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Water structure of T. Aquaticus Ffh NG Domain At 1.1A Resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1JPN PDB ENTRY 1JPN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 4.7 30% MPD, 0.1M NAACETATE, PH 4.7, 0.1M MNCL2, 2MM MGCL2
Crystal Properties Matthews coefficient Solvent content 2.3 45.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 109.473 α = 90 b = 54.496 β = 97.72 c = 98.799 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 MARRESEARCH 2000-01-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-1 SSRL BL9-1
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 1.1 18.5 94.6 0.04 30.6 2.6 199458 -3
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 1.1 1.11 80 0.26 2.6 1.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1JPN 1.14 29.84 183740 9676 91.1 0.15 0.149 0.1494 0.172 0.1737 RANDOM 21.12
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.083 r_dihedral_angle_4_deg 16.365 r_dihedral_angle_3_deg 12.99 r_scangle_it 10.239 r_scbond_it 7.838 r_dihedral_angle_1_deg 5.554 r_mcangle_it 4.748 r_mcbond_it 4.379 r_angle_refined_deg 1.621 r_angle_other_deg 0.884
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.083 r_dihedral_angle_4_deg 16.365 r_dihedral_angle_3_deg 12.99 r_scangle_it 10.239 r_scbond_it 7.838 r_dihedral_angle_1_deg 5.554 r_mcangle_it 4.748 r_mcbond_it 4.379 r_angle_refined_deg 1.621 r_angle_other_deg 0.884 r_symmetry_vdw_other 0.34 r_symmetry_vdw_refined 0.25 r_nbd_refined 0.233 r_xyhbond_nbd_refined 0.201 r_nbd_other 0.184 r_nbtor_refined 0.17 r_symmetry_hbond_refined 0.168 r_chiral_restr 0.101 r_nbtor_other 0.08 r_bond_refined_d 0.015 r_gen_planes_refined 0.008 r_gen_planes_other 0.003 r_bond_other_d 0.002 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4563 Nucleic Acid Atoms Solvent Atoms 559 Heterogen Atoms 30
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling