4CZ6 | pdb_00004cz6

Truncated tetramerization domain of zebrafish p53 (crystal form II)

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
D	d4cz6d1	All alpha proteins	p53 tetramerization domain	p53 tetramerization domain	automated matches	automated matches	ZEBRAFISH (Danio rerio ) [TaxId: 7955 ],	SCOPe (2.08)
D	d4cz6d2	Artifacts	Tags	Tags	Tags	N-terminal Tags	ZEBRAFISH (Danio rerio ) [TaxId: 7955 ],	SCOPe (2.08)
C	d4cz6c_	All alpha proteins	p53 tetramerization domain	p53 tetramerization domain	automated matches	automated matches	ZEBRAFISH (Danio rerio ) [TaxId: 7955 ],	SCOPe (2.08)
B	d4cz6b_	All alpha proteins	p53 tetramerization domain	p53 tetramerization domain	automated matches	automated matches	ZEBRAFISH (Danio rerio ) [TaxId: 7955 ],	SCOPe (2.08)
A	d4cz6a1	All alpha proteins	p53 tetramerization domain	p53 tetramerization domain	automated matches	automated matches	ZEBRAFISH (Danio rerio ) [TaxId: 7955 ],	SCOPe (2.08)
A	d4cz6a2	Artifacts	Tags	Tags	Tags	N-terminal Tags	ZEBRAFISH (Danio rerio ) [TaxId: 7955 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	p53 tetramerization domain	8072265	3000414	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	p53 tetramerization domain	8072265	3000414	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	p53 tetramerization domain	8072265	3000414	SCOP2B (2022-06-29)
A	SCOP2 Family	p53 tetramerization domain	8072264	4001003	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	p53 tetramerization domain	8072265	3000414	SCOP2 (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	HicA_toxin	e4cz6D1	A: alpha bundles	X: Middle and GTPase effector domains in dynamin-related proteins	H: Middle and GTPase effector domains in dynamin-related proteins	T: Middle and GTPase effector domains in dynamin-related proteins	F: HicA_toxin	ECOD (develop294)
C	HicA_toxin	e4cz6C1	A: alpha bundles	X: Middle and GTPase effector domains in dynamin-related proteins	H: Middle and GTPase effector domains in dynamin-related proteins	T: Middle and GTPase effector domains in dynamin-related proteins	F: HicA_toxin	ECOD (develop294)
B	HicA_toxin	e4cz6B1	A: alpha bundles	X: Middle and GTPase effector domains in dynamin-related proteins	H: Middle and GTPase effector domains in dynamin-related proteins	T: Middle and GTPase effector domains in dynamin-related proteins	F: HicA_toxin	ECOD (develop294)
A	HicA_toxin	e4cz6A1	A: alpha bundles	X: Middle and GTPase effector domains in dynamin-related proteins	H: Middle and GTPase effector domains in dynamin-related proteins	T: Middle and GTPase effector domains in dynamin-related proteins	F: HicA_toxin	ECOD (develop294)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF07710	P53 tetramerisation motif (P53_tetramer)	P53 tetramerisation motif	-	Motif

