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_scangle_it 4.491
r_scbond_it 3.035
r_bond_refined_d 0.024
r_angle_refined_deg 2.028
r_dihedral_angle_1_deg 6.316
r_dihedral_angle_2_deg 13.136
r_chiral_restr 0.134
r_gen_planes_refined 0.008
r_nbd_refined 0.215
r_xyhbond_nbd_refined 0.174
r_symmetry_vdw_refined 0.175
r_symmetry_hbond_refined 0.138
r_mcbond_it 1.2
r_mcangle_it 2.012
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

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
AMORE Structure Solution
REFMAC 5.1.09 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.09 refinement