X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8.2
Temperature 293.0
Details PEG 5000, Tris HCl, pH 8.2, VAPOR DIFFUSION, SITTING DROP, temperature 293.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 105.1 α = 90
b = 75.34 β = 90
c = 33.5 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 QUANTUM 4 -- 2002-06-29
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 5.0.3 1.0 ALS 5.0.3

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
1.1 105.41 -- -- -- -- -- -- 89423 -- -- --
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)
1.1 1.14 36.1 -- 0.199 -- -- --

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 1.1 105.41 0.0 0.0 89423 89423 4721 86.16 0.1594 0.15934 0.15823 0.1804 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 1.1 1.127 -- 130 2541 0.173 0.214 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 9.042
Anisotropic B[1][1] -0.65
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.04
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.61
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.346
r_scbond_it 2.165
r_mcangle_it 1.506
r_mcbond_it 0.938
r_symmetry_hbond_refined 0.081
r_symmetry_vdw_other 0.292
r_symmetry_vdw_refined 0.267
r_bond_refined_d 0.01
r_bond_other_d 0.002
r_angle_refined_deg 1.257
r_angle_other_deg 0.901
r_dihedral_angle_1_deg 5.4
r_chiral_restr 0.07
r_gen_planes_refined 0.006
r_gen_planes_other 0.005
r_nbd_refined 0.207
r_nbd_other 0.242
r_nbtor_other 0.087
r_xyhbond_nbd_refined 0.109
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2337
Nucleic Acid Atoms 0
Heterogen Atoms 21
Solvent Atoms 359

Software

Computing
Computing Package Purpose
HKL-2000 Data Reduction (intensity integration)
CCP4 (TRUNCATE) Data Reduction (data scaling)
MOLREP Structure Solution
REFMAC 5.1.19 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.19 refinement
MOLREP model building
TRUNCATE data reduction
HKL-2000 data collection