X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 5.5
Details RESERVOIR: CADMIUM SULFATE 0.12M, AMMONIUM SULFATE 1.1M, SODIUM ACETATE 0.1M PH 5.6, SODIUM AZIDE 0.003M DROP: 1UL PROTEIN AND 1UL RESERVOIR

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 181.9 α = 90
b = 181.9 β = 90
c = 181.9 γ = 90
Symmetry
Space Group F 4 3 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH MIRROR 2 BENT, VERTICALLY FOCUSSING 2006-08-16
Diffraction Radiation
Monochromator Protocol
SI 111, HORIZONTALLY FOCUSSING SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7B -- EMBL/DESY, HAMBURG BW7B

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot
1.55 12 96.4 0.06 -- -- 4.7 -- 36531 -- 0.0 --
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
1.55 1.6 88.1 0.44 -- 3.5 4.6 --

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
MOLECULAR REPLACEMENT 1.55 104.83 -- -- -- 34740 1823 97.0 -- 0.19 0.189 0.222 RANDOM
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 1.55 1.59 -- 142 2442 0.335 0.336 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 14.81
Anisotropic B[1][1] 0.0
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.0
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.0
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.601
r_nbtor_other 0.087
r_symmetry_vdw_refined 0.39
r_nbtor_refined 0.187
r_symmetry_hbond_refined 0.132
r_angle_other_deg 0.965
r_mcangle_it 1.761
r_bond_other_d 0.002
r_nbd_refined 0.254
r_scbond_it 3.364
r_bond_refined_d 0.017
r_symmetry_vdw_other 0.262
r_nbd_other 0.196
r_dihedral_angle_2_deg 36.628
r_xyhbond_nbd_refined 0.214
r_scangle_it 4.819
r_dihedral_angle_1_deg 4.668
r_dihedral_angle_3_deg 13.564
r_gen_planes_other 0.001
r_chiral_restr 0.1
r_dihedral_angle_4_deg 22.019
r_mcbond_it 1.667
r_gen_planes_refined 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1366
Nucleic Acid Atoms 0
Heterogen Atoms 31
Solvent Atoms 204

Software

Software
Software Name Purpose
REFMAC refinement version: 5.3.0031
XDS data reduction
XSCALE data scaling