X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.5
Details 0.1 M BIS-TRIS PROPANE PH 6.5, 0.3-0.9 M SODIUM POTASSIUM TARTRATE, 0.0006 M PROTEIN, 0.0014 M LANTHANIDE COMPLEX, 293 K, 5 DAYS

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 57.85 α = 90
b = 57.85 β = 90
c = 150.21 γ = 90
Symmetry
Space Group P 41 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD (QUANTUM 315) ADSC MIRRORS 2010-11-27
Diffraction Radiation
Monochromator Protocol
EITHER 111 OR 311 SILICON SINGLE CRISTALS MAD
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
1.2 45.83 98.0 0.05 -- -- 9.9 -- 78373 -- 3.0 9.4
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)
1.2 1.26 95.8 0.46 -- 1.7 10.0 --

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 1.2 31.499 -- 1.35 -- 78332 3920 97.14 -- 0.1379 0.1369 0.1553 --
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 1.1999 1.2145 -- 134 2537 0.1708 0.2108 -- 94.0
X Ray Diffraction 1.2145 1.2299 -- 133 2575 0.16 0.1929 -- 95.0
X Ray Diffraction 1.2299 1.2461 -- 131 2538 0.1495 0.1798 -- 95.0
X Ray Diffraction 1.2461 1.2631 -- 135 2585 0.1411 0.1352 -- 95.0
X Ray Diffraction 1.2631 1.2812 -- 135 2575 0.1339 0.1798 -- 96.0
X Ray Diffraction 1.2812 1.3003 -- 134 2567 0.1321 0.164 -- 96.0
X Ray Diffraction 1.3003 1.3206 -- 136 2611 0.1322 0.1946 -- 96.0
X Ray Diffraction 1.3206 1.3423 -- 137 2582 0.1263 0.154 -- 96.0
X Ray Diffraction 1.3423 1.3654 -- 139 2590 0.1156 0.1495 -- 96.0
X Ray Diffraction 1.3654 1.3903 -- 138 2612 0.1141 0.1632 -- 96.0
X Ray Diffraction 1.3903 1.417 -- 138 2612 0.1128 0.1474 -- 97.0
X Ray Diffraction 1.417 1.4459 -- 137 2609 0.1077 0.1295 -- 97.0
X Ray Diffraction 1.4459 1.4774 -- 137 2622 0.1036 0.168 -- 97.0
X Ray Diffraction 1.4774 1.5117 -- 140 2634 0.1035 0.1412 -- 97.0
X Ray Diffraction 1.5117 1.5495 -- 140 2639 0.0941 0.1331 -- 97.0
X Ray Diffraction 1.5495 1.5914 -- 141 2643 0.0949 0.1293 -- 97.0
X Ray Diffraction 1.5914 1.6383 -- 143 2656 0.097 0.1203 -- 97.0
X Ray Diffraction 1.6383 1.6911 -- 141 2661 0.0985 0.1354 -- 98.0
X Ray Diffraction 1.6911 1.7516 -- 138 2679 0.106 0.1333 -- 98.0
X Ray Diffraction 1.7516 1.8217 -- 141 2688 0.1136 0.1398 -- 98.0
X Ray Diffraction 1.8217 1.9046 -- 143 2680 0.1203 0.142 -- 98.0
X Ray Diffraction 1.9046 2.005 -- 145 2701 0.119 0.1569 -- 98.0
X Ray Diffraction 2.005 2.1306 -- 142 2726 0.1302 0.1354 -- 99.0
X Ray Diffraction 2.1306 2.295 -- 145 2729 0.1316 0.1641 -- 99.0
X Ray Diffraction 2.295 2.5259 -- 147 2763 0.1469 0.1559 -- 99.0
X Ray Diffraction 2.5259 2.8912 -- 147 2784 0.1602 0.1766 -- 99.0
X Ray Diffraction 2.8912 3.6418 -- 149 2841 0.1568 0.1646 -- 100.0
X Ray Diffraction 3.6418 31.51 -- 154 2973 0.1821 0.1609 -- 98.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 11.77
Anisotropic B[1][1] 0.8311
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.8311
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.6621
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.01
f_chiral_restr 0.099
f_dihedral_angle_d 19.032
f_angle_d 1.612
f_bond_d 0.014
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1551
Nucleic Acid Atoms 0
Heterogen Atoms 61
Solvent Atoms 411

Software

Computing
Computing Package Purpose
XDS, VERSION JAN 30 2009 2009 Data Reduction (intensity integration)
SCALA, VERSION 3.3.16 Data Reduction (data scaling)
SHARP Structure Solution
PHENIX (PHENIX.REFINE) Structure Refinement
Software
Software Name Purpose
PHENIX version: (PHENIX.REFINE) refinement
SHARP model building