Download MendeleyCrystal structure of periplasmic solute binding protein from Veillonella parvula DSM 2008
Chang, C., Chhor, G., Endres, M., Joachimiak, A.To be published.
4OVK
Crystal structure of periplasmic solute binding protein from Veillonella parvula DSM 2008
- PDB DOI: 10.2210/pdb4OVK/pdb
- Classification: SOLUTE-BINDING PROTEIN
- Organism(s): Veillonella parvula DSM 2008
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2013-11-15 Released: 2013-12-18
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.71 Å
- R-Value Free: 0.188
- R-Value Work: 0.140
- R-Value Observed: 0.142
wwPDB Validation 3D Report Full Report
This is version 1.5 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 |
| Periplasmic binding protein | A | 341 | Veillonella parvula DSM 2008 | Mutation(s): 0 Gene Names: Vpar_0328 |  |
UniProt | |||||
Find proteins for D1BR49 (Veillonella parvula (strain ATCC 10790 / DSM 2008 / CