X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4.6
Temperature 298.0
Details PEG 4000, 200MM ammonium sulfate, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 58.34 α = 90
b = 58.34 β = 90
c = 390.4 γ = 120
Symmetry
Space Group P 61 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2005-10-31
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X29A 1.1 NSLS X29A

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
2.4 65.09 88.4 -- 0.079 -- 7.9 -- 14730 -- -- --

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 2.4 44.87 -- -- -- 13220 705 83.54 0.22858 0.22858 0.22504 0.29476 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 2.4 2.462 -- 31 771 0.271 0.372 -- 67.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 39.518
Anisotropic B[1][1] 1.19
Anisotropic B[1][2] 0.6
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.19
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.79
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 0.632
r_scbond_it 0.38
r_mcangle_it 0.343
r_mcbond_it 0.197
r_nbd_refined 0.159
r_gen_planes_refined 0.002
r_chiral_restr 0.061
r_dihedral_angle_4_deg 14.58
r_dihedral_angle_3_deg 14.228
r_dihedral_angle_2_deg 38.169
r_dihedral_angle_1_deg 3.774
r_angle_refined_deg 0.892
r_bond_refined_d 0.006
r_nbtor_refined 0.29
r_xyhbond_nbd_refined 0.092
r_metal_ion_refined 0.064
r_symmetry_vdw_refined 0.132
r_symmetry_hbond_refined 0.07
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2891
Nucleic Acid Atoms 0
Heterogen Atoms 38
Solvent Atoms 295

Software

Computing
Computing Package Purpose
HKL-2000 Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
AMoRE Structure Solution
REFMAC 5.2.0019 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.2.0019 refinement
AMoRE model building
HKL-2000 data collection