SMTL ID : 6l0j.1 (1 other biounit)

Crystal structure of Dihydroorotase in complex with malate at pH7.5 from Saccharomyces cerevisiae

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.93 Å

Oligo State

homo-dimer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: H.14, H.16, K.98, D.258 Ligands: ZN.2, LMR.3 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.14, A:H.16, A:D.258 ZN.2: 5 residues within 4Å: Chain A: K.98, H.137, H.180 Ligands: ZN.1, LMR.3 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:H.137, A:H.180 ZN.4: 6 residues within 4Å: Chain B: H.14, H.16, K.98, D.258 Ligands: ZN.5, LMR.6 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.14, B:H.16, B:D.258 ZN.5: 5 residues within 4Å: Chain B: K.98, H.137, H.180 Ligands: ZN.4, LMR.6 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:H.137, B:H.180

2 x LMR: (2S)-2-hydroxybutanedioic acid(Non-covalent)

LMR.3: 16 residues within 4Å: Chain A: H.14, H.16, R.18, N.43, K.98, T.105, T.106, H.137, H.180, K.230, D.258, A.260, H.262, A.275 Ligands: ZN.1, ZN.2 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:A.260 Hydrogen bonds: A:N.43, A:T.105, A:T.105, A:T.105, A:T.106, A:A.275 Water bridges: A:K.230, A:K.230 Salt bridges: A:H.16, A:H.16, A:R.18, A:H.137, A:H.180, A:H.262 LMR.6: 16 residues within 4Å: Chain B: H.14, H.16, R.18, N.43, K.98, T.105, T.106, H.137, H.180, K.230, D.258, A.260, H.262, A.275 Ligands: ZN.4, ZN.5 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:A.260 Hydrogen bonds: B:N.43, B:N.43, B:T.105, B:T.106 Water bridges: B:K.230 Salt bridges: B:H.16, B:H.16, B:R.18, B:H.137, B:H.180, B:H.262

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Guan, H.H. et al., Structural Analysis of Saccharomyces cerevisiae Dihydroorotase Reveals Molecular Insights into the Tetramerization Mechanism. Molecules (2021)

Release Date

2020-12-02

Peptides

Dihydroorotase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

Dihydroorotase

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