SMTL ID : 6q2m.2 (2 other biounits)

Crystal structure of Photinus pyralis Luciferase Pps6 mutant in complex with DLSA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.75 Å

Oligo State

monomer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: F.373, E.375, R.398, G.399 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.375 Salt bridges: A:R.398 SO4.2: 3 residues within 4Å: Chain A: D.24, G.25, R.193 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.25, A:G.25 Salt bridges: A:R.193 SO4.3: 2 residues within 4Å: Chain A: Y.184 Ligands: EDO.8 No protein-ligand interaction detected (PLIP)

7 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 3 residues within 4Å: Chain A: P.18, F.19, P.21 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:P.18 EDO.5: 3 residues within 4Å: Chain A: E.60, Q.92, K.160 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.60, A:K.160 EDO.6: 3 residues within 4Å: Chain A: T.79, E.189, S.190 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.189 EDO.7: 6 residues within 4Å: Chain A: R.223, F.232, G.233, N.234, I.356 Ligands: SLU.11 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.223, A:R.223, A:F.232, A:N.234 Water bridges: A:T.256 EDO.8: 2 residues within 4Å: Chain A: Y.184 Ligands: SO4.3 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.36, A:K.36 EDO.9: 5 residues within 4Å: Chain A: A.214, S.404, G.405, Y.406, V.407 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.406 EDO.10: 2 residues within 4Å: Chain A: N.408, N.409 3 PLIP interactions: 3 interactions with chain A Water bridges: A:N.408, A:N.409, A:N.409

1 x SLU: 5'-O-[N-(DEHYDROLUCIFERYL)-SULFAMOYL] ADENOSINE(Non-covalent)

SLU.11: 23 residues within 4Å: Chain A: H.250, G.251, F.252, T.256, A.318, S.319, G.320, G.321, A.322, P.323, Q.343, G.344, Y.345, G.346, L.347, T.348, T.351, S.352, A.353, V.367, D.427, R.442 Ligands: EDO.7 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:F.252, A:T.256, A:A.353 Hydrogen bonds: A:S.319, A:G.321, A:Q.343, A:G.344, A:G.346, A:T.348, A:T.348, A:A.353, A:D.427, A:R.442 Water bridges: A:T.348, A:T.348 Salt bridges: A:H.250 pi-Stacking: A:F.252, A:Y.345

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Branchini, B.R. et al., Mutagenesis and Structural Studies Reveal the Basis for the Activity and Stability Properties That Distinguish thePhotinusLuciferasesscintillansandpyralis. Biochemistry (2019)

Release Date

2019-10-16

Peptides

Luciferin 4-monooxygenase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Luciferin 4-monooxygenase

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