X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 5.2
Details CRYSTALS OF PEL10ACM WERE GROWN BY VAPOUR-PHASE DIFFUSION USING THE HANGING-DROP METHOD WITH SCREENING AS DESCRIBED BY BRZOZOWSKI & WALTON (2001 [[BRZOZOWSKI, A.M. & WALTON, J. (2001). J. APPL. CRYST. 34, 97-101.]] ). THE PROTEIN CONCENTRATION WAS 30 MG ML-1 IN NA MES BUFFER PH 5.2 CONTAINING KSCN AT A CONCENTRATION OF 200 MM. THE PRECIPITANT WAS 20%(W/V) MONOMETHYL POLYETHYLENEGLYCOL 2000 AND CRYSTALS APPEARED AFTER 2 D AT 291 K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 47.67 α = 90
b = 106.11 β = 91.95
c = 55.37 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
CCD ADSC -- 1999-02-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-4 -- ESRF ID14-4

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
1.32 50 86.8 0.058 -- -- 3.3 -- 112216 -- -- --
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)
1.32 1.35 35.4 0.329 -- 2.4 1.9 --

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 1.32 15.71 -- -- -- 106610 5557 86.5 -- 0.132 0.13 0.162 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 1.32 1.35 -- 152 3216 0.183 0.243 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 12.05
Anisotropic B[1][1] 0.13
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.48
Anisotropic B[2][2] -0.34
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.18
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.168
r_scbond_it 2.126
r_mcangle_it 1.599
r_mcbond_it 1.029
r_nbd_refined 0.231
r_gen_planes_other 0.001
r_gen_planes_refined 0.007
r_chiral_restr 0.087
r_dihedral_angle_4_deg 17.625
r_dihedral_angle_3_deg 13.753
r_dihedral_angle_2_deg 34.404
r_dihedral_angle_1_deg 5.37
r_angle_other_deg 1.916
r_angle_refined_deg 1.365
r_bond_other_d 0.003
r_bond_refined_d 0.013
r_nbd_other 0.275
r_nbtor_other 0.091
r_xyhbond_nbd_refined 0.161
r_symmetry_vdw_refined 0.189
r_symmetry_vdw_other 0.301
r_symmetry_hbond_refined 0.186
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5127
Nucleic Acid Atoms 0
Heterogen Atoms 24
Solvent Atoms 835

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
SOLVE Structure Solution
REFMAC 5.1.08 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.08 refinement
SOLVE model building