2VDA

SOLUTION NMR

NMR Experiment
Experiment Type Sample Contents Ionic Strength Solvent pH Pressure Temprature (K)
NMR Spectrometer Information
Spectrometer Manufacturer Model Field Strength
1 Varian INOVA 600
NMR Refinement
Method Details Software
SEMIRIGID AND FLEXIBLE SIMULATED ANNEALING REFINEMENT 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. 1
NMR Ensemble Information
Conformer Selection Criteria LOWEST ENERGY
Conformers Calculated Total Number 200
Conformers Submitted Total Number 10
Representative Model 1 (?)
Computation: NMR Software
# Classification Version Software Name Author
1 refinement ? HADDOCK-CNS BRUNGER,ADAMS,CLORE,DELANO,GROS, GROSSE- KUNSTLEVE,JIANG,KUSZEWSKI,NILGES, PANNU,READ, RICE,SIMONSON,WARREN
2 structure solution CNS NMRPIPE; SPARKY; HADDOCK- CNS ?