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	CELLULAR TUMOR ANTIGEN P53	sequence-specific DNA binding DNA binding binding nucleic acid binding chromatin binding promoter-specific chromatin binding DNA-binding transcription factor activity, RNA polymerase II-specific transcription regulator activity DNA-binding transcription factor activity cation binding ion binding metal ion binding small molecule binding double-stranded DNA binding sequence-specific DNA binding DNA binding binding nucleic acid binding chromatin binding promoter-specific chromatin binding DNA-binding transcription factor activity, RNA polymerase II-specific transcription regulator activity DNA-binding transcription factor activity cation binding ion binding metal ion binding small molecule binding double-stranded DNA binding RNA polymerase II transcription regulatory region sequence-specific DNA binding cis-regulatory region sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding transcription regulatory region nucleic acid binding RNA polymerase II cis-regulatory region sequence-specific DNA binding molecular condensate scaffold activity protein-macromolecule adaptor activity molecular adaptor activity	cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process developmental process spermatogenesis sexual reproduction reproductive process multicellular organismal reproductive process developmental process involved in reproduction male gamete generation gamete generation cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process developmental process spermatogenesis sexual reproduction reproductive process multicellular organismal reproductive process developmental process involved in reproduction male gamete generation gamete generation tissue morphogenesis anatomical structure morphogenesis epithelium development epidermis morphogenesis epidermis development anatomical structure development morphogenesis of an epithelium tissue development multicellular organismal process erythrocyte development cellular developmental process homeostatic process hemopoiesis cell development erythrocyte differentiation multicellular organismal-level homeostasis myeloid cell differentiation immune system process cell differentiation myeloid cell development homeostasis of number of cells myeloid cell homeostasis erythrocyte homeostasis response to chemical response to methylmercury cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein complex oligomerization protein tetramerization protein-containing complex assembly cellular component organization or biogenesis response to decreased oxygen levels cellular response to oxygen levels cellular response to hypoxia cellular response to decreased oxygen levels cellular response to chemical stimulus response to hypoxia response to oxygen levels response to abiotic stimulus catabolic process autophagy metabolic process process utilizing autophagic mechanism response to X-ray response to ionizing radiation response to radiation apoptotic process cell death programmed cell death regulation of biological process regulation of cellular process negative regulation of cellular process biological regulation negative regulation of biological process negative regulation of cell cycle cell cycle regulation of cell cycle positive regulation of programmed cell death regulation of apoptotic process positive regulation of biological process regulation of programmed cell death positive regulation of apoptotic process positive regulation of cellular process neuron apoptotic process positive regulation of neuron apoptotic process regulation of neuron apoptotic process cellular senescence regulation of protein stability regulation of biological quality response to light stimulus response to UV hematopoietic stem cell homeostasis system process epithelial structure maintenance digestive system process intestinal epithelial structure maintenance tissue homeostasis maintenance of gastrointestinal epithelium digestion anatomical structure homeostasis definitive hemopoiesis negative regulation of cell division cell division regulation of cell division positive regulation of DNA-templated transcription 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 positive regulation of metabolic process DNA-templated transcription 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 regulation of RNA biosynthetic process regulation of biosynthetic process regulation of transcription by RNA polymerase II primary metabolic process regulation of macromolecule metabolic process positive regulation of transcription by RNA polymerase II nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process positive regulation of RNA metabolic process regulation of gene expression biosynthetic process positive regulation of RNA biosynthetic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process DNA damage checkpoint signaling regulation of cell cycle phase transition signaling cell cycle phase transition intracellular signal transduction cell communication negative regulation of cell cycle phase transition signal transduction cell cycle process regulation of cell cycle process DNA integrity checkpoint signaling negative regulation of cell cycle process cell cycle checkpoint signaling signal transduction in response to DNA damage cellular response to growth factor stimulus cell surface receptor protein serine/threonine kinase signaling pathway cell surface receptor signaling pathway cellular response to transforming growth factor beta stimulus response to endogenous stimulus cellular response to endogenous stimulus response to transforming growth factor beta transforming growth factor beta receptor signaling pathway response to growth factor transforming growth factor beta receptor superfamily signaling pathway enzyme-linked receptor protein signaling pathway positive regulation of cell cycle negative regulation of macromolecule metabolic process retrotransposition negative regulation of metabolic process transposition negative regulation of gene expression negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process transposable element silencing apoptotic signaling pathway intrinsic apoptotic signaling pathway regulation of signal transduction regulation of intrinsic apoptotic signaling pathway regulation of intracellular signal transduction regulation of signal transduction by p53 class mediator regulation of signaling signal transduction by p53 class mediator regulation of response to stimulus regulation of cell communication intrinsic apoptotic signaling pathway by p53 class mediator regulation of intrinsic apoptotic signaling pathway by p53 class mediator regulation of apoptotic signaling pathway regulation of double-strand break repair regulation of cellular response to stress regulation of response to stress DNA repair double-strand break repair DNA metabolic process regulation of DNA repair regulation of DNA metabolic process regulation of developmental process regulation of oogenesis regulation of reproductive process cellular process involved in reproduction in multicellular organism regulation of cell differentiation female gamete generation regulation of cell development regulation of multicellular organismal process oogenesis germ cell development cell population proliferation regulation of cell population proliferation apoptotic process involved in morphogenesis blood vessel morphogenesis tube development vasculature development circulatory system development apoptotic process involved in development multicellular organism development tube morphogenesis apoptotic process involved in blood vessel morphogenesis blood vessel development system development DNA damage response, signal transduction by p53 class mediator intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator intrinsic apoptotic signaling pathway in response to DNA damage angiogenesis regulation of vasculature development regulation of anatomical structure morphogenesis regulation of multicellular organismal development negative regulation of blood vessel morphogenesis negative regulation of developmental process negative regulation of angiogenesis negative regulation of vasculature development regulation of angiogenesis anatomical structure formation involved in morphogenesis negative regulation of multicellular organismal process erythrocyte maturation developmental maturation anatomical structure maturation cell maturation	cellular anatomical structure intracellular anatomical structure cytoplasm intracellular organelle organelle membraneless organelle intracellular membraneless organelle chromatin chromosome membrane-bounded organelle mitochondrion intracellular membrane-bounded organelle nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR012346	p53/RUNT-type transcription factor, DNA-binding domain superfamily	Homologous Superfamily
A, B, C, D	IPR036674	p53-like tetramerisation domain superfamily	Homologous Superfamily
A, B, C, D	IPR011615	p53, DNA-binding domain	Domain
A, B, C, D	IPR057064	p53, central conserved site	Conserved Site
A, B, C, D	IPR002117	p53 tumour suppressor family	Family
A, B, C, D	IPR008967	p53-like transcription factor, DNA-binding domain superfamily	Homologous Superfamily
A, B, C, D	IPR010991	p53, tetramerisation domain	Domain

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.