Download MendeleyCrystal structure of Salmonella typhi outer membrane phospholipase (OMPLA) dimer with bound calcium
Perumal, P., Raina, R., Sreeshma, N.S., Arockiasamy, A., Sundarabaalaji, N.To be published.
7EZZ
Crystal structure of Salmonella typhi outer membrane phospholipase (OMPLA) dimer with bound calcium
- PDB DOI: https://doi.org/10.2210/pdb7EZZ/pdb
- Entry: 7EZZ supersedes: 5DQX
- Classification: HYDROLASE
- Organism(s): Salmonella enterica subsp. enterica serovar Typhi
- Expression System: Escherichia coli
- Mutation(s): No
- Membrane Protein: Yes OPMPDBTMMemProtMD
- Deposited: 2021-06-02 Released: 2021-06-23
- Funding Organization(s): Department of Biotechnology (DBT, India), Department of Science & Technology (DST, India)
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.76 Å
- R-Value Free: 0.272
- R-Value Work: 0.224
- R-Value Observed: 0.227
This is version 1.1 of the entry. See complete history.
Literature
To be published.
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Phospholipase A1 | 257 | Salmonella enterica subsp. enterica serovar Typhi | Mutation(s): 0 Gene Names: pldA, STY3602, t3340 EC: 3.1.1.32 (PDB Primary Data), 3.1.1.4 (PDB Primary Data) Membrane Entity: Yes |  | |
UniProt | |||||
Find proteins for P0A232 (Salmonella typhi) Explore P0A232 Go to UniProtKB: P0A232 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P0A232 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| BOG Query on BOG | C [auth A], D [auth A], E [auth A], G [auth A] | octyl beta-D-glucopyranoside C14 H28 O6 HEGSGKPQLMEBJL-RKQHYHRCSA-N |  | ||
| D12 (Subject of Investigation/LOI) Query on D12 | H [auth A], I [auth B] | DODECANE C12 H26 SNRUBQQJIBEYMU-UHFFFAOYSA-N |  | ||
| CA (Subject of Investigation/LOI) Query on CA | F [auth A], J [auth B] | CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.76 Å
- R-Value Free: 0.272
- R-Value Work: 0.224
- R-Value Observed: 0.227
- Space Group: P 21 21 21
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 79.584 | α = 90 |
| b = 83.448 | β = 90 |
| c = 95.644 | γ = 90 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| autoPROC | data processing |
| autoPROC | data scaling |
| PHENIX | phasing |
| Coot | model building |
Entry History & Funding Information
Deposition Data
- Released Date: 2021-06-23 Deposition Author(s): Perumal, P., Raina, R., Sreeshma, N.S., Arockiasamy, A., Sundarabaalaji, N.
- This entry supersedes: 5DQX
| Funding Organization | Location | Grant Number |
|---|---|---|
| Department of Biotechnology (DBT, India) | India | BT/PR13735/BRB/10/786/2011 and BT/PR28080/BID/7/836/2018. |
| Department of Science & Technology (DST, India) | India | PDF/2016/003347 |
| Department of Biotechnology (DBT, India) | India | BT/PR8636/BRB/10/530/2007 |
| Department of Biotechnology (DBT, India) | India | BT/PR10275/GBD/27/88/2007 |
Revision History (Full details and data files)
- Version 1.0: 2021-06-23
Type: Initial release - Version 1.1: 2023-11-29
Changes: Advisory, Data collection, Database references, Refinement description
