Download MendeleyCrystal structure of macrolide glycosyltransferases OleD
Olmos, J.L., Jr., Wang, F., Martinez iii, E., Helmich, K.E., Singh, S., Xu, W., Bingman, C.A., Thorson, J.S., Phillips Jr., G.N.To be published.
4M83
Ensemble refinement of protein crystal structure (2IYF) of macrolide glycosyltransferases OleD complexed with UDP and Erythromycin A
- PDB DOI: 10.2210/pdb4M83/pdb
- Classification: Transferase/Antibiotic
- Organism(s): Streptomyces antibioticus
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2013-08-12 Released: 2013-09-11
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.70 Å
- R-Value Free: 0.201
- R-Value Work: 0.160
- R-Value Observed: 0.161
This is version 1.1 of the entry. See complete history.
Re-refinement Note
This entry reflects an alternative modeling of the original data in: 2IYF
Literature
To be published.
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Oleandomycin glycosyltransferase | A, B | 415 | Streptomyces antibioticus | Mutation(s): 0 Gene Names: oleD, UGT102A2 EC: 2.4.1 |  |
UniProt | |||||
Find proteins for Q53685 (Streptomyces antibioticus) Explore Q53685 Go to UniProtKB: Q53685 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q53685 | ||||
Protein Feature ViewExpand | |||||
| |||||
Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| ERY Query on ERY | C [auth A], E [auth B] | ERYTHROMYCIN A C37 H67 N O13 ULGZDMOVFRHVEP-RWJQBGPGSA-N |  | Ligand Interaction | |
| UDP Query on UDP | D [auth A], F [auth B] | URIDINE-5'-DIPHOSPHATE C9 H14 N2 O12 P2 XCCTYIAWTASOJW-XVFCMESISA-N |  | Ligand Interaction | |
| MG Query on MG | G [auth B] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |  | Ligand Interaction | |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.70 Å
- R-Value Free: 0.201
- R-Value Work: 0.160
- R-Value Observed: 0.161
- Space Group: P 1 21 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 72.718 | α = 90 |
| b = 65.778 | β = 100.42 |
| c = 91.94 | γ = 90 |
| Software Name | Purpose |
|---|---|
| HKL-2000 | data collection |
| PHASES | phasing |
| PHENIX | refinement |
Entry History
Deposition Data
- Released Date: 2013-09-11 Deposition Author(s): Wang, F., Helmich, K.E., Xu, W., Singh, S., Olmos Jr., J.L., Martinez iii, E., Bingman, C.A., Thorson, J.S., Phillips Jr., G.N., Enzyme Discovery for Natural Product Biosynthesis (NatPro)
Revision History (Full details and data files)
- Version 1.0: 2013-09-11
Type: Initial release - Version 1.1: 2018-01-24
Changes: Structure summary
