SMTL ID : 8uv9.1

M. tuberculosis CTP synthase bound to inhibitor GSK1570606A

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-tetramer

Ligands

4 x GLN: GLUTAMINE(Non-covalent)

GLN.1: 13 residues within 4Å: Chain A: G.365, G.366, F.367, C.393, L.394, Q.397, E.416, F.417, R.475, H.476, R.477, Y.478, H.524 10 PLIP interactions: 10 interactions with chain A, Hydrophobic interactions: A:F.367, A:L.394 Hydrogen bonds: A:G.366, A:L.394, A:Q.397, A:Q.397, A:E.416, A:R.477, A:Y.478, A:H.524 GLN.6: 13 residues within 4Å: Chain B: G.365, G.366, F.367, C.393, L.394, Q.397, E.416, F.417, R.475, H.476, R.477, Y.478, H.524 11 PLIP interactions: 1 Ligand-Ligand interactions, 10 interactions with chain B Hydrogen bonds: Q.6, B:G.366, B:L.394, B:Q.397, B:E.416, B:E.416, B:R.477, B:Y.478, B:H.524 Hydrophobic interactions: B:F.367, B:L.394 GLN.11: 13 residues within 4Å: Chain C: G.365, G.366, F.367, C.393, L.394, Q.397, E.416, F.417, R.475, H.476, R.477, Y.478, H.524 11 PLIP interactions: 10 interactions with chain C, 1 Ligand-Ligand interactions Hydrophobic interactions: C:F.367, C:L.394 Hydrogen bonds: C:G.366, C:L.394, C:Q.397, C:E.416, C:E.416, C:R.477, C:Y.478, C:H.524, Q.11 GLN.14: 13 residues within 4Å: Chain D: G.365, G.366, F.367, C.393, L.394, Q.397, E.416, F.417, R.475, H.476, R.477, Y.478, H.524 10 PLIP interactions: 10 interactions with chain D, Hydrophobic interactions: D:F.367, D:L.394 Hydrogen bonds: D:G.366, D:L.394, D:Q.397, D:Q.397, D:E.416, D:R.477, D:Y.478, D:H.524

4 x Q2N: 2-(4-fluorophenyl)-~{N}-(4-pyridin-2-yl-1,3-thiazol-2-yl)ethanamide(Non-covalent)

Q2N.2: 16 residues within 4Å: Chain A: L.22, G.23, L.26, T.27, H.81, R.223, T.250, P.251, D.252, A.253, I.256, I.259, L.318, E.322, R.325 Chain C: P.194 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:T.250, A:I.259, A:L.318 Hydrogen bonds: A:A.253 pi-Cation interactions: A:R.223 Q2N.7: 16 residues within 4Å: Chain B: L.22, G.23, L.26, T.27, H.81, R.223, T.250, P.251, D.252, A.253, I.256, I.259, L.318, E.322, R.325 Chain D: P.194 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:T.250, B:I.259, B:L.318 Hydrogen bonds: B:A.253 pi-Cation interactions: B:R.223 Q2N.13: 17 residues within 4Å: Chain A: P.194 Chain C: L.22, G.23, L.26, T.27, H.81, R.223, T.250, P.251, D.252, A.253, S.255, I.256, I.259, L.318, E.322, R.325 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:T.250, C:I.259, C:L.318 Hydrogen bonds: C:A.253 pi-Cation interactions: C:R.223 Q2N.16: 17 residues within 4Å: Chain B: P.194 Chain D: L.22, G.23, L.26, T.27, H.81, R.223, T.250, P.251, D.252, A.253, S.255, I.256, I.259, L.318, E.322, R.325 5 PLIP interactions: 5 interactions with chain D Hydrophobic interactions: D:T.250, D:I.259, D:L.318 Hydrogen bonds: D:A.253 pi-Cation interactions: D:R.223

4 x MG: MAGNESIUM ION(Non-functional Binders)

MG.3: 2 residues within 4Å: Chain C: K.199 Ligands: UTP.12 No protein-ligand interaction detected (PLIP) MG.5: 2 residues within 4Å: Chain A: K.199 Ligands: UTP.4 No protein-ligand interaction detected (PLIP) MG.8: 2 residues within 4Å: Chain D: K.199 Ligands: UTP.15 No protein-ligand interaction detected (PLIP) MG.10: 2 residues within 4Å: Chain B: K.199 Ligands: UTP.9 No protein-ligand interaction detected (PLIP)

4 x UTP: URIDINE 5'-TRIPHOSPHATE(Non-covalent)

UTP.4: 19 residues within 4Å: Chain A: L.198, K.199, T.200, K.201, Q.204, K.235, M.239 Chain C: S.20, K.46, D.48, P.49, Y.50, G.154, G.155, D.159, E.161 Chain D: T.118, Q.120 Ligands: MG.5 12 PLIP interactions: 4 interactions with chain C, 8 interactions with chain A Hydrogen bonds: C:S.20, C:K.46, C:G.155, C:E.161, A:T.200, A:T.200, A:T.200, A:K.201 Salt bridges: A:K.199, A:K.201, A:K.201, A:K.235 UTP.9: 19 residues within 4Å: Chain B: L.198, K.199, T.200, K.201, Q.204, K.235, M.239 Chain C: T.118, Q.120 Chain D: S.20, K.46, D.48, P.49, Y.50, G.154, G.155, D.159, E.161 Ligands: MG.10 12 PLIP interactions: 7 interactions with chain B, 5 interactions with chain D Hydrogen bonds: B:T.200, B:T.200, B:K.201, D:S.20, D:S.20, D:K.46, D:G.155, D:E.161 Salt bridges: B:K.199, B:K.201, B:K.201, B:K.235 UTP.12: 19 residues within 4Å: Chain A: S.20, K.46, D.48, P.49, Y.50, G.154, G.155, D.159, E.161 Chain B: T.118, Q.120 Chain C: L.198, K.199, T.200, K.201, Q.204, K.235, M.239 Ligands: MG.3 12 PLIP interactions: 7 interactions with chain C, 5 interactions with chain A Hydrogen bonds: C:T.200, C:T.200, C:K.201, A:S.20, A:S.20, A:K.46, A:G.155, A:E.161 Salt bridges: C:K.199, C:K.201, C:K.201, C:K.235 UTP.15: 19 residues within 4Å: Chain A: T.118, Q.120 Chain B: S.20, K.46, D.48, P.49, Y.50, G.154, G.155, D.159, E.161 Chain D: L.198, K.199, T.200, K.201, Q.204, K.235, M.239 Ligands: MG.8 12 PLIP interactions: 8 interactions with chain D, 4 interactions with chain B Hydrogen bonds: D:T.200, D:T.200, D:T.200, D:K.201, B:S.20, B:K.46, B:G.155, B:E.161 Salt bridges: D:K.199, D:K.201, D:K.201, D:K.235

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lynch, E.M. et al., M. tuberculosis CTP synthase filament bound to substrates. To Be Published

Release Date

2025-07-02

Peptides

CTP synthase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

CTP synthase

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