Download MendeleyCrystal structure of a lipin/Pah phosphatidic acid phosphatase
Khayyo, V.I., Hoffmann, R.M., Wang, H., Bell, J.A., Burke, J.E., Reue, K., Airola, M.V.(2020) Nat Commun 11: 1309
6TZZ | pdb_00006tzz
Crystal Structure of Tetrahymena Thermophila Lipin Phosphatidic Acid Phosphatase with Magnesium
- PDB DOI: https://doi.org/10.2210/pdb6TZZ/pdb
- Classification: HYDROLASE
- Organism(s): Tetrahymena thermophila
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2019-08-13 Released: 2020-03-18
- Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS), American Heart Association
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 3.00 Å
- R-Value Free: 0.287 (Depositor), 0.290 (DCC)
- R-Value Work: 0.242 (Depositor), 0.240 (DCC)
- R-Value Observed: 0.245 (Depositor)
wwPDB Validation 3D Report Full Report
This is version 1.1 of the entry. See complete history.
Literature
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Nuclear elongation and deformation protein | 322 | Tetrahymena thermophila | Mutation(s): 0 Gene Names: TTHERM_00215970 |  | |
UniProt | |||||
Find proteins for I7MFJ3 (Tetrahymena thermophila (strain SB210)) Explore I7MFJ3 Go to UniProtKB: I7MFJ3 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | I7MFJ3 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| MG Query on MG | C [auth A], D [auth B] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 3.00 Å
- R-Value Free: 0.287 (Depositor), 0.290 (DCC)
- R-Value Work: 0.242 (Depositor), 0.240 (DCC)
- R-Value Observed: 0.245 (Depositor)
Space Group: C 1 2 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 165.41 | α = 90 |
| b = 57.644 | β = 114.9 |
| c = 84.191 | γ = 90 |
| Software Name | Purpose |
|---|---|
| Aimless | data scaling |
| PHASER | phasing |
| PHENIX | refinement |
| PDB_EXTRACT | data extraction |
| DIALS | data reduction |
Entry History & Funding Information
Deposition Data
- Released Date: 2020-03-18 Deposition Author(s): Khayyo, V.I., Airola, M.V.
| Funding Organization | Location | Grant Number |
|---|---|---|
| National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) | United States | R35GM128666 |
| American Heart Association | United States | 17SDG33410860 |
| American Heart Association | United States | 19PRE34450192 |
Revision History (Full details and data files)
- Version 1.0: 2020-03-18
Type: Initial release - Version 1.1: 2024-03-13
Changes: Data collection, Database references, Derived calculations, Refinement description
