SMTL ID : 8qv7.1

Crystal structure of human TDO with alpha-methyl-L-tryptophan

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.66 Å

Oligo State

homo-tetramer

Ligands

4 x ZIQ: alpha-methyl-L-tryptophan(Non-covalent)

ZIQ.1: 12 residues within 4Å: Chain A: V.64, R.65, E.67, W.170, R.173, T.174, P.175, I.257, R.265, F.266, P.269, H.353 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:W.170, A:P.175, A:I.257, A:F.266, A:P.269, A:H.353 Hydrogen bonds: A:E.67, A:E.67, A:W.170 Salt bridges: A:R.65, A:R.173 ZIQ.3: 12 residues within 4Å: Chain B: V.64, R.65, E.67, W.170, R.173, T.174, P.175, I.257, R.265, F.266, P.269, H.353 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:W.170, B:P.175, B:I.257, B:F.266, B:P.269, B:H.353 Hydrogen bonds: B:E.67, B:W.170 Salt bridges: B:R.65, B:R.173 ZIQ.5: 11 residues within 4Å: Chain C: V.64, R.65, E.67, W.170, R.173, T.174, P.175, I.257, R.265, F.266, H.353 9 PLIP interactions: 9 interactions with chain C Hydrophobic interactions: C:W.170, C:P.175, C:I.257, C:F.266 Hydrogen bonds: C:E.67, C:E.67, C:W.170 Salt bridges: C:R.65, C:R.173 ZIQ.6: 11 residues within 4Å: Chain D: V.64, R.65, E.67, W.170, R.173, T.174, P.175, I.257, R.265, F.266, P.269 9 PLIP interactions: 9 interactions with chain D Hydrophobic interactions: D:W.170, D:P.175, D:I.257, D:F.266, D:P.269 Hydrogen bonds: D:E.67, D:W.170 Salt bridges: D:R.65, D:R.173

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 8 residues within 4Å: Chain A: V.88, K.285, Y.288, N.289 Chain C: V.88, K.285, Y.288, N.289 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.289 GOL.4: 8 residues within 4Å: Chain B: V.88, K.285, Y.288, N.289 Chain D: V.88, K.285, Y.288, N.289 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain D Hydrogen bonds: B:N.289, D:N.289, D:N.289

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lotz-Jenne, C. et al., Discovery and binding mode of a small molecule inhibitor of the apo form of human TDO2. Biorxiv (2024)

Release Date

2024-01-17

Peptides

Tryptophan 2,3-dioxygenase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Tryptophan 2,3-dioxygenase