3SKY

2.1A crystal structure of the phosphate bound ATP binding domain of Archaeoglobus fulgidus COPB


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP8.52980.2M CH3COONH4, 0.1 M Tris pH 8.5, 25 % w/v PEG 3350, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
1.9938.13

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 35.761α = 90
b = 62.909β = 90
c = 106.539γ = 90
Symmetry
Space GroupP 2 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 325 mm CCD2011-05-07MMAR325
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSSRL BEAMLINE BL9-20.97900SSRLBL9-2

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
12.1106.5499.60.04518.76.811465914659
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)
12.12.17980.2694.86.69

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (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 REPLACEMENTTHROUGHOUT2.1106.54146591382473498.790.216730.214270.2641RANDOM35.795
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]
2.080.54-2.63
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.947
r_dihedral_angle_3_deg15.942
r_dihedral_angle_4_deg10.378
r_dihedral_angle_1_deg5.985
r_scangle_it3.114
r_scbond_it1.88
r_angle_refined_deg1.284
r_mcangle_it1.173
r_angle_other_deg0.83
r_mcbond_it0.65
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.947
r_dihedral_angle_3_deg15.942
r_dihedral_angle_4_deg10.378
r_dihedral_angle_1_deg5.985
r_scangle_it3.114
r_scbond_it1.88
r_angle_refined_deg1.284
r_mcangle_it1.173
r_angle_other_deg0.83
r_mcbond_it0.65
r_mcbond_other0.149
r_chiral_restr0.074
r_bond_refined_d0.013
r_gen_planes_refined0.005
r_bond_other_d0.001
r_gen_planes_other0.001
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1977
Nucleic Acid Atoms
Solvent Atoms92
Heterogen Atoms18

Software

Software
Software NamePurpose
Blu-Icedata collection
Startingmodel building
REFMACrefinement
CrystalCleardata reduction
CrystalCleardata scaling
Startingphasing