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Binary enzyme-product 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 54.17
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 125.445 α = 90 b = 125.445 β = 90 c = 72.339 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 ADSC QUANTUM 4 Diamond (111), Ge(220) 2003-02-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 0.9322 ESRF ID14-1
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 1.85 19.83 99.9 0.083 0.083 6.7 3.4 108560 108560 20.98
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) 1.85 1.95 99.7 0.474 0.474 1.8 3.1 15302
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 1.85 19.84 103138 103138 5422 100 0.19771 0.19771 0.19522 0.1987 0.24381 0.2399 RANDOM 27.257
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] -0.01 -0.01 -0.01 0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 7.397 r_scangle_it 4.911 r_scbond_it 3.334 r_mcangle_it 2.247 r_angle_refined_deg 1.901 r_mcbond_it 1.323 r_symmetry_vdw_refined 0.517 r_metal_ion_refined 0.402 r_nbd_refined 0.316 r_chiral_restr 0.148
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 7.397 r_scangle_it 4.911 r_scbond_it 3.334 r_mcangle_it 2.247 r_angle_refined_deg 1.901 r_mcbond_it 1.323 r_symmetry_vdw_refined 0.517 r_metal_ion_refined 0.402 r_nbd_refined 0.316 r_chiral_restr 0.148 r_bond_refined_d 0.022 r_gen_planes_refined 0.01
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7770 Nucleic Acid Atoms Solvent Atoms 877 Heterogen Atoms 30
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction CCP4 data scaling MOLREP phasing