6J44 | pdb_00006j44

Crystal structure of the redefined DNA-binding domain of human XPA

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	beta-hairpin DNA-binding domain-like	8036686	3002139	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Glucocorticoid receptor-like (DNA-binding domain)	8039080	3000068	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	XPA_C	e6j44A1	A: alpha arrays	X: HTH	H: HTH	T: Putative DNA-binding domain	F: XPA_C	ECOD (1.6)
A	XPA_N	e6j44A2	A: few secondary structure elements	X: Glucocorticoid receptor-like	H: LIM domain-like	T: LIM domain-like	F: XPA_N	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.90.530.10	Alpha Beta	Alpha-Beta Complex	Nucleotide Excision Repair Protein XPA (XPA-MBD)	B Chain A	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF01286	XPA protein N-terminal (XPA_N)	XPA protein N-terminal		Domain
A	PF05181	XPA protein C-terminus (XPA_C)	XPA protein C-terminus		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	DNA repair protein complementing XP-A cells	protein binding binding protein domain specific binding DNA binding damaged DNA binding nucleic acid binding identical protein binding protein homodimerization activity protein dimerization activity cation binding transition metal ion binding zinc ion binding ion binding metal ion binding protein binding binding protein domain specific binding DNA binding damaged DNA binding nucleic acid binding identical protein binding protein homodimerization activity protein dimerization activity cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding sequence-specific DNA binding sequence-specific double-stranded DNA binding double-stranded DNA binding	response to stimulus response to chemical response to toxic substance response to light stimulus response to radiation response to abiotic stimulus response to UV UV protection regulation of cellular process positive regulation of DNA-templated transcription positive regulation of biological process RNA metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process response to stimulus response to chemical response to toxic substance response to light stimulus response to radiation response to abiotic stimulus response to UV UV protection regulation of cellular process positive regulation of DNA-templated transcription positive regulation of biological process RNA metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription positive regulation of metabolic process regulation of DNA-templated transcription initiation regulation of RNA metabolic process transcription by RNA polymerase II positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process transcription initiation at RNA polymerase II promoter positive regulation of cellular process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of transcription by RNA polymerase II regulation of biological process positive regulation of transcription initiation by RNA polymerase II biological regulation primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression positive regulation of transcription by RNA polymerase II macromolecule biosynthetic process nucleic acid metabolic process DNA-templated transcription initiation positive regulation of DNA-templated transcription initiation positive regulation of RNA metabolic process regulation of gene expression biosynthetic process positive regulation of RNA biosynthetic process regulation of transcription initiation by RNA polymerase II cellular process metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process cellular response to stimulus signaling cell death intracellular signal transduction cell communication apoptotic signaling pathway cellular response to stress DNA damage response response to stress intrinsic apoptotic signaling pathway in response to DNA damage signal transduction apoptotic process intrinsic apoptotic signaling pathway programmed cell death DNA metabolic process nucleotide-excision repair involved in interstrand cross-link repair nucleotide-excision repair interstrand cross-link repair DNA repair base-excision repair nucleotide-excision repair, DNA damage recognition chromosome organization cellular component organization organelle organization cellular component organization or biogenesis cellular response to environmental stimulus cellular response to light stimulus cellular response to radiation UV-damage excision repair cellular response to abiotic stimulus cellular response to UV catabolic process autophagy regulation of catabolic process regulation of autophagy process utilizing autophagic mechanism response to oxidative stress developmental process multicellular organism growth multicellular organismal process developmental growth growth localization protein localization to organelle macromolecule localization protein localization to nucleus intracellular protein localization	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen protein-containing complex nuclear protein-containing complex nucleotide-excision repair factor 1 complex nucleotide-excision repair complex intracellular membraneless organelle nuclear body membraneless organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR009061	Putative DNA-binding domain superfamily	Homologous Superfamily
A	IPR022656	XPA, C-terminal	Domain
A	IPR022652	Zinc finger, XPA-type, conserved site	Conserved Site
A	IPR000465	XPA/RAD14	Family
A	IPR037129	XPA domain superfamily	Homologous Superfamily
A	IPR022658	XPA, conserved site	Conserved Site

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P23025	xeroderma pigmentosum skin basal cell carcinoma skin neoplasm xeroderma pigmentosum group A intestinal cancer liver cancer Micronuclei, Chromosome-Defective skin cancer thyroid gland carcinoma Cockayne syndrome hyperthyroidism melanoma ovarian cancer skin pigmented basal cell carcinoma trichothiodystrophy xeroderma pigmentosum skin basal cell carcinoma skin neoplasm xeroderma pigmentosum group A intestinal cancer liver cancer Micronuclei, Chromosome-Defective skin cancer thyroid gland carcinoma Cockayne syndrome hyperthyroidism melanoma ovarian cancer skin pigmented basal cell carcinoma trichothiodystrophy cutaneous melanoma hypothyroidism intestinal neoplasm liver neoplasm pancreatic intraductal papillary-mucinous neoplasm squamous cell carcinoma Hashimoto thyroiditis intellectual disability malignant mesothelioma osteosarcoma progressive supranuclear palsy

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.