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Structure of Cu(II)azurin with the metal-binding loop sequence "CTFPGHSALM" replaced with "CTPHPM"
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4AZU PDB ENTRY 4AZU, Chain A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 293 0.1MM MES, 20% PEG6000, 0.2M LiCl, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 1.86 34.01
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.788 α = 90 b = 51.788 β = 90 c = 75.553 γ = 90
Symmetry Space Group P 43 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 MARRESEARCH 2005-10-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SRS BEAMLINE PX10.1 1.075 SRS PX10.1
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 1.25 32.953 99.9 0.06 0.06 5.8 10 29176 29176 11.35
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) 1.25 1.32 99.7 0.291 0.291 6.1 9.2 4155
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 (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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 4AZU, Chain A 1.25 32.95 29117 29117 1488 99.87 0.129 0.129 0.127 0.1363 0.155 0.1612 RANDOM 10.608
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] -0.35 -0.35 0.71
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.112 r_dihedral_angle_4_deg 16.03 r_sphericity_free 11.137 r_dihedral_angle_3_deg 10.233 r_sphericity_bonded 6.964 r_dihedral_angle_1_deg 6.563 r_scangle_it 4.55 r_scbond_it 3.594 r_mcangle_it 2.735 r_mcbond_it 2.034
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.112 r_dihedral_angle_4_deg 16.03 r_sphericity_free 11.137 r_dihedral_angle_3_deg 10.233 r_sphericity_bonded 6.964 r_dihedral_angle_1_deg 6.563 r_scangle_it 4.55 r_scbond_it 3.594 r_mcangle_it 2.735 r_mcbond_it 2.034 r_angle_refined_deg 1.748 r_rigid_bond_restr 1.675 r_mcbond_other 1.115 r_angle_other_deg 0.897 r_symmetry_vdw_refined 0.311 r_symmetry_vdw_other 0.299 r_symmetry_hbond_refined 0.231 r_nbd_refined 0.228 r_xyhbond_nbd_refined 0.19 r_nbd_other 0.183 r_nbtor_refined 0.173 r_chiral_restr 0.121 r_nbtor_other 0.088 r_bond_refined_d 0.018 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 944 Nucleic Acid Atoms Solvent Atoms 168 Heterogen Atoms 1
Software Software Software Name Purpose SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction MOSFLM data reduction CCP4 data scaling AMoRE phasing