X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 5.2
Details CRYSTALS OF PEL10ACM WERE GROWN BY VAPOUR-PHASE DIFFUSION USING THE HANGING-DROP METHOD WITH SCREENING AS DESCRIBED BY BRZOZOWSKI & WALTON (2001 [[BRZOZOWSKI, A.M. & WALTON, J.(2001). J. APPL. CRYST. 34, 97-101.]] ). THE PROTEIN CONCENTRATION WAS 30 MG ML-1 IN NA MES BUFFER PH 5.2 CONTAINING KSCN AT A CONCENTRATION OF 200 MM. THE PRECIPITANT WAS 20%(W/V) MONOMETHYL POLYETHYLENEGLYCOL 2000. 25MM CACL2 AND 20MM TRIGALACTURONIC ACID WERE ALSO ADDED.

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 105.43 α = 90
b = 54.92 β = 90
c = 47.19 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC CCD -- 2001-02-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID29 -- ESRF ID29

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
2.05 50 79.2 0.073 -- -- 3.5 -- 14154 -- -- --
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)
2.05 2.12 29.3 0.32 -- 2.1 1.6 --

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
OTHER 2.05 52.7 -- -- -- 13414 705 79.2 -- 0.176 0.173 0.228 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 2.05 2.1 -- 11 339 0.163 0.302 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 17.88
Anisotropic B[1][1] -0.13
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.01
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.11
RMS Deviations
Key Refinement Restraint Deviation
r_scbond_it 1.882
r_xyhbond_nbd_refined 0.155
r_symmetry_vdw_refined 0.269
r_mcbond_it 0.586
r_metal_ion_refined 0.171
r_dihedral_angle_3_deg 15.148
r_gen_planes_refined 0.005
r_chiral_restr 0.09
r_symmetry_hbond_refined 0.264
r_angle_refined_deg 1.316
r_nbd_refined 0.209
r_scangle_it 2.99
r_dihedral_angle_1_deg 5.248
r_bond_refined_d 0.012
r_dihedral_angle_2_deg 35.377
r_dihedral_angle_4_deg 20.694
r_mcangle_it 1.076
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2504
Nucleic Acid Atoms 0
Heterogen Atoms 38
Solvent Atoms 171

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.08
DENZO data reduction
SCALEPACK data scaling