SMTL ID : 8c0u.1

1,6-anhydro-n-actetylmuramic acid kinase (AnmK) in complex with their natural substrates and products

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.11 Å

Oligo State

homo-dimer

Ligands

2 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.1: 18 residues within 4Å: Chain A: G.15, T.16, S.17, D.19, G.169, G.170, N.192, D.196, F.207, D.208, R.209, D.210, G.296, G.297, G.298, F.300, N.301, E.331 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:G.15, A:T.16, A:T.16, A:S.17, A:S.17, A:S.17, A:G.170, A:D.196, A:D.210, A:G.297 Water bridges: A:D.19, A:N.167, A:N.167, A:F.171, A:N.301, A:E.331 ADP.3: 19 residues within 4Å: Chain B: G.15, T.16, S.17, D.19, G.169, G.170, N.192, D.196, F.207, D.208, R.209, D.210, G.296, G.297, G.298, F.300, N.301, E.331 Ligands: VW0.4 20 PLIP interactions: 20 interactions with chain B Hydrogen bonds: B:G.15, B:G.15, B:T.16, B:T.16, B:S.17, B:S.17, B:S.17, B:G.170, B:D.196, B:D.210, B:G.297 Water bridges: B:D.19, B:G.20, B:D.22, B:N.167, B:N.167, B:D.208, B:N.301 pi-Stacking: B:F.207, B:F.207

1 x AH0: 2-(2-ACETYLAMINO-4-HYDROXY-6,8-DIOXA-BICYCLO[3.2.1]OCT-3-YLOXY)-PROPIONIC ACID(Non-covalent)

AH0.2: 14 residues within 4Å: Chain A: H.99, T.102, H.105, R.134, A.145, P.146, L.147, V.148, N.167, F.171, N.173, D.187, E.331, F.335 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:T.102, A:V.148, A:E.331, A:F.335 Hydrogen bonds: A:R.134, A:L.147, A:V.148, A:N.173 Water bridges: A:T.16, A:T.16, A:T.102, A:N.167, A:N.173, A:D.187, A:T.241 Salt bridges: A:R.134

1 x VW0: (2~{R})-2-[(2~{S},3~{R},4~{R},5~{S},6~{R})-3-acetamido-2,5-bis(oxidanyl)-6-(phosphonooxymethyl)oxan-4-yl]oxypropanoic acid(Non-covalent)

VW0.4: 18 residues within 4Å: Chain B: M.13, G.15, T.16, T.102, H.105, R.134, P.146, L.147, V.148, N.167, G.169, G.170, F.171, N.173, D.187, T.241, E.331 Ligands: ADP.3 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:H.105 Hydrogen bonds: B:T.16, B:T.102, B:L.147, B:V.148, B:N.167, B:G.170, B:F.171, B:N.173, B:T.241 Water bridges: B:T.16, B:T.16, B:T.241, B:T.241 Salt bridges: B:R.134

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

El-Araby, A.M. et al., Catalytic process of anhydro-N-acetylmuramic acid kinase (AnmK) from Pseudomonas aeruginosa. J.Biol.Chem. (2023)

Release Date

2023-09-20

Peptides

Anhydro-N-acetylmuramic acid kinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Anhydro-N-acetylmuramic acid kinase

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