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Cofactor-Independent Phosphoglycerate Mutase from Thermoplasma acidophilum DSM 1728
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.6 298 0.20 M NaCl, 0.10 M phosphate citrate, pH 4.2, 10% PEG 3000, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.13 42.36
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 88.605 α = 90 b = 136.744 β = 90 c = 63.289 γ = 90
Symmetry Space Group P 21 21 2
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 315r 2009-03-08 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97924, 0.97948 APS 19-ID
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 2.6 74.36 99.04 0.098 3.7 24446 22991 1.5 74.33
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) 2.6 2.62 99 0.591 1.5 2.6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) 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 MAD THROUGHOUT 2.8 74.36 18474 995 99.3 0.23439 0.23022 0.2354 0.31106 0.2332 RANDOM 34.466
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] 1.66 -2.08 0.42
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.569 r_dihedral_angle_3_deg 23.704 r_dihedral_angle_4_deg 20.855 r_dihedral_angle_1_deg 6.774 r_scangle_it 3.61 r_scbond_it 2.071 r_angle_refined_deg 1.61 r_mcangle_it 1.43 r_mcbond_it 0.73 r_chiral_restr 0.119
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.569 r_dihedral_angle_3_deg 23.704 r_dihedral_angle_4_deg 20.855 r_dihedral_angle_1_deg 6.774 r_scangle_it 3.61 r_scbond_it 2.071 r_angle_refined_deg 1.61 r_mcangle_it 1.43 r_mcbond_it 0.73 r_chiral_restr 0.119 r_bond_refined_d 0.014 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5585 Nucleic Acid Atoms Solvent Atoms 84 Heterogen Atoms
Software Software Software Name Purpose SBC-Collect data collection MLPHARE phasing REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling