- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.89 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)
- 4 x ADE: ADENINE(Non-covalent)
ADE.2: 14 residues within 4Å:- Chain A: I.63, H.64, T.66, Q.68, T.69, L.379, T.383, G.384, H.385, M.390, F.394
- Ligands: NAD.1, K.4, PO4.7
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:Q.68, A:H.385
ADE.10: 12 residues within 4Å:- Chain B: H.64, T.66, Q.68, T.69, L.379, T.383, G.384, H.385, M.390, F.394
- Ligands: NAD.9, PO4.14
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:Q.68, B:T.69, B:H.385
ADE.17: 13 residues within 4Å:- Chain C: H.64, T.66, Q.68, T.69, L.379, T.383, G.384, H.385, M.390, F.394
- Ligands: NAD.16, K.19, PO4.22
4 PLIP interactions:4 interactions with chain C- Hydrogen bonds: C:T.66, C:Q.68, C:T.69, C:H.385
ADE.25: 13 residues within 4Å:- Chain D: H.64, T.66, Q.68, T.69, L.379, T.383, G.384, H.385, M.390, F.394
- Ligands: NAD.24, K.26, PO4.28
2 PLIP interactions:2 interactions with chain D- Hydrogen bonds: D:Q.68, D:H.385
- 3 x RD4: 3-ethoxybenzene-1-carboximidamide(Non-covalent)
RD4.3: 7 residues within 4Å:- Chain A: D.193, V.425, D.468, T.469
- Chain D: D.468, T.469, R.471
5 PLIP interactions:2 interactions with chain A, 3 interactions with chain D- Hydrophobic interactions: A:D.468, D:T.469
- Hydrogen bonds: A:D.193, D:T.469, D:R.471
RD4.8: 6 residues within 4Å:- Chain A: W.26, R.29
- Chain B: E.344, V.345, K.346, P.347
6 PLIP interactions:3 interactions with chain A, 3 interactions with chain B- Water bridges: A:R.29, B:E.344
- pi-Stacking: A:W.26, A:W.26
- Hydrophobic interactions: B:K.346, B:P.347
RD4.15: 8 residues within 4Å:- Chain B: D.468, T.469, R.471
- Chain C: D.193, V.425, D.468, T.469, R.471
4 PLIP interactions:2 interactions with chain B, 2 interactions with chain C- Hydrophobic interactions: B:T.469
- Water bridges: B:R.471
- Hydrogen bonds: C:D.193, C:D.193
- 4 x K: POTASSIUM ION(Non-covalent)
K.4: 6 residues within 4Å:- Chain A: Q.68, T.383, G.384, H.385, P.386
- Ligands: ADE.2
5 PLIP interactions:3 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: A:T.383, A:T.383, A:H.385, H2O.7, H2O.19
K.11: 5 residues within 4Å:- Chain B: Q.68, T.383, G.384, H.385, P.386
5 PLIP interactions:3 interactions with chain B, 2 Ligand-Water interactions- Metal complexes: B:T.383, B:T.383, B:H.385, H2O.16, H2O.18
K.19: 6 residues within 4Å:- Chain C: Q.68, T.383, G.384, H.385, P.386
- Ligands: ADE.17
5 PLIP interactions:3 interactions with chain C, 2 Ligand-Water interactions- Metal complexes: C:T.383, C:T.383, C:H.385, H2O.24, H2O.25
K.26: 5 residues within 4Å:- Chain D: Q.68, T.383, G.384, H.385
- Ligands: ADE.25
5 PLIP interactions:3 interactions with chain D, 2 Ligand-Water interactions- Metal complexes: D:T.383, D:T.383, D:H.385, H2O.28, H2O.35
- 12 x PO4: PHOSPHATE ION(Non-functional Binders)
PO4.5: 6 residues within 4Å:- Chain A: K.313, A.314, L.315, K.316, K.317, R.354
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:A.314, A:L.315
- Water bridges: A:K.317, A:K.317
- Salt bridges: A:R.354
PO4.6: 4 residues within 4Å:- Chain A: R.28, I.32, E.35
- Chain B: H.363
7 PLIP interactions:1 interactions with chain B, 6 interactions with chain A- Salt bridges: B:H.363, A:R.28
- Hydrogen bonds: A:E.35, A:E.35
