SMTL ID : 9em4.1

OPR3 variant Y364P in its dimeric form obtained with ammonium sulfate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.01 Å

Oligo State

homo-dimer

Ligands

2 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.1: 21 residues within 4Å: Chain A: A.36, P.37, M.38, T.39, G.70, Q.112, W.114, H.191, H.194, R.243, S.325, G.326, G.327, Y.347, G.348, R.349, F.375, Y.376 Chain B: G.294, Q.295, E.297 21 PLIP interactions: 19 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:M.38, A:R.349, A:F.375, A:Y.376 Hydrogen bonds: A:P.37, A:T.39, A:G.70, A:Q.112, A:Q.112, A:H.194, A:R.243, A:R.243, A:S.325, A:G.326, A:G.327, A:G.348, A:R.349, B:Q.295, B:E.297 Water bridges: A:L.350 Salt bridges: A:R.349 FMN.2: 21 residues within 4Å: Chain A: G.294, Q.295, E.297 Chain B: A.36, P.37, M.38, T.39, G.70, Q.112, H.191, H.194, R.243, T.286, S.325, G.326, G.327, Y.347, G.348, R.349, F.375, Y.376 21 PLIP interactions: 20 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:M.38, B:R.349, B:F.375, B:Y.376 Hydrogen bonds: B:P.37, B:T.39, B:T.39, B:G.70, B:Q.112, B:Q.112, B:R.243, B:R.243, B:S.325, B:G.326, B:G.327, B:Y.328, B:G.348, B:R.349, A:Q.295 Water bridges: B:L.350 Salt bridges: B:R.349

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

SO4.3: 3 residues within 4Å: Chain A: R.300 Chain B: R.349, R.372 5 PLIP interactions: 1 interactions with chain A, 4 interactions with chain B Salt bridges: A:R.300, B:R.349, B:R.372 Water bridges: B:P.370, B:R.372

1 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.4: 7 residues within 4Å: Chain B: Y.22, R.315, N.316, Y.318, Q.319, G.320, D.343 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:D.343 Water bridges: B:R.315 Salt bridges: B:R.315

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kerschbaumer, B. et al., Analysis of homodimer formation in 12-oxophytodienoate reductase 3 in solutio and crystallo challenges the physiological role of the dimer. Sci Rep (2024)

Release Date

2024-08-14

Peptides

12-oxophytodienoate reductase 3: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

12-oxophytodienoate reductase 3

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