X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7
Details 4.0 M SODIUM FORMATE, pH 7.00

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 55.42 α = 90
b = 113.63 β = 111.76
c = 61.38 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- 1998-06-14
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 5ID-B -- APS 5ID-B

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
2.1 20 99.5 0.045 -- -- 3.2 -- 40999 -- -3.0 --
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)
2.1 2.17 99.9 0.159 -- 6.1 3.2 --

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
MAD 2.1 56.8 -- -- -- 38000 2023 97.1 -- 0.197 0.195 0.237 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 2.1 2.15 -- 144 2710 0.2 0.283 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 23.96
Anisotropic B[1][1] -0.37
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.45
Anisotropic B[2][2] -0.64
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.35
RMS Deviations
Key Refinement Restraint Deviation
r_nbtor_other 0.085
r_angle_refined_deg 1.669
r_mcangle_it 1.58
r_nbd_other 0.243
r_gen_planes_other 0.002
r_bond_other_d 0.002
r_xyhbond_nbd_refined 0.18
r_nbd_refined 0.212
r_bond_refined_d 0.018
r_scangle_it 4.527
r_chiral_restr 0.087
r_angle_other_deg 0.881
r_gen_planes_refined 0.006
r_scbond_it 2.654
r_symmetry_vdw_refined 0.215
r_mcbond_it 0.849
r_symmetry_vdw_other 0.32
r_symmetry_hbond_refined 0.247
r_dihedral_angle_1_deg 5.567
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4540
Nucleic Acid Atoms 0
Heterogen Atoms 76
Solvent Atoms 274

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.19
DENZO data reduction
SCALEPACK data scaling
AMoRE phasing