SMTL ID : 7vew.2 (1 other biounit)

Crystal structure of bacterial chemotaxis-dependent pectin-binding protein SPH1118 in complex with unsaturated trigalacturonic acid

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.92 Å

Oligo State

monomer

Ligands

1 x ADA- ADA- GAD: 2,6-anhydro-3-deoxy-L-threo-hex-2-enonic acid-(1-4)-alpha-D-galactopyranuronic acid-(1-4)-alpha-D-galactopyranuronic acid

ADA-ADA-GAD.1: 16 residues within 4Å: Chain A: N.53, R.57, E.216, R.294, L.295, S.298, N.324, R.438, R.466, D.483, V.484, R.496, E.505, I.575, F.592, W.594 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:R.57, A:N.324, A:R.438, A:R.438, A:R.466, A:D.483, A:W.594, A:R.294, A:S.298, A:N.324 Salt bridges: A:R.57, A:R.47, A:R.438 Water bridges: A:S.298, A:A.327

1 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)

EPE.2: 5 residues within 4Å: Chain A: Q.72, S.383, K.384, W.385, L.489 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.384 Water bridges: A:S.383

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 3 residues within 4Å: Chain A: E.216, R.466, Y.470 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.216, A:R.466, A:R.466 GOL.4: 5 residues within 4Å: Chain A: S.131, A.132, L.493, Y.537 Ligands: GOL.6 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.131, A:L.493, A:Y.537 Water bridges: A:S.131, A:L.134, A:T.164 GOL.5: 4 residues within 4Å: Chain A: Q.401, Q.404, I.405, R.408 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.404, A:R.408, A:R.408 Water bridges: A:Q.401 GOL.6: 6 residues within 4Å: Chain A: S.131, L.169, L.493, V.501, H.502 Ligands: GOL.4 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:H.502 Water bridges: A:N.494

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

TLA.7: 3 residues within 4Å: Chain A: V.273, V.274, S.275 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.273, A:S.275

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
B

SPH1118

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