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

GH51 a-l-arabinofuranosidase soaked with cyclic sulfate inhibitor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

monomer

Ligands

1 x LX5: [(1~{S},2~{S},3~{S},4~{S})-2-(hydroxymethyl)-3,4-bis(oxidanyl)cyclopentyl] hydrogen sulfate(Covalent)

LX5.1: 18 residues within 4Å: Chain A: F.27, E.29, L.31, R.69, G.73, N.74, F.75, W.99, N.174, E.175, W.180, Y.246, E.294, W.298, L.318, A.350, Q.351, I.356 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:E.294 Hydrogen bonds: A:N.74, A:N.74, A:N.174, A:E.175, A:W.180, A:Q.351 Water bridges: A:R.69

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.2: 4 residues within 4Å: Chain A: V.188, R.192, H.233 Ligands: GOL.3 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:H.233 Water bridges: A:R.192 PEG.5: 4 residues within 4Å: Chain A: A.158, H.159, G.160, Y.161 No protein-ligand interaction detected (PLIP)

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 5 residues within 4Å: Chain A: I.134, R.192, I.193, E.196 Ligands: PEG.2 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.192, A:R.192 Water bridges: A:I.193 GOL.4: 9 residues within 4Å: Chain A: G.248, N.249, R.250, D.251, D.253, N.256, Y.257, L.260, D.401 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.250, A:D.251, A:N.256

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

McGregor, N.G.S. et al., Rational Design of Mechanism-Based Inhibitors and Activity-Based Probes for the Identification of Retaining alpha-l-Arabinofuranosidases. J.Am.Chem.Soc. (2020)

Release Date

2020-02-26

Peptides

Intracellular exo-alpha-(1->5)-L-arabinofuranosidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
AAA

Intracellular exo-alpha-(1->5)-L-arabinofuranosidase

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