8T0V | pdb_00008t0v

Closed state of lysine 5,6-aminomutase from Thermoanaerobacter tengcongensis

External Resource: Annotation

Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth B], D [auth A]	PF16554	Dimerisation domain of d-ornithine 4,5-aminomutase (OAM_dimer)	Dimerisation domain of d-ornithine 4,5-aminomutase	This family is the short dimerisation domain of the enzyme D-ornithine 4,5-aminomutase. It sits between the TIM-barrel Pfam:PF09043 and Pfam:PF02310. The enzyme is an alpha2-beta2-heterodimer that converts D-ornithine to 2,4-diaminopentanoic acid by ...	This family is the short dimerisation domain of the enzyme D-ornithine 4,5-aminomutase. It sits between the TIM-barrel Pfam:PF09043 and Pfam:PF02310. The enzyme is an alpha2-beta2-heterodimer that converts D-ornithine to 2,4-diaminopentanoic acid by way of radical propagation from an adenosylcobalamin to a pyridoxal 5'-phosphate cofactor [1].	Domain
A [auth B], D [auth A]	PF02310	B12 binding domain (B12-binding)	B12 binding domain	This domain binds to B12 (adenosylcobamide)[1-3], it is found in several enzymes, such as glutamate mutase Swiss:Q05488, methionine synthase Swiss:Q99707 and methylmalonyl-CoA mutase Swiss:P22033. It contains a conserved DxHxxGx(41)SxVx(26)GG motif, ...	This domain binds to B12 (adenosylcobamide)[1-3], it is found in several enzymes, such as glutamate mutase Swiss:Q05488, methionine synthase Swiss:Q99707 and methylmalonyl-CoA mutase Swiss:P22033. It contains a conserved DxHxxGx(41)SxVx(26)GG motif, which is important for B12 binding [2].	Domain
B [auth C], C [auth D]	PF09043	D-Lysine 5,6-aminomutase TIM-barrel domain of alpha subunit (Lys-AminoMut_A)	D-Lysine 5,6-aminomutase TIM-barrel domain of alpha subunit	Members of his family are involved in the 1,2 rearrangement of the terminal amino group of DL-lysine and of L-beta-lysine, using adenosylcobalamin (AdoCbl) and pyridoxal-5'-phosphate as co-factors. The structure is predominantly a PLP-binding TIM ba ...	Members of his family are involved in the 1,2 rearrangement of the terminal amino group of DL-lysine and of L-beta-lysine, using adenosylcobalamin (AdoCbl) and pyridoxal-5'-phosphate as co-factors. The structure is predominantly a PLP-binding TIM barrel domain, with several additional alpha-helices and beta-strands at the N and C termini. These helices and strands form an intertwined accessory clamp structure that wraps around the sides of the TIM barrel and extends up toward the Ado ligand of the Cbl co-factor, providing most of the interactions observed between the protein and the Ado ligand of the Cbl, suggesting that its role is mainly in stabilising AdoCbl in the precatalytic resting state [1]. This is a TIM-barrel domain.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth B], D [auth A]	D-lysine 5,6-aminomutase beta subunit	vitamin binding binding cobalamin binding tetrapyrrole binding heterocyclic compound binding small molecule binding protein binding protein dimerization activity cation binding ion binding metal ion binding	-	-
B [auth C], C [auth D]	D-lysine 5,6-aminomutase alpha subunit	catalytic activity vitamin binding binding cobalamin binding tetrapyrrole binding heterocyclic compound binding small molecule binding	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth B], D [auth A]	IPR036724	Cobalamin-binding domain superfamily	Homologous Superfamily
A [auth B], D [auth A]	IPR006158	Cobalamin (vitamin B12)-binding domain	Domain
A [auth B], D [auth A]	IPR028991	D-lysine 5,6-aminomutase beta subunit KamE, N-terminal	Domain
A [auth B], D [auth A]	IPR036843	D-lysine 5,6-aminomutase beta subunit KamE, N-terminal domain superfamily	Homologous Superfamily
B [auth C], C [auth D]	IPR015130	D-Lysine 5,6-aminomutase alpha subunit	Domain
B [auth C], C [auth D]	IPR037086	D-Lysine 5,6-aminomutase alpha subunit superfamily	Homologous Superfamily
B [auth C], C [auth D]	IPR016176	Cobalamin (vitamin B12)-dependent enzyme, catalytic	Homologous Superfamily

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.