X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7
Details 0.1 M HEPES PH 7.0, 1.1 M SODIUM MALONATE PH 6.5, 0.8% JEFFAMINE ED 2001

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 104.65 α = 90
b = 182.21 β = 90
c = 89.47 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
CCD (QUANTUM Q315R) ADSC -- 2010-07-21
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-4 -- ESRF ID14-4

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
3.5 50 97.2 0.07 -- -- 3.7 -- 21615 -- 1.8 --
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)
3.5 3.65 98.2 0.72 -- 1.8 3.7 --

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
MAD 3.5 45.3 -- -- -- 20450 1164 96.98 -- 0.25793 0.25569 0.29668 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 3.498 3.588 -- 122 1419 0.388 0.374 -- 95.01
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 79.442
Anisotropic B[1][1] -65.76
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 31.93
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 33.82
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.004
r_chiral_restr 0.065
r_dihedral_angle_4_deg 18.366
r_dihedral_angle_3_deg 17.972
r_dihedral_angle_2_deg 36.851
r_dihedral_angle_1_deg 4.612
r_angle_refined_deg 0.951
r_bond_refined_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7030
Nucleic Acid Atoms 0
Heterogen Atoms 12
Solvent Atoms 0

Software

Computing
Computing Package Purpose
XDS Data Reduction (intensity integration)
XSCALE Data Reduction (data scaling)
SHELXD, SHARP Structure Solution
REFMAC 5.6.0116 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.6.0116 refinement
SHARP model building
SHELXD model building