SMTL ID : 5ibh.1

Crystal structure Mycobacterium tuberculosis CYP121 in complex with inhibitor fragment 26h

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.02 Å

Oligo State

monomer

Ligands

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

SO4.1: 5 residues within 4Å: Chain A: P.330, N.331, P.332, T.333, S.334 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.333, A:T.333, A:S.334 Water bridges: A:T.333, A:T.333 SO4.2: 2 residues within 4Å: Chain A: S.12, R.14 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.12, A:S.12 Water bridges: A:A.13, A:R.17 Salt bridges: A:R.14 SO4.3: 5 residues within 4Å: Chain A: R.58, S.61, M.62, K.63, H.343 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.58, A:M.62, A:K.63 Water bridges: A:R.58 Salt bridges: A:R.58, A:H.343

1 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)

HEM.4: 21 residues within 4Å: Chain A: M.62, M.86, H.146, F.230, A.233, G.234, S.237, T.238, F.241, F.280, L.284, R.286, L.309, A.337, F.338, G.339, H.343, C.345, P.346, G.347 Ligands: 69R.6 17 PLIP interactions: 16 interactions with chain A, 1 Ligand-Water interactions, Hydrophobic interactions: A:F.230, A:F.230, A:A.233, A:F.241, A:F.280, A:F.280, A:L.284, A:L.309, A:F.338, A:P.346 Water bridges: A:M.86, A:M.86 Salt bridges: A:R.286, A:H.343 pi-Stacking: A:F.338 Metal complexes: A:C.345, H2O.3

2 x 69R: 4,4'-(5-{[(1H-imidazol-4-yl)methyl]amino}-1H-pyrazole-3,4-diyl)diphenol(Non-covalent)

69R.5: 10 residues within 4Å: Chain A: E.64, A.67, A.68, G.69, A.70, P.71, L.287, T.289, K.301, G.302 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:E.64, A:A.67, A:A.70, A:L.287 Hydrogen bonds: A:T.289 Water bridges: A:A.68 69R.6: 16 residues within 4Å: Chain A: N.74, A.75, L.76, T.77, V.78, V.82, N.85, A.167, F.168, W.182, V.228, T.229, G.232, A.233, Q.385 Ligands: HEM.4 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:V.78, A:A.167, A:F.168, A:F.168, A:W.182, A:A.233 Hydrogen bonds: A:T.77, A:T.77, A:N.85, A:Q.385 Water bridges: A:R.72, A:D.185, A:D.185 pi-Stacking: A:F.168

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kavanagh, M.E. et al., Fragment-Based Approaches to the Development of Mycobacterium tuberculosis CYP121 Inhibitors. J.Med.Chem. (2016)

Release Date

2016-04-06

Peptides

Cytochrome P450 121 CYP121: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cytochrome P450 121 CYP121

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