2IH2 | pdb_00002ih2

Crystal structure of the adenine-specific DNA methyltransferase M.TaqI complexed with the cofactor analog AETA and a 10 bp DNA containing 5-methylpyrimidin-2(1H)-one at the target base partner position

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
E [auth A]	d2ih2a1	Alpha and beta proteins (a/b)	S-adenosyl-L-methionine-dependent methyltransferases	S-adenosyl-L-methionine-dependent methyltransferases	DNA methylase TaqI, N-terminal domain	DNA methylase TaqI, N-terminal domain	(Thermus aquaticus ) [TaxId: 271 ],	SCOPe (2.08)
E [auth A]	d2ih2a2	Alpha and beta proteins (a+b)	DNA methylase specificity domain	DNA methylase specificity domain	TaqI C-terminal domain-like	DNA methylase TaqI, C-terminal domain	(Thermus aquaticus ) [TaxId: 271 ],	SCOPe (2.08)
F [auth D]	d2ih2d1	Alpha and beta proteins (a/b)	S-adenosyl-L-methionine-dependent methyltransferases	S-adenosyl-L-methionine-dependent methyltransferases	DNA methylase TaqI, N-terminal domain	DNA methylase TaqI, N-terminal domain	(Thermus aquaticus ) [TaxId: 271 ],	SCOPe (2.08)
F [auth D]	d2ih2d2	Alpha and beta proteins (a+b)	DNA methylase specificity domain	DNA methylase specificity domain	TaqI C-terminal domain-like	DNA methylase TaqI, C-terminal domain	(Thermus aquaticus ) [TaxId: 271 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
E [auth A]	SCOP2 Family	DNA methylase TaqI, N-terminal domain	8022132	4003613	SCOP2 (2022-06-29)
E [auth A]	SCOP2 Family	TaqI C-terminal domain-like	8022133	4002786	SCOP2 (2022-06-29)
E [auth A]	SCOP2 Superfamily	S-adenosyl-L-methionine-dependent methyltransferases	8034512	3000118	SCOP2 (2022-06-29)
E [auth A]	SCOP2 Superfamily	DNA methylase specificity domain	8034513	3001742	SCOP2 (2022-06-29)
F [auth D]	SCOP2B Superfamily	S-adenosyl-L-methionine-dependent methyltransferases	8034512	3000118	SCOP2B (2022-06-29)
F [auth D]	SCOP2B Superfamily	DNA methylase specificity domain	8034513	3001742	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)
E [auth A]	TaqI_C	e2ih2A1	A: a+b complex topology	X: DNA methylase specificity domain (From Topology)	H: DNA methylase specificity domain (From Topology)	T: DNA methylase specificity domain	F: TaqI_C	ECOD (1.6)
E [auth A]	N6_Mtase	e2ih2A2	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: N6_Mtase	ECOD (1.6)
F [auth D]	TaqI_C	e2ih2D1	A: a+b complex topology	X: DNA methylase specificity domain (From Topology)	H: DNA methylase specificity domain (From Topology)	T: DNA methylase specificity domain	F: TaqI_C	ECOD (1.6)
F [auth D]	N6_Mtase	e2ih2D2	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: N6_Mtase	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
E [auth A]	3.40.50.150	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Vaccinia Virus protein VP39	CATH (4.3.0)
E [auth A]	3.90.220.10	Alpha Beta	Alpha-Beta Complex	Adenine-n6-DNA-methyltransferase TaqI	Chain A, domain 2	CATH (4.3.0)
F [auth D]	3.40.50.150	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Vaccinia Virus protein VP39	CATH (4.3.0)
F [auth D]	3.90.220.10	Alpha Beta	Alpha-Beta Complex	Adenine-n6-DNA-methyltransferase TaqI	Chain A, domain 2	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
E [auth A], F [auth D]	PF12950	TaqI-like C-terminal specificity domain (TaqI_C)	TaqI-like C-terminal specificity domain	This domain is found at the C-terminus of the TaqI protein and is involved in DNA-binding and substrate recognition.	Domain
E [auth A], F [auth D]	PF07669	Eco57I restriction-modification methylase (Eco57I)	Eco57I restriction-modification methylase	Homologues of the Escherichia coli Eco57I restriction-modification methylase are found in several phylogenetically diverse bacteria. The structure of TaqI has been solved [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth B], C [auth E]	5'-D(GPTPTPCPGPAPTPGPTPC)-3'	-	-	-
B [auth C], D [auth F]	5'-D(GPAPCPAP(5PY)PCPGP(6MA)PAPC)-3'	-	-	-
E [auth A], F [auth D]	Modification methylase TaqI	DNA binding binding nucleic acid binding DNA-methyltransferase activity catalytic activity, acting on DNA site-specific DNA-methyltransferase (adenine-specific) activity transferase activity, transferring one-carbon groups catalytic activity, acting on a nucleic acid transferase activity methyltransferase activity S-adenosylmethionine-dependent methyltransferase activity catalytic activity	methylation metabolic process cellular process 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 methylation metabolic process cellular process 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 response to external biotic stimulus macromolecule metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
E [auth A], F [auth D]	IPR050953	N(4)/N(6)-adenine-specific DNA methyltransferase	Family
E [auth A], F [auth D]	IPR002052	DNA methylase, N-6 adenine-specific, conserved site	Conserved Site
E [auth A], F [auth D]	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase superfamily	Homologous Superfamily
E [auth A], F [auth D]	IPR025931	TaqI-like C-terminal specificity domain	Domain
E [auth A], F [auth D]	IPR021188	N6 adenine-specific DNA methyltransferase, TaqI class	Family
E [auth A], F [auth D]	IPR023135	N6 adenine-specific DNA methyltransferase, TaqI class, C-terminal	Homologous Superfamily
E [auth A], F [auth D]	IPR011639	Type II methyltransferase M.TaqI-like domain	Domain

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.