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Pseudoazurin with engineered amicyanin ligand loop, reduced form, pH 7.5
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1BQK PDB ENTRY 1BQK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 HANGING DROP VAPOR DIFFUSION METHOD, 1 MICRO-L OF PROTEIN (20MG/ML IN 50 MM TRIS/HCL PLUS 30 MM NACL) WERE MIXED WITH 1 MICRO-L RESORVOIR SOLUTION (10 MM TRIS/HCL PLUS 2 M AMMONIUM SULFATE AND 2 M NACL). THE CRYSTALS WERE REDUCED BY ADDING 50 MM MERCAPTOETHANOL TO THE RESERVOIR SOLUTION AND BECAME COLORLESS AFTER 3 HOURS., pH 7.5
Crystal Properties Matthews coefficient Solvent content 2.12 41.61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 105.756 α = 90 b = 105.756 β = 90 c = 57.28 γ = 120
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 MIRRORS 2006-10-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MPG/DESY, HAMBURG BEAMLINE BW6 MPG/DESY, HAMBURG BW6
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 1.3 50 97.6 0.094 15.7 15.2 29429 2
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 1.3 1.35 94 0.39 3.6 11.7
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 1BQK 1.3 30 27910 1503 97.6 0.192 0.192 0.2202 0.201 0.2259 RANDOM 19.47
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] -0.66 -0.33 -0.66 0.99
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.117 r_dihedral_angle_3_deg 13.19 r_dihedral_angle_1_deg 6.096 r_dihedral_angle_4_deg 5.912 r_scangle_it 2.793 r_scbond_it 1.798 r_angle_refined_deg 1.184 r_mcangle_it 1.126 r_mcbond_it 0.756 r_symmetry_hbond_refined 0.384
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.117 r_dihedral_angle_3_deg 13.19 r_dihedral_angle_1_deg 6.096 r_dihedral_angle_4_deg 5.912 r_scangle_it 2.793 r_scbond_it 1.798 r_angle_refined_deg 1.184 r_mcangle_it 1.126 r_mcbond_it 0.756 r_symmetry_hbond_refined 0.384 r_nbtor_refined 0.309 r_symmetry_vdw_refined 0.243 r_nbd_refined 0.199 r_xyhbond_nbd_refined 0.144 r_chiral_restr 0.077 r_bond_refined_d 0.008 r_gen_planes_refined 0.004 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 903 Nucleic Acid Atoms Solvent Atoms 118 Heterogen Atoms 8
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling MOLREP phasing