4EDP

1.85 Angstrom resolution crystal structure of an ABC transporter from Clostridium perfringens ATCC 13124


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1A99PDB ENTRY 1A99

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7295crystallization condition: 2M NH4 Citrate pH 7.0,0.1MBis-Tris Propane. Paratone used for cryoprotection, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties
Matthews coefficientSolvent content
2.6553.55

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 56.318α = 90
b = 50.743β = 98.83
c = 143.774γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 300 mm CCDBe-Lenses2012-03-17MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 21-ID-G0.97856APS21-ID-G

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
11.853099.90.07617.174.66859768597-3
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)
11.851.8899.40.5732.843387

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 1A991.8529.16510665106347599.540.164260.162790.1909RANDOM17.842
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]
-5.836.78-2.718.54
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.817
r_dihedral_angle_3_deg8.781
r_dihedral_angle_4_deg8.307
r_scangle_it4.568
r_dihedral_angle_1_deg2.848
r_scbond_it2.728
r_mcangle_it1.574
r_angle_refined_deg1.471
r_angle_other_deg0.868
r_mcbond_it0.868
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.817
r_dihedral_angle_3_deg8.781
r_dihedral_angle_4_deg8.307
r_scangle_it4.568
r_dihedral_angle_1_deg2.848
r_scbond_it2.728
r_mcangle_it1.574
r_angle_refined_deg1.471
r_angle_other_deg0.868
r_mcbond_it0.868
r_mcbond_other0.278
r_chiral_restr0.098
r_bond_refined_d0.01
r_gen_planes_refined0.006
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4910
Nucleic Acid Atoms
Solvent Atoms678
Heterogen Atoms40

Software

Software
Software NamePurpose
Blu-Icedata collection
BALBESphasing
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling