X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7.5
Details 1.2M AMMONIUM SULPHATE, 4% PEG400, 0.1M HEPES PH7.5 ARGON ATMOSPHERE, 11MG/ML PROTEIN WITH 1MM FE(II), 2.5MM AKG AND 2.5MM PEPTIDE (SEE REMARK 400), pH 7.50

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 86.34 α = 90
b = 86.34 β = 90
c = 146.73 γ = 90
Symmetry
Space Group P 41 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- 2002-05-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SRS BEAMLINE PX9.5 -- SRS PX9.5

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
2.84 34.1 99.2 0.067 -- -- 6.7 -- 13703 -- -- --
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)
2.84 2.99 94.9 0.309 -- 2.4 5.2 --

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 2.84 30.0 -- -- -- 12577 1046 99.5 -- 0.233 0.231 0.257 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 2.84 2.91 -- 81 828 0.286 0.315 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 35.34
Anisotropic B[1][1] -1.02
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.02
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.03
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 1.795
r_scbond_it 1.058
r_mcangle_it 0.598
r_mcbond_it 0.312
r_nbd_refined 0.255
r_gen_planes_other 0.002
r_gen_planes_refined 0.005
r_chiral_restr 0.095
r_dihedral_angle_3_deg 18.082
r_dihedral_angle_1_deg 4.268
r_angle_other_deg 0.823
r_angle_refined_deg 1.628
r_bond_other_d 0.001
r_bond_refined_d 0.015
r_nbd_other 0.224
r_xyhbond_nbd_refined 0.139
r_xyhbond_nbd_other 0.102
r_metal_ion_refined 0.112
r_symmetry_vdw_refined 0.256
r_symmetry_vdw_other 0.273
r_symmetry_hbond_refined 0.214
r_symmetry_hbond_other 0.061
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2689
Nucleic Acid Atoms 0
Heterogen Atoms 26
Solvent Atoms 3

Software

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
CCP4 (SCALA) Data Reduction (data scaling)
REFMAC 5.0 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.0 refinement