1Q48
Solution NMR Structure of The Haemophilus Influenzae Iron-Sulfur Cluster Assembly Protein U (IscU) with Zinc Bound at the Active Site. Northeast Structural Genomics Consortium Target IR24. This protein is not apo, it is a model without zinc binding constraints.
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 3D_15N-separated_NOESY | 1 mM U-15N, U-13C IscU in 20 mM MES, 100 mM NaCl, 5 mM CaCl2, 10 mM DTT, 0.02% NaN3 | 95% H2O/5% D2O | 20 mM MES, 100 mM NaCl, 5 mM CaCl2 | 6.5 | ambient | 293 | |
2 | 3D_13C-separated_NOESY | 1 mM U-15N, U-13C IscU in 20 mM MES, 100 mM NaCl, 5 mM CaCl2, 10 mM DTT, 0.02% NaN3 | 95% H2O/5% D2O | 20 mM MES, 100 mM NaCl, 5 mM CaCl2 | 6.5 | ambient | 293 | |
3 | HNHA | 1 mM U-15N, U-13C IscU in 20 mM MES, 100 mM NaCl, 5 mM CaCl2, 10 mM DTT, 0.02% NaN3 | 95% H2O/5% D2O | 20 mM MES, 100 mM NaCl, 5 mM CaCl2 | 6.5 | ambient | 293 | |
4 | 4D_13C-separated_NOESY | 1 mM U-15N, U-13C IscU in 20 mM MES, 100 mM NaCl, 5 mM CaCl2, 10 mM DTT, 0.02% NaN3 | 100% D2O | 20 mM MES, 100 mM NaCl, 5 mM CaCl2 | 6.5 | ambient | 293 | |
5 | 13C_HSQC | 1 mM U-15N, U-5%-13C IscU in 20 mM MES, 100 mM NaCl, 5 mM CaCl2, 10 mM DTT, 0.02% NaN3 | 95% H2O/5% D2O | 20 mM MES, 100 mM NaCl, 5 mM CaCl2 | 6.5 | ambient | 293 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Varian | INOVA | 800 |
2 | Varian | INOVA | 750 |
3 | Varian | INOVA | 600 |
4 | Varian | UNITY | 600 |
NMR Refinement | ||
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Method | Details | Software |
SIMULATED ANNEALING, TORSION ANGLE DYNAMICS, AUTOMATED ANALYSIS OF NOESY DATA AND 3D STRUCTURES | THE STRUCTURES ARE BASED ON A TOTAL OF 923 RESTRAINTS. SUMMARY OF EXPERIMENTAL CONSTRAINTS: DISTANCE CONSTRAINTS: TOTAL = 790; INTRA-RESIDUE [I=J] = 12; SEQUENTIAL [(I-J)=1] = 260; MEDIUM RANGE [1<(I-J)<5] = 185; LONG RANGE [(I-J)>=5] = 255; HYDROGEN BOND CONSTRAINTS = 58 (2 PER H-BOND); NUMBER OF DISTANCE CONSTRAINTS PER RESIDUE = 8.0; DIHEDRAL-ANGLE CONSTRAINTS = 133 (66 PHI, 67 PSI); TOTAL NUMBER OF CONSTRAINTS PER RESIDUE = 9.4 (RESIDES 26-123); NUMBER OF LONG RANGE CONSTRAINTS PER RESIDUE = 2.6; NUMBER OF STRUCTURES COMPUTED = 25; NUMBER OF STRUCTURES USED = 20. AVERAGE DISTANCE VIOLATIONS >0.0001 ANG = 24.3; AVERAGE R.M.S. DISTANCE VIOLATION = 0.003 ANG; MAXIMUM NUMBER OF DISTANCE VIOLATIONS 31. AVERAGE DIHEDRAL ANGLE VIOLATIONS: >0.0001 DEG = 1.0; MAX NUMBER OF DIHEDRAL ANGLE VIOLATIONS = 4; AVERAGE R.M.S. ANGLE VIOLATION = 0.01 DEG. RMSD VALUES: BACKBONE ATOMS (N,C,C',O) = 0.80 ANG; ALL HEAVY ATOMS = 1.17 ANG; PROCHECK: MOST FAVORED REGIONS = 77%; ADDITIONAL ALLOWED REGIONS = 20%; GENEROUSLY ALLOWED REGIONS = 3%; DISALLOWED REGIONS = 0%. | Felix |
NMR Ensemble Information | |
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Conformer Selection Criteria | structures with the lowest energy |
Conformers Calculated Total Number | 25 |
Conformers Submitted Total Number | 20 |
Representative Model | 1 (lowest energy) |
Additional NMR Experimental Information | |
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Details | THE STRUCTURE WAS DETERMINED USING TRIPLE-RESONANCE NMR SPECTROSCOPY, AUTOMATED ANALYSIS OF 3D STRUCTURE. |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | processing | Felix | 98 | MSI (Accelrys) |
2 | structure solution | X-PLOR | Xplor-NIH-2.0.6 | Schwieters, C.D., Kuszewski, J.J., Tjandra, N., Clore, G.M. |
3 | data analysis | Sparky | 3.98 | Goddard, T.D., Kneller, D.G. |
4 | refinement | XPLOR | XPLOR-NIH-2.0.6 | SCHWIETERS, C.D., KUSZEWSKI, J.J. TJANDRA, N., CLORE, G.M. |
5 | refinement | AutoStructure | Huang, Y.J., Montelione G.T. | |
6 | data analysis | TALOS | 1999.019.15.47 |