SMTL ID : 5ibg.1

Crystal structure Mycobacterium tuberculosis CYP121 in complex with inhibitor fragment 25b

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

monomer

Ligands

2 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: 5 residues within 4Å: Chain A: R.58, S.61, M.62, K.63, H.343 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:M.62, A:K.63 Water bridges: A:S.61 Salt bridges: A:R.58, A:H.343

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

HEM.3: 20 residues within 4Å: Chain A: M.62, M.86, H.146, F.230, G.234, S.237, T.238, F.241, F.280, L.284, R.286, A.337, F.338, G.339, Q.342, H.343, C.345, P.346, G.347 Ligands: 69S.4 9 PLIP interactions: 9 interactions with chain A, Hydrophobic interactions: A:F.230, A:F.230, A:F.241, A:F.338, A:P.346 Water bridges: A:M.86 Salt bridges: A:R.286, A:H.343 Metal complexes: A:C.345

2 x 69S: 3'-amino-5-[5-amino-3-(4-hydroxyphenyl)-1H-pyrazol-4-yl][1,1'-biphenyl]-2-ol(Non-covalent)

69S.4: 14 residues within 4Å: Chain A: T.77, V.78, A.167, F.168, W.182, V.228, T.229, G.232, A.233, S.237, F.280, Q.385, R.386 Ligands: HEM.3 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:V.78, A:A.167, A:F.168, A:F.168, A:W.182, A:T.229, A:A.233, A:F.280, A:F.280 Hydrogen bonds: A:A.167, A:V.228, A:G.232, A:A.233, A:S.237, A:Q.385 Water bridges: A:N.74, A:V.78 pi-Stacking: A:F.168 69S.5: 7 residues within 4Å: Chain A: T.77, V.78, P.79, A.178, K.179, W.182, D.183 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:P.79, A:K.179, A:K.179, A:W.182 Hydrogen bonds: A:K.179, A:D.183 Water bridges: A:L.76, A:I.175

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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