Annotations: 4JCV

Crystal structure of the RecOR complex in an open conformation

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

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Toprim domain-like	8055733	3000737	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	RecR N-terminal domain-like	8055731	3001909	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Glucocorticoid receptor-like (DNA-binding domain)	8041284	3000068	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	RecR N-terminal domain-like	8055731	3001909	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Glucocorticoid receptor-like (DNA-binding domain)	8041284	3000068	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Toprim domain-like	8055733	3000737	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Glucocorticoid receptor-like (DNA-binding domain)	8041284	3000068	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Toprim domain-like	8055733	3000737	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	RecR N-terminal domain-like	8055731	3001909	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Glucocorticoid receptor-like (DNA-binding domain)	8041284	3000068	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Toprim domain-like	8055733	3000737	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	RecR N-terminal domain-like	8055731	3001909	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Nucleic acid-binding proteins	8042766	3000135	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	ArfGap/RecO-like zinc finger	8042768	3000151	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Nucleic acid-binding proteins	8042766	3000135	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	ArfGap/RecO-like zinc finger	8042768	3000151	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	EB1	e4jcvA4	A: beta barrels	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: EB1	ECOD (v294.2)
B	EB1	e4jcvB4	A: beta barrels	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: EB1	ECOD (v294.2)
C	EB1	e4jcvC4	A: beta barrels	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: EB1	ECOD (v294.2)
D	EB1	e4jcvD4	A: beta barrels	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: EB1	ECOD (v294.2)
E	TraQ_transposon	e4jcvE1	A: beta barrels	X: immunoglobulin/albumin-binding domain-like	H: EGF-related	T: Complement control module/SCR domain	F: TraQ_transposon	ECOD (v294.2)
F	TraQ_transposon	e4jcvF1	A: beta barrels	X: immunoglobulin/albumin-binding domain-like	H: EGF-related	T: Complement control module/SCR domain	F: TraQ_transposon	ECOD (v294.2)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.1360.10	Alpha Beta	3-Layer(aba) Sandwich	Dna Topoisomerase Vi A Subunit	Chain: A, domain 2	CATH (4.3.0)
B	3.40.1360.10	Alpha Beta	3-Layer(aba) Sandwich	Dna Topoisomerase Vi A Subunit	Chain: A, domain 2	CATH (4.3.0)
C	3.40.1360.10	Alpha Beta	3-Layer(aba) Sandwich	Dna Topoisomerase Vi A Subunit	Chain: A, domain 2	CATH (4.3.0)
D	3.40.1360.10	Alpha Beta	3-Layer(aba) Sandwich	Dna Topoisomerase Vi A Subunit	Chain: A, domain 2	CATH (4.3.0)
E	2.40.50.140	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	Nucleic acid-binding proteins	CATH (4.3.0)
E	1.20.1440.120	Mainly Alpha	Up-down Bundle	de novo design (two linked rop proteins)	Recombination protein O, C-terminal domain	CATH (4.3.0)
E	6.20.220.20	Special	Other non-globular	Erythroid Transcription Factor GATA-1	Chain A	CATH (4.3.0)
F	2.40.50.140	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	Nucleic acid-binding proteins	CATH (4.3.0)
F	1.20.1440.120	Mainly Alpha	Up-down Bundle	de novo design (two linked rop proteins)	Recombination protein O, C-terminal domain	CATH (4.3.0)
F	6.20.220.20	Special	Other non-globular	Erythroid Transcription Factor GATA-1	Chain A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF21176	RecR, helix-hairpin-helix (RecR_HhH)	RecR, helix-hairpin-helix	-	Motif
