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The crystal structure of a domain from Methanocaldococcus jannaschii DSM 2661
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 289 0.1M NaAcetate, 0.1M MES,
30%(w/v)PEG2000MME, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 2.66 53.71
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 129.374 α = 90 b = 96.871 β = 126.63 c = 83.212 γ = 90
Symmetry Space Group C 1 2 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 mirror 2008-06-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97929 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 2.19 49 98 0.115 16.8 4.1 41356 41356
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 2.2 2.25 93.1 0.666 1.75 3.2 2629
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) 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 SAD THROUGHOUT 2.19 48.45 39150 39150 2072 97.5 0.1976 0.1976 0.19536 0.1982 0.23958 0.243 RANDOM 23.378
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] 0.31 0.27 -0.43 0.43
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.664 r_dihedral_angle_3_deg 18.419 r_dihedral_angle_4_deg 18.402 r_dihedral_angle_1_deg 6.612 r_scangle_it 3.309 r_scbond_it 2.137 r_angle_refined_deg 1.523 r_mcangle_it 1.137 r_mcbond_it 0.599 r_chiral_restr 0.116
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.664 r_dihedral_angle_3_deg 18.419 r_dihedral_angle_4_deg 18.402 r_dihedral_angle_1_deg 6.612 r_scangle_it 3.309 r_scbond_it 2.137 r_angle_refined_deg 1.523 r_mcangle_it 1.137 r_mcbond_it 0.599 r_chiral_restr 0.116 r_bond_refined_d 0.013 r_gen_planes_refined 0.006 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 5325 Nucleic Acid Atoms Solvent Atoms 234 Heterogen Atoms 126
Software Software Software Name Purpose SBC-Collect data collection SHELXD phasing MLPHARE phasing DM model building RESOLVE model building HKL-3000 phasing REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling DM phasing RESOLVE phasing