8XBY

The cryo-EM structure of the RAD51 L1 and L2 loops bound to the linker DNA with the blunt end of the nucleosome

This is a non-PDB format compatible entry.

Functional Information from GO Data

Chain	GOid	namespace	contents
K	0000150	molecular_function	DNA strand exchange activity
K	0000152	cellular_component	nuclear ubiquitin ligase complex
K	0000228	cellular_component	nuclear chromosome
K	0000722	biological_process	telomere maintenance via recombination
K	0000724	biological_process	double-strand break repair via homologous recombination
K	0000730	biological_process	DNA recombinase assembly
K	0000781	cellular_component	chromosome, telomeric region
K	0000785	cellular_component	chromatin
K	0000793	cellular_component	condensed chromosome
K	0000794	cellular_component	condensed nuclear chromosome
K	0000800	cellular_component	lateral element
K	0001673	cellular_component	male germ cell nucleus
K	0001932	biological_process	regulation of protein phosphorylation
K	0003677	molecular_function	DNA binding
K	0003682	molecular_function	chromatin binding
K	0003690	molecular_function	double-stranded DNA binding
K	0003697	molecular_function	single-stranded DNA binding
K	0005515	molecular_function	protein binding
K	0005524	molecular_function	ATP binding
K	0005634	cellular_component	nucleus
K	0005654	cellular_component	nucleoplasm
K	0005694	cellular_component	chromosome
K	0005730	cellular_component	nucleolus
K	0005737	cellular_component	cytoplasm
K	0005739	cellular_component	mitochondrion
K	0005759	cellular_component	mitochondrial matrix
K	0005813	cellular_component	centrosome
K	0005829	cellular_component	cytosol
K	0005856	cellular_component	cytoskeleton
K	0006268	biological_process	DNA unwinding involved in DNA replication
K	0006281	biological_process	DNA repair
K	0006310	biological_process	DNA recombination
K	0006312	biological_process	mitotic recombination
K	0006974	biological_process	DNA damage response
K	0007131	biological_process	reciprocal meiotic recombination
K	0008094	molecular_function	ATP-dependent activity, acting on DNA
K	0010569	biological_process	regulation of double-strand break repair via homologous recombination
K	0010833	biological_process	telomere maintenance via telomere lengthening
K	0016605	cellular_component	PML body
K	0017116	molecular_function	single-stranded DNA helicase activity
K	0019899	molecular_function	enzyme binding
K	0031297	biological_process	replication fork processing
K	0032200	biological_process	telomere organization
K	0032991	cellular_component	protein-containing complex
K	0035861	cellular_component	site of double-strand break
K	0036297	biological_process	interstrand cross-link repair
K	0042148	biological_process	DNA strand invasion
K	0042802	molecular_function	identical protein binding
K	0048471	cellular_component	perinuclear region of cytoplasm
K	0051106	biological_process	positive regulation of DNA ligation
K	0051321	biological_process	meiotic cell cycle
K	0070182	molecular_function	DNA polymerase binding
K	0070192	biological_process	chromosome organization involved in meiotic cell cycle
K	0071312	biological_process	cellular response to alkaloid
K	0071479	biological_process	cellular response to ionizing radiation
K	0072711	biological_process	cellular response to hydroxyurea
K	0072757	biological_process	cellular response to camptothecin
K	0099182	cellular_component	presynaptic intermediate filament cytoskeleton
K	1990414	biological_process	replication-born double-strand break repair via sister chromatid exchange
K	1990918	biological_process	double-strand break repair involved in meiotic recombination
K	2000001	biological_process	regulation of DNA damage checkpoint
L	0000150	molecular_function	DNA strand exchange activity
L	0000152	cellular_component	nuclear ubiquitin ligase complex
L	0000228	cellular_component	nuclear chromosome
L	0000722	biological_process	telomere maintenance via recombination
L	0000724	biological_process	double-strand break repair via homologous recombination
L	0000730	biological_process	DNA recombinase assembly
L	0000781	cellular_component	chromosome, telomeric region
L	0000785	cellular_component	chromatin
L	0000793	cellular_component	condensed chromosome
L	0000794	cellular_component	condensed nuclear chromosome
L	0000800	cellular_component	lateral element
L	0001673	cellular_component	male germ cell nucleus
L	0001932	biological_process	regulation of protein phosphorylation
L	0003677	molecular_function	DNA binding
L	0003682	molecular_function	chromatin binding
L	0003690	molecular_function	double-stranded DNA binding
L	0003697	molecular_function	single-stranded DNA binding
L	0005515	molecular_function	protein binding
L	0005524	molecular_function	ATP binding
L	0005634	cellular_component	nucleus
L	0005654	cellular_component	nucleoplasm
L	0005694	cellular_component	chromosome
L	0005730	cellular_component	nucleolus
L	0005737	cellular_component	cytoplasm
L	0005739	cellular_component	mitochondrion
L	0005759	cellular_component	mitochondrial matrix
L	0005813	cellular_component	centrosome
L	0005829	cellular_component	cytosol
L	0005856	cellular_component	cytoskeleton
L	0006268	biological_process	DNA unwinding involved in DNA replication
L	0006281	biological_process	DNA repair
L	0006310	biological_process	DNA recombination
