SMTL ID : 5l9o.2 (1 other biounit)

Crystal structure of Agrobacterium tumefaciens C58 strain PBP SocA in complex with glucopine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.84 Å

Oligo State

monomer

Ligands

1 x GOP: Glucopine(Non-covalent)

GOP.1: 19 residues within 4Å: Chain A: M.37, Y.43, F.81, A.98, A.99, I.100, G.101, R.106, L.117, A.118, G.119, F.120, T.147, L.148, Q.149, D.186, S.208, A.211, A.213 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:F.81 Hydrogen bonds: A:A.99, A:A.99, A:G.101, A:L.117, A:G.119, A:L.148, A:S.208, A:A.213 Water bridges: A:N.168, A:N.168, A:D.186, A:D.186 Salt bridges: A:R.106

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

EDO.2: 6 residues within 4Å: Chain A: H.245, E.246, F.249, P.250, G.251, T.252 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.245, A:G.251, A:T.252, A:T.252 EDO.3: 4 residues within 4Å: Chain A: L.67, G.68, F.69, Q.73 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.67, A:Q.73, A:Q.73 EDO.4: 8 residues within 4Å: Chain A: L.117, A.118, W.241, H.245, T.252, P.253, P.255, Y.258 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.118, A:P.253 EDO.5: 2 residues within 4Å: Chain A: M.20, T.30 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:M.20

1 x CA: CALCIUM ION(Non-covalent)

CA.6: 2 residues within 4Å: Chain A: N.51, F.52 No protein-ligand interaction detected (PLIP)

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

Deoxyfructosyl-amino Acid Transporter Periplasmic Binding Protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Deoxyfructosyl-amino Acid Transporter Periplasmic Binding Protein

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