2JWE
Solution structure of the second PDZ domain from human zonula occludens-1: A dimeric form with 3D domain swapping
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 | 0.8-1mM [U-99% 13C; U-99% 15N] ZO-1 | 90% H2O/10% D2O | 6.5 | ambient | 310 | ||
2 | 3D CBCA(CO)NH | 0.8-1mM [U-99% 13C; U-99% 15N] ZO-1 | 90% H2O/10% D2O | 6.5 | ambient | 310 | ||
3 | 3D HNCACB | 0.8-1mM [U-99% 13C; U-99% 15N] ZO-1 | 90% H2O/10% D2O | 6.5 | ambient | 310 | ||
4 | 3D HNCO | 0.8-1mM [U-99% 13C; U-99% 15N] ZO-1 | 90% H2O/10% D2O | 6.5 | ambient | 310 | ||
5 | 3D HN(CA)CO | 0.8-1mM [U-99% 13C; U-99% 15N] ZO-1 | 90% H2O/10% D2O | 6.5 | ambient | 310 | ||
6 | 3D HBHA(CO)NH | 0.8-1mM [U-99% 13C; U-99% 15N] ZO-1 | 90% H2O/10% D2O | 6.5 | ambient | 310 | ||
7 | 3D H(CCO)NH | 0.8-1mM [U-99% 13C; U-99% 15N] ZO-1 | 90% H2O/10% D2O | 6.5 | ambient | 310 | ||
8 | 3D C(CO)NH | 0.8-1mM [U-99% 13C; U-99% 15N] ZO-1 | 90% H2O/10% D2O | 6.5 | ambient | 310 | ||
9 | 3D 1H-15N NOESY | 0.8-1mM [U-99% 13C; U-99% 15N] ZO-1 | 100% D2O | 6.5 | ambient | 310 | ||
10 | 3D HCCH-TOCSY | 0.8-1mM [U-99% 13C; U-99% 15N] ZO-1 | 100% D2O | 6.5 | ambient | 310 | ||
11 | 3D HCCH-COSY | 0.8-1mM [U-99% 13C; U-99% 15N] ZO-1 | 100% D2O | 6.5 | ambient | 310 | ||
12 | 3D 1H-13C NOESY | 0.8-1mM [U-99% 13C; U-99% 15N] ZO-1 | 100% D2O | 6.5 | ambient | 310 | ||
13 | 2D 1H-13C HSQC | 0.4-0.5mM [U-99% 13C; U-99% 15N] ZO-1 | 100% D2O | 6.5 | ambient | 310 | ||
14 | 2D 1H-1H 13C-Filtered NOESY | 0.4-0.5mM [U-99% 13C; U-99% 15N] ZO-1 | 100% D2O | 6.5 | ambient | 310 | ||
15 | 2D 1H-13C HSQC | 0.8-1mM [U-99% 13C; U-99% 15N] ZO-1 | 100% D2O | 6.5 | ambient | 310 | ||
16 | 2D 1H-1H TOCSY | 0.5-0.8mM ZO-1 | 100% D2O | 6.5 | ambient | 310 | ||
17 | 2D 1H-1H NOESY | 0.5-0.8mM ZO-1 | 100% D2O | 6.5 | ambient | 310 | ||
18 | 2D 1H-13C HSQC | 0.8-1mM [U-99% 13C; U-99% 15N] ZO-1 | 90% H2O/10% D2O | 6.5 | ambient | 310 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | DMX | 600 |
NMR Refinement | ||
---|---|---|
Method | Details | Software |
simulated annealing | CNSSOLVE |
NMR Ensemble Information | |
---|---|
Conformer Selection Criteria | structures with the lowest energy |
Conformers Calculated Total Number | 200 |
Conformers Submitted Total Number | 20 |
Representative Model | 1 (lowest energy) |
Computation: NMR Software | ||||
---|---|---|---|---|
# | Classification | Version | Software Name | Author |
1 | structure solution | CNSSOLVE | 1.2 | Brunger, Adams, Clore, Gros, Nilges and Read |
2 | refinement | CNSSOLVE | 1.2 | Brunger, Adams, Clore, Gros, Nilges and Read |
3 | collection | XwinNMR | 3.5 | Bruker Biospin |
4 | processing | NMRPipe | 2.3 | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax |
5 | chemical shift assignment | Sparky | 3.112 | Goddard |
6 | data analysis | Sparky | 3.112 | Goddard |
7 | peak picking | Sparky | 3.112 | Goddard |
8 | predicts angles from chemical shift homology | TALOS | 2003.027.13.05 | Cornilescu, Delaglio and Bax |
9 | data analysis | MOLMOL | 2K.2 | Koradi, Billeter and Wuthrich |
10 | data analysis | ProcheckNMR | 3.5.4 | Laskowski and MacArthur |