1UFI | pdb_00001ufi

Crystal structure of the dimerization domain of human CENP-B

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)
D	d1ufid1	All alpha proteins	ROP-like	Dimerisation domain of CENP-B	Dimerisation domain of CENP-B	Dimerisation domain of CENP-B	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D	d1ufid2	Artifacts	Tags	Tags	Tags	N-terminal Tags	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d1ufic1	All alpha proteins	ROP-like	Dimerisation domain of CENP-B	Dimerisation domain of CENP-B	Dimerisation domain of CENP-B	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d1ufic2	Artifacts	Tags	Tags	Tags	N-terminal Tags	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d1ufib_	All alpha proteins	ROP-like	Dimerisation domain of CENP-B	Dimerisation domain of CENP-B	Dimerisation domain of CENP-B	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d1ufia1	All alpha proteins	ROP-like	Dimerisation domain of CENP-B	Dimerisation domain of CENP-B	Dimerisation domain of CENP-B	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d1ufia2	Artifacts	Tags	Tags	Tags	N-terminal Tags	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)
D	SCOP2B Superfamily	Dimerisation domain of CENP-B	8041777	3000881	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Dimerisation domain of CENP-B	8041777	3000881	SCOP2B (2022-06-29)
B	SCOP2 Family	Dimerisation domain of CENP-B	8029398	4000650	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	Dimerisation domain of CENP-B	8041777	3000881	SCOP2 (2022-06-29)
A	SCOP2B Superfamily	Dimerisation domain of CENP-B	8041777	3000881	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)
D	Tryp_alpha_amyl	e1ufiD1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: Ankyrin repeat	T: Ankyrin repeat	F: Tryp_alpha_amyl	ECOD (v294.1)
C	Tryp_alpha_amyl	e1ufiC1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: Ankyrin repeat	T: Ankyrin repeat	F: Tryp_alpha_amyl	ECOD (v294.1)
B	RecR_HhH	e1ufiB1	A: a/b three-layered sandwiches	X: Repetitive alpha hairpins	H: ARM repeat	T: ARM repeat	F: RecR_HhH	ECOD (v294.1)
A	CENP-B_dimeris	e1ufiA1	A: alpha bundles	X: ROP-like	H: Dimerisation domain of CENP-B	T: Dimerisation domain of CENP-B	F: CENP-B_dimeris	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	1.10.287.1090	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Dimerisation domain of CENP-B	CATH (4.3.0)
C	1.10.287.1090	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Dimerisation domain of CENP-B	CATH (4.3.0)
B	1.10.287.1090	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Dimerisation domain of CENP-B	CATH (4.3.0)
A	1.10.287.1090	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Dimerisation domain of CENP-B	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF09026	Centromere protein B dimerisation domain (CENP-B_dimeris)	Centromere protein B dimerisation domain	The centromere protein B (CENP-B) dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antipara ...	The centromere protein B (CENP-B) dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Major centromere autoantigen B	DNA binding binding nucleic acid binding sequence-specific DNA binding sequence-specific double-stranded DNA binding double-stranded DNA binding satellite DNA binding centromeric DNA binding chromatin binding	-	intracellular organelle cellular anatomical structure intracellular anatomical structure organelle membraneless organelle intracellular membraneless organelle chromosome chromosome, centromeric region chromosomal region condensed chromosome, centromeric region condensed chromosome membrane-bounded organelle nucleus membrane-enclosed lumen intracellular organelle cellular anatomical structure intracellular anatomical structure organelle membraneless organelle intracellular membraneless organelle chromosome chromosome, centromeric region chromosomal region condensed chromosome, centromeric region condensed chromosome membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nuclear body nucleoplasm organelle lumen nuclear lumen pericentric heterochromatin chromatin heterochromatin

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR009057	Homedomain-like superfamily	Homologous Superfamily
A, B, C, D	IPR015115	Centromere protein CENP-B, C-terminal domain	Domain
A, B, C, D	IPR004875	DDE superfamily endonuclease domain	Domain
A, B, C, D	IPR034882	CENP-B, dimerisation domain superfamily	Homologous Superfamily
A, B, C, D	IPR006600	HTH CenpB-type DNA-binding domain	Domain
A, B, C, D	IPR007889	DNA binding HTH domain, Psq-type	Domain
A, B, C, D	IPR050863	Centromere and Transposable Element-Derived Protein	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D	Pharos: P07199	atypical teratoid rhabdoid tumor malignant glioma glioblastoma malignant mesothelioma large cell medulloblastoma osteosarcoma

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.