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Crystal structure of heat shock regulator from Pyrococcus furiosus
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1XNP PDB ENTRY 1XNP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.6 298 1.5 M lithium sulfate, 25% ethylene glycol, 0.1 M sodium acetate, pH 4.6, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.58 52.32
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.389 α = 90 b = 82.854 β = 90 c = 114.492 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 315 mirrors 2006-03-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.91980 ESRF ID23-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.47 38.66 96.2 0.086 0.086 17.87 12.7 17812 17812 -3 74
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.47 2.51 73.3 0.634 0.634 5.79 6.2 682
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 1XNP 2.6 38.66 14972 14972 786 98.79 0.255 0.25239 0.2419 0.30517 0.2889 RANDOM 32.156
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] 3.42 -0.39 -3.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.371 r_dihedral_angle_3_deg 22.825 r_dihedral_angle_4_deg 19.663 r_dihedral_angle_1_deg 6.007 r_scangle_it 4.309 r_scbond_it 2.603 r_angle_refined_deg 2.128 r_mcangle_it 1.209 r_mcbond_it 0.828 r_nbtor_refined 0.332
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.371 r_dihedral_angle_3_deg 22.825 r_dihedral_angle_4_deg 19.663 r_dihedral_angle_1_deg 6.007 r_scangle_it 4.309 r_scbond_it 2.603 r_angle_refined_deg 2.128 r_mcangle_it 1.209 r_mcbond_it 0.828 r_nbtor_refined 0.332 r_symmetry_vdw_refined 0.316 r_symmetry_hbond_refined 0.288 r_nbd_refined 0.27 r_xyhbond_nbd_refined 0.202 r_chiral_restr 0.121 r_bond_refined_d 0.032 r_gen_planes_refined 0.007 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 3308 Nucleic Acid Atoms Solvent Atoms 47 Heterogen Atoms 5
Software Software Software Name Purpose REFMAC refinement MxCuBE data collection HKL-2000 data reduction HKL-2000 data scaling PHASER phasing