1RG9 | pdb_00001rg9

S-Adenosylmethionine synthetase complexed with SAM and PPNP

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)
D	d1rg9d1	Alpha and beta proteins (a+b)	S-adenosylmethionine synthetase	S-adenosylmethionine synthetase	S-adenosylmethionine synthetase	S-adenosylmethionine synthetase	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
C	d1rg9c1	Alpha and beta proteins (a+b)	S-adenosylmethionine synthetase	S-adenosylmethionine synthetase	S-adenosylmethionine synthetase	S-adenosylmethionine synthetase	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
B	d1rg9b1	Alpha and beta proteins (a+b)	S-adenosylmethionine synthetase	S-adenosylmethionine synthetase	S-adenosylmethionine synthetase	S-adenosylmethionine synthetase	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
A	d1rg9a1	Alpha and beta proteins (a+b)	S-adenosylmethionine synthetase	S-adenosylmethionine synthetase	S-adenosylmethionine synthetase	S-adenosylmethionine synthetase	(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)
D	SCOP2B Superfamily	S-adenosylmethionine synthetase	8036385	3000766	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	S-adenosylmethionine synthetase	8036387	3000766	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	S-adenosylmethionine synthetase	8036388	3000766	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	S-adenosylmethionine synthetase	8036387	3000766	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	S-adenosylmethionine synthetase	8036388	3000766	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	S-adenosylmethionine synthetase	8036385	3000766	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	S-adenosylmethionine synthetase	8036385	3000766	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	S-adenosylmethionine synthetase	8036388	3000766	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	S-adenosylmethionine synthetase	8036387	3000766	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	S-adenosylmethionine synthetase	8036387	3000766	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	S-adenosylmethionine synthetase	8036388	3000766	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	S-adenosylmethionine synthetase	8036385	3000766	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	IMS_C	e1rg9D1	A: alpha bundles	X: EGF-like	H: Rpp14/Pop5-like	T: Rpp14/Pop5-like	F: IMS_C	ECOD (develop294)
C	IMS_C	e1rg9C1	A: alpha bundles	X: EGF-like	H: Rpp14/Pop5-like	T: Rpp14/Pop5-like	F: IMS_C	ECOD (develop294)
B	IMS_C	e1rg9B1	A: alpha bundles	X: EGF-like	H: Rpp14/Pop5-like	T: Rpp14/Pop5-like	F: IMS_C	ECOD (develop294)
A	IMS_C	e1rg9A1	A: alpha bundles	X: EGF-like	H: Rpp14/Pop5-like	T: Rpp14/Pop5-like	F: IMS_C	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	3.30.300.10	Alpha Beta	2-Layer Sandwich	GMP Synthetase	Chain A, domain 3	CATH (4.3.0)
C	3.30.300.10	Alpha Beta	2-Layer Sandwich	GMP Synthetase	Chain A, domain 3	CATH (4.3.0)
B	3.30.300.10	Alpha Beta	2-Layer Sandwich	GMP Synthetase	Chain A, domain 3	CATH (4.3.0)
A	3.30.300.10	Alpha Beta	2-Layer Sandwich	GMP Synthetase	Chain A, domain 3	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF00438	S-adenosylmethionine synthetase, N-terminal domain (S-AdoMet_synt_N)	S-adenosylmethionine synthetase, N-terminal domain	The three domains of S-adenosylmethionine synthetase have the same alpha+beta fold.	Domain
A, B, C, D	PF02773	S-adenosylmethionine synthetase, C-terminal domain (S-AdoMet_synt_C)	S-adenosylmethionine synthetase, C-terminal domain	The three domains of S-adenosylmethionine synthetase have the same alpha+beta fold.	Domain
A, B, C, D	PF02772	S-adenosylmethionine synthetase, central domain (S-AdoMet_synt_M)	S-adenosylmethionine synthetase, central domain	The three domains of S-adenosylmethionine synthetase have the same alpha+beta fold.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	S-adenosylmethionine synthetase	cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding purine nucleotide binding anion binding adenyl nucleotide binding cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding potassium ion binding alkali metal ion binding methionine adenosyltransferase activity transferase activity transferase activity, transferring alkyl or aryl (other than methyl) groups catalytic activity identical protein binding protein binding	S-adenosylmethionine cycle S-adenosylmethionine metabolic process sulfur compound metabolic process metabolic process cellular process small molecule metabolic process one-carbon metabolic process sulfur compound biosynthetic process biosynthetic process S-adenosylmethionine biosynthetic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR022636	S-adenosylmethionine synthetase superfamily	Homologous Superfamily
A, B, C, D	IPR022629	S-adenosylmethionine synthetase, central domain	Domain
A, B, C, D	IPR022628	S-adenosylmethionine synthetase, N-terminal	Domain
A, B, C, D	IPR022631	S-adenosylmethionine synthetase, conserved site	Conserved Site
A, B, C, D	IPR022630	S-adenosylmethionine synthetase, C-terminal	Domain
A, B, C, D	IPR002133	S-adenosylmethionine synthetase	Family

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.