Download MendeleyCrystal structure of phosphorylated phosphopentomutase from streptococcus mutans
Fedorov, A.A., Fedorov, E.V., Bonanno, J., Burley, S.K., Almo, S.C.To be published.
4N7T
Crystal structure of phosphorylated phosphopentomutase from streptococcus mutans
- PDB DOI: https://doi.org/10.2210/pdb4N7T/pdb
- Classification: ISOMERASE
- Organism(s): Streptococcus mutans UA159
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2013-10-16 Released: 2013-11-06
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.00 Å
- R-Value Free: 0.203
- R-Value Work: 0.171
- R-Value Observed: 0.172
wwPDB Validation 3D Report Full Report
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 |
| Phosphopentomutase | 413 | Streptococcus mutans UA159 | Mutation(s): 0 Gene Names: deoB, SMU_1233 EC: 5.4.2.7 |  | |
UniProt | |||||
Find proteins for Q8DTU0 (Streptococcus mutans serotype c (strain ATCC 700610 / UA159)) Explore Q8DTU0 Go to UniProtKB: Q8DTU0 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q8DTU0 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 5 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| PEG Query on PEG | I [auth A] | DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N |  | ||
| SO4 Query on SO4 | E [auth A], M [auth B] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L |  | ||
| GOL Query on GOL | F [auth A], G [auth A], J [auth A] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | ||
| MN Query on MN | C [auth A], D [auth A], K [auth B], L [auth B] | MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N |  | ||
| AZI Query on AZI | H [auth A], N [auth B] | AZIDE ION N3 IVRMZWNICZWHMI-UHFFFAOYSA-N |  | ||
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| TPO Query on TPO | A, B | L-PEPTIDE LINKING | C4 H10 N O6 P |  | THR |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.00 Å
- R-Value Free: 0.203
- R-Value Work: 0.171
- R-Value Observed: 0.172
- Space Group: P 1 21 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 69.788 | α = 90 |
| b = 63.687 | β = 98.85 |
| c = 104.765 | γ = 90 |
| Software Name | Purpose |
|---|---|
| ADSC | data collection |
| BALBES | phasing |
| PHENIX | refinement |
| HKL-2000 | data reduction |
| HKL-2000 | data scaling |
Entry History
Deposition Data
- Released Date: 2013-11-06 Deposition Author(s): Fedorov, A.A., Fedorov, E.V., Bonanno, J., Burley, S.K., Almo, S.C., New York SGX Research Center for Structural Genomics (NYSGXRC), New York Structural Genomics Research Consortium (NYSGRC)
Revision History (Full details and data files)
- Version 1.0: 2013-11-06
Type: Initial release - Version 1.1: 2013-11-27
Changes: Structure summary - Version 1.2: 2021-02-10
Changes: Database references, Derived calculations, Structure summary - Version 1.3: 2023-09-20
Changes: Data collection, Database references, Refinement description
