5XRZ | pdb_00005xrz

Structure of a ssDNA bound to the inner DNA binding site of RAD52

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

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	dsRNA-binding domain-like	8042783	3000985	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	dsRNA-binding domain-like	8042783	3000985	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	dsRNA-binding domain-like	8042783	3000985	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	dsRNA-binding domain-like	8042783	3000985	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	dsRNA-binding domain-like	8042783	3000985	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	dsRNA-binding domain-like	8042783	3000985	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	dsRNA-binding domain-like	8042783	3000985	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	dsRNA-binding domain-like	8042783	3000985	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	dsRNA-binding domain-like	8042783	3000985	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	dsRNA-binding domain-like	8042783	3000985	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	dsRNA-binding domain-like	8042783	3000985	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	Fam20C	e5xrzA1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Fam20C	ECOD (v294.1)
B	TNF	e5xrzB1	A: a/b three-layered sandwiches	X: Phosphorylase/hydrolase-like	H: Peptidyl-tRNA hydrolase-like	T: Peptidyl-tRNA hydrolase-like	F: TNF	ECOD (v294.1)
C	TNF	e5xrzC1	A: a/b three-layered sandwiches	X: Phosphorylase/hydrolase-like	H: Peptidyl-tRNA hydrolase-like	T: Peptidyl-tRNA hydrolase-like	F: TNF	ECOD (v294.1)
D	TNF	e5xrzD1	A: a/b three-layered sandwiches	X: Phosphorylase/hydrolase-like	H: Peptidyl-tRNA hydrolase-like	T: Peptidyl-tRNA hydrolase-like	F: TNF	ECOD (v294.1)
E	TNF	e5xrzE1	A: a/b three-layered sandwiches	X: Phosphorylase/hydrolase-like	H: Peptidyl-tRNA hydrolase-like	T: Peptidyl-tRNA hydrolase-like	F: TNF	ECOD (v294.1)
F	TNF	e5xrzF1	A: a/b three-layered sandwiches	X: Phosphorylase/hydrolase-like	H: Peptidyl-tRNA hydrolase-like	T: Peptidyl-tRNA hydrolase-like	F: TNF	ECOD (v294.1)
G	TNF	e5xrzG1	A: a/b three-layered sandwiches	X: Phosphorylase/hydrolase-like	H: Peptidyl-tRNA hydrolase-like	T: Peptidyl-tRNA hydrolase-like	F: TNF	ECOD (v294.1)
H	TNF	e5xrzH1	A: a/b three-layered sandwiches	X: Phosphorylase/hydrolase-like	H: Peptidyl-tRNA hydrolase-like	T: Peptidyl-tRNA hydrolase-like	F: TNF	ECOD (v294.1)
I	TNF	e5xrzI1	A: a/b three-layered sandwiches	X: Phosphorylase/hydrolase-like	H: Peptidyl-tRNA hydrolase-like	T: Peptidyl-tRNA hydrolase-like	F: TNF	ECOD (v294.1)
J	TNF	e5xrzJ1	A: a/b three-layered sandwiches	X: Phosphorylase/hydrolase-like	H: Peptidyl-tRNA hydrolase-like	T: Peptidyl-tRNA hydrolase-like	F: TNF	ECOD (v294.1)
K	TNF	e5xrzK1	A: a/b three-layered sandwiches	X: Phosphorylase/hydrolase-like	H: Peptidyl-tRNA hydrolase-like	T: Peptidyl-tRNA hydrolase-like	F: TNF	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.390.80	Alpha Beta	2-Layer Sandwich	Enolase-like	domain 1	CATH (4.3.0)
B	3.30.390.80	Alpha Beta	2-Layer Sandwich	Enolase-like	domain 1	CATH (4.3.0)
C	3.30.390.80	Alpha Beta	2-Layer Sandwich	Enolase-like	domain 1	CATH (4.3.0)
D	3.30.390.80	Alpha Beta	2-Layer Sandwich	Enolase-like	domain 1	CATH (4.3.0)
E	3.30.390.80	Alpha Beta	2-Layer Sandwich	Enolase-like	domain 1	CATH (4.3.0)
F	3.30.390.80	Alpha Beta	2-Layer Sandwich	Enolase-like	domain 1	CATH (4.3.0)
G	3.30.390.80	Alpha Beta	2-Layer Sandwich	Enolase-like	domain 1	CATH (4.3.0)
H	3.30.390.80	Alpha Beta	2-Layer Sandwich	Enolase-like	domain 1	CATH (4.3.0)
I	3.30.390.80	Alpha Beta	2-Layer Sandwich	Enolase-like	domain 1	CATH (4.3.0)
J	3.30.390.80	Alpha Beta	2-Layer Sandwich	Enolase-like	domain 1	CATH (4.3.0)
K	3.30.390.80	Alpha Beta	2-Layer Sandwich	Enolase-like	domain 1	CATH (4.3.0)

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, J, K	PF04098	Rad52/22 family double-strand break repair protein (Rad52_Rad22)	Rad52/22 family double-strand break repair protein	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
L	ssDNA (40-MER)	-	-	-
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K	DNA repair protein RAD52 homolog	DNA binding binding nucleic acid binding identical protein binding protein binding single-stranded DNA binding	nucleobase-containing compound metabolic process DNA recombination mitotic recombination metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process cellular response to stimulus double-strand break repair response to stimulus double-strand break repair via single-strand annealing cellular response to stress nucleobase-containing compound metabolic process DNA recombination mitotic recombination metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process cellular response to stimulus double-strand break repair response to stimulus double-strand break repair via single-strand annealing cellular response to stress DNA damage response response to stress DNA repair recombinational repair double-strand break repair via homologous recombination regulation of cellular process regulation of cellular response to stress regulation of primary metabolic process nucleotide-excision repair regulation of response to stress regulation of nucleobase-containing compound metabolic process regulation of biological process biological regulation regulation of macromolecule metabolic process regulation of DNA repair regulation of response to stimulus regulation of nucleotide-excision repair regulation of metabolic process regulation of DNA metabolic process DNA double-strand break processing DNA double-strand break processing involved in repair via single-strand annealing cellular component organization cellular component biogenesis protein-DNA complex organization DNA recombinase assembly cellular component assembly protein-containing complex assembly DNA repair complex assembly cellular component organization or biogenesis protein-containing complex organization protein-DNA complex assembly double-strand break repair via synthesis-dependent strand annealing response to oxidative stress cellular response to chemical stimulus response to chemical cellular response to oxidative stress cellular response to chemical stress	protein-containing complex protein-DNA complex membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle nuclear lumen

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, J, K	IPR042525	DNA repair protein Rad52/59/22 superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K	IPR007232	DNA repair protein Rad52/59/22	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K	IPR004585	DNA recombination/repair protein Rad52	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K	IPR041247	Rad52 family	Family

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, J, K	Pharos: P43351	squamous cell carcinoma atopic eczema Lung Neoplasms osteosarcoma lung benign neoplasm malignant mesothelioma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia squamous cell lung carcinoma lung carcinoma psoriasis

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.