3K0H | pdb_00003k0h

The crystal structure of BRCA1 BRCT in complex with a minimal recognition tetrapeptide with an amidated C-terminus

External Resource: Annotation

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
Protein Modification Annotation

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	BRCT domain-like	8041661	3000159	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	BRCT domain-like	8041659	3000159	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)
A	PTCB-BRCT	e3k0hA1	A: a/b three-layered sandwiches	X: BRCT domain (From Topology)	H: BRCT domain (From Topology)	T: BRCT domain	F: PTCB-BRCT	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.50.10190	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	BRCT domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00533	BRCA1 C Terminus (BRCT) domain (BRCT)	BRCA1 C Terminus (BRCT) domain	The BRCT domain is found predominantly in proteins involved in cell cycle checkpoint functions responsive to DNA damage. The BRCT domain of XRCC1 forms a homodimer in the crystal structure. This suggests that pairs of BRCT domains associate as homo- ...	The BRCT domain is found predominantly in proteins involved in cell cycle checkpoint functions responsive to DNA damage. The BRCT domain of XRCC1 forms a homodimer in the crystal structure. This suggests that pairs of BRCT domains associate as homo- or heterodimers. BRCT domains are often found as tandem-repeat pairs [2]. Structures of the BRCA1 BRCT domains revealed a basis for a widely utilised head-to-tail BRCT-BRCT oligomerisation mode [3]. This conserved tandem BRCT architecture facilitates formation of the canonical BRCT phospho-peptide interaction cleft at a groove between the BRCT domains. Disease associated missense and nonsense mutations in the BRCA1 BRCT domains disrupt peptide binding by directly occluding this peptide binding groove, or by disrupting key conserved BRCT core folding determinants [5].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Breast cancer type 1 susceptibility protein	aminoacyltransferase activity histone H2A ubiquitin ligase activity catalytic activity, acting on a protein acyltransferase activity transferase activity histone ubiquitin ligase activity ubiquitin-protein transferase activity ubiquitin-like protein transferase activity histone H2AK129 ubiquitin ligase activity ubiquitin-like protein ligase activity ubiquitin protein ligase activity histone modifying activity catalytic activity DNA binding aminoacyltransferase activity histone H2A ubiquitin ligase activity catalytic activity, acting on a protein acyltransferase activity transferase activity histone ubiquitin ligase activity ubiquitin-protein transferase activity ubiquitin-like protein transferase activity histone H2AK129 ubiquitin ligase activity ubiquitin-like protein ligase activity ubiquitin protein ligase activity histone modifying activity catalytic activity DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding binding double-stranded DNA binding nucleic acid binding transcription regulatory region nucleic acid binding ubiquitin protein ligase binding protein binding ubiquitin-like protein ligase binding enzyme binding identical protein binding histone H2AK127 ubiquitin ligase activity p53 binding ubiquitin-modified protein reader activity ubiquitin-modified histone reader activity histone reader activity chromatin-protein adaptor activity protein-macromolecule adaptor activity ubiquitin-like protein reader activity molecular adaptor activity cytoskeletal protein binding tubulin binding transcription coactivator activity transcription regulator activity transcription coregulator activity RNA polymerase binding DNA-binding transcription factor activity DNA-binding transcription activator activity RNA binding damaged DNA binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process regulation of biosynthetic process regulation of biological process regulation of cellular process biological regulation positive regulation of biological process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process regulation of biosynthetic process regulation of biological process regulation of cellular process biological regulation positive regulation of biological process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process positive regulation of macromolecule biosynthetic process regulation of gene expression positive regulation of metabolic process biosynthetic process positive regulation of gene expression positive regulation of biosynthetic process regulation of macromolecule biosynthetic process metabolic process positive regulation of macromolecule metabolic process macromolecule metabolic process regulation of metabolic process positive regulation of cellular process cell cycle chromosome segregation cell cycle process extrinsic apoptotic signaling pathway via death domain receptors signaling negative regulation of signaling negative regulation of biological process regulation of signal transduction regulation of programmed cell death extrinsic apoptotic signaling pathway negative regulation of cell communication cell communication negative regulation of extrinsic apoptotic signaling pathway negative regulation of apoptotic signaling pathway negative regulation of cellular process signal transduction regulation of signaling cell surface receptor signaling pathway negative regulation of response to stimulus negative regulation of programmed cell death regulation of apoptotic process negative regulation of extrinsic apoptotic signaling pathway via death domain receptors cell death negative regulation of signal transduction regulation of extrinsic apoptotic signaling pathway apoptotic signaling pathway negative regulation of apoptotic process regulation of response to stimulus regulation of extrinsic apoptotic signaling pathway via death domain receptors regulation of cell communication apoptotic process programmed cell death regulation of apoptotic signaling pathway negative regulation of cell cycle regulation of cell cycle protein autoubiquitination primary metabolic process protein ubiquitination macromolecule modification protein metabolic process post-translational protein modification protein modification process protein modification by small protein conjugation protein modification by small protein conjugation or removal response to ionizing radiation cellular response to ionizing radiation response to radiation response to abiotic stimulus cellular response to radiation cellular response to abiotic stimulus cellular response to environmental stimulus regulation of growth regulation of cellular component organization growth negative regulation of cell growth regulation of cell growth cell growth cellular component organization negative regulation of growth cellular component organization or biogenesis nucleobase-containing compound metabolic process homologous recombination DNA recombination DNA metabolic process nucleic acid metabolic process regulation of cytoskeleton organization negative regulation of centriole replication microtubule cytoskeleton organization membraneless organelle assembly negative regulation of organelle assembly cellular component biogenesis centrosome duplication negative regulation of centrosome cycle cellular component assembly centrosome cycle negative regulation of centrosome duplication regulation of centriole replication centriole replication centriole assembly microtubule organizing center organization organelle assembly negative regulation of cellular component organization regulation of cell cycle process negative regulation of cytoskeleton organization regulation of centrosome cycle regulation of microtubule-based process negative regulation of cell cycle process regulation of cellular component biogenesis regulation of organelle organization organelle organization negative regulation of organelle organization regulation of centrosome duplication regulation of organelle assembly microtubule-based process cytoskeleton organization regulation of cellular response to stress regulation of primary metabolic process positive regulation of response to stimulus positive regulation of DNA repair regulation of response to stress regulation of nucleobase-containing compound metabolic process DNA repair positive regulation of nucleobase-containing compound metabolic process regulation of DNA repair positive regulation of DNA metabolic process regulation of DNA metabolic process DNA damage checkpoint signaling regulation of cell cycle phase transition cell cycle phase transition intracellular signal transduction regulation of cell cycle checkpoint regulation of intracellular signal transduction negative regulation of cell cycle phase transition DNA integrity checkpoint signaling cell cycle checkpoint signaling signal transduction in response to DNA damage regulation of DNA damage checkpoint protein K6-linked ubiquitination protein polyubiquitination negative regulation of metabolic process reactive oxygen species metabolic process negative regulation of reactive oxygen species metabolic process regulation of reactive oxygen species metabolic process sex-chromosome dosage compensation epigenetic regulation of gene expression chromatin organization chromatin remodeling intracellular receptor signaling pathway response to lipid negative regulation of intracellular signal transduction hormone-mediated signaling pathway negative regulation of intracellular steroid hormone receptor signaling pathway cellular response to endogenous stimulus response to hormone response to steroid hormone regulation of intracellular steroid hormone receptor signaling pathway regulation of intracellular estrogen receptor signaling pathway nuclear receptor-mediated steroid hormone signaling pathway cellular response to steroid hormone stimulus negative regulation of intracellular estrogen receptor signaling pathway steroid hormone receptor signaling pathway cellular response to hormone stimulus response to endogenous stimulus estrogen receptor signaling pathway cellular response to chemical stimulus response to chemical cellular response to lipid nuclear receptor-mediated signaling pathway G2/M transition of mitotic cell cycle mitotic cell cycle negative regulation of mitotic cell cycle mitotic G2/M transition checkpoint regulation of mitotic cell cycle cell cycle G2/M phase transition negative regulation of mitotic cell cycle phase transition regulation of G2/M transition of mitotic cell cycle regulation of cell cycle G2/M phase transition regulation of mitotic cell cycle phase transition mitotic cell cycle checkpoint signaling mitotic cell cycle process negative regulation of cell cycle G2/M phase transition negative regulation of G2/M transition of mitotic cell cycle mitotic cell cycle phase transition positive regulation of DNA-templated transcription RNA metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II positive regulation of transcription by RNA polymerase II nucleobase-containing compound biosynthetic process positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process regulation of DNA-templated transcription negative regulation of macromolecule metabolic process random inactivation of X chromosome heterochromatin formation negative regulation of gene expression negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process dosage compensation by inactivation of X chromosome negative regulation of gene expression, epigenetic negative regulation of RNA biosynthetic process negative regulation of nucleobase-containing compound metabolic process negative regulation of DNA-templated transcription negative regulation of RNA metabolic process negative regulation of gene expression via chromosomal CpG island methylation multicellular organismal process regulation of cytokine production cytokine production regulation of multicellular organismal process regulation of vascular endothelial growth factor production vascular endothelial growth factor production positive regulation of multicellular organismal process positive regulation of vascular endothelial growth factor production positive regulation of cytokine production postreplication repair response to peptide cellular response to tumor necrosis factor response to cytokine cellular response to cytokine stimulus response to tumor necrosis factor DNA-templated DNA replication DNA-templated DNA replication maintenance of fidelity DNA replication DNA strand resection involved in replication fork processing replication fork processing developmental process multicellular organism development embryo development ending in birth or egg hatching chordate embryonic development anatomical structure development embryo development intrinsic apoptotic signaling pathway in response to DNA damage intrinsic apoptotic signaling pathway fatty acid metabolic process monocarboxylic acid biosynthetic process small molecule biosynthetic process oxoacid metabolic process carboxylic acid metabolic process lipid biosynthetic process organic acid biosynthetic process organic acid metabolic process fatty acid biosynthetic process carboxylic acid biosynthetic process small molecule metabolic process monocarboxylic acid metabolic process lipid metabolic process mitotic G2 DNA damage checkpoint signaling mitotic DNA integrity checkpoint signaling mitotic DNA damage checkpoint signaling double-strand break repair recombinational repair double-strand break repair via homologous recombination regulation of developmental process angiogenesis regulation of vasculature development positive regulation of developmental process tube morphogenesis regulation of anatomical structure morphogenesis blood vessel development system development regulation of multicellular organismal development blood vessel morphogenesis tube development positive regulation of angiogenesis vasculature development circulatory system development anatomical structure morphogenesis positive regulation of vasculature development regulation of angiogenesis anatomical structure formation involved in morphogenesis cellular response to nitrogen compound response to alcohol response to oxygen-containing compound response to nitrogen compound cellular response to oxygen-containing compound cellular response to alcohol response to indole-3-methanol cellular response to indole-3-methanol negative regulation of small molecule metabolic process ketone metabolic process regulation of lipid metabolic process negative regulation of lipid biosynthetic process regulation of small molecule metabolic process negative regulation of fatty acid biosynthetic process negative regulation of fatty acid metabolic process regulation of ketone metabolic process regulation of fatty acid metabolic process regulation of fatty acid biosynthetic process regulation of lipid biosynthetic process negative regulation of lipid metabolic process	membrane-bounded organelle intracellular organelle protein-containing complex cellular anatomical structure intracellular anatomical structure BRCA1-C complex organelle nucleus nuclear protein-containing complex intracellular membrane-bounded organelle catalytic complex DNA repair complex XY body sex chromosome membrane-bounded organelle intracellular organelle protein-containing complex cellular anatomical structure intracellular anatomical structure BRCA1-C complex organelle nucleus nuclear protein-containing complex intracellular membrane-bounded organelle catalytic complex DNA repair complex XY body sex chromosome membraneless organelle intracellular membraneless organelle chromosome cytoplasm male germ cell nucleus germ cell nucleus ubiquitin ligase complex transferase complex intracellular protein-containing complex nuclear ubiquitin ligase complex BRCA1-BARD1 complex cell periphery plasma membrane membrane membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen BRCA1-A complex BRCA1-B complex condensed nuclear chromosome nuclear chromosome lateral element synaptonemal structure synaptonemal complex condensed chromosome gamma-tubulin ring complex gamma-tubulin complex microtubule organizing center cytoskeleton microtubule cytoskeleton ribonucleoprotein complex nuclear body
B	phospho peptide	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR031099	BRCA1-associated	Family
A	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
A	IPR025994	BRCA1, serine-rich domain	Domain
A	IPR001841	Zinc finger, RING-type	Domain
A	IPR011364	Breast cancer type 1 susceptibility protein (BRCA1)	Family
A	IPR001357	BRCT domain	Domain
A	IPR036420	BRCT domain superfamily	Homologous Superfamily
A	IPR018957	Zinc finger, C3HC4 RING-type	Domain
A	IPR017907	Zinc finger, RING-type, conserved site	Conserved Site

