SMTL ID : 8ui6.1

X-ray crystal structure of Toxoplasma gondii GalNAc-T3 in complex with UDP-GalNAc, Mn2+, and Muc5AC-3,13

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.65 Å

Oligo State

hetero-1-1-mer

Ligands

2 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 4 residues within 4Å: Chain A: D.204, H.206, H.342 Ligands: UDP.2 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.204, A:H.206, A:H.342, H2O.1 MN.3: 2 residues within 4Å: Chain A: H.261, E.264 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:H.261, A:E.264, H2O.1, H2O.1, H2O.1

1 x UDP: URIDINE-5'-DIPHOSPHATE(Non-covalent)

UDP.2: 21 residues within 4Å: Chain A: V.114, F.115, Y.116, E.118, D.147, R.181, G.183, I.184, A.187, R.188, D.204, S.205, H.206, F.313, W.314, H.342, R.345, Y.351 Chain B: G.1, T.2 Ligands: MN.1 21 PLIP interactions: 19 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:I.184 Hydrogen bonds: A:Y.116, A:E.118, A:E.118, A:D.147, A:D.147, A:R.181, A:R.181, A:G.183, A:S.205, A:S.205, A:S.205, A:W.314, B:T.2, B:T.2 Water bridges: A:R.345, A:R.345 Salt bridges: A:H.206, A:H.342, A:R.345 pi-Stacking: A:Y.351

1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.4: 12 residues within 4Å: Chain A: K.251, Y.263, L.271, P.272, E.275, T.285, W.326, W.409, N.413, V.414, P.416, E.417 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.251, A:T.285

1 x A2G: 2-acetamido-2-deoxy-alpha-D-galactopyranose(Non-covalent)

A2G.5: 15 residues within 4Å: Chain A: I.248, L.252, L.255, K.257, M.259, E.260, H.261, S.262, E.482, W.493 Chain B: T.2, T.3, P.4, S.5, P.6 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:I.248 Hydrogen bonds: A:H.261, A:S.262

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kumar, P. et al., A Toxoplasma gondii O-glycosyltransferase that modulates bradyzoite cyst wall rigidity is distinct from host homologues. Nat Commun (2024)

Release Date

2024-05-15

Peptides

Glycosyl transferase: A
Mucin-5AC: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Glycosyl transferase

Mucin-5AC

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