1OM2

SOLUTION NMR STRUCTURE OF THE MITOCHONDRIAL PROTEIN IMPORT RECEPTOR TOM20 FROM RAT IN A COMPLEX WITH A PRESEQUENCE PEPTIDE DERIVED FROM RAT ALDEHYDE DEHYDROGENASE (ALDH)


SOLUTION NMR
NMR Experiment
ExperimentTypeSample ContentsSolventIonic StrengthpHPressureTemperature (K)Spectrometer
1HNCA90% WATER/10% D2O, 100% D2O0.02M6.81 atm303
2HN(CO)CA90% WATER/10% D2O, 100% D2O0.02M6.81 atm303
3CBCA(CO)NH90% WATER/10% D2O, 100% D2O0.02M6.81 atm303
4HNCACB90% WATER/10% D2O, 100% D2O0.02M6.81 atm303
5HBHA(CO)NH90% WATER/10% D2O, 100% D2O0.02M6.81 atm303
6C(CO)NH-TOCSY HC(CO)NH-TOCSY90% WATER/10% D2O, 100% D2O0.02M6.81 atm303
7HCCH-COSY90% WATER/10% D2O, 100% D2O0.02M6.81 atm303
8HCCH-TOCSY90% WATER/10% D2O, 100% D2O0.02M6.81 atm303
915N-RESOLVED NOESY90% WATER/10% D2O, 100% D2O0.02M6.81 atm303
1015N-RESOLVED TOCSY90% WATER/10% D2O, 100% D2O0.02M6.81 atm303
11NOESY90% WATER/10% D2O, 100% D2O0.02M6.81 atm303
12TOCSY90% WATER/10% D2O, 100% D2O0.02M6.81 atm303
13HNHA90% WATER/10% D2O, 100% D2O0.02M6.81 atm303
14{1H}-15N NOE90% WATER/10% D2O, 100% D2O0.02M6.81 atm303
153D F1 13C-FILTERED-F3 13C-RESOLVED NOESY90% WATER/10% D2O, 100% D2O0.02M6.81 atm303
162D F1/F2 13C-FILTERED NOESY90% WATER/10% D2O, 100% D2O0.02M6.81 atm303
NMR Spectrometer Information
SpectrometerManufacturerModelField Strength
1BrukerDMX600600
2BrukerDMX750750
NMR Refinement
MethodDetailsSoftware
TORSION ANGLE DYNAMICS FOLLOWED BY RESTRAINED ENERGY MINIMIZATION WITH AMBER FORCE FIELDDEPOSITED COORDINATES WERE CALCULATED BASED ON 1012 NOE-DERIVED DISTANCE, 80 SLOWLY EXCHANGING AMIDE PROTON-DERIVED DISTANCE, AND 39 DIHEDRAL ANGLE RESTRAINTS. NO VIOLATIONS OF DISTANCE RESTRAINTS EXCEED 0.33 ANGSTROMS, AND NO VIOLATIONS OF ANGLE CONSTRAINTS EXCEED 2.8 DEGREES.DYANA 1.5, EMBOSS
NMR Ensemble Information
Conformer Selection CriteriaLOWEST TARGET FUNCTION
Conformers Calculated Total Number200
Conformers Submitted Total Number20
Representative Model1 (n/a)
Additional NMR Experimental Information
DetailsTHE INTRA-TOM20 PROTEIN NOES WERE OBTAINED AT PH5.4 AND 0.02M CHAPSO ( DETERGENT) IN THE ABSENCE OF THE PEPTIDE USING 3D 15N-RESOLVED AND 3D 13C- RESOLVED NOESY SPECTRA. THE INTRA-PEPTIDE NOES AND INTERMOLECULAR NOES WERE COLLECTED AT PH6.8 IN THE ABSENCE OF CHAPSO USING 2D AND 3D NOESY SPECTRA WITH ISOTOPE FILTERS. THE NOE ASSIGNMENT WAS COMPLETED BY USING SEQUENCE- SPECIFICALLY DEUTERATED DERIVATIVES OF THE PEPTIDE. THESE THREE NOE SETS WERE COMBINED TO CALCULATE THE COMPLEX STRUCTURE OF TOM20 AND THE PRESEQUENCE PEPTIDE.
Computation: NMR Software
#ClassificationVersionSoftware NameAuthor
1refinementDYANA 1.5, EMBOSS5.0GUNTERT & WUTHRICH, NAKAI & NAKAMURA
2structure solutionDYANA
3structure solutionEMBOSS