SMTL ID : 7omd.1 (1 other biounit)

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

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

1 x VK8: 6-(4-hydroxyphenyl)-2-[(4-hydroxyphenyl)methyl]-8-(phenylmethyl)-[1,2,4]triazolo[4,3-a]pyrazin-3-one(Non-covalent)

VK8.1: 15 residues within 4Å: Chain A: D.120, D.158, E.161, A.162, I.163, I.166, F.180, F.181, V.185, K.189, P.220, F.261, F.262, H.285 Ligands: DMS.2 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:D.158, A:A.162, A:I.163, A:I.166, A:F.180, A:F.181, A:V.185, A:P.220, A:F.261, A:F.262, A:F.262, A:F.262 Hydrogen bonds: A:D.120, A:D.158 Water bridges: A:H.285 pi-Stacking: A:F.262

1 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.2: 4 residues within 4Å: Chain A: W.121, P.220, F.262 Ligands: VK8.1 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:D.120 pi-Cation interactions: A:F.262

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.3: 6 residues within 4Å: Chain A: D.148, V.149, E.151, D.154, R.238, N.241 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.148, A:E.151, A:D.154 Water bridges: A:A.242

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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