2QF4

High resolution structure of the major periplasmic domain from the cell shape-determining filament MreC (orthorhombic form)


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP4.62980.1M Na Acetate pH 4.6, 0.2M Ammonium sulfate, 12.5% PEG 4000, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
2.1843.47

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 50.247α = 90
b = 70.362β = 90
c = 89.763γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 2102006-07-15MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALS BEAMLINE 8.2.21.00000ALS8.2.2

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)R Sym I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
11.255.38599.70.0570.0578.33.899707
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.21.2698.80.4720.4721.63.614257

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONSADTHROUGHOUT1.255.38599637498399.60.1450.1450.1440.167RANDOM10.26
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
-0.330.4-0.07
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.728
r_dihedral_angle_4_deg19.184
r_dihedral_angle_1_deg13.21
r_dihedral_angle_3_deg12.784
r_sphericity_free7.169
r_scangle_it4.914
r_sphericity_bonded3.973
r_scbond_it3.662
r_angle_other_deg3.131
r_mcangle_it2.448
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.728
r_dihedral_angle_4_deg19.184
r_dihedral_angle_1_deg13.21
r_dihedral_angle_3_deg12.784
r_sphericity_free7.169
r_scangle_it4.914
r_sphericity_bonded3.973
r_scbond_it3.662
r_angle_other_deg3.131
r_mcangle_it2.448
r_mcbond_it2.024
r_rigid_bond_restr1.837
r_angle_refined_deg1.674
r_mcbond_other0.698
r_symmetry_vdw_other0.312
r_symmetry_hbond_refined0.304
r_symmetry_vdw_refined0.272
r_nbd_refined0.224
r_nbd_other0.196
r_xyhbond_nbd_refined0.196
r_nbtor_refined0.165
r_chiral_restr0.139
r_nbtor_other0.096
r_bond_refined_d0.014
r_gen_planes_refined0.007
r_bond_other_d0.002
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2498
Nucleic Acid Atoms
Solvent Atoms439
Heterogen Atoms17

Software

Software
Software NamePurpose
SCALAdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
ADSCdata collection
MOSFLMdata reduction
SOLVEphasing