LDSGTSGVTSRPEQASGSRSSEDTICSSSQKRPKKEGSFLNNKVTLLDLNLPADFVDQN 597

GO:0005737 "cytoplasm" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

GO:0006635 "fatty acid beta-oxidation" evidence=RCA

GO:0007165 "signal transduction" evidence=RCA

GO:0009755 "hormone-mediated signaling pathway" evidence=RCA

GO:0016558 "protein import into peroxisome matrix" evidence=RCA

TAIR\|locus:2052920 ARI2 "ARIADNE 2" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2089104 ARI3 "ARIADNE 3" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

UNIPROTKB\|A2VEA3 ARIH1 "E3 ubiquitin-protein ligase ARIH1" [Bos taurus (taxid:9913)]	Back alignment and assigned GO terms

UNIPROTKB\|Q9Y4X5 ARIH1 "E3 ubiquitin-protein ligase ARIH1" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

UNIPROTKB\|F1PG97 ARIH1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]	Back alignment and assigned GO terms

FB\|FBgn0017418 ari-1 "ariadne" [Drosophila melanogaster (taxid:7227)]	Back alignment and assigned GO terms

UNIPROTKB\|B1H1E4 arih1 "E3 ubiquitin-protein ligase arih1" [Xenopus (Silurana) tropicalis (taxid:8364)]	Back alignment and assigned GO terms

MGI\|MGI:1344363 Arih1 "ariadne ubiquitin-conjugating enzyme E2 binding protein homolog 1 (Drosophila)" [Mus musculus (taxid:10090)]	Back alignment and assigned GO terms

UNIPROTKB\|Q32NS4 arih1 "E3 ubiquitin-protein ligase arih1" [Xenopus laevis (taxid:8355)]	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)
Q84RR2	ARI2_ARATH	6, ., 3, ., 2, ., -	0.7073	0.9881	0.9831	no	no
Q949V6	ARI1_ARATH	6, ., 3, ., 2, ., -	0.7045	0.9966	0.9849	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

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

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Alignment Graph	Length	Definition	E-value
Query		590
smart00647		64	smart00647, IBR, In Between Ring fingers	2e-16
pfam01485		63	pfam01485, IBR, IBR domain	7e-14
pfam13923		45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	7e-04
pfam13639		46	pfam13639, zf-RING_2, Ring finger domain	0.002

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

 Score = 73.2 bits (180), Expect = 2e-16
 Identities = 34/65 (52%), Positives = 39/65 (60%), Gaps = 3/65 (4%)

Query: 190 EKFERFLLESFIEDNKMVKWCPSTPHCGNAIRV-EEVEVCEVEC-ACGAQFCFSCLSEAH 247
           EK+ER LLES++E N  +KWCP+ P C  AI V EE     V C  CG  FCF C    H
Sbjct: 1   EKYERLLLESYVESNPDLKWCPA-PDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVPWH 59

Query: 248 SPCSC 252
           SP SC
Sbjct: 60  SPVSC 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\|206094 pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RING finger)	Back alignment and domain information

