X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.5
Details 6% PEG8000 (W/V), 50MM MOPS PH 6.5, 2MM DTT, 2MM NAN3

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 53.93 α = 90
b = 98.25 β = 101.43
c = 111.38 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
-- -- -- 2002-11-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID29 -- ESRF ID29

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
2.05 40 96.8 0.06 -- -- 2.9 -- 69115 -- 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)
2.05 2.12 88.4 0.335 -- 2.34 2.0 --

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 2.05 40.0 -- -- -- 65624 3474 96.8 -- 0.222 0.22 0.264 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 2.05 2.1 -- 218 4338 0.282 0.324 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 39.16
Anisotropic B[1][1] 1.12
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.22
Anisotropic B[2][2] -0.91
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.12
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.416
r_scbond_it 2.067
r_mcangle_it 1.509
r_mcbond_it 0.823
r_nbd_refined 0.203
r_gen_planes_other 0.003
r_gen_planes_refined 0.006
r_chiral_restr 0.08
r_dihedral_angle_1_deg 5.388
r_angle_other_deg 0.791
r_angle_refined_deg 1.3
r_bond_other_d 0.002
r_bond_refined_d 0.014
r_nbd_other 0.237
r_nbtor_other 0.085
r_xyhbond_nbd_refined 0.195
r_symmetry_vdw_refined 0.135
r_symmetry_vdw_other 0.256
r_symmetry_hbond_refined 0.181
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6919
Nucleic Acid Atoms 0
Heterogen Atoms 5
Solvent Atoms 333

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
AMORE Structure Solution
REFMAC 5.1.24 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.24 refinement
AMORE model building