3SZM | pdb_00003szm

STRUCTURE OF HUMAN MICROCEPHALIN (MCPH1) TANDEM BRCT DOMAINS IN COMPLEX WITH A GAMMA-H2AX PHOSPHOPEPTIDE

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
H	SCOP2B Superfamily	BRCT domain-like	8092275	3000159	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	BRCT domain-like	8092276	3000159	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	BRCT domain-like	8092275	3000159	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	BRCT domain-like	8092276	3000159	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	BRCT domain-like	8092276	3000159	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	BRCT domain-like	8092275	3000159	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	BRCT domain-like	8092275	3000159	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	BRCT domain-like	8092276	3000159	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	BRCT domain-like	8092276	3000159	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	BRCT domain-like	8092275	3000159	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	BRCT domain-like	8092276	3000159	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	BRCT domain-like	8092275	3000159	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	BRCT domain-like	8092275	3000159	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	BRCT domain-like	8092276	3000159	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	BRCT domain-like	8092276	3000159	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	BRCT domain-like	8092275	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)
H	PTCB-BRCT	e3szmH5	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)
G	PTCB-BRCT	e3szmG5	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)
F	PTCB-BRCT	e3szmF5	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)
E	PTCB-BRCT	e3szmE5	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)
D	PTCB-BRCT	e3szmD5	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)
C	PTCB-BRCT	e3szmC5	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)
B	PTCB-BRCT	e3szmB5	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)
A	PTCB-BRCT	e3szmA5	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)
H	3.40.50.10190	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	BRCT domain	CATH (4.3.0)
G	3.40.50.10190	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	BRCT domain	CATH (4.3.0)
F	3.40.50.10190	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	BRCT domain	CATH (4.3.0)
E	3.40.50.10190	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	BRCT domain	CATH (4.3.0)
D	3.40.50.10190	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	BRCT domain	CATH (4.3.0)
C	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)
A	3.40.50.10190	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	BRCT domain	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
I, J, K, L, M I, J, K, L, M, N, O, P	Histone H2A.x	protein binding binding histone binding chromatin-protein adaptor activity protein-macromolecule adaptor activity molecular adaptor activity protein heterodimerization activity protein dimerization activity DNA 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 localization protein localization to chromosome protein localization to organelle macromolecule localization protein localization to site of double-strand break intracellular protein localization 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 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 biological regulation primary metabolic process DNA metabolic process regulation of macromolecule metabolic process nucleic acid metabolic process regulation of DNA repair 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 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 component organization or biogenesis nucleosome assembly nucleosome organization response to ionizing radiation response to radiation response to abiotic stimulus double-strand break repair DNA recombination recombinational repair double-strand break repair via homologous recombination negative regulation of biological process negative regulation of cellular process negative regulation of macromolecule metabolic process regulation of biosynthetic process heterochromatin formation epigenetic regulation of gene expression negative regulation of metabolic process heterochromatin organization gene expression macromolecule biosynthetic process regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of gene expression, epigenetic regulation of macromolecule biosynthetic process meiotic cell cycle cell cycle DNA damage checkpoint signaling regulation of cell cycle phase transition signaling negative regulation of cell cycle cell cycle phase transition intracellular signal transduction cell communication 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 intracellular membraneless organelle intracellular membrane-bounded organelle intracellular organelle lumen nuclear speck ribonucleoprotein granule intracellular organelle nuclear body cellular anatomical structure nucleoplasm organelle lumen membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle intracellular organelle lumen nuclear speck ribonucleoprotein granule intracellular organelle nuclear body cellular anatomical structure nucleoplasm organelle lumen organelle membraneless organelle supramolecular complex nuclear ribonucleoprotein granule nuclear lumen condensed nuclear chromosome nuclear chromosome chromosome condensed chromosome 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
A, B, C, D, E A, B, C, D, E, F, G, H	Microcephalin	identical protein binding protein binding binding	cellular process cell cycle mitotic cell cycle developmental process 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 cellular process cell cycle mitotic cell cycle developmental process 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 regulation of biological process regulation of cellular component organization regulation of cellular process regulation of chromosome condensation biological regulation chromosome organization regulation of chromosome organization regulation of organelle organization cellular component organization organelle organization chromosome condensation cellular component organization or biogenesis establishment of organelle localization cellular localization microtubule cytoskeleton organization spindle localization establishment or maintenance of cell polarity localization establishment of mitotic spindle localization establishment of spindle localization establishment of spindle orientation organelle localization establishment of localization in cell 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 regulation of defense response response to stimulus regulation of response to external stimulus defense response regulation of inflammatory response response to external stimulus regulation of response to stimulus response to stress regulation of response to stress inflammatory response protein localization to microtubule cytoskeleton protein localization to cytoskeleton protein localization to organelle macromolecule localization protein localization to microtubule organizing center intracellular protein localization protein localization to centrosome microtubule organizing center organization regulation of centrosome cycle regulation of cell cycle process regulation of microtubule-based process centrosome cycle regulation of cell cycle skeletal system development bone development negative regulation of biological process RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process transcription by RNA polymerase II negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of transcription by RNA polymerase II negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II negative regulation of metabolic process primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of RNA metabolic process neuronal stem cell population maintenance maintenance of cell number stem cell population maintenance	intracellular organelle centrosome microtubule organizing center cellular anatomical structure intracellular anatomical structure cytoskeleton organelle membraneless organelle intracellular membraneless organelle microtubule cytoskeleton cytoplasm membrane-bounded organelle nucleus membrane-enclosed lumen intracellular organelle centrosome microtubule organizing center cellular anatomical structure intracellular anatomical structure cytoskeleton organelle membraneless organelle intracellular membraneless organelle microtubule cytoskeleton cytoplasm membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
I, J, K, L, M I, J, K, L, M, N, O, P	IPR002119	Histone H2A	Family
I, J, K, L, M I, J, K, L, M, N, O, P	IPR007125	Core Histone H2A/H2B/H3 domain	Domain
I, J, K, L, M I, J, K, L, M, N, O, P	IPR032454	Histone H2A, C-terminal domain	Domain
I, J, K, L, M I, J, K, L, M, N, O, P	IPR032458	Histone H2A conserved site	Conserved Site
I, J, K, L, M I, J, K, L, M, N, O, P	IPR009072	Histone-fold	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR001357	BRCT domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR029504	Microcephalin, mammal	Family
A, B, C, D, E A, B, C, D, E, F, G, H	IPR022047	Microcephalin-like	Family
A, B, C, D, E A, B, C, D, E, F, G, H	IPR036420	BRCT domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
I, J, K, L, M I, J, K, L, M, N, O, P	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
A, B, C, D, E A, B, C, D, E, F, G, H	Pharos: Q8NEM0	microcephaly 1, primary, autosomal recessive microcephaly autosomal recessive primary microcephaly intellectual disability astrocytic tumor glioblastoma large cell medulloblastoma Malignant neoplasm of ovary atypical teratoid rhabdoid tumor hereditary breast carcinoma leukopenia medulloblastoma osteosarcoma lung cancer ovarian cancer microcephaly 1, primary, autosomal recessive microcephaly autosomal recessive primary microcephaly intellectual disability astrocytic tumor glioblastoma large cell medulloblastoma Malignant neoplasm of ovary atypical teratoid rhabdoid tumor hereditary breast carcinoma leukopenia medulloblastoma osteosarcoma lung cancer ovarian cancer primitive neuroectodermal tumor

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
I, J, K, L, M I, J, K, L, M, N, O, P	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 R01GM157729.