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Mmp13 in complex with a piperazine hydantoin ligand
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 292 27.5% PEG 4000 1.25M AmFormate, 100mM TrisHCl pH 8.5 , VAPOR DIFFUSION, HANGING DROP, temperature 292K
Crystal Properties Matthews coefficient Solvent content 2.23 44.89
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 134.771 α = 90 b = 35.986 β = 134.99 c = 101.492 γ = 90
Symmetry Space Group C 1 2 1
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 RIGAKU SATURN 944 2006-10-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E DW 1.54
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 35.9 94.1 23660 23627 1 2.6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (I) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2 35.9 2.6 2 22254 21114 1140 93.93 0.18002 0.17735 0.2298 0.2225 RANDOM 16.432
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] -0.95 -1.77 0.08 -1.63
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.383 r_dihedral_angle_4_deg 17.685 r_dihedral_angle_3_deg 13.5 r_dihedral_angle_1_deg 5.92 r_scangle_it 1.427 r_angle_refined_deg 1.207 r_scbond_it 0.952 r_angle_other_deg 0.717 r_mcangle_it 0.713 r_mcbond_it 0.381
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.383 r_dihedral_angle_4_deg 17.685 r_dihedral_angle_3_deg 13.5 r_dihedral_angle_1_deg 5.92 r_scangle_it 1.427 r_angle_refined_deg 1.207 r_scbond_it 0.952 r_angle_other_deg 0.717 r_mcangle_it 0.713 r_mcbond_it 0.381 r_nbd_refined 0.196 r_nbtor_refined 0.196 r_symmetry_vdw_other 0.195 r_nbd_other 0.165 r_symmetry_vdw_refined 0.163 r_xyhbond_nbd_refined 0.123 r_symmetry_hbond_refined 0.12 r_metal_ion_refined 0.119 r_nbtor_other 0.082 r_chiral_restr 0.062 r_mcbond_other 0.062 r_bond_refined_d 0.007 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2641 Nucleic Acid Atoms Solvent Atoms 373 Heterogen Atoms 78
Software Software Software Name Purpose SCALA data scaling AMoRE phasing REFMAC refinement PDB_EXTRACT data extraction StructureStudio data collection DENZO data reduction SCALEPACK data scaling d*TREK data scaling