Citrus Sinensis ID: 018450

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-----
MSLTGVKMSEDVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRKDRVETNPEQLAAASAQADRMTVLTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCFSEDANKVGRIQVIAFQSSDGKQNHISKPIALLPVNKSTVIDLESSLSSSESLSARSGNVLAENPEQDTGDSKIVAGSWKGGGRTSELGGFFANVDANHPERARTGGNYQTGDLSNAIGDIDPMDMSESMQEAMHRSNLDMSGAEYVRKEIPLHVLPTSSLLKLDSPLTSFTDLQRVLYEEERAAYNQAIMQNMSNCLQFYSVMEKCIPLLTFITHQLIRLQCAN
ccccEEEEcHHHHHHHHHHHcccccHHEEEEccEEEEcccccEEEEEEEccccccccccccccccccHHHHHHHHHHHHHHHHHHcccccEEEEEccccccccccccHHHHHHHHHHHccccEEEEEEccccccccccccEEEEEEEccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHcccccccHHHHHHcccccccccccccccccccccccHHHHHccccccccccccccccccccccHHHHHHHHHHcccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHccccHHHHHHHHHHHHHcc
ccccEEEEcHHHHHHHHHHHHccccHEHHHHEccEEEcccccEEEEEEEEEccccccccEcccEcccHHHHHHHHHHHHHHHHHHccccEEEEEEccccccccccccccHHHHHHHHHccccEEEEEEEcEEcccccccEEEEEEEEEcccccccccccEEEEEcccccEEEEEccccccccccccccccccccccccccccHHHHccccccccccccccHcccccccccccccccccccccccccccEccccccccHHHHHHHHHcccccccccEEEEEccEEEEcccHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHcccccccHHHHHHHHHHHHHcc
msltgvkmseDVWLTCLTHALSTETEEIMGLLLgdiehskngnVTALIwgaspqsrsdrrkdrvetnPEQLAAASAQADRMTVLTGRTTRVIgwyhshphitvlpshvDVRTQAMYQLLDTGFIGLIFSCFsedankvgRIQVIAFqssdgkqnhiskpiallpvnkstvidlesslssseslsarsgnvlaenpeqdtgdskivagswkgggrtselggffanvdanhperartggnyqtgdlsnaigdidpmdmsESMQEAMHRsnldmsgaeyvrkeiplhvlptssllkldspltsfTDLQRVLYEEERAAYNQAIMQNMSNCLQFYSVMEKCIPLLTFITHQLIRLQCAN
msltgvkmsedvWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALiwgaspqsrsdrrKDRVETNPEqlaaasaqadrmtVLTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCFSEDANKVGRIQVIAFqssdgkqnhiskPIALLPVNKSTVIDLESSLSSSESLSARSGNVlaenpeqdtgdskiVAGSWKGGGRTSELGGFFANVDANHperartggnyqtgdLSNAIGDIDPMDMSESMQEAMHRSNLDMSGAEYVRKEIPLHVlptssllkldspLTSFTDLQRVLYEEERAAYNQAIMQNMSNCLQFYSVMEKCIPLLTFITHQLIRLQCAN
MSLTGVKMSEDVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRKDRVETNPEQLAAASAQADRMTVLTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCFSEDANKVGRIQVIAFQSSDGKQNHISKPIALLPVNKSTVIDlesslssseslsARSGNVLAENPEQDTGDSKIVAGSWKGGGRTSELGGFFANVDANHPERARTGGNYQTGDLSNAIGDIDPMDMSESMQEAMHRSNLDMSGAEYVRKEIPLHVLPTSSLLKLDSPLTSFTDLQRVLYEEERAAYNQAIMQNMSNCLQFYSVMEKCIPLLTFITHQLIRLQCAN
*********EDVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWG******************************MTVLTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCFSEDANKVGRIQVIAFQS**********PIALLPVN***************************************************LGGFFAN***************************************************YVRKEIPLHVLPTSSLLKLDSPLTSFTDLQRVLYEEERAAYNQAIMQNMSNCLQFYSVMEKCIPLLTFITHQLIRLQC**
*SLTGVKMSEDVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRKDRVETNPEQLAAASAQADRMTVLTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCFSEDANKVGRIQVIAFQSSD**************************LS***SLSARSGNVLAENPEQDTGDSKIVAGSWKGGGRTSEL****************************************************************LHVLPTSSLLKLDSPLTSFTDLQRVLYEEERAAYNQ****************EKCIPLLTFITHQLIRLQC**
MSLTGVKMSEDVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGAS***************************RMTVLTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCFSEDANKVGRIQVIAFQSSDGKQNHISKPIALLPVNKSTVID***************GNVLAENPEQDTGDSKIVAGSWKGGGRTSELGGFFANVDANHPERARTGGNYQTGDLSNAIGDIDPMDMSESMQEAMHRSNLDMSGAEYVRKEIPLHVLPTSSLLKLDSPLTSFTDLQRVLYEEERAAYNQAIMQNMSNCLQFYSVMEKCIPLLTFITHQLIRLQCAN
*SLTGVKMSEDVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRKDRVETNPEQLAAASAQADRMTVLTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCFSEDANKVGRIQVIAFQSSDGKQNHISKPIALLPVNKSTVIDLESS*********************************************F***********************NAIGDIDPMDMSESMQEAMHRSNLDMSGAEYVRKEIPLHVLPTSSLLKLDSPLTSFTDLQRVLYEEERAAYNQAIMQNMSNCLQFYSVMEKCIPLLTFITHQLIRLQCAN
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
oooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
MSLTGVKMSEDVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRKDRVETNPEQLAAASAQADRMTVLTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCFSEDANKVGRIQVIAFQSSDGKQNHISKPIALLPVNKSTVIDLESSLSSSESLSARSGNVLAENPEQDTGDSKIVAGSWKGGGRTSELGGFFANVDANHPERARTGGNYQTGDLSNAIGDIDPMDMSESMQEAMHRSNLDMSGAEYVRKEIPLHVLPTSSLLKLDSPLTSFTDLQRVLYEEERAAYNQAIMQNMSNCLQFYSVMEKCIPLLTFITHQLIRLQCAN
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 ?
Query355 2.2.26 [Sep-21-2011]
Q4VA72261 Lys-63-specific deubiquit yes no 0.487 0.662 0.510 4e-48
Q66GV6261 Lys-63-specific deubiquit N/A no 0.487 0.662 0.510 1e-47
B5X8M4260 Lys-63-specific deubiquit N/A no 0.487 0.665 0.489 2e-46
P46737291 Lys-63-specific deubiquit yes no 0.478 0.584 0.466 5e-43
B2RYM5291 Lys-63-specific deubiquit yes no 0.478 0.584 0.466 1e-42
Q5R9L6247 Lys-63-specific deubiquit yes no 0.414 0.595 0.5 3e-42
B0KWU8316 Lys-63-specific deubiquit no no 0.414 0.465 0.5 4e-42
P46736316 Lys-63-specific deubiquit no no 0.414 0.465 0.5 4e-42
A5PJP6316 Lys-63-specific deubiquit no no 0.414 0.465 0.5 7e-42
Q7M757291 Lys-63-specific deubiquit no no 0.492 0.601 0.435 3e-40
>sp|Q4VA72|BRCC3_XENTR Lys-63-specific deubiquitinase BRCC36 OS=Xenopus tropicalis GN=brcc3 PE=2 SV=1 Back     alignment and function desciption
 Score =  192 bits (487), Expect = 4e-48,   Method: Compositional matrix adjust.
 Identities = 93/182 (51%), Positives = 128/182 (70%), Gaps = 9/182 (4%)

