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NMR solution structure of A3DK08 protein from Clostridium thermocellum: Northeast Structural Genomics Consortium Target CmR9
SOLUTION NMR
NMR Experiment
Experiment
Type
Sample Contents
Solvent
Ionic Strength
pH
Pressure
Temperature (K)
Spectrometer
1
2D 1H-15N HSQC
0.91 mM [U-100% 13C; U-100% 15N] A3DK08 Protein
90% H2O/10% D2O
5mM CaCl2, 100mM NaCl
6.5
1 atm
293
2
2D 1H-15N HSQC
0.91 mM [U-100% 13C; U-100% 15N] A3DK08 Protein
90% H2O/10% D2O
5mM CaCl2, 100mM NaCl
6.5
1 atm
293
3
2D 1H-13C HSQC
0.91 mM [U-100% 13C; U-100% 15N] A3DK08 Protein
90% H2O/10% D2O
5mM CaCl2, 100mM NaCl
6.5
1 atm
293
4
2D 1H-13C HSQC
1.05 mM [U-10% 13C; U-99% 15N] A3DK08 Protein
90% H2O/10% D2O
5mM CaCl2, 100mM NaCl
6.5
1 atm
293
5
3D CBCA(CO)NH
0.91 mM [U-100% 13C; U-100% 15N] A3DK08 Protein
90% H2O/10% D2O
5mM CaCl2, 100mM NaCl
6.5
1 atm
293
6
3D HNCACB
0.91 mM [U-100% 13C; U-100% 15N] A3DK08 Protein
90% H2O/10% D2O
5mM CaCl2, 100mM NaCl
6.5
1 atm
293
7
3D HNCO
0.91 mM [U-100% 13C; U-100% 15N] A3DK08 Protein
90% H2O/10% D2O
5mM CaCl2, 100mM NaCl
6.5
1 atm
293
8
3D HBHA(CO)NH
0.91 mM [U-100% 13C; U-100% 15N] A3DK08 Protein
90% H2O/10% D2O
5mM CaCl2, 100mM NaCl
6.5
1 atm
293
9
3D HCCH-TOCSY
0.91 mM [U-100% 13C; U-100% 15N] A3DK08 Protein
90% H2O/10% D2O
5mM CaCl2, 100mM NaCl
6.5
1 atm
293
10
3D 1H-13C NOESY
0.91 mM [U-100% 13C; U-100% 15N] A3DK08 Protein
90% H2O/10% D2O
5mM CaCl2, 100mM NaCl
6.5
1 atm
293
11
3D 1H-15N NOESY
0.91 mM [U-100% 13C; U-100% 15N] A3DK08 Protein
90% H2O/10% D2O
5mM CaCl2, 100mM NaCl
6.5
1 atm
293
12
3D 1H-13C NOESY
0.91 mM [U-100% 13C; U-100% 15N] A3DK08 Protein
90% H2O/10% D2O
5mM CaCl2, 100mM NaCl
6.5
1 atm
293
NMR Spectrometer Information
Spectrometer
Manufacturer
Model
Field Strength
1
Varian
INOVA
600
2
Bruker
AVANCE
800
NMR Refinement
Method
Details
Software
simulated annealing
The structure was determined using triple resonance NMR spectroscopy. Automated backbone resonance assignments were made using AUTOASSIGN and the sidechain assignments were completed manually. Automated NOESY assignments were made using AUTOSTRUCTURE and CYANA-2.1. Dihedral angle constraints were obtained from TALOS. The structure calculations were done excluding the six HIS from the 8-residue C-terminal tag(LEHHHHHH). Completeness of assignments excluding the HHHHHH: Backbone:100% Sidechain(aliphatic): 99% Sidechain (Aromatic): 90% Stereospecific Methyl assignments:100%. The assignments were validated using AVS software. Final structure quality factors(excluding the HHHHHH) determined using PSVS-v1.3: Ordered residues are defined as residues 2-28,33-34,37-69.(a) RMSD (ordered residues)all backbone atoms:0.4A, all heavy atoms: 0.7A; RMSD (all residues) backbone: 0.7A and heavy atoms: 1.0A. (b) Ramachandran statistics for ordered residues : Most favoured regions: 97.1%, additionally allowed regions: 2.9%.(C) PROCHECK SCORES FOR ORDERED RESIDUES (RAW/Z-): PHI-PSI,0.21/1.14, ALL,0.24/1.42 (D) MOLPROBITY CLASH SCORE (RAW/Z-): 17.26/-1.44. (E) RPF scores for the goodness of the fit to NOESY data: Recall:0.984, PRECISION: 0.848, F-measure: 0.911 and final DP-score:0.743. (f) Number of close contacts for 20 models: 6. RMS deviation for bond angles:0.6deg. RMS deviation for bond lengths 0.008A.