SMTL ID : 5v1w.1

Crystal structure of BhGH81 in complex with laminaro-biose

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

monomer

Ligands

2 x BGC- BGC: beta-D-glucopyranose-(1-3)-beta-D-glucopyranose(Non-covalent)

BGC-BGC.1: 10 residues within 4Å: Chain A: H.432, R.437, N.439, D.440, A.503, D.504, F.509, N.514, W.589 Ligands: EDO.17 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:H.432, A:H.432, A:N.439, A:D.440, A:D.504, A:D.504, A:N.514 BGC-BGC.2: 11 residues within 4Å: Chain A: Y.361, K.365, H.432, W.590, I.600, L.603, W.638, E.673, E.677, R.678 Ligands: EDO.17 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.673, A:R.678, A:R.678

8 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.3: 5 residues within 4Å: Chain A: E.254, E.533, R.541, H.706, P.707 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:E.254, A:E.533 Water bridges: A:R.541, A:R.541, A:H.706 Salt bridges: A:R.541, A:H.706 PO4.4: 5 residues within 4Å: Chain A: T.324, M.552, N.556, H.614, P.700 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.556 Water bridges: A:N.556, A:H.614, A:H.615 Salt bridges: A:H.614, A:H.615 PO4.5: 6 residues within 4Å: Chain A: D.175, W.177, S.187, H.191, H.193, K.227 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:D.175, A:D.175, A:D.175, A:S.187 Water bridges: A:K.227 Salt bridges: A:H.191, A:H.193, A:K.227 PO4.6: 6 residues within 4Å: Chain A: H.285, H.289, S.553, N.556, E.557, H.563 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:E.557 Water bridges: A:N.556, A:N.556, A:N.556, A:N.556 Salt bridges: A:H.289, A:H.563 PO4.7: 2 residues within 4Å: Chain A: H.144, D.163 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.163, A:D.163 Water bridges: A:H.144 Salt bridges: A:H.144 PO4.8: 1 residues within 4Å: Chain A: E.98 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.98, A:E.98, A:E.98 PO4.9: 4 residues within 4Å: Chain A: H.615, P.616, D.617, Y.618 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.617, A:Y.618 Salt bridges: A:H.615 PO4.10: 6 residues within 4Å: Chain A: D.337, D.339, R.342, E.659, Y.686, H.690 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.339, A:Y.686, A:Y.686 Salt bridges: A:R.342, A:H.690

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

EDO.11: 6 residues within 4Å: Chain A: P.284, Y.287, R.288, G.309, T.310, E.565 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.287, A:T.310 EDO.12: 3 residues within 4Å: Chain A: H.94, H.103, H.105 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.94 EDO.13: 8 residues within 4Å: Chain A: D.129, Y.130, N.131, Y.134, V.135, T.149, V.243, R.244 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.129, A:N.131 EDO.14: 3 residues within 4Å: Chain A: A.87, P.88, H.89 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:H.89, A:H.89 EDO.15: 5 residues within 4Å: Chain A: R.75, R.77, E.79, H.82, T.110 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.75, A:T.110 Water bridges: A:R.77, A:T.110 EDO.16: 5 residues within 4Å: Chain A: D.249, W.250, T.251, T.260, T.262 No protein-ligand interaction detected (PLIP) EDO.17: 8 residues within 4Å: Chain A: Y.361, H.432, D.440, F.443, H.444, E.520 Ligands: BGC-BGC.1, BGC-BGC.2 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.440, A:H.444, A:E.520 Water bridges: A:E.516 EDO.18: 7 residues within 4Å: Chain A: S.331, L.332, T.372, I.376, Q.684, H.687, W.688 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.331, A:L.332, A:Q.684 Water bridges: A:G.607 EDO.19: 6 residues within 4Å: Chain A: L.138, Q.145, A.147, E.160, Y.161, E.162 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.145 Water bridges: A:R.136

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pluvinage, B. et al., The quaternary structure of beta-1,3-glucan contributes to its recognition and hydrolysis by a multimodular family 81 glycoside hydrolase. Structure (2017)

Release Date

2017-06-28

Peptides

Glycoside Hydrolase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Glycoside Hydrolase