- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.89 Å
- Oligo State
- homo-dimer
- Ligands
- 4 x GOL: GLYCEROL(Non-functional Binders)
- 2 x PPV: PYROPHOSPHATE(Non-covalent)
PPV.3: 13 residues within 4Å:- Chain A: S.295, R.297, T.298, K.311, R.323, R.390, E.462, N.463, D.480, E.483
- Ligands: AMP.4, MG.5, MG.6
8 PLIP interactions:8 interactions with chain A- Hydrogen bonds: A:S.295, A:T.298
- Salt bridges: A:R.297, A:K.311, A:K.311, A:R.323, A:R.390, A:K.479
PPV.9: 13 residues within 4Å:- Chain B: S.295, R.297, T.298, K.311, R.323, R.390, E.462, N.463, D.480, E.483
- Ligands: AMP.10, MG.11, MG.12
8 PLIP interactions:8 interactions with chain B- Hydrogen bonds: B:S.295, B:T.298
- Salt bridges: B:R.297, B:K.311, B:K.311, B:R.323, B:R.390, B:K.479
- 2 x AMP: ADENOSINE MONOPHOSPHATE(Non-covalent)
AMP.4: 17 residues within 4Å:- Chain A: G.172, H.173, N.179, Q.294, S.295, N.318, M.319, R.323, A.407, H.460, E.462, N.463, D.480, E.484
- Ligands: PPV.3, MG.5, MG.6
10 PLIP interactions:10 interactions with chain A- Hydrogen bonds: A:Q.294, A:N.318, A:R.323, A:E.462, A:E.462, A:N.463, A:N.463, A:E.484
- Salt bridges: A:R.323, A:H.460
AMP.10: 17 residues within 4Å:- Chain B: G.172, H.173, N.179, Q.294, S.295, N.318, M.319, R.323, A.407, H.460, E.462, N.463, D.480, E.484
- Ligands: PPV.9, MG.11, MG.12
9 PLIP interactions:9 interactions with chain B- Hydrogen bonds: B:Q.294, B:N.318, B:R.323, B:E.462, B:N.463, B:N.463, B:E.484
- Salt bridges: B:R.323, B:H.460
- 4 x MG: MAGNESIUM ION(Non-covalent)
MG.5: 5 residues within 4Å:- Chain A: E.462, N.463, D.480
- Ligands: PPV.3, AMP.4
2 PLIP interactions:2 interactions with chain A- Metal complexes: A:E.462, A:D.480
MG.6: 6 residues within 4Å:- Chain A: R.297, D.480, E.483, E.484
- Ligands: PPV.3, AMP.4
4 PLIP interactions:3 interactions with chain A, 1 Ligand-Ligand interactions- Metal complexes: A:D.480, A:E.483, A:E.484, AMP.4
MG.11: 5 residues within 4Å:- Chain B: E.462, N.463, D.480
- Ligands: PPV.9, AMP.10
2 PLIP interactions:2 interactions with chain B- Metal complexes: B:E.462, B:D.480
MG.12: 6 residues within 4Å:- Chain B: R.297, D.480, E.483, E.484
- Ligands: PPV.9, AMP.10
4 PLIP interactions:3 interactions with chain B, 1 Ligand-Ligand interactions- Metal complexes: B:D.480, B:E.483, B:E.484, AMP.10
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Yang, J. et al., An acyl-adenylate mimic reveals the structural basis for substrate recognition by the iterative siderophore synthetase DesD. J.Biol.Chem. (2022)
- Release Date
- 2022-07-06
- Peptides
- Desferrioxamine synthetase DesD: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
CB
C
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.89 Å
- Oligo State
- homo-dimer
- Ligands
- 4 x GOL: GLYCEROL(Non-functional Binders)
- 2 x PPV: PYROPHOSPHATE(Non-covalent)
- 2 x AMP: ADENOSINE MONOPHOSPHATE(Non-covalent)
- 4 x MG: MAGNESIUM ION(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Yang, J. et al., An acyl-adenylate mimic reveals the structural basis for substrate recognition by the iterative siderophore synthetase DesD. J.Biol.Chem. (2022)
- Release Date
- 2022-07-06
- Peptides
- Desferrioxamine synthetase DesD: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
CB
C