SMTL ID : 7qu3.1

X-ray structure of FAD domain of NqrF of Pseudomonas aeruginosa

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

1 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)

FAD.1: 22 residues within 4Å: Chain A: Y.40, R.83, A.84, Y.85, S.86, N.100, I.101, R.102, A.104, S.105, P.106, P.107, L.112, P.113, P.114, G.115, Q.116, M.117, S.118, A.155, F.278 Ligands: DMS.7 22 PLIP interactions: 22 interactions with chain A Hydrophobic interactions: A:Y.40, A:A.84, A:F.278 Hydrogen bonds: A:A.84, A:A.84, A:Y.85, A:S.86, A:N.100, A:R.102, A:A.104, A:Q.116, A:M.117, A:S.118 Water bridges: A:R.83, A:R.83, A:N.100, A:F.278 Salt bridges: A:R.83, A:R.83 pi-Stacking: A:Y.85, A:F.278, A:F.278

1 x RYM: 4-(benzimidazol-1-ylmethyl)benzenecarbonitrile(Non-covalent)

RYM.2: 12 residues within 4Å: Chain A: R.102, G.154, G.182, A.183, S.212, F.226, I.227, H.228, P.252, M.254, M.255 Ligands: DMS.7 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.226, A:P.252, A:M.254, A:M.255 Hydrogen bonds: A:I.227 pi-Stacking: A:F.226, A:F.226

1 x MG: MAGNESIUM ION(Non-functional Binders)

MG.3: 1 residues within 4Å: Ligands: DMS.6 No protein-ligand interaction detected (PLIP)

4 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.4: 5 residues within 4Å: Chain A: V.3, Q.42, I.82, Y.133, F.136 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.42 DMS.5: 4 residues within 4Å: Chain A: W.207, H.208, L.209, W.220 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.209 pi-Cation interactions: A:W.207, A:W.207 DMS.6: 6 residues within 4Å: Chain A: V.50, W.120, N.123, L.124, D.128 Ligands: MG.3 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.123 DMS.7: 10 residues within 4Å: Chain A: R.102, G.153, G.154, A.155, G.156, G.251, P.252, F.278 Ligands: FAD.1, RYM.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.102, A:A.155

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kaminski, J.W. et al., Fast fragment- and compound-screening pipeline at the Swiss Light Source. Acta Crystallogr D Struct Biol (2022)

Release Date

2022-02-09

Peptides

Na(+)-translocating NADH-quinone reductase subunit F: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Na(+)-translocating NADH-quinone reductase subunit F

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