2HYN
Complete ensemble of NMR structures of unphosphorylated human phospholamban pentamer
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | TROSY-HNCA, HNCACB, HNCACO, MEASUREMENT OF 1H-15N, 13C'- 13CA, AND 13C'-15N RDCS USING 3D HNCO BASED EXPERIMENTS, HCCONH, CCONH, 15N-EDITED NOESY, 13C-EDITED NOESY, 13C- HSQC FOR METHYL STEREOSPECIFIC ASSIGNMENT, DOUBLE 13C- FILTERED, 15N-EDITED NOESY, 3D 15N-EDITED NOESY, 2D SPIN-ECHO DIFFERENCE EXPERIMENTS FOR MEASURING 3-BOND J(NCG) AND J(CCG) COUPLINGS | 0.2 MM PHOSPHOLAMBAN PENTAMER, U-15N, 13C, 85% 2H, 25 MM SODIUM PHOSPHATE BUFFER, 50 MM BME, 200 MM DPC, 95% H2O, 5% D2O;0.2 MM PHOSPHOLAMBAN PENTAMER, U-15N, 13C, 85% 2H, 25 MM SODIUM PHOSPHATE BUFFER, 50 MM BME, 200 MM DPC, 4% STRETCHED POLYACRYLAMIDE GEL,95% H2O, 5% D2O;0.2 MM PHOSPHOLAMBAN PENTAMER, U-15N,13C, 25 MM SODIUM PHOSPHATE BUFFER, 50 MM BME, 200 MM 2H-DPC, 95% H2O, 5% D2O;0.2 MM PHOSPHOLAMBAN PENTAMER, 10% 13C-LABELED, 25 MM SODIUM PHOSPHATE BUFFER, 50 MM BME, 200 MM DPC, 95% H2O, 5% D2O;0.2 MM PHOSPHOLAMBAN PENTAMER, 50% U-15N,13C AND 50% UNLABELED, 25MM SODIUM PHOSPHATE BUFFER, 50 MM BME, 200 MM 2H-DPC, 95% H2O, 5% D2O;0.2 MM PHOSPHOLAMBAN PENTAMER, 50% U-15N, U-2H AND 50% UNLABELED,25MM SODIUM PHOSPHATE BUFFER, 50 MM BME, 200 MM 2H-DPC, 95% H2O, 5% D2O | 95% H2O/5% D2O | 25 mM SODIUM PHOSPHATE | 6.0 | AMBIENT | 303 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | Adavnce, DMX | 500 |
NMR Refinement | ||
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Method | Details | Software |
Complete SCS search, Energy-minimization | 1. MONOMER STRUCTURE: DETERMINED WITH SIMULATED ANNEALING PROTOCOL THAT REFINES ALL INTRAMONOMER NOES, SIDECHAIN J-COUPLINGS, AND BACKBONE RDCS. 2. PENTAMER STRUCTURE: DETERMINED BY OUR COMPLETE SCS APPROACH. TRADITIONAL NMR PROTOCOLS FOR SYMMETRIC HOMO-OLIGOMERS (USED FOR STRUCTURES OF PDB ID 1ZLL) ARE BASED ON SIMULATED ANNEALING TECHNIQUES AND COULD GET TRAPPED IN LOCAL MINIMA. OUR COMPLETE SCS SEARCH APPROACH AVOIDS BIAS AND RETURNS ALL CONSISTENT, WELL-PACKED STRUCTURES TO WITHIN A USER-DEFINED SIMILARITY LEVEL. ENERGY-MINIMIZATION IS USED ONLY AT A LATER STAGE AFTER THE ENSEMBLE OF STRUCTURES THAT SATISFY THE DATA HAVE BEEN IDENTIFIED, HENCE ENSURING THAT NO CONSISTENT WELL-PACKED CONFORMATION IS MISSED. | Complete SCS search |
NMR Ensemble Information | |
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Conformer Selection Criteria | All calculated structures were submitted. Our method guarantees that the ensemble represents all structures that satisfy the data and have good vdW packing within a user-defined similarity level (chosen as 1 A). |
Conformers Calculated Total Number | 184 |
Conformers Submitted Total Number | 184 |
Representative Model | 1 (lowest energy) |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | processing | Complete SCS search | 0 | S. Potluri, A.K. Yan, B. R. Donald, C. Bailey-Kellogg |
2 | refinement | CNS | 1.1 | A.T.Brunger, P.D.Adams, G.M.Clore, W.L.DeLano,P.Gros, R.W.Grosse-Kunstleve, J.-S.Jiang,J.Kuszewski, M.Nilges, N.S.Pannu, R.J.Read,L.M.Rice, T.Simonson, G.L.Warren |