14VD | pdb_000014vd

Crystal Structure of FtsZ with F6667-0580


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2Q1Xinitial MR model

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
ftsz-228VAPOR DIFFUSION, SITTING DROP52940.1 M ammonium sulfate, 15.6% (w/v) PEG 3350, 0.1 M Bis-Tris pH 5.0.
Crystal Properties
Matthews coefficientSolvent content
2.6453.47

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 88.715α = 90
b = 88.715β = 90
c = 180.552γ = 120
Symmetry
Space GroupP 65

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
ftsz-228ftsz-228x-ray100PIXELDECTRIS EIGER X 9MKB2025-04-06MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
ftsz-228SYNCHROTRONNSLS-II BEAMLINE 17-ID-10.919764NSLS-II17-ID-1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)CC (Half)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
ftsz-2281.92144.3571000.1750.1820.050.99810.413.461073
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
ftsz-2281.9211.9541003.0143.1330.8520.36113.4

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-Work (Depositor)R-Work (DCC)R-Free (Depositor)R-Free (DCC)Mean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1.92144.39761053308999.9080.1830.18140.18920.21060.216935.755
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]
-0.001-0.001-0.0010.005
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg15.909
r_dihedral_angle_3_deg15.175
r_dihedral_angle_6_deg14.462
r_lrange_it9.167
r_lrange_other9.123
r_scangle_it7.703
r_scangle_other7.702
r_dihedral_angle_1_deg6.73
r_scbond_it5.082
r_scbond_other5.081
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg15.909
r_dihedral_angle_3_deg15.175
r_dihedral_angle_6_deg14.462
r_lrange_it9.167
r_lrange_other9.123
r_scangle_it7.703
r_scangle_other7.702
r_dihedral_angle_1_deg6.73
r_scbond_it5.082
r_scbond_other5.081
r_mcangle_other4.516
r_mcangle_it4.515
r_mcbond_it3.205
r_mcbond_other3.201
r_angle_refined_deg1.748
r_angle_other_deg0.616
r_symmetry_nbd_other0.464
r_nbd_refined0.224
r_xyhbond_nbd_refined0.182
r_nbd_other0.182
r_symmetry_xyhbond_nbd_other0.175
r_nbtor_refined0.17
r_symmetry_nbd_refined0.167
r_symmetry_xyhbond_nbd_refined0.146
r_symmetry_nbtor_other0.114
r_chiral_restr0.081
r_bond_refined_d0.008
r_gen_planes_refined0.007
r_bond_other_d0.004
r_gen_planes_other0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4230
Nucleic Acid Atoms
Solvent Atoms309
Heterogen Atoms22

Software

Software
Software NamePurpose
REFMACrefinement
autoPROCdata reduction
Aimlessdata scaling
XDSdata reduction
DIMPLEphasing
PHASERphasing
Cootmodel building
gemmidata extraction