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Ternary enzyme-product-inhibitor complexes of human MMP12
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1JK3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 298 Tris, PEG6000, pH 8.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.71 54.28
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 123.839 α = 90 b = 123.839 β = 90 c = 69.73 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 Si (111) mirrors 2002-12-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID13 0.9322 ESRF ID13
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 2.15 107 99.9 0.076 0.076 7.3 7.2 64964 64964 34
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) 2.15 2.27 99.9 0.078 0.078 1.9 4.6 9418
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 1JK3 2.15 69.01 61741 61741 3296 100 0.21455 0.21455 0.21153 0.2159 0.27099 0.2661 RANDOM 36.148
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] -0.02 -0.01 -0.02 0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 9.963 r_scangle_it 6.14 r_scbond_it 4.425 r_angle_refined_deg 2.763 r_mcangle_it 2.718 r_mcbond_it 1.667 r_metal_ion_refined 0.482 r_symmetry_vdw_refined 0.452 r_nbd_refined 0.312 r_chiral_restr 0.233
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 9.963 r_scangle_it 6.14 r_scbond_it 4.425 r_angle_refined_deg 2.763 r_mcangle_it 2.718 r_mcbond_it 1.667 r_metal_ion_refined 0.482 r_symmetry_vdw_refined 0.452 r_nbd_refined 0.312 r_chiral_restr 0.233 r_bond_refined_d 0.035 r_gen_planes_refined 0.014
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7770 Nucleic Acid Atoms Solvent Atoms 308 Heterogen Atoms 54
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction CCP4 data scaling MOLREP phasing