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A 3.02 angstrom crystal structure of wild-type apo GroEL in a monoclinic space group
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1KP8 PDB ENTRY 1kp8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 8 277 0.1 M imidazole, 35% MPD, 0.2 M MgCl2, pH 8.0, VAPOR DIFFUSION, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.23 61.95
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 136.423 α = 90 b = 262.254 β = 99.83 c = 147.074 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 315 2006-04-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.2 0.97 ALS 5.0.2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 3.02 50 99.7 0.087 9.8 3.8 202060 202060
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 3.02 3.13 98.9 0.757 1.02 3.6 20078
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1kp8 3.02 30 198054 188012 10042 99.72 0.22841 0.2266 0.2703 0.26269 0.2952 RANDOM 70.399
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] -1.46 2.6 -3.3 5.65
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.52 r_dihedral_angle_3_deg 17.461 r_dihedral_angle_4_deg 14.941 r_dihedral_angle_1_deg 4.479 r_angle_refined_deg 0.971 r_scangle_it 0.733 r_scbond_it 0.411 r_mcangle_it 0.326 r_nbtor_refined 0.288 r_symmetry_vdw_refined 0.213
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.52 r_dihedral_angle_3_deg 17.461 r_dihedral_angle_4_deg 14.941 r_dihedral_angle_1_deg 4.479 r_angle_refined_deg 0.971 r_scangle_it 0.733 r_scbond_it 0.411 r_mcangle_it 0.326 r_nbtor_refined 0.288 r_symmetry_vdw_refined 0.213 r_symmetry_hbond_refined 0.195 r_mcbond_it 0.194 r_nbd_refined 0.184 r_xyhbond_nbd_refined 0.111 r_chiral_restr 0.066 r_bond_refined_d 0.006 r_gen_planes_refined 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 53970 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling PHASER phasing