X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7
Details 10% PEG 8000, 50 MM HEPES PH 7, 100 MM NACL, 2 MM DTT, 2 MM NAN3 BY MICROSEEDING

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 104.7 α = 90
b = 179.43 β = 90
c = 54.15 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH -- 2000-04-30
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE BM30A -- ESRF BM30A

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 40 96.0 0.06 -- -- 6.2 -- 68455 -- 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 2.1 96.2 0.26 -- 4.3 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 2.05 40.0 -- -- -- 60609 3179 98.1 -- 0.2 0.198 0.232 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 -- 254 4293 0.208 0.224 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 33.58
Anisotropic B[1][1] -0.48
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.87
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.39
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.407
r_mcangle_it 3.099
r_scbond_it 2.167
r_xyhbond_nbd_refined 0.183
r_chiral_restr 0.126
r_bond_other_d 0.001
r_symmetry_hbond_refined 0.234
r_mcbond_it 1.949
r_gen_planes_refined 0.005
r_nbd_other 0.208
r_symmetry_vdw_other 0.141
r_nbd_refined 0.231
r_symmetry_vdw_refined 0.204
r_scangle_it 3.402
r_angle_other_deg 0.853
r_dihedral_angle_3_deg 15.497
r_bond_refined_d 0.011
r_dihedral_angle_1_deg 3.808
r_gen_planes_other 0.002
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5591
Nucleic Acid Atoms 0
Heterogen Atoms 60
Solvent Atoms 437

Software

Software
Software Name Purpose
REFMAC refinement version: 5.0
SCALEPACK data scaling
AMoRE phasing