SMTL ID : 5ht0.2 (2 other biounits)

Crystal structure of an Antibiotic_NAT family aminoglycoside acetyltransferase HMB0038 from an uncultured soil metagenomic sample in complex with coenzyme A

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.75 Å

Oligo State

homo-dimer

Ligands

2 x COA: COENZYME A(Non-covalent)

COA.1: 15 residues within 4Å: Chain A: H.29, A.30, A.31, L.32, R.33, P.42, N.95, G.96, F.97, A.159, P.160, T.163, T.165 Chain B: Q.66, R.93 13 PLIP interactions: 9 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:A.30, A:A.30, A:L.32, A:R.33, A:F.97, B:Q.66 Salt bridges: A:R.33, A:R.33, A:R.33, B:R.93 pi-Stacking: A:F.97 pi-Cation interactions: B:R.93, B:R.93 COA.5: 16 residues within 4Å: Chain A: Q.66, R.93 Chain B: H.29, A.30, A.31, L.32, R.33, P.42, Y.62, D.94, N.95, G.96, F.97, A.159, P.160, T.163 14 PLIP interactions: 9 interactions with chain B, 5 interactions with chain A Hydrogen bonds: B:H.29, B:A.30, B:L.32, B:R.33, B:F.97, A:Q.66, A:Q.66 Water bridges: B:A.30 Salt bridges: B:R.33, B:R.33, A:R.93 pi-Stacking: B:F.97 pi-Cation interactions: A:R.93, A:R.93

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

SO4.2: 5 residues within 4Å: Chain A: A.112, T.129, A.130, D.131, H.132 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.131, A:H.132 SO4.3: 1 residues within 4Å: Chain A: R.8 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.8 SO4.4: 2 residues within 4Å: Chain A: R.78, W.196 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.78 SO4.6: 4 residues within 4Å: Chain B: A.112, A.130, D.131, H.132 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:D.131, B:D.131, B:H.132 SO4.7: 1 residues within 4Å: Chain B: R.8 3 PLIP interactions: 3 interactions with chain B Water bridges: B:R.8, B:R.8 Salt bridges: B:R.8 SO4.8: 2 residues within 4Å: Chain B: A.21, D.22 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:D.22

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Stogios, P.J. et al., Structural and molecular rationale for the diversification of resistance mediated by the Antibiotic_NAT family. Commun Biol (2022)

Release Date

2016-03-02

Peptides

Aminoglycoside acetyltransferase HMB0005: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Aminoglycoside acetyltransferase HMB0005

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