X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7
Temperature 277.0
Details MOPS 100 mM, 22% isopropanol, Protein at 8 mg/ml, pH 7.00, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 64.54 α = 90
b = 64.54 β = 90
c = 234.44 γ = 120
Symmetry
Space Group P 61 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH -- 1999-08-14
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON LNLS BEAMLINE D03B-MX1 -- LNLS D03B-MX1

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
2.2 28.27 99.5 -- -- -- -- -- 15513 -- 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)
2.2 2.24 93.1 -- -- -- -- --

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 2.2 28.27 -- 0.0 15513 14724 789 99.5 -- 0.183 0.181 0.218 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 2.2 2.26 -- 58 986 0.229 0.278 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 24.16
Anisotropic B[1][1] 2.01
Anisotropic B[1][2] 1.01
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 2.01
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -3.02
RMS Deviations
Key Refinement Restraint Deviation
r_nbd_refined 0.22
r_gen_planes_other 0.007
r_gen_planes_refined 0.006
r_chiral_restr 0.094
r_dihedral_angle_4_deg 11.577
r_dihedral_angle_3_deg 16.767
r_dihedral_angle_2_deg 31.99
r_dihedral_angle_1_deg 6.619
r_angle_other_deg 0.871
r_angle_refined_deg 1.494
r_bond_other_d 0.002
r_bond_refined_d 0.014
r_nbd_other 0.25
r_nbtor_other 0.086
r_xyhbond_nbd_refined 0.233
r_symmetry_vdw_refined 0.174
r_symmetry_vdw_other 0.368
r_symmetry_hbond_refined 0.274
r_mcbond_it 0.653
r_mcangle_it 1.231
r_scbond_it 1.952
r_scangle_it 3.251
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1650
Nucleic Acid Atoms 0
Heterogen Atoms 28
Solvent Atoms 233

Software

Computing
Computing Package Purpose
HKL-2000 Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
AMORE Structure Solution
REFMAC 5.1.08 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.08 refinement
AMoRE model building
SCALEPACK data reduction
HKL-2000 data collection