SMTL ID : 4hk6.1 (1 other biounit)

Crystal structure of Cordyceps militaris IDCase in complex with 5-nitro-uracil

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.15, H.17, H.198, D.326 Ligands: 5NU.2 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.15, A:H.17, A:H.198, A:D.326 ZN.3: 5 residues within 4Å: Chain B: H.15, H.17, H.198, D.326 Ligands: 5NU.4 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.15, B:H.17, B:H.198, B:D.326

2 x 5NU: 5-nitrouracil(Non-covalent)

5NU.2: 14 residues within 4Å: Chain A: H.15, H.17, L.49, R.71, N.101, H.198, L.221, F.225, H.254, D.326, F.329, F.330 Chain B: R.265 Ligands: ZN.1 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.71, A:R.71, A:N.101, A:N.101 pi-Stacking: A:F.225, A:F.329 5NU.4: 14 residues within 4Å: Chain A: R.265 Chain B: H.15, H.17, L.49, R.71, N.101, H.198, L.221, F.225, H.254, D.326, F.329, F.330 Ligands: ZN.3 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.71, B:R.71, B:N.101, B:N.101 pi-Stacking: B:F.329

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xu, S. et al., Crystal structures of isoorotate decarboxylases reveal a novel catalytic mechanism of 5-carboxyl-uracil decarboxylation and shed light on the search for DNA decarboxylase. Cell Res. (2013)

Release Date

2013-09-11

Peptides

Uracil-5-carboxylate decarboxylase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

Uracil-5-carboxylate decarboxylase

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