>gnl\|CDD\|222279 pfam13639, zf-RING_2, Ring finger 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		590
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	100.0
KOG0006		446	consensus E3 ubiquitin-protein ligase (Parkin prot	99.9
smart00647		64	IBR In Between Ring fingers. the domains occurs be	99.18
PF01485		64	IBR: IBR domain; InterPro: IPR002867 Zinc finger (	99.09
PF15227		42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.52
PF13923		39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.14
PF13639		44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	98.11
PF00097		41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.1
smart00647		64	IBR In Between Ring fingers. the domains occurs be	98.0
KOG0320		187	consensus Predicted E3 ubiquitin ligase [Posttrans	97.99
PLN03208		193	E3 ubiquitin-protein ligase RMA2; Provisional	97.98
PF13445		43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	97.94
PF01485		64	IBR: IBR domain; InterPro: IPR002867 Zinc finger (	97.92
PF13920		50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	97.77
cd00162		45	RING RING-finger (Really Interesting New Gene) dom	97.7
PF14634		44	zf-RING_5: zinc-RING finger domain	97.68
KOG2164		513	consensus Predicted E3 ubiquitin ligase [Posttrans	97.55
KOG0823		230	consensus Predicted E3 ubiquitin ligase [Posttrans	97.54
smart00504		63	Ubox Modified RING finger domain. Modified RING fi	97.48
smart00184		39	RING Ring finger. E3 ubiquitin-protein ligase acti	97.46
KOG2177		386	consensus Predicted E3 ubiquitin ligase [Posttrans	97.39
PHA02926		242	zinc finger-like protein; Provisional	97.31
TIGR00599		397	rad18 DNA repair protein rad18. This family is bas	97.3
KOG0317		293	consensus Predicted E3 ubiquitin ligase, integral	97.27
PHA02929		238	N1R/p28-like protein; Provisional	97.24
KOG0287		442	consensus Postreplication repair protein RAD18 [Re	97.12
KOG0804		493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	96.98
KOG4367		699	consensus Predicted Zn-finger protein [Function un	96.96
KOG0978		698	consensus E3 ubiquitin ligase involved in syntaxin	96.5
TIGR00570		309	cdk7 CDK-activating kinase assembly factor MAT1. A	96.47
PF11789		57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	96.38
PF04564		73	U-box: U-box domain; InterPro: IPR003613 Quality c	96.29
PF14835		65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	96.01
PF14555		43	UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A	95.95
COG5540		374	RING-finger-containing ubiquitin ligase [Posttrans	95.91
COG5574		271	PEX10 RING-finger-containing E3 ubiquitin ligase [	95.76
KOG4628		348	consensus Predicted E3 ubiquitin ligase [Posttrans	95.71
KOG1002		791	consensus Nucleotide excision repair protein RAD16	95.67
PF12678		73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	95.53
COG5432		391	RAD18 RING-finger-containing E3 ubiquitin ligase [	94.97
PF11793		70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	94.2
KOG0824		324	consensus Predicted E3 ubiquitin ligase [Posttrans	94.06
KOG2879		298	consensus Predicted E3 ubiquitin ligase [Posttrans	93.65
KOG1814		445	consensus Predicted E3 ubiquitin ligase [Posttrans	93.39
COG5243		491	HRD1 HRD ubiquitin ligase complex, ER membrane com	93.24
PF14570		48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	92.89
KOG1812		384	consensus Predicted E3 ubiquitin ligase [Posttrans	92.78
KOG4159		398	consensus Predicted E3 ubiquitin ligase [Posttrans	92.59
KOG0311		381	consensus Predicted E3 ubiquitin ligase [Posttrans	92.37
PF10571		26	UPF0547: Uncharacterised protein family UPF0547; I	92.14
TIGR00570		309	cdk7 CDK-activating kinase assembly factor MAT1. A	92.05
COG5152		259	Uncharacterized conserved protein, contains RING a	91.94
KOG1039		344	consensus Predicted E3 ubiquitin ligase [Posttrans	91.66
KOG0006		446	consensus E3 ubiquitin-protein ligase (Parkin prot	91.45
KOG2660		331	consensus Locus-specific chromosome binding protei	91.3
KOG0826		357	consensus Predicted E3 ubiquitin ligase involved i	90.9
KOG4185		296	consensus Predicted E3 ubiquitin ligase [Posttrans	90.79
KOG1428		3738	consensus Inhibitor of type V adenylyl cyclases/Ne	90.39
KOG2817		394	consensus Predicted E3 ubiquitin ligase [Posttrans	90.26
KOG0802		543	consensus E3 ubiquitin ligase [Posttranslational m	90.03
PRK00420		112	hypothetical protein; Validated	89.59
KOG1645		463	consensus RING-finger-containing E3 ubiquitin liga	89.16
KOG4692		489	consensus Predicted E3 ubiquitin ligase [Posttrans	88.43
PF12861		85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	87.8
KOG1785		563	consensus Tyrosine kinase negative regulator CBL [	86.64
smart00744		49	RINGv The RING-variant domain is a C4HC3 zinc-fing	86.19
COG5220		314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	86.18
KOG4265		349	consensus Predicted E3 ubiquitin ligase [Posttrans	86.08
KOG1734		328	consensus Predicted RING-containing E3 ubiquitin l	85.93
KOG0828		636	consensus Predicted E3 ubiquitin ligase [Posttrans	85.4
PF05883		134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	84.66
KOG4445		368	consensus Uncharacterized conserved protein, conta	83.71
PF13240		23	zinc_ribbon_2: zinc-ribbon domain	83.62
KOG1701		468	consensus Focal adhesion adaptor protein Paxillin	82.75
KOG0825		1134	consensus PHD Zn-finger protein [General function	82.51
PF00627		37	UBA: UBA/TS-N domain; InterPro: IPR000449 UBA doma	82.05
KOG1001		674	consensus Helicase-like transcription factor HLTF/	81.63
smart00661		52	RPOL9 RNA polymerase subunit 9.	81.16
KOG4739		233	consensus Uncharacterized protein involved in syna	81.13
COG4647		165	AcxC Acetone carboxylase, gamma subunit [Secondary	80.19

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

Probab=100.00  E-value=1.2e-67  Score=575.28  Aligned_cols=429  Identities=40%  Similarity=0.765  Sum_probs=381.4

Q ss_pred             eeCHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHcCCChHHHHHHHHhcChhhhhHhhCCcccCCCCCCCCcccccccc
Q 007785           41 VITRESLLAAQKEDLRRVMELLSLREHHARTLLIHYRWDVEKLLAVLVENGKESLFNEAGVTVIDDADPMLPLSSTVMCD  120 (590)
Q Consensus        41 vlt~~~i~~~~~~~i~~v~~~l~i~~~~a~~LL~~~~W~~e~l~~~~~~~~~~~~~~~~gl~~~~~~~~~~~~~~~~~C~  120 (590)
                      |+|.+++...|.++|.+|+++|+++..+|++||.||.|+.+++++.|++ +.+.++...|+....      .......|.
T Consensus         2 vl~~~~~~~~~~~~i~~~~~~ls~~~~~~~~ll~~~~W~~~kl~~~~~~-~~~~~~~~~g~~~~~------~~~~~~~c~   74 (444)
T KOG1815|consen    2 VLTPDDIAALMREDIIEVSDILSLSHAVARILLAHFCWNVEKLLEEWVE-DEETGCFFVGLLLWP------KKKGDVQCG   74 (444)
T ss_pred             CCchHhhhHHhHhhHHHHHHhhcCCHHHHHHHHHhcCcchHHHHHHHHh-cCcchhhhccccccC------CCCccccCC
Confidence            6889999999999999999999999999999999999999999999996 556777778865443      234568999


