- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.15 Å
- Oligo State
- homo-tetramer
- Ligands
- 6 x GA4: GIBBERELLIN A4(Non-covalent)
- 4 x AKG: 2-OXOGLUTARIC ACID(Non-covalent)
AKG.3: 14 residues within 4Å:- Chain A: R.179, N.181, Y.183, F.199, H.202, D.204, L.211, H.259, V.261, R.269, S.271, I.273, F.275
- Ligands: GA4.2
9 PLIP interactions:9 interactions with chain A- Hydrophobic interactions: A:L.211, A:V.261, A:I.273
- Hydrogen bonds: A:N.181, A:Y.183, A:S.271
- Salt bridges: A:R.179, A:H.202, A:R.269
AKG.12: 14 residues within 4Å:- Chain B: R.179, N.181, Y.183, F.199, H.202, D.204, L.211, H.259, V.261, R.269, S.271, I.273, F.275
- Ligands: GA4.11
10 PLIP interactions:10 interactions with chain B- Hydrophobic interactions: B:L.211, B:V.261, B:I.273
- Hydrogen bonds: B:N.181, B:Y.183, B:S.271
- Water bridges: B:N.241
- Salt bridges: B:R.179, B:H.202, B:R.269
AKG.19: 14 residues within 4Å:- Chain C: R.179, N.181, Y.183, F.199, H.202, D.204, L.211, H.259, V.261, R.269, S.271, I.273, F.275
- Ligands: GA4.17
9 PLIP interactions:9 interactions with chain C- Hydrophobic interactions: C:L.211, C:V.261, C:I.273
- Hydrogen bonds: C:N.181, C:H.259, C:S.271
- Salt bridges: C:R.179, C:H.202, C:R.269
AKG.23: 13 residues within 4Å:- Chain D: R.179, N.181, Y.183, F.199, H.202, L.211, H.259, V.261, R.269, S.271, I.273, F.275
- Ligands: GA4.22
9 PLIP interactions:9 interactions with chain D- Hydrophobic interactions: D:L.211, D:V.261, D:I.273
- Hydrogen bonds: D:N.181, D:D.204, D:S.271
- Salt bridges: D:R.179, D:H.202, D:R.269
- 10 x GOL: GLYCEROL(Non-functional Binders)
GOL.4: 9 residues within 4Å:- Chain A: V.10, P.14, I.98, D.103, M.104, F.199, G.200, R.315, L.316
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:M.104, A:G.200
- Water bridges: A:E.201
GOL.5: 7 residues within 4Å:- Chain A: R.48, Y.49, A.222, R.224, S.256, V.257, K.258
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:Y.49, A:R.224, A:K.258, A:K.258
- Water bridges: A:R.224
GOL.6: 2 residues within 4Å:- Chain A: C.186, A.188
2 PLIP interactions:2 interactions with chain A- Water bridges: A:K.96, A:K.96
GOL.7: 5 residues within 4Å:- Chain A: G.58, V.59, A.60, T.63, G.141
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:A.60, A:T.63
GOL.13: 8 residues within 4Å:- Chain B: Q.79, Y.93, S.95, K.96, W.106, L.107, E.108, P.184
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:Q.79, B:Q.79, B:Y.93, B:S.95
- Water bridges: B:K.82
GOL.14: 6 residues within 4Å:- Chain B: A.222, L.223, R.224, S.256, V.257, K.258
6 PLIP interactions:6 interactions with chain B- Hydrogen bonds: B:R.224, B:R.224, B:K.258, B:K.258
- Water bridges: B:L.223, B:K.258
GOL.15: 6 residues within 4Å:- Chain B: P.90, L.111, D.175, V.177, K.308
- Ligands: GA4.18
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:D.175, B:K.308
GOL.20: 5 residues within 4Å:- Chain C: P.90, D.175, V.177, K.308, Y.312
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:K.308, C:K.308, C:Y.312
GOL.24: 4 residues within 4Å:- Chain C: H.12
- Chain D: I.13, W.106, C.186
1 PLIP interactions:1 interactions with chain D- Water bridges: D:I.13
GOL.25: 3 residues within 4Å:- Chain D: T.216, S.217, N.264
4 PLIP interactions:4 interactions with chain D- Hydrogen bonds: D:G.215, D:S.217, D:S.217, D:N.264
- 6 x SO4: SULFATE ION(Non-functional Binders)
SO4.8: 4 residues within 4Å:- Chain A: S.95, K.96, L.107, P.184
No protein-ligand interaction detected (PLIP)SO4.9: 5 residues within 4Å:- Chain A: G.215, T.216, S.217, N.264, K.267
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:S.217, A:S.217, A:N.264
- Salt bridges: A:K.267
SO4.10: 6 residues within 4Å:- Chain A: P.90, L.111, V.177, K.308, Y.312
- Ligands: GA4.1
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:Y.312, A:Y.312
- Salt bridges: A:K.308
SO4.16: 5 residues within 4Å:- Chain B: G.215, T.216, S.217, N.264, K.267
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:G.215, B:S.217, B:N.264
- Salt bridges: B:K.267
SO4.21: 5 residues within 4Å:- Chain C: Q.79, S.95, L.107, E.108, P.184
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:L.107
- Water bridges: C:K.82, C:K.82
SO4.26: 5 residues within 4Å:- Chain D: S.95, W.106, L.107, E.108, P.184
2 PLIP interactions:2 interactions with chain D- Hydrogen bonds: D:S.95, D:L.107
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Takehara, S. et al., A common allosteric mechanism regulates homeostatic inactivation of auxin and gibberellin. Nat Commun (2020)
- Release Date
- 2020-05-13
- Peptides
- Gibberellin 2-beta-dioxygenase 3: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.15 Å
- Oligo State
- homo-tetramer
- Ligands
- 6 x GA4: GIBBERELLIN A4(Non-covalent)
- 4 x AKG: 2-OXOGLUTARIC ACID(Non-covalent)
- 10 x GOL: GLYCEROL(Non-functional Binders)
- 6 x SO4: SULFATE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Takehara, S. et al., A common allosteric mechanism regulates homeostatic inactivation of auxin and gibberellin. Nat Commun (2020)
- Release Date
- 2020-05-13
- Peptides
- Gibberellin 2-beta-dioxygenase 3: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D