X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.1
Temperature 293.0
Details 1.75 M Ammonium Sulfate 100 mM HEPES 10 mM glutamic acid, pH 7.1, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 62.69 α = 90
b = 73.78 β = 99.74
c = 115.92 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- 2004-10-12
Diffraction Radiation
Monochromator Protocol
Double Crystal Si-220 SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 22-ID 0.99997 APS 22-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
2.1 30 99.8 0.084 -- -- 3.4 53310 53310 2.11 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 2.18 100.0 0.344 -- 3.62 -- --

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 2.11 29.87 -- 0.0 53310 53310 6016 100.0 0.19124 0.19124 0.18562 0.24111 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 2.114 2.169 -- 427 3620 0.206 0.279 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 28.726
Anisotropic B[1][1] -0.13
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.37
Anisotropic B[2][2] 0.14
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.11
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.007
r_angle_refined_deg 1.839
r_nbd_refined 0.238
r_mcbond_it 1.529
r_dihedral_angle_4_deg 13.914
r_nbtor_refined 0.322
r_symmetry_vdw_refined 0.291
r_scbond_it 1.51
r_dihedral_angle_3_deg 11.392
r_symmetry_hbond_refined 0.326
r_dihedral_angle_1_deg 2.689
r_dihedral_angle_2_deg 29.596
r_chiral_restr 0.144
r_bond_refined_d 0.016
r_xyhbond_nbd_refined 0.227
r_mcangle_it 2.323
r_scangle_it 2.208
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 8008
Nucleic Acid Atoms 0
Heterogen Atoms 60
Solvent Atoms 439

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0019
DENZO data reduction
SCALEPACK data scaling
AMoRE phasing