4BEB | pdb_00004beb

MUTANT (K220E) OF THE HSDR SUBUNIT OF THE ECOR124I RESTRICTION ENZYME IN COMPLEX WITH ATP

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
D	SCOP2B Superfamily	HsdR C-terminal domain-like	8091622	3002528	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Restriction endonuclease-like	8091621	3000104	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	RecA-like P-loop NTPases	8091625	3002019	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	RecA-like P-loop NTPases	8091624	3002019	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Restriction endonuclease-like	8091621	3000104	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	HsdR C-terminal domain-like	8091622	3002528	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	RecA-like P-loop NTPases	8091625	3002019	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	RecA-like P-loop NTPases	8091624	3002019	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Restriction endonuclease-like	8091621	3000104	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	HsdR C-terminal domain-like	8091622	3002528	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	RecA-like P-loop NTPases	8091624	3002019	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	RecA-like P-loop NTPases	8091625	3002019	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	HsdR C-terminal domain-like	8091622	3002528	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	RecA-like P-loop NTPases	8091625	3002019	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	RecA-like P-loop NTPases	8091624	3002019	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Restriction endonuclease-like	8091621	3000104	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	EcoR124_C_N	e4bebD4	A: alpha arrays	X: HSDR subunit helical domain (From Topology)	H: HSDR subunit helical domain (From Topology)	T: HSDR subunit helical domain	F: EcoR124_C_N	ECOD (1.6)
D	Helicase_C_8	e4bebD1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Helicase_C_8	ECOD (1.6)
D	DEAD_1	e4bebD3	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: DEAD_1	ECOD (1.6)
D	HSDR_N	e4bebD2	A: a/b three-layered sandwiches	X: Restriction endonuclease-like	H: Restriction endonuclease-like (From Topology)	T: Restriction endonuclease-like	F: HSDR_N	ECOD (1.6)
C	EcoR124_C_N	e4bebC4	A: alpha arrays	X: HSDR subunit helical domain (From Topology)	H: HSDR subunit helical domain (From Topology)	T: HSDR subunit helical domain	F: EcoR124_C_N	ECOD (1.6)
C	Helicase_C_8	e4bebC1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Helicase_C_8	ECOD (1.6)
C	DEAD_1	e4bebC3	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: DEAD_1	ECOD (1.6)
C	HSDR_N	e4bebC2	A: a/b three-layered sandwiches	X: Restriction endonuclease-like	H: Restriction endonuclease-like (From Topology)	T: Restriction endonuclease-like	F: HSDR_N	ECOD (1.6)
B	EcoR124_C_N	e4bebB4	A: alpha arrays	X: HSDR subunit helical domain (From Topology)	H: HSDR subunit helical domain (From Topology)	T: HSDR subunit helical domain	F: EcoR124_C_N	ECOD (1.6)
B	Helicase_C_8	e4bebB1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Helicase_C_8	ECOD (1.6)
B	DEAD_1	e4bebB3	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: DEAD_1	ECOD (1.6)
B	HSDR_N	e4bebB2	A: a/b three-layered sandwiches	X: Restriction endonuclease-like	H: Restriction endonuclease-like (From Topology)	T: Restriction endonuclease-like	F: HSDR_N	ECOD (1.6)
A	EcoR124_C_N	e4bebA4	A: alpha arrays	X: HSDR subunit helical domain (From Topology)	H: HSDR subunit helical domain (From Topology)	T: HSDR subunit helical domain	F: EcoR124_C_N	ECOD (1.6)
A	Helicase_C_8	e4bebA1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Helicase_C_8	ECOD (1.6)
A	DEAD_1	e4bebA3	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: DEAD_1	ECOD (1.6)
A	HSDR_N	e4bebA2	A: a/b three-layered sandwiches	X: Restriction endonuclease-like	H: Restriction endonuclease-like (From Topology)	T: Restriction endonuclease-like	F: HSDR_N	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	3.90.1570.50	Alpha Beta	Alpha-Beta Complex	tt1808, chain A		CATH (4.3.0)
D	3.90.640.50	Alpha Beta	Alpha-Beta Complex	Actin	Chain A, domain 4	CATH (4.3.0)
D	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
C	3.90.1570.50	Alpha Beta	Alpha-Beta Complex	tt1808, chain A		CATH (4.3.0)
C	3.90.640.50	Alpha Beta	Alpha-Beta Complex	Actin	Chain A, domain 4	CATH (4.3.0)
C	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
B	3.90.1570.50	Alpha Beta	Alpha-Beta Complex	tt1808, chain A		CATH (4.3.0)
B	3.90.640.50	Alpha Beta	Alpha-Beta Complex	Actin	Chain A, domain 4	CATH (4.3.0)
B	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
A	3.90.1570.50	Alpha Beta	Alpha-Beta Complex	tt1808, chain A		CATH (4.3.0)
A	3.90.640.50	Alpha Beta	Alpha-Beta Complex	Actin	Chain A, domain 4	CATH (4.3.0)
A	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	TYPE I RESTRICTION ENZYME HSDR	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 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 DNA binding nucleic acid binding endonuclease activity catalytic activity, acting on a nucleic acid hydrolase activity DNA nuclease activity ATP-dependent activity ATP-dependent activity, acting on DNA restriction endodeoxyribonuclease activity DNA endonuclease activity type I site-specific deoxyribonuclease activity hydrolase activity, acting on ester bonds catalytic activity, acting on DNA nuclease activity DNA translocase activity DNA endonuclease activity, producing 5'-phosphomonoesters catalytic activity	biological process involved in interspecies interaction between organisms response to stimulus response to other organism defense response DNA restriction-modification system defense response to symbiont response to external stimulus primary metabolic process clearance of foreign intracellular DNA clearance of foreign intracellular nucleic acids DNA metabolic process response to biotic stimulus nucleic acid metabolic process nucleobase-containing compound metabolic process DNA modification biological process involved in interspecies interaction between organisms response to stimulus response to other organism defense response DNA restriction-modification system defense response to symbiont response to external stimulus primary metabolic process clearance of foreign intracellular DNA clearance of foreign intracellular nucleic acids DNA metabolic process response to biotic stimulus nucleic acid metabolic process nucleobase-containing compound metabolic process DNA modification defense response to other organism response to stress macromolecule modification metabolic process cellular process response to external biotic stimulus macromolecule metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR007409	Restriction endonuclease, type I, HsdR, N-terminal	Domain
A, B, C, D	IPR004473	Restriction endonuclease, type I, HsdR	Family
A, B, C, D	IPR040980	SWI2/SNF2 ATPase	Domain
A, B, C, D	IPR014001	Helicase superfamily 1/2, ATP-binding domain	Domain
A, B, C, D	IPR022625	Type I restriction enzyme R protein, C-terminal	Domain
A, B, C, D	IPR055180	Restriction endonuclease, type I, HsdR, second RecA-like helicase domain	Domain
A, B, C, D	IPR051268	Type I restriction enzyme R subunit	Family
A, B, C, D	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily

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.