L	0006312	biological_process	mitotic recombination
L	0006974	biological_process	DNA damage response
L	0007131	biological_process	reciprocal meiotic recombination
L	0008094	molecular_function	ATP-dependent activity, acting on DNA
L	0010569	biological_process	regulation of double-strand break repair via homologous recombination
L	0010833	biological_process	telomere maintenance via telomere lengthening
L	0016605	cellular_component	PML body
L	0017116	molecular_function	single-stranded DNA helicase activity
L	0019899	molecular_function	enzyme binding
L	0031297	biological_process	replication fork processing
L	0032200	biological_process	telomere organization
L	0032991	cellular_component	protein-containing complex
L	0035861	cellular_component	site of double-strand break
L	0036297	biological_process	interstrand cross-link repair
L	0042148	biological_process	DNA strand invasion
L	0042802	molecular_function	identical protein binding
L	0048471	cellular_component	perinuclear region of cytoplasm
L	0051106	biological_process	positive regulation of DNA ligation
L	0051321	biological_process	meiotic cell cycle
L	0070182	molecular_function	DNA polymerase binding
L	0070192	biological_process	chromosome organization involved in meiotic cell cycle
L	0071312	biological_process	cellular response to alkaloid
L	0071479	biological_process	cellular response to ionizing radiation
L	0072711	biological_process	cellular response to hydroxyurea
L	0072757	biological_process	cellular response to camptothecin
L	0099182	cellular_component	presynaptic intermediate filament cytoskeleton
L	1990414	biological_process	replication-born double-strand break repair via sister chromatid exchange
L	1990918	biological_process	double-strand break repair involved in meiotic recombination
L	2000001	biological_process	regulation of DNA damage checkpoint
M	0000150	molecular_function	DNA strand exchange activity
M	0000152	cellular_component	nuclear ubiquitin ligase complex
M	0000228	cellular_component	nuclear chromosome
M	0000722	biological_process	telomere maintenance via recombination
M	0000724	biological_process	double-strand break repair via homologous recombination
M	0000730	biological_process	DNA recombinase assembly
M	0000781	cellular_component	chromosome, telomeric region
M	0000785	cellular_component	chromatin
M	0000793	cellular_component	condensed chromosome
M	0000794	cellular_component	condensed nuclear chromosome
M	0000800	cellular_component	lateral element
M	0001673	cellular_component	male germ cell nucleus
M	0001932	biological_process	regulation of protein phosphorylation
M	0003677	molecular_function	DNA binding
M	0003682	molecular_function	chromatin binding
M	0003690	molecular_function	double-stranded DNA binding
M	0003697	molecular_function	single-stranded DNA binding
M	0005515	molecular_function	protein binding
M	0005524	molecular_function	ATP binding
M	0005634	cellular_component	nucleus
M	0005654	cellular_component	nucleoplasm
M	0005694	cellular_component	chromosome
M	0005730	cellular_component	nucleolus
M	0005737	cellular_component	cytoplasm
M	0005739	cellular_component	mitochondrion
M	0005759	cellular_component	mitochondrial matrix
M	0005813	cellular_component	centrosome
M	0005829	cellular_component	cytosol
M	0005856	cellular_component	cytoskeleton
M	0006268	biological_process	DNA unwinding involved in DNA replication
M	0006281	biological_process	DNA repair
M	0006310	biological_process	DNA recombination
M	0006312	biological_process	mitotic recombination
M	0006974	biological_process	DNA damage response
M	0007131	biological_process	reciprocal meiotic recombination
M	0008094	molecular_function	ATP-dependent activity, acting on DNA
M	0010569	biological_process	regulation of double-strand break repair via homologous recombination
M	0010833	biological_process	telomere maintenance via telomere lengthening
M	0016605	cellular_component	PML body
M	0017116	molecular_function	single-stranded DNA helicase activity
M	0019899	molecular_function	enzyme binding
M	0031297	biological_process	replication fork processing
M	0032200	biological_process	telomere organization
M	0032991	cellular_component	protein-containing complex
M	0035861	cellular_component	site of double-strand break
M	0036297	biological_process	interstrand cross-link repair
M	0042148	biological_process	DNA strand invasion
M	0042802	molecular_function	identical protein binding
M	0048471	cellular_component	perinuclear region of cytoplasm
M	0051106	biological_process	positive regulation of DNA ligation
M	0051321	biological_process	meiotic cell cycle
M	0070182	molecular_function	DNA polymerase binding
M	0070192	biological_process	chromosome organization involved in meiotic cell cycle
M	0071312	biological_process	cellular response to alkaloid
M	0071479	biological_process	cellular response to ionizing radiation
M	0072711	biological_process	cellular response to hydroxyurea
M	0072757	biological_process	cellular response to camptothecin
M	0099182	cellular_component	presynaptic intermediate filament cytoskeleton
M	1990414	biological_process	replication-born double-strand break repair via sister chromatid exchange
M	1990918	biological_process	double-strand break repair involved in meiotic recombination
M	2000001	biological_process	regulation of DNA damage checkpoint

