SMTL ID : 4c6m.1

Crystal structure of the dihydroorotase domain of human CAD bound to the inhibitor fluoroorotate at pH 7.0

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.62 Å

Oligo State

homo-dimer

Ligands

6 x ZN: ZINC ION(Non-covalent)

ZN.1: 7 residues within 4Å: Chain A: H.18, K.103, Y.105, H.137, H.161 Ligands: ZN.2, FOT.5 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.137, A:H.161, H2O.3 ZN.2: 7 residues within 4Å: Chain A: H.18, H.20, M.50, K.103, H.161, D.233 Ligands: ZN.1 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.18, A:H.20, A:D.233, H2O.3 ZN.3: 4 residues within 4Å: Chain A: H.18, M.50, C.160, E.184 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.18, A:C.160, A:E.184, A:E.184, H2O.3 ZN.7: 7 residues within 4Å: Chain B: H.18, K.103, Y.105, H.137, H.161 Ligands: ZN.8, FOT.11 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.137, B:H.161, H2O.18 ZN.8: 7 residues within 4Å: Chain B: H.18, H.20, M.50, K.103, H.161, D.233 Ligands: ZN.7 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.18, B:H.20, B:D.233, H2O.18 ZN.9: 4 residues within 4Å: Chain B: H.18, M.50, C.160, E.184 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.18, B:C.160, B:E.184, B:E.184, H2O.18

4 x FMT: FORMIC ACID(Non-functional Binders)

FMT.4: 7 residues within 4Å: Chain A: P.133, I.134, V.135, R.155, S.156, V.157, H.158 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:I.134, A:R.155, A:V.157 Water bridges: A:S.156, A:S.156 FMT.6: 3 residues within 4Å: Chain A: H.281, R.284, R.285 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:H.281, A:R.284 FMT.10: 7 residues within 4Å: Chain B: P.133, I.134, V.135, R.155, S.156, V.157, H.158 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:I.134, B:R.155, B:V.157 Water bridges: B:S.156, B:S.156 FMT.12: 3 residues within 4Å: Chain B: H.281, R.284, R.285 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:H.281, B:R.284

2 x FOT: 5-FLUORO-2,6-DIOXO-1,2,3,6-TETRAHYDROPYRIMIDINE-4-CARBOXYLIC ACID(Non-covalent)

FOT.5: 13 residues within 4Å: Chain A: H.20, R.22, N.52, K.103, Y.105, H.137, V.207, R.208, A.235, H.237, P.249, G.250 Ligands: ZN.1 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:N.52, A:R.208, A:R.208, A:P.249, A:P.249 Water bridges: A:H.237, A:H.237 Salt bridges: A:H.20, A:R.22, A:H.237 Halogen bonds: A:N.52 FOT.11: 13 residues within 4Å: Chain B: H.20, R.22, N.52, K.103, Y.105, H.137, V.207, R.208, A.235, H.237, P.249, G.250 Ligands: ZN.7 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:N.52, B:R.208, B:R.208, B:P.249, B:P.249 Water bridges: B:H.237, B:H.237 Salt bridges: B:H.20, B:R.22, B:H.237 Halogen bonds: B:N.52

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Grande-Garcia, A. et al., Structure, Functional Characterization and Evolution of the Dihydroorotase Domain of Human Cad. Structure (2014)

Release Date

2014-01-08

Peptides

CAD PROTEIN: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

CAD PROTEIN

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