Query: 1   MSLTGVKMSEDVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRR 60
           M++  V +  D +L C+TH+LSTE EE+MGL +G+++  K  ++ ++I       RSD+R
Sbjct: 1   MAVQAVHIQGDAFLVCVTHSLSTEREEVMGLCIGEVDTQKVVHIHSVI----ILRRSDKR 56

Query: 61  KDRVETNPEQLAAASAQADRMTVLTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLD 120
           KDRVE +PEQL+AA+ +ADR+  +TGR  RV+GWYHSHPHITV PSHVDVRTQAMYQ++D
Sbjct: 57  KDRVEISPEQLSAATTEADRLAEITGRPMRVVGWYHSHPHITVWPSHVDVRTQAMYQMMD 116

Query: 121 TGFIGLIFSCFSEDAN-KVGRIQVIAFQSSDGKQN----HISKPIALLPVNKSTVIDLES 175
            GF+GLIFSCF ED N K GRI    FQS   +++     I  P+ ++P N    + LES
Sbjct: 117 VGFVGLIFSCFIEDKNTKTGRILYTCFQSVQAQKSSEYERIEVPLHVVPHNTIRKVCLES 176

Query: 176 SL 177
           ++
Sbjct: 177 AV 178
Metalloprotease that specifically cleaves 'Lys-63'-linked polyubiquitin chains. Does not have activity toward 'Lys-48'-linked polyubiquitin chains. Component of the BRCA1-A complex, a complex that specifically recognizes 'Lys-63'-linked ubiquitinated histones H2A and H2AX at DNA lesions sites, leading to target the brca1-bard1 heterodimer to sites of DNA damage at double-strand breaks (DSBs). In the BRCA1-A complex, it specifically removes 'Lys-63'-linked ubiquitin on histones H2A and H2AX, antagonizing the rnf8-dependent ubiquitination at double-strand breaks (DSBs). Catalytic subunit of the BRISC complex, a multiprotein complex that specifically cleaves 'Lys-63'-linked ubiquitin in various substrates. Mediates the specific 'Lys-63'-specific deubiquitination associated with the COP9 signalosome complex (CSN), via the interaction of the BRISC complex with the CSN complex.
Xenopus tropicalis (taxid: 8364)
EC: 3EC: .EC: 4EC: .EC: 1EC: 9EC: .EC: -
>sp|Q66GV6|BRCC3_XENLA Lys-63-specific deubiquitinase BRCC36 OS=Xenopus laevis GN=brcc3 PE=2 SV=1 Back     alignment and function description
>sp|B5X8M4|BRCC3_SALSA Lys-63-specific deubiquitinase BRCC36 OS=Salmo salar GN=brcc3 PE=2 SV=1 Back     alignment and function description
>sp|P46737|BRCC3_MOUSE Lys-63-specific deubiquitinase BRCC36 OS=Mus musculus GN=Brcc3 PE=2 SV=1 Back     alignment and function description
>sp|B2RYM5|BRCC3_RAT Lys-63-specific deubiquitinase BRCC36 OS=Rattus norvegicus GN=Brcc3 PE=2 SV=1 Back     alignment and function description
>sp|Q5R9L6|BRCC3_PONAB Lys-63-specific deubiquitinase BRCC36 OS=Pongo abelii GN=BRCC3 PE=2 SV=1 Back     alignment and function description
>sp|B0KWU8|BRCC3_CALJA Lys-63-specific deubiquitinase BRCC36 OS=Callithrix jacchus GN=BRCC3 PE=3 SV=2 Back     alignment and function description
>sp|P46736|BRCC3_HUMAN Lys-63-specific deubiquitinase BRCC36 OS=Homo sapiens GN=BRCC3 PE=1 SV=2 Back     alignment and function description
>sp|A5PJP6|BRCC3_BOVIN Lys-63-specific deubiquitinase BRCC36 OS=Bos taurus GN=BRCC3 PE=2 SV=1 Back     alignment and function description
>sp|Q7M757|BRC3L_MOUSE Lys-63-specific deubiquitinase BRCC36-like OS=Mus musculus GN=C6.1al PE=2 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 ?
Query355
225442853437 PREDICTED: uncharacterized protein LOC10 0.912 0.741 0.811 1e-154
449469008436 PREDICTED: uncharacterized protein LOC10 0.946 0.770 0.751 1e-146
224058695434 predicted protein [Populus trichocarpa] 0.921 0.753 0.751 1e-145
358248516436 uncharacterized protein LOC100784991 [Gl 0.943 0.768 0.751 1e-142
356550598436 PREDICTED: uncharacterized protein LOC10 0.943 0.768 0.745 1e-142
357455111443 Lys-63-specific deubiquitinase BRCC36 [M 0.943 0.756 0.734 1e-136
145337792406 BRCA1/BRCA2-containing complex subunit 3 0.892 0.780 0.750 1e-131
186496625371 BRCA1/BRCA2-containing complex subunit 3 0.892 0.854 0.750 1e-131
297839917370 hypothetical protein ARALYDRAFT_477234 [ 0.898 0.862 0.734 1e-128
145331992405 BRCA1/BRCA2-containing complex subunit 3 0.892 0.782 0.742 1e-124
>gi|225442853|ref|XP_002285369.1| PREDICTED: uncharacterized protein LOC100253140 [Vitis vinifera] Back     alignment and taxonomy information
 Score =  550 bits (1416), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 263/324 (81%), Positives = 294/324 (90%)

Query: 1   MSLTGVKMSEDVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRR 60
           MSLT VKMSEDVWLTC THALSTETEEIMGLLLGDIE+SKNG+VTALIWGASPQ+RSDRR
Sbjct: 1   MSLTCVKMSEDVWLTCTTHALSTETEEIMGLLLGDIEYSKNGSVTALIWGASPQTRSDRR 60

Query: 61  KDRVETNPEQLAAASAQADRMTVLTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLD 120
           KDRVETNPEQLAAASAQA+RMTV TG+TTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLD
Sbjct: 61  KDRVETNPEQLAAASAQAERMTVATGKTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLD 120

Query: 121 TGFIGLIFSCFSEDANKVGRIQVIAFQSSDGKQNHISKPIALLPVNKSTVIDLESSLSSS 180
           +GFIGLIFSCFSEDA KVGRIQVIAFQS+DGKQ+++S+PI+L PV++S++ID+ESS SSS
Sbjct: 121 SGFIGLIFSCFSEDAQKVGRIQVIAFQSTDGKQSNMSRPISLSPVHRSSIIDVESSFSSS 180

Query: 181 ESLSARSGNVLAENPEQDTGDSKIVAGSWKGGGRTSELGGFFANVDANHPERARTGGNYQ 240
           E+  A+SG    E+ EQDTGDS+ +A   KGGGR+S+LGGFFAN DAN+  R + GGNY 
Sbjct: 181 ENAPAKSGPARVESSEQDTGDSRTMALVNKGGGRSSDLGGFFANADANYLGRDKMGGNYH 240

Query: 241 TGDLSNAIGDIDPMDMSESMQEAMHRSNLDMSGAEYVRKEIPLHVLPTSSLLKLDSPLTS 300
           T +  NA+ D+DPMDMSESMQEAMHRSNLDMSGAEYVRKE+PL V PT SLLKLDSPLTS
Sbjct: 241 TNNSENAVVDVDPMDMSESMQEAMHRSNLDMSGAEYVRKEVPLLVFPTLSLLKLDSPLTS 300

