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Crystal Structure of Biotin Carboxylase from Pseudomonas aeruginosa complexed with AMPCP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1DV2 PDB ENTRY 1DV2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 0.1M HEPES (PH 7.0), 0.2M MGCL2, 15-20% PEG3350
Crystal Properties Matthews coefficient Solvent content 1.97 37.02
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.227 α = 90 b = 126.786 β = 90 c = 49.878 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 2007-05-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RUH2R
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 2.4 20 96 0.07 22.9 5.2 15777
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 2.4 2.49 83.9 0.35 2.86 3.2
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 PDB ENTRY 1DV2 2.41 63.37 14953 791 95.7 0.182 0.178 0.1998 0.252 RANDOM 33.49
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] 1.51 0.21 -1.73
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.85 r_dihedral_angle_4_deg 16.911 r_dihedral_angle_3_deg 15.604 r_dihedral_angle_1_deg 5.853 r_scangle_it 1.503 r_angle_refined_deg 1.212 r_scbond_it 1.021 r_angle_other_deg 0.758 r_mcangle_it 0.619 r_mcbond_it 0.543
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.85 r_dihedral_angle_4_deg 16.911 r_dihedral_angle_3_deg 15.604 r_dihedral_angle_1_deg 5.853 r_scangle_it 1.503 r_angle_refined_deg 1.212 r_scbond_it 1.021 r_angle_other_deg 0.758 r_mcangle_it 0.619 r_mcbond_it 0.543 r_nbd_refined 0.188 r_symmetry_vdw_other 0.182 r_nbd_other 0.176 r_symmetry_hbond_refined 0.172 r_nbtor_refined 0.165 r_xyhbond_nbd_refined 0.149 r_symmetry_vdw_refined 0.147 r_nbtor_other 0.082 r_chiral_restr 0.065 r_bond_refined_d 0.009 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001 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 3412 Nucleic Acid Atoms Solvent Atoms 232 Heterogen Atoms 33
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing