SMTL ID : 7vev.1

Crystal structure of bacterial chemotaxis-dependent pectin-binding protein SPH1118 in complex with MES

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

6 x CA: CALCIUM ION(Non-covalent)

CA.1: 1 residues within 4Å: Chain A: E.10 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:E.10 CA.2: 2 residues within 4Å: Chain A: D.87, E.90 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:E.90, H2O.2, H2O.10, H2O.12, H2O.18 CA.3: 1 residues within 4Å: Chain A: D.349 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.349, A:D.349, H2O.17, H2O.17, H2O.19 CA.4: 1 residues within 4Å: Chain A: Q.72 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:Q.72, H2O.17, H2O.17 CA.5: 1 residues within 4Å: Chain A: K.381 No protein-ligand interaction detected (PLIP) CA.6: 2 residues within 4Å: Chain A: L.159, E.163 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:L.159, A:E.163, H2O.15, H2O.16, H2O.16

2 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.7: 9 residues within 4Å: Chain A: R.57, N.324, D.483, V.484, R.496, E.505, F.592, W.594 Ligands: MES.8 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:N.324, A:Y.470, A:W.594 Water bridges: A:S.298, A:R.438, A:R.438, A:R.438 Salt bridges: A:R.57, A:D.483 MES.8: 9 residues within 4Å: Chain A: R.47, N.53, R.57, R.294, L.295, S.298, R.438, W.594 Ligands: MES.7 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.53 Water bridges: A:R.47, A:R.47, A:R.438 Salt bridges: A:R.57, A:R.294

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Anamizu, K. et al., Substrate size-dependent conformational changes of bacterial pectin-binding protein crucial for chemotaxis and assimilation. Sci Rep (2022)

Release Date

2022-08-17

Peptides

SPH1118: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

SPH1118

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