X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 293.0
Details 45% MPD, 0.2 M ammonium sulfate and 0.1 M Tris, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 45.21 α = 90
b = 48.87 β = 90
c = 86.69 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 MIRROR 2005-03-01
Diffraction Radiation
Monochromator Protocol
SI 111 CHANNEL MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 0.97902, 0.97919 APS 19-ID

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
2.4 19.96 97.97 0.11 0.11 -- 6.7 7822 7822 0.0 -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)
2.4 2.459 89.55 0.42 0.42 3.9 5.3 463

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 2.4 19.96 0.0 0.0 7773 7773 367 97.97 0.20127 0.20127 0.19883 0.25253 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 2.4 2.459 463 34 463 0.25 0.332 -- 89.55
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 54.484
Anisotropic B[1][1] -0.87
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.16
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.72
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 4.26
r_scbond_it 3.1
r_mcangle_it 1.627
r_mcbond_it 1.407
r_nbd_refined 0.209
r_gen_planes_refined 0.007
r_chiral_restr 0.113
r_dihedral_angle_4_deg 13.36
r_dihedral_angle_3_deg 18.184
r_dihedral_angle_2_deg 29.002
r_dihedral_angle_1_deg 7.47
r_angle_refined_deg 1.738
r_bond_refined_d 0.021
r_nbtor_refined 0.307
r_xyhbond_nbd_refined 0.136
r_symmetry_vdw_refined 0.187
r_symmetry_hbond_refined 0.086
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1429
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 27

Software

Computing
Computing Package Purpose
SBCCOLLECT Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
HKL-3000, SHELXD, SHELXE, MLPHARE, DM, SOLVE, RESOLVE, COOT, CCP4, O Structure Solution
REFMAC 5.2.0005, COOT Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.2.0005 refinement