Download MendeleyLigands disturb dimer contacts
Nguyen, A., Heyder, L., Heine, A., Diederich, W., Klebe, G.To be published.
6YGV
tRNA-Guanine Transglycosylase (TGT) in co-crystallized complex with (E)-N-ethyl-4-oxo-4-phenylbut-2-enamide
- PDB DOI: https://doi.org/10.2210/pdb6YGV/pdb
- Classification: TRANSFERASE
- Organism(s): Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821
- Expression System: Escherichia coli
- Mutation(s): Yes
- Deposited: 2020-03-27 Released: 2020-04-08
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.63 Å
- R-Value Free: 0.164
- R-Value Work: 0.131
- R-Value Observed: 0.133
Starting Model: experimental
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This is version 1.2 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 |
| Queuine tRNA-ribosyltransferase | 388 | Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821 | Mutation(s): 5 Gene Names: tgt, ZMO0363 EC: 2.4.2.29 |  | |
UniProt | |||||
Find proteins for P28720 (Zymomonas mobilis subsp. mobilis (strain ATCC 31821 / ZM4 / CP4)) Explore P28720 Go to UniProtKB: P28720 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P28720 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| OQH (Subject of Investigation/LOI) Query on OQH | H [auth A] | ~{N}-ethyl-4-oxidanylidene-4-phenyl-butanamide C12 H15 N O2 DSZHWKIWJYHWTO-UHFFFAOYSA-N |  | ||
| GOL Query on GOL | B [auth A], C [auth A], D [auth A], E [auth A], F [auth A] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | ||
| ZN Query on ZN | G [auth A] | ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.63 Å
- R-Value Free: 0.164
- R-Value Work: 0.131
- R-Value Observed: 0.133
- Space Group: C 1 2 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 90.824 | α = 90 |
| b = 64.911 | β = 95.726 |
| c = 71.07 | γ = 90 |
| Software Name | Purpose |
|---|---|
| Coot | model building |
| PHENIX | refinement |
| XDS | data reduction |
| XDS | data scaling |
| PHASER | phasing |
Entry History
Deposition Data
- Released Date: 2020-04-08 Deposition Author(s): Nguyen, A., Heyder, L., Heine, A., Diederich, W., Klebe, G.
Revision History (Full details and data files)
- Version 1.0: 2020-04-08
Type: Initial release - Version 1.1: 2020-04-15
Changes: Database references, Structure summary - Version 1.2: 2024-01-24
Changes: Data collection, Database references, Derived calculations, Refinement description
