X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 295.0
Details 15% PEG 4000, 10% Isopropanol and 0.1 M Tris, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 104.13 α = 90
b = 127.83 β = 90
c = 138.12 γ = 90
Symmetry
Space Group C 2 2 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 Mirrors 2002-08
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X25 1.1 NSLS X25

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
2.15 47.14 92.7 0.063 0.063 -- 3.3 47232 47232 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)
2.15 -- 73.1 0.367 0.367 1.7 -- --

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 2.15 47.14 -- 0.0 47231 44837 2394 93.75 0.17901 0.17901 0.17654 0.22704 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 2.15 2.206 -- 158 2474 0.237 0.275 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 27.949
Anisotropic B[1][1] -0.16
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.08
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.24
RMS Deviations
Key Refinement Restraint Deviation
r_mcangle_it 1.366
r_nbd_refined 0.202
r_xyhbond_nbd_refined 0.193
r_nbd_other 0.243
r_gen_planes_refined 0.005
r_symmetry_vdw_other 0.295
r_scbond_it 1.897
r_bond_other_d 0.002
r_dihedral_angle_1_deg 6.256
r_scangle_it 3.242
r_bond_refined_d 0.013
r_angle_refined_deg 1.353
r_symmetry_vdw_refined 0.449
r_mcbond_it 0.727
r_chiral_restr 0.085
r_angle_other_deg 0.83
r_metal_ion_refined 0.032
r_gen_planes_other 0.003
r_nbtor_other 0.084
r_symmetry_hbond_refined 0.242
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5903
Nucleic Acid Atoms 0
Heterogen Atoms 70
Solvent Atoms 330

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
MOLREP, ARP/WARP Structure Solution
REFMAC 5.1.24 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.24 refinement