6SW5 | pdb_00006sw5

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)
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)
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)
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)
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)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	Beta-lactamase	e6sw5D1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: Beta-lactamase	ECOD (develop294)
C	Beta-lactamase	e6sw5C1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: Beta-lactamase	ECOD (develop294)
B	Beta-lactamase	e6sw5B1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: Beta-lactamase	ECOD (develop294)
A	Beta-lactamase	e6sw5A1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: Beta-lactamase	ECOD (develop294)

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 anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide 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	catabolic process oxoacid metabolic process sulfur amino acid metabolic process amino acid metabolic process organic acid catabolic process organic acid metabolic process alpha-amino acid metabolic process carboxylic acid catabolic process small molecule metabolic process sulfur compound metabolic process amino acid catabolic process L-methionine catabolic process L-amino acid catabolic process carboxylic acid metabolic process catabolic process oxoacid metabolic process sulfur amino acid metabolic process amino acid metabolic process organic acid catabolic process organic acid metabolic process alpha-amino acid metabolic process carboxylic acid catabolic process small molecule metabolic process sulfur compound metabolic process amino acid catabolic process L-methionine catabolic process L-amino acid catabolic process carboxylic acid metabolic process primary metabolic process methionine metabolic process L-amino acid metabolic process sulfur compound catabolic process proteinogenic amino acid metabolic process alpha-amino acid catabolic process sulfur amino acid catabolic process proteinogenic amino acid catabolic process metabolic process cellular process small molecule catabolic 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 sulfur compound biosynthetic process biosynthetic process S-adenosylmethionine biosynthetic process S-adenosylmethionine metabolic process	protein-containing complex catalytic complex methionine adenosyltransferase complex transferase complex intracellular protein-containing complex 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

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 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.