- Water bridges: A:E.35, A:R.45, A:R.45
PO4.7: 10 residues within 4Å:- Chain A: H.64, D.142, E.167, T.168, K.197, D.201, H.385, M.390
- Ligands: NAD.1, ADE.2
7 PLIP interactions:7 interactions with chain A- Hydrogen bonds: A:D.142, A:E.167, A:T.168, A:D.201, A:D.201
- Water bridges: A:H.326
- Salt bridges: A:K.197
PO4.12: 5 residues within 4Å:- Chain A: H.363
- Chain B: R.28, I.32, E.35, E.74
7 PLIP interactions:6 interactions with chain B, 1 interactions with chain A- Hydrogen bonds: B:E.74
- Water bridges: B:E.35, B:R.45, B:R.45, B:R.45
- Salt bridges: B:R.28, A:H.363
PO4.13: 6 residues within 4Å:- Chain B: K.313, A.314, L.315, K.316, K.317, R.354
4 PLIP interactions:4 interactions with chain B- Water bridges: B:A.314, B:K.317, B:K.317
- Salt bridges: B:R.354
PO4.14: 10 residues within 4Å:- Chain B: H.64, D.142, E.167, T.168, K.197, D.201, H.385, M.390
- Ligands: NAD.9, ADE.10
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:T.168, B:T.168, B:D.201, B:D.201
- Salt bridges: B:K.197
PO4.20: 4 residues within 4Å:- Chain C: R.28, I.32, E.35
- Chain D: H.363
6 PLIP interactions:5 interactions with chain C, 1 interactions with chain D- Hydrogen bonds: C:E.35
- Water bridges: C:R.28, C:E.35, C:R.45
- Salt bridges: C:R.28, D:H.363
PO4.21: 4 residues within 4Å:- Chain C: H.363
- Chain D: R.28, I.32, E.35
4 PLIP interactions:3 interactions with chain D, 1 interactions with chain C- Hydrogen bonds: D:E.35, D:E.35
- Salt bridges: D:R.28, C:H.363
PO4.22: 9 residues within 4Å:- Chain C: H.64, D.142, E.167, T.168, K.197, D.201, H.385
- Ligands: NAD.16, ADE.17
4 PLIP interactions:4 interactions with chain C- Hydrogen bonds: C:D.201
- Water bridges: C:T.168, C:T.168
- Salt bridges: C:K.197
PO4.23: 5 residues within 4Å:- Chain C: G.458, V.459, P.464, K.466, P.467
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:G.458
- Water bridges: C:F.465
PO4.27: 5 residues within 4Å:- Chain D: K.313, L.315, K.316, K.317, R.354
4 PLIP interactions:4 interactions with chain D- Hydrogen bonds: D:K.317
- Water bridges: D:R.354, D:D.366
- Salt bridges: D:R.354
PO4.28: 10 residues within 4Å:- Chain D: H.64, D.142, E.167, T.168, K.197, D.201, H.385, M.390
- Ligands: NAD.24, ADE.25
7 PLIP interactions:7 interactions with chain D- Hydrogen bonds: D:D.142, D:D.142, D:E.167, D:T.168
- Water bridges: D:D.142, D:T.168
- Salt bridges: D:K.197
- 1 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Malecki, P.H. et al., Crystal structure of S-adenosyl-L-homocysteine hydrolase from P. aeruginosa in complex with fragment F2X-Entry G03. To be published
- Release Date
- 2024-02-21
- Peptides
- Adenosylhomocysteinase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.89 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)
- 4 x ADE: ADENINE(Non-covalent)
- 3 x RD4: 3-ethoxybenzene-1-carboximidamide(Non-covalent)
- 4 x K: POTASSIUM ION(Non-covalent)
- 12 x PO4: PHOSPHATE ION(Non-functional Binders)
- 1 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Malecki, P.H. et al., Crystal structure of S-adenosyl-L-homocysteine hydrolase from P. aeruginosa in complex with fragment F2X-Entry G03. To be published
- Release Date
- 2024-02-21
- Peptides
- Adenosylhomocysteinase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D