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DDAH1 complexed with L-257
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other PART-REFINED DDAH1, IN-HOUSE COORDINATES
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 289 PROTEIN: 20MG/ML IN 20MM TRIS-HCL PH 8.0, 150MM NACL, 1MM DTT. PRECIPITANT: 50MM TRIS-HCL PH 8.5, 150-300MM SODIUM ACETATE, 20-30% W/V PEG4000, 1MM DTT CO-CRYSTALLISED WITH 10MM LIGAND IN PRECIPITATING SOLUTION EXPT:SITTING DROPS UNDER MINERAL OIL AT 16DEG C
Crystal Properties Matthews coefficient Solvent content 2.46 49
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.849 α = 90 b = 46.914 β = 94.56 c = 147.612 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 CCD 2005-06-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 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 33.9 94.1 0.06 8.2 4.3 39147
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 2.11 86.8 0.15 2.2 4.4
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 Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PART-REFINED DDAH1, IN-HOUSE COORDINATES 2 30 37137 2005 93.6 0.214 0.211 0.2128 0.263 RANDOM 38.64
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] 2.58 -1.07 -0.16 -2.59
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.074 r_dihedral_angle_4_deg 19.887 r_dihedral_angle_3_deg 15.098 r_dihedral_angle_1_deg 6.997 r_scangle_it 3.58 r_scbond_it 2.408 r_angle_refined_deg 1.669 r_mcangle_it 1.419 r_mcbond_it 0.967 r_nbtor_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.074 r_dihedral_angle_4_deg 19.887 r_dihedral_angle_3_deg 15.098 r_dihedral_angle_1_deg 6.997 r_scangle_it 3.58 r_scbond_it 2.408 r_angle_refined_deg 1.669 r_mcangle_it 1.419 r_mcbond_it 0.967 r_nbtor_refined 0.306 r_symmetry_vdw_refined 0.224 r_symmetry_hbond_refined 0.217 r_nbd_refined 0.208 r_xyhbond_nbd_refined 0.185 r_chiral_restr 0.113 r_bond_refined_d 0.017 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_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 4058 Nucleic Acid Atoms Solvent Atoms 281 Heterogen Atoms 32
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing