SMTL ID : 5mi4.1

BtGH84 mutant with covalent modification by MA3

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

1 x 7NQ: ~{N}-(4-ethoxyquinazolin-2-yl)propanamide(Covalent)

7NQ.1: 5 residues within 4Å: Chain A: Y.148, D.254, R.358, C.561 Ligands: EDO.3 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:D.254 Water bridges: A:Y.148, A:R.358 pi-Stacking: A:Y.148

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

EDO.2: 8 residues within 4Å: Chain A: G.146, Y.148, N.350, V.353, D.355, N.383 Ligands: EDO.3, EDO.4 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.355, A:N.383 EDO.3: 8 residues within 4Å: Chain A: Y.148, D.254, Y.293, W.297, V.325, H.444 Ligands: 7NQ.1, EDO.2 No protein-ligand interaction detected (PLIP) EDO.4: 7 residues within 4Å: Chain A: D.253, C.289, Y.293, T.321, W.348, N.350 Ligands: EDO.2 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.253, A:N.350, A:N.350 EDO.5: 4 residues within 4Å: Chain A: G.529, F.535, K.590, F.591 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.590 EDO.6: 5 residues within 4Å: Chain A: R.157, Y.174, E.195, Q.198, L.199 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.157, A:Y.174, A:Q.198

1 x CA: CALCIUM ION(Non-covalent)

CA.7: 3 residues within 4Å: Chain A: E.43, E.72, D.75 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.43, A:E.72, H2O.8, H2O.20, H2O.22

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Darby, J.F. et al., Increase of enzyme activity through specific covalent modification with fragments. Chem Sci (2017)

Release Date

2017-11-01

Peptides

O-GlcNAcase BT_4395: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

O-GlcNAcase BT_4395

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