Query: 301 FTDLQRVLYEEERAAYNQAIMQNM 324
           FTDLQRVLYEEERAAYNQAI+QNM
Sbjct: 301 FTDLQRVLYEEERAAYNQAIVQNM 324

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|449469008|ref|XP_004152213.1| PREDICTED: uncharacterized protein LOC101217628 [Cucumis sativus] Back     alignment and taxonomy information
>gi|224058695|ref|XP_002299607.1| predicted protein [Populus trichocarpa] gi|222846865|gb|EEE84412.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|358248516|ref|NP_001240150.1| uncharacterized protein LOC100784991 [Glycine max] gi|255635958|gb|ACU18325.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|356550598|ref|XP_003543672.1| PREDICTED: uncharacterized protein LOC100781761 [Glycine max] Back     alignment and taxonomy information
>gi|357455111|ref|XP_003597836.1| Lys-63-specific deubiquitinase BRCC36 [Medicago truncatula] gi|355486884|gb|AES68087.1| Lys-63-specific deubiquitinase BRCC36 [Medicago truncatula] Back     alignment and taxonomy information
>gi|145337792|ref|NP_178138.2| BRCA1/BRCA2-containing complex subunit 3 [Arabidopsis thaliana] gi|20147355|gb|AAM10390.1| At1g80210/F18B13_28 [Arabidopsis thaliana] gi|25090323|gb|AAN72276.1| At1g80210/F18B13_28 [Arabidopsis thaliana] gi|332198249|gb|AEE36370.1| BRCA1/BRCA2-containing complex subunit 3 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|186496625|ref|NP_001117626.1| BRCA1/BRCA2-containing complex subunit 3 [Arabidopsis thaliana] gi|332198250|gb|AEE36371.1| BRCA1/BRCA2-containing complex subunit 3 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|297839917|ref|XP_002887840.1| hypothetical protein ARALYDRAFT_477234 [Arabidopsis lyrata subsp. lyrata] gi|297333681|gb|EFH64099.1| hypothetical protein ARALYDRAFT_477234 [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|145331992|ref|NP_001078118.1| BRCA1/BRCA2-containing complex subunit 3 [Arabidopsis thaliana] gi|332640942|gb|AEE74463.1| BRCA1/BRCA2-containing complex subunit 3 [Arabidopsis thaliana] 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 ?
Query355
TAIR|locus:2016279406 BRCC36A "AT1G80210" [Arabidops 0.892 0.780 0.726 4.2e-118
TAIR|locus:2083318405 BRCC36B "AT3G06820" [Arabidops 0.892 0.782 0.720 2.4e-115
UNIPROTKB|Q4VA72261 brcc3 "Lys-63-specific deubiqu 0.456 0.620 0.526 1.8e-50
UNIPROTKB|Q66GV6261 brcc3 "Lys-63-specific deubiqu 0.456 0.620 0.526 2.9e-50
MGI|MGI:2389572291 Brcc3 "BRCA1/BRCA2-containing 0.307 0.374 0.622 2.7e-49
UNIPROTKB|B5X8M4260 brcc3 "Lys-63-specific deubiqu 0.450 0.615 0.508 3.3e-49
UNIPROTKB|F1RZ41291 BRCC36 "Uncharacterized protei 0.307 0.374 0.622 3.4e-49
RGD|1588543291 Brcc3 "BRCA1/BRCA2-containing 0.307 0.374 0.614 9e-49
UNIPROTKB|A5PJP6316 BRCC3 "Lys-63-specific deubiqu 0.278 0.313 0.67 3.8e-48
UNIPROTKB|P46736316 BRCC3 "Lys-63-specific deubiqu 0.278 0.313 0.67 3.8e-48
TAIR|locus:2016279 BRCC36A "AT1G80210" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1163 (414.5 bits), Expect = 4.2e-118, P = 4.2e-118
 Identities = 236/325 (72%), Positives = 263/325 (80%)

Query:     1 MSLTGVKMSEDVWLTCLTHALSTETEEIMGLLLGDIEHSKNG-NVTALIWGASPQSRSDR 59
             MSLT V MSEDVWLTCLTHALSTETEEIMGLLLGDIE+SK+G + TA+IWGASPQSRSDR
Sbjct:     1 MSLTCVNMSEDVWLTCLTHALSTETEEIMGLLLGDIEYSKDGGSATAMIWGASPQSRSDR 60

Query:    60 RKDRVETNPEQLAAASAQADRMTVLTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLL 119
             +KDRVETNPEQLAAASAQADRMT+ TGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLL
Sbjct:    61 QKDRVETNPEQLAAASAQADRMTISTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLL 120

Query:   120 DTGFIGLIFSCFSEDANKVGRIQVIAFQSSDGKQNHISKPIALLPVNKSTVIDXXXXXXX 179
             D+GFIGLIFSCFSEDANKVGRIQVIAFQSSDGK N I K ++L+  NK +VID       
Sbjct:   121 DSGFIGLIFSCFSEDANKVGRIQVIAFQSSDGKPNSIPKSMSLVLANKDSVIDLESSFSS 180

Query:   180 XXXXXARSGNVLAENPEQDTGDSKIVAGSWKGGGRTSELGGFFAN-VDANHPERARTGGN 238
                   RS +   +NPE DT D+   +GS KGGGR S+   FF N  +AN+  R  T GN
Sbjct:   181 SDSIYQRSSSARGDNPELDTSDTATTSGS-KGGGRVSDFEAFFVNNTEANNTRRDGTSGN 239

Query:   239 YQTGDLSNAIGDIDPMDMSESMQEAMHRSNLDMSGAEYVRKEIPLHVLPTSSLLKLDSPL 298
             Y     S AI +ID MDMSESMQEAMHRSNL+ SG  YVRKE+PLHVLPTSSLL+L+SPL
Sbjct:   240 YS----STAI-EIDSMDMSESMQEAMHRSNLETSGVGYVRKEVPLHVLPTSSLLQLNSPL 294

Query:   299 TSFTDLQRVLYEEERAAYNQAIMQN 323
              SF  LQRVLYEEERAAY+Q++ Q+
Sbjct:   295 ASFKSLQRVLYEEERAAYHQSVQQS 319
GO:0003674 "molecular_function" evidence=ND
GO:0005634 "nucleus" evidence=ISM;IDA
GO:0006281 "DNA repair" evidence=IMP
GO:0006310 "DNA recombination" evidence=IMP
TAIR|locus:2083318 BRCC36B "AT3G06820" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|Q4VA72 brcc3 "Lys-63-specific deubiquitinase BRCC36" [Xenopus (Silurana) tropicalis (taxid:8364)] Back     alignment and assigned GO terms
UNIPROTKB|Q66GV6 brcc3 "Lys-63-specific deubiquitinase BRCC36" [Xenopus laevis (taxid:8355)] Back     alignment and assigned GO terms
MGI|MGI:2389572 Brcc3 "BRCA1/BRCA2-containing complex, subunit 3" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|B5X8M4 brcc3 "Lys-63-specific deubiquitinase BRCC36" [Salmo salar (taxid:8030)] Back     alignment and assigned GO terms
UNIPROTKB|F1RZ41 BRCC36 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
RGD|1588543 Brcc3 "BRCA1/BRCA2-containing complex, subunit 3" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|A5PJP6 BRCC3 "Lys-63-specific deubiquitinase BRCC36" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|P46736 BRCC3 "Lys-63-specific deubiquitinase BRCC36" [Homo sapiens (taxid:9606)] 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

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

Prediction LevelEC numberConfidence of Prediction
3rd Layer3.4.17.n1LOW CONFIDENCE prediction!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
gw1.I.9454.1
hypothetical protein (385 aa)
(Populus trichocarpa)
Predicted Functional Partners:
 
Sorry, there are no predicted associations at the current settings.
 

