X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 5.7
Details PROTEIN WAS CRYSTALLIZED FROM 1 M LITHIUM SULFATE, 0.5 M AMMONIUM SULFATE, 0.1 M SODIUM CITRATE, PH 5.7 AND 1 MM DTT

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 43.05 α = 90
b = 71.18 β = 90
c = 90.44 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 277
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IV OSMIC BLUE CONFOCAL MIRRORS 2006-09-29
Diffraction Radiation
Monochromator Protocol
OSMIC MIRRORS SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU MICROMAX-007 -- -- --

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
1.9 20.29 99.9 0.1 -- -- 4.6 -- 22614 -- 2.1 --
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)
1.9 2.0 100.0 0.6 -- 2.1 4.5 --

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 1.9 20.29 -- -- -- 21416 1148 100.0 -- 0.192 0.191 0.216 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 1.9 1.95 -- 93 1541 0.3 0.365 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 22.99
Anisotropic B[1][1] 1.78
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.76
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.02
RMS Deviations
Key Refinement Restraint Deviation
r_xyhbond_nbd_refined 0.127
r_mcangle_it 1.698
r_angle_refined_deg 1.11
r_dihedral_angle_3_deg 13.708
r_dihedral_angle_4_deg 10.541
r_angle_other_deg 0.954
r_nbd_refined 0.202
r_gen_planes_other 0.001
r_symmetry_vdw_other 0.282
r_scangle_it 1.597
r_nbd_other 0.178
r_scbond_it 1.084
r_nbtor_other 0.081
r_nbtor_refined 0.165
r_chiral_restr 0.068
r_gen_planes_refined 0.004
r_mcbond_it 1.484
r_dihedral_angle_2_deg 36.456
r_bond_other_d 0.001
r_dihedral_angle_1_deg 5.427
r_bond_refined_d 0.01
r_symmetry_vdw_refined 0.161
r_symmetry_hbond_refined 0.113
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1926
Nucleic Acid Atoms 0
Heterogen Atoms 21
Solvent Atoms 281

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0019
MOSFLM data reduction
SCALA data scaling
MOLREP phasing