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Crystal Structure of the Glutaredoxin-like Protein SH3BGRL3 at 1.6 A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1J0F PDB ENTRY 1J0F
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 277 Ammonium sulfate, Na-acetate, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 1.97 36.93
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 29.624 α = 90 b = 80.38 β = 93.96 c = 34.66 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC QUANTUM 4 2002-06-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 0.934 ESRF ID14-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.6 34.5 99.4 0.098 13.1 21080 18915 0.5
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.6 1.64 100 0.331 5.3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1J0F 1.6 34.5 1 21080 18915 2139 100 0.202 0.20199 0.19719 0.2035 0.24426 0.2438 RANDOM 19.205
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] -0.56 0.9 -2.08 2.77
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 5.456 r_dihedral_angle_1_deg 5.313 r_angle_other_deg 3.823 r_scbond_it 3.49 r_mcangle_it 2.196 r_angle_refined_deg 2.012 r_mcbond_it 1.303 r_symmetry_vdw_other 0.33 r_nbd_other 0.287 r_symmetry_vdw_refined 0.275
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 5.456 r_dihedral_angle_1_deg 5.313 r_angle_other_deg 3.823 r_scbond_it 3.49 r_mcangle_it 2.196 r_angle_refined_deg 2.012 r_mcbond_it 1.303 r_symmetry_vdw_other 0.33 r_nbd_other 0.287 r_symmetry_vdw_refined 0.275 r_nbd_refined 0.259 r_xyhbond_nbd_refined 0.163 r_chiral_restr 0.14 r_nbtor_other 0.107 r_symmetry_hbond_refined 0.092 r_bond_refined_d 0.022 r_gen_planes_other 0.013 r_gen_planes_refined 0.008 r_bond_other_d
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1468 Nucleic Acid Atoms Solvent Atoms 140 Heterogen Atoms 20
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling MOLREP phasing REFMAC refinement