1Z1Z

NMR structure of the gpu tail protein from lambda bacteriophage


SOLUTION NMR
NMR Experiment
ExperimentTypeSample ContentsSolventIonic StrengthpHPressureTemperature (K)Spectrometer
13D_13C-separated_NOESY0.9 mM gpU, U-15N,13C, 10 mM Tris-d11, pH 7.8, 50 mM potassium chloride, 0.02% sodium azide10% D2O, 90% H2O50 mM KCl7.81 atm293
23D_15N-separated_NOESY0.9 mM gpU, U-15N,13C, 10 mM Tris-d11, pH 7.8, 50 mM potassium chloride, 0.02% sodium azide10% D2O, 90% H2O50 mM KCl7.81 atm293
33D_13C-separated-aromatic_NOESY0.9 mM gpU, U-15N,13C, 10 mM Tris-d11, pH 7.8, 50 mM potassium chloride, 0.02% sodium azide10% D2O, 90% H2O50 mM KCl7.81 atm293
42D-IPAP-15N_HSQC0.9 mM gpU, U-15N,13C, 10 mM Tris-d11, pH 7.8, 50 mM potassium chloride, 0.02% sodium azide10% D2O, 90% H2O50 mM KCl7.81 atm293
NMR Spectrometer Information
SpectrometerManufacturerModelField Strength
1BrukerAvance600
2VarianINOVA800
NMR Refinement
MethodDetailsSoftware
simulated annealing1180 NOE distance restraints (876 intramolecular, 505 short-range, 128 medium range, 371 long-range), 42 pairs of hydrogen bond distance restraints, 106 pairs of phi/psi dihedral angle restraints and 41 amide residual dipolar coupling restraints were incorporated into the structure calculation. NOE calibration was performed with CANDID module of CYANA. Initially, 200 structures were calcuated with XPLOR-NIH. From this ensemble, 50 low-energy structure were refined in water using the XPLOR-NIH protocol by C. Spronk. The top 20 structures by energy had a backbone RMSD of 0.96 +/- 0.16 A on the secondary structure elements. In addition to residues 1-3 and 128-131 at the termini, a large loop spanning residues 45-60 is disordered.NMRPipe
NMR Ensemble Information
Conformer Selection Criteria
Conformers Calculated Total Number
Conformers Submitted Total Number1
Representative Model1 (lowest energy)
Additional NMR Experimental Information
DetailsThis structure was determined using standard 3D heteronuclear techniques
Computation: NMR Software
#ClassificationVersionSoftware NameAuthor
1processingNMRPipeDelaglio
2data analysisNMRview5.2Johnson
3structure solutionCYANA2.1.3Guntert
4refinementXPLOR-NIH2.9.9