Q ss_pred             cccccccccCceecCCCCccchhhHHHHHHhhhhcCCcccccccccccccccchHHHHHHhcCCCc-hHHHHHHHHHhhh
Q 007785          121 ICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEAVVRNLVSKKHP-NLAEKFERFLLES  199 (590)
Q Consensus       121 IC~e~~~~~~~~~l~CgH~FC~~C~~~yi~~~I~~g~~~~i~CP~~~C~~~~~~~~i~~ll~~~~~-e~~eky~~~l~~~  199 (590)
                      ||++.++. .+..+.|||.||..||..|+..+|.+|....|+||..+|.+.+....|..+++   + +...+|.++++.+
T Consensus        75 ic~~~~~~-~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~~~~i~~~~s---~~~~~~ky~~~i~~s  150 (444)
T KOG1815|consen   75 ICVESYDG-EIIGLGCGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVGEDTVEKLVS---DKEDKEKYQRYILRS  150 (444)
T ss_pred             cccCCCcc-hhhhcCCCcHHHHHHHHHHhhheeeccccccccCCCCCccccCCCceeeeecC---CHHHHHHHHHHHHHH
Confidence            99999775 67788999999999999999999998875559999999999999999999998   5 5899999999999


Q ss_pred             hhhcCcccccCCCCCCCCceEeecCcccceeeccCCCeeecCccCcCCCCCCchhhHHHHHhhhchHHhHHHHHhCCcCC
Q 007785          200 FIEDNKMVKWCPSTPHCGNAIRVEEVEVCEVECACGAQFCFSCLSEAHSPCSCSMWDLWAKKCRDESETVNWITVHTKPC  279 (590)
Q Consensus       200 ~v~~~~~~~~CP~~p~C~~~i~~~~~~~~~v~C~Cg~~fC~~C~~~~H~p~sC~~~~~w~~~~~~e~e~~~~i~~~tK~C  279 (590)
                      ||+.+..++|||+ |+|++++.........|.|.||+.|||.|+.+||.|++|..+..|.++..+++++.+||..|+++|
T Consensus       151 yve~~~~lkwCP~-~~C~~av~~~~~~~~~v~C~~g~~FC~~C~~~~H~p~~C~~~~~wl~k~~~~se~~~wi~~ntk~C  229 (444)
T KOG1815|consen  151 YVEDNVPLKWCPA-PGCGLAVKFGSLESVEVDCGCGHEFCFACGEESHSPVSCPGAKKWLKKCRDDSETINWILANTKEC  229 (444)
T ss_pred             HHhcCCccccCCC-CCCCceeeccCCCccceeCCCCchhHhhccccccCCCcccchHHHHHhhhhhhhhhhhhhccCccC
Confidence            9999999999995 999999997555556799999999999999999999999999999999999999999999999999


Q ss_pred             CCCCcceeecCCCCeeEec---cCceeeccccccccCCCcccccCCcccCCcchhHHHH-HHHHHHHHHHHHHHHHHHHH
Q 007785          280 PKCHKPVEKNGGCNLVSCI---CGQAFCWLCGGATGRDHTWSRIAGHSCGRYKEDKAKK-TERAKRELYRYMHYHNRYKA  355 (590)
Q Consensus       280 PkC~~~IEKn~GCNHMtC~---Cg~~FCwlC~~~~~~~H~w~~~~g~~C~~y~~~~~~~-~~~~k~~l~ry~~y~~r~~~  355 (590)
                      |+|..+|||++|||||+|.   |++.|||+|++.|.. |+.++  ++.||+|..+.... +..++..+.||.|||.||+.
T Consensus       230 P~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~-h~~~~--~~~c~~~~~~~~~~~~~~a~~~l~r~~~~~~~~~~  306 (444)
T KOG1815|consen  230 PKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSD-HGSST--GYSCNRYVDGKSKSARSKARRSLKRYTHYYNRWME  306 (444)
T ss_pred             CCcccchhccCCccccccccCCcCCeeceeeeccccc-ccccc--eeeeeeeechhhhhHHHHHHHHHHHHHHHHhhHHh
Confidence            9999999999999999994   999999999888753 44333  79999999877655 78888999999999999999


