SMTL ID : 7omr.1

Crystal structure of coelenteramide-bound Renilla reniformis luciferase RLuc8-D162A variant

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

1 x CEI: N-[3-BENZYL-5-(4-HYDROXYPHENYL)PYRAZIN-2-YL]-2-(4-HYDROXYPHENYL)ACETAMIDE(Non-covalent)

CEI.1: 14 residues within 4Å: Chain A: S.145, V.146, V.147, D.148, I.150, W.156, D.158, I.159, A.162, I.223, P.224, F.262, A.265, I.266 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:V.146, A:V.146, A:I.150, A:I.150, A:W.156, A:W.156, A:I.159, A:I.159, A:A.162, A:P.224, A:A.265, A:I.266 Hydrogen bonds: A:V.147, A:D.148, A:D.148 pi-Stacking: A:F.262

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 3 residues within 4Å: Chain A: D.31, G.88, N.89 2 PLIP interactions: 2 interactions with chain A Water bridges: A:D.31, A:D.31 GOL.3: 5 residues within 4Å: Chain A: R.11, K.12, R.13, M.14, Q.19 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.13, A:Q.19, A:Q.19 GOL.4: 5 residues within 4Å: Chain A: N.89, S.91, R.93, L.95, D.96 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.89, A:S.91, A:S.91, A:R.93 Water bridges: A:D.96 GOL.5: 4 residues within 4Å: Chain A: E.277, S.301, F.302, R.305 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.305 Water bridges: A:S.301, A:S.301

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schenkmayerova, A. et al., Catalytic mechanism for Renilla-type luciferases. Nat Catal (2023)

Release Date

2022-06-01

Peptides

Coelenterazine h 2-monooxygenase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Coelenterazine h 2-monooxygenase

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