SMTL ID : 7ec7.1 (1 other biounit)

Crystal structure of SdgB (complexed with phosphate ions)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.20 Å

Oligo State

homo-dimer

Ligands

8 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 5 residues within 4Å: Chain A: G.15, R.329, K.334, E.406 Ligands: PO4.3 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.15 Salt bridges: A:R.329, A:K.334 PO4.2: 3 residues within 4Å: Chain A: N.7, R.224, Y.227 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.7 Salt bridges: A:R.224 PO4.3: 9 residues within 4Å: Chain A: G.15, K.18, K.334, E.406, F.408, S.409, L.410, A.411 Ligands: PO4.1 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.409, A:L.410, A:A.411 Salt bridges: A:K.18, A:K.334 PO4.4: 4 residues within 4Å: Chain A: Y.111, N.126, F.128, K.134 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.126 Salt bridges: A:K.134 PO4.5: 5 residues within 4Å: Chain B: G.15, R.329, K.334, E.406 Ligands: PO4.7 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.15 Salt bridges: B:R.329, B:K.334 PO4.6: 3 residues within 4Å: Chain B: N.7, R.224, Y.227 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.7, B:Y.227 Salt bridges: B:R.224 PO4.7: 9 residues within 4Å: Chain B: G.15, K.18, K.334, E.406, F.408, S.409, L.410, A.411 Ligands: PO4.5 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:S.409, B:L.410, B:A.411 Salt bridges: B:K.18, B:K.334 PO4.8: 4 residues within 4Å: Chain B: Y.111, N.126, F.128, K.134 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.126 Salt bridges: B:K.134

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kim, D.G. et al., Structural basis for SdgB- and SdgA-mediated glycosylation of staphylococcal adhesive proteins. Acta Crystallogr D Struct Biol (2021)

Release Date

2022-03-16

Peptides

Glycosyl transferase, group 1 family protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Glycosyl transferase, group 1 family protein

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