SMTL ID : 5l9l.1 (1 other biounit)

Crystal structure of the PBP MotA from A. tumefaciens B6 in complex with glucopine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

1 x GOP: Glucopine(Non-covalent)

GOP.1: 15 residues within 4Å: Chain A: S.28, W.32, F.57, Q.58, N.59, W.60, Q.78, S.119, Y.121, W.156, W.226, R.229, D.252, F.286, T.288 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:W.32, A:Y.121 Hydrogen bonds: A:S.28, A:S.28, A:Q.58, A:W.60, A:Q.78, A:Q.78, A:S.119, A:D.252, A:D.252, A:T.288 Water bridges: A:G.80, A:W.226 Salt bridges: A:R.229

4 x CA: CALCIUM ION(Non-covalent)

CA.2: 4 residues within 4Å: Chain A: G.31, A.209, A.212, R.229 No protein-ligand interaction detected (PLIP) CA.3: 4 residues within 4Å: Chain A: L.249, G.250, T.251, V.322 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:T.251, H2O.4 CA.4: 2 residues within 4Å: Chain A: A.241, Y.242 No protein-ligand interaction detected (PLIP) CA.5: 3 residues within 4Å: Chain A: G.237, A.238, N.239 No protein-ligand interaction detected (PLIP)

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

EDO.6: 3 residues within 4Å: Chain A: P.85, K.88, A.89 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.88 Water bridges: A:P.85, A:K.88 EDO.7: 1 residues within 4Å: Chain A: K.46 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.46, A:K.46 EDO.8: 2 residues within 4Å: Chain A: K.147, E.196 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.196 EDO.9: 2 residues within 4Å: Chain A: D.105, K.294 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.105

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Marty, L. et al., Structural Basis for High Specificity of Amadori Compound and Mannopine Opine Binding in Bacterial Pathogens. J.Biol.Chem. (2016)

Release Date

2016-09-21

Peptides

periplasmic binding protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

periplasmic binding protein

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