Annotations: 3KDF

X-ray Crystal Structure of the Human Replication Protein A Complex from Wheat Germ Cell Free Expression

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
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: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
D [auth B]	d3kdfb_	All beta proteins	OB-fold	Nucleic acid-binding proteins	Single strand DNA-binding domain, SSB	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B [auth D]	d3kdfd_	All beta proteins	OB-fold	Nucleic acid-binding proteins	Single strand DNA-binding domain, SSB	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d3kdfc_	All beta proteins	OB-fold	Nucleic acid-binding proteins	Single strand DNA-binding domain, SSB	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d3kdfa_	All beta proteins	OB-fold	Nucleic acid-binding proteins	Single strand DNA-binding domain, SSB	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D [auth B]	SCOP2B Superfamily	Nucleic acid-binding proteins	8035991	3000135	SCOP2B (2022-06-29)
B [auth D]	SCOP2B Superfamily	Nucleic acid-binding proteins	8035991	3000135	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Nucleic acid-binding proteins	8035663	3000135	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Nucleic acid-binding proteins	8035663	3000135	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 [auth B]	adh_short	e3kdfB1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: adh_short	ECOD (v294.2)
B [auth D]	Rep_fac-A_3	e3kdfD1	A: beta barrels	X: Cystatin-like	H: NTF2-like	T: NTF2-like	F: Rep_fac-A_3	ECOD (v294.2)
C	adh_short	e3kdfC1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: adh_short	ECOD (v294.2)
A	Rep_fac-A_3	e3kdfA1	A: beta barrels	X: Cystatin-like	H: NTF2-like	T: NTF2-like	F: Rep_fac-A_3	ECOD (v294.2)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D [auth B]	2.40.50.140	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	Nucleic acid-binding proteins	CATH (4.3.0)
B [auth D]	2.40.50.140	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	Nucleic acid-binding proteins	CATH (4.3.0)
C	2.40.50.140	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	Nucleic acid-binding proteins	CATH (4.3.0)
A	2.40.50.140	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	Nucleic acid-binding proteins	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C	PF08661	Replication factor A protein 3 (Rep_fac-A_3)	Replication factor A protein 3	Replication factor A is involved in eukaryotic DNA replication, recombination and repair.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B [auth D], D [auth B]	Replication protein A 32 kDa subunit	sequence-specific DNA binding DNA binding binding nucleic acid binding telomeric repeat DNA binding damaged DNA binding protein phosphatase binding phosphatase binding protein binding enzyme binding G-rich strand telomeric DNA binding sequence-specific single stranded DNA binding single-stranded telomeric DNA binding single-stranded DNA binding sequence-specific DNA binding DNA binding binding nucleic acid binding telomeric repeat DNA binding damaged DNA binding protein phosphatase binding phosphatase binding protein binding enzyme binding G-rich strand telomeric DNA binding sequence-specific single stranded DNA binding single-stranded telomeric DNA binding single-stranded DNA binding ubiquitin protein ligase binding ubiquitin-like protein ligase binding	nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process cellular response to stimulus regulation of DNA recombination regulation of cellular process regulation of double-strand break repair response to stimulus regulation of cellular response to stress nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process cellular response to stimulus regulation of DNA recombination regulation of cellular process regulation of double-strand break repair response to stimulus regulation of cellular response to stress regulation of primary metabolic process cellular response to stress response to stress 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 regulation of macromolecule metabolic process regulation of DNA repair regulation of double-strand break repair via homologous recombination DNA damage response regulation of response to stimulus regulation of metabolic process regulation of DNA metabolic process localization protein localization to chromosome protein localization to organelle macromolecule localization intracellular protein localization mismatch repair regulation of cell cycle phase transition DNA damage checkpoint signaling signaling negative regulation of biological process negative regulation of cell cycle cell cycle phase transition regulation of cell cycle G1/S phase transition cell cycle G1/S phase transition intracellular signal transduction mitotic cell cycle negative regulation of mitotic cell cycle cell communication regulation of mitotic cell cycle mitotic DNA integrity checkpoint signaling mitotic DNA damage checkpoint signaling negative regulation of cellular process