Q ss_pred             hhhhHHHHHHHHHHHHHH-HHHHhhh-hccccchHHHHHHHHHHHHHHHhhhccccceeecccccchhcccchHHHHHHH
Q 007785          356 HTDSFKLESKLKETVLEK-VSISEER-ESRLRDFSWVTNGLYRLFRSRRVLSYSYPFAFYMFGEELFKDEMTDEEREIKQ  433 (590)
Q Consensus       356 h~~s~k~e~~l~~~i~~k-~~~~~~~-~~~~~~~~~l~~a~~~l~~~R~vL~~SY~~ayy~~~~~~~~~~~~~~~~~~~~  433 (590)
                      |..+++++..+...+.+. ...+... ...+.+++|+.+|+.+|+++|++|+|||+|+||+...             .+.
T Consensus       307 ~q~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~e~r~~l~~s~~~~~~~~~~-------------~~~  373 (444)
T KOG1815|consen  307 HQVSLKLEGKLLSKVEEVKKPKLSDSLSLSWIDVQFLRDAGDVLVECRRTLKWTYAYAYYLSEN-------------NKR  373 (444)
T ss_pred             hhhhhhhhhhhHHHHHHHhhhhhhcccCeeeeeeeeechhHHHHHhhhhhhhhhhhhhhhhccc-------------chh
Confidence            999999998877766544 3333222 2347799999999999999999999999999999732             344


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhcccCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 007785          434 HLFEDQQQQLEANVEKLSKFLEEPFDQYPDDKVMEIRMQVINLSVITDTLCKKMYECIENDLLG  497 (590)
Q Consensus       434 ~lfe~~Q~~lE~~~E~Ls~~le~~~~~~~~~~i~~~k~~~~~l~~~~~~~~~~l~~~~e~~l~~  497 (590)
                      ++||++|.+|+..+|.|+..++.++...+.+++..+|+++.+++.++++++.++++.++++|-.
T Consensus       374 ~~fe~~q~~~~~~~e~ls~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  437 (444)
T KOG1815|consen  374 NLFEDNQTDLESAVEPLSSCLEESLKDISSETLAEFKQKLTDLTSYVRNRFENLLKHLEEGLED  437 (444)
T ss_pred             hhhHHHHHHHhhhhhhhHHHhccccccCCcccHHHHHhhccccchhhhhHHHHHHHHHHhcccc
Confidence            8999999999999999999999988877778899999999999999999999999999988863

>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

>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

>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

>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

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

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

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional	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

>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

>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

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

>KOG2164 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

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

>smart00184 RING Ring finger	Back alignment and domain information

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

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

>TIGR00599 rad18 DNA repair protein rad18	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

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

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

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

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

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

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1	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

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

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

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

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

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

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

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

>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A	Back alignment and domain information

>KOG0824 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

>KOG1814 consensus Predicted E3 ubiquitin ligase [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

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

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

>KOG4159 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

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1	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

>KOG1039 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

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

>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [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

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

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

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

>PRK00420 hypothetical protein; Validated	Back alignment and domain information

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

>KOG4692 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

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

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

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

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

>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

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

>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]	Back alignment and domain information

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

>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]	Back alignment and domain information

>KOG0825 consensus PHD Zn-finger protein [General function prediction only]	Back alignment and domain information

>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []	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

>smart00661 RPOL9 RNA polymerase subunit 9	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

>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]	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		590
1wd2_A		60	Solution Structure Of The C-Terminal Ring From A Ri		1e-05

>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 = 48.5 bits (114), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 27/63 (42%), Positives = 35/63 (55%), Gaps = 7/63 (11%)
Query: 271 WITVHTKPCPKCHKPVEKNGGCNLVSC---ICGQAFCWLCGGATGRDHTWSRIAGHSCGR 327
           WI  +TK CPKCH  +EK+GGCN + C    C   FCW+C G      +    A ++C R
Sbjct: 1   WIAANTKECPKCHVTIEKDGGCNHMVCRNQNCKAEFCWVCLGPWEPHGS----AWYNCNR 56
Query: 328 YKE 330
           Y E
Sbjct: 57  YNE 59

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		590
1wim_A		94	KIAA0161 protein; ring finger domain, UBCM4-intera	6e-21
1wd2_A		60	Ariadne-1 protein homolog; ring, IBR, triad, zinc	1e-17
2ct7_A		86	Ring finger protein 31; IBR, structural genomics,	6e-07
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-05
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-05
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-04

>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

 Score = 86.8 bits (215), Expect = 6e-21
 Identities = 18/94 (19%), Positives = 37/94 (39%), Gaps = 6/94 (6%)

Query: 114 SSTVMCDICMEEVAGDKATKM-DCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCN--A 170
           S +  C +C+ E   ++ T +  C   FC  C  ++  + I EG    I C    C    
Sbjct: 3   SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQG 62

Query: 171 ICDEAVVRNLVSKKHPNLAEKFERFLLESFIEDN 204
              E  +  +V+     + +++++   E     +
Sbjct: 63  HLQENEIECMVA---AEIMQRYKKLQFERSGPSS 93

PyMOL of 1wim

>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

>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

>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

>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

 Score = 45.2 bits (106), Expect = 5e-05
 Identities = 76/557 (13%), Positives = 141/557 (25%), Gaps = 143/557 (25%)

Query: 6   SGDEDYYYSDRDSLDGLENDEADLQWVPPKGSSTKVITRESLLAAQKEDLRRVMELLSLR 65
           S     Y   RD L        D Q           ++R          LR+   LL LR
Sbjct: 106 SMMTRMYIEQRDRLYN------DNQVFAKYN-----VSRLQPY----LKLRQA--LLELR 148

