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_mcbond_it 1.949
r_mcangle_it 3.099
r_nbd_refined 0.231
r_angle_other_deg 0.853
r_scangle_it 3.402
r_nbd_other 0.208
r_symmetry_vdw_refined 0.204
r_dihedral_angle_1_deg 3.808
r_chiral_restr 0.126
r_bond_other_d 0.001
r_scbond_it 2.167
r_bond_refined_d 0.011
r_symmetry_hbond_refined 0.234
r_xyhbond_nbd_refined 0.183
r_dihedral_angle_3_deg 15.497
r_gen_planes_refined 0.005
r_angle_refined_deg 1.407
r_gen_planes_other 0.002
r_symmetry_vdw_other 0.141
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

Computing
Computing Package Purpose
SCALEPACK Data Reduction (data scaling)
AMORE Structure Solution
REFMAC 5.0 Structure Refinement
Software
Software Name Purpose
AMORE model building
REFMAC version: 5.0 refinement