2NN5

Structure of Conserved Protein of Unknown Function EF2215 from Enterococcus faecalis


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP6.52940.2 M magnesium chloride, 0.1 M MES buffer, 30% PEG 4000, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 294K
Crystal Properties
Matthews coefficientSolvent content
238.63

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 58.227α = 90
b = 69.03β = 90
c = 86.766γ = 90
Symmetry
Space GroupI 2 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 3152006-04-23MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 19-ID0.979APS19-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
11.4534.5299.90.1136.217313033130323.5
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)
11.451.4898.20.5822.074.71684

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 (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONSADTHROUGHOUT1.4534.523112531125239299.220.15350.15350.15020.1932RANDOM19.501
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]
-0.390.6-0.21
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.509
r_dihedral_angle_3_deg15.293
r_dihedral_angle_4_deg13.803
r_sphericity_free6.817
r_dihedral_angle_1_deg5.73
r_scangle_it5.223
r_sphericity_bonded4.462
r_scbond_it4.322
r_rigid_bond_restr3.677
r_mcangle_it2.661
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.509
r_dihedral_angle_3_deg15.293
r_dihedral_angle_4_deg13.803
r_sphericity_free6.817
r_dihedral_angle_1_deg5.73
r_scangle_it5.223
r_sphericity_bonded4.462
r_scbond_it4.322
r_rigid_bond_restr3.677
r_mcangle_it2.661
r_angle_refined_deg1.9
r_mcbond_it1.891
r_nbtor_refined0.324
r_symmetry_vdw_refined0.299
r_symmetry_hbond_refined0.248
r_nbd_refined0.243
r_xyhbond_nbd_refined0.22
r_chiral_restr0.18
r_bond_refined_d0.017
r_gen_planes_refined0.009
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
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1423
Nucleic Acid Atoms
Solvent Atoms231
Heterogen Atoms10

Software

Software
Software NamePurpose
REFMACrefinement
SBC-Collectdata collection
HKL-2000data reduction
StructureStudiodata collection
SHELXDphasing
MLPHAREphasing
DMphasing
SOLVEphasing
RESOLVEphasing