X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 298.0
Details PEG 4000 (4-6%), Tris buffer pH 8 (50 mM), VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 66.03 α = 90
b = 78.07 β = 103.71
c = 77.13 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
2 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD BRANDEIS - B4 Condensing Mirror Tunable Monochromator 1999-05-30
CCD BRANDEIS - B4 Condensing Mirror Tunable Monochromator 1999-05-30
Diffraction Radiation
Monochromator Protocol
si(111) --
Si(111) MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X25 1.1 NSLS X25
SYNCHROTRON NSLS BEAMLINE X25 0.970,0.8850,0.9791 NSLS X25

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
1.7 50 97.8 0.103 0.103 -- 7.0 77294 81357 2.0 2.1 28.0
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)
1.7 1.76 78.5 0.6 0.6 2.0 3.0 6542

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 1.7 50.0 -999.0 0.0 77295 81357 4062 92.4 0.211 0.211 0.2118 0.2536 RANDOM 5%
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Individual isotropic displacements, Overall anisotropic correction
Mean Isotropic B 36.4
RMS Deviations
Key Refinement Restraint Deviation
s_similar_dist 0.0
s_from_restr_planes 0.0227
s_rigid_bond_adp_cmpnt 0.0
s_similar_adp_cmpnt 0.07
s_bond_d 0.008
s_approx_iso_adps 0.0
s_anti_bump_dis_restr 0.01
s_zero_chiral_vol 0.03
s_non_zero_chiral_vol 0.04
s_angle_d 0.024
Coordinate Error
Parameter Value
Occupancy Sum Hydrogen 4420.0
Occupancy Sum Non Hydrogen 4956.0
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4333
Nucleic Acid Atoms 0
Heterogen Atoms 20
Solvent Atoms 614

Software

Software
Software Name Purpose
SnB phasing
SHARP phasing
REFMAC refinement
ARP model building
BUSTER refinement
TNT refinement
SHELX model building
O model building
SHELXL-97 refinement
MOSFLM data reduction
CCP4 data scaling version: (SCALA)
SHAKE-N-BAKE phasing
BUSTER phasing
TNT phasing
SHELX phasing