2VB2

Crystal structure of Cu(I)CusF


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1ZEQPDB ENTRY 1ZEQ

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
172.5M AMMONIUM SULFATE 5% ISOPROPANOL, pH 7
Crystal Properties
Matthews coefficientSolvent content
1.937

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 38.468α = 90
b = 41.264β = 90
c = 44.573γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCHMIRRORS2006-07-03MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 17-IDAPS17-ID

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
11.75096.70.0527.23.582502
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)
11.71.7680.50.2241.9

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (F)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 1ZEQ1.730.282757337096.30.2390.2380.263RANDOM37.13
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]
-0.692.42-1.74
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg52.21
r_dihedral_angle_4_deg21.508
r_dihedral_angle_3_deg12.65
r_dihedral_angle_1_deg6.17
r_scangle_it2.966
r_scbond_it1.804
r_angle_refined_deg1.268
r_mcangle_it1.09
r_mcbond_it0.662
r_nbtor_refined0.3
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg52.21
r_dihedral_angle_4_deg21.508
r_dihedral_angle_3_deg12.65
r_dihedral_angle_1_deg6.17
r_scangle_it2.966
r_scbond_it1.804
r_angle_refined_deg1.268
r_mcangle_it1.09
r_mcbond_it0.662
r_nbtor_refined0.3
r_nbd_refined0.205
r_symmetry_vdw_refined0.202
r_symmetry_hbond_refined0.177
r_xyhbond_nbd_refined0.123
r_chiral_restr0.075
r_bond_refined_d0.009
r_gen_planes_refined0.004
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms582
Nucleic Acid Atoms
Solvent Atoms46
Heterogen Atoms6

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
PHASERphasing