Query: 66  EHHARTLLIHYRWDVEK--LLAVLVENGKESLFNEAGV---TVIDDADPMLPLSSTVMCD 120
              A+ +LI       K  +   +  + K     +  +    + +   P   L   ++  
Sbjct: 149 --PAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVL--EMLQK 204

Query: 121 ICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAIC----DEAV 176
           +           ++D      +D  + +  ++I+  Q++  R +  K    C        
Sbjct: 205 LL---------YQIDPNWTSRSD-HSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLN-- 252

Query: 177 VRNLVSKKHPNLAEKFE---RFLLES------FIEDNKMVKWCPSTPHCGNAIRVEEVEV 227
           V+N            F    + LL +                     H       E   +
Sbjct: 253 VQN------AKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSL 306

Query: 228 CE--VECACGAQFCFSCL-SEAH--SPCSCSM-----------WDLWAKKCRDESETVNW 271
               ++C          L  E    +P   S+           WD W     D+  T+  
Sbjct: 307 LLKYLDCRP------QDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTII- 359

Query: 272 ITVHTKPCPKCHKPVEKNGGCNLVSC--------ICGQAFCWLCGGATGRDHTWSRIAGH 323
                +      +P E                  I       +          W  +   
Sbjct: 360 -----ESSLNVLEPAEYRK--MFDRLSVFPPSAHIPTILLSLI----------WFDVIKS 402

Query: 324 SCGRYKEDKAKKT---ERAKRELYRYMHYHNRYKAHTDSFKLESKLKETVLEKVSISEER 380
                     K +   ++ K         +   K   ++   E  L  ++++  +I +  
Sbjct: 403 DVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLEN---EYALHRSIVDHYNIPKTF 459

Query: 381 ESRLRDFSWVTNGLYRLFRSRRVLSYSYPFAFYMFGEELFKDEMTDEEREIKQHL-FEDQ 439
           +S   D        Y          YS+    ++   E    E     R +     F   
Sbjct: 460 DS--DDLIPPYLDQY---------FYSH-IGHHLKNIEH--PERMTLFRMVFLDFRF--- 502

Query: 440 QQQLEANVEKLSKFLEEPFDQYPDDKVMEIRMQVINL--SVITDTLCKKMYECIENDLLG 497
              LE  +   S                   +Q +      I D      YE + N +L 
Sbjct: 503 ---LEQKIRHDSTAWNASGSILNT-------LQQLKFYKPYICDN--DPKYERLVNAILD 550

Query: 498 CLQLGTHNIARYQSKGI 514
            L     N+   +   +
Sbjct: 551 FLPKIEENLICSKYTDL 567

PyMOL of 1vt4

>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

 Score = 41.8 bits (97), Expect = 6e-04
 Identities = 68/510 (13%), Positives = 135/510 (26%), Gaps = 155/510 (30%)

Query: 11  YYYSDRDSLDGLEN--DEADLQWVPPKGSSTKVITRESLLAAQKEDLRRVMELLSLREHH 68
              S    L+ L+    + D  W      S+ +  R   +   + +LRR   LL  + + 
Sbjct: 191 NCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSI---QAELRR---LLKSKPY- 243

Query: 69  ARTLLIHYR--WDVEKLLA------VLVENGKESLFNEAGVTVIDDADPMLPLSSTVMCD 120
              LL+      + +   A      +L+    +         V D       LS+     
Sbjct: 244 ENCLLV-LLNVQNAKAWNAFNLSCKILLTTRFKQ--------VTDF------LSAATTTH 288

Query: 121 ICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRI--RCMAHKCNAICDEAVVR 178
           I +                       +H  + +   + K +  + +  +   +  E +  
Sbjct: 289 ISL-----------------------DHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTT 325

Query: 179 N--LVS------KKHPNLAEKFERFLLESFIEDNKMVKWCPSTPHCGNAIRVEEVEVCEV 230
           N   +S      +      + ++    +       +++             +  +E  E 
Sbjct: 326 NPRRLSIIAESIRDGLATWDNWKHVNCDKL---TTIIESS-----------LNVLEPAEY 371

Query: 231 ECACGAQFCFSCLS----EAHSPCS--CSMWDLWAKKCRDESETVNWITVHTKPCPKCHK 284
                 +  F  LS     AH P      +W  +     D    VN          K HK
Sbjct: 372 ------RKMFDRLSVFPPSAHIPTILLSLIW--FDVIKSDVMVVVN----------KLHK 413

Query: 285 P--VEKNGGCNLVSCICGQAFCWLCGGATGRDHTWSRIAGHS--CGRYKEDKA-KKTERA 339
              VEK         I                   +  A H      Y   K     +  
Sbjct: 414 YSLVEKQ-PKESTISIPSIYLELKV-------KLENEYALHRSIVDHYNIPKTFDSDDLI 465

Query: 340 KREL--YRYMH--YHNRYKAHTDSFKLESKLKETVLEKVSISEERESRLRDFSWVTNGLY 395
              L  Y Y H  +H +   H +   L   +                   DF ++     
Sbjct: 466 PPYLDQYFYSHIGHHLKNIEHPERMTLFRMV-----------------FLDFRFL----- 503

