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Solution structure of matrix metalloproteinase 3 (MMP-3) in the presence of N-isobutyl-N-[4-methoxyphenylsulfonyl]glycyl hydroxamic acid (NNGH)
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-1H NOESY 1 mM MMP3, 20 mM TRIS, 300 mM sodium chloride 90% H2O/10% D2O Tris 0.02, NaCl 3 8 ambient 298 2 2D 1H-15N HSQC 1 mM [U-99% 15N] MMP3, 20 mM TRIS, 300 mM sodium chloride 90% H2O/10% D2O Tris 0.02, NaCl 3 8 ambient 298 3 2D 1H-13C HSQC 1 mM [U-98% 13C; U-98% 15N] MMP3, 20 mM TRIS, 300 mM sodium chloride 90% H2O/10% D2O Tris 0.02, NaCl 3 8 ambient 298 4 3D CBCA(CO)NH 1 mM [U-98% 13C; U-98% 15N] MMP3, 20 mM TRIS, 300 mM sodium chloride 90% H2O/10% D2O Tris 0.02, NaCl 3 8 ambient 298 5 3D HNCACB 1 mM [U-98% 13C; U-98% 15N] MMP3, 20 mM TRIS, 300 mM sodium chloride 90% H2O/10% D2O Tris 0.02, NaCl 3 8 ambient 298 6 3D HCCH-TOCSY 1 mM [U-98% 13C; U-98% 15N] MMP3, 20 mM TRIS, 300 mM sodium chloride 90% H2O/10% D2O Tris 0.02, NaCl 3 8 ambient 298 7 3D 1H-15N NOESY 1 mM [U-99% 15N] MMP3, 20 mM TRIS, 300 mM sodium chloride 90% H2O/10% D2O Tris 0.02, NaCl 3 8 ambient 298 8 3D 1H-13C NOESY 1 mM [U-98% 13C; U-98% 15N] MMP3, 20 mM TRIS, 300 mM sodium chloride 90% H2O/10% D2O Tris 0.02, NaCl 3 8 ambient 298 9 3D HNCA 1 mM [U-98% 13C; U-98% 15N] MMP3, 20 mM TRIS, 300 mM sodium chloride 90% H2O/10% D2O Tris 0.02, NaCl 3 8 ambient 298 10 3D HN(CO)CA 1 mM [U-98% 13C; U-98% 15N] MMP3, 20 mM TRIS, 300 mM sodium chloride 90% H2O/10% D2O Tris 0.02, NaCl 3 8 ambient 298 11 Filtered NOESY 1 mM [U-98% 13C; U-98% 15N] MMP3, 20 mM TRIS, 300 mM sodium chloride 90% H2O/10% D2O Tris 0.02, NaCl 3 8 ambient 298 12 3D HNHA 1 mM [U-98% 13C; U-98% 15N] MMP3, 20 mM TRIS, 300 mM sodium chloride 90% H2O/10% D2O Tris 0.02, NaCl 3 8 ambient 298
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker AVANCE 900 2 Bruker AVANCE 800 3 Bruker AVANCE 500
NMR Refinement Method Details Software molecular dynamics TopSpin
NMR Ensemble Information Conformer Selection Criteria target function Conformers Calculated Total Number 400 Conformers Submitted Total Number 25 Representative Model 1 (lowest energy)
Computation: NMR Software # Classification Version Software Name Author 1 collection TopSpin Bruker Biospin 2 data analysis XEASY Bartels et al. 3 data analysis CARA 1.2 Keller and Wuthrich 4 structure solution CYANA Guntert, Mumenthaler and Wuthrich 5 refinement Amber 8 Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, and Koll 6 chemical shift assignment Sparky 3.110 Goddard 7 data analysis Sparky 3.110 Goddard 8 structure solution CSI 2.0 Wishart, D.S. and B.D. Sykes