SMTL ID : 6rhe.1

CpOGA D298N in complex with hOGA-derived S-GlcNAc peptide

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.10 Å

Oligo State

monomer

Ligands

1 x ACE- ALA- HIS- CYS- GLY- NH2: ACE-ALA-HIS-CYS-GLY-NH2(Non-covalent)

ACE-ALA-HIS-CYS-GLY-NH2.1: 9 residues within 4Å: Chain A: Y.161, N.270, Y.307, V.342, D.373, Y.374, W.462 Ligands: NAG.26, CD.27 No protein-ligand interaction detected (PLIP)

25 x CD: CADMIUM ION(Non-covalent)(Non-functional Binders)

CD.2: 3 residues within 4Å: Chain A: D.89, T.96, E.117 Ligand excluded by PLIP CD.3: 1 residues within 4Å: Chain A: D.111 Ligand excluded by PLIP CD.4: 2 residues within 4Å: Chain A: E.254, D.258 Ligand excluded by PLIP CD.5: 1 residues within 4Å: Chain A: D.30 Ligand excluded by PLIP CD.6: 2 residues within 4Å: Chain A: D.238, K.278 Ligand excluded by PLIP CD.7: 1 residues within 4Å: Chain A: D.84 Ligand excluded by PLIP CD.8: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CD.9: 3 residues within 4Å: Chain A: L.40, V.41, E.43 Ligand excluded by PLIP CD.10: 3 residues within 4Å: Chain A: E.45, E.80, D.83 Ligand excluded by PLIP CD.11: 3 residues within 4Å: Chain A: D.122, D.224, K.298 Ligand excluded by PLIP CD.12: 2 residues within 4Å: Chain A: D.111, E.142 Ligand excluded by PLIP CD.13: 2 residues within 4Å: Chain A: E.334, D.396 Ligand excluded by PLIP CD.14: 3 residues within 4Å: Chain A: E.23, N.422, D.424 Ligand excluded by PLIP CD.15: 3 residues within 4Å: Chain A: D.446, R.503, E.506 Ligand excluded by PLIP CD.16: 2 residues within 4Å: Chain A: E.244, H.248 Ligand excluded by PLIP CD.17: 2 residues within 4Å: Chain A: H.385, E.468 Ligand excluded by PLIP CD.18: 1 residues within 4Å: Chain A: D.89 Ligand excluded by PLIP CD.19: 1 residues within 4Å: Chain A: E.90 Ligand excluded by PLIP CD.20: 1 residues within 4Å: Chain A: E.179 Ligand excluded by PLIP CD.21: 1 residues within 4Å: Chain A: E.213 Ligand excluded by PLIP CD.22: 1 residues within 4Å: Chain A: D.360 Ligand excluded by PLIP CD.23: 1 residues within 4Å: Chain A: D.429 Ligand excluded by PLIP CD.24: 1 residues within 4Å: Chain A: D.551 Ligand excluded by PLIP CD.25: 1 residues within 4Å: Chain A: D.388 Ligand excluded by PLIP CD.27: 1 residues within 4Å: Ligands: ACE-ALA-HIS-CYS-GLY-NH2.1 Ligand excluded by PLIP

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

NAG.26: 17 residues within 4Å: Chain A: G.159, F.160, Y.161, K.190, D.269, N.270, Y.307, T.338, V.342, W.366, N.368, V.371, D.373, Y.374, N.401 Ligands: ACE-ALA-HIS-CYS-GLY-NH2.1, ACE-ALA-HIS-CYS-GLY-NH2.1 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:D.269, A:Y.307, A:W.366 Hydrogen bonds: A:K.190, A:K.190, A:D.269, A:D.269, A:N.270, A:N.368, A:N.401

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gorelik, A. et al., Genetic recoding to dissect the roles of site-specific protein O-GlcNAcylation. Nat.Struct.Mol.Biol. (2019)

Release Date

2019-12-25

Peptides

O-GlcNAcase NagJ: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

O-GlcNAcase NagJ