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Caf1M periplasmic chaperone tetramer
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1P5V Caf1M (chain A) from pdb entry 1p5v
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 293 8% PEG 6000 in 50 mM Tris-HCl pH 8.0-8.3, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.35 47.75
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 141.092 α = 90 b = 174.267 β = 90 c = 60.58 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 MARMOSAIC 225 mm CCD 2004-01-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 0.933 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 2.9 200 99.9 0.165 3.8 6 33968 65.1
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 2.9 3.16 99.9 0.4 3.8 6 3722
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 Caf1M (chain A) from pdb entry 1p5v 2.9 30 32199 32199 1720 99.83 0.25157 0.24906 0.2472 0.29843 0.2975 RANDOM 45.389
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] -5.28 1.45 3.82
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.576 r_dihedral_angle_4_deg 20.647 r_dihedral_angle_3_deg 20.486 r_dihedral_angle_1_deg 7.747 r_scangle_it 2.091 r_angle_refined_deg 1.654 r_scbond_it 1.257 r_mcangle_it 0.944 r_mcbond_it 0.541 r_nbtor_refined 0.322
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.576 r_dihedral_angle_4_deg 20.647 r_dihedral_angle_3_deg 20.486 r_dihedral_angle_1_deg 7.747 r_scangle_it 2.091 r_angle_refined_deg 1.654 r_scbond_it 1.257 r_mcangle_it 0.944 r_mcbond_it 0.541 r_nbtor_refined 0.322 r_symmetry_vdw_refined 0.291 r_symmetry_hbond_refined 0.246 r_nbd_refined 0.238 r_xyhbond_nbd_refined 0.15 r_chiral_restr 0.098 r_bond_refined_d 0.017 r_gen_planes_refined 0.005 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9426 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection MOSFLM data reduction CCP4 data scaling MOLREP phasing