8BQ2

CryoEM structure of the pre-synaptic RAD51 nucleoprotein filament in the presence of ATP and Ca2+

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Helix-hairpin-helix tandem	8056645	3000163	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	RecA-like P-loop NTPases	8056644	3002019	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Helix-hairpin-helix tandem	8056645	3000163	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	RecA-like P-loop NTPases	8056644	3002019	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Helix-hairpin-helix tandem	8056645	3000163	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	RecA-like P-loop NTPases	8056644	3002019	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Helix-hairpin-helix tandem	8056645	3000163	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	RecA-like P-loop NTPases	8056644	3002019	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	RecA-like P-loop NTPases	8056644	3002019	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Helix-hairpin-helix tandem	8056645	3000163	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	RecA-like P-loop NTPases	8056644	3002019	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Helix-hairpin-helix tandem	8056645	3000163	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Helix-hairpin-helix tandem	8056645	3000163	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	RecA-like P-loop NTPases	8056644	3002019	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Helix-hairpin-helix tandem	8056645	3000163	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	RecA-like P-loop NTPases	8056644	3002019	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	Helix-hairpin-helix tandem	8056645	3000163	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	RecA-like P-loop NTPases	8056644	3002019	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	PF14520	e8bq2A2	A: alpha arrays	X: HhH/H2TH	H: SAM/DNA-glycosylase	T: SAM domain-like	F: PF14520	ECOD (1.6)
A	PF08423	e8bq2A1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF08423	ECOD (1.6)
B	PF14520	e8bq2B2	A: alpha arrays	X: HhH/H2TH	H: SAM/DNA-glycosylase	T: SAM domain-like	F: PF14520	ECOD (1.6)
B	PF08423	e8bq2B1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF08423	ECOD (1.6)
C	PF14520	e8bq2C2	A: alpha arrays	X: HhH/H2TH	H: SAM/DNA-glycosylase	T: SAM domain-like	F: PF14520	ECOD (1.6)
C	PF08423	e8bq2C1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF08423	ECOD (1.6)
D	PF14520	e8bq2D2	A: alpha arrays	X: HhH/H2TH	H: SAM/DNA-glycosylase	T: SAM domain-like	F: PF14520	ECOD (1.6)
D	PF08423	e8bq2D1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF08423	ECOD (1.6)
E	PF14520	e8bq2E2	A: alpha arrays	X: HhH/H2TH	H: SAM/DNA-glycosylase	T: SAM domain-like	F: PF14520	ECOD (1.6)
E	PF08423	e8bq2E1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF08423	ECOD (1.6)
F	PF14520	e8bq2F1	A: alpha arrays	X: HhH/H2TH	H: SAM/DNA-glycosylase	T: SAM domain-like	F: PF14520	ECOD (1.6)
F	PF08423	e8bq2F2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF08423	ECOD (1.6)
G	PF14520	e8bq2G2	A: alpha arrays	X: HhH/H2TH	H: SAM/DNA-glycosylase	T: SAM domain-like	F: PF14520	ECOD (1.6)
G	PF08423	e8bq2G1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF08423	ECOD (1.6)
H	PF14520	e8bq2H2	A: alpha arrays	X: HhH/H2TH	H: SAM/DNA-glycosylase	T: SAM domain-like	F: PF14520	ECOD (1.6)
H	PF08423	e8bq2H1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF08423	ECOD (1.6)
I	PF14520	e8bq2I2	A: alpha arrays	X: HhH/H2TH	H: SAM/DNA-glycosylase	T: SAM domain-like	F: PF14520	ECOD (1.6)
I	PF08423	e8bq2I1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF08423	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F, G, H, I	PF08423	Rad51 (Rad51)	Rad51	Rad51 is a DNA repair and recombination protein and is a homologue of the bacterial ATPase RecA protein.	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I	PF14520	Helix-hairpin-helix domain (HHH_5)	Helix-hairpin-helix domain	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F, G, H, I	DNA repair protein RAD51 homolog 1	ATP-dependent activity, acting on DNA catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid catalytic activity ATP-dependent activity DNA strand exchange activity DNA damage sensor activity small molecule sensor activity ATP-dependent DNA damage sensor activity binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding ATP-dependent activity, acting on DNA catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid catalytic activity ATP-dependent activity DNA strand exchange activity DNA damage sensor activity small molecule sensor activity ATP-dependent DNA damage sensor activity binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding identical protein binding protein binding protein-containing complex binding chromatin binding DNA binding double-stranded DNA binding nucleic acid binding pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides DNA helicase activity single-stranded DNA helicase activity helicase activity DNA polymerase binding enzyme binding single-stranded DNA binding	cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process regulation of DNA recombination regulation of cellular process regulation of double-strand break repair regulation of cellular response to stress regulation of primary metabolic process nucleobase-containing compound metabolic process organic substance metabolic process regulation of response to stress cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process regulation of DNA recombination regulation of cellular process regulation of double-strand break repair regulation of cellular response to stress regulation of primary metabolic process nucleobase-containing compound metabolic process organic substance metabolic process regulation of response to stress recombinational repair regulation of nucleobase-containing compound metabolic process double-strand break repair via homologous recombination DNA repair double-strand break repair regulation of biological process DNA recombination biological regulation primary metabolic process DNA metabolic process regulation of macromolecule metabolic process nucleic acid metabolic process regulation of DNA repair regulation of double-strand break repair via homologous recombination organic cyclic compound metabolic process regulation of response to stimulus metabolic process macromolecule metabolic process regulation of metabolic process regulation of DNA metabolic process DNA-templated DNA replication DNA-templated DNA replication maintenance of fidelity DNA replication replication fork processing cellular response to nitrogen compound response to organic substance response to alkaloid cellular response to endogenous stimulus cellular response to camptothecin cellular response to organic substance cellular response to alkaloid response to organic cyclic compound response to alcohol response to organonitrogen compound response to endogenous stimulus cellular response to organic cyclic compound response to oxygen-containing compound response to nitrogen compound cellular response to oxygen-containing compound cellular response to chemical stimulus cellular response to alcohol cellular response to organonitrogen compound response to camptothecin response to chemical homologous recombination sexual reproduction reproductive process meiotic cell cycle process cellular component organization meiosis I meiotic nuclear division cell cycle cellular component organization or biogenesis reciprocal homologous recombination cell cycle process meiotic cell cycle organelle fission reciprocal meiotic recombination nuclear division organelle organization meiosis I cell cycle process 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 interstrand cross-link repair 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 regulation of signal transduction intracellular signal transduction cell communication regulation of cell cycle checkpoint regulation of intracellular signal transduction negative regulation of cellular process negative regulation of cell cycle phase transition signal transduction regulation of cell cycle regulation of signaling 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 regulation of cell communication regulation of DNA damage checkpoint DNA strand invasion cellular component biogenesis protein-DNA complex organization DNA recombinase assembly cellular component assembly protein-containing complex assembly DNA repair complex assembly protein-containing complex organization protein-DNA complex assembly double-strand break repair via synthesis-dependent strand annealing double-strand break repair involved in meiotic recombination replication-born double-strand break repair via sister chromatid exchange chromosome organization chromosome organization involved in meiotic cell cycle mitotic recombination telomere organization telomere maintenance telomere maintenance via recombination mitotic DNA replication nuclear DNA replication cell cycle DNA replication mitotic cell cycle cell cycle DNA replication maintenance of fidelity mitotic cell cycle process mitotic recombination-dependent replication fork processing mitotic DNA replication maintenance of fidelity regulation of protein modification process regulation of protein phosphorylation regulation of phosphate