Query: 396 RLFRSRRVLSYSYPFAFYMFGEELFKDEMTDEEREIKQHLFEDQQQQLEANVEKLSKFL- 454
                +++   S  +          +       +  K ++  D   + E  V  +  FL 
Sbjct: 504 ----EQKIRHDSTAWNASGSILNTLQQ-----LKFYKPYIC-DNDPKYERLVNAILDFLP 553

Query: 455 --EEPFDQYPDDKVMEIRMQVINLSVITDT 482
             EE         ++ I +   + ++  + 
Sbjct: 554 KIEENLICSKYTDLLRIALMAEDEAIFEEA 583

PyMOL of 1vt4

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		590
1wd2_A		60	Ariadne-1 protein homolog; ring, IBR, triad, zinc	99.72
1wim_A		94	KIAA0161 protein; ring finger domain, UBCM4-intera	99.62
2ct7_A		86	Ring finger protein 31; IBR, structural genomics,	99.26
2jmo_A		80	Parkin; IBR, E3 ligase, zinc binding domain, RBR;	99.01
4ap4_A		133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.97
3hcs_A		170	TNF receptor-associated factor 6; cross-brace, bet	98.54
2ecv_A		85	Tripartite motif-containing protein 5; metal bindi	98.39
2ysj_A		63	Tripartite motif-containing protein 31; ring-type	98.35
2egp_A		79	Tripartite motif-containing protein 34; ZF-C3HC4 d	98.34
2ysl_A		73	Tripartite motif-containing protein 31; ring-type	98.33
2ecw_A		85	Tripartite motif-containing protein 30; metal bind	98.33
2ct2_A		88	Tripartite motif protein 32; zinc-finger protein H	98.31
3ztg_A		92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	98.3
2ecy_A		66	TNF receptor-associated factor 3; metal binding pr	98.29
2d8t_A		71	Dactylidin, ring finger protein 146; RNF146, ring	98.27
3hct_A		118	TNF receptor-associated factor 6; cross-brace, bet	98.25
1rmd_A		116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.25
1t1h_A		78	Gspef-atpub14, armadillo repeat containing protein	98.25
2yu4_A		94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.24
1e4u_A		78	Transcriptional repressor NOT4; gene regulation, t	98.24
3lrq_A		100	E3 ubiquitin-protein ligase TRIM37; structural gen	98.2
2yur_A		74	Retinoblastoma-binding protein 6; P53-associated c	98.19
2csy_A		81	Zinc finger protein 183-like 1; ring finger protei	98.18
3l11_A		115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	98.17
2ecm_A		55	Ring finger and CHY zinc finger domain- containing	98.17
1jm7_A		112	BRCA1, breast cancer type 1 susceptibility protein	98.17
3knv_A		141	TNF receptor-associated factor 2; cross-brace, alt	98.16
2djb_A		72	Polycomb group ring finger protein 6; PCGF6, ring	98.15
3fl2_A		124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	98.14
3ng2_A		71	RNF4, snurf, ring finger protein 4; ring domain, E	98.12
2y43_A		99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	98.11
4ayc_A		138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	98.11
2ecj_A		58	Tripartite motif-containing protein 39; TRIM39, ri	98.1
2ea6_A		69	Ring finger protein 4; RNF4, RES4-26, ring domain,	98.09
2xeu_A		64	Ring finger protein 4; transcription, zinc-finger,	98.08
2kr4_A		85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	98.07
1g25_A		65	CDK-activating kinase assembly factor MAT1; ring f	98.06
2kiz_A		69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	98.02
1z6u_A		150	NP95-like ring finger protein isoform B; structura	97.99
2ckl_A		108	Polycomb group ring finger protein 4; BMI1, RING1B	97.98
3htk_C		267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	97.92
1jm7_B		117	BARD1, BRCA1-associated ring domain protein 1; rin	97.89
1bor_A		56	Transcription factor PML; proto-oncogene, nuclear	97.89
2kre_A		100	Ubiquitin conjugation factor E4 B; U-box domain, E	97.85
1iym_A		55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	97.85
2ect_A		78	Ring finger protein 126; metal binding protein, st	97.85
1wgm_A		98	Ubiquitin conjugation factor E4A; ubiquitinating e	97.83
1chc_A		68	Equine herpes virus-1 ring domain; viral protein;	97.82
1v87_A		114	Deltex protein 2; ring-H2 domain, zinc-binding dom	97.81
1x4j_A		75	Ring finger protein 38; structural genomics, NPPSF	97.8
2ep4_A		74	Ring finger protein 24; zinc binding, ubiquitin, E	97.8
2c2l_A		281	CHIP, carboxy terminus of HSP70-interacting protei	97.8
2l0b_A		91	E3 ubiquitin-protein ligase praja-1; zinc finger,	97.79
2ckl_B		165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	97.77
2ecn_A		70	Ring finger protein 141; RNF141, ring domain, zinc	97.72
4ic3_A		74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	97.57
2f42_A		179	STIP1 homology and U-box containing protein 1; cha	97.56
2ecg_A		75	Baculoviral IAP repeat-containing protein 4; BIRC4	97.45
2ecl_A		81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	97.28
2ct7_A		86	Ring finger protein 31; IBR, structural genomics,	97.27
2vje_A		64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	97.21
2y1n_A		389	E3 ubiquitin-protein ligase; ligase-transferase co	97.2
2yho_A		79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	97.17
2d8s_A		80	Cellular modulator of immune recognition; C-MIR, m	97.12
4ap4_A		133	E3 ubiquitin ligase RNF4; ligase-signalling protei	97.11
2ea5_A		68	Cell growth regulator with ring finger domain prot	97.06
2vje_B		63	MDM4 protein; proto-oncogene, phosphorylation, alt	97.03
3dpl_R		106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	96.83
2jmo_A		80	Parkin; IBR, E3 ligase, zinc binding domain, RBR;	96.7
3t6p_A		345	Baculoviral IAP repeat-containing protein 2; ring,	96.46
4a0k_B		117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	96.03
3k1l_B		381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	95.92
2bay_A		61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	95.2
2ct0_A		74	Non-SMC element 1 homolog; ring domain, structural	94.61
1v92_A		46	NSFL1 cofactor P47; 3-helix bundle, recombination;	93.61
3vk6_A		101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	92.62
2dal_A		62	Protein KIAA0794; FAS associted factor 1, UBA-like	91.92
2jun_A		101	Midline-1; B-BOX, TRIM, ring finger, alternative s	91.91
1wd2_A		60	Ariadne-1 protein homolog; ring, IBR, triad, zinc	91.03
2jun_A		101	Midline-1; B-BOX, TRIM, ring finger, alternative s	90.81
1vyx_A		60	ORF K3, K3RING; zinc-binding protein, ring domain,	90.47
2di0_A		71	Activating signal cointegrator 1 complex subunit 2	90.34
1wj7_A		104	Hypothetical protein (RSGI RUH-015); UBA domain, u	90.18
2cs3_A		93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	89.84
2dam_A		67	ETEA protein; KIAA0887, UBA-like domain, structura	87.78
1z96_A		40	DNA-damage, UBA-domain protein MUD1; ubiquitin, th	86.36
1g25_A		65	CDK-activating kinase assembly factor MAT1; ring f	85.58
3vk6_A		101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	83.93
2dzl_A		66	Protein FAM100B; UBA-like domain, structural genom	82.51
3e21_A		45	HFAF1, FAS-associated factor 1; UBA, alternative s	80.81

