Download MendeleyStructure of SenB in complex with UDP-GlcNAc at 1.88 Angstroms resolution
Wei, H., Feng, L.To be published.
8JJT
Structure of SenB in complex with UDP-GlcNAc at 1.88 Angstroms resolution
- PDB DOI: https://doi.org/10.2210/pdb8JJT/pdb
- Classification: TRANSFERASE
- Organism(s): Variovorax paradoxus
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2023-05-31 Released: 2024-02-07
- Funding Organization(s): National Natural Science Foundation of China (NSFC)
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.88 Å
- R-Value Free: 0.215
- R-Value Work: 0.186
Starting Model: in silico
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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 |
| TIGR04348 family glycosyltransferase | A [auth C], B [auth A], C [auth B] | 331 | Variovorax paradoxus | Mutation(s): 0 Gene Names: JF629_18585 |  |
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| UD1 (Subject of Investigation/LOI) Query on UD1 | D [auth C], E [auth A], F [auth B] | URIDINE-DIPHOSPHATE-N-ACETYLGLUCOSAMINE C17 H27 N3 O17 P2 LFTYTUAZOPRMMI-CFRASDGPSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.88 Å
- R-Value Free: 0.215
- R-Value Work: 0.186
- Space Group: P 1 21 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 108.223 | α = 90 |
| b = 56.375 | β = 91.106 |
| c = 108.445 | γ = 90 |
| Software Name | Purpose |
|---|---|
| Blu-Ice | data collection |
| XDS | data reduction |
| Aimless | data scaling |
| PHENIX | phasing |
Entry History & Funding Information
Deposition Data
| Funding Organization | Location | Grant Number |
|---|---|---|
| National Natural Science Foundation of China (NSFC) | China | -- |
Revision History (Full details and data files)
- Version 1.0: 2024-02-07
Type: Initial release - Version 1.1: 2024-10-16
Changes: Structure summary
