SMTL ID : 5mi6.1

BtGH84 mutant with covalent modification by MA3 in complex with Thiamet G

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

1 x NHT: (3AR,5R,6S,7R,7AR)-2-(ETHYLAMINO)-5-(HYDROXYMETHYL)-5,6,7,7A-TETRAHYDRO-3AH-PYRANO[3,2-D][1,3]THIAZOLE-6,7-DIOL

NHT.1: 18 residues within 4Å: Chain A: G.146, F.147, Y.148, K.177, D.253, D.254, C.289, Y.293, T.321, V.325, W.348, N.350, V.353, D.355, Y.356, N.383 Ligands: 7NQ.2, EDO.4 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:Y.293, A:W.348 Hydrogen bonds: A:G.146, A:K.177, A:K.177, A:D.253, A:N.383

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

7NQ.2: 7 residues within 4Å: Chain A: Y.148, D.355, Y.356, R.358, C.561 Ligands: NHT.1, EDO.4 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:Y.148, A:Y.356 Hydrogen bonds: A:R.358, A:R.358 pi-Stacking: A:Y.148

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

EDO.3: 5 residues within 4Å: Chain A: G.529, R.530, N.531, K.590, F.591 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.531 EDO.4: 5 residues within 4Å: Chain A: D.254, Y.293, H.444 Ligands: NHT.1, 7NQ.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.254, A:Y.293 EDO.5: 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.6: 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:D.75, H2O.6, H2O.10, H2O.11

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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