8XZ2 | pdb_00008xz2

The structural model of a homodimeric D-Ala-D-Ala metallopeptidase, VanX, from vancomycin-resistant bacteria

SOLUTION NMR

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NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	1H/15N TROSY IPAP	0.154 mM [U-13C; U-15N; U-2H] VanX	90% H2O/10% D2O	50 mM	7	1 atm	303	Bruker AVANCE III HD 800
2	Transfer cross saturation	0.154 mM [U-13C; U-15N; U-2H] VanX	90% H2O/10% D2O	50 mM	7	1 atm	303	Bruker AVANCE III HD 500

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	AVANCE III HD	800
2	Bruker	AVANCE III HD	500

NMR Refinement
Method	Details	Software
molecular dynamics	In total, 132 RDC-based orientational restraints and seven TCS-based intersubunit ambiguous restraints were imposed in the calculations. The latter restraints involved residues in segments B (selected from residues exhibiting remarkable TCS effects) and C (selected from residues exhibiting both remarkable and minor TCS effects). These constraints were applied c2-symmetrically between the subunits B and C in the calculations.	HADDOCK

NMR Ensemble Information
Conformer Selection Criteria	structures with the lowest energy
Conformers Calculated Total Number	200
Conformers Submitted Total Number	4
Representative Model	1 (lowest energy)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	structure calculation	HADDOCK	2.4	Bonvin
2	data analysis	PALES		Zweckstetter M and Bax A
3	peak picking	NMRFAM-SPARKY		Lee W, Tonelli M, and Markley JL.
4	processing	NMRPipe		Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax