2AZM

Crystal structure of the MDC1 brct repeat in complex with the histone tail of gamma-H2AX

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	8090395	3000159	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	BRCT domain-like	8090394	3000159	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	BRCT domain-like	8090394	3000159	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	BRCT domain-like	8090395	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	PF16589	e2azmA2	A: a/b three-layered sandwiches	X: BRCT domain (From Topology)	H: BRCT domain (From Topology)	T: BRCT domain	F: PF16589	ECOD (1.6)
A	PF16770	e2azmA3	A: a/b three-layered sandwiches	X: BRCT domain (From Topology)	H: BRCT domain (From Topology)	T: BRCT domain	F: PF16770	ECOD (1.6)
B	PF16589	e2azmB2	A: a/b three-layered sandwiches	X: BRCT domain (From Topology)	H: BRCT domain (From Topology)	T: BRCT domain	F: PF16589	ECOD (1.6)
B	PF16770	e2azmB3	A: a/b three-layered sandwiches	X: BRCT domain (From Topology)	H: BRCT domain (From Topology)	T: BRCT domain	F: PF16770	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)
B	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, B	PF16770	Regulator of Ty1 transposition protein 107 BRCT domain (RTT107_BRCT_5)	Regulator of Ty1 transposition protein 107 BRCT domain	This is the fifth BRCT domain of regulator of Ty1 transposition protein 107 (RTT107). It is involved in binding phosphorylated histone H2A [1].	Domain
A, B	PF16589	BRCT domain, a BRCA1 C-terminus domain (BRCT_2)	BRCT domain, a BRCA1 C-terminus domain	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Mediator of DNA damage checkpoint protein 1	histone reader activity chromatin-protein adaptor 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 regulation of cellular process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process DNA-templated transcription positive regulation of metabolic process regulation of DNA-templated transcription initiation regulation of RNA metabolic process cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process regulation of cellular process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process DNA-templated transcription positive regulation of metabolic process regulation of DNA-templated transcription initiation regulation of RNA metabolic process transcription by RNA polymerase II organic substance biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process transcription initiation at RNA polymerase II promoter regulation of transcription by RNA polymerase II regulation of biological process positive regulation of nucleobase-containing compound metabolic process cellular metabolic process primary metabolic process regulation of cellular metabolic process positive regulation of transcription by RNA polymerase II positive regulation of DNA-templated transcription initiation positive regulation of RNA metabolic process organic cyclic compound metabolic process regulation of gene expression biosynthetic process organic cyclic compound biosynthetic process metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process cellular biosynthetic process positive regulation of DNA-templated transcription positive regulation of biological process RNA metabolic process positive regulation of cellular metabolic process RNA biosynthetic process nucleic acid biosynthetic process organic substance metabolic process positive regulation of biosynthetic process positive regulation of cellular process regulation of RNA biosynthetic process regulation of biosynthetic process positive regulation of transcription initiation by RNA polymerase II biological regulation regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process DNA-templated transcription initiation regulation of cellular biosynthetic process positive regulation of RNA biosynthetic process regulation of transcription initiation by RNA polymerase II positive regulation of cellular biosynthetic process DNA metabolic process DNA repair regulation of cell cycle phase transition signaling negative regulation of biological process negative regulation of cell cycle cell cycle phase transition intracellular signal transduction cell communication negative regulation of cellular process negative regulation of cell cycle phase transition signal transduction cell cycle DNA replication checkpoint signaling regulation of cell cycle cell cycle process regulation of cell cycle process DNA integrity checkpoint signaling negative regulation of cell cycle process cell cycle checkpoint signaling protein localization localization cellular localization protein localization to chromosome protein localization to organelle cellular macromolecule localization macromolecule localization protein localization to site of double-strand break DNA damage checkpoint signaling mitotic cell cycle negative regulation of mitotic cell cycle regulation of mitotic cell cycle mitotic DNA integrity checkpoint signaling mitotic DNA damage checkpoint signaling mitotic intra-S DNA damage checkpoint signaling mitotic cell cycle checkpoint signaling mitotic cell cycle process signal transduction in response to DNA damage	anchoring junction cell junction cellular anatomical entity focal adhesion cell-substrate junction intracellular organelle intracellular anatomical structure organelle intracellular non-membrane-bounded organelle chromosome non-membrane-bounded organelle site of double-strand break site of DNA damage membrane-bounded organelle anchoring junction cell junction cellular anatomical entity focal adhesion cell-substrate junction intracellular organelle intracellular anatomical structure organelle intracellular non-membrane-bounded organelle chromosome non-membrane-bounded organelle site of double-strand break site of DNA damage membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nuclear body nucleoplasm organelle lumen nuclear lumen
C, D	GAMMA-H2AX HISTONE	protein binding binding histone binding protein heterodimerization activity protein dimerization activity DNA binding organic cyclic compound binding damaged DNA binding nucleic acid binding structural molecule activity structural constituent of chromatin enzyme binding	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 cellular response to ionizing radiation cellular response to radiation cellular response to environmental stimulus response to ionizing radiation cellular response to gamma radiation response to radiation response to abiotic stimulus cellular response to abiotic stimulus response to gamma radiation regulation of cellular process positive regulation of biological process regulation of cellular response to stress regulation of primary metabolic process positive regulation of response to stimulus nucleobase-containing compound metabolic process positive regulation of metabolic process positive regulation of DNA repair organic substance metabolic process regulation of response to stress positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process positive regulation of cellular process DNA repair regulation of biological process positive regulation of nucleobase-containing compound metabolic process biological regulation primary metabolic process DNA metabolic process regulation of macromolecule metabolic process nucleic acid metabolic process regulation of DNA repair organic cyclic compound metabolic process positive regulation of DNA metabolic process regulation of response to stimulus metabolic process macromolecule metabolic process regulation of metabolic process regulation of DNA metabolic process cellular metabolic process cellular senescence protein-containing complex organization protein-DNA complex assembly protein-DNA complex organization cellular component organization cellular component biogenesis cellular component assembly chromatin organization protein-containing complex assembly chromatin remodeling cellular component organization or biogenesis nucleosome assembly nucleosome organization multicellular organismal process head development forebrain development animal organ development brain development nervous system development pallium development cerebral cortex development multicellular organism development central nervous system development anatomical structure development telencephalon development system development double-strand break repair DNA recombination recombinational repair double-strand break repair via homologous recombination meiotic cell cycle cell cycle DNA damage checkpoint signaling regulation of cell cycle phase transition signaling negative regulation of biological process negative regulation of cell cycle cell cycle phase transition intracellular signal transduction cell communication negative regulation of cellular process negative regulation of cell cycle phase transition signal transduction regulation of cell cycle 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	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen cellular anatomical entity intracellular membrane-bounded organelle intracellular organelle lumen nuclear speck nuclear body intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen cellular anatomical entity intracellular membrane-bounded organelle intracellular organelle lumen nuclear speck nuclear body intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen condensed nuclear chromosome nuclear chromosome chromosome intracellular non-membrane-bounded organelle condensed chromosome non-membrane-bounded organelle extracellular exosome extracellular vesicle extracellular organelle extracellular region extracellular space vesicle extracellular membrane-bounded organelle centrosome microtubule organizing center cytoskeleton microtubule cytoskeleton XY body sex chromosome protein-containing complex protein-DNA complex nucleosome chromatin replication fork male germ cell nucleus germ cell nucleus site of double-strand break site of DNA damage

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR008984	SMAD/FHA domain superfamily	Homologous Superfamily
A, B	IPR000253	Forkhead-associated (FHA) domain	Domain
A, B	IPR001357	BRCT domain	Domain
A, B	IPR036420	BRCT domain superfamily	Homologous Superfamily
C, D	IPR002119	Histone H2A	Family
C, D	IPR032454	Histone H2A, C-terminal domain	Domain
C, D	IPR032458	Histone H2A conserved site	Conserved Site
C, D	IPR009072	Histone-fold	Homologous Superfamily
C, D	IPR007125	Histone H2A/H2B/H3	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: Q14676	psoriatic arthritis age-related macular degeneration cervical cancer cutaneous lupus erythematosus gastric carcinoma lymphoplasmacytic lymphoma osteosarcoma prostate carcinoma astrocytic tumor chronic obstructive pulmonary disease dermatomyositis Hashimoto thyroiditis malignant mesothelioma ovarian cancer psoriasis psoriatic arthritis age-related macular degeneration cervical cancer cutaneous lupus erythematosus gastric carcinoma lymphoplasmacytic lymphoma osteosarcoma prostate carcinoma astrocytic tumor chronic obstructive pulmonary disease dermatomyositis Hashimoto thyroiditis malignant mesothelioma ovarian cancer psoriasis autism spectrum disorder colorectal cancer endogenous depression lung carcinoma medulloblastoma primitive neuroectodermal tumor
C, D	Pharos: P16104	glioblastoma breast carcinoma Neoplasm Recurrence, Local polyploidy breast cancer giant cell glioblastoma ovarian cancer atopic eczema cancer ductal breast carcinoma in situ lung adenocarcinoma malignant mesothelioma non-small cell lung carcinoma pancreatic ductal adenocarcinoma psoriasis glioblastoma breast carcinoma Neoplasm Recurrence, Local polyploidy breast cancer giant cell glioblastoma ovarian cancer atopic eczema cancer ductal breast carcinoma in situ lung adenocarcinoma malignant mesothelioma non-small cell lung carcinoma pancreatic ductal adenocarcinoma psoriasis endometriosis heart disease lung cancer osteosarcoma pancreatic intraductal papillary-mucinous neoplasm schizophrenia invasive ductal breast carcinoma malignant ependymoma

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A, B	MSE	Parent Component: MET
C, D	SEP	Parent Component: SER RESID: AA0037 PSI-MOD : 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 R01GM133198.