2VDA

Solution structure of the SecA-signal peptide complex


SOLUTION NMR
NMR Experiment
ExperimentTypeSample ContentsSolventIonic StrengthpHPressureTemperature (K)Spectrometer
113C-HMQC100%D2O50 mM7.51.0 atm295.0
NMR Spectrometer Information
SpectrometerManufacturerModelField Strength
1VarianINOVA600
NMR Refinement
MethodDetailsSoftware
SEMIRIGID AND FLEXIBLE SIMULATED ANNEALINGREFINEMENT DETAILS CAN BE FOUND IN THE JRNL CITATION ABOVE REFERENCE HADDOCK AUTH C. DOMIGUEZ, R. BOELENS, A.M.J.J. BONVIN TITLE HADDOCK A PROTEIN-PROTEIN DOCKING APPROACH BASED ON BIOCHEMICAL OR BIOPHYSICAL INFORMATION REF J.AM. CHEM.SOC,V125,P1731,2003 COORDINATES FOR E. COLI SECA (RESIDUES 9-228, 349-836)WERE OBTAINED FROM PDB ENTRY 2FSF. THE PREPROTEIN BINDING DOMAIN (RESIDUES 229-348) WAS MODELLED BASED ON THE AVAILABLE STRUCTURE OF T. THERMOPHILUS, CSI DATA AND NOES ON THE ISOLATED DOMAIN. TWO SINGLE CYSTEINE VARIANTS (POSITIONS 7 AND 25) WERE PREPARED AND CROSSLINKED WITH MTSL. PARAMAGNETIC RELAXATION ENHANCEMENT (PRE) VALUES FOR METHYL PROTONS OF VAL, LEU, ILE AND MET RESIDUES WERE QUANTIFIED FROM TWO 13C-HMQC SPECTRA (PARAMAGNETIC AND DIAMAGNETIC). PRES WERE CONVERTED TO DISTANCE RESTRAINTS, WHICH WERE USED FOR SUBSEQUENT STRUCTURE CALCULATION OF THE SECA-SIGNAL PEPTIDE COMPLEX.HADDOCK-CNS
NMR Ensemble Information
Conformer Selection CriteriaLOWEST ENERGY
Conformers Calculated Total Number200
Conformers Submitted Total Number10
Representative Model1 (n/a)
Additional NMR Experimental Information
DetailsNONE
Computation: NMR Software
#ClassificationVersionSoftware NameAuthor
1refinementHADDOCK-CNSBRUNGER,ADAMS,CLORE,DELANO,GROS, GROSSE- KUNSTLEVE,JIANG,KUSZEWSKI,NILGES, PANNU,READ, RICE,SIMONSON,WARREN
2structure solutionNMRPIPE; SPARKY; HADDOCK- CNSCNS