- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.97 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x SAM: S-ADENOSYLMETHIONINE(Non-covalent)
- 4 x MG: MAGNESIUM ION(Non-covalent)
MG.2: 5 residues within 4Å:- Chain A: D.20, K.256
- Ligands: K.4, PO4.5, PO4.6
4 PLIP interactions:1 interactions with chain A, 3 Ligand-Water interactions- Metal complexes: A:D.20, H2O.2, H2O.5, H2O.7
MG.3: 4 residues within 4Å:- Chain A: K.256
- Chain B: D.282
- Ligands: PO4.5, PO4.6
No protein-ligand interaction detected (PLIP)MG.7: 4 residues within 4Å:- Chain A: D.282
- Chain B: K.256
- Ligands: PO4.15, PO4.16
No protein-ligand interaction detected (PLIP)MG.13: 5 residues within 4Å:- Chain B: D.20, K.256
- Ligands: K.14, PO4.15, PO4.16
4 PLIP interactions:1 interactions with chain B, 3 Ligand-Water interactions- Metal complexes: B:D.20, H2O.15, H2O.15, H2O.18
- 2 x K: POTASSIUM ION(Non-covalent)
K.4: 4 residues within 4Å:- Chain A: D.249, A.250
- Chain B: E.46
- Ligands: MG.2
5 PLIP interactions:2 interactions with chain A, 1 interactions with chain B, 2 Ligand-Water interactions- Metal complexes: A:D.249, A:A.250, B:E.46, H2O.7, H2O.15
K.14: 4 residues within 4Å:- Chain A: E.46
- Chain B: D.249, A.250
- Ligands: MG.13
5 PLIP interactions:2 interactions with chain B, 1 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: B:D.249, B:A.250, A:E.46, H2O.15, H2O.18
- 5 x PO4: PHOSPHATE ION(Non-functional Binders)
PO4.5: 11 residues within 4Å:- Chain A: D.20, R.255, K.256
- Chain B: G.270, G.271, A.272, K.276, D.282
- Ligands: MG.2, MG.3, PO4.6
6 PLIP interactions:4 interactions with chain A, 2 interactions with chain B- Hydrogen bonds: A:R.255, B:A.272
- Water bridges: A:R.255
- Salt bridges: A:R.255, A:K.256, B:K.276
PO4.6: 10 residues within 4Å:- Chain A: H.18, D.20, K.172, D.249, K.256
- Chain B: D.125
- Ligands: SAM.1, MG.2, MG.3, PO4.5
7 PLIP interactions:1 interactions with chain B, 6 interactions with chain A- Hydrogen bonds: B:D.125
- Water bridges: A:K.172, A:D.249, A:R.255
- Salt bridges: A:H.18, A:K.172, A:K.256
PO4.15: 10 residues within 4Å:- Chain A: D.125
- Chain B: H.18, D.20, K.172, D.249, K.256
- Ligands: MG.7, SAM.12, MG.13, PO4.16
6 PLIP interactions:6 interactions with chain B- Hydrogen bonds: B:D.249
- Water bridges: B:K.172, B:R.255
- Salt bridges: B:H.18, B:K.172, B:K.256
PO4.16: 11 residues within 4Å:- Chain A: G.270, G.271, A.272, K.276, D.282
- Chain B: D.20, R.255, K.256
- Ligands: MG.7, MG.13, PO4.15
9 PLIP interactions:4 interactions with chain A, 5 interactions with chain B- Hydrogen bonds: A:A.272, A:D.282
- Water bridges: A:E.46, B:D.20, B:D.20, B:R.255
- Salt bridges: A:K.276, B:R.255, B:K.256
PO4.17: 4 residues within 4Å:- Chain B: I.66, D.67, Y.68, E.69
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:Y.68, B:E.69
- 1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)
- 2 x MPO: 3[N-MORPHOLINO]PROPANE SULFONIC ACID(Non-covalent)
MPO.9: 9 residues within 4Å:- Chain A: D.40, K.42, H.111, F.114, T.115, K.116, R.117, I.121, K.358
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:H.111
- Salt bridges: A:K.42, A:K.358
MPO.18: 7 residues within 4Å:- Chain B: D.40, K.42, H.111, F.114, T.115, I.121, K.358
5 PLIP interactions:5 interactions with chain B- Hydrophobic interactions: B:F.114
- Water bridges: B:K.358, B:K.358
- Salt bridges: B:K.42, B:K.358
- 2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- 1 x PE8: 3,6,9,12,15,18,21-HEPTAOXATRICOSANE-1,23-DIOL(Non-covalent)
PE8.11: 20 residues within 4Å:- Chain A: F.7, F.9, N.181, G.184, M.186, G.264, W.265, R.304, L.306, F.322, D.324, Y.326
- Chain B: F.7, F.9, N.181, M.186, G.264, W.265, F.322, D.324
7 PLIP interactions:3 interactions with chain A, 4 interactions with chain B- Hydrogen bonds: A:N.181, A:G.264
- Water bridges: A:G.266, B:G.266, B:G.266, B:R.304, B:R.304
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Sekula, B. et al., S-adenosylmethionine synthases in plants: Structural characterization of type I and II isoenzymes from Arabidopsis thaliana and Medicago truncatula. Int.J.Biol.Macromol. (2020)
- Release Date
- 2020-02-26
- Peptides
- S-adenosylmethionine synthase 2: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.97 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x SAM: S-ADENOSYLMETHIONINE(Non-covalent)
- 4 x MG: MAGNESIUM ION(Non-covalent)
- 2 x K: POTASSIUM ION(Non-covalent)
- 5 x PO4: PHOSPHATE ION(Non-functional Binders)
- 1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)
- 2 x MPO: 3[N-MORPHOLINO]PROPANE SULFONIC ACID(Non-covalent)
- 2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- 1 x PE8: 3,6,9,12,15,18,21-HEPTAOXATRICOSANE-1,23-DIOL(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Sekula, B. et al., S-adenosylmethionine synthases in plants: Structural characterization of type I and II isoenzymes from Arabidopsis thaliana and Medicago truncatula. Int.J.Biol.Macromol. (2020)
- Release Date
- 2020-02-26
- Peptides
- S-adenosylmethionine synthase 2: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B