SMTL ID : 6ub9.2 (1 other biounit)

Crystal structure of tryptophan synthase from M. tuberculosis - AMINOACRYLATE- AND BRD6309-BOUND FORM

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.78 Å

Oligo State

hetero-2-2-mer

Ligands

7 x FMT: FORMIC ACID(Non-functional Binders)

FMT.1: 4 residues within 4Å: Chain A: A.183, S.184 Chain B: A.33, V.192 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:V.192 FMT.6: 2 residues within 4Å: Chain B: E.378, L.379 No protein-ligand interaction detected (PLIP) FMT.7: 3 residues within 4Å: Chain B: S.23, Y.29, F.297 No protein-ligand interaction detected (PLIP) FMT.11: 4 residues within 4Å: Chain B: L.165 Chain D: G.351, R.355, F.404 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:R.355 FMT.15: 3 residues within 4Å: Chain C: Q.144 Chain D: S.23, F.297 1 PLIP interactions: 1 interactions with chain D Water bridges: D:Y.29 FMT.17: 5 residues within 4Å: Chain D: R.265, L.266, R.335, D.337 Ligands: EDO.16 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:L.266, D:R.335, D:D.337 FMT.18: 2 residues within 4Å: Chain D: R.119, N.194 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:N.197

3 x MLA: MALONIC ACID(Non-covalent)

MLA.2: 8 residues within 4Å: Chain A: I.72, Y.181, G.217, L.218, G.219, V.238, G.239, S.240 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.239, A:S.240 MLA.8: 6 residues within 4Å: Chain B: C.137, A.138, G.141, L.142, D.143, G.167 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:C.137, B:G.141, B:L.142, B:D.143 Water bridges: B:A.138 MLA.10: 8 residues within 4Å: Chain C: Y.181, G.217, L.218, G.219, I.237, V.238, G.239, S.240 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:Y.181, C:G.219, C:I.237, C:G.239, C:S.240

2 x P1T: 2-[({3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY)METHYL]PYRIDIN-4-YL}METHYL)AMINO]ACRYLIC ACID(Non-covalent)

P1T.3: 24 residues within 4Å: Chain B: S.99, H.100, K.101, T.124, G.125, A.126, G.127, Q.128, H.129, L.180, T.204, C.244, V.245, G.246, G.247, G.248, S.249, N.250, G.317, L.318, A.362, E.364, S.390, G.391 21 PLIP interactions: 21 interactions with chain B Hydrophobic interactions: B:L.180, B:A.362, B:E.364 Hydrogen bonds: B:K.101, B:G.125, B:A.126, B:G.127, B:Q.128, B:H.129, B:G.246, B:G.247, B:G.248, B:S.249, B:N.250, B:S.390 Water bridges: B:G.248, B:N.250 Salt bridges: B:H.100, B:K.101, B:K.101 pi-Stacking: B:H.100 P1T.12: 23 residues within 4Å: Chain D: S.99, H.100, K.101, T.124, G.125, A.126, G.127, Q.128, H.129, L.180, T.204, C.244, V.245, G.246, G.247, G.248, S.249, N.250, G.317, L.318, E.364, S.390, G.391 21 PLIP interactions: 21 interactions with chain D Hydrophobic interactions: D:L.180 Hydrogen bonds: D:K.101, D:G.125, D:A.126, D:G.127, D:Q.128, D:H.129, D:G.246, D:G.247, D:G.248, D:S.249, D:N.250, D:S.390 Water bridges: D:T.204, D:T.204, D:G.248, D:A.251 Salt bridges: D:H.100, D:K.101, D:K.101 pi-Stacking: D:H.100

2 x H9V: (2R,3S,4R)-3-(4'-chloro-2',6'-difluoro[1,1'-biphenyl]-4-yl)-4-(fluoromethyl)azetidine-2-carbonitrile(Non-covalent)

H9V.4: 14 residues within 4Å: Chain A: D.64, G.66, Y.108, D.136 Chain B: V.30, L.34, I.184, N.185, F.188, Y.200, F.202, P.208, F.211, H.294 8 PLIP interactions: 6 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:I.184, B:F.188, B:Y.200, B:P.208 pi-Stacking: B:F.188, B:F.202 Hydrogen bonds: A:G.66, A:D.136 H9V.13: 16 residues within 4Å: Chain C: D.64, G.66, Y.108, D.136 Chain D: V.30, P.31, L.34, I.184, N.185, F.188, Y.200, F.202, P.208, F.211, F.293, H.294 7 PLIP interactions: 6 interactions with chain D, 1 interactions with chain C Hydrophobic interactions: D:I.184, D:F.188, D:Y.200, D:P.208 pi-Stacking: D:F.188, D:F.202 Hydrogen bonds: C:G.66

2 x CS: CESIUM ION(Non-covalent)

CS.5: 6 residues within 4Å: Chain B: V.245, G.246, A.282, T.284, Y.320, G.322 No protein-ligand interaction detected (PLIP) CS.14: 6 residues within 4Å: Chain D: V.245, G.246, A.282, T.284, Y.320, G.322 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:T.284

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.9: 5 residues within 4Å: Chain B: P.262, G.263, R.265, G.334, R.335 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:G.334

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.16: 4 residues within 4Å: Chain D: P.262, R.265, G.334 Ligands: FMT.17 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:G.334

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chang, C. et al., Crystal structure of tryptophan synthase from M. tuberculosis - AMINOACRYLATE- AND BRD6309-BOUND FORM. To be Published

Release Date

2019-09-25

Peptides

Tryptophan synthase alpha chain: AC
Tryptophan synthase beta chain: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

C
G

B
F

D
H

Tryptophan synthase alpha chain

Tryptophan synthase beta chain

Related Entries With Identical Sequence