- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.45 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x SER- ASP- SER- ASP- SER- ASP- SER- ASP: SER-ASP-SER-ASP-SER-ASP-SER-ASP(Non-covalent)
- 2 x UDP: URIDINE-5'-DIPHOSPHATE(Non-covalent)
UDP.3: 18 residues within 4Å:- Chain A: L.14, G.16, K.19, V.328, R.330, K.335, Y.359, G.360, G.385, F.386, L.387, L.390, E.407, S.410, L.411, A.412, E.415
- Ligands: NAG.4
14 PLIP interactions:14 interactions with chain A- Hydrogen bonds: A:G.16, A:K.19, A:L.387, A:L.387, A:L.411, A:A.412, A:E.415, A:E.415
- Water bridges: A:K.335, A:K.335
- Salt bridges: A:R.330, A:K.335, A:K.335
- pi-Stacking: A:F.386
UDP.5: 17 residues within 4Å:- Chain B: G.16, K.19, V.328, R.330, K.335, Y.359, G.360, G.385, F.386, L.387, L.390, E.407, S.410, L.411, A.412, E.415
- Ligands: NAG.6
11 PLIP interactions:11 interactions with chain B- Hydrophobic interactions: B:V.328
- Hydrogen bonds: B:G.16, B:L.387, B:L.387, B:L.411, B:A.412, B:E.415
- Salt bridges: B:R.330, B:K.335, B:K.335
- pi-Stacking: B:F.386
- 5 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)
NAG.4: 14 residues within 4Å:- Chain A: G.16, I.17, H.247, S.248, V.305, R.330, E.334, M.406, E.407, G.408, F.409, S.410, L.411
- Ligands: UDP.3
7 PLIP interactions:7 interactions with chain A- Hydrogen bonds: A:H.247, A:E.407, A:E.407, A:G.408, A:F.409, A:S.410, A:L.411
NAG.6: 14 residues within 4Å:- Chain B: G.16, I.17, H.247, S.248, V.305, R.330, E.334, M.406, E.407, G.408, F.409, S.410, L.411
- Ligands: UDP.5
7 PLIP interactions:7 interactions with chain B- Hydrogen bonds: B:H.247, B:E.407, B:E.407, B:G.408, B:F.409, B:S.410, B:L.411
NAG.7: 5 residues within 4Å:- Chain A: R.102, Y.104, R.133
- Ligands: SER-ASP-SER-ASP-SER-ASP-SER-ASP.1, SER-ASP-SER-ASP-SER-ASP-SER-ASP.1
No protein-ligand interaction detected (PLIP)NAG.8: 5 residues within 4Å:- Chain A: D.100, Y.112
- Ligands: SER-ASP-SER-ASP-SER-ASP-SER-ASP.1, SER-ASP-SER-ASP-SER-ASP-SER-ASP.1, SER-ASP-SER-ASP-SER-ASP-SER-ASP.1
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:Y.112
NAG.9: 6 residues within 4Å:- Chain B: S.98, D.100, Y.112
- Ligands: SER-ASP-SER-ASP-SER-ASP.2, SER-ASP-SER-ASP-SER-ASP.2, SER-ASP-SER-ASP-SER-ASP.2
No protein-ligand interaction detected (PLIP)- 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
- 2021-11-24
- Peptides
- Glycosyl transferase, group 1 family protein: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
C
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.45 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x SER- ASP- SER- ASP- SER- ASP- SER- ASP: SER-ASP-SER-ASP-SER-ASP-SER-ASP(Non-covalent)
- 2 x UDP: URIDINE-5'-DIPHOSPHATE(Non-covalent)
- 5 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)
- 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
- 2021-11-24
- Peptides
- Glycosyl transferase, group 1 family protein: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
C