SMTL ID : 6rq9.1

CYP121 in complex with O-methyl dicyclotyrosine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

monomer

Ligands

1 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.1: 7 residues within 4Å: Chain A: D.91, A.92, G.93, A.214, Y.215, H.217, V.218 3 PLIP interactions: 3 interactions with chain A Water bridges: A:H.217, A:V.218, A:S.219

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

HEM.2: 22 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, Q.342, H.343, C.345, P.346, G.347 Ligands: KEQ.3 16 PLIP interactions: 16 interactions with chain A, 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 Hydrogen bonds: A:Q.342, A:H.343 Salt bridges: A:R.286, A:H.343 pi-Stacking: A:F.338 Metal complexes: A:C.345

1 x KEQ: (3~{S},6~{S})-3-[(4-hydroxyphenyl)methyl]-6-[(4-methoxyphenyl)methyl]piperazine-2,5-dione(Non-covalent)

KEQ.3: 11 residues within 4Å: Chain A: M.62, V.78, V.82, V.83, N.85, A.167, F.168, T.229, S.237, R.386 Ligands: HEM.2 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:V.78, A:T.229 Hydrogen bonds: A:N.85, A:R.386 Water bridges: A:T.77, A:T.77, A:N.85, A:M.86, A:R.386 pi-Stacking: A:F.168

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

SO4.4: 6 residues within 4Å: Chain A: R.58, S.61, M.62, K.63, N.84, H.343 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:M.62, A:K.63, A:N.84 Water bridges: A:R.58, A:R.58, A:Q.342 Salt bridges: A:R.58, A:H.343 SO4.5: 3 residues within 4Å: Chain A: S.12, R.14, R.17 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.12, A:S.12 Water bridges: A:A.13 Salt bridges: A:R.17 SO4.6: 4 residues within 4Å: Chain A: R.17, P.19, D.20, A.21 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.20, A:A.21 Salt bridges: A:R.17 SO4.7: 1 residues within 4Å: Chain A: S.219 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.219 SO4.8: 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

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rajput, S. et al., Structure-Activity Relationships of cyclo (l-Tyrosyl-l-tyrosine) Derivatives Binding to Mycobacterium tuberculosis CYP121: Iodinated Analogues Promote Shift to High-Spin Adduct. J.Med.Chem. (2019)

Release Date

2020-04-22

Peptides

Mycocyclosin synthase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Mycocyclosin synthase

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