>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=99.72  E-value=5.8e-19  Score=138.16  Aligned_cols=56  Identities=50%  Similarity=1.156  Sum_probs=48.5

Q ss_pred             HHHhCCcCCCCCCcceeecCCCCeeEec---cCceeeccccccccCCCcccccCCcccCCcch
Q 007785          271 WITVHTKPCPKCHKPVEKNGGCNLVSCI---CGQAFCWLCGGATGRDHTWSRIAGHSCGRYKE  330 (590)
Q Consensus       271 ~i~~~tK~CPkC~~~IEKn~GCNHMtC~---Cg~~FCwlC~~~~~~~H~w~~~~g~~C~~y~~  330 (590)
                      ||.+++|+||+|+++|||++|||||+|+   |+++|||+|+++|.. |+   ...|+||+|++
T Consensus         1 wi~~~~k~CP~C~~~Iek~~GCnhmtC~~~~C~~~FCw~C~~~~~~-~~---~~~y~C~~y~~   59 (60)
T 1wd2_A            1 WIAANTKECPKCHVTIEKDGGCNHMVCRNQNCKAEFCWVCLGPWEP-HG---SAWYNCNRYNE   59 (60)
T ss_dssp             CCCCCCCCCTTTCCCCSSCCSCCSSSCCSSGGGSCCSSSSCSCSGG-GG---TSSSSSCSCCC
T ss_pred             CccccceECcCCCCeeEeCCCCCcEEECCCCcCCEEeeCcCCCccc-CC---CccccCCCccc
Confidence            7888999999999999999999999995   999999999999653 21   13589999975

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

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

>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

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

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

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

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

>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

>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

>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

>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

>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

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

>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

>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

>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

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

>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

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

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

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

>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

>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

>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

>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

>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

>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

>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

>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

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

>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

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

>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

>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

>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

>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

>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

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

>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

>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

>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

>2d8s_A Cellular modulator of immune recognition; C-MIR, march8, ring domain, structural genomics, NPPSFA; 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

>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

>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

>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

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

>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

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

>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

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

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

>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

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

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

>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

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

>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

>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

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

>3e21_A HFAF1, FAS-associated factor 1; UBA, alternative splicing, apoptosis, nucleus, phosphoprotein; 1.73A {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		590
d1wd2a_		60	g.44.1.1 (A:) Ariadne-1 protein homolog {Human (Ho	1e-16
d1wima_		94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	5e-16
d2ct7a1		73	g.44.1.4 (A:8-80) Ring finger protein 31 {Human (H	4e-10
d2ct7a1		73	g.44.1.4 (A:8-80) Ring finger protein 31 {Human (H	4e-10
d1chca_		68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	0.003

