SMTL ID : 7zg5.1

The crystal structure of Salmonella TacAT3-DNA complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

hetero-2-2-mer

Ligands

2 x COA: COENZYME A(Non-covalent)

COA.1: 18 residues within 4Å: Chain A: C.23, L.28, L.96, A.97, V.98, M.102, Q.103, G.104, Q.105, G.106, L.107, G.108, A.109, D.134, A.135, K.136, V.140, W.143 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:L.28, A:V.98 Hydrogen bonds: A:V.98, A:Q.103, A:G.104, A:Q.105, A:G.106, A:L.107, A:G.108, A:A.109 Water bridges: A:G.24, A:Q.103, A:G.104 COA.4: 17 residues within 4Å: Chain B: L.28, R.95, L.96, A.97, V.98, Q.103, G.104, Q.105, G.106, L.107, G.108, A.109, D.134, K.136, Q.139, V.140, W.143 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:L.28, B:A.97, B:V.98 Hydrogen bonds: B:L.96, B:V.98, B:Q.103, B:G.104, B:G.106, B:L.107, B:G.108, B:A.109, B:K.136

3 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.2: 9 residues within 4Å: Chain A: I.120, A.123, L.124, G.128, F.163, K.164, Y.167 Chain B: L.124 Ligands: MPD.5 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:I.120, A:L.124, A:F.163, A:K.164, A:Y.167, B:L.124 Hydrogen bonds: A:G.128 MPD.5: 7 residues within 4Å: Chain A: L.124 Chain B: A.123, G.128, F.163, K.164, Y.167 Ligands: MPD.2 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:K.164, B:Y.167, A:L.124 MPD.7: 2 residues within 4Å: Chain C: Q.33, T.34 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:Q.33 Hydrogen bonds: C:Q.33

2 x BA: BARIUM ION(Non-covalent)

BA.3: 2 residues within 4Å: Chain A: N.20, D.99 No protein-ligand interaction detected (PLIP) BA.6: 2 residues within 4Å: Chain B: N.20, D.99 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:N.20, B:D.99

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.8: 3 residues within 4Å: Chain B: Q.125 Chain C: D.73, N.74 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:D.73, C:N.74 GOL.9: 3 residues within 4Å: Chain A: Q.125 Chain D: D.73, N.74 4 PLIP interactions: 3 interactions with chain D, 1 interactions with chain A Hydrogen bonds: D:D.73, D:D.73, A:Q.125 Water bridges: D:D.73

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Grabe, G.J. et al., Molecular stripping underpins derepression of a toxin-antitoxin system. Nat.Struct.Mol.Biol. (2024)

Release Date

2023-10-11

Peptides

Acetyltransferase: AB
DUF1778 domain-containing protein: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Acetyltransferase

DUF1778 domain-containing protein

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