X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 4.6
Temperature 293.0
Details 4-14% PEG 400, 0.1 M SODIUM ACETATE PH 4.6, 0.04 M CADMIUM ACETATE, 293 K, 1-3 DAYS

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 106.23 α = 90
b = 106.23 β = 90
c = 102.57 γ = 120
Symmetry
Space Group P 31 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r TWO MIRRORS 2009-10-06
Diffraction Radiation
Monochromator Protocol
DOUBLE CRYSTALS MONOCHROMATOR SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE BM30A -- ESRF BM30A

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 19.7 93.7 0.08 -- -- 4.2 -- 68673 -- -3.0 18.15
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 1.79 95.8 0.36 -- 2.2 3.9 --

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
SIRAS 1.699 19.701 -- 1.34 -- 67827 3433 91.93 -- 0.1685 0.1663 0.2086 --
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 1.6994 1.7227 -- 133 2614 0.2059 0.2782 -- 94.0
X Ray Diffraction 1.7227 1.7473 -- 135 2649 0.1839 0.2439 -- 96.0
X Ray Diffraction 1.7473 1.7733 -- 135 2693 0.179 0.2499 -- 96.0
X Ray Diffraction 1.7733 1.801 -- 137 2666 0.1764 0.2531 -- 96.0
X Ray Diffraction 1.801 1.8305 -- 147 2617 0.1751 0.2257 -- 95.0
X Ray Diffraction 1.8305 1.8621 -- 133 2677 0.1919 0.2422 -- 95.0
X Ray Diffraction 1.8621 1.8959 -- 124 2526 0.2485 0.3237 -- 91.0
X Ray Diffraction 1.8959 1.9324 -- 130 2462 0.3458 0.4079 -- 89.0
X Ray Diffraction 1.9324 1.9718 -- 121 2597 0.2008 0.2368 -- 92.0
X Ray Diffraction 1.9718 2.0146 -- 135 2597 0.1595 0.202 -- 94.0
X Ray Diffraction 2.0146 2.0614 -- 127 2652 0.1497 0.1816 -- 94.0
X Ray Diffraction 2.0614 2.1129 -- 154 2604 0.1486 0.1944 -- 94.0
X Ray Diffraction 2.1129 2.17 -- 128 2648 0.1607 0.1936 -- 94.0
X Ray Diffraction 2.17 2.2337 -- 152 2405 0.2263 0.2306 -- 87.0
X Ray Diffraction 2.2337 2.3057 -- 118 2424 0.2813 0.3636 -- 86.0
X Ray Diffraction 2.3057 2.388 -- 164 2553 0.1628 0.2367 -- 93.0
X Ray Diffraction 2.388 2.4834 -- 149 2608 0.1424 0.2069 -- 93.0
X Ray Diffraction 2.4834 2.5962 -- 134 2604 0.1364 0.172 -- 93.0
X Ray Diffraction 2.5962 2.7328 -- 148 2554 0.1395 0.1817 -- 92.0
X Ray Diffraction 2.7328 2.9035 -- 131 2573 0.1488 0.1961 -- 92.0
X Ray Diffraction 2.9035 3.1268 -- 137 2585 0.1467 0.218 -- 91.0
X Ray Diffraction 3.1268 3.44 -- 145 2551 0.143 0.1817 -- 90.0
X Ray Diffraction 3.44 3.9343 -- 141 2511 0.1394 0.1646 -- 89.0
X Ray Diffraction 3.9343 4.9439 -- 142 2509 0.1317 0.1448 -- 88.0
X Ray Diffraction 4.9439 19.7023 -- 133 2515 0.1673 0.2152 -- 84.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 21.5
RMS Deviations
Key Refinement Restraint Deviation
f_chiral_restr 0.082
f_bond_d 0.01
f_plane_restr 0.006
f_angle_d 1.29
f_dihedral_angle_d 13.531
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4590
Nucleic Acid Atoms 0
Heterogen Atoms 60
Solvent Atoms 945

Software

Software
Software Name Purpose
PHENIX refinement version: (PHENIX.REFINE)
XDS data reduction version: 10-05-2010
SCALA data scaling version: 3.3.16
SHARP phasing