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P38398	prostate cancer ovarian cancer breast cancer breast-ovarian cancer, familial, susceptibility to, 1 hereditary breast ovarian cancer syndrome cancer carcinoma Mammary Neoplasms, Experimental adenoid cystic carcinoma mouth disease malignant pancreatic neoplasm salivary gland adenoid cystic carcinoma exocrine pancreatic carcinoma ovarian carcinoma lung cancer prostate cancer ovarian cancer breast cancer breast-ovarian cancer, familial, susceptibility to, 1 hereditary breast ovarian cancer syndrome cancer carcinoma Mammary Neoplasms, Experimental adenoid cystic carcinoma mouth disease malignant pancreatic neoplasm salivary gland adenoid cystic carcinoma exocrine pancreatic carcinoma ovarian carcinoma lung cancer breast carcinoma sarcomatoid carcinoma sporadic breast cancer colorectal cancer depressive disorder fallopian tube cancer Fanconi anemia hereditary breast carcinoma ovarian neoplasm Li-Fraumeni syndrome pancreatic intraductal papillary-mucinous neoplasm benign neoplasm of pancreas Lynch syndrome peripheral neuropathy malignant mesothelioma primitive neuroectodermal tumor schizophrenia undifferentiated carcinoma congenital anemia familial pancreatic carcinoma Fanconi anemia complementation group A non-small cell lung carcinoma glioblastoma pancreatic cancer, susceptibility to, 4 BAP1-related tumor predisposition syndrome lung adenocarcinoma pancreatic neoplasm breast adenocarcinoma malignant colon neoplasm peritoneal carcinoma prostate adenocarcinoma mammary neoplasms, animal serous adenocarcinoma medulloblastoma nasopharyngeal carcinoma familial prostate carcinoma Fanconi anemia, complementation group S osteosarcoma hematopoietic and lymphoid system neoplasm anemia large cell medulloblastoma pancreatic intraductal papillary-mucinous carcinoma benign neoplasm peripheral nervous system disease malignant ependymoma primary peritoneal carcinoma cholangiocarcinoma

