SMTL ID : 8p0l.1

Crystal structure of human O-GlcNAcase in complex with an S-linked CKII peptide

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-dimer

Ligands

1 x CYS: CYSTEINE(Non-covalent)

CYS.1: 8 residues within 4Å: Chain A: W.645, K.648 Chain B: Y.69, D.175, Y.219, V.254 Ligands: SER.2, NAG.3 1 PLIP interactions: 1 Ligand-Ligand interactions Hydrogen bonds: S.2

1 x SER: SERINE(Non-functional Binders)

SER.2: 3 residues within 4Å: Chain B: F.223, V.254 Ligands: CYS.1 1 PLIP interactions: 1 Ligand-Ligand interactions Hydrogen bonds: C.1

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)

NAG.3: 17 residues within 4Å: Chain B: G.67, F.68, Y.69, K.98, D.174, D.175, C.215, Y.219, T.250, V.254, W.278, N.280, A.283, D.285, Y.286, N.313 Ligands: CYS.1 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:D.174, B:W.278 Hydrogen bonds: B:K.98, B:D.174, B:W.278, B:N.280, B:D.285, B:N.313

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Calvelo, M. et al., Human O -GlcNAcase Uses a Preactivated Boat-skew Substrate Conformation for Catalysis. Evidence from X-ray Crystallography and QM/MM Metadynamics. Acs Catalysis (2023)

Release Date

2023-11-29

Peptides

Protein O-GlcNAcase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Protein O-GlcNAcase

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