6TUN | pdb_00006tun

Helicase domain complex

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D [auth C]		e6tunC1	A: a/b three-layered sandwiches	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F:	ECOD (v294.1)
C [auth D]		e6tunD1	A: a/b three-layered sandwiches	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F:	ECOD (v294.1)
B	Fer4+Fer4_7	e6tunB1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Fer4+Fer4_7	ECOD (v294.1)
A	Fer4+Fer4_7	e6tunA1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Fer4+Fer4_7	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C [auth D], D [auth C]	PF06391	CDK-activating kinase assembly factor MAT1 (MAT1)	CDK-activating kinase assembly factor MAT1	-	Family
A, B	PF06777	Helical and beta-bridge domain (HBB)	Helical and beta-bridge domain	HBB is the domain on DEAD-box eukaryotic DNA repair helicases (EC:3.6.1.-) that appears to be a unique fold. It's conformation is of alpha-helices 12-16 plus a short beta-bridge to the FeS-cluster domain at the N-terminal. The full-length XPD protein ...	HBB is the domain on DEAD-box eukaryotic DNA repair helicases (EC:3.6.1.-) that appears to be a unique fold. It's conformation is of alpha-helices 12-16 plus a short beta-bridge to the FeS-cluster domain at the N-terminal. The full-length XPD protein verifies the presence of damage to DNA and allows DNA repair to proceed. XPD is an assembly of several domains to form a doughnut-shaped molecule that is able to separate two DNA strands and scan the DNA for damage. HBB helps to form the overall DNA-clamping architecture [1]. This family represents a conserved region within a number of eukaryotic DNA repair helicases (EC:3.6.1.-).	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C [auth D], D [auth C]	CDK-activating kinase assembly factor MAT1	cyclin-dependent protein serine/threonine kinase activator activity enzyme regulator activity protein serine/threonine kinase activator activity molecular function activator activity cyclin-dependent protein kinase regulator activity protein kinase regulator activity kinase activator activity enzyme activator activity cyclin-dependent protein serine/threonine kinase regulator activity molecular function regulator activity protein kinase activator activity kinase regulator activity cation binding transition metal ion binding cyclin-dependent protein serine/threonine kinase activator activity enzyme regulator activity protein serine/threonine kinase activator activity molecular function activator activity cyclin-dependent protein kinase regulator activity protein kinase regulator activity kinase activator activity enzyme activator activity cyclin-dependent protein serine/threonine kinase regulator activity molecular function regulator activity protein kinase activator activity kinase regulator activity cation binding transition metal ion binding zinc ion binding ion binding binding metal ion binding small molecule binding	response to stimulus response to metal ion response to chemical response to calcium ion regulation of biological process regulation of cellular process negative regulation of programmed cell death regulation of apoptotic process biological regulation negative regulation of biological process regulation of programmed cell death cell death negative regulation of apoptotic process negative regulation of cellular process response to stimulus response to metal ion response to chemical response to calcium ion regulation of biological process regulation of cellular process negative regulation of programmed cell death regulation of apoptotic process biological regulation negative regulation of biological process regulation of programmed cell death cell death negative regulation of apoptotic process negative regulation of cellular process cellular process apoptotic process programmed cell death RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process DNA-templated transcription initiation RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II biosynthetic process metabolic process macromolecule metabolic process transcription initiation at RNA polymerase II promoter cellular response to stimulus DNA metabolic process cellular response to stress DNA damage response response to stress DNA repair mitotic cell cycle process cell cycle phase transition cell cycle G1/S transition of mitotic cell cycle cell cycle G1/S phase transition mitotic cell cycle mitotic cell cycle phase transition cell cycle process cell population proliferation regulation of smooth muscle cell proliferation positive regulation of cell population proliferation positive regulation of biological process smooth muscle cell proliferation positive regulation of smooth muscle cell proliferation regulation of cell population proliferation muscle cell proliferation positive regulation of cellular process nucleotide-excision repair regulation of primary metabolic process regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II regulation of biosynthetic process regulation of macromolecule metabolic process regulation of gene expression regulation of macromolecule biosynthetic process regulation of DNA-templated transcription regulation of metabolic process developmental process heart development multicellular organism development multicellular organismal process anatomical structure development animal organ development adult heart development circulatory system development system development regulation of cell cycle phase transition regulation of cell cycle process regulation of cell cycle G1/S phase transition regulation of mitotic cell cycle phase transition regulation of mitotic cell cycle regulation of G1/S transition of mitotic cell cycle regulation of cell cycle head development brain development nervous system development central nervous system development ventricular system development	protein kinase complex transferase complex, transferring phosphorus-containing groups protein-containing complex catalytic complex