SMTL ID : 3r5t.1

Crystal structure of holo-ViuP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

monomer

Ligands

1 x VBN: (4S,5R)-N-{3-[(2,3-dihydroxybenzoyl)amino]propyl}-2-(2,3-dihydroxyphenyl)-N-[3-({[(4S,5R)-2-(2,3-dihydroxyphenyl)-5-met hyl-4,5-dihydro-1,3-oxazol-4-yl]carbonyl}amino)propyl]-5-methyl-4,5-dihydro-1,3-oxazole-4-carboxamide(Non-covalent)

VBN.1: 20 residues within 4Å: Chain A: V.31, T.32, T.50, T.51, Q.52, F.56, I.95, G.96, A.97, D.98, Y.118, S.169, H.171, H.211, D.213, F.214, R.216, F.268, R.269 Ligands: FE.2 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:V.31, A:T.51, A:F.56, A:D.98, A:F.214, A:F.268 Hydrogen bonds: A:Q.52, A:A.97, A:S.169, A:H.211, A:R.216, A:R.269, A:R.269 Water bridges: A:R.216, A:R.216, A:R.216 pi-Stacking: A:F.268 pi-Cation interactions: A:R.216

1 x FE: FE (III) ION(Non-functional Binders)

FE.2: 1 residues within 4Å: Ligands: VBN.1 No protein-ligand interaction detected (PLIP)

1 x MOH: METHANOL(Non-functional Binders)

MOH.3: 5 residues within 4Å: Chain A: A.12, V.116, D.117, Q.121, Q.129 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.117, A:Q.121, A:Q.129

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

EDO.4: 4 residues within 4Å: Chain A: T.8, F.9, Q.10, L.132 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.10, A:Q.10, A:L.132

1 x ACY: ACETIC ACID(Non-functional Binders)

ACY.5: 2 residues within 4Å: Chain A: W.72, P.73 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:W.72

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, N. et al., Unique iron coordination in iron-chelating molecule vibriobactin helps Vibrio cholerae evade mammalian siderocalin-mediated immune response. J.Biol.Chem. (2012)

Release Date

2012-02-08

Peptides

Ferric vibriobactin ABC transporter, periplasmic ferric vibriobactin-binding protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Ferric vibriobactin ABC transporter, periplasmic ferric vibriobactin-binding protein

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