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
B	NH2	RESID: AA0081 , AA0083 , AA0084 , AA0086 , AA0087 , AA0088 , AA0090 , AA0091 , AA0092 , AA0093 , AA0095 , AA0096 , AA0097 , AA0098 , AA0099 , AA0100 PSI-MOD : L-alanine amide MOD:00090 , L-asparagine amide MOD:00092 , L-aspartic acid 1-amide MOD:00093 , L-glutamine amide MOD:00095 , L-glutamic acid 1-amide MOD:00096 , glycine amide MOD:00097 , L-isoleucine amide MOD:00099 , L-leucine amide MOD:00100 , L-lysine amide MOD:00101 , L-methionine amide MOD:00102 , L-proline amide MOD:00104 , L-serine amide MOD:00105 , L-threonine amide MOD:00106 , L-tryptophan amide MOD:00107 , L-tyrosine amide MOD:00108 , L-valine amide MOD:00109
B	SEP	Parent Component: SER RESID: AA0081 , AA0083 , AA0084 , AA0086 , AA0087 , AA0088 , AA0090 , AA0091 , AA0092 , AA0093 , AA0095 , AA0096 , AA0097 , AA0098 , AA0099 , AA0100 , AA0037 PSI-MOD : L-alanine amide MOD:00090 , L-asparagine amide MOD:00092 , L-aspartic acid 1-amide MOD:00093 , L-glutamine amide MOD:00095 , L-glutamic acid 1-amide MOD:00096 , glycine amide MOD:00097 , L-isoleucine amide MOD:00099 , L-leucine amide MOD:00100 , L-lysine amide MOD:00101 , L-methionine amide MOD:00102 , L-proline amide MOD:00104 , L-serine amide MOD:00105 , L-threonine amide MOD:00106 , L-tryptophan amide MOD:00107 , L-tyrosine amide MOD:00108 , L-valine amide MOD:00109 , O-phospho-L-serine MOD:00046

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.