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

Structure of the periplasmic binding protein M117N-NocT from A. tumefaciens in complex with octopine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.35 Å

Oligo State

monomer

Ligands

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

EDO.1: 2 residues within 4Å: Chain A: A.16, K.193 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.193, A:K.193 Water bridges: A:D.166, A:D.166 EDO.2: 4 residues within 4Å: Chain A: P.194, D.195, K.197, D.198 No protein-ligand interaction detected (PLIP)

1 x 6DB: octopine(Non-covalent)

6DB.3: 17 residues within 4Å: Chain A: E.12, Y.15, Y.18, N.19, W.53, A.70, A.71, M.72, G.73, R.78, N.93, Q.141, T.144, S.145, H.146, S.183, V.215 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:W.53, A:T.144, A:V.215 Hydrogen bonds: A:Y.15, A:N.19, A:A.70, A:A.71, A:G.73, A:Q.141, A:Q.141, A:S.145, A:S.183 Salt bridges: A:E.12, A:R.78, A:H.146 pi-Cation interactions: A:W.53

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lang, J. et al., Fitness costs restrict niche expansion by generalist niche-constructing pathogens. ISME J (2017)

Release Date

2016-11-30

Peptides

Nopaline-binding periplasmic protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Nopaline-binding periplasmic protein

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