8BQ2 | pdb_00008bq2

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)
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)
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)
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)
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)
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)
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)
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)
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)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	Cullin_AB	e8bq2D1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Cullin_AB	ECOD (v294.1)
E	Cullin_AB	e8bq2E1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Cullin_AB	ECOD (v294.1)
G	Cullin_AB	e8bq2G1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Cullin_AB	ECOD (v294.1)
I	Cullin_AB	e8bq2I1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Cullin_AB	ECOD (v294.1)
H	Cullin_AB	e8bq2H1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Cullin_AB	ECOD (v294.1)
F	Cullin_AB	e8bq2F1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Cullin_AB	ECOD (v294.1)
C	Cullin_AB	e8bq2C1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Cullin_AB	ECOD (v294.1)
B	Cullin_AB	e8bq2B1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Cullin_AB	ECOD (v294.1)
A	Cullin_AB	e8bq2A1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Cullin_AB	ECOD (v294.1)

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
J [auth W]	DNA (30-MER)	-	-	-
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 molecular sensor activity ATP-dependent DNA damage sensor activity molecular function regulator activity binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide 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 molecular sensor activity ATP-dependent DNA damage sensor activity molecular function regulator activity binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding identical protein binding protein binding chromatin binding DNA binding double-stranded DNA binding nucleic acid binding nucleic acid conformation isomerase activity isomerase activity DNA helicase activity single-stranded DNA helicase activity helicase activity macromolecular conformation isomerase 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 response to chemical response to xenobiotic stimulus 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 cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process response to chemical response to xenobiotic stimulus 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 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 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 alcohol response to oxygen-containing compound response to nitrogen compound cellular response to oxygen-containing compound response to alkaloid cellular response to chemical stimulus cellular response to alcohol response to camptothecin cellular response to camptothecin cellular response to alkaloid 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 X-ray response to ionizing radiation response to radiation response to abiotic stimulus cellular response to ionizing radiation cellular response to radiation cellular response to abiotic stimulus cellular response to environmental stimulus interstrand cross-link repair response to toxic substance 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 response to glycoside response to glucoside 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 cellular response to gamma radiation response to gamma radiation mitotic recombination telomere organization telomere maintenance telomere maintenance via recombination response to cisplatin cellular response to cisplatin mitotic DNA replication nuclear DNA replication cell cycle DNA replication mitotic cell cycle mitotic cell cycle process cell cycle DNA replication maintenance of fidelity mitotic recombination-dependent replication fork processing mitotic DNA replication maintenance of fidelity cellular response to hydroxyurea response to hydroxyurea telomere maintenance via telomere lengthening	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol intracellular organelle organelle membraneless organelle intracellular membraneless organelle chromatin chromosome synapse intermediate filament cytoskeleton presynaptic cytoskeleton presynapse cellular anatomical structure intracellular anatomical structure cytoplasm cytosol intracellular organelle organelle membraneless organelle intracellular membraneless organelle chromatin chromosome 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 protein-containing complex 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 protein-DNA complex site of double-strand break site of DNA damage mitochondrial matrix nuclear body PML body

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	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	IPR013632	Rad51-like, C-terminal	Domain
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 prostate carcinoma familial congenital mirror movements 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 R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.