Download MendeleyS127A variant of LarB, a carboxylase/hydrolase involved in synthesis of the cofactor for lactate racemase, in complex with Zinc and soaked with bicarbonate.
Chatterjee, S., Rankin, J.A., Hu, J., Hausinger, R.P.To be published.
8STC
S127A variant of LarB, a carboxylase/hydrolase involved in synthesis of the cofactor for lactate racemase, in complex with Zinc and soaked with bicarbonate.
- PDB DOI: https://doi.org/10.2210/pdb8STC/pdb
- Classification: LYASE
- Organism(s): Lactiplantibacillus plantarum WCFS1
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): Yes
- Deposited: 2023-05-09 Released: 2024-07-03
- Funding Organization(s): National Science Foundation (NSF, United States), National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.80 Å
- R-Value Free: 0.273
- R-Value Work: 0.237
- R-Value Observed: 0.239
Starting Model: experimental
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wwPDB Validation 3D Report Full Report
This is version 1.0 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 |
| Pyridinium-3,5-biscarboxylic acid mononucleotide synthase | 256 | Lactiplantibacillus plantarum WCFS1 | Mutation(s): 1 Gene Names: larB, lp_0105 EC: 2.5.1.143 |  | |
UniProt | |||||
Find proteins for F9UST0 (Lactiplantibacillus plantarum (strain ATCC BAA-793 / NCIMB 8826 / WCFS1)) Explore F9UST0 Go to UniProtKB: F9UST0 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | F9UST0 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| ZN Query on ZN | G [auth A], I [auth C] | ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N |  | ||
| MG Query on MG | H [auth A], J [auth D] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.80 Å
- R-Value Free: 0.273
- R-Value Work: 0.237
- R-Value Observed: 0.239
- Space Group: P 4 21 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 120.38 | α = 90 |
| b = 120.38 | β = 90 |
| c = 213.159 | γ = 90 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| iMOSFLM | data reduction |
| Aimless | data scaling |
| PHASER | phasing |
Entry History & Funding Information
Deposition Data
- Released Date: 2024-07-03 Deposition Author(s): Chatterjee, S., Rankin, J.A., Hu, J., Hausinger, R.P.
| Funding Organization | Location | Grant Number |
|---|---|---|
| National Science Foundation (NSF, United States) | United States | CHE-1807073 |
| National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) | United States | GM128959 |
Revision History (Full details and data files)
- Version 1.0: 2024-07-03
Type: Initial release
