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Combined solid-state NMR, solution-state NMR and EM data for structure determination of the tetrahedral aminopeptidase TET2 from P. horikoshii
ELECTRON MICROSCOPY - SOLUTION NMR - SOLID-STATE NMR
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 RFDR 3D 20 mM TRIS, 50 mM sodium chloride 100% H2O 50 mM 7.5 1 atm 300 Bruker AVANCE II 600 2 DARR 20 mM Tris, 50 mM NaCl 100% H2O 50 mM 7.5 1 atm 300 Bruker AVANCE II 600 3 3D 1H-13C NOESY aliphatic 50 mM Tris, 50 mM NaCl 100% D2O 50 mM 8 1 atm 328 Varian INOVA 800 4 CCdream (CC) 20 mM TRIS, 50 mM sodium chloride 100% H2O 50 mM 7.5 1 atm 300 Varian INOVA 800 5 NCO 20 mM TRIS, 50 mM sodium chloride 100% H2O 50 mM 7.5 1 atm 300 Varian INOVA 800 6 NCOCX 20 mM TRIS, 50 mM sodium chloride 100% H2O 50 mM 7.5 1 atm 300 Varian INOVA 800 7 NCACX 20 mM TRIS, 50 mM sodium chloride 100% H2O 50 mM 7.5 1 atm 300 Varian INOVA 800 8 CONCACB 20 mM TRIS, 50 mM sodium chloride 100% H2O 50 mM 7.5 1 atm 300 Varian INOVA 800 9 CANCOCX 20 mM TRIS, 50 mM sodium chloride 100% H2O 50 mM 7.5 1 atm 300 Varian INOVA 800 10 hCANH 20 mM TRIS, 50 mM sodium chloride 100% H2O 50 mM 7.5 1 atm 300 Bruker AVANCE II 600 11 hCONH 20 mM TRIS, 50 mM sodium chloride 100% H2O 50 mM 7.5 1 atm 300 Bruker AVANCE II 600 12 hcoCAcoNH 20 mM TRIS, 50 mM sodium chloride 100% H2O 50 mM 7.5 1 atm 300 Bruker AVANCE II 600
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker AVANCE II 600 2 Varian INOVA 800
NMR Ensemble Information Conformer Selection Criteria Conformers Calculated Total Number Conformers Submitted Total Number 10
Computation: NMR Software # Classification Version Software Name Author 1 refinement CcpNmr Analysis CCPN 2 structure calculation CYANA Guntert, Mumenthaler and Wuthrich 3 chemical shift assignment CcpNmr Analysis CCPN 4 peak picking CcpNmr Analysis CCPN 5 structure calculation Xplor-NIH Schwieters, Kuszewski, Tjandra and Clore
Sample tetrahedral amino-peptidase from P. horikoshii
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details Blotting time 2s, force 1, drain time 0.
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 27130 Reported Resolution (Å) 4.1 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry T
Map-Model Fitting and Refinement Id 1 Refinement Space Refinement Protocol OTHER Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K2 SUMMIT (4k x 4k) Electron Dose (electrons/Å**2) 40
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI POLARA 300 Minimum Defocus (nm) Maximum Defocus (nm) Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2 Imaging Mode BRIGHT FIELD Specimen Holder Model GATAN 626 SINGLE TILT LIQUID NITROGEN CRYO TRANSFER HOLDER Nominal Magnification 20000 Calibrated Magnification 25773 Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION RELION 1.4 IMAGE ACQUISITION Latitude 3 CTF CORRECTION CTFFIND 3 MODEL FITTING iMODFIT 1.44 INITIAL EULER ASSIGNMENT RELION 1.4 FINAL EULER ASSIGNMENT RELION 1.4 CLASSIFICATION RELION 1.4 RECONSTRUCTION RELION 1.4 MODEL REFINEMENT X-PLOR 4.39
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 30407