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query355
cd08068244 cd08068, MPN_BRCC36, Mov34/MPN/PAD-1 family: BRCC3 2e-92
cd08058119 cd08058, MPN_euk_mb, Mpr1p, Pad1p N-terminal (MPN) 2e-36
pfam01398117 pfam01398, JAB, JAB1/Mov34/MPN/PAD-1 ubiquitin pro 8e-18
smart00232135 smart00232, JAB_MPN, JAB/MPN domain 2e-16
cd08068244 cd08068, MPN_BRCC36, Mov34/MPN/PAD-1 family: BRCC3 3e-10
cd08069268 cd08069, MPN_RPN11_CSN5, Mov34/MPN/PAD-1 family: p 4e-09
cd08067187 cd08067, MPN_2A_DUB, Mov34/MPN/PAD-1 family: Histo 8e-09
COG1310134 COG1310, COG1310, Predicted metal-dependent protea 8e-06
cd08070128 cd08070, MPN_like, Mpr1p, Pad1p N-terminal (MPN) d 2e-05
cd07767116 cd07767, MPN, Mpr1p, Pad1p N-terminal (MPN) domain 1e-04
pfam1446498 pfam14464, Prok-JAB, Prokaryotic homologs of the J 0.002
>gnl|CDD|163699 cd08068, MPN_BRCC36, Mov34/MPN/PAD-1 family: BRCC36, a subunit of BRCA1-A complex Back     alignment and domain information 
 Score =  276 bits (707), Expect = 2e-92
 Identities = 99/171 (57%), Positives = 129/171 (75%), Gaps = 7/171 (4%)

Query: 3   LTGVKMSEDVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGASPQ--SRSDRR 60
           L+ V +S DV+L CLTHALSTE EE+MGLL+G+IE SK G   A++  ++     RSD+R
Sbjct: 1   LSKVHLSADVYLVCLTHALSTEKEEVMGLLIGEIEVSKKGEEVAIVHISAVIILRRSDKR 60

Query: 61  KDRVETNPEQLAAASAQADRMTVLTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLD 120
           KDRVE +PEQL+AAS +A+R+T  TGR  RV+GWYHSHPHITV PSHVDVRTQAMYQ++D
Sbjct: 61  KDRVEISPEQLSAASTEAERLTEETGRPMRVVGWYHSHPHITVWPSHVDVRTQAMYQMMD 120

Query: 121 TGFIGLIFSCFSEDAN-KVGRIQVIAFQSSDGKQN----HISKPIALLPVN 166
           +GF+GLIFSCF+ED + K+G +QV  FQS  G +      I  P+ ++P +
Sbjct: 121 SGFVGLIFSCFNEDKSTKMGEVQVTCFQSVQGNKAGQYERIEVPLEIVPTS 171

BRCC36 (BRCA1-A complex subunit BRCC36; BRCA1/BRCA2-containing complex subunit 36; BRCA1/BRCA2-containing complex subunit 3; BRCC3; BRISC complex subunit BRCC36; BRCC36 isopeptidase complex; Lys-63-specific deubiquitinase BRCC36) and BRCC36-like domains are members of JAMM/MPN+ deubiquitinases (DUBs), possibly with Zn2+-dependent ubiquitin isopeptidase activity. BRCC36 is part of the BRCA1/BRCA2/BARD1-containing nuclear complex that displays an E3 ubiquitin ligase activity. It is targeted to DNA damage foci after irradiation; RAP80 recruits the Abraxas-BRCC36-BRCA1-BARD1 complex to DNA double strand breaks (DSBs) for DNA repair through specific recognition of Lys 63-linked polyubiquitinated proteins by its tandem ubiquitin-interacting motifs. A new protein, MERIT40 (mediator of RAP80 interactions and targeting 40 kDa), also named NBA1 (new component of the BRCA1 A complex), exists in the same BRCA1-containing complex and is essential for the integrity of the complex. There are studies suggesting that MERIT40/NBA1 ties BRCA1 complex integrity, DSB recognition, and ubiquitin chain activities to the DNA damage response. It has also been shown that BRCA1-containing complex resembles the lid complex of the 26S proteasome. Length = 244
>gnl|CDD|163689 cd08058, MPN_euk_mb, Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); eukaryotic Back     alignment and domain information
>gnl|CDD|216478 pfam01398, JAB, JAB1/Mov34/MPN/PAD-1 ubiquitin protease Back     alignment and domain information
>gnl|CDD|214573 smart00232, JAB_MPN, JAB/MPN domain Back     alignment and domain information
>gnl|CDD|163699 cd08068, MPN_BRCC36, Mov34/MPN/PAD-1 family: BRCC36, a subunit of BRCA1-A complex Back     alignment and domain information
>gnl|CDD|163700 cd08069, MPN_RPN11_CSN5, Mov34/MPN/PAD-1 family: proteasomal regulatory protein Rpn11 and signalosome complex subunit CSN5 Back     alignment and domain information
>gnl|CDD|163698 cd08067, MPN_2A_DUB, Mov34/MPN/PAD-1 family: Histone H2A deubiquitinase Back     alignment and domain information
>gnl|CDD|224229 COG1310, COG1310, Predicted metal-dependent protease of the PAD1/JAB1 superfamily [General function prediction only] Back     alignment and domain information
>gnl|CDD|163701 cd08070, MPN_like, Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) Back     alignment and domain information
>gnl|CDD|163686 cd07767, MPN, Mpr1p, Pad1p N-terminal (MPN) domains Back     alignment and domain information
>gnl|CDD|222766 pfam14464, Prok-JAB, Prokaryotic homologs of the JAB 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 355
cd08068244 MPN_BRCC36 Mov34/MPN/PAD-1 family: BRCC36, a subun 100.0
KOG1555316 consensus 26S proteasome regulatory complex, subun 99.97
cd08067187 MPN_2A_DUB Mov34/MPN/PAD-1 family: Histone H2A deu 99.96
cd08058119 MPN_euk_mb Mpr1p, Pad1p N-terminal (MPN) domains w 99.94
cd08069268 MPN_RPN11_CSN5 Mov34/MPN/PAD-1 family: proteasomal 99.94
cd08070128 MPN_like Mpr1p, Pad1p N-terminal (MPN) domains wit 99.92
cd08066173 MPN_AMSH_like Mov34/MPN/PAD-1 family. AMSH (associ 99.91
smart00232135 JAB_MPN JAB/MPN domain. Domain in Jun kinase activ 99.88
KOG1554347 consensus COP9 signalosome, subunit CSN5 [Posttran 99.88
cd08065266 MPN_eIF3h Mpr1p, Pad1p N-terminal (MPN) domains wi 99.87
cd08073108 MPN_NLPC_P60 Mpr1p, Pad1p N-terminal (MPN) domains 99.82
PF01398114 JAB: JAB1/Mov34/MPN/PAD-1 ubiquitin protease; Inte 99.82
cd08072117 MPN_archaeal Mov34/MPN/PAD-1 family: archaeal JAB1 99.82
cd07767116 MPN Mpr1p, Pad1p N-terminal (MPN) domains. MPN (al 99.78
COG1310134 Predicted metal-dependent protease of the PAD1/JAB 99.69
cd08057157 MPN_euk_non_mb Mpr1p, Pad1p N-terminal (MPN) domai 99.67
PF14464104 Prok-JAB: Prokaryotic homologs of the JAB domain; 99.62
cd08062280 MPN_RPN7_8 Mpr1p, Pad1p N-terminal (MPN) domains w 99.56
KOG1560339 consensus Translation initiation factor 3, subunit 99.55
KOG2880424 consensus SMAD6 interacting protein AMSH, contains 99.55
cd08064265 MPN_eIF3f Mpr1p, Pad1p N-terminal (MPN) domains wi 99.51
cd08059101 MPN_prok_mb Mpr1p, Pad1p N-terminal (MPN) domains 99.5
cd08060182 MPN_UPF0172 Mov34/MPN/PAD-1 family: UPF0172 family 99.48
TIGR03735192 PRTRC_A PRTRC system protein A. A novel genetic sy 99.46
cd08063288 MPN_CSN6 Mpr1p, Pad1p N-terminal (MPN) domains wit 99.33
PLN03246303 26S proteasome regulatory subunit; Provisional 99.3
TIGR02256131 ICE_VC0181 integrative and conjugative element pro 99.14
KOG1556309 consensus 26S proteasome regulatory complex, subun 99.02
cd08056252 MPN_PRP8 Mpr1p, Pad1p N-terminal (MPN) domains wit 98.84
PF03665196 UPF0172: Uncharacterised protein family (UPF0172); 98.32
cd08061274 MPN_NPL4 Mov34/MPN/PAD-1 family: nuclear protein l 97.93
KOG2975288 consensus Translation initiation factor 3, subunit 97.81
KOG3289199 consensus Uncharacterized conserved protein encode 97.23
PF05021306 NPL4: NPL4 family; InterPro: IPR007717 The HRD4 ge 96.73
KOG3050299 consensus COP9 signalosome, subunit CSN6 [Posttran 93.93
cd08071113 MPN_DUF2466 Mov34/MPN/PAD-1 family. Mov34 DUF2466 92.13
PF04002123 RadC: RadC-like JAB domain; InterPro: IPR001405 Th 81.03
>cd08068 MPN_BRCC36 Mov34/MPN/PAD-1 family: BRCC36, a subunit of BRCA1-A complex Back     alignment and domain information 
Probab=100.00  E-value=8.2e-54  Score=404.00  Aligned_cols=227  Identities=52%  Similarity=0.856  Sum_probs=199.8

