2AR1

Structure of Hypothetical protein from Leishmania major


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP62731.0 ul protein 8.2 mg/ml 1.0 ul crystallization buffer 2.8 M Na Malonate, pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 273K
Crystal Properties
Matthews coefficientSolvent content
1.831.4

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 31.199α = 90
b = 64.607β = 90
c = 72.559γ = 90
Symmetry
Space GroupP 21 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 2102004-12-02MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSSRL BEAMLINE BL11-3SSRLBL11-3

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
11.65095.30.04110.0682.91993318997
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)
11.61.6594.60.6931.603

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 (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTlow resolution MAD structure1.60229.514189951899597494.9130.1870.1870.1850.2294random19.803
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]
0.5170.395-0.912
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.257
r_dihedral_angle_4_deg16.553
r_dihedral_angle_3_deg14.551
r_dihedral_angle_1_deg6.669
r_scangle_it5.175
r_scbond_it3.936
r_scangle_other2.573
r_mcbond_it2.559
r_mcangle_it2.506
r_angle_refined_deg1.927
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.257
r_dihedral_angle_4_deg16.553
r_dihedral_angle_3_deg14.551
r_dihedral_angle_1_deg6.669
r_scangle_it5.175
r_scbond_it3.936
r_scangle_other2.573
r_mcbond_it2.559
r_mcangle_it2.506
r_angle_refined_deg1.927
r_scbond_other1.77
r_mcangle_other1.228
r_angle_other_deg0.917
r_mcbond_other0.581
r_symmetry_hbond_refined0.314
r_symmetry_vdw_other0.273
r_nbd_refined0.22
r_nbd_other0.209
r_symmetry_vdw_refined0.201
r_nbtor_refined0.184
r_xyhbond_nbd_refined0.154
r_chiral_restr0.118
r_nbtor_other0.088
r_bond_refined_d0.021
r_gen_planes_refined0.01
r_bond_other_d0.005
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1297
Nucleic Acid Atoms
Solvent Atoms99
Heterogen Atoms6

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
PDB_EXTRACTdata extraction
MOLREPphasing
REFMACrefinement