X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.7
Temperature 293.0
Details 3% PEG 4000, 4-6% glycerol, 30 mM magnesium chloride, 30 mM calcium chloride, 100 mM MES/Imidazole, pH 6.7, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 104.77 α = 90
b = 158.64 β = 90
c = 179.24 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL PSI PILATUS 6M -- 2012-01-29
Diffraction Radiation
Monochromator Protocol
LN2 cooled fixed-exit Si(111) monochromator, Sagittally - horizontally focussed SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X06SA 0.99995 SLS X06SA

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
1.8 79.4 -- 0.103 -- -- 13.5 275149 274535 0.0 0.0 33.12
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)
1.8 1.85 99.0 -- -- 1.0 13.1 --

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 1.8 79.32 -- 1.99 274535 274515 13945 99.77 -- 0.1728 0.1711 0.2043 --
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 1.8 1.8205 -- 473 8477 0.3368 0.3455 -- 99.0
X Ray Diffraction 1.8205 1.8419 -- 470 8551 0.3221 0.3327 -- 99.0
X Ray Diffraction 1.8419 1.8643 -- 491 8599 0.3202 0.3468 -- 100.0
X Ray Diffraction 1.8643 1.8879 -- 447 8600 0.3188 0.341 -- 99.0
X Ray Diffraction 1.8879 1.9128 -- 416 8591 0.2997 0.3396 -- 99.0
X Ray Diffraction 1.9128 1.939 -- 490 8594 0.2954 0.327 -- 100.0
X Ray Diffraction 1.939 1.9667 -- 499 8553 0.2752 0.303 -- 100.0
X Ray Diffraction 1.9667 1.9961 -- 478 8600 0.251 0.2642 -- 100.0
X Ray Diffraction 1.9961 2.0272 -- 448 8642 0.2349 0.2611 -- 100.0
X Ray Diffraction 2.0272 2.0605 -- 502 8582 0.229 0.2757 -- 100.0
X Ray Diffraction 2.0605 2.096 -- 448 8621 0.2167 0.2501 -- 100.0
X Ray Diffraction 2.096 2.1341 -- 476 8633 0.1984 0.2351 -- 100.0
X Ray Diffraction 2.1341 2.1752 -- 437 8654 0.1808 0.2213 -- 100.0
X Ray Diffraction 2.1752 2.2196 -- 462 8633 0.1757 0.2162 -- 100.0
X Ray Diffraction 2.2196 2.2679 -- 443 8706 0.1777 0.2113 -- 100.0
X Ray Diffraction 2.2679 2.3206 -- 483 8632 0.1669 0.2152 -- 100.0
X Ray Diffraction 2.3206 2.3786 -- 447 8692 0.1629 0.2017 -- 100.0
X Ray Diffraction 2.3786 2.443 -- 488 8668 0.1541 0.1898 -- 100.0
X Ray Diffraction 2.443 2.5149 -- 444 8668 0.151 0.2032 -- 100.0
X Ray Diffraction 2.5149 2.596 -- 471 8694 0.1626 0.2036 -- 100.0
X Ray Diffraction 2.596 2.6888 -- 448 8736 0.1648 0.2066 -- 100.0
X Ray Diffraction 2.6888 2.7965 -- 485 8662 0.1669 0.217 -- 100.0
X Ray Diffraction 2.7965 2.9238 -- 436 8761 0.1617 0.2083 -- 100.0
X Ray Diffraction 2.9238 3.0779 -- 438 8753 0.16 0.1838 -- 100.0
X Ray Diffraction 3.0779 3.2708 -- 436 8789 0.1686 0.2041 -- 100.0
X Ray Diffraction 3.2708 3.5233 -- 498 8759 0.1701 0.2076 -- 100.0
X Ray Diffraction 3.5233 3.8778 -- 463 8798 0.1544 0.1852 -- 100.0
X Ray Diffraction 3.8778 4.4389 -- 446 8840 0.1265 0.1541 -- 100.0
X Ray Diffraction 4.4389 5.5924 -- 491 8903 0.1283 0.1506 -- 100.0
X Ray Diffraction 5.5924 79.3971 -- 491 9179 0.1868 0.2139 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 3.1254
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.3509
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.1148
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.005
f_chiral_restr 0.069
f_dihedral_angle_d 14.703
f_angle_d 1.179
f_bond_d 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 17547
Nucleic Acid Atoms 0
Heterogen Atoms 265
Solvent Atoms 1522

Software

Computing
Computing Package Purpose
REMDAQ Data Collection
XDS Data Reduction (intensity integration)
XDS Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: 1.7.3_928) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7.3_928) refinement
PHASER model building
REMDAQ data collection