6SW5

Crystal structure of the human S-adenosylmethionine synthetase 1 (ligand-free form)

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d6sw5a1	Alpha and beta proteins (a+b)	S-adenosylmethionine synthetase	S-adenosylmethionine synthetase	automated matches	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d6sw5b1	Alpha and beta proteins (a+b)	S-adenosylmethionine synthetase	S-adenosylmethionine synthetase	automated matches	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d6sw5c1	Alpha and beta proteins (a+b)	S-adenosylmethionine synthetase	S-adenosylmethionine synthetase	automated matches	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D	d6sw5d1	Alpha and beta proteins (a+b)	S-adenosylmethionine synthetase	S-adenosylmethionine synthetase	automated matches	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	S-AdoMet_synt_C	e6sw5A3	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: S-adenosylmethionine synthetase (From Topology)	T: S-adenosylmethionine synthetase	F: S-AdoMet_synt_C	ECOD (1.6)
A	S-AdoMet_synt_M	e6sw5A1	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: S-adenosylmethionine synthetase (From Topology)	T: S-adenosylmethionine synthetase	F: S-AdoMet_synt_M	ECOD (1.6)
A	S-AdoMet_synt_N	e6sw5A2	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: S-adenosylmethionine synthetase (From Topology)	T: S-adenosylmethionine synthetase	F: S-AdoMet_synt_N	ECOD (1.6)
B	S-AdoMet_synt_C	e6sw5B2	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: S-adenosylmethionine synthetase (From Topology)	T: S-adenosylmethionine synthetase	F: S-AdoMet_synt_C	ECOD (1.6)
B	S-AdoMet_synt_M	e6sw5B1	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: S-adenosylmethionine synthetase (From Topology)	T: S-adenosylmethionine synthetase	F: S-AdoMet_synt_M	ECOD (1.6)
B	S-AdoMet_synt_N	e6sw5B3	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: S-adenosylmethionine synthetase (From Topology)	T: S-adenosylmethionine synthetase	F: S-AdoMet_synt_N	ECOD (1.6)
C	S-AdoMet_synt_C	e6sw5C3	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: S-adenosylmethionine synthetase (From Topology)	T: S-adenosylmethionine synthetase	F: S-AdoMet_synt_C	ECOD (1.6)
C	S-AdoMet_synt_M	e6sw5C2	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: S-adenosylmethionine synthetase (From Topology)	T: S-adenosylmethionine synthetase	F: S-AdoMet_synt_M	ECOD (1.6)
C	S-AdoMet_synt_N	e6sw5C1	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: S-adenosylmethionine synthetase (From Topology)	T: S-adenosylmethionine synthetase	F: S-AdoMet_synt_N	ECOD (1.6)
D	S-AdoMet_synt_C	e6sw5D1	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: S-adenosylmethionine synthetase (From Topology)	T: S-adenosylmethionine synthetase	F: S-AdoMet_synt_C	ECOD (1.6)
D	S-AdoMet_synt_M	e6sw5D3	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: S-adenosylmethionine synthetase (From Topology)	T: S-adenosylmethionine synthetase	F: S-AdoMet_synt_M	ECOD (1.6)
D	S-AdoMet_synt_N	e6sw5D2	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: S-adenosylmethionine synthetase (From Topology)	T: S-adenosylmethionine synthetase	F: S-AdoMet_synt_N	ECOD (1.6)

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 synthase isoform type-1	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding methionine adenosyltransferase activity transferase activity transferase activity, transferring alkyl or aryl (other than methyl) groups catalytic activity cation binding metal ion binding identical protein binding protein binding	cellular metabolic process small molecule metabolic process metabolic process cellular process one-carbon metabolic process protein-containing complex organization protein homotetramerization cellular component organization cellular component biogenesis cellular component assembly protein complex oligomerization protein tetramerization protein-containing complex assembly protein homooligomerization cellular metabolic process small molecule metabolic process metabolic process cellular process one-carbon metabolic process protein-containing complex organization protein homotetramerization cellular component organization cellular component biogenesis cellular component assembly protein complex oligomerization protein tetramerization protein-containing complex assembly protein homooligomerization cellular component organization or biogenesis cellular biosynthetic process sulfur compound biosynthetic process organic substance metabolic process biosynthetic process S-adenosylmethionine biosynthetic process S-adenosylmethionine metabolic process organic substance biosynthetic process sulfur compound metabolic process catabolic process oxoacid metabolic process sulfur amino acid metabolic process aspartate family amino acid metabolic process amino acid metabolic process organic acid catabolic process organic acid metabolic process alpha-amino acid metabolic process cellular catabolic process carboxylic acid catabolic process amino acid catabolic process organonitrogen compound catabolic process aspartate family amino acid catabolic process organonitrogen compound metabolic process carboxylic acid metabolic process L-amino acid catabolic process primary metabolic process methionine metabolic process L-amino acid metabolic process sulfur compound catabolic process proteinogenic amino acid metabolic process sulfur amino acid catabolic process alpha-amino acid catabolic process proteinogenic amino acid catabolic process methionine catabolic process small molecule catabolic process organic substance catabolic process	protein-containing complex catalytic complex methionine adenosyltransferase complex transferase complex intracellular protein-containing complex intracellular anatomical structure cytoplasm cellular anatomical entity 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

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D	Pharos: Q00266	disorder of methionine catabolism type 2 diabetes mellitus methionine adenosyltransferase deficiency demyelinating disease hyperplasia brain disease large cell medulloblastoma maturity-onset diabetes of the young pancreatic ductal adenocarcinoma Amino Acid Metabolism, Inborn Errors hypermethioninemia with deficiency of S-adenosylhomocysteine hydrolase inherited amino acid metabolic disorder psoriasis fatty liver disease hepatocellular carcinoma disorder of methionine catabolism type 2 diabetes mellitus methionine adenosyltransferase deficiency demyelinating disease hyperplasia brain disease large cell medulloblastoma maturity-onset diabetes of the young pancreatic ductal adenocarcinoma Amino Acid Metabolism, Inborn Errors hypermethioninemia with deficiency of S-adenosylhomocysteine hydrolase inherited amino acid metabolic disorder psoriasis fatty liver disease hepatocellular carcinoma intellectual disability malignant pancreatic neoplasm osteosarcoma drug-induced liver injury glycine N-methyltransferase deficiency inborn errors of metabolism

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.