SMTL ID : 6k4d.1

Ancestral luciferase AncLamp in complex with ATP and D-luciferin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

1 x D4F: [[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] (4S)-2-(6-oxidanyl-1,3-benzothiazol-2-yl)-4,5-dihydro-1,3-thiazole-4-carboxylate(Non-covalent)

D4F.1: 25 residues within 4Å: Chain A: H.244, F.246, T.250, L.285, A.312, S.313, G.314, G.315, A.316, P.317, Q.337, G.338, Y.339, G.340, L.341, T.342, T.345, S.346, A.347, T.361, D.421, I.433, R.436, K.528 Ligands: ESJ.2 30 PLIP interactions: 30 interactions with chain A Hydrophobic interactions: A:F.246, A:T.250, A:A.347 Hydrogen bonds: A:G.315, A:Q.337, A:G.340, A:T.342, A:T.342, A:A.347, A:T.361, A:D.421, A:R.436, A:K.528 Water bridges: A:S.197, A:L.318, A:R.336, A:R.336, A:Q.337, A:T.342, A:T.342, A:S.419, A:R.436, A:T.526 Salt bridges: A:H.244, A:H.244, A:K.528, A:K.528 pi-Stacking: A:F.246, A:Y.339, A:Y.339

1 x ESJ: (4S)-2-(6-hydroxy-1,3-benzothiazol-2-yl)-4,5-dihydro-1,3-thiazole-4-carboxylic acid(Non-covalent)

ESJ.2: 17 residues within 4Å: Chain A: R.217, H.244, F.246, T.250, L.285, S.313, G.314, G.315, R.336, G.338, G.340, L.341, T.342, S.346, A.347, I.350 Ligands: D4F.1 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:F.246 Water bridges: A:R.217, A:R.217, A:N.228, A:R.336, A:R.336, A:R.336 Salt bridges: A:R.217, A:R.336 pi-Stacking: A:F.246

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Oba, Y. et al., Resurrecting the ancient glow of the fireflies. Sci Adv (2020)

Release Date

2020-05-27

Peptides

Ancestral luciferase AncLamp: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Ancestral luciferase AncLamp

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