5GRQ | pdb_00005grq

Crystal Structure of DHB domain of Daxx in complex with an ATRX peptide

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
B	Daxx	e5grqB1	A: alpha bundles	X: N-cbl like	H: DAXX helical bundle domain (From Topology)	T: DAXX helical bundle domain	F: Daxx	ECOD (1.6)
A	Daxx	e5grqA1	A: alpha bundles	X: N-cbl like	H: DAXX helical bundle domain (From Topology)	T: DAXX helical bundle domain	F: Daxx	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	1.10.8.810	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
A	1.10.8.810	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF03344	Daxx N-terminal Rassf1C-interacting domain (Daxx)	Daxx N-terminal Rassf1C-interacting domain	The Daxx protein (also known as the Fas-binding protein) is thought to play a role in apoptosis. Daxx forms a complex with Axin [1]. Remodelling of the family to a short domain based on the PDB:2kzs structure gives a more representative family. DAXX ...	The Daxx protein (also known as the Fas-binding protein) is thought to play a role in apoptosis. Daxx forms a complex with Axin [1]. Remodelling of the family to a short domain based on the PDB:2kzs structure gives a more representative family. DAXX is a scaffold protein shown to play diverse roles in transcription and cell cycle regulation. This N-terminal domain folds into a left-handed four-helix bundle (H1, H2, H4, H5) that binds to the N-terminal residues of the tumour-suppressor Rassf1C [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C, D	Transcriptional regulator ATRX	histone H3K9me2/3 reader activity histone reader activity histone H3 reader activity chromatin-protein adaptor activity protein-macromolecule adaptor activity molecular adaptor activity protein binding binding histone binding chromo shadow domain binding protein domain specific binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding histone H3K9me2/3 reader activity histone reader activity histone H3 reader activity chromatin-protein adaptor activity protein-macromolecule adaptor activity molecular adaptor activity protein binding binding histone binding chromo shadow domain binding protein domain specific binding 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 small molecule binding nucleic acid conformation isomerase activity isomerase activity catalytic activity, acting on a nucleic acid helicase activity macromolecular conformation isomerase activity catalytic activity ATP-dependent activity chromatin binding DNA binding nucleic acid binding chromatin DNA binding ATP-dependent activity, acting on DNA catalytic activity, acting on DNA DNA translocase activity 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 cation binding transition metal ion binding zinc ion binding metal ion binding	developmental process multicellular organismal process limb development appendage development post-embryonic appendage morphogenesis forelimb morphogenesis multicellular organism development anatomical structure morphogenesis post-embryonic limb morphogenesis appendage morphogenesis anatomical structure development post-embryonic animal morphogenesis post-embryonic forelimb morphogenesis post-embryonic development developmental process multicellular organismal process limb development appendage development post-embryonic appendage morphogenesis forelimb morphogenesis multicellular organism development anatomical structure morphogenesis post-embryonic limb morphogenesis appendage morphogenesis anatomical structure development post-embryonic animal morphogenesis post-embryonic forelimb morphogenesis post-embryonic development limb morphogenesis spermatogenesis sexual reproduction reproductive process multicellular organismal reproductive process developmental process involved in reproduction male gamete generation gamete generation DNA-templated DNA replication DNA-templated DNA replication maintenance of fidelity primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process DNA replication metabolic process cellular process macromolecule metabolic process replication fork processing regulation of maintenance of mitotic sister chromatid cohesion mitotic sister chromatid cohesion, telomeric negative regulation of maintenance of sister chromatid cohesion regulation of cellular component organization regulation of cellular process negative regulation of maintenance of mitotic sister chromatid cohesion mitotic sister chromatid cohesion regulation of maintenance of mitotic sister chromatid cohesion, telomeric negative regulation of biological process negative regulation of cell cycle maintenance of sister chromatid cohesion maintenance of mitotic sister chromatid cohesion, telomeric cellular component organization negative regulation of sister chromatid cohesion negative regulation of chromosome organization maintenance of mitotic sister chromatid cohesion negative regulation of cellular process cellular component organization or biogenesis cell cycle regulation of cell cycle cell cycle process regulation of biological process negative regulation of cellular component organization regulation of cell cycle process biological regulation chromosome organization sister chromatid cohesion regulation of chromosome organization negative regulation of cell cycle process regulation of organelle organization negative regulation of maintenance of mitotic sister chromatid cohesion, telomeric regulation of maintenance of sister chromatid cohesion organelle organization negative regulation of organelle organization regulation of sister chromatid cohesion RNA metabolic process regulation of primary metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process regulation of gene expression biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription regulation of metabolic process microtubule cytoskeleton organization meiotic cell cycle meiotic spindle organization meiotic cell cycle process microtubule-based process cytoskeleton organization spindle organization subtelomeric heterochromatin formation cellular component biogenesis cellular component assembly