SMTL ID : 6q2m.3 (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

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

SO4.1: 3 residues within 4Å: Chain A: N.55, R.266 Ligands: EDO.15 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.55 Salt bridges: A:R.266 SO4.2: 4 residues within 4Å: Chain A: K.377, R.398, D.420, W.422 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:K.377, A:R.398

2 x DYD: (2S,5S)-hexane-2,5-diol(Non-covalent)

DYD.3: 3 residues within 4Å: Chain A: D.49, E.88 Ligands: EDO.11 No protein-ligand interaction detected (PLIP) DYD.4: 2 residues within 4Å: Chain A: H.250, V.293 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:V.293

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

EDO.5: 3 residues within 4Å: Chain A: D.24, G.25, R.193 Ligand excluded by PLIP EDO.6: 1 residues within 4Å: Chain A: H.51 Ligand excluded by PLIP EDO.7: 3 residues within 4Å: Chain A: N.78, T.79, N.80 Ligand excluded by PLIP EDO.8: 3 residues within 4Å: Chain A: S.175, H.176, L.177 Ligand excluded by PLIP EDO.9: 2 residues within 4Å: Chain A: N.182, Y.184 Ligand excluded by PLIP EDO.10: 2 residues within 4Å: Chain A: R.82, V.407 Ligand excluded by PLIP EDO.11: 3 residues within 4Å: Chain A: K.135, Y.163 Ligands: DYD.3 Ligand excluded by PLIP EDO.12: 3 residues within 4Å: Chain A: N.115, E.116, R.117 Ligand excluded by PLIP EDO.13: 3 residues within 4Å: Chain A: H.51, Y.271, R.272 Ligand excluded by PLIP EDO.14: 3 residues within 4Å: Chain A: N.390, R.392, Y.430 Ligand excluded by PLIP EDO.15: 3 residues within 4Å: Chain A: D.284, Y.285 Ligands: SO4.1 Ligand excluded by PLIP EDO.16: 1 residues within 4Å: Chain A: R.228 Ligand excluded by PLIP EDO.17: 4 residues within 4Å: Chain A: R.223, N.234, F.260, E.316 Ligand excluded by PLIP EDO.18: 3 residues within 4Å: Chain A: R.37, Y.38, V.41 Ligand excluded by PLIP EDO.19: 2 residues within 4Å: Chain A: K.33, K.36 Ligand excluded by PLIP EDO.20: 4 residues within 4Å: Chain A: Q.92, M.157, S.159, Y.170 Ligand excluded by PLIP

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

SLU.21: 17 residues within 4Å: Chain A: H.250, F.252, T.256, S.319, G.320, G.321, A.322, P.323, Q.343, G.344, Y.345, G.346, L.347, T.348, S.352, A.353, D.427 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: 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:T.348, A:A.353, A:D.427 Salt bridges: A:H.250 pi-Stacking: A:Y.345, 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
C

Luciferin 4-monooxygenase

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