X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.4
Temperature 291.0
Details Protein: 35mg/ml, 0.1M ammonium bicarbonate. Well: 20% PEG 3350, 0.2 M potassium acetate, pH 7.4, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 169.46 α = 90
b = 97.9 β = 90.01
c = 208.95 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 110
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MAR scanner 345 mm plate Osmic mirrors 2006-04-15
Diffraction Radiation
Monochromator Protocol
osmic mirrors SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU300 -- -- --

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
2.8 48 98.5 0.074 -- -- 3.3 83306 83306 0.0 0.0 --
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)
2.8 2.95 98.8 0.406 -- 3.2 3.3 --

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 2.8 29.76 -- -- 82144 78012 4132 97.33 -- 0.23109 0.22961 0.25885 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 2.8 2.872 -- 312 5706 0.381 0.408 -- 96.81
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 57.888
Anisotropic B[1][1] 0.14
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.2
Anisotropic B[2][2] -0.28
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.14
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_3_deg 17.55
r_nbtor_refined 0.31
r_chiral_restr 0.093
r_scbond_it 1.299
r_symmetry_hbond_refined 0.286
r_symmetry_vdw_refined 0.317
r_scangle_it 2.313
r_angle_refined_deg 1.323
r_dihedral_angle_1_deg 5.993
r_mcbond_it 0.44
r_gen_planes_refined 0.004
r_mcangle_it 0.854
r_xyhbond_nbd_refined 0.148
r_dihedral_angle_2_deg 37.16
r_dihedral_angle_4_deg 18.612
r_nbd_refined 0.222
r_metal_ion_refined 0.084
r_bond_refined_d 0.011
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 22950
Nucleic Acid Atoms 0
Heterogen Atoms 45
Solvent Atoms 72

Software

Software
Software Name Purpose
SCALA data scaling
PHASER phasing
REFMAC refinement
PDB_EXTRACT data extraction version: 2.000
MAR345 data collection version: 345
MOSFLM data reduction
CCP4 data scaling version: (SCALA)