chromatin organization chromatin remodeling negative regulation of macromolecule metabolic process heterochromatin formation epigenetic regulation of gene expression negative regulation of metabolic process heterochromatin organization negative regulation of gene expression constitutive heterochromatin formation negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of gene expression, epigenetic cellular response to stimulus response to stimulus cellular response to stress DNA damage response response to stress DNA repair localization protein localization to chromosome protein localization to organelle macromolecule localization protein localization to chromosome, telomeric region intracellular protein localization positive regulation of organelle organization regulation of telomere maintenance positive regulation of cellular component organization positive regulation of biological process telomere organization positive regulation of metabolic process positive regulation of macromolecule metabolic process positive regulation of cellular process positive regulation of telomere maintenance positive regulation of chromosome organization telomere maintenance positive regulation of DNA metabolic process regulation of DNA metabolic process cellular developmental process sex differentiation cell development epithelial cell differentiation Sertoli cell differentiation male gonad development male sex differentiation development of primary male sexual characteristics development of primary sexual characteristics cell differentiation reproductive structure development system development epithelium development gonad development reproductive system development Sertoli cell development animal organ development tissue development epithelial cell development multicellular organism growth developmental growth growth positive regulation of DNA-templated transcription positive regulation of macromolecule biosynthetic process transcription by RNA polymerase II positive regulation of biosynthetic process regulation of transcription by RNA polymerase II positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process tube development seminiferous tubule development chromosome organization involved in meiotic cell cycle protein-containing complex organization protein-DNA complex assembly protein-DNA complex organization protein-containing complex assembly nucleosome assembly nucleosome organization positive regulation of DNA replication nuclear DNA replication cell cycle DNA replication positive regulation of nuclear cell cycle DNA replication positive regulation of cell cycle process regulation of nuclear cell cycle DNA replication positive regulation of cell cycle regulation of DNA-templated DNA replication positive regulation of DNA-templated DNA replication regulation of DNA replication head development forebrain development brain development nervous system development central nervous system development signaling signal transduction by p53 class mediator DNA damage response, signal transduction by p53 class mediator intracellular signal transduction cell communication signal transduction in response to DNA damage signal transduction cellular response to nitrogen compound cellular response to hydroxyurea cellular response to chemical stimulus response to hydroxyurea response to chemical response to nitrogen compound	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen nuclear chromosome intracellular membraneless organelle chromosome intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen nuclear chromosome intracellular membraneless organelle chromosome intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle nuclear lumen chromatin heterochromatin chromosome, telomeric region chromosomal region nucleoplasm chromosome, subtelomeric region pericentric heterochromatin chromosome, centromeric region condensed chromosome, centromeric region condensed chromosome nuclear body PML body
A, B	Death domain-associated protein 6	p53 binding protein binding binding histone binding molecular function inhibitor activity molecular function regulator activity transcription regulator inhibitor activity transcription factor binding RNA polymerase II-specific DNA-binding transcription factor binding DNA-binding transcription factor binding molecular condensate scaffold activity protein-macromolecule adaptor activity molecular adaptor activity enzyme regulator activity p53 binding protein binding binding histone binding molecular function inhibitor activity molecular function regulator activity transcription regulator inhibitor activity transcription factor binding RNA polymerase II-specific DNA-binding transcription factor binding DNA-binding transcription factor binding molecular condensate scaffold activity protein-macromolecule adaptor activity molecular adaptor activity enzyme regulator activity kinase activator activity enzyme activator activity molecular function activator activity protein kinase activator activity protein kinase regulator activity kinase regulator activity transcription coactivator activity transcription regulator activity transcription coregulator activity heat shock protein binding nuclear receptor binding nuclear androgen receptor binding transcription corepressor activity identical protein binding protein homodimerization activity protein dimerization activity kinase binding enzyme binding protein kinase binding ubiquitin protein ligase binding ubiquitin-like protein ligase binding	regulation of cellular process negative regulation of biological process RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of cellular process negative regulation of biological process RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process negative regulation of DNA-templated transcription regulation of biological process negative regulation of metabolic process biological regulation primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process metabolic process cellular process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of RNA metabolic process cellular