- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.63 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)
- 8 x ACT: ACETATE ION(Non-functional Binders)
ACT.2: 8 residues within 4Å:- Chain A: F.223, V.229, E.230, V.233, R.342, Q.343, D.345, W.346
5 PLIP interactions:5 interactions with chain A- Hydrophobic interactions: A:F.223, A:R.342
- Water bridges: A:R.342, A:W.346
- Salt bridges: A:R.342
ACT.3: 5 residues within 4Å:- Chain A: R.66, S.94, P.116, W.117, F.120
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:W.117
ACT.4: 3 residues within 4Å:- Chain A: R.213
- Chain B: P.217, P.219
2 PLIP interactions:1 interactions with chain B, 1 interactions with chain A- Water bridges: B:F.220
- Salt bridges: A:R.213
ACT.11: 3 residues within 4Å:- Chain B: W.250, R.469
- Ligands: 1PS.15
2 PLIP interactions:2 interactions with chain B- Water bridges: B:R.469
- Salt bridges: B:R.469
ACT.12: 4 residues within 4Å:- Chain A: P.217, P.219, F.220
- Chain B: R.213
3 PLIP interactions:2 interactions with chain A, 1 interactions with chain B- Water bridges: A:P.217, A:F.220
- Salt bridges: B:R.213
ACT.13: 7 residues within 4Å:- Chain B: K.202, G.367, H.368, N.371, P.465, W.466
- Ligands: AG2.19
1 PLIP interactions:1 interactions with chain B- Salt bridges: B:K.202
ACT.17: 8 residues within 4Å:- Chain B: F.223, V.229, E.230, V.233, R.342, Q.343, D.345, W.346
5 PLIP interactions:5 interactions with chain B- Hydrophobic interactions: B:F.223, B:R.342
- Water bridges: B:E.230, B:R.342
- Salt bridges: B:R.342
ACT.21: 9 residues within 4Å:- Chain B: S.165, V.168, K.169, L.172, W.192, I.300, F.303, L.304, D.421
6 PLIP interactions:6 interactions with chain B- Hydrophobic interactions: B:V.168, B:K.169, B:F.303, B:L.304
- Hydrogen bonds: B:D.421
- Salt bridges: B:K.169
- 4 x SO4: SULFATE ION(Non-functional Binders)
SO4.5: 2 residues within 4Å:- Chain A: K.341, R.342
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:R.342
- Salt bridges: A:R.342
SO4.6: 3 residues within 4Å:- Chain A: Y.5, H.6, R.7
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:R.7, A:R.7
- Water bridges: A:H.6
- Salt bridges: A:H.6
SO4.7: 6 residues within 4Å:- Chain A: C.262, G.263, R.307, Q.312, A.313, R.316
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:C.262, A:A.313
- Salt bridges: A:R.307, A:R.316
SO4.14: 6 residues within 4Å:- Chain B: C.262, G.263, R.307, Q.312, A.313, R.316
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:A.313
- Water bridges: B:R.307, B:R.307
- Salt bridges: B:R.307, B:R.316
- 4 x 1PS: 3-PYRIDINIUM-1-YLPROPANE-1-SULFONATE(Non-covalent)
1PS.8: 6 residues within 4Å:- Chain A: S.45, D.46, E.47, D.345, W.346, R.347
5 PLIP interactions:5 interactions with chain A- Hydrophobic interactions: A:W.346
- Hydrogen bonds: A:S.45, A:D.46, A:E.47
- pi-Stacking: A:W.346
1PS.15: 5 residues within 4Å:- Chain B: R.249, I.460, D.461, R.469
- Ligands: ACT.11
4 PLIP interactions:4 interactions with chain B- Hydrophobic interactions: B:D.461
- Water bridges: B:R.249
- Salt bridges: B:R.249
- pi-Cation interactions: B:R.469
1PS.16: 7 residues within 4Å:- Chain B: S.45, D.46, E.47, D.345, W.346, R.347
- Ligands: NAD.10
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:D.46, B:D.46, B:E.47
- pi-Stacking: B:W.346, B:W.346
1PS.18: 7 residues within 4Å:- Chain A: L.455
- Chain B: L.237, M.336, F.337, G.340, K.341, R.342
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:R.342
- Salt bridges: B:R.342
- 3 x AG2: AGMATINE(Non-covalent)
AG2.9: 8 residues within 4Å:- Chain A: V.4, E.29, R.30, H.31, F.32, A.33, F.34, R.36
5 PLIP interactions:5 interactions with chain A- Hydrophobic interactions: A:V.4
- Hydrogen bonds: A:F.32, A:F.34, A:F.34
- pi-Cation interactions: A:F.34
AG2.19: 6 residues within 4Å:- Chain B: K.202, R.249, S.463, D.464, P.465
- Ligands: ACT.13
6 PLIP interactions:6 interactions with chain B- Hydrophobic interactions: B:D.464
- Hydrogen bonds: B:S.463, B:S.463
- Water bridges: B:R.249, B:R.249
- Salt bridges: B:D.464
AG2.20: 8 residues within 4Å:- Chain B: V.4, E.29, R.30, H.31, F.32, A.33, F.34, R.36
6 PLIP interactions:6 interactions with chain B- Hydrophobic interactions: B:V.4
- Hydrogen bonds: B:F.32, B:F.34, B:R.36
- Water bridges: B:F.34
- pi-Cation interactions: B:F.34
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Krossa, S. et al., Comprehensive Structural Characterization of the Bacterial Homospermidine Synthase-an Essential Enzyme of the Polyamine Metabolism. Sci Rep (2016)
- Release Date
- 2016-01-27
- Peptides
- Homospermidine synthase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.63 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)
- 8 x ACT: ACETATE ION(Non-functional Binders)
- 4 x SO4: SULFATE ION(Non-functional Binders)
- 4 x 1PS: 3-PYRIDINIUM-1-YLPROPANE-1-SULFONATE(Non-covalent)
- 3 x AG2: AGMATINE(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Krossa, S. et al., Comprehensive Structural Characterization of the Bacterial Homospermidine Synthase-an Essential Enzyme of the Polyamine Metabolism. Sci Rep (2016)
- Release Date
- 2016-01-27
- Peptides
- Homospermidine synthase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B