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AT5G41370.1
Subcellular Consensus
(Prediction and Experimental)

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SUBAcon:
nucleus 1.000
ASURE: nucleus
What is SUBAcon?
What is ASURE?
SUBAcon computations
Experimental Localisations and PPI
FP MS/MS PPI
SUBAcon links
AGI-AGI relationships
Coexpression PPI
no coexpression data no PPI data
Description (TAIR10) protein_coding : homolog of xeroderma pigmentosum complementation group B 1
Curator
Summary (TAIR10)
Encodes XPB1, a DNA repair protein and transcription factor. Arabidopsis thaliana has duplicated XPB gene (AtXPB1 and AtXPB2, with high similarity to each other). XPB proteins are involved in both DNA repair and transcription, they are component of the transcription factor IIH (TFIIH) and are responsible for DNA helicase activity during nucleotide (nt) excision repair (NER). Complementation assays in yeast rad25 mutant strains suggest the involvement of AtXPB2 in DNA repair. Although both genes are expressed in a constitutive manner during the plant life cycle, Northern blot analyses suggest that light modulates the expression level of both XPB copies.
Computational
Description (TAIR10)
homolog of xeroderma pigmentosum complementation group B 1 (XPB1); FUNCTIONS IN: in 7 functions; INVOLVED IN: response to UV, response to toxin; LOCATED IN: nucleus, cytoplasm; EXPRESSED IN: whole plant, male gametophyte, pollen tube; EXPRESSED DURING: L mature pollen stage, M germinated pollen stage, seedling growth; CONTAINS InterPro DOMAIN/s: Restriction endonuclease, type I, R subunit/Type III, Res subunit (InterPro:IPR006935), DEAD-like helicase, N-terminal (InterPro:IPR014001), Xeroderma pigmentosum group B protein (XP-B) (InterPro:IPR001161), DNA/RNA helicase, C-terminal (InterPro:IPR001650), Helicase, superfamily 1/2, ATP-binding domain (InterPro:IPR014021); BEST Arabidopsis thaliana protein match is: homolog of Xeroderma pigmentosum complementation group B 2 (TAIR:AT5G41360.1); Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12; Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses - 0; Other Eukaryotes - 2996 (source: NCBI BLink).
Protein Annotations
BioCyc:ARA:GQT-1908-MONOMERBioGrid:19390EC:3.6.4.12eggNOG:COG1061eggNOG:KOG1123EMBL:AB006707EMBL:AY039547
EMBL:AY113008EMBL:AY550923EMBL:CP002688EMBL:U29168EnsemblPlants:AT5G41370EnsemblPlants:AT5G41370.1entrez:834139
Gene3D:3.40.50.300GeneID:834139Genevisible:Q38861GO:GO:0003677GO:GO:0004003GO:GO:0005524GO:GO:0005634
GO:GO:0005737GO:GO:0006289GO:GO:0006355GO:GO:0006367GO:GO:0009411Gramene:AT5G41370.1hmmpanther:PTHR11274
hmmpanther:PTHR11274:SF0HOGENOM:HOG000160172InParanoid:Q38861IntAct:Q38861InterPro:IPR001161InterPro:IPR001650InterPro:IPR006935
InterPro:IPR014001InterPro:IPR027417InterPro:IPR032438InterPro:IPR032830iPTMnet:Q38861KEGG:ath:AT5G41370KO:K10843
MINT:MINT-8070993OMA:REREWGLPaxDb:Q38861Pfam:PF04851Pfam:PF13625Pfam:PF16203Pfam:Q38861
Pfscan:PS51192Pfscan:PS51194PhylomeDB:Q38861PIR:S71206PRIDE:Q38861PRO:PR:Q38861PROSITE:PS51192
PROSITE:PS51194ProteinModelPortal:Q38861Proteomes:UP000006548Reactome:R-ATH-113418Reactome:R-ATH-5696395Reactome:R-ATH-5696400Reactome:R-ATH-674695
Reactome:R-ATH-6781823Reactome:R-ATH-6782135Reactome:R-ATH-6782210Reactome:R-ATH-72086Reactome:R-ATH-73776Reactome:R-ATH-73779Reactome:R-ATH-75953
Reactome:R-ATH-76042Reactome:R-ATH-77075RefSeq:NP_568592.1SMART:SM00487SMART:SM00490SMR:Q38861STRING:3702.AT5G41370.1
SUPFAM:SSF52540TAIR:AT5G41370tair10-symbols:ATXPB1tair10-symbols:XPB1TIGRfam:TIGR00603TIGRFAMs:TIGR00603UniGene:At.6482
UniProt:Q38861
Coordinates (TAIR10) chr5:+:16551337..16555792
Molecular Weight (calculated) 87067.20 Da
IEP (calculated) 8.26
GRAVY (calculated) -0.54
Length 767 amino acids
Sequence (TAIR10)
(BLAST)
001: MGNGERGRPN KKMKYGGKDD QKMKNIQNAE DYYDDADEDS RDGEGEEKKR DFTKLELKPD HGNRPLWACA DGRIFLETFS PLYKQAYDFL IAIAEPVCRP
101: ESMHEYNLTP HSLYAAVSVG LETETIISVL NKLSKTKLPK EMIEFIHAST ANYGKVKLVL KKNRYFIESP FPEVLKRLLS DDVINRARFS SEPYYGGDGF
201: SVGRTCGELE AGPGELLNEA EFAAAAEEKE THSFEIDPAQ VENVKQRCLP NALNYPMLEE YDFRNDNVNP DLDMELKPHA QPRPYQEKSL SKMFGNGRAR
301: SGIIVLPCGA GKSLVGVSAA ARIKKSCLCL ATNAVSVDQW AFQFKLWSTI RDDQICRFTS DSKERFRGNA GVVVTTYNMV AFGGKRSEES EKIIEEMRNR
401: EWGLLLMDEV HVVPAHMFRK VISITKSHCK LGLTATLVRE DERITDLNFL IGPKLYEANW LDLVKGGFIA NVQCAEVWCP MTKEFFAEYL KKENSKKKQA
501: LYVMNPNKFR ACEFLIRFHE QQRGDKIIVF ADNLFALTEY AMKLRKPMIY GATSHIERTK ILEAFKTSKD VNTVFLSKVG DNSIDIPEAN VIIQISSHAG
601: SRRQEAQRLG RILRAKGKLE DRMAGGKEEY NAFFYSLVST DTQEMYYSTK RQQFLIDQGY SFKVITSLPP PDAGSSLSYH SQEEQLSLLG KVMNAGDDLV
701: GLEQLEEDTD GMALQKARRS MGSMSVMSGS KGMVYMEYNS GRHKSGQQFK KPKDPTKRHN LFKKRYV
See Also
Citation
If you find this resource useful please cite one of the following publications:

Hooper CM, Castleden I, Tanz SK, Aryamanesh, and Millar, AH (2017) SUBA4: the interactive data analysis centre for Arabidopsis subcellular protein locations Nucleic Acids Res. Jan 4;45(D1):D1064-D1074. doi: 10.1093/nar/gkw1041 (PubMed)

Hooper CM, Tanz SK, Castleden IR, Vacher MA, Small ID, Millar AH (2014) "SUBAcon: a consensus algorithm for unifying the subcellular localization data of the Arabidopsis proteome. Bioinformatics." 1;30(23):3356-64. (Bioinformatics) (PubMed)