Q ss_pred             ccEEEECHHHHHHHHHHHccCCCceeEEEEeeeecCC---CCceeEEEEEeeecCCCCCCCCCeeecCHHHHHHHHHHHH
Q 018450            3 LTGVKMSEDVWLTCLTHALSTETEEIMGLLLGDIEHS---KNGNVTALIWGASPQSRSDRRKDRVETNPEQLAAASAQAD   79 (355)
Q Consensus         3 l~~V~Is~~vll~Il~HA~s~~P~EvcGLLlG~~~~~---~~~~it~~V~~a~P~~nsd~~~~~feiDPeel~~A~~eae   79 (355)
                      +++|.|+++++++|+.||++++|+||||||+|..++.   .... ...|...+|..+.+.++++|+|||+++.+|+++|+
T Consensus         1 l~~V~Is~~~l~~il~HA~~~~P~EvCGLL~G~~~~~~~~~~~~-~v~i~~~~~~~~~~~s~~r~eidPee~~~a~~ea~   79 (244)
T cd08068           1 LSKVHLSADVYLVCLTHALSTEKEEVMGLLIGEIEVSKKGEEVA-IVHISAVIILRRSDKRKDRVEISPEQLSAASTEAE   79 (244)
T ss_pred             CcEEEECHHHHHHHHHHHHhCCCcceeEEEEeecccccccccce-eEEEeeeccccccCCCCceEEeCHHHHHHHHHHHH
Confidence            5789999999999999999999999999999987530   0011 11233556666777788999999999999999999


Q ss_pred             HhhhhcCCCceEEEEEecCCCCCCCCCHHHHHHHHHHhhcCCCcEEEEEccCcCC-ccCCCceEEEEEEeeCCCceeEee
Q 018450           80 RMTVLTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCFSED-ANKVGRIQVIAFQSSDGKQNHISK  158 (355)
Q Consensus        80 ~m~~~~~rgleVVGwYHSHP~~~a~PS~~DI~TQ~~yQ~~~p~~V~LIvSp~~~d-~s~~g~~~lrAFRl~dg~~~~i~i  158 (355)
                      ++.+.+++|+++||||||||+++++||.+|+++|..||+++|+++|||+|+++++ .+..+++.++|||+.+|+.     
T Consensus        80 ~~~~~~~rgl~vVGwYHSHP~~~a~PS~~Dv~tq~~~q~~~p~~v~lIvS~~~~~~~~~~~~~~i~aFr~~~g~~-----  154 (244)
T cd08068          80 RLTEETGRPMRVVGWYHSHPHITVWPSHVDVRTQAMYQMMDSGFVGLIFSCFNEDKSTKMGEVQVTCFQSVQGNK-----  154 (244)
T ss_pred             HHHhhccCCceEEEEEecCCCCCCCCCHhHHHHHHHHHhhCCCcEEEEEEecCCccccccCCEEEEEEEecCCCC-----
Confidence            9999999999999999999999999999999999999999999999999999876 4677889999999976433     


Q ss_pred             eeEEeecCCCccccccccccccccccccccccccCCCCCCCCcccccccccCCCCccccCCCcccccCCCCcccccCCCC
Q 018450          159 PIALLPVNKSTVIDLESSLSSSESLSARSGNVLAENPEQDTGDSKIVAGSWKGGGRTSELGGFFANVDANHPERARTGGN  238 (355)
Q Consensus       159 pi~v~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  238 (355)
                                                                                                      
T Consensus       155 --------------------------------------------------------------------------------  154 (244)
T cd08068         155 --------------------------------------------------------------------------------  154 (244)
T ss_pred             --------------------------------------------------------------------------------
Confidence                                                                                            


Q ss_pred             CCCCCCCCCccCCCCCCCchHHHHHhhhcccCCCCCceeeeecceeeecCcccccccCCcchhhhHhHHHHHHHHHHHHH
Q 018450          239 YQTGDLSNAIGDIDPMDMSESMQEAMHRSNLDMSGAEYVRKEIPLHVLPTSSLLKLDSPLTSFTDLQRVLYEEERAAYNQ  318 (355)
Q Consensus       239 ~~~~~~~~~~~~~~~~~~~~~~~ea~h~s~~~~s~~~y~r~e~pl~v~~~~~~~~~~~~~~~~~~~~~~~~~ee~~a~~~  318 (355)
                                                        |++|.|+||||+|+|+.++.++  ||+|+++||||||+||++||||
T Consensus       155 ----------------------------------~~~~~~~e~pl~i~~~~~~~~~--~~~~~~~l~~~l~~e~~~a~~~  198 (244)
T cd08068         155 ----------------------------------AGQYERIEVPLEIVPTSTISEA--CLESLVELPEILYQEEEDAYNK  198 (244)
T ss_pred             ----------------------------------CCcceEEEeeeEEecCcccccc--CHHHHHHHHHHHHHHHHHHHHH
Confidence                                              5589999999999999999999  9999999999999999999999


