X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 293.0
Details Na K tartrate, Hepes, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 70.9 α = 90
b = 74.31 β = 90
c = 85.48 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 RIGAKU RAXIS IV Osmic MaxFlux 2002-07-28
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RUH3R 1.54 -- --

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
2 100 97.1 0.045 -- -- 4.8 31264 30357 0.0 0.0 34.9
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)
2.0 2.07 96.4 0.255 -- 5.9 -- --

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
rigid body refinement followed by regular refinement 2.0 55.9 0.0 0.0 30325 28796 1526 97.19 0.1692 0.16531 0.16336 0.20349 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 2.0 2.108 4135 213 4135 0.232 0.252 -- 14.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 26.462
Anisotropic B[1][1] -1.05
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.0
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.04
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 2.677
r_scbond_it 1.56
r_mcangle_it 0.992
r_mcbond_it 0.525
r_symmetry_hbond_refined 0.15
r_symmetry_vdw_other 0.266
r_symmetry_vdw_refined 0.16
r_bond_refined_d 0.009
r_bond_other_d 0.002
r_angle_refined_deg 1.233
r_angle_other_deg 0.819
r_dihedral_angle_1_deg 5.948
r_chiral_restr 0.076
r_gen_planes_refined 0.004
r_gen_planes_other 0.003
r_nbd_refined 0.194
r_nbd_other 0.236
r_nbtor_other 0.082
r_xyhbond_nbd_refined 0.148
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3453
Nucleic Acid Atoms 0
Heterogen Atoms 17
Solvent Atoms 310

Software

Computing
Computing Package Purpose
HKL-2000 Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
CNS Structure Solution
REFMAC 5.1.24 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.24 refinement