3ICR

Crystal structure of oxidized Bacillus anthracis CoADR-RHD


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelOther3 wavelength MAD structure deteremined on Selenomethionine-containing CoADR-RHD

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP62888-16% PEG 8000, 2% 2-methyl-2,4-pentanediol, 0.2M potassium acetate, pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 288K
Crystal Properties
Matthews coefficientSolvent content
2.2144.38

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 67.48α = 90
b = 110.47β = 101.69
c = 79.99γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDRIGAKU SATURN 92Confocal Blue Max-FluxMSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU MICROMAX-0071.5418

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
12.142.5699.30.09733.66689066422
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.12.15492.50.3027.561873

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT3 wavelength MAD structure deteremined on Selenomethionine-containing CoADR-RHD2.142.5662945335399.030.175940.173660.21833RANDOM23.417
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
0.050.06-0.090.06
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.288
r_dihedral_angle_4_deg19.836
r_dihedral_angle_3_deg14.042
r_dihedral_angle_1_deg5.684
r_scangle_it2.717
r_scbond_it1.81
r_angle_refined_deg1.268
r_mcangle_it1.045
r_mcbond_it0.794
r_nbtor_refined0.304
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.288
r_dihedral_angle_4_deg19.836
r_dihedral_angle_3_deg14.042
r_dihedral_angle_1_deg5.684
r_scangle_it2.717
r_scbond_it1.81
r_angle_refined_deg1.268
r_mcangle_it1.045
r_mcbond_it0.794
r_nbtor_refined0.304
r_nbd_refined0.2
r_symmetry_vdw_refined0.187
r_symmetry_hbond_refined0.147
r_xyhbond_nbd_refined0.13
r_chiral_restr0.082
r_bond_refined_d0.01
r_gen_planes_refined0.004
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms8596
Nucleic Acid Atoms
Solvent Atoms665
Heterogen Atoms202

Software

Software
Software NamePurpose
CrystalCleardata collection
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling
REFMACphasing