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 (RAXIS IV) RIGAKU 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_scangle_it 1.597
r_scbond_it 1.084
r_mcangle_it 1.698
r_mcbond_it 1.484
r_nbd_refined 0.202
r_gen_planes_other 0.001
r_gen_planes_refined 0.004
r_chiral_restr 0.068
r_dihedral_angle_4_deg 10.541
r_dihedral_angle_3_deg 13.708
r_dihedral_angle_2_deg 36.456
r_dihedral_angle_1_deg 5.427
r_angle_other_deg 0.954
r_angle_refined_deg 1.11
r_bond_other_d 0.001
r_bond_refined_d 0.01
r_nbd_other 0.178
r_nbtor_refined 0.165
r_nbtor_other 0.081
r_xyhbond_nbd_refined 0.127
r_symmetry_vdw_refined 0.161
r_symmetry_vdw_other 0.282
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

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
MOLREP Structure Solution
REFMAC 5.2.0019 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.2.0019 refinement
MOLREP model building