X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7.4
Details 200 NL OF PROTEIN AT 12 MG/ML IN 1 MM CYCLOSERINE MIXED WITH 200 NL OF RESERVOIR CONSISTING OF 0.1 M HEPES PH 7.5, 150-300 MM NACL AND 22.5-27.5% PEG 4000

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 61.35 α = 105.27
b = 62.12 β = 90.66
c = 119.24 γ = 104.43
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH MULTILAYER MIRROR, VERTICALLY FOCUSING 2011-06-06
Diffraction Radiation
Monochromator Protocol
BENT SI (111) CRYSTAL, HORIZONTALLY FOCUSING SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON MAX II BEAMLINE I911-2 -- MAX_II I911-2

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
2.4 30 95.5 0.1 -- -- 2.3 -- 61839 -- 0.0 27.53
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)
2.4 2.45 82.6 0.5 -- 2.1 2.2 --

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 2.4 26.391 -- 1.99 -- 61746 3139 96.39 -- 0.1763 0.1729 0.2394 --
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 2.4 2.4375 -- 147 2541 0.2345 0.3335 -- 92.0
X Ray Diffraction 2.4375 2.4774 -- 117 2688 0.2381 0.3097 -- 96.0
X Ray Diffraction 2.4774 2.5201 -- 132 2624 0.2337 0.3817 -- 96.0
X Ray Diffraction 2.5201 2.5659 -- 127 2674 0.2364 0.3795 -- 96.0
X Ray Diffraction 2.5659 2.6152 -- 140 2651 0.2178 0.346 -- 96.0
X Ray Diffraction 2.6152 2.6685 -- 162 2631 0.2204 0.3231 -- 96.0
X Ray Diffraction 2.6685 2.7265 -- 120 2676 0.2102 0.3048 -- 96.0
X Ray Diffraction 2.7265 2.7898 -- 120 2723 0.2108 0.2876 -- 97.0
X Ray Diffraction 2.7898 2.8595 -- 142 2626 0.1964 0.2859 -- 96.0
X Ray Diffraction 2.8595 2.9368 -- 155 2677 0.1875 0.2769 -- 97.0
X Ray Diffraction 2.9368 3.0231 -- 166 2646 0.1779 0.2538 -- 97.0
X Ray Diffraction 3.0231 3.1205 -- 125 2710 0.1793 0.2591 -- 97.0
X Ray Diffraction 3.1205 3.2318 -- 139 2706 0.1733 0.2265 -- 97.0
X Ray Diffraction 3.2318 3.361 -- 147 2654 0.1733 0.2427 -- 97.0
X Ray Diffraction 3.361 3.5136 -- 156 2684 0.1745 0.2659 -- 97.0
X Ray Diffraction 3.5136 3.6984 -- 164 2658 0.173 0.2339 -- 97.0
X Ray Diffraction 3.6984 3.9294 -- 140 2685 0.1452 0.2016 -- 97.0
X Ray Diffraction 3.9294 4.2317 -- 145 2699 0.1393 0.1955 -- 97.0
X Ray Diffraction 4.2317 4.6554 -- 166 2659 0.1289 0.1772 -- 97.0
X Ray Diffraction 4.6554 5.3242 -- 143 2670 0.1407 0.1989 -- 97.0
X Ray Diffraction 5.3242 6.6899 -- 147 2691 0.1631 0.2056 -- 97.0
X Ray Diffraction 6.6899 26.3927 -- 139 2634 0.1543 0.1687 -- 95.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 4.487
Anisotropic B[1][2] 4.6434
Anisotropic B[1][3] 2.0306
Anisotropic B[2][2] -1.734
Anisotropic B[2][3] -4.874
Anisotropic B[3][3] -2.753
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 0.639
f_dihedral_angle_d 12.732
f_chiral_restr 0.038
f_plane_restr 0.002
f_bond_d 0.002
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 13841
Nucleic Acid Atoms 0
Heterogen Atoms 30
Solvent Atoms 528

Software

Software
Software Name Purpose
PHENIX refinement version: (PHENIX.REFINE)
XDS data reduction
XSCALE data scaling
PHENIX phasing