X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.2
Temperature 277.0
Details PEG6000, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 43.27 α = 90
b = 89.21 β = 105.14
c = 51.48 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
IMAGE PLATE MARRESEARCH -- 2001-05-12
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7B 0.845 EMBL/DESY, HAMBURG BW7B

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
2.3 25 96.6 -- 0.049 -- 3.0 17024 17024 0.0 0.0 31.2
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)
2.3 2.34 98.6 -- 0.254 5.4 -- --

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 2.28 50.0 -- -- 15607 15607 789 95.51 0.21665 0.21665 0.21356 0.27657 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 2.284 2.343 -- 47 1025 0.248 0.297 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 31.153
Anisotropic B[1][1] 2.3
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 1.13
Anisotropic B[2][2] 0.26
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.97
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.241
r_scbond_it 1.933
r_mcangle_it 1.295
r_mcbond_it 0.686
r_symmetry_hbond_refined 0.217
r_symmetry_vdw_refined 0.26
r_xyhbond_nbd_refined 0.18
r_bond_refined_d 0.011
r_angle_refined_deg 1.54
r_dihedral_angle_1_deg 3.735
r_dihedral_angle_3_deg 16.595
r_chiral_restr 0.098
r_gen_planes_refined 0.005
r_nbd_refined 0.253
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2702
Nucleic Acid Atoms 0
Heterogen Atoms 64
Solvent Atoms 94

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
AMORE Structure Solution
REFMAC 5 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.0 refinement
AMoRE model building