X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.2
Temperature 298.0
Details NaCitrate, TEA, DTT, EDTA, pH 7.2, VAPOR DIFFUSION, SITTING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 70.5 α = 90
b = 70.5 β = 90
c = 211.74 γ = 90
Symmetry
Space Group P 41 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 125
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2001-09-20
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 0.91942 APS 19-ID

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
2.5 50 98.9 0.089 -- -- 15.4 19175 19175 0.0 0.0 --
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)
2.5 2.56 98.9 0.62 -- 4.4 -- --

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 2.5 50.0 0.0 0.0 19165 19165 983 98.9 0.2461 0.24399 0.24399 0.28606 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 2.5 2.565 -- 65 1304 0.282 0.375 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 48.892
Anisotropic B[1][1] 1.7
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.7
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -3.4
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 4.042
r_scbond_it 2.614
r_bond_refined_d 0.009
r_angle_refined_deg 1.334
r_dihedral_angle_1_deg 3.239
r_dihedral_angle_3_deg 17.185
r_chiral_restr 0.087
r_gen_planes_refined 0.004
r_nbd_refined 0.25
r_xyhbond_nbd_refined 0.182
r_symmetry_vdw_refined 0.208
r_symmetry_hbond_refined 0.512
r_mcbond_it 1.06
r_mcangle_it 2.015
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2602
Nucleic Acid Atoms 0
Heterogen Atoms 29
Solvent Atoms 82

Software

Computing
Computing Package Purpose
HKL-2000 Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
AMORE Structure Solution
REFMAC 5 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.0 refinement
AMoRE model building
SCALEPACK data reduction
HKL-2000 data collection