2KCX
Solution NMR Structure of Kazal-1 Domain of Human Follistatin-related protein 3 (FSTL-3). Northeast Structural Genomics Target HR6186A.
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D 1H-15N HSQC | 0.6 mM [U-100% 13C; U-100% 15N] FSTL-3-1, 20 mM MES-2, 200 mM sodium chloride-3 | 90% H2O/10% D2O | 0.2 | 6.5 | ambient | 298 | |
2 | 2D 1H-13C HSQC | 0.6 mM [U-100% 13C; U-100% 15N] FSTL-3-1, 20 mM MES-2, 200 mM sodium chloride-3 | 90% H2O/10% D2O | 0.2 | 6.5 | ambient | 298 | |
3 | 3D CBCA(CO)NH | 0.6 mM [U-100% 13C; U-100% 15N] FSTL-3-1, 20 mM MES-2, 200 mM sodium chloride-3 | 90% H2O/10% D2O | 0.2 | 6.5 | ambient | 298 | |
4 | 3D 1H-15N NOESY | 0.6 mM [U-100% 13C; U-100% 15N] FSTL-3-1, 20 mM MES-2, 200 mM sodium chloride-3 | 90% H2O/10% D2O | 0.2 | 6.5 | ambient | 298 | |
5 | 3D 1H-13C NOESY | 0.6 mM [U-100% 13C; U-100% 15N] FSTL-3-1, 20 mM MES-2, 200 mM sodium chloride-3 | 90% H2O/10% D2O | 0.2 | 6.5 | ambient | 298 | |
6 | 3D HNCACB | 0.6 mM [U-100% 13C; U-100% 15N] FSTL-3-1, 20 mM MES-2, 200 mM sodium chloride-3 | 90% H2O/10% D2O | 0.2 | 6.5 | ambient | 298 | |
7 | 3D HNCO | 0.6 mM [U-100% 13C; U-100% 15N] FSTL-3-1, 20 mM MES-2, 200 mM sodium chloride-3 | 90% H2O/10% D2O | 0.2 | 6.5 | ambient | 298 | |
8 | 3D HBHA(CO)NH | 0.6 mM [U-100% 13C; U-100% 15N] FSTL-3-1, 20 mM MES-2, 200 mM sodium chloride-3 | 90% H2O/10% D2O | 0.2 | 6.5 | ambient | 298 | |
9 | 3D HCCH-TOCSY | 0.6 mM [U-100% 13C; U-100% 15N] FSTL-3-1, 20 mM MES-2, 200 mM sodium chloride-3 | 90% H2O/10% D2O | 0.2 | 6.5 | ambient | 298 | |
10 | 3D HCCH-COSY | 0.6 mM [U-100% 13C; U-100% 15N] FSTL-3-1, 20 mM MES-2, 200 mM sodium chloride-3 | 90% H2O/10% D2O | 0.2 | 6.5 | ambient | 298 | |
11 | 3D CCH-TOCSY | 0.6 mM [U-100% 13C; U-100% 15N] FSTL-3-1, 20 mM MES-2, 200 mM sodium chloride-3 | 90% H2O/10% D2O | 0.2 | 6.5 | ambient | 298 | |
12 | 3D HNCA | 0.6 mM [U-100% 13C; U-100% 15N] FSTL-3-1, 20 mM MES-2, 200 mM sodium chloride-3 | 90% H2O/10% D2O | 0.2 | 6.5 | ambient | 298 | |
13 | 2D 1H-15N HET_NOE | 0.2 mM [U-100% 15N] FSTL-3-4, 20 mM MES-5, 200 mM sodium chloride-6 | 90% H2O/10% D2O | 0.2 | 6.5 | ambient | 298 | |
14 | 2D N15 T1 | 0.2 mM [U-100% 15N] FSTL-3-4, 20 mM MES-5, 200 mM sodium chloride-6 | 90% H2O/10% D2O | 0.2 | 6.5 | ambient | 298 | |
15 | 2D N15 T2 cpmg | 0.2 mM [U-100% 15N] FSTL-3-4, 20 mM MES-5, 200 mM sodium chloride-6 | 90% H2O/10% D2O | 0.2 | 6.5 | ambient | 298 | |
16 | 2D 1H-15N HSQC | 0.2 mM [U-100% 15N] FSTL-3-4, 20 mM MES-5, 200 mM sodium chloride-6 | 90% H2O/10% D2O | 0.2 | 6.5 | ambient | 298 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | AVANCE | 800 |
