2XW6

The Crystal Structure of Methylglyoxal Synthase from Thermus sp. GH5 Bound to Phosphate Ion.

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)
A	d2xw6a1	Alpha and beta proteins (a/b)	Methylglyoxal synthase-like	Methylglyoxal synthase-like	Methylglyoxal synthase, MgsA	automated matches	(Thermus sp. GH5 ) [TaxId: 405418 ],	SCOPe (2.08)
A	d2xw6a2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Thermus sp. GH5 ) [TaxId: 405418 ],	SCOPe (2.08)
B	d2xw6b1	Alpha and beta proteins (a/b)	Methylglyoxal synthase-like	Methylglyoxal synthase-like	Methylglyoxal synthase, MgsA	automated matches	(Thermus sp. GH5 ) [TaxId: 405418 ],	SCOPe (2.08)
B	d2xw6b2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Thermus sp. GH5 ) [TaxId: 405418 ],	SCOPe (2.08)
C	d2xw6c_	Alpha and beta proteins (a/b)	Methylglyoxal synthase-like	Methylglyoxal synthase-like	Methylglyoxal synthase, MgsA	automated matches	(Thermus sp. GH5 ) [TaxId: 405418 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Methylglyoxal synthase-like	8074834	3001443	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Methylglyoxal synthase-like	8074834	3001443	SCOP2B (2022-06-29)
C	SCOP2 Family	Methylglyoxal synthase MgsA	8074833	4003765	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	Methylglyoxal synthase-like	8074834	3001443	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	MGS	e2xw6A1	A: a/b three-layered sandwiches	X: Methylglyoxal synthase-like (From Topology)	H: Methylglyoxal synthase-like (From Topology)	T: Methylglyoxal synthase-like	F: MGS	ECOD (1.6)
B	MGS	e2xw6B1	A: a/b three-layered sandwiches	X: Methylglyoxal synthase-like (From Topology)	H: Methylglyoxal synthase-like (From Topology)	T: Methylglyoxal synthase-like	F: MGS	ECOD (1.6)
C	MGS	e2xw6C1	A: a/b three-layered sandwiches	X: Methylglyoxal synthase-like (From Topology)	H: Methylglyoxal synthase-like (From Topology)	T: Methylglyoxal synthase-like	F: MGS	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.50.1380	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Methylglyoxal synthase-like domain	CATH (4.3.0)
B	3.40.50.1380	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Methylglyoxal synthase-like domain	CATH (4.3.0)
C	3.40.50.1380	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Methylglyoxal synthase-like domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF02142	MGS-like domain (MGS)	MGS-like domain	This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in Carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. This family also includes ino ...	This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in Carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. This family also includes inosicase. The known structures in this family show a common phosphate binding site [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	METHYLGLYOXAL SYNTHASE	carbon-oxygen lyase activity, acting on phosphates lyase activity methylglyoxal synthase activity catalytic activity carbon-oxygen lyase activity	methylglyoxal biosynthetic process small molecule biosynthetic process cellular biosynthetic process cellular metabolic process aldehyde biosynthetic process cellular ketone metabolic process organic substance metabolic process biosynthetic process cellular aldehyde metabolic process organic substance biosynthetic process small molecule metabolic process metabolic process cellular process ketone biosynthetic process methylglyoxal biosynthetic process small molecule biosynthetic process cellular biosynthetic process cellular metabolic process aldehyde biosynthetic process cellular ketone metabolic process organic substance metabolic process biosynthetic process cellular aldehyde metabolic process organic substance biosynthetic process small molecule metabolic process metabolic process cellular process ketone biosynthetic process methylglyoxal metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR018148	Methylglyoxal synthase, active site	Active Site
A, B, C	IPR004363	Methylglyoxal synthase	Family
A, B, C	IPR011607	Methylglyoxal synthase-like domain	Domain
A, B, C	IPR036914	Methylglyoxal synthase-like domain superfamily	Homologous Superfamily

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.