X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7
Details ADA BUFFER PH 6.4, 3.5M POTASSIUM ACETATE,0.5 M DTT,10%MPD

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 131.27 α = 90
b = 80.69 β = 120.29
c = 86.19 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH MIRRORS 2003-12-06
Diffraction Radiation
Monochromator Protocol
TRIANGULAR MONOCHROMATOR 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
2 20 99.4 0.09 -- -- 2.08 -- 52169 -- 1.0 20.8
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)
2.0 2.02 99.0 0.51 -- 3.38 1.0 --

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 2.0 19.54 -- -- -- 49503 2661 99.4 -- 0.151 0.149 0.194 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 2.0 2.05 -- 191 3568 0.199 0.266 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 13.25
Anisotropic B[1][1] -1.74
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -1.7
Anisotropic B[2][2] 0.33
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.3
RMS Deviations
Key Refinement Restraint Deviation
r_scbond_it 1.896
r_nbd_refined 0.266
r_xyhbond_nbd_refined 0.212
r_symmetry_vdw_other 0.315
r_mcbond_it 0.597
r_bond_refined_d 0.012
r_nbtor_other 0.086
r_symmetry_vdw_refined 0.454
r_dihedral_angle_1_deg 5.323
r_scangle_it 3.176
r_gen_planes_refined 0.005
r_gen_planes_other 0.004
r_bond_other_d 0.002
r_angle_other_deg 0.895
r_chiral_restr 0.095
r_nbd_other 0.245
r_symmetry_hbond_refined 0.246
r_mcangle_it 1.104
r_angle_refined_deg 1.81
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5294
Nucleic Acid Atoms 0
Heterogen Atoms 226
Solvent Atoms 631

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.24
DENZO data reduction
SCALEPACK data scaling
AMoRE phasing