SMTL ID : 6e4r.2 (1 other biounit)

Crystal Structure of the Drosophila Melanogaster Polypeptide N-Acetylgalactosaminyl Transferase PGANT9B

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.06 Å

Oligo State

monomer

Ligands

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.1: 4 residues within 4Å: Chain A: N.181, T.183, G.284, T.286 1 PLIP interactions: 1 interactions with chain A Water bridges: A:T.183

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

EDO.2: 4 residues within 4Å: Chain A: C.58, A.62, R.63, Y.64 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.64, A:Y.64 EDO.6: 3 residues within 4Å: Chain A: K.424, A.425, K.451 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.424, A:K.451 EDO.7: 3 residues within 4Å: Chain A: S.205, G.206, T.235 No protein-ligand interaction detected (PLIP) EDO.8: 3 residues within 4Å: Chain A: I.190, N.209, W.221 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:I.190, A:I.190, A:N.209 EDO.9: 8 residues within 4Å: Chain A: W.57, Y.64, P.173, D.176, R.177, P.238, V.290, C.292 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:P.173, A:D.176, A:R.177 Water bridges: A:R.177

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 3 residues within 4Å: Chain A: D.161, H.163, H.297 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:H.163, A:H.297 GOL.4: 6 residues within 4Å: Chain A: Q.331, Y.332, H.335, H.382, E.500, N.501 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.331, A:E.500, A:N.501, A:N.501 GOL.5: 7 residues within 4Å: Chain A: P.69, P.155, V.156, I.178, A.179, S.182, D.252 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:P.155, A:A.179

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ji, S. et al., A molecular switch orchestrates enzyme specificity and secretory granule morphology. Nat Commun (2018)

Release Date

2018-09-12

Peptides

polypeptide N-acetylgalactosaminyltransferase 9: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

polypeptide N-acetylgalactosaminyltransferase 9

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