SMTL ID : 6t0f.2 (3 other biounits)

Crystal structure of CYP124 in complex with cholest-4-en-3-one

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

monomer

Ligands

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

HEM.1: 27 residues within 4Å: Chain A: M.117, I.118, H.125, R.129, I.183, L.270, L.271, A.274, G.275, T.278, T.279, A.282, P.321, V.322, M.325, R.327, Y.350, G.377, F.378, G.379, A.383, H.384, C.386, L.387, G.388, A.392 Ligands: K2B.2 25 PLIP interactions: 25 interactions with chain A, Hydrophobic interactions: A:I.118, A:I.183, A:L.270, A:A.274, A:A.282, A:P.321, A:V.322, A:V.322, A:Y.350, A:F.378, A:F.378, A:L.387, A:A.392 Water bridges: A:S.97, A:R.327, A:R.327, A:Y.350, A:G.380, A:G.381, A:H.384 Salt bridges: A:H.125, A:R.129, A:R.327, A:H.384 Metal complexes: A:C.386

1 x K2B: (8ALPHA,9BETA)-CHOLEST-4-EN-3-ONE(Non-covalent)

K2B.2: 20 residues within 4Å: Chain A: F.70, N.100, T.102, N.104, Q.106, L.110, F.114, I.118, I.204, L.205, F.216, F.219, L.270, V.273, A.274, V.322, M.325, F.423, I.424 Ligands: HEM.1 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:F.70, A:T.102, A:Q.106, A:L.110, A:F.114, A:F.114, A:I.118, A:I.204, A:L.205, A:F.219, A:V.273, A:A.274, A:V.322, A:F.423, A:I.424

1 x MPO: 3[N-MORPHOLINO]PROPANE SULFONIC ACID(Non-covalent)

MPO.3: 6 residues within 4Å: Chain A: G.188, P.190, A.232, L.233, D.236, R.237 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:P.190 Water bridges: A:L.233, A:D.236, A:R.237 Salt bridges: A:D.193, A:D.236, A:R.237, A:H.242

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 6 residues within 4Å: Chain A: E.32, L.33, G.34, S.35, W.62, P.63 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.32, A:G.34 GOL.5: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) GOL.6: 1 residues within 4Å: Chain A: H.7 No protein-ligand interaction detected (PLIP)

2 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.7: 11 residues within 4Å: Chain A: D.42, D.43, H.285, L.288, R.292, P.416, R.418, H.425, G.426, I.427 Ligands: PGE.8 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:D.43, A:R.418 Water bridges: A:D.42, A:D.42, A:D.42, A:D.43, A:D.44, A:R.292, A:R.292, A:R.292, A:H.425, A:G.426, A:G.426 PGE.8: 7 residues within 4Å: Chain A: R.17, P.23, D.43, D.44, D.47, R.292 Ligands: PGE.7 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:R.17, A:R.17, A:D.44, A:D.47, A:R.292, A:R.292 Water bridges: A:D.42, A:D.42, A:D.43, A:D.43, A:D.43, A:D.44, A:D.44, A:D.47, A:E.415

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Varaksa, T. et al., Metabolic Fate of Human Immunoactive Sterols in Mycobacterium tuberculosis. J.Mol.Biol. (2021)

Release Date

2020-10-14

Peptides

Methyl-branched lipid omega-hydroxylase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Methyl-branched lipid omega-hydroxylase

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