>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 = 72.2 bits (177), Expect = 1e-16
 Identities = 27/63 (42%), Positives = 35/63 (55%), Gaps = 7/63 (11%)

Query: 271 WITVHTKPCPKCHKPVEKNGGCNLVSCI---CGQAFCWLCGGATGRDHTWSRIAGHSCGR 327
           WI  +TK CPKCH  +EK+GGCN + C    C   FCW+C G      +    A ++C R
Sbjct: 1   WIAANTKECPKCHVTIEKDGGCNHMVCRNQNCKAEFCWVCLGPWEPHGS----AWYNCNR 56

Query: 328 YKE 330
           Y E
Sbjct: 57  YNE 59

PyMOL of d1wd2a_

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

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

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68	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		590
d1wd2a_		60	Ariadne-1 protein homolog {Human (Homo sapiens) [T	99.74
d1wima_		94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	99.56
d2ct7a1		73	Ring finger protein 31 {Human (Homo sapiens) [TaxI	99.08
d2ct7a1		73	Ring finger protein 31 {Human (Homo sapiens) [TaxI	98.99
d1jm7a_		103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	98.35
d1rmda2		86	V(D)J recombination activating protein 1 (RAG1), d	98.33
d2c2la2		80	STIP1 homology and U box-containing protein 1, STU	98.26
d1ur6b_		52	Not-4 N-terminal RING finger domain {Human (Homo s	98.21
d1t1ha_		78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.18
d1fbva4		79	CBL {Human (Homo sapiens) [TaxId: 9606]}	98.11
d1g25a_		65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	98.07
d1chca_		68	Immediate early protein, IEEHV {Equine herpesvirus	97.9
d1v87a_		114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	97.89
d1bora_		56	Acute promyelocytic leukaemia proto-oncoprotein PM	97.85
d1jm7b_		97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	97.85
d1iyma_		55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	97.82
d2baya1		56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	97.8
d1wgma_		98	Ubiquitin conjugation factor E4A {Human (Homo sapi	97.1
d1vyxa_		60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	96.85
d3dplr1		88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	96.66
d1v92a_		46	NSFL1 (p97 ATPase) cofactor p47, UBA-like domain {	95.03
d2csva1		59	Tripartite motif-containing protein 29 {Human (Hom	91.4
d2cs3a1		80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	91.31
d1wd2a_		60	Ariadne-1 protein homolog {Human (Homo sapiens) [T	91.11
d1ur6b_		52	Not-4 N-terminal RING finger domain {Human (Homo s	87.68
d1rmda2		86	V(D)J recombination activating protein 1 (RAG1), d	85.43
d1frea_		39	Nuclear factor XNF7 {African clawed frog (Xenopus	83.56
d1fbva4		79	CBL {Human (Homo sapiens) [TaxId: 9606]}	83.45
d1g25a_		65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	81.48
d1bora_		56	Acute promyelocytic leukaemia proto-oncoprotein PM	80.23
d1wfla_		74	Zinc finger A20 domain containing protein 2 {Mouse	80.14

>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=99.74  E-value=9.9e-20  Score=140.46  Aligned_cols=56  Identities=48%  Similarity=1.121  Sum_probs=49.0

Q ss_pred             HHHhCCcCCCCCCcceeecCCCCeeEec---cCceeeccccccccCCCcccccCCcccCCcch
Q 007785          271 WITVHTKPCPKCHKPVEKNGGCNLVSCI---CGQAFCWLCGGATGRDHTWSRIAGHSCGRYKE  330 (590)
Q Consensus       271 ~i~~~tK~CPkC~~~IEKn~GCNHMtC~---Cg~~FCwlC~~~~~~~H~w~~~~g~~C~~y~~  330 (590)
                      ||..|||+||+|+++|||++|||||+|+   |+++|||+|+++|...+    ..+|+|++|++
T Consensus         1 wi~~ntK~CP~C~~~ieK~~GCnhM~C~~~~C~~~fCw~C~~~~~~~~----~~~~~C~~~~e   59 (60)
T d1wd2a_           1 WIAANTKECPKCHVTIEKDGGCNHMVCRNQNCKAEFCWVCLGPWEPHG----SAWYNCNRYNE   59 (60)
T ss_dssp             CCCCCCCCCTTTCCCCSSCCSCCSSSCCSSGGGSCCSSSSCSCSGGGG----TSSSSSCSCCC
T ss_pred             CchhcCcCCCCCCCeEEECCCCCCeEeCCCCCCCeEECCCCCccccCC----CCCCCCcCCcc
Confidence            7889999999999999999999999995   99999999999975422    23578999975

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

>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

>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

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger 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

>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

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

>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

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]}	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

>d1wgma_ g.44.1.2 (A:) Ubiquitin conjugation factor E4A {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

>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

>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

>d2cs3a1 g.44.1.3 (A:8-87) Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [TaxId: 9606]}	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

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

>d1frea_ g.43.1.1 (A:) Nuclear factor XNF7 {African clawed frog (Xenopus laevis) [TaxId: 8355]}	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

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

>d1wfla_ g.80.1.1 (A:) Zinc finger A20 domain containing protein 2 {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure