1AJY
STRUCTURE AND MOBILITY OF THE PUT3 DIMER: A DNA PINCER, NMR, 13 STRUCTURES
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | NOESY (1H | 6.5 | 303 | |||||
2 | 13C | 6.5 | 303 | |||||
3 | 15N) | 6.5 | 303 | |||||
4 | TOCSY | 6.5 | 303 | |||||
5 | HNHA | 6.5 | 303 | |||||
6 | HNHB | 6.5 | 303 | |||||
7 | P.COSY | 6.5 | 303 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Varian | UP750 | 750 |
2 | Bruker | AMX600 | 600 |
NMR Refinement | ||
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Method | Details | Software |
molecular dynamics | PROGRAMS WRITTEN BY MICHAEL NILGES FOR SYMMETRIC DIMERS WERE USED (NILGES, M. PROTEINS 17, 297-309 (1993)). STRUCTURES WERE STARTED FROM AN EXTENDED MONOMER CONFORMATION AND RANDOM ROTATIONS WERE MADE AROUND THE PHI-PSI ANGLES. THE MONOMER WAS THEN DUPLICATED AND MOLECULAR DYNAMICS WAS PERFORMED USING NMR DISTANCE RESTRAINTS AND GENERATED SYMMETRY DISTANCE RESTRAINTS. RMSD CALCULATED BY SUPERIMPOSING STRUCTURES ON LOWEST ENERGY STRUCTURE FOR RESIDUES 33-62 OF EACH MONOMER AND 68-98 OF EACH DIMER. RMSD (ANGSTROMS): ATOMS FOR RESIDUES 33-62: 0.55 ATOMS FOR RESIDUES 33-62: 1.1 BACKBONE ATOMS FOR RESIDUES 68-98: 0.7 HEAVY ATOMS FOR RESIDUES 68-98: 1.5 | X-PLOR |
NMR Ensemble Information | |
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Conformer Selection Criteria | NO VIOLATION ABOVE 0.5 ANGSTROMS AND 5 DEGREE DIHEDRAL ANGLE |
Conformers Calculated Total Number | 50 |
Conformers Submitted Total Number | 13 |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | refinement | X-PLOR | 3.851 | BRUNGER |
2 | structure solution | X-PLOR | 3.851 |