- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.23 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x PMP: 4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOSPHATE(Non-covalent)
- 4 x ACT: ACETATE ION(Non-functional Binders)
ACT.2: 6 residues within 4Å:- Chain A: Y.248, R.319, H.351, L.417, Y.418
- Ligands: ACT.8
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:H.351
- Water bridges: A:L.417
- Salt bridges: A:R.319, A:H.351
ACT.8: 5 residues within 4Å:- Chain A: Y.248, K.249, H.351, Y.380
- Ligands: ACT.2
8 PLIP interactions:8 interactions with chain A- Hydrophobic interactions: A:Y.248
- Hydrogen bonds: A:Y.380
- Water bridges: A:K.249, A:K.249, A:K.249, A:Y.381
- Salt bridges: A:K.249, A:H.351
ACT.9: 5 residues within 4Å:- Chain A: F.153, Y.248
- Chain B: Y.276, K.284
- Ligands: PMP.1
6 PLIP interactions:4 interactions with chain B, 2 interactions with chain A- Hydrogen bonds: B:Y.276
- Water bridges: B:N.294, B:N.294, A:K.249
- Salt bridges: B:K.284
- Hydrophobic interactions: A:Y.248
ACT.13: 6 residues within 4Å:- Chain B: L.72, Y.248, R.319, H.351, L.417, Y.418
5 PLIP interactions:5 interactions with chain B- Hydrophobic interactions: B:L.72
- Hydrogen bonds: B:H.351
- Water bridges: B:L.417
- Salt bridges: B:R.319, B:H.351
- 8 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.3: 5 residues within 4Å:- Chain A: D.378, V.379, Y.380
- Chain B: K.284, N.285
4 PLIP interactions:3 interactions with chain B, 1 interactions with chain A- Hydrogen bonds: B:K.284, B:K.284, B:N.285, A:D.378
EDO.5: 8 residues within 4Å:- Chain A: N.151, F.177, L.200, Y.201, Y.380, L.384, H.409, V.412
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:N.151, A:Y.381
- Water bridges: A:Y.381, A:Y.381
EDO.6: 7 residues within 4Å:- Chain A: Q.175, F.177, E.340, L.341, P.342, P.354, K.356
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:P.354
EDO.10: 7 residues within 4Å:- Chain A: G.97, K.98, F.99, T.100, S.101
- Chain B: P.247, Y.248
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:F.99, A:T.100, A:S.101, A:S.101
EDO.12: 7 residues within 4Å:- Chain B: Q.175, F.177, E.340, L.341, P.342, P.354, K.356
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:Q.175, B:P.354
- Water bridges: B:E.343
EDO.14: 8 residues within 4Å:- Chain B: N.151, F.177, L.200, Y.201, Y.380, L.384, H.409, V.412
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:N.151, B:Y.201, B:H.409
- Water bridges: B:Y.381
EDO.15: 7 residues within 4Å:- Chain A: K.284, N.285
- Chain B: D.378, V.379, Y.380, Y.381, P.382
4 PLIP interactions:3 interactions with chain A, 1 interactions with chain B- Hydrogen bonds: A:K.284, A:K.284, A:N.285, B:D.378
EDO.18: 7 residues within 4Å:- Chain A: P.247, Y.248
- Chain B: G.97, K.98, F.99, T.100, S.101
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:F.99, B:T.100, B:T.100, B:S.101, B:S.101
- 4 x CL: CHLORIDE ION(Non-functional Binders)
CL.4: 2 residues within 4Å:- Chain A: Y.120, V.121
Ligand excluded by PLIPCL.7: 5 residues within 4Å:- Chain A: P.382, I.383, L.384, M.387, H.409
Ligand excluded by PLIPCL.16: 3 residues within 4Å:- Chain B: R.119, Y.120, V.121
Ligand excluded by PLIPCL.17: 4 residues within 4Å:- Chain B: I.383, L.384, M.387, H.409
Ligand excluded by PLIP- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- van Straaten, K.E. et al., The Structure of NtdA, a Sugar Aminotransferase Involved in the Kanosamine Biosynthetic Pathway in Bacillus subtilis, Reveals a New Subclass of Aminotransferases. J.Biol.Chem. (2013)
- Release Date
- 2013-10-16
- Peptides
- NTD biosynthesis operon protein NtdA: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.23 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x PMP: 4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOSPHATE(Non-covalent)
- 4 x ACT: ACETATE ION(Non-functional Binders)
- 8 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 4 x CL: CHLORIDE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- van Straaten, K.E. et al., The Structure of NtdA, a Sugar Aminotransferase Involved in the Kanosamine Biosynthetic Pathway in Bacillus subtilis, Reveals a New Subclass of Aminotransferases. J.Biol.Chem. (2013)
- Release Date
- 2013-10-16
- Peptides
- NTD biosynthesis operon protein NtdA: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B