X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.6
Temperature 291.0
Details PEG 4000, i-propanol, glycerol, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 58.1 α = 90
b = 85.44 β = 90
c = 87.6 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH -- 2001-08-16
Diffraction Radiation
Monochromator Protocol
Si 111 CHANNEL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON LNLS BEAMLINE D03B-MX1 1.53700 LNLS D03B-MX1

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 48.4 92.8 -- -- -- -- 24801 24231 1.0 -- --
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 2.16 96.8 -- -- -- 5.5 --

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 2.1 48.22 -- 0.0 24801 24231 1276 94.98 -- 0.17549 0.17336 0.21525 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 2.155 -- 102 1729 0.195 0.242 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 14.486
Anisotropic B[1][1] -3.84
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.78
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.06
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.008
r_mcangle_it 2.012
r_mcbond_it 1.2
r_chiral_restr 0.134
r_xyhbond_nbd_refined 0.174
r_symmetry_vdw_refined 0.175
r_scbond_it 3.035
r_scangle_it 4.491
r_dihedral_angle_2_deg 13.136
r_bond_refined_d 0.024
r_symmetry_hbond_refined 0.138
r_nbd_refined 0.215
r_angle_refined_deg 2.028
r_dihedral_angle_1_deg 6.316
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2633
Nucleic Acid Atoms 0
Heterogen Atoms 48
Solvent Atoms 243

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.09
DENZO data reduction
SCALEPACK data scaling
AMoRE phasing