negative regulation of cell cycle phase transition signal transduction cell cycle regulation of cell cycle cell cycle process negative regulation of G1/S transition of mitotic cell cycle mitotic G1/S transition checkpoint signaling negative regulation of mitotic cell cycle phase transition regulation of cell cycle process negative regulation of cell cycle G1/S phase transition DNA integrity checkpoint signaling negative regulation of cell cycle process cell cycle checkpoint signaling regulation of mitotic cell cycle phase transition mitotic cell cycle checkpoint signaling mitotic G1 DNA damage checkpoint signaling mitotic cell cycle process regulation of G1/S transition of mitotic cell cycle signal transduction in response to DNA damage G1/S transition of mitotic cell cycle mitotic cell cycle phase transition regulation of signal transduction regulation of cell cycle checkpoint regulation of intracellular signal transduction regulation of signaling regulation of cell communication regulation of DNA damage checkpoint telomere organization chromosome organization telomere maintenance cellular component organization organelle organization cellular component organization or biogenesis base-excision repair nucleotide-excision repair	membrane-bounded organelle protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear chromosome chromosome intracellular organelle lumen intracellular organelle cellular anatomical structure nuclear replisome membraneless organelle replication fork membrane-bounded organelle protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear chromosome chromosome intracellular organelle lumen intracellular organelle cellular anatomical structure nuclear replisome membraneless organelle replication fork DNA replication factor A complex protein-DNA complex nuclear replication fork intracellular membraneless organelle intracellular membrane-bounded organelle organelle lumen organelle nuclear lumen replisome nucleoplasm chromatin nuclear body chromosome, telomeric region chromosomal region PML body
A, C	Replication protein A 14 kDa subunit	DNA binding binding damaged DNA binding nucleic acid binding single-stranded DNA binding	nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process regulation of mitotic cell cycle regulation of biological process regulation of cellular process biological regulation cell cycle regulation of cell cycle nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process regulation of mitotic cell cycle regulation of biological process regulation of cellular process biological regulation cell cycle regulation of cell cycle mitotic cell cycle cellular response to stimulus double-strand break repair response to stimulus DNA recombination cellular response to stress DNA damage response response to stress recombinational repair double-strand break repair via homologous recombination DNA repair base-excision repair mismatch repair cell population proliferation regulation of cell population proliferation nucleotide-excision repair telomere organization chromosome organization telomere maintenance cellular component organization organelle organization cellular component organization or biogenesis	membrane-bounded organelle protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear chromosome chromosome intracellular organelle lumen intracellular organelle cellular anatomical structure nuclear replisome membraneless organelle replication fork membrane-bounded organelle protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear chromosome chromosome intracellular organelle lumen intracellular organelle cellular anatomical structure nuclear replisome membraneless organelle replication fork DNA replication factor A complex protein-DNA complex nuclear replication fork intracellular membraneless organelle intracellular membrane-bounded organelle organelle lumen organelle nuclear lumen replisome site of double-strand break site of DNA damage nucleoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth D], D [auth B]	IPR014892	Replication protein A, C-terminal	Domain
B [auth D], D [auth B]	IPR040260	Replication factor A protein-like	Family
B [auth D], D [auth B]	IPR036388	Winged helix-like DNA-binding domain superfamily	Homologous Superfamily
B [auth D], D [auth B]	IPR036390	Winged helix DNA-binding domain superfamily	Homologous Superfamily
B [auth D], D [auth B]	IPR014646	Replication factor A protein 2	Family
B [auth D], D [auth B]	IPR012340	Nucleic acid-binding, OB-fold	Homologous Superfamily
A, C	IPR013970	Replication factor A protein 3	Family
A, C	IPR012340	Nucleic acid-binding, OB-fold	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B [auth D], D [auth B]	: P15927	diabetes mellitus lymphoplasmacytic lymphoma ovarian cancer
A, C	: P35244	breast cancer ovarian cancer lung cancer pancreatic intraductal papillary-mucinous neoplasm malignant mesothelioma Stevens-Johnson syndrome

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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.