SMTL ID : 4rdt.1 (1 other biounit)

Structure of the bacterial Zn-transporter ZnuD from Neisseria meningitidis (flexible conformation bound to a zinc ion)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.20 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: S.111, D.113, H.114, E.354, H.513, A.515 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.113, A:D.113, A:H.114, A:E.354, A:H.513

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 7 residues within 4Å: Chain A: K.49, I.51, K.59, A.66, L.67, D.68, V.70 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.49, A:K.59, A:D.68, A:V.70 GOL.3: 1 residues within 4Å: Chain A: N.212 No protein-ligand interaction detected (PLIP) GOL.4: 9 residues within 4Å: Chain A: N.62, G.80, N.174, R.200, S.202, G.203, Y.205, S.219, M.736 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.62, A:R.200, A:G.203

2 x C8E: (HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE(Non-functional Binders)

C8E.5: 6 residues within 4Å: Chain A: T.179, Q.224, T.225, D.245, R.321, K.323 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.224, A:K.323 C8E.6: 5 residues within 4Å: Chain A: F.432, L.479, W.483, L.491, L.493 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.432, A:W.483, A:W.483, A:L.491, A:L.493

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.7: 4 residues within 4Å: Chain A: R.553, R.555, D.591, Y.593 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.553, A:R.555

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Calmettes, C. et al., The molecular mechanism of Zinc acquisition by the neisserial outer-membrane transporter ZnuD. Nat Commun (2015)

Release Date

2015-08-19

Peptides

ZnuD: 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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ZnuD

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