serine/threonine protein kinase complex cyclin-dependent protein kinase holoenzyme complex transferase complex RNA polymerase II transcription regulator complex membrane-bounded organelle intracellular anatomical structure transcription factor TFIIH core complex nucleus nuclear protein-containing complex transcription regulator complex protein kinase complex transferase complex, transferring phosphorus-containing groups protein-containing complex catalytic complex serine/threonine protein kinase complex cyclin-dependent protein kinase holoenzyme complex transferase complex RNA polymerase II transcription regulator complex membrane-bounded organelle intracellular anatomical structure transcription factor TFIIH core complex nucleus nuclear protein-containing complex transcription regulator complex intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure organelle RNA polymerase II, holoenzyme membrane-enclosed lumen intracellular organelle lumen nucleoplasm transcription factor TFIIH holo complex transcription factor TFIIK complex nuclear DNA-directed RNA polymerase complex organelle lumen carboxy-terminal domain protein kinase complex RNA polymerase complex nuclear cyclin-dependent protein kinase holoenzyme complex DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen CAK-ERCC2 complex
A, B	General transcription and DNA repair factor IIH helicase subunit XPD	iron-sulfur cluster binding binding 4 iron, 4 sulfur cluster binding metal cluster binding small molecule binding protein-macromolecule adaptor activity molecular adaptor activity adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding iron-sulfur cluster binding binding 4 iron, 4 sulfur cluster binding metal cluster binding small molecule binding protein-macromolecule adaptor activity molecular adaptor activity adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding cation binding metal ion binding nucleic acid conformation isomerase activity isomerase activity DNA helicase activity catalytic activity, acting on a nucleic acid helicase activity ATP-dependent activity ATP-dependent activity, acting on DNA catalytic activity, acting on DNA 5'-3' DNA helicase activity catalytic activity macromolecular conformation isomerase activity DNA binding damaged DNA binding nucleic acid binding pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides	developmental process stem cell proliferation cell population proliferation cellular developmental process hemopoiesis cell differentiation anatomical structure development hematopoietic stem cell proliferation cell development cellular process multicellular organism development multicellular organismal process embryonic cleavage cell division developmental process stem cell proliferation cell population proliferation cellular developmental process hemopoiesis cell differentiation anatomical structure development hematopoietic stem cell proliferation cell development cellular process multicellular organism development multicellular organismal process embryonic cleavage cell division embryo development ossification bone mineralization animal organ development biomineral tissue development tissue development cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation signal transduction by p53 class mediator cell death intracellular signal transduction cell communication apoptotic signaling pathway intrinsic apoptotic signaling pathway by p53 class mediator signal transduction apoptotic process intrinsic apoptotic signaling pathway programmed cell death cell cycle chromosome segregation cell cycle process cellular component organization extracellular matrix organization cellular component organization or biogenesis extracellular structure organization external encapsulating structure organization transcription-coupled nucleotide-excision repair primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process cellular response to stress nucleotide-excision repair DNA damage response response to stress metabolic process macromolecule metabolic process DNA repair cell surface receptor signaling pathway insulin-like growth factor receptor signaling pathway cell surface receptor protein tyrosine kinase signaling pathway enzyme-linked receptor protein signaling pathway embryo development ending in birth or egg hatching chordate embryonic development in utero embryonic development embryonic organ development regulation of cell cycle phase transition regulation of cell cycle process cell cycle phase transition mitotic cell cycle regulation of mitotic cell cycle phase transition regulation of mitotic cell cycle mitotic cell cycle process regulation of cell cycle mitotic cell cycle phase transition response to decreased oxygen levels response to hypoxia response to oxygen levels response to abiotic stimulus regulation of DNA recombination positive regulation of biological process positive regulation of mitotic recombination regulation of mitotic recombination regulation of primary metabolic process positive regulation of metabolic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process positive regulation of cellular process positive regulation of DNA recombination DNA recombination mitotic recombination regulation of macromolecule metabolic process positive regulation of DNA metabolic process regulation of metabolic process regulation of DNA metabolic process multicellular organism growth developmental growth growth cellular component assembly involved in morphogenesis glial cell development myelin assembly cellular component biogenesis neurogenesis cellular anatomical entity morphogenesis cellular component assembly gliogenesis axon ensheathment ensheathment of neurons system development oligodendrocyte development central nervous system myelination nervous system development central nervous system myelin formation myelination anatomical structure morphogenesis axon ensheathment in central nervous system central nervous system development oligodendrocyte differentiation glial