response to stimulus cellular response to arsenic-containing substance response to stimulus response to sodium arsenite response to arsenic-containing substance cellular response to chemical stimulus response to chemical cellular response to salt cellular response to sodium arsenite response to salt intracellular receptor signaling pathway response to lipid signaling hormone-mediated signaling pathway intracellular signal transduction cell communication cellular response to endogenous stimulus response to hormone response to steroid hormone androgen receptor signaling pathway signal transduction nuclear receptor-mediated steroid hormone signaling pathway cellular response to steroid hormone stimulus steroid hormone receptor signaling pathway cellular response to hormone stimulus response to endogenous stimulus cellular response to lipid nuclear receptor-mediated signaling pathway cellular response to heat cellular response to stress response to stress response to heat response to abiotic stimulus response to temperature stimulus regulation of apoptotic process apoptotic process regulation of programmed cell death cell death programmed cell death extrinsic apoptotic signaling pathway via death domain receptors cell surface receptor signaling pathway extrinsic apoptotic signaling pathway apoptotic signaling pathway response to copper ion cellular response to metal ion response to metal ion cellular response to copper ion protein-containing complex organization protein-DNA complex assembly cellular component organization protein-DNA complex organization cellular component biogenesis cellular component assembly chromatin organization protein-containing complex assembly chromatin remodeling cellular component organization or biogenesis nucleosome assembly nucleosome organization JNK cascade intracellular signaling cassette MAPK cascade regulation of protein modification process regulation of post-translational protein modification regulation of protein metabolic process regulation of protein ubiquitination protein ubiquitination macromolecule modification protein metabolic process regulation of protein modification by small protein conjugation or removal protein modification process post-translational protein modification protein modification by small protein conjugation protein modification by small protein conjugation or removal cellular response to topologically incorrect protein response to topologically incorrect protein cellular response to unfolded protein response to unfolded protein intrinsic apoptotic signaling pathway in response to oxidative stress neuron apoptotic process neuron intrinsic apoptotic signaling pathway in response to oxidative stress intrinsic apoptotic signaling pathway cellular response to nitrogen compound response to diamide cellular response to diamide response to nitrogen compound negative regulation of gene expression cellular response to cadmium ion response to cadmium ion	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle nuclear lumen membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle nuclear lumen cytoplasm cytosol chromosome, centromeric region chromosome chromosomal region nucleoplasm nuclear body PML body

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C, D	IPR049730	SNF2/RAD5-like, C-terminal helicase domain	Domain
C, D	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
C, D	IPR001650	Helicase, C-terminal domain-like	Domain
C, D	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
C, D	IPR014001	Helicase superfamily 1/2, ATP-binding domain	Domain
C, D	IPR052131	ATRX domain-containing protein	Family
C, D	IPR041430	ATRX, ADD domain	Domain
C, D	IPR025766	ADD domain	Domain
C, D	IPR000330	SNF2, N-terminal	Domain
C, D	IPR011011	Zinc finger, FYVE/PHD-type	Homologous Superfamily
C, D	IPR038718	SNF2-like, N-terminal domain superfamily	Homologous Superfamily
A, B	IPR046378	Daxx, histone-binding domain	Domain
A, B	IPR031333	Daxx, N-terminal Rassf1C-interacting domain	Domain
A, B	IPR038298	Daxx, N-terminal domain superfamily	Homologous Superfamily
A, B	IPR046426	Daxx, histone-binding domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C, D	Pharos: P46100	alpha thalassemia-X-linked intellectual disability syndrome alpha-thalassemia-myelodysplastic syndrome intellectual disability malignant glioma myelodysplastic syndrome neuroblastoma glioblastoma mixed glioma neuroendocrine neoplasm Craniofacial Abnormalities salivary gland adenoid cystic carcinoma thoracic disease X-linked intellectual disability-hypotonic face syndrome adenoid cystic carcinoma autism, susceptibility to, X-linked 2 alpha thalassemia-X-linked intellectual disability syndrome alpha-thalassemia-myelodysplastic syndrome intellectual disability malignant glioma myelodysplastic syndrome neuroblastoma glioblastoma mixed glioma neuroendocrine neoplasm Craniofacial Abnormalities salivary gland adenoid cystic carcinoma thoracic disease X-linked intellectual disability-hypotonic face syndrome adenoid cystic carcinoma autism, susceptibility to, X-linked 2 cryptorchidism penile disease psoriasis Smith-Fineman-Myers syndrome ulcerative colitis lung adenocarcinoma malignant ependymoma malignant pancreatic neoplasm astrocytic tumor congenital anemia pancreatic endocrine carcinoma Pick disease rheumatoid arthritis glioma spinal cord disease hereditary spastic paraplegia Juberg-Marsidi syndrome lung cancer acute myeloid leukemia medulloblastoma atypical teratoid rhabdoid tumor brain disease osteogenesis imperfecta pancreatic neoplasm diabetes mellitus genetic endocrine growth disease large cell medulloblastoma lymphoplasmacytic lymphoma arthrogryposis microcephaly cancer ovarian cancer
A, B	Pharos: Q9UER7	adrenal cortex carcinoma neuroendocrine neoplasm adrenal carcinoma cervical cancer lung cancer triple-negative breast carcinoma endogenous depression Malignant neoplasm of pancreas pancreatic endocrine carcinoma autism spectrum disorder glioblastoma malignant pancreatic neoplasm pancreatic neoplasm

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.