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

CRYSTAL STRUCTURE OF THE COFACTOR-DEVOID 1-H-3-HYDROXY-4- OXOQUINALDINE 2,4-DIOXYGENASE (HOD) CATALYTICALLY INACTIVE H251A VARIANT COMPLEXED WITH 2-METHYL-QUINOLIN-4(1H)-ONE UNDER NORMOXIC CONDITIONS

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

1 x VFH: 2-methyl-quinolin-4(1H)-one(Non-covalent)

VFH.1: 10 residues within 4Å: Chain A: W.48, H.50, S.113, H.114, L.155, W.172, M.189, W.197, S.200, I.204 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:W.48, A:L.155, A:W.172, A:W.172, A:W.197, A:I.204 Hydrogen bonds: A:W.48, A:W.48, A:S.113 Water bridges: A:H.114

2 x K: POTASSIUM ION(Non-covalent)

K.2: 5 residues within 4Å: Chain A: A.247, H.250, P.251, F.253 Ligands: GOL.4 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:A.247, A:H.250, A:F.253 K.3: 2 residues within 4Å: Chain A: D.177 Ligands: SRT.8 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.177, H2O.3

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 3 residues within 4Å: Chain A: A.247, F.253 Ligands: K.2 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.247 GOL.5: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) GOL.6: 5 residues within 4Å: Chain A: S.213, Q.216, A.219, F.246, H.250 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.213, A:S.213, A:H.250

2 x SRT: S,R MESO-TARTARIC ACID(Non-covalent)

SRT.7: 3 residues within 4Å: Chain A: K.179, R.182, H.183 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.179, A:H.183 Salt bridges: A:K.179, A:R.182, A:H.183 SRT.8: 3 residues within 4Å: Chain A: H.176, D.177 Ligands: K.3 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.177, A:D.177 Water bridges: A:H.176 Salt bridges: A:H.176

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bui, S. et al., Evolutionary adaptation from hydrolytic to oxygenolytic catalysis at the alpha / beta-hydrolase fold. Chem Sci (2023)

Release Date

2022-06-01

Peptides

1H-3-hydroxy-4-oxoquinaldine 2,4-dioxygenase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
AAA

1H-3-hydroxy-4-oxoquinaldine 2,4-dioxygenase

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