Annotations: 1NA6

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1na6a1	All beta proteins	DNA-binding pseudobarrel domain	DNA-binding pseudobarrel domain	Type II restriction endonuclease effector domain	Restriction endonuclease EcoRII, N-terminal domain	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
A	d1na6a2	Alpha and beta proteins (a/b)	Restriction endonuclease-like	Restriction endonuclease-like	Type II restriction endonuclease catalytic domain	Restriction endonuclease EcoRII, C-terminal domain	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
B	d1na6b1	All beta proteins	DNA-binding pseudobarrel domain	DNA-binding pseudobarrel domain	Type II restriction endonuclease effector domain	Restriction endonuclease EcoRII, N-terminal domain	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
B	d1na6b2	Alpha and beta proteins (a/b)	Restriction endonuclease-like	Restriction endonuclease-like	Type II restriction endonuclease catalytic domain	Restriction endonuclease EcoRII, C-terminal domain	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Restriction endonuclease-like	8036734	3000104	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	DNA-binding pseudobarrel domain	8036733	3000213	SCOP2B (2022-06-29)
B	SCOP2 Family	Type II restriction endonuclease catalytic domain	8024355	4001115	SCOP2 (2022-06-29)
B	SCOP2 Family	Type II restriction endonuclease effector domain	8024354	4000944	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	Restriction endonuclease-like	8036734	3000104	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	DNA-binding pseudobarrel domain	8036733	3000213	SCOP2 (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	EcoRII-N	e1na6A1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Type II restriction endonuclease effector domain	F: EcoRII-N	ECOD (1.6)
A	EcoRII-C	e1na6A2	A: a/b three-layered sandwiches	X: Restriction endonuclease-like	H: Restriction endonuclease-like (From Topology)	T: Restriction endonuclease-like	F: EcoRII-C	ECOD (1.6)
B	EcoRII-N	e1na6B1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Type II restriction endonuclease effector domain	F: EcoRII-N	ECOD (1.6)
B	EcoRII-C	e1na6B2	A: a/b three-layered sandwiches	X: Restriction endonuclease-like	H: Restriction endonuclease-like (From Topology)	T: Restriction endonuclease-like	F: EcoRII-C	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.40.330.10	Mainly Beta	Beta Barrel	At1g16640 B3 domain	DNA-binding pseudobarrel domain	CATH (4.3.0)
A	3.40.91.80	Alpha Beta	3-Layer(aba) Sandwich	Restriction Endonuclease		CATH (4.3.0)
B	2.40.330.10	Mainly Beta	Beta Barrel	At1g16640 B3 domain	DNA-binding pseudobarrel domain	CATH (4.3.0)
B	3.40.91.80	Alpha Beta	3-Layer(aba) Sandwich	Restriction Endonuclease		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF09217	Restriction endonuclease EcoRII, N-terminal (EcoRII-N)	Restriction endonuclease EcoRII, N-terminal	The N-terminal effector-binding domain of the Restriction Endonuclease EcoRII has a DNA recognition fold, allowing for binding to 5'-CCWGG sequences. It assumes a structure composed of an eight-stranded beta-sheet with the strands in the order of b2, ...	The N-terminal effector-binding domain of the Restriction Endonuclease EcoRII has a DNA recognition fold, allowing for binding to 5'-CCWGG sequences. It assumes a structure composed of an eight-stranded beta-sheet with the strands in the order of b2, b5, b4, b3, b7, b6, b1 and b8. They are mostly antiparallel to each other except that b3 is parallel to b7. Alternatively, it may also be viewed as consisting of two mini beta-sheets of four antiparallel beta-strands, sheet I from beta-strands b2, b5, b4, b3 and sheet II from strands b7, b6, b1, b8, folded into an open mixed beta-barrel with a novel topology. Sheet I has a simple Greek key motif while sheet II does not [1].	Domain
A, B	PF09019	EcoRII C terminal (EcoRII-C)	EcoRII C terminal	The C-terminal catalytic domain of the Restriction Endonuclease EcoRII has a restriction endonuclease-like fold with a central five-stranded mixed beta-sheet surrounded on both sides by alpha-helices. It cleaves DNA specifically at single 5' CCWGG si ...	The C-terminal catalytic domain of the Restriction Endonuclease EcoRII has a restriction endonuclease-like fold with a central five-stranded mixed beta-sheet surrounded on both sides by alpha-helices. It cleaves DNA specifically at single 5' CCWGG sites [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Restriction endonuclease EcoRII	DNA binding binding organic cyclic compound binding nucleic acid binding endonuclease activity catalytic activity, acting on a nucleic acid endodeoxyribonuclease activity, producing 5'-phosphomonoesters hydrolase activity DNA nuclease activity type II site-specific deoxyribonuclease activity restriction endodeoxyribonuclease activity DNA endonuclease activity nuclease activity hydrolase activity, acting on ester bonds DNA binding binding organic cyclic compound binding nucleic acid binding endonuclease activity catalytic activity, acting on a nucleic acid endodeoxyribonuclease activity, producing 5'-phosphomonoesters hydrolase activity DNA nuclease activity type II site-specific deoxyribonuclease activity restriction endodeoxyribonuclease activity DNA endonuclease activity nuclease activity hydrolase activity, acting on ester bonds catalytic activity, acting on DNA endonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters catalytic activity	biological process involved in interspecies interaction between organisms response to stimulus DNA restriction-modification system clearance of foreign intracellular nucleic acids response to biotic stimulus nucleobase-containing compound metabolic process DNA modification organic substance metabolic process response to stress response to external biotic stimulus response to other organism defense response defense response to symbiont response to external stimulus biological process involved in interspecies interaction between organisms response to stimulus DNA restriction-modification system clearance of foreign intracellular nucleic acids response to biotic stimulus nucleobase-containing compound metabolic process DNA modification organic substance metabolic process response to stress response to external biotic stimulus response to other organism defense response defense response to symbiont response to external stimulus primary metabolic process clearance of foreign intracellular DNA DNA metabolic process nucleic acid metabolic process organic cyclic compound metabolic process defense response to other organism macromolecule modification metabolic process macromolecule metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR015300	DNA-binding pseudobarrel domain superfamily	Homologous Superfamily
A, B	IPR011335	Restriction endonuclease type II-like	Homologous Superfamily
A, B	IPR038365	EcoRII, C-terminal domain superfamily	Homologous Superfamily
A, B	IPR023372	Restriction endonuclease, type II, EcoRII, N-terminal	Domain
A, B	IPR015109	Restriction endonuclease, type II, EcoRII, C-terminal	Domain

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.