SMTL ID : 4u4t.1

Structure of a nitrate/nitrite antiporter NarK in nitrate-bound inward-open state

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

monomer

Ligands

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

NO3.1: 8 residues within 4Å: Chain A: F.49, R.89, F.147, N.175, Y.263, F.267, R.305, S.411 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.89, A:R.89, A:N.175, A:Y.263

1 x ZN: ZINC ION(Non-covalent)

ZN.2: 3 residues within 4Å: Chain A: H.255, R.459, H.460 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.255, A:H.460, H2O.1, H2O.1

2 x OLA: OLEIC ACID(Non-covalent)

OLA.3: 3 residues within 4Å: Chain A: F.194, F.197, W.217 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.194, A:F.197, A:F.197, A:W.217, A:W.217 OLA.4: 6 residues within 4Å: Chain A: L.264, S.269, F.420, F.442, F.445, Y.446 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.264, A:F.420, A:F.442, A:F.445, A:F.445, A:F.445, A:Y.446

5 x OLC: (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate(Non-covalent)

OLC.5: 3 residues within 4Å: Chain A: V.117, W.118, F.121 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:V.117, A:W.118, A:F.121, A:F.121 OLC.6: 4 residues within 4Å: Chain A: Q.73, Y.130, S.131, I.135 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Y.130, A:I.135 OLC.7: 3 residues within 4Å: Chain A: M.76, L.80 Ligands: OLC.8 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.80 OLC.8: 5 residues within 4Å: Chain A: M.76, F.419, K.423, S.427 Ligands: OLC.7 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.419 Salt bridges: A:K.423 OLC.9: 1 residues within 4Å: Chain A: W.231 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fukuda, M. et al., Structural basis for dynamic mechanism of nitrate/nitrite antiport by NarK. Nat Commun (2015)

Release Date

2015-07-15

Peptides

Nitrate/nitrite transporter NarK: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Membrane

We predict this structure to be a membrane protein.
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Nitrate/nitrite transporter NarK

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