A, B, C, D	PF21175	RecR, C-terminal (RecR_C)	RecR, C-terminal	The bacterial protein RecR is an important regulator in the RecFOR homologous recombination pathway during DNA repair. It acts with RecF and RecO forming a complex that facilitates the loading of RecA onto ssDNA. RecR is a zinc metalloprotein consist ...	The bacterial protein RecR is an important regulator in the RecFOR homologous recombination pathway during DNA repair. It acts with RecF and RecO forming a complex that facilitates the loading of RecA onto ssDNA. RecR is a zinc metalloprotein consisting of a N-terminal helix-hairpin-helix (HhH) motif, a middle region containing a zinc finger motif (Pfam:PF02132) and a Toprim domain (Pfam:PF13662), and a C-terminal domain comprising a Walker B motif and a C-terminal helix [1,2]. This is the C-terminal domain of RecR, which has a divergent Walker B motif, suggesting a nucleotide binding site [1,2].	Domain
A, B, C, D	PF02132	RecR, Cys4-zinc finger domain (RecR_ZnF)	RecR, Cys4-zinc finger domain	The bacterial protein RecR is an important regulator in the RecFOR homologous recombination pathway during DNA repair. It acts with RecF and RecO forming a complex that facilitates the loading of RecA onto ssDNA. RecR is a zinc metalloprotein consist ...	The bacterial protein RecR is an important regulator in the RecFOR homologous recombination pathway during DNA repair. It acts with RecF and RecO forming a complex that facilitates the loading of RecA onto ssDNA. RecR is a zinc metalloprotein consisting of a N-terminal helix-hairpin-helix (HhH) motif, a middle region containing a zinc finger motif and a Toprim domain (Pfam:PF13662) and a C-terminal domain comprising a Walker B motif and a C-terminal helix [1,2]. This is the zinc finger motif, which consists of four strictly conserved cysteine residues which coordinate a zinc ion. This motif is the most conserved domain in RecR proteins and plays a structural role stabilizing the 3D structure of the protein [3].	Domain
A, B, C, D	PF01751	Toprim domain (Toprim)	Toprim domain	-	Family
E, F	PF02565	Recombination protein O C terminal (RecO_C)	Recombination protein O C terminal	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Recombination protein RecR	DNA binding binding nucleic acid binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	cellular response to stimulus response to stimulus DNA recombination primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process cellular response to stress DNA damage response response to stress recombinational repair metabolic process cellular process macromolecule metabolic process cellular response to stimulus response to stimulus DNA recombination primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process cellular response to stress DNA damage response response to stress recombinational repair metabolic process cellular process macromolecule metabolic process DNA repair double-strand break repair	-
E, F	DNA repair protein RecO	cation binding ion binding binding metal ion binding small molecule binding	cellular response to stimulus double-strand break repair response to stimulus primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process cellular response to stress DNA damage response response to stress metabolic process cellular process macromolecule metabolic process DNA repair cellular response to stimulus double-strand break repair response to stimulus primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process cellular response to stress DNA damage response response to stress metabolic process cellular process macromolecule metabolic process DNA repair DNA recombination	intracellular organelle bacterial nucleoid cellular anatomical structure intracellular anatomical structure organelle membraneless organelle intracellular membraneless organelle nucleoid

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR023627	Recombination protein RecR	Homologous Superfamily
A, B, C, D	IPR006171	TOPRIM domain	Domain
A, B, C, D	IPR015967	Recombination protein RecR, zinc finger domain	Domain
A, B, C, D	IPR000093	DNA recombination protein RecR	Family
A, B, C, D	IPR003583	Helix-hairpin-helix DNA-binding motif, class 1	Domain
A, B, C, D	IPR034137	RecR, TOPRIM domain	Domain
E, F	IPR022572	DNA replication/recombination mediator RecO, N-terminal	Domain
E, F	IPR042242	Recombination protein O, C-terminal	Homologous Superfamily
E, F	IPR037278	ARFGAP/RecO-like zinc finger	Homologous Superfamily
E, F	IPR012340	Nucleic acid-binding, OB-fold	Homologous Superfamily
E, F	IPR003717	Recombination protein O, RecO	Family

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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.