- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.81 Å
- Oligo State
- homo-tetramer
- Ligands
- 2 x PLP: PYRIDOXAL-5'-PHOSPHATE(Covalent)
- 4 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)
EPE.2: 14 residues within 4Å:- Chain A: W.13, Q.30, G.31, Y.119, N.178, K.240, F.332, R.389
- Chain B: Y.57, T.58, G.60, Y.271, T.272
- Ligands: PLP.1
7 PLIP interactions:5 interactions with chain A, 2 interactions with chain B- Hydrogen bonds: A:G.31, A:Y.119, A:N.178, B:T.272, B:T.272
- Salt bridges: A:K.240, A:R.389
EPE.10: 14 residues within 4Å:- Chain A: Y.57, T.58, R.59, G.60, Y.271, T.272
- Chain B: W.13, Q.30, G.31, Y.119, N.178, F.332, R.389
- Ligands: PMP.9
6 PLIP interactions:5 interactions with chain B, 1 interactions with chain A- Hydrogen bonds: B:G.31, B:N.178, A:T.272
- Water bridges: B:Y.119, B:K.248
- Salt bridges: B:R.389
EPE.16: 14 residues within 4Å:- Chain C: W.13, Q.30, G.31, Y.119, N.178, K.240, F.332, R.389
- Chain D: Y.57, T.58, G.60, Y.271, T.272
- Ligands: PLP.15
5 PLIP interactions:4 interactions with chain C, 1 interactions with chain D- Hydrogen bonds: C:G.31, C:N.178, D:T.272
- Salt bridges: C:K.240, C:R.389
EPE.24: 14 residues within 4Å:- Chain C: Y.57, T.58, R.59, G.60, Y.271, T.272
- Chain D: W.13, Q.30, G.31, Y.119, N.178, F.332, R.389
- Ligands: PMP.23
6 PLIP interactions:5 interactions with chain D, 1 interactions with chain C- Hydrogen bonds: D:G.31, D:Y.119, D:N.178, C:T.272
- Water bridges: D:K.248
- Salt bridges: D:R.389
- 2 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)
- 8 x GOL: GLYCEROL(Non-functional Binders)
GOL.4: 5 residues within 4Å:- Chain A: I.77, E.210, W.211, H.219, K.221
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:E.210
GOL.5: 5 residues within 4Å:- Chain A: K.141, T.154, T.185, Q.187, E.188
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:K.141, A:T.154, A:T.185, A:Q.187
GOL.12: 4 residues within 4Å:- Chain B: Q.190, D.194, V.197, P.226
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:Q.190
GOL.13: 5 residues within 4Å:- Chain B: I.77, E.210, W.211, H.219, K.221
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:E.210, B:E.210
GOL.18: 5 residues within 4Å:- Chain C: I.77, E.210, W.211, H.219, K.221
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:E.210, C:E.210
GOL.19: 5 residues within 4Å:- Chain C: K.141, T.154, T.185, Q.187, E.188
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:K.141, C:Q.187
GOL.26: 4 residues within 4Å:- Chain D: Q.190, D.194, V.197, P.226
2 PLIP interactions:2 interactions with chain D- Hydrogen bonds: D:Q.190, D:D.194
GOL.27: 5 residues within 4Å:- Chain D: I.77, E.210, W.211, H.219, K.221
1 PLIP interactions:1 interactions with chain D- Hydrogen bonds: D:E.210
- 8 x CA: CALCIUM ION(Non-covalent)
CA.6: 4 residues within 4Å:- Chain A: Q.81
- Chain C: Q.81, D.83
- Ligands: CA.20
No protein-ligand interaction detected (PLIP)CA.7: 2 residues within 4Å:- Chain A: H.199, D.200
5 PLIP interactions:1 interactions with chain A, 4 Ligand-Water interactions- Metal complexes: A:H.199, H2O.1, H2O.1, H2O.2, H2O.3
CA.8: 2 residues within 4Å:- Chain A: N.1, E.6
1 PLIP interactions:1 interactions with chain A- Metal complexes: A:E.6
CA.14: 2 residues within 4Å:- Chain B: H.199, D.200
5 PLIP interactions:1 interactions with chain B, 4 Ligand-Water interactions- Metal complexes: B:H.199, H2O.3, H2O.4, H2O.4, H2O.4
CA.20: 4 residues within 4Å:- Chain A: Q.81, D.83
- Chain C: Q.81
- Ligands: CA.6
No protein-ligand interaction detected (PLIP)CA.21: 2 residues within 4Å:- Chain C: H.199, D.200
5 PLIP interactions:1 interactions with chain C, 4 Ligand-Water interactions- Metal complexes: C:H.199, H2O.5, H2O.5, H2O.6, H2O.6
CA.22: 2 residues within 4Å:- Chain C: N.1, E.6
1 PLIP interactions:1 interactions with chain C- Metal complexes: C:E.6
CA.28: 2 residues within 4Å:- Chain D: H.199, D.200
5 PLIP interactions:1 interactions with chain D, 4 Ligand-Water interactions- Metal complexes: D:H.199, H2O.7, H2O.8, H2O.8, H2O.8
- 2 x PMP: 4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOSPHATE(Non-covalent)
PMP.9: 15 residues within 4Å:- Chain A: Y.57
- Chain B: G.93, A.94, Y.95, Y.119, Y.122, N.174, N.178, D.206, V.208, Y.209, S.237, K.240, K.248
- Ligands: EPE.10
13 PLIP interactions:12 interactions with chain B, 1 interactions with chain A- Hydrophobic interactions: B:Y.209
- Hydrogen bonds: B:A.94, B:Y.95, B:N.178, B:S.237, B:K.240, B:K.240, A:Y.57
- Water bridges: B:K.248, B:K.248
- Salt bridges: B:K.240, B:K.248
- pi-Stacking: B:Y.119
PMP.23: 15 residues within 4Å:- Chain C: Y.57
- Chain D: G.93, A.94, Y.95, Y.119, Y.122, N.174, N.178, D.206, V.208, Y.209, S.237, K.240, K.248
- Ligands: EPE.24
14 PLIP interactions:13 interactions with chain D, 1 interactions with chain C- Hydrophobic interactions: D:Y.209
- Hydrogen bonds: D:A.94, D:Y.95, D:N.178, D:Y.209, D:S.237, D:K.240, D:K.240, C:Y.57
- Water bridges: D:K.248, D:K.248
- Salt bridges: D:K.240, D:K.248
- pi-Stacking: D:Y.119
- 2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Wlodawer, A. et al., Detect, correct, retract: How to manage incorrect structural models. FEBS J. (2018)
- Release Date
- 2017-11-29
- Peptides
- Kynurenine--oxoglutarate transaminase 3: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
AD
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.81 Å
- Oligo State
- homo-tetramer
- Ligands
- 2 x PLP: PYRIDOXAL-5'-PHOSPHATE(Covalent)
- 4 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)
- 2 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)
- 8 x GOL: GLYCEROL(Non-functional Binders)
- 8 x CA: CALCIUM ION(Non-covalent)
- 2 x PMP: 4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOSPHATE(Non-covalent)
- 2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Wlodawer, A. et al., Detect, correct, retract: How to manage incorrect structural models. FEBS J. (2018)
- Release Date
- 2017-11-29
- Peptides
- Kynurenine--oxoglutarate transaminase 3: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
AD
B