3NQJ | pdb_00003nqj

Crystal structure of (CENP-A/H4)2 heterotetramer

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
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: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B	d3nqjb_	All alpha proteins	Histone-fold	Histone-fold	Nucleosome core histones	Histone H4	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d3nqja_	All alpha proteins	Histone-fold	Histone-fold	Nucleosome core histones	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	Core histone-like	8070545	3001387	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Core histone-like	8070539	3001387	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)
B	Sdh_cyt	e3nqjB1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Sdh_cyt	ECOD (v294.1)
A	Sdh_cyt	e3nqjA1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Sdh_cyt	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	1.10.20.10	Mainly Alpha	Orthogonal Bundle	Histone, subunit A	Histone, subunit A	CATH (4.3.0)
A	1.10.20.10	Mainly Alpha	Orthogonal Bundle	Histone, subunit A	Histone, subunit A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00125	Core histone H2A/H2B/H3/H4 domain (Histone)	Core histone H2A/H2B/H3/H4 domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B	Histone H4	DNA binding binding nucleic acid binding protein heterodimerization activity protein binding protein dimerization activity RNA binding structural molecule activity structural constituent of chromatin	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 process cellular component organization or biogenesis nucleosome assembly nucleosome organization organelle organization 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 process cellular component organization or biogenesis nucleosome assembly nucleosome organization organelle organization telomere organization chromosome organization localization protein localization to chromatin protein localization to chromosome protein localization to chromosome, centromeric region protein localization to organelle macromolecule localization protein localization to CENP-A containing chromatin intracellular protein localization multicellular organismal process regulation of cellular process regulation of developmental process cellular developmental process regulation of megakaryocyte differentiation negative regulation of biological process cell development megakaryocyte differentiation regulation of cell differentiation regulation of cell development multicellular organism development negative regulation of megakaryocyte differentiation cell differentiation negative regulation of cellular process anatomical structure development negative regulation of cell differentiation regulation of immune system process regulation of multicellular organismal process developmental process regulation of biological process regulation of multicellular organismal development negative regulation of developmental process hemopoiesis regulation of myeloid cell differentiation biological regulation negative regulation of myeloid cell differentiation myeloid cell differentiation immune system process regulation of hemopoiesis	cellular anatomical structure membrane extracellular region extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle organelle vesicle extracellular membrane-bounded organelle protein-containing complex intracellular anatomical structure CENP-A containing chromatin protein-DNA complex cellular anatomical structure membrane extracellular region extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle organelle vesicle extracellular membrane-bounded organelle protein-containing complex intracellular anatomical structure CENP-A containing chromatin protein-DNA complex intracellular membraneless organelle nucleosome chromosome chromatin chromosomal region intracellular organelle chromosome, centromeric core domain CENP-A containing nucleosome membraneless organelle chromosome, centromeric region chromosome, telomeric region nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen
A	Histone H3-like centromeric protein A	DNA binding binding nucleic acid binding chromatin binding protein heterodimerization activity protein binding protein dimerization activity structural molecule activity structural constituent of chromatin	organelle assembly protein-containing complex organization chromosome organization membraneless organelle assembly CENP-A containing chromatin assembly cellular component organization cellular component biogenesis organelle organization cellular component assembly chromatin organization kinetochore assembly protein-containing complex assembly kinetochore organization cellular process organelle assembly protein-containing complex organization chromosome organization membraneless organelle assembly CENP-A containing chromatin assembly cellular component organization cellular component biogenesis organelle organization cellular component assembly chromatin organization kinetochore assembly protein-containing complex assembly kinetochore organization cellular process cellular component organization or biogenesis establishment of organelle localization cellular localization microtubule cytoskeleton organization spindle localization establishment or maintenance of cell polarity mitotic cell cycle localization establishment of mitotic spindle localization establishment of spindle localization establishment of spindle orientation organelle localization establishment of localization in cell cell cycle microtubule cytoskeleton organization involved in mitosis cell cycle process establishment of localization establishment of cell polarity mitotic cell cycle process establishment of mitotic spindle orientation microtubule-based process cytoskeleton organization cytoskeleton-dependent cytokinesis mitotic cytokinesis cytokinesis cell division protein localization to chromosome, centromeric region protein localization to chromosome protein localization to organelle macromolecule localization intracellular protein localization protein localization to chromatin protein localization to CENP-A containing chromatin	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol intracellular organelle organelle membraneless organelle chromosome, centromeric region intracellular membraneless organelle chromosome chromosomal region condensed chromosome, centromeric region condensed chromosome protein-containing complex cellular anatomical structure intracellular anatomical structure cytoplasm cytosol intracellular organelle organelle membraneless organelle chromosome, centromeric region intracellular membraneless organelle chromosome chromosomal region condensed chromosome, centromeric region condensed chromosome protein-containing complex CENP-A containing chromatin protein-DNA complex nucleosome chromatin chromosome, centromeric core domain CENP-A containing nucleosome membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen pericentric heterochromatin heterochromatin

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B	IPR009072	Histone-fold	Homologous Superfamily
B	IPR035425	CENP-T/Histone H4, histone fold	Domain
B	IPR001951	Histone H4	Family
B	IPR019809	Histone H4, conserved site	Conserved Site
B	IPR004823	TATA box binding protein associated factor (TAF), histone-like fold domain	Domain
A	IPR009072	Histone-fold	Homologous Superfamily
A	IPR007125	Core Histone H2A/H2B/H3 domain	Domain
A	IPR000164	Histone H3/CENP-A	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B	Pharos: P62805	lung carcinoma Malignant neoplasm of breast non-small cell lung carcinoma Pick disease acute myeloid leukemia squamous cell lung carcinoma atypical teratoid rhabdoid tumor breast carcinoma ductal breast carcinoma in situ exocrine pancreatic carcinoma hepatocellular carcinoma lung adenocarcinoma malignant colon neoplasm malignant pancreatic neoplasm osteoarthritis lung carcinoma Malignant neoplasm of breast non-small cell lung carcinoma Pick disease acute myeloid leukemia squamous cell lung carcinoma atypical teratoid rhabdoid tumor breast carcinoma ductal breast carcinoma in situ exocrine pancreatic carcinoma hepatocellular carcinoma lung adenocarcinoma malignant colon neoplasm malignant pancreatic neoplasm osteoarthritis pilocytic astrocytoma allergic rhinitis ulcerative colitis autism spectrum disorder cystic fibrosis endogenous depression glioblastoma hypertensive disorder lung cancer malignant mesothelioma multiple sclerosis osteosarcoma psoriasis astrocytic tumor breast cancer diabetes mellitus endometriosis gout invasive ductal breast carcinoma
A	Pharos: P49450	medulloblastoma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm ulcerative colitis adrenal cortex carcinoma breast cancer endometriosis hypertensive disorder large cell medulloblastoma malignant colon neoplasm malignant mesothelioma nasopharyngeal carcinoma ovarian cancer primitive neuroectodermal tumor atopic eczema medulloblastoma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm ulcerative colitis adrenal cortex carcinoma breast cancer endometriosis hypertensive disorder large cell medulloblastoma malignant colon neoplasm malignant mesothelioma nasopharyngeal carcinoma ovarian cancer primitive neuroectodermal tumor atopic eczema breast carcinoma glioblastoma IgA glomerulonephritis lung adenocarcinoma malignant ependymoma malignant pancreatic neoplasm non-small cell lung carcinoma pancreatic intraductal papillary-mucinous carcinoma psoriasis atypical teratoid rhabdoid tumor ductal breast carcinoma in situ hepatocellular carcinoma invasive ductal breast carcinoma lung cancer malignant glioma

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.