metabolic process phosphate-containing compound metabolic process protein metabolic process protein modification process phosphorus metabolic process organonitrogen compound metabolic process protein phosphorylation phosphorylation regulation of protein metabolic process cellular metabolic process regulation of cellular metabolic process macromolecule modification regulation of phosphorylation regulation of phosphorus metabolic process positive regulation of biological process DNA ligation positive regulation of metabolic process regulation of DNA ligation positive regulation of DNA ligation positive regulation of macromolecule metabolic process positive regulation of nucleobase-containing compound metabolic process positive regulation of DNA metabolic process cellular response to inorganic substance response to inorganic substance cellular response to hydroxyurea response to hydroxyurea telomere maintenance via telomere lengthening DNA duplex unwinding DNA geometric change DNA conformation change DNA unwinding involved in DNA replication	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol intracellular organelle protein-containing complex protein-DNA complex organelle intracellular non-membrane-bounded organelle chromatin chromosome non-membrane-bounded organelle synapse intermediate filament cytoskeleton intracellular anatomical structure cytoplasm cellular anatomical entity cytosol intracellular organelle protein-containing complex protein-DNA complex organelle intracellular non-membrane-bounded organelle chromatin chromosome non-membrane-bounded organelle synapse intermediate filament cytoskeleton presynaptic cytoskeleton presynapse cytoskeleton cell junction presynaptic intermediate filament cytoskeleton membrane-bounded organelle nucleus membrane-enclosed lumen nuclear chromosome intracellular membrane-bounded organelle intracellular organelle lumen organelle lumen nuclear lumen perinuclear region of cytoplasm male germ cell nucleus germ cell nucleus chromosome, telomeric region chromosomal region ubiquitin ligase complex catalytic complex nuclear protein-containing complex transferase complex nuclear ubiquitin ligase complex intracellular protein-containing complex mitochondrion nucleolus condensed chromosome condensed nuclear chromosome centrosome microtubule organizing center microtubule cytoskeleton nucleoplasm lateral element synaptonemal structure synaptonemal complex site of double-strand break site of DNA damage mitochondrial matrix nuclear body PML body
J [auth W]	DNA (30-MER)	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H, I	IPR013632	DNA recombination and repair protein Rad51-like, C-terminal	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I	IPR020587	DNA recombination and repair protein RecA, monomer-monomer interface	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I	IPR020588	DNA recombination and repair protein RecA-like, ATP-binding domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I	IPR003593	AAA+ ATPase domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I	IPR011941	DNA recombination/repair protein Rad51	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I	IPR016467	DNA recombination and repair protein, RecA-like	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I	IPR010995	DNA repair Rad51/transcription factor NusA, alpha-helical	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D, E A, B, C, D, E, F, G, H, I	Pharos: Q06609	Fanconi anemia mirror movements 2 breast cancer breast carcinoma Fanconi anemia complementation group R head and neck cancer Micronuclei, Chromosome-Defective invasive ductal breast carcinoma malignant glioma malignant tumor of neck medulloblastoma aplastic anemia neoplasm of neck ovarian cancer cancer Fanconi anemia mirror movements 2 breast cancer breast carcinoma Fanconi anemia complementation group R head and neck cancer Micronuclei, Chromosome-Defective invasive ductal breast carcinoma malignant glioma malignant tumor of neck medulloblastoma aplastic anemia neoplasm of neck ovarian cancer cancer pancreatic intraductal papillary-mucinous neoplasm psoriasis hereditary breast carcinoma inherited aplastic anemia large cell medulloblastoma malignant mesothelioma atypical teratoid rhabdoid tumor non-small cell lung carcinoma ovarian disease primitive neuroectodermal tumor head and neck neoplasm hereditary breast ovarian cancer syndrome inherited disease susceptibility lung cancer osteosarcoma breast disease pancreatic intraductal papillary-mucinous carcinoma familial congenital mirror movements prostate carcinoma glioblastoma IgA glomerulonephritis

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.