SMTL ID : 6gcv.1 (1 other biounit)

Ligand binding domain (LBD) of the p. aeruginosa nitrate receptor McpN

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.30 Å

Oligo State

homo-dimer

Ligands

1 x NO3: NITRATE ION(Non-functional Binders)

NO3.1: 8 residues within 4Å: Chain A: G.25, A.26, R.28, M.29 Chain B: G.25, A.26, R.28, M.29 7 PLIP interactions: 4 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:R.28, A:R.28, A:M.29, B:R.28, B:M.29 Water bridges: A:G.25, B:G.25

3 x NA: SODIUM ION(Non-functional Binders)

NA.2: 4 residues within 4Å: Chain A: E.37, L.41, G.46, D.47 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.37, A:D.47 NA.5: 2 residues within 4Å: Chain B: D.66, A.90 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:D.66 NA.6: 1 residues within 4Å: Chain B: D.66 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.66, B:R.86

4 x ACT: ACETATE ION(Non-functional Binders)

ACT.3: 3 residues within 4Å: Chain A: E.19, R.60, R.72 7 PLIP interactions: 7 interactions with chain A Water bridges: A:E.19, A:R.72, A:R.72, A:R.72, A:R.72 Salt bridges: A:R.60, A:R.72 ACT.4: 6 residues within 4Å: Chain A: K.33, R.36, E.37, A.50 Chain B: S.116, T.120 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:A.50 Hydrogen bonds: A:E.37 Water bridges: A:R.36, A:R.36, A:R.36 Salt bridges: A:K.33, A:R.36 ACT.7: 5 residues within 4Å: Chain B: L.30, K.33, A.53, T.54, Q.57 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:A.53 Water bridges: B:K.33 Salt bridges: B:K.33 ACT.8: 4 residues within 4Å: Chain B: I.92, R.95, Y.118, E.121 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:I.92 Hydrogen bonds: B:Y.118 Salt bridges: B:R.95

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Martin-Mora, D. et al., The Molecular Mechanism of Nitrate Chemotaxis via Direct Ligand Binding to the PilJ Domain of McpN. MBio (2019)

Release Date

2018-09-19

Peptides

Chemotaxis transducer: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Chemotaxis transducer

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