3ZPG

Acinetobacter baumannii RibD, form 2


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3ZPCPDB ENTRY 3ZPC

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
10.2 M AMMONIUM SULFATE, 0.125 M SODIUM CACODYLATE, 30% W/V POLYETHYLENE GLYCOL 8000
Crystal Properties
Matthews coefficientSolvent content
3.1961.53

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 72.998α = 90
b = 72.998β = 90
c = 201.456γ = 90
Symmetry
Space GroupP 43 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATERIGAKU IMAGE PLATEMIRRORS2011-08-15MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU MICROMAX-007 HF

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge 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
11.9951.6299.50.0624.713.338040
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.992.1970.624.112

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-Work (Depositor)R-Work (DCC)R-Free (Depositor)R-Free (DCC)R-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 3ZPC1.9968.6336017189799.40.215080.213930.210.236710.23RANDOM44.915
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]
0.520.52-1.05
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg43.652
r_dihedral_angle_4_deg20.453
r_dihedral_angle_3_deg14.411
r_dihedral_angle_1_deg5.631
r_scangle_it2.808
r_scbond_it1.77
r_angle_refined_deg1.288
r_mcangle_it1.109
r_mcbond_it0.597
r_chiral_restr0.077
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2714
Nucleic Acid Atoms
Solvent Atoms127
Heterogen Atoms81

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
SCALAdata scaling
PHASERphasing