cell differentiation anatomical structure formation involved in morphogenesis epithelium development epidermal cell differentiation epidermis development epithelial cell differentiation hair cell differentiation generation of neurons neuron differentiation spinal cord development ribonucleoprotein complex biogenesis RNA metabolic process rRNA processing maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) RNA biosynthetic process ribosome biogenesis nucleic acid biosynthetic process maturation of SSU-rRNA RNA processing rRNA metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process ribosomal small subunit biogenesis biosynthetic process DNA-templated transcription transcription by RNA polymerase II response to light stimulus response to radiation response to UV UV protection determination of adult lifespan stem cell differentiation hematopoietic stem cell differentiation hematopoietic progenitor cell differentiation DNA-templated transcription initiation transcription initiation at RNA polymerase II promoter molting cycle process hair cycle developmental maturation skin development anatomical structure maturation skin epidermis development hair follicle development molting cycle hair cycle process hair follicle maturation regulation of RNA metabolic process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II regulation of biosynthetic process regulation of gene expression regulation of macromolecule biosynthetic process regulation of DNA-templated transcription response to oxidative stress transcription elongation by RNA polymerase I DNA-templated transcription elongation transcription by RNA polymerase I post-embryonic development erythrocyte development homeostatic process erythrocyte maturation erythrocyte differentiation multicellular organismal-level homeostasis myeloid cell differentiation immune system process myeloid cell development homeostasis of number of cells cell maturation myeloid cell homeostasis erythrocyte homeostasis	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol RNA polymerase II transcription regulator complex membrane-bounded organelle protein-containing complex transcription factor TFIIH core complex nucleus nuclear protein-containing complex transcription regulator complex intracellular membrane-bounded organelle intracellular organelle organelle cellular anatomical structure intracellular anatomical structure cytoplasm cytosol RNA polymerase II transcription regulator complex membrane-bounded organelle protein-containing complex transcription factor TFIIH core complex nucleus nuclear protein-containing complex transcription regulator complex intracellular membrane-bounded organelle intracellular organelle organelle RNA polymerase II, holoenzyme membrane-enclosed lumen transferase complex intracellular organelle lumen nucleoplasm catalytic complex transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex organelle lumen RNA polymerase complex transcription factor TFIID complex DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen cytoskeleton spindle membraneless organelle intracellular membraneless organelle microtubule cytoskeleton CAK-ERCC2 complex protein kinase complex transcription factor TFIIH holo complex cyclin-dependent protein kinase holoenzyme complex carboxy-terminal domain protein kinase complex serine/threonine protein kinase complex nuclear cyclin-dependent protein kinase holoenzyme complex MMXD complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth D], D [auth C]	IPR057657	MAT1, C-terminal CAK anchor	Domain
C [auth D], D [auth C]	IPR017907	Zinc finger, RING-type, conserved site	Conserved Site
C [auth D], D [auth C]	IPR004575	Cdk-activating kinase assembly factor MAT1/Tfb3	Family
C [auth D], D [auth C]	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
C [auth D], D [auth C]	IPR015877	MAT1, centre	Domain
C [auth D], D [auth C]	IPR003903	Ubiquitin interacting motif	Conserved Site
C [auth D], D [auth C]	IPR001841	Zinc finger, RING-type	Domain
A, B	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, B	IPR006554	Helicase-like, DEXD box c2 type	Domain
A, B	IPR010614	RAD3-like helicase, DEAD	Domain
A, B	IPR001945	RAD3/XPD	Family
A, B	IPR013020	ATP-dependent helicase Rad3/Chl1-like	Family
A, B	IPR010643	Helical and beta-bridge domain	Domain
A, B	IPR045028	Helicase superfamily 1/2, DinG/Rad3-like	Family
A, B	IPR002464	DNA/RNA helicase, ATP-dependent, DEAH-box type, conserved site	Conserved Site
A, B	IPR006555	ATP-dependent helicase, C-terminal	Domain
A, B	IPR014013	Helicase superfamily 1/2, ATP-binding domain, DinG/Rad3-type	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C [auth D], D [auth C]	Pharos: P51948	lung cancer prostate carcinoma
A, B	Pharos: P18074	xeroderma pigmentosum photosensitive trichothiodystrophy cerebrooculofacioskeletal syndrome 2 skin neoplasm trichothiodystrophy Cockayne syndrome xeroderma pigmentosum group D squamous cell carcinoma sunburn prostate cancer cataract Occupational Diseases skin cancer trichothiodystrophy 1, photosensitive COFS syndrome xeroderma pigmentosum photosensitive trichothiodystrophy cerebrooculofacioskeletal syndrome 2 skin neoplasm trichothiodystrophy Cockayne syndrome xeroderma pigmentosum group D squamous cell carcinoma sunburn prostate cancer cataract Occupational Diseases skin cancer trichothiodystrophy 1, photosensitive COFS syndrome epidermolytic hyperkeratosis urinary bladder cancer colorectal cancer leukodystrophy peripheral nervous system disease skin basal cell carcinoma bladder benign neoplasm urinary bladder carcinoma colorectal carcinoma gastric neoplasm peripheral neuropathy bladder carcinoma in situ cerebrooculofacioskeletal syndrome 1 urinary bladder neoplasm xeroderma pigmentosum-Cockayne syndrome complex hereditary diffuse gastric adenocarcinoma intellectual disability melanoma skin disease cutaneous melanoma gastric cancer

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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.