SMTL ID : 7l1j.1 (1 other biounit)

Mycobacterium tuberculosis dethiobiotin synthetase in complex with Tetrazole 1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

homo-dimer

Ligands

2 x XES: {(1R,2R)-2-[4-(1H-tetrazol-5-yl)benzene-1-carbonyl]cyclopentyl}propanedioic acid(Non-covalent)

XES.1: 22 residues within 4Å: Chain A: T.18, K.22, T.23, K.44, Q.47, T.48, D.54, D.56, P.78, M.79, A.80, P.81, G.116, A.117, G.118, V.122 Chain B: L.150, G.151, T.152, L.153, N.154 Ligands: SO4.3 18 PLIP interactions: 13 interactions with chain A, 5 interactions with chain B Hydrophobic interactions: A:P.78, A:A.80, A:V.122, B:L.150 Hydrogen bonds: A:T.18, A:T.18, A:T.23, A:Q.47, A:G.118, B:G.151, B:L.153, B:N.154 Water bridges: A:K.44, A:T.48, B:N.154 Salt bridges: A:K.22, A:K.44, A:K.44 XES.4: 22 residues within 4Å: Chain A: L.150, G.151, T.152, L.153, N.154 Chain B: T.18, K.22, K.44, Q.47, T.48, R.52, D.54, D.56, P.78, M.79, A.80, P.81, G.116, A.117, G.118, V.122 Ligands: SO4.6 14 PLIP interactions: 9 interactions with chain B, 5 interactions with chain A Hydrophobic interactions: B:A.80, B:V.122, A:L.150 Hydrogen bonds: B:Q.47, B:G.118, A:G.151, A:L.153, A:N.154 Water bridges: B:K.44, B:V.46, A:N.154 Salt bridges: B:K.22, B:K.44, B:K.44

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 7 residues within 4Å: Chain A: T.147, D.149, L.150, G.151, T.152, H.155 Ligands: GOL.5 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.149, A:G.151 Water bridges: A:T.16, A:T.152 GOL.5: 7 residues within 4Å: Chain B: T.147, D.149, L.150, G.151, T.152, H.155 Ligands: GOL.2 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:T.16, B:D.149, B:D.149, B:G.151, B:H.155 Water bridges: B:T.152

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

SO4.3: 7 residues within 4Å: Chain A: G.19, V.20, G.21, K.22, T.23, E.115 Ligands: XES.1 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:T.18, A:T.18, A:G.19, A:V.20, A:G.21, A:K.22, A:T.23, A:E.115 Water bridges: A:G.21, A:T.23, A:V.24 Salt bridges: A:K.22 SO4.6: 8 residues within 4Å: Chain B: T.18, G.19, V.20, G.21, K.22, T.23, E.115 Ligands: XES.4 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:G.19, B:V.20, B:G.21, B:K.22, B:T.23, B:T.23, B:E.115 Salt bridges: B:K.22

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schumann, N.C. et al., Inhibition of Mycobacterium tuberculosis Dethiobiotin Synthase ( Mt DTBS): Toward Next-Generation Antituberculosis Agents. Acs Chem.Biol. (2021)

Release Date

2021-10-27

Peptides

ATP-dependent dethiobiotin synthetase BioD: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

ATP-dependent dethiobiotin synthetase BioD

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