- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 0.92 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x NDQ: 2-[3-[(4-azanyl-2-methoxy-pyrimidin-5-yl)methyl]-4-methyl-1,3-thiazol-5-yl]ethyl phosphono hydrogen phosphate(Non-covalent)
- 2 x CA: CALCIUM ION(Non-covalent)
CA.2: 4 residues within 4Å:- Chain A: D.155, N.185, I.187
- Ligands: NDQ.1
3 PLIP interactions:2 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:D.155, A:I.187, H2O.6
CA.20: 4 residues within 4Å:- Chain B: D.155, N.185, I.187
- Ligands: NDQ.19
3 PLIP interactions:2 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: B:D.155, B:I.187, H2O.37
- 33 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.3: 11 residues within 4Å:- Chain A: F.375, L.376, G.377, T.388, L.389, W.390, S.393, K.394, N.403, Y.404, Y.430
Ligand excluded by PLIPEDO.4: 5 residues within 4Å:- Chain A: S.559, E.560, L.563, F.645, F.650
Ligand excluded by PLIPEDO.5: 10 residues within 4Å:- Chain A: W.41, R.42, L.45, K.46, H.47, P.49, A.296, A.299, G.300, K.303
Ligand excluded by PLIPEDO.6: 8 residues within 4Å:- Chain A: I.615, D.617, T.633
- Chain B: R.483, V.484, T.485, P.486, K.621
Ligand excluded by PLIPEDO.7: 12 residues within 4Å:- Chain A: L.435, D.462, S.463, P.475, V.476, V.479, R.483, R.492, I.517, E.612, A.613, G.614
Ligand excluded by PLIPEDO.8: 12 residues within 4Å:- Chain A: W.41, L.45, H.47, P.52, R.57, D.58, R.59, F.60, L.75, Y.80, G.108, E.110
Ligand excluded by PLIPEDO.9: 6 residues within 4Å:- Chain A: A.55, W.307, F.311, F.325, T.326, M.329
Ligand excluded by PLIPEDO.10: 0 residues within 4Å:- (No contacts)
Ligand excluded by PLIPEDO.11: 4 residues within 4Å:- Chain A: R.4, R.42, D.43, Q.293
Ligand excluded by PLIPEDO.12: 8 residues within 4Å:- Chain A: Y.620, V.623, G.624, L.625, N.626, G.627, A.628, I.629
Ligand excluded by PLIPEDO.13: 6 residues within 4Å:- Chain A: K.131, T.172, L.173, K.174, I.396, N.397
Ligand excluded by PLIPEDO.14: 11 residues within 4Å:- Chain A: H.26, H.100, I.189, H.261, G.262
- Chain B: L.382, S.385, F.434, D.469, H.473
- Ligands: NDQ.1
Ligand excluded by PLIPEDO.15: 5 residues within 4Å:- Chain A: Q.525, Q.526, E.527, K.544, V.565
Ligand excluded by PLIPEDO.16: 8 residues within 4Å:- Chain A: D.155, Y.182, D.184, V.193, F.197, T.198, D.199, T.201
Ligand excluded by PLIPEDO.17: 9 residues within 4Å:- Chain A: S.385, F.434, H.461, L.466, D.469, H.473, R.520
- Ligands: EDO.29, EDO.36
Ligand excluded by PLIPEDO.18: 6 residues within 4Å:- Chain A: Q.136, F.137, R.139, E.321, E.324, R.328
Ligand excluded by PLIPEDO.21: 11 residues within 4Å:- Chain B: F.375, L.376, G.377, T.388, L.389, W.390, S.393, K.394, N.403, Y.404, Y.430
Ligand excluded by PLIPEDO.22: 4 residues within 4Å:- Chain B: Y.505, E.508, R.509
- Ligands: EDO.24
Ligand excluded by PLIPEDO.23: 6 residues within 4Å:- Chain B: R.274, E.275, G.278, W.279, K.280
- Ligands: EDO.32
Ligand excluded by PLIPEDO.24: 5 residues within 4Å:- Chain B: Y.505, R.509, D.511, K.591
- Ligands: EDO.22
Ligand excluded by PLIPEDO.25: 6 residues within 4Å:- Chain B: K.21, A.22, K.88, N.89, F.90, Q.92
Ligand excluded by PLIPEDO.26: 6 residues within 4Å:- Chain B: E.6, G.278, W.279, K.280, Y.281, I.290
Ligand excluded by PLIPEDO.27: 13 residues within 4Å:- Chain B: L.435, D.462, S.463, P.475, V.476, V.479, R.483, R.492, I.517, E.612, A.613, G.614, I.615
Ligand excluded by PLIPEDO.28: 5 residues within 4Å:- Chain B: S.559, E.560, L.563, F.645, F.650
Ligand excluded by PLIPEDO.29: 11 residues within 4Å:- Chain A: L.382, F.434, D.469, H.473
- Chain B: H.26, I.189, H.261, G.262
- Ligands: EDO.17, NDQ.19, EDO.36
Ligand excluded by PLIPEDO.30: 6 residues within 4Å:- Chain B: A.55, W.307, F.311, F.325, T.326, M.329
Ligand excluded by PLIPEDO.31: 7 residues within 4Å:- Chain B: D.155, Y.182, V.193, F.197, T.198, D.199, T.201
Ligand excluded by PLIPEDO.32: 4 residues within 4Å:- Chain B: A.271, R.274, E.275
- Ligands: EDO.23
Ligand excluded by PLIPEDO.33: 6 residues within 4Å:- Chain B: K.131, T.172, L.173, K.174, I.396, N.397
Ligand excluded by PLIPEDO.34: 11 residues within 4Å:- Chain B: W.41, L.45, K.46, H.47, R.57, D.58, R.59, F.60, Y.80, G.108, E.110
Ligand excluded by PLIPEDO.35: 6 residues within 4Å:- Chain B: I.246, F.249, G.250, S.251, A.255, Q.276
Ligand excluded by PLIPEDO.36: 13 residues within 4Å:- Chain A: L.466, E.468, D.469, R.520
- Chain B: S.24, G.25, H.26, R.91, G.262, A.263, P.264
- Ligands: EDO.17, EDO.29
Ligand excluded by PLIPEDO.37: 5 residues within 4Å:- Chain A: F.635
- Chain B: A.449, L.450, K.452, N.487
Ligand excluded by PLIP- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Rabe von Pappenheim, F. et al., Structural basis for antibiotic action of the B 1 antivitamin 2'-methoxy-thiamine. Nat.Chem.Biol. (2020)
- Release Date
- 2020-07-08
- Peptides
- Transketolase 1: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 0.92 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x NDQ: 2-[3-[(4-azanyl-2-methoxy-pyrimidin-5-yl)methyl]-4-methyl-1,3-thiazol-5-yl]ethyl phosphono hydrogen phosphate(Non-covalent)
- 2 x CA: CALCIUM ION(Non-covalent)
- 33 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Rabe von Pappenheim, F. et al., Structural basis for antibiotic action of the B 1 antivitamin 2'-methoxy-thiamine. Nat.Chem.Biol. (2020)
- Release Date
- 2020-07-08
- Peptides
- Transketolase 1: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B