Download MendeleyCrystal structure of Saccharomyces cerevisia OMP synthase in complex with PRP(CH2)P
Bang, M.B., Molich, U., Hansen, M.R., Grubmeyer, C., Harris, P.To be published.
4WML
Crystal structure of Saccharomyces cerevisiae OMP synthase in complex with PRP(CH2)P
- PDB DOI: https://doi.org/10.2210/pdb4WML/pdb
- Classification: TRANSFERASE
- Organism(s): Saccharomyces cerevisiae S288C
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2014-10-09 Released: 2015-12-23
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.73 ?
- R-Value Free: 0.250
- R-Value Work: 0.211
- R-Value Observed: 0.213
Starting Model: experimental
View more details
This is version 1.3 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 |
| Orotate phosphoribosyltransferase 1 | 231 | Saccharomyces cerevisiae S288C | Mutation(s): 0 Gene Names: URA5, PYR5, YML106W, YM8339.13 EC: 2.4.2.10 |  | |
UniProt | |||||
Find proteins for P13298 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P13298 Go to UniProtKB: P13298 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P13298 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| PPC Query on PPC | C [auth A] | 1-O-[(R)-hydroxy(phosphonomethyl)phosphoryl]-5-O-phosphono-alpha-D-ribofuranose C6 H15 O13 P3 JFMKBQDEISBIPL-KVTDHHQDSA-N |  | ||
| MG Query on MG | B [auth A] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.73 ?
- R-Value Free: 0.250
- R-Value Work: 0.211
- R-Value Observed: 0.213
- Space Group: P 43 21 2
Unit Cell:
| Length ( ? ) | Angle ( ? ) |
|---|---|
| a = 61.56 | ¦Á = 90 |
| b = 61.56 | ¦Â = 90 |
| c = 132.49 | ¦Ă = 90 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| XDS | data reduction |
| XSCALE | data scaling |
| Coot | model building |
| MOLREP | phasing |
Entry History
Deposition Data
- Released Date: 2015-12-23 Deposition Author(s): Bang, M.B., Molich, U., Hansen, M.R., Grubmeyer, C., Harris, P.
Revision History (Full details and data files)
- Version 1.0: 2015-12-23
Type: Initial release - Version 1.1: 2018-01-17
Changes: Data collection - Version 1.2: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Derived calculations, Structure summary - Version 1.3: 2024-01-10
Changes: Data collection, Database references, Refinement description, Structure summary
