4Q7A

Crystal Structure of N-acetyl-ornithine/N-acetyl-lysine Deacetylase from Sphaerobacter thermophilus


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.048 Å
  • R-Value Free: 0.171 
  • R-Value Work: 0.154 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Crystal Structure of N-acetyl-ornithine/N-acetyl-lysine Deacetylase from Sphaerobacter thermophilus

Kim, Y.Tesar, C.Clancy, S.Joachimiak, A.Midwest Center for Structural Genomics (MCSG)

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
N-acetyl-ornithine/N-acetyl-lysine deacetylase
A, B, C, D
370Sphaerobacter thermophilus (strain DSM 20745 / S 6022)Mutation(s): 0 
Gene Names: lysK
EC: 3.5.1.-
Find proteins for D1C6B5 (Sphaerobacter thermophilus (strain DSM 20745 / S 6022))
Go to UniProtKB:  D1C6B5
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
A, B, D
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
CL
Query on CL

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Download CCD File 
D
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
GOL
Query on GOL

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Download CCD File 
A, C, D
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A, B, C, D
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.048 Å
  • R-Value Free: 0.171 
  • R-Value Work: 0.154 
  • Space Group: P 42
Unit Cell:
Length (Å)Angle (°)
a = 119.540α = 90.00
b = 119.540β = 90.00
c = 119.212γ = 90.00
Software Package:
Software NamePurpose
HKL-3000data reduction
MLPHAREphasing
HKL-3000data scaling
SBC-Collectdata collection
Cootmodel building
RESOLVEphasing
HKL-3000data collection
PHENIXrefinement
HKL-3000phasing
DMmodel building
DMphasing
SHELXDphasing
RESOLVEmodel building

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-07-02
    Type: Initial release