Q ss_pred             HHH-------HhhcCcceee----ehh-hhcchhHHHHHHHHHhh
Q 018450          319 AIM-------QNMSNCLQFY----SVM-EKCIPLLTFITHQLIRL  351 (355)
Q Consensus       319 ~~~-------~~~~~~~~~~----~~~-~~~~~~~~~~~~~~~~~  351 (355)
                      |+.       ..++|++|||    .+| .+++|||||||+||+..
T Consensus       199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~l~~~~~~~  243 (244)
T cd08068         199 ALQSCDLDPLTKIHNGSVYTKSLCHILETISGPLLQLLEARLEQN  243 (244)
T ss_pred             HHhcccchHHHHHHhhHHHHHHHHHHHHHHHhhHHHHHHHHHHhc
Confidence            995       4566999999    367 89999999999999863

BRCC36 (BRCA1-A complex subunit BRCC36; BRCA1/BRCA2-containing complex subunit 36; BRCA1/BRCA2-containing complex subunit 3; BRCC3; BRISC complex subunit BRCC36; BRCC36 isopeptidase complex; Lys-63-specific deubiquitinase BRCC36) and BRCC36-like domains are members of JAMM/MPN+ deubiquitinases (DUBs), possibly with Zn2+-dependent ubiquitin isopeptidase activity. BRCC36 is part of the BRCA1/BRCA2/BARD1-containing nuclear complex that displays an E3 ubiquitin ligase activity. It is targeted to DNA damage foci after irradiation; RAP80 recruits the Abraxas-BRCC36-BRCA1-BARD1 complex to DNA double strand breaks (DSBs) for DNA repair through specific recognition of Lys 63-linked polyubiquitinated proteins by its tandem ubiquitin-interacting motifs. A new protein, MERIT40 (mediator of RAP80 interactions and targeting 40 kDa), also named NBA1 (new component of the BRCA1 A complex), exists in the same BRCA1-contai
>KOG1555 consensus 26S proteasome regulatory complex, subunit RPN11 [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>cd08067 MPN_2A_DUB Mov34/MPN/PAD-1 family: Histone H2A deubiquitinase Back     alignment and domain information
>cd08058 MPN_euk_mb Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); eukaryotic Back     alignment and domain information
>cd08069 MPN_RPN11_CSN5 Mov34/MPN/PAD-1 family: proteasomal regulatory protein Rpn11 and signalosome complex subunit CSN5 Back     alignment and domain information
>cd08070 MPN_like Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) Back     alignment and domain information
>cd08066 MPN_AMSH_like Mov34/MPN/PAD-1 family Back     alignment and domain information
>smart00232 JAB_MPN JAB/MPN domain Back     alignment and domain information
>KOG1554 consensus COP9 signalosome, subunit CSN5 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms] Back     alignment and domain information
>cd08065 MPN_eIF3h Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in eIF2h Back     alignment and domain information
>cd08073 MPN_NLPC_P60 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains Back     alignment and domain information
>PF01398 JAB: JAB1/Mov34/MPN/PAD-1 ubiquitin protease; InterPro: IPR000555 Members of this family are found in proteasome regulatory subunits, eukaryotic initiation factor 3 (eIF3) subunits and regulators of transcription factors Back     alignment and domain information
>cd08072 MPN_archaeal Mov34/MPN/PAD-1 family: archaeal JAB1/MPN/Mov34 metalloenzyme Back     alignment and domain information
>cd07767 MPN Mpr1p, Pad1p N-terminal (MPN) domains Back     alignment and domain information
>COG1310 Predicted metal-dependent protease of the PAD1/JAB1 superfamily [General function prediction only] Back     alignment and domain information
>cd08057 MPN_euk_non_mb Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity (non metal-binding); eukaryotic Back     alignment and domain information
>PF14464 Prok-JAB: Prokaryotic homologs of the JAB domain; PDB: 1OI0_A 1R5X_B 2KKS_A 2KCQ_A Back     alignment and domain information
>cd08062 MPN_RPN7_8 Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in 19S proteasomal subunits Rpn7 and Rpn8 Back     alignment and domain information
>KOG1560 consensus Translation initiation factor 3, subunit h (eIF-3h) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG2880 consensus SMAD6 interacting protein AMSH, contains JAB/MPN/Mov34 domain [Signal transduction mechanisms] Back     alignment and domain information
>cd08064 MPN_eIF3f Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in eIF3f Back     alignment and domain information
>cd08059 MPN_prok_mb Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); prokaryotic Back     alignment and domain information
>cd08060 MPN_UPF0172 Mov34/MPN/PAD-1 family: UPF0172 family of unknown function includes neighbor of COX4 (Noc4p) Back     alignment and domain information
>TIGR03735 PRTRC_A PRTRC system protein A Back     alignment and domain information
>cd08063 MPN_CSN6 Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in COP9 signalosome complex subunit 6 Back     alignment and domain information
>PLN03246 26S proteasome regulatory subunit; Provisional Back     alignment and domain information
>TIGR02256 ICE_VC0181 integrative and conjugative element protein, VC0181 family Back     alignment and domain information
>KOG1556 consensus 26S proteasome regulatory complex, subunit RPN8/PSMD7 [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>cd08056 MPN_PRP8 Mpr1p, Pad1p N-terminal (MPN) domains without isopeptidase activity found in splicing factor Prp8 Back     alignment and domain information
>PF03665 UPF0172: Uncharacterised protein family (UPF0172); InterPro: IPR005366 This is a small family of proteins of unknown function Back     alignment and domain information
>cd08061 MPN_NPL4 Mov34/MPN/PAD-1 family: nuclear protein localization-4 (Npl4) domain Back     alignment and domain information
>KOG2975 consensus Translation initiation factor 3, subunit f (eIF-3f) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG3289 consensus Uncharacterized conserved protein encoded by sequence overlapping the COX4 gene [General function prediction only] Back     alignment and domain information
>PF05021 NPL4: NPL4 family; InterPro: IPR007717 The HRD4 gene is identical to NPL4, a gene previously implicated in nuclear transport Back     alignment and domain information
>KOG3050 consensus COP9 signalosome, subunit CSN6 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms] Back     alignment and domain information
>cd08071 MPN_DUF2466 Mov34/MPN/PAD-1 family Back     alignment and domain information
>PF04002 RadC: RadC-like JAB domain; InterPro: IPR001405 This family was named initially with reference to the Escherichia coli radC102 mutation which suggested that RadC was involved in repair of DNA lesions [] 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 ?
Query355
4b4t_V306 Near-Atomic Resolution Structural Model Of The Yeas 1e-07
4f7o_A257 Crystal Structure Of Csn5 Length = 257 6e-04
>pdb|4B4T|V Chain V, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 306 Back     alignment and structure 
Iteration: 1

