2L48
Solution structure of the PlyG cell wall binding domain
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 3D_15N-separated_NOESY | 1.25 mM [U-100% 13C; U-100% 15N] PlyG, 20 mM [U-99% 2H] Bis-Tris, 90% H2O, 10% D2O | 90% H2O/10% D2O | 13 | 6.0 | AMBIENT | 298 | |
2 | 3D_13C-separated_NOESY | 1.25 mM [U-100% 13C; U-100% 15N] PlyG, 20 mM [U-99% 2H] Bis-Tris, 90% H2O, 10% D2O | 90% H2O/10% D2O | 13 | 6.0 | AMBIENT | 298 | |
3 | 3D_13C-separated_NOESY (AROMATIC) | 1.25 mM [U-100% 13C; U-100% 15N] PlyG, 20 mM [U-99% 2H] Bis-Tris, 90% H2O, 10% D2O | 90% H2O/10% D2O | 13 | 6.0 | AMBIENT | 298 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | DRX | 600 |
NMR Refinement | ||
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Method | Details | Software |
AUTOMATED METHODS WERE USED FOR BACKBONE CHEMICAL SHIFT ASSIGNMENT AND ITERATIVE NOE REFINEMENT. FINAL STRUCTURES WERE OBTAINED BY MOLECULAR DYNAMICS IN EXPLICIT SOLVENT, AUTOMATED METHODS WERE USED FOR BACKBONE CHEMICAL SHIFT ASSIGNMENT AND ITERATIVE NOE REFINEMENT. FINAL STRUCTURES WERE OBTAINED BY MOLECULAR DYNAMICS IN EXPLICIT SOLVENT | HOMODIMER STRUCTURES ARE BASED ON A TOTAL OF 3966 NOE CONSTRAINTS (704 INTRA, 726 SEQUENTIAL, 958 MEDIUM and 1442 INTRAMONOMER LONG RANGE AND 136 INTERMONOMER CONSTRAINTS) AND 220 PHI AND PSI DIHEDRAL ANGLE CONSTRAINTS. CONSTRAINTS WERE ASSIGNED AND VALIDATED IN ONE MONOMER AND THEN DUPLICATD TO GENERATE A SYMMETRY RELATED CONSTRAINT IN THE SECOND MONOMER. CONSTRAINT TOTALS LISTED ABOVE INCLUDE CONTRAINTS FROM BOTH MONOMERS, HOMODIMER STRUCTURES ARE BASED ON A TOTAL OF 3966 NOE CONSTRAINTS (704 INTRA, 726 SEQUENTIAL, 958 MEDIUM and 1422 INTRAMONOMER LONG RANGE AND 136 INTERMONOMER CONSTRAINTS) AND 220 PHI AND PSI DIHEDRAL ANGLE CONSTRAINTS. CONSTRAINTS WERE ASSIGNED AND VALIDATED IN ONE MONOMER AND THEN DUPLICATD TO GENERATE A SYMMETRY RELATED CONSTRAINT IN THE SECOND MONOMER. CONSTRAINT TOTALS LISTED ABOVE INCLUDE CONTRAINTS FROM BOTH MONOMERS | Xplor-NIH |
NMR Ensemble Information | |
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Conformer Selection Criteria | target function |
Conformers Calculated Total Number | 100 |
Conformers Submitted Total Number | 20 |
Representative Model | 1 (lowest energy) |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | refinement | Xplor-NIH | 2.9.3 | SCHWIETERS,C.D.,KUSZEWSKI,J.J.,TJANDRA,N.,CLORE,G.M. |
2 | collection | TopSpin | 2.1 | Bruker |
3 | processing | NMRPipe | 2007 | Delagio,F. et al. |
4 | data analysis | XEASY | 1.3 | Eccles, C., Guntert, P., Billeter, M., Wuthrich, K. |
5 | data analysis | GARANT | 2.1 | C. Bartels |
6 | structural calculation | CYANA | 2.1 | Guntert, P. |