SMTL ID : 7ti7.1

Crystal Structure of UDP-N-acetylmuramoylalanine-D-glutamate ligase from Acinetobacter baumannii AB5075-UW in complex with ADP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

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

ADP.1: 20 residues within 4Å: Chain A: S.121, N.122, A.123, K.124, S.125, T.126, E.166, N.187, H.279, N.283, R.314, C.315, D.329, K.331, G.332, G.336, A.337, A.340 Ligands: EDO.3, CA.7 21 PLIP interactions: 21 interactions with chain A Hydrogen bonds: A:N.122, A:A.123, A:K.124, A:S.125, A:S.125, A:T.126, A:N.187, A:N.283, A:N.283, A:K.331 Water bridges: A:K.124, A:K.124, A:S.125, A:S.125, A:K.331 Salt bridges: A:K.124, A:R.314, A:K.331, A:K.331 pi-Stacking: A:H.279, A:H.279

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 2 residues within 4Å: Chain A: K.124, H.192 6 PLIP interactions: 1 interactions with chain A, 5 Ligand-Water interactions Metal complexes: A:H.192, H2O.2, H2O.4, H2O.6, H2O.10, H2O.14

3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 8 residues within 4Å: Chain A: A.123, L.186, N.187, N.219, F.238, A.282, N.283 Ligands: ADP.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.187, A:N.219 EDO.4: 2 residues within 4Å: Chain A: H.322, D.323 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.323 Water bridges: A:H.322, A:A.422 EDO.6: 7 residues within 4Å: Chain A: S.125, T.128, T.129, V.144, N.147, R.150, E.166 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.147, A:R.150, A:E.166

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.5: 5 residues within 4Å: Chain A: T.333, A.433, S.434, F.435, Y.441 Ligand excluded by PLIP

1 x CA: CALCIUM ION(Non-covalent)

CA.7: 3 residues within 4Å: Chain A: S.125, E.166 Ligands: ADP.1 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.166, H2O.1

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Abendroth, J. et al., Crystal Structure of UDP-N-acetylmuramoylalanine-D-glutamate ligase from Acinetobacter baumannii AB5075-UW in complex with ADP. to be published

Release Date

2022-01-26

Peptides

UDP-N-acetylmuramoylalanine--D-glutamate ligase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

UDP-N-acetylmuramoylalanine--D-glutamate ligase

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