 Score = 53.9 bits (128), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 42/135 (31%), Positives = 60/135 (44%), Gaps = 12/135 (8%)
Query: 6   VKMSEDVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRKDRVE 65
           V +S    L  L H  +    E+MGL+LG+       NV  +   A PQS +    + V+
Sbjct: 27  VYISSIALLKMLKHGRAGVPMEVMGLMLGEFVDDYTVNVVDVF--AMPQSGTGVSVEAVD 84
Query: 66  TNPEQLAAASAQADRMTVL--TGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGF 123
                      QA  M +L  TGR   V+GWYHSHP      S VDV TQ  ++ L++  
Sbjct: 85  D--------VFQAKMMDMLKQTGRDQMVVGWYHSHPGFGCWLSSVDVNTQKSFEQLNSRA 136
Query: 124 IGLIFSCFSEDANKV 138
           + ++         KV
Sbjct: 137 VAVVVDPIQSVKGKV 151
>pdb|4F7O|A Chain A, Crystal Structure Of Csn5 Length = 257 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query355
2kcq_A153 MOV34/MPN/PAD-1 family; NESG, structure, structura 6e-25
2znr_A178 AMSH-like protease; metal binding protein, alterna 4e-20
2kks_A146 Uncharacterized protein; NESG, structural genomics 4e-19
3rzv_A211 STAM-binding protein; ubiquitin hydrolase, endosom 6e-19
2o95_A187 26S proteasome non-ATPase regulatory subunit 7; PS 2e-04
>2kcq_A MOV34/MPN/PAD-1 family; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Salinibacter ruber dsm 13855} Length = 153 Back     alignment and structure
 Score = 97.8 bits (243), Expect = 6e-25
 Identities = 37/159 (23%), Positives = 56/159 (35%), Gaps = 18/159 (11%)

Query: 6   VKMSEDVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRKDRVE 65
           +K + D+      H      EE  G LLG +    +  V AL    +   RS++R  R E
Sbjct: 1   MKTTPDILDQIRVHGADAYPEEGCGFLLGTVTDDGDNRVAALH--RATNRRSEQRTRRYE 58

Query: 66  TNPEQLAAASAQADRMTVLTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIG 125
              +   AA A A        +   V+G YHSHP     PS  D+      +    GF  
Sbjct: 59  LTADDYRAADAAAQE------QGLDVVGVYHSHPDHPARPSATDLE-----EATFPGFTY 107

Query: 126 LIFSCFSEDANKVGRIQVIAFQSSDGKQNHISKPIALLP 164
           +I S        +      A+  +  +     + I    
Sbjct: 108 VIVSVRDGAPEALT-----AWALAPDRSEFHREDIVRPD 141
>2znr_A AMSH-like protease; metal binding protein, alternative splicing, hydrolase, metal-binding, metalloprotease, UBL conjugation pathway, zinc; 1.20A {Homo sapiens} PDB: 2znv_A Length = 178 Back     alignment and structure
>2kks_A Uncharacterized protein; NESG, structural genomics, PSI-2, protein structure initiati northeast structural genomics consortium; NMR {Desulfitobacterium hafniense} Length = 146 Back     alignment and structure
>3rzv_A STAM-binding protein; ubiquitin hydrolase, endosome-associated deubiquitinat enzyme, hydrolase; 1.67A {Homo sapiens} PDB: 3rzu_A Length = 211 Back     alignment and structure
>2o95_A 26S proteasome non-ATPase regulatory subunit 7; PSMD7, MOV34, JAB1/MPN, metal-free dimer, UN function; HET: SO4 12P ETE PG4 PGE; 1.95A {Homo sapiens} PDB: 2o96_A Length = 187 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query355
2kks_A146 Uncharacterized protein; NESG, structural genomics 99.95
4b4t_V306 26S proteasome regulatory subunit RPN11; hydrolase 99.95
2kcq_A153 MOV34/MPN/PAD-1 family; NESG, structure, structura 99.95
2znr_A178 AMSH-like protease; metal binding protein, alterna 99.94
3rzv_A211 STAM-binding protein; ubiquitin hydrolase, endosom 99.9
2o95_A187 26S proteasome non-ATPase regulatory subunit 7; PS 99.85
1oi0_A124 AF2198, hypothetical protein AF2198; proteasome, d 99.83
4e0q_A141 COP9 signalosome complex subunit 6; MPN (MPR1P and 99.71
4b4t_U338 RPN8, 26S proteasome regulatory subunit RPN8; hydr 99.4
2og4_A254 PRE-mRNA-splicing factor 8; isopeptidase, JAB1/MPN 98.97
2p8r_A273 PRP8, PRE-mRNA-splicing factor PRP8; alpha-beta, t 98.91
3sbg_A565 PRE-mRNA-splicing factor 8; PRP8P, rnaseh domain, 98.06
2qlc_A126 DNA repair protein RADC homolog; MCSG, structural 91.97
>2kks_A Uncharacterized protein; NESG, structural genomics, PSI-2, protein structure initiati northeast structural genomics consortium; NMR {Desulfitobacterium hafniense} Back     alignment and structure
Probab=99.95  E-value=2.1e-27  Score=205.81  Aligned_cols=135  Identities=21%  Similarity=0.263  Sum_probs=113.0

Q ss_pred             EEECHHHHHHHHHHHccCCCceeEEEEeeeecCCCCceeEEEEEeeecCCCCCCCCCeeecCHHHHHHHHHHHHHhhhhc
Q 018450            6 VKMSEDVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRKDRVETNPEQLAAASAQADRMTVLT   85 (355)
Q Consensus         6 V~Is~~vll~Il~HA~s~~P~EvcGLLlG~~~~~~~~~it~~V~~a~P~~nsd~~~~~feiDPeel~~A~~eae~m~~~~   85 (355)
                      |.|++.++.+|++||++++|.|+||+|+|+...+     ...|..++|++|....+++|.+||+++.+++++++.     
T Consensus         2 l~i~~~~l~~i~~ha~~~~p~E~cGlL~G~~~~~-----~~~v~~~~p~~n~~~~~~~f~~dp~~~~~~~~~~~~-----   71 (146)
T 2kks_A            2 ITLTKKQMEEMLAHARQALPNEACGLLGGRRDGD-----DRWVERVYPLNNLDQSPEHFSMDPREQLTAVKDMRK-----   71 (146)
T ss_dssp             EEEEHHHHHHHHHHHHHHTTSCEEEEEEEEEETT-----EEEEEEEECCCCCSCCSSSCCCCHHHHHHHHHHHHH-----
T ss_pred             EEECHHHHHHHHHHHHhcCCcceEEEEEEEEcCC-----CcEEEEEEECCCcCCCCceEEECHHHHHHHHHHHHH-----
Confidence            7899999999999999999999999999998654     134566788888766778999999999999988865     