NMR Refinement | ||
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Method | Details | Software |
torsion angle dynamics | MONOMER BY GEL FILTRATION CHROMATOGRAPHY/LIGHT SCATTERING AND BY NMR. T1/T2(CPMG) (MS) = 516.1/136.2, TAUC = 3.94(NS). CONSISTENT WITH MOLECULAR WEIGHT. STRUCTURE DETERMINED BY TRIPLE RESONANCE NMR SPECTROSCOPY. NOESY ASSIGNMENTS BY CYANA2.1. 20 OF 100 STRUCTURES LOWEST TARGET FUNCTION SELECTED WITH CYANA-2.1. SELECTED MODELS ARE FURTHER REFINED USING CNS IN EXPLICIT WATER SHELL (NILGES PROTOCOL WITH PARAM19). ASSIGNMENT STATS (EXCLUDING C-TERM TAG): BACKBONE 98.10%, SIDECHAIN 88.50%, AROMATIC (SC) 75.00%. STRUCTURE BASED ON 912 NOE, 65 DIHE. MAX NOE VIOLATION: 0.19 A (1MODEL); MAX DIHE VIOLATION: 5.4 DEG. 6 TOTAL CLOSE CONTACTS PER 20 MODELS. STRUCTURE QUALITY FACTOR (PSVS 1.3): ORDERED RESIDUES RANGES: 4-9, 13-27, 33-34, 37-58, 61-69, 72-73 FOR [S(PHI)+S(PSI)] > 1.8. SECONDARY STRUCTURE - ALPHA HELICES: 50-60, BETA STRANDS: 13-18, 21-26, 46-47, 39-41, 66-69. RMSD 1.3 BACKBONE, 1.8 ALL HEAVY ATOMS. RAMA. DISTRIBUTION: 92.1/7.8/0.1/0.0. PROCHECK (PSI-PHI): -0.34/-1.02 (RAW/Z), PROCHECK (ALL): -0.33/-1.95 (RAW/Z), MOLPROBITY CLASH: 19.69/-1.85 (RAW/Z). RPF SCORES ALL ASSIGNED RESIDUES (FIT OF NOESY PEAKLISTS TO STRUCTURE): RECALL: 0.99, PRECISION: 0.85, F-MEASURE: 0.91, DP-SCORE: 0.82. | CYANA |
NMR Ensemble Information | |
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Conformer Selection Criteria | target function |
Conformers Calculated Total Number | 100 |
Conformers Submitted Total Number | 20 |
Representative Model | 1 (lowest energy) |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | structure solution | CYANA | 2.1 | Guntert, Mumenthaler and Wuthrich |
2 | geometry optimization | TALOS | Cornilescu, Delaglio and Bax | |
3 | structure solution | PSVS | 1.3 | Bhattacharya and Montelione |
4 | refinement | CNS | 1.2 | Brunger, Adams, Clore, Gros, Nilges and Read |
5 | processing | NMRPipe | 2008 | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax |
6 | data analysis | Sparky | 2.113 | Goddard |
7 | collection | TopSpin | 2.1 | Bruker Biospin |
8 | chemical shift assignment | PINE | Bahrami, Markley, Assadi, and Eghbalnia | |
9 | visualization | MOLMOL | Koradi, Billeter and Wuthrich | |
10 | refinement | Procheck | Laskowski, MacArthur, Smith, Jones, Hutchinson, Morris, Moss and Tho | |
11 | refinement | MolProbity | Richardson | |
12 | data analysis | PdbStat | Tejero, Montelione |