SMTL ID : 8cpb.1

1,6-anhydro-n-actetylmuramic acid kinase (AnmK) in complex with AMPPNP, and AnhMurNAc at 1.7 Angstroms resolution.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

2 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.1: 21 residues within 4Å: Chain A: G.15, T.16, S.17, D.19, N.167, G.169, G.170, F.171, 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: AH0.2 28 PLIP interactions: 28 interactions with chain A Hydrogen bonds: A:G.15, A:G.15, A:T.16, A:S.17, A:S.17, A:S.17, A:D.19, A:N.167, A:G.170, A:F.171, A:D.196, A:R.209, A:D.210, A:D.210, A:D.210, A:G.297, A:E.331 Water bridges: A:L.18, A:D.19, A:D.19, A:D.22, A:D.22, A:D.22, A:D.22, A:D.196, A:D.208, A:N.301, A:A.328 ANP.5: 21 residues within 4Å: Chain B: M.13, S.14, G.15, T.16, S.17, D.19, D.22, 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 24 PLIP interactions: 24 interactions with chain B Hydrogen bonds: B:G.15, B:S.17, B:S.17, B:S.17, B:D.22, B:D.22, B:G.170, B:D.196, B:R.209, B:D.210, B:D.210, B:G.297 Water bridges: B:D.19, B:D.22, B:D.22, B:D.22, B:N.167, B:D.208, B:N.301, B:E.331, B:E.331, B:E.331 pi-Stacking: B:F.207, B:F.207

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

AH0.2: 15 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 Ligands: ANP.1 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:T.102, A:H.105, A:E.331, A:F.335 Hydrogen bonds: A:T.102, A:R.134, A:L.147, A:V.148, A:N.173 Water bridges: A:T.241, A:T.241 Salt bridges: A:R.134 AH0.6: 15 residues within 4Å: Chain B: M.13, T.16, 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 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:T.102, B:H.105, B:V.148, B:E.331, B:F.335 Hydrogen bonds: B:T.16, B:R.134, B:L.147, B:V.148, B:N.173 Water bridges: B:T.102, B:N.173, B:T.241, B:T.241 Salt bridges: B:R.134

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 4 residues within 4Å: Chain A: R.47, E.48, L.51, H.200 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.47, A:R.47, A:E.48 GOL.7: 3 residues within 4Å: Chain B: E.48, L.51, H.200 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:H.200 Water bridges: B:R.243

2 x TLA: L(+)-TARTARIC ACID(Non-covalent)

TLA.4: 5 residues within 4Å: Chain A: S.37, H.38, Y.39, Q.85, Q.86 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Y.39, A:Q.85, A:Q.85 Water bridges: A:S.37, A:S.37 Salt bridges: A:H.38 TLA.8: 5 residues within 4Å: Chain B: S.37, H.38, Y.39, Q.85, Q.86 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:S.37, B:H.38, B:Y.39, B:Q.85, B:Q.85 Water bridges: B:S.37, B:S.37 Salt bridges: B:H.38

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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