2MTZ
Haddock model of Bacillus subtilis L,D-transpeptidase in complex with a peptidoglycan hexamuropeptide
SOLID-STATE NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 13C-13C DARR | 2.5 mg/mL [U-13C; U-15N; U-2H] protein, 3 mg/mL peptide, 50 mM HEPES | 0.05 | 7.2 | ambient | 298 | ||
2 | hCANH | 2.5 mg/mL [U-13C; U-15N; U-2H] protein, 3 mg/mL peptide, 50 mM HEPES | 0.05 | 7.2 | ambient | 298 | ||
3 | hNH | 2.5 mg/mL [U-13C; U-15N; U-2H] protein, 3 mg/mL peptide, 50 mM HEPES | 0.05 | 7.2 | ambient | 298 | ||
4 | 3D HNCA | 376 uM [U-99% 13C; U-99% 15N] protein, 50 mM HEPES | 0.05 | 7.2 | ambient | 298 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Agilent | vnmrs | 600 |
2 | Bruker | AVANCE III | 1000 |
NMR Refinement | ||
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Method | Details | Software |
simulated annealing | HADDOCK STARTING STRUCTURE FOR CHAIN A IS PDB ENTRY 3ZQD. THE PEPTIDOGLYCAN LIGAND STARTING STRUCTURE WAS GENERATED BY CNS. | HADDOCK |
NMR Ensemble Information | |
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Conformer Selection Criteria | target function |
Conformers Calculated Total Number | 200 |
Conformers Submitted Total Number | 5 |
Representative Model | 1 (lowest energy) |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | structure solution | HADDOCK | 2.1 | Alexandre Bonvin |
2 | refinement | HADDOCK | 2.1 | Alexandre Bonvin |