SOLUTION NMR


NMR Experiment
Experiment Type Sample Contents Ionic Strength Solvent pH Pressure Temprature (K)
1 2D-NOESY 1.9 MM Ac-AGRP(87-132) (same as 1.9 MM MARP of 1qu8) 50mM PHOSPHATE 50 MM PHOSPHATE BUFFER PH 5.0 (pH is changed from pH=4.2 in 1qu8) 5.00 1 288.00
2 DQF-COSY 1.9 MM Ac-AGRP(87-132) (same as 1.9 MM MARP of 1qu8) 50mM PHOSPHATE 50 MM PHOSPHATE BUFFER PH 5.0 (pH is changed from pH=4.2 in 1qu8) 5.00 1 288.00
3 E-COSY 1.9 MM Ac-AGRP(87-132) (same as 1.9 MM MARP of 1qu8) 50mM PHOSPHATE 50 MM PHOSPHATE BUFFER PH 5.0 (pH is changed from pH=4.2 in 1qu8) 5.00 1 288.00
NMR Spectrometer Information
Spectrometer Manufacturer Model Field Strength
1 Varian UNITYPLUS 800
NMR Refinement
Method Details Software
torsion angle dynamics The preliminary structure calculation and restraint quality assessment was performed in DYANA v 1.5, so that out of 200 structures the 20 with the lowest target functions would have target function vaules of < 3.0 square angstroms. The lowest target function structure of this family was then submitted as a pre-folded structure in CNS v. 1.0, and 40 structures calculated under cool (< 288K) simulated annealing and conjugate gradient energy minimization. These calculations were carried out in the presence of experimnetal NOE and J-coupling restraints as well as assigned hydrogen bonds consistent with HX protection. DYANA 1.5: 799 unique NOE's from 800 MHz data, 444 resulting distance restraints after pseudoatom calculation/replacement and removal of NOE's between atoms separated by only two or three bonds. 35 alpha-H to amide-H 3-bond J-coupling constants and 44 alpha-H to beta-H 3-bond J-coupling constants from ECOSY data were also included. Disulfides and seven hydrogen bonds as determinied from surrounding NOE's and HX data were included as pseudo-NOE restraints. CNS 1.0, patch level 0: 504 distance restraints from 800 MHz NOE data, corresponding to the same upper limit restraints as used in the final round of DYANA 1.5 calulations (conversion using AQUA 2.0 in PROCHECK_NMR, and modified lower limit of 1.6 angstroms was imposed on all NOE restraints while keeping upper bounds). Disulfide map was incorporated into the covalent structure of the molecule and thereby strictly enforced in this step. The seven hydrogen bonds were included in a separate restraint file. 34 alpha-H to amide-H 3-bond J-coupling constants (not including CYS-87 amide mesurement) were also included. 40 structures were so calculated and all are deposited here. 1
NMR Ensemble Information
Conformer Selection Criteria see refinement method and details
Conformers Calculated Total Number 40
Conformers Submitted Total Number 40
Representative Model 10 (lowest energy)
Computation: NMR Software
# Classification Version Software Name Author
1 refinement 1.0 CNS A.T.BRUNGER, P.D.ADAMS, G.M.CLORE, W.L.DELANO, P.GROS, R.W.GROSSE-KUNSTLEVE, J.-S.JIANG, J.KUSZEWSKI, M.NILGES, N.S.PANNU, R.J.READ, L.M.RICE, T.SIMONSON, G.L.WARREN
2 collection 5.2 VNMR F. Vosman, D. Iverson, S. Patt, S. Chetham, R. Lasater, P. Hornung, G. Brissey, E. Williams, B. John, C. H. Yoder, B. L. Buckwalter
3 processing 940501 MNMR M. Kjear, K.V. Andersoen, C. Rischel
4 data analysis 1.2 XEASY T. Xia, C. Bartels
5 structure solution 1.5 DYANA P. Guntert, C. Mumenthaler, T. Herrmann
6 processing 3.4.4 PROCHECK Laskowski R. A., MacArthur M. W., Moss D. S., Thornton J. M., Rullmann J. A. C.
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