Annotations: 5YBB

Structural basis underlying complex assembly andconformational transition of the type I R-M system

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
F [auth G]	ATP-synt_Eps	e5ybbG1	A: alpha arrays	X: FAD-linked reductases, C-terminal domain-like	H: FAD-linked reductases-C	T: FAD-linked reductases-C	F: ATP-synt_Eps	ECOD (v295.2)
C [auth D]	GFP	e5ybbD1	A: alpha arrays	X: Cryptochrome/photolyase FAD-binding domain-related	H: Cryptochrome/photolyase FAD-binding domain-related	T: Undecaprenyl diphosphate synthase	F: GFP	ECOD (v295.2)
E	AAA_lid_3	e5ybbE1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: AAA_lid_3	ECOD (v295.2)
D [auth B]		e5ybbB1	A: alpha arrays	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F:	ECOD (v295.2)
B [auth C]	AAA_lid_3	e5ybbC1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: AAA_lid_3	ECOD (v295.2)
A		e5ybbA1	A: alpha arrays	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F:	ECOD (v295.2)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F [auth G]	3.90.220.20	Alpha Beta	Alpha-Beta Complex	Adenine-n6-DNA-methyltransferase TaqI	Chain A, domain 2	CATH (utative)
C [auth D]	3.90.220.20	Alpha Beta	Alpha-Beta Complex	Adenine-n6-DNA-methyltransferase TaqI	Chain A, domain 2	CATH (utative)
D [auth B]	3.40.50.150	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Vaccinia Virus protein VP39	CATH (4.3.0)
A	3.40.50.150	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Vaccinia Virus protein VP39	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C [auth D], F [auth G]	PF01420	Type I restriction modification DNA specificity domain (Methylase_S)	Type I restriction modification DNA specificity domain	This domain is also known as the target recognition domain (TRD). Restriction-modification (R-M) systems protect a bacterial cell against invasion of foreign DNA by endonucleolytic cleavage of DNA that lacks a site specific modification. The host ge ...	This domain is also known as the target recognition domain (TRD). Restriction-modification (R-M) systems protect a bacterial cell against invasion of foreign DNA by endonucleolytic cleavage of DNA that lacks a site specific modification. The host genome is protected from cleavage by methylation of specific nucleotides in the target sites. In type I systems, both restriction and modification activities are present in one heteromeric enzyme complex composed of one DNA specificity subunit (this family), two modification (M) subunits and two restriction (R) subunits [2].	Domain
A, B [auth C], D [auth B], E	PF02384	N-6 DNA Methylase (N6_Mtase)	N-6 DNA Methylase	-	Family
A, B [auth C], D [auth B], E	PF12161	HsdM N-terminal domain (HsdM_N)	HsdM N-terminal domain	This domain is found at the N-terminus of the methylase subunit of Type I DNA methyltransferases. This domain family is found in bacteria and archaea, and is typically between 123 and 138 amino acids in length. The family is found in association with ...	This domain is found at the N-terminus of the methylase subunit of Type I DNA methyltransferases. This domain family is found in bacteria and archaea, and is typically between 123 and 138 amino acids in length. The family is found in association with Pfam:PF02384. Mutations in this region of EcoKI methyltransferase Swiss:P08957 abolish the normally strong preference of this system for methylating hemimethylated substrate [1]. The structure of this domain has been shown to be all alpha-helical.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
H [auth I]	DNA	-	-	-
G [auth H]	DNA	-	-	-
C [auth D], F [auth G]	Restriction endonuclease S subunits	DNA binding binding nucleic acid binding	-	-
A, B [auth C], D [auth B], E	Type I restriction-modification system methyltransferase subunit	DNA binding binding nucleic acid binding transferase activity, transferring one-carbon groups N-methyltransferase activity transferase activity methyltransferase activity catalytic activity DNA-methyltransferase activity catalytic activity, acting on DNA site-specific DNA-methyltransferase (adenine-specific) activity catalytic activity, acting on a nucleic acid S-adenosylmethionine-dependent methyltransferase activity	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth D], F [auth G]	IPR044946	Type I restriction modification DNA specificity domain superfamily	Homologous Superfamily
C [auth D], F [auth G]	IPR051212	Type I restriction enzyme S subunit	Family
C [auth D], F [auth G]	IPR000055	Type I restriction modification DNA specificity domain	Domain
A, B [auth C], D [auth B], E	IPR002052	DNA methylase, N-6 adenine-specific, conserved site	Conserved Site
A, B [auth C], D [auth B], E	IPR003356	DNA methylase, adenine-specific	Domain
A, B [auth C], D [auth B], E	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase superfamily	Homologous Superfamily
A, B [auth C], D [auth B], E	IPR022749	N6 adenine-specific DNA methyltransferase, N-terminal domain	Domain
A, B [auth C], D [auth B], E	IPR051537	DNA Adenine N(4)/N(6)-Methyltransferase	Family
A, B [auth C], D [auth B], E	IPR038333	Type I restriction enzyme EcoKI-like, methylase subunit, N-terminal domain superfamily	Homologous Superfamily