4LCS

The crystal structure of di-Zn dihydropyrimidinase in complex with hydantoin

Structural Biology Knowledgebase: 4LCS SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.202
  • R-Value Work: 0.166

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4LCS

Classification: HYDROLASE ACTIVATOR

Total Structure Weight: 57161.84

Macromolecule Entities
Molecule Chains Length Organism Details
Chromosome 8 SCAF14545, whole genome shotgun sequence A 520 Tetraodon nigroviridis Gene Name(s): DPYS Gene View GSTENG00015639001

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
HYN
Query on HYN

A imidazolidine-2,4-dione
Hydantoin (Synonym)
C3 H4 N2 O2
WJRBRSLFGCUECM-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
KCX
Query on KCX
A L-PEPTIDE LINKING C7 H14 N2 O4 LYS

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.202
  • R-Value Work: 0.166
  • Space Group: I 41 2 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 161.03 α = 90.00
b = 161.03 β = 90.00
c = 93.44 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-06-23
  • Released Date: 2013-09-18
  • Deposition author(s): Hsieh, Y.C., Chen, M.C., Hsu, C.C., Chan, S.I., Yang, Y.S.

Revision History

  • 2014-02-12
    Type: Citation | Details: Citation update