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Download EndnoteCrystal structure of a Na1-bound Na1,K1-ATPase preceding the E1P state
Kanai, R., Ogawa, H., Vilsen, B., Cornelius, F., Toyoshima, C.(2013) Nature 502: 201-206
3WGU
Crystal structure of a Na+-bound Na+,K+-ATPase preceding the E1P state without oligomycin
- DOI: 10.2210/pdb3WGU/pdb
- Classification: HYDROLASE/TRANSPORT PROTEIN
- Organism(s): Sus scrofa
- Deposited: 2013-08-09 Released: 2013-10-09
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.8 Å
- R-Value Free: 0.299
- R-Value Work: 0.265
wwPDB Validation 3D Report Full Report
This is version 1.1 of the entry. See complete history.
Literature
Macromolecules
Find similar proteins by: Sequence | Structure
Entity ID: 1 | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details |
| Sodium/potassium-transporting ATPase subunit alpha-1 | A, C | 1016 | Sus scrofa | Mutation(s): 0 Gene Names: ATP1A1 EC: 7.2.2.13 |
Membrane proteinmpstruc | Group: TRANSMEMBRANE PROTEINS: ALPHA-HELICAL | Sub Group: P-type ATPase | Protein: Na,K-ATPase; pig kidney | |
Find proteins for P05024 (Sus scrofa) Go to Gene View: ATP1A1 Go to UniProtKB: P05024 | ||||
Entity ID: 2 | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details |
| Sodium/potassium-transporting ATPase subunit beta-1 | B, D | 303 | Sus scrofa | Mutation(s): 0 Gene Names: ATP1B1 |
Membrane proteinmpstruc | Group: TRANSMEMBRANE PROTEINS: ALPHA-HELICAL | Sub Group: P-type ATPase | Protein: Na,K-ATPase; pig kidney | |
Find proteins for P05027 (Sus scrofa) Go to Gene View: ATP1B1 Go to UniProtKB: P05027 | ||||
Entity ID: 3 | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details |
| Na+/K+ ATPase gamma subunit transcript variant a | G, E | 65 | Sus scrofa | Mutation(s): 0 Gene Names: FXYD2 |
Membrane proteinmpstruc | Group: TRANSMEMBRANE PROTEINS: ALPHA-HELICAL | Sub Group: P-type ATPase | Protein: Na,K-ATPase; pig kidney | |
Find proteins for Q58K79 (Sus scrofa) Go to Gene View: FXYD2 Go to UniProtKB: Q58K79 | ||||
Small Molecules
| Ligands 7 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| NA Query on NA | A, C | SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N |  | Ligand Interaction | |
| ADP Query on ADP | A, C | ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N |  | Ligand Interaction | |
| PC1 Query on PC1 | A, B, C, D | 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE 3-SN-PHOSPHATIDYLCHOLINE C44 H88 N O8 P NRJAVPSFFCBXDT-HUESYALOSA-N |  | Ligand Interaction | |
| ALF Query on ALF | A, C | TETRAFLUOROALUMINATE ION Al F4 UYOMQIYKOOHAMK-UHFFFAOYSA-J |  | Ligand Interaction | |
| MG Query on MG | A, C | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |  | Ligand Interaction | |
| NAG Query on NAG | B, D | N-ACETYL-D-GLUCOSAMINE C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N |  | Ligand Interaction | |
| CLR Query on CLR | A, B, C | CHOLESTEROL C27 H46 O HVYWMOMLDIMFJA-DPAQBDIFSA-N |  | Ligand Interaction | |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.8 Å
- R-Value Free: 0.299
- R-Value Work: 0.265
- Space Group: P 21 21 21
Unit Cell:
| Length (Å) | Angle (°) |
|---|---|
| a = 106.383 | α = 90.00 |
| b = 211.600 | β = 90.00 |
| c = 257.124 | γ = 90.00 |
| Software Name | Purpose |
|---|---|
| BSS | data collection |
| PHASER | phasing |
| PHENIX | refinement |
| DENZO | data reduction |
| SCALEPACK | data scaling |
Entry History
Deposition Data
- Deposited Date: 2013-08-09
- Released Date: 2013-10-09
- Deposition Author(s): Kanai, R., Ogawa, H., Vilsen, B., Cornelius, F., Toyoshima, C.
