SMTL ID : 9c1c.2 (1 other biounit)

Mycobacterium tuberculosis PKS13 acyltransferase serine converted to beta-lactam form by CEC215 via SuFEx reaction

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.22 Å

Oligo State

homo-dimer

Ligands

8 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 2 residues within 4Å: Chain A: N.418, R.445 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.418 Salt bridges: A:R.445 SO4.2: 5 residues within 4Å: Chain A: Q.46, E.47, V.48, T.49, R.161 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.47, A:T.49 Salt bridges: A:R.161 SO4.3: 1 residues within 4Å: Chain A: E.311 No protein-ligand interaction detected (PLIP) SO4.4: 3 residues within 4Å: Chain A: Y.182, E.198, T.199 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.198 Water bridges: A:T.199 SO4.5: 1 residues within 4Å: Chain A: R.445 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.445 SO4.6: 4 residues within 4Å: Chain A: R.95, R.96, N.97, K.491 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.97 Water bridges: A:K.491 Salt bridges: A:K.491 SO4.7: 4 residues within 4Å: Chain A: E.213, R.216, Y.237, F.238 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.216 SO4.19: 3 residues within 4Å: Chain A: Q.447 Chain B: D.6, E.7 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:E.7, A:Q.447

6 x CL: CHLORIDE ION(Non-functional Binders)

CL.8: 2 residues within 4Å: Chain A: R.284, V.295 Ligand excluded by PLIP CL.9: 3 residues within 4Å: Chain A: T.398, H.399, R.402 Ligand excluded by PLIP CL.10: 2 residues within 4Å: Chain A: T.471, L.472 Ligand excluded by PLIP CL.11: 2 residues within 4Å: Chain A: N.97, H.98 Ligand excluded by PLIP CL.12: 2 residues within 4Å: Chain A: K.124, Q.125 Ligand excluded by PLIP CL.13: 2 residues within 4Å: Chain A: R.152, K.153 Ligand excluded by PLIP

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.14: 3 residues within 4Å: Chain A: R.392, H.393, S.394 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:R.392, A:R.392, A:S.394, A:S.394 Water bridges: A:E.294, A:S.339, A:S.394 PEG.15: 5 residues within 4Å: Chain A: S.85, L.86, D.109, H.110, D.111 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:L.86, A:H.110, A:H.110, A:D.111, A:D.111, A:D.111 Water bridges: A:E.87

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

EDO.16: 5 residues within 4Å: Chain A: H.98, Y.461, L.467, D.468, I.469 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:I.469 Water bridges: A:R.102, A:L.467 EDO.18: 4 residues within 4Å: Chain A: S.84, S.85, S.88, Q.480 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.85, A:S.88 Water bridges: A:S.84, A:S.84, A:S.85, A:S.85

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.17: 4 residues within 4Å: Chain A: H.151, R.152, K.153, R.445 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.151, A:R.152, A:R.152, A:K.153

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tang, S. et al., Mycobacterium tuberculosis PKS13 acyltransferase serine converted to beta-lactam form by CEC215 via SuFEx reaction. To Be Published

Release Date

2025-05-21

Peptides

Polyketide synthase Pks13: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
D

Polyketide synthase Pks13

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