X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.5
Details 6% PEG8000 (W/V), 50MM MOPS PH 6.5, 2MM DTT, 2MM NAN3

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 53.93 α = 90
b = 98.25 β = 101.43
c = 111.38 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
-- -- -- 2002-11-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID29 -- ESRF ID29

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
2.05 40 96.8 0.06 -- -- 2.9 -- 69115 -- 3.0 --
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)
2.05 2.12 88.4 0.335 -- 2.34 2.0 --

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 2.05 40.0 -- -- -- 65624 3474 96.8 -- 0.222 0.22 0.264 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 2.05 2.1 -- 218 4338 0.282 0.324 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 39.16
Anisotropic B[1][1] 1.12
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.22
Anisotropic B[2][2] -0.91
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.12
RMS Deviations
Key Refinement Restraint Deviation
r_chiral_restr 0.08
r_nbd_other 0.237
r_dihedral_angle_1_deg 5.388
r_bond_refined_d 0.014
r_bond_other_d 0.002
r_mcangle_it 1.509
r_scbond_it 2.067
r_angle_refined_deg 1.3
r_scangle_it 3.416
r_mcbond_it 0.823
r_nbtor_other 0.085
r_symmetry_hbond_refined 0.181
r_symmetry_vdw_refined 0.135
r_nbd_refined 0.203
r_gen_planes_other 0.003
r_symmetry_vdw_other 0.256
r_gen_planes_refined 0.006
r_xyhbond_nbd_refined 0.195
r_angle_other_deg 0.791
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6919
Nucleic Acid Atoms 0
Heterogen Atoms 5
Solvent Atoms 333

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.24
DENZO data reduction
SCALEPACK data scaling
AMoRE phasing