Q ss_pred             CCCceEEEEEecCCCCCCCCCHHHHHHHHHHhhcCCCcEEEEEccCcCCccCCCceEEEEEEeeCCCceeEeeeeEEe
Q 018450           86 GRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCFSEDANKVGRIQVIAFQSSDGKQNHISKPIALL  163 (355)
Q Consensus        86 ~rgleVVGwYHSHP~~~a~PS~~DI~TQ~~yQ~~~p~~V~LIvSp~~~d~s~~g~~~lrAFRl~dg~~~~i~ipi~v~  163 (355)
                       +|+++||||||||+.+++||..|+.     ++.+++++|||+++..+     +...++||++.+|+..+  +||.+.
T Consensus        72 -~g~~ivG~~HSHP~~~~~PS~~D~~-----~~~~~~~~~lIvs~~~~-----~~~~~~af~~~~~~~~e--~~i~~~  136 (146)
T 2kks_A           72 -NGWVMLGNFHSHPATPARPSAEDKR-----LAFDPSLSYLIISLAEP-----QKPVCKSFLIKKDGVDE--EEIILK  136 (146)
T ss_dssp             -HTCEEEEEEEEESSSCSSCCHHHHT-----TCCSSSCEEEEEECSCS-----SSCEEEEEEECSSCEEE--ECEEEE
T ss_pred             -CCCEEEEEEeCCCcCCCCCCHHHHH-----hhhcCCCeEEEEEccCC-----CceEEEEEEEeCCeEEE--EEEEEe
Confidence             6899999999999999999999998     34568999999998642     35789999997776654  444443
>4b4t_V 26S proteasome regulatory subunit RPN11; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae} Back     alignment and structure
>2kcq_A MOV34/MPN/PAD-1 family; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Salinibacter ruber dsm 13855} Back     alignment and structure
>2znr_A AMSH-like protease; metal binding protein, alternative splicing, hydrolase, metal-binding, metalloprotease, UBL conjugation pathway, zinc; 1.20A {Homo sapiens} PDB: 2znv_A Back     alignment and structure
>3rzv_A STAM-binding protein; ubiquitin hydrolase, endosome-associated deubiquitinat enzyme, hydrolase; 1.67A {Homo sapiens} PDB: 3rzu_A Back     alignment and structure
>2o95_A 26S proteasome non-ATPase regulatory subunit 7; PSMD7, MOV34, JAB1/MPN, metal-free dimer, UN function; HET: SO4 12P ETE PG4 PGE; 1.95A {Homo sapiens} PDB: 2o96_A Back     alignment and structure
>1oi0_A AF2198, hypothetical protein AF2198; proteasome, deubiquitination, archaea, hydrolase; 1.5A {Archaeoglobus fulgidus} SCOP: c.97.3.1 PDB: 1r5x_A Back     alignment and structure
>4e0q_A COP9 signalosome complex subunit 6; MPN (MPR1P and PAD1P N-terminal) domain, unknown function; 2.50A {Drosophila melanogaster} Back     alignment and structure
>4b4t_U RPN8, 26S proteasome regulatory subunit RPN8; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae} Back     alignment and structure
>2og4_A PRE-mRNA-splicing factor 8; isopeptidase, JAB1/MPN domain, protein-PR interaction, PRP8P, pseudoenzyme, spliceosome activation; 2.00A {Saccharomyces cerevisiae} Back     alignment and structure
>2p8r_A PRP8, PRE-mRNA-splicing factor PRP8; alpha-beta, translation; 2.10A {Caenorhabditis elegans} PDB: 2p87_A Back     alignment and structure
>3sbg_A PRE-mRNA-splicing factor 8; PRP8P, rnaseh domain, JAB1/MPN domain; 3.28A {Saccharomyces cerevisiae} Back     alignment and structure
>2qlc_A DNA repair protein RADC homolog; MCSG, structural genomics, PSI-2, structure initiative; HET: DNA; 2.30A {Chlorobium tepidum tls} 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 355
d1oi0a_121 c.97.3.1 (A:) Hypothetical protein AF2198 {Archaeo 7e-07
>d1oi0a_ c.97.3.1 (A:) Hypothetical protein AF2198 {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Length = 121 Back     information, alignment and structure

class: Alpha and beta proteins (a/b)
fold: Cytidine deaminase-like
superfamily: JAB1/MPN domain
family: JAB1/MPN domain
domain: Hypothetical protein AF2198
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

 Score = 45.4 bits (107), Expect = 7e-07
 Identities = 24/115 (20%), Positives = 37/115 (32%), Gaps = 24/115 (20%)

Query: 4   TGVKMSEDVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRKDR 63
           + +K+S  +  T L  A S   +E + LL G         +  LI+   P          
Sbjct: 2   SSMKISRGLLKTILEAAKSAHPDEFIALLSG-----SKDVMDELIF--LPFVSGSVS--- 51

Query: 64  VETNPEQLAAASAQADRMTVLTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQL 118
                     A    D +        +V G  HSHP  +  PS  D+     +  
Sbjct: 52  ----------AVIHLDMLP----IGMKVFGTVHSHPSPSCRPSEEDLSLFTRFGK 92

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query355
d1oi0a_121 Hypothetical protein AF2198 {Archaeon Archaeoglobu 99.84
>d1oi0a_ c.97.3.1 (A:) Hypothetical protein AF2198 {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: Cytidine deaminase-like
superfamily: JAB1/MPN domain
family: JAB1/MPN domain
domain: Hypothetical protein AF2198
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=99.84  E-value=2.7e-21  Score=161.97  Aligned_cols=113  Identities=19%  Similarity=0.156  Sum_probs=79.4

Q ss_pred             cEEEECHHHHHHHHHHHccCCCceeEEEEeeeecCCCCceeEEEEEeeecCCCCCCCCCeeecCHHHHHHHHHHHHHhhh
Q 018450            4 TGVKMSEDVWLTCLTHALSTETEEIMGLLLGDIEHSKNGNVTALIWGASPQSRSDRRKDRVETNPEQLAAASAQADRMTV   83 (355)
Q Consensus         4 ~~V~Is~~vll~Il~HA~s~~P~EvcGLLlG~~~~~~~~~it~~V~~a~P~~nsd~~~~~feiDPeel~~A~~eae~m~~   83 (355)
                      .+|.|+++++..|++||++.+|+|+||+|+|+.+     .    +...+|++|...  +.+...+.       +++    
T Consensus         2 ~~l~I~~~~l~~i~~hA~~~~P~E~cGlL~G~~~-----~----i~~~~~~~n~~~--~~~~~~~~-------~~~----   59 (121)
T d1oi0a_           2 SSMKISRGLLKTILEAAKSAHPDEFIALLSGSKD-----V----MDELIFLPFVSG--SVSAVIHL-------DML----   59 (121)
T ss_dssp             CSCEECHHHHHHHHHHHHHHTTSCCEEEEEESTT-----E----ECEEEECCCCC-------------------------
T ss_pred             CeEEECHHHHHHHHHHHHhcCCceeEEEEEecCC-----c----EEEEEEcCCCCC--Cccccccc-------chh----
Confidence            3578999999999999999999999999999743     1    122345666422  22222221       111    


Q ss_pred             hcCCCceEEEEEecCCCCCCCCCHHHHHHHHHHhhcCCCcEEEEEccCcCCccCCCceEEEEEEeeCCC
Q 018450           84 LTGRTTRVIGWYHSHPHITVLPSHVDVRTQAMYQLLDTGFIGLIFSCFSEDANKVGRIQVIAFQSSDGK  152 (355)
Q Consensus        84 ~~~rgleVVGwYHSHP~~~a~PS~~DI~TQ~~yQ~~~p~~V~LIvSp~~~d~s~~g~~~lrAFRl~dg~  152 (355)
                        ..+++++|||||||+.+++||..|++++     .+++.+|+|+++-.+      ...++||+ .+|+
T Consensus        60 --~~~~~ivgi~HSHP~~~a~PS~~D~~~~-----~~~g~~~~Ivs~p~~------~~~~~~~~-~~G~  114 (121)
T d1oi0a_          60 --PIGMKVFGTVHSHPSPSCRPSEEDLSLF-----TRFGKYHIIVCYPYD------ENSWKCYN-RKGE  114 (121)
T ss_dssp             ---CCCEEEEEEEEESSSCCSCCHHHHHHH-----HHSCSEEEEEETTCC------TTCEEEEE-TTSC
T ss_pred             --hcCCeEEEEEEecCCCCCCcCHHHHHhh-----hccCCEEEEEeCCCC------CCCEEEEe-CCCE
Confidence              2689999999999999999999999853     346899999997432      34689997 4554