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	3
Details	BINDING: BINDING => ECO:0000255

Chain	Residue	Details
K	GLY127
L	GLY127
M	GLY127

---

site_id	SWS_FT_FI2
Number of Residues	3
Details	MOD_RES: N-acetylalanine => ECO:0007744|PubMed:22814378

Chain	Residue	Details
K	ALA2
L	ALA2
M	ALA2

---

site_id	SWS_FT_FI3
Number of Residues	3
Details	MOD_RES: Phosphothreonine; by CK2 => ECO:0000269|PubMed:22325354, ECO:0000269|PubMed:26811421

Chain	Residue	Details
K	THR13
L	THR13
M	THR13

---

site_id	SWS_FT_FI4
Number of Residues	3
Details	MOD_RES: Phosphoserine; by PLK1 => ECO:0000269|PubMed:22325354, ECO:0000269|PubMed:26811421

Chain	Residue	Details
K	SER14
L	SER14
M	SER14

---

site_id	SWS_FT_FI5
Number of Residues	3
Details	MOD_RES: Phosphotyrosine; by ABL1 => ECO:0000269|PubMed:9461559

Chain	Residue	Details
K	TYR54
L	TYR54
M	TYR54

---

site_id	SWS_FT_FI6
Number of Residues	3
Details	MOD_RES: Phosphothreonine; by CHEK1 => ECO:0000269|PubMed:15665856

Chain	Residue	Details
K	THR309
L	THR309
M	THR309

---

site_id	SWS_FT_FI7
Number of Residues	9
Details	CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:23393192

Chain	Residue	Details
K	LYS58
K	LYS64
L	LYS58
L	LYS64
M	LYS58
M	LYS64

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