2PS1
S. cerevisiae orotate phosphoribosyltransferase complexed with orotic acid and PRPP
- PDB DOI: https://doi.org/10.2210/pdb2PS1/pdb
- Classification: TRANSFERASE
- Organism(s): Saccharomyces cerevisiae
- Expression System: Escherichia coli
- Mutation(s): No 
- Deposited: 2007-05-04 Released: 2008-01-15 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.75 Å
- R-Value Free: 0.217 
- R-Value Work: 0.194 
- R-Value Observed: 0.195 
This is version 1.4 of the entry. See complete history. 
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Orotate phosphoribosyltransferase 1 | 226 | Saccharomyces cerevisiae | Mutation(s): 0  Gene Names: URA5, PYR5 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 3 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
PRP Query on PRP | E [auth A], H [auth B] | 1-O-pyrophosphono-5-O-phosphono-alpha-D-ribofuranose C5 H13 O14 P3 PQGCEDQWHSBAJP-TXICZTDVSA-N | |||
ORO Query on ORO | D [auth A], G [auth B] | OROTIC ACID C5 H4 N2 O4 PXQPEWDEAKTCGB-UHFFFAOYSA-N | |||
MG Query on MG | C [auth A], F [auth B] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.75 Å
- R-Value Free: 0.217 
- R-Value Work: 0.194 
- R-Value Observed: 0.195 
- Space Group: P 1
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 41.788 | α = 90.59 |
b = 50.051 | β = 105.88 |
c = 50.078 | γ = 92.99 |
Software Name | Purpose |
---|---|
DENZO | data reduction |
SCALEPACK | data scaling |
REFMAC | refinement |
PDB_EXTRACT | data extraction |
ADSC | data collection |
HKL-2000 | data reduction |
HKL-2000 | data scaling |
MOLREP | phasing |
Entry History 
Deposition Data
- Released Date: 2008-01-15  Deposition Author(s): Gonzalez-Segura, L., Hurley, T.D., McClard, R.W.
Revision History (Full details and data files)
- Version 1.0: 2008-01-15
Type: Initial release - Version 1.1: 2011-07-13
Changes: Derived calculations, Version format compliance - Version 1.2: 2017-10-18
Changes: Refinement description - Version 1.3: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Data collection, Derived calculations, Structure summary - Version 1.4: 2023-08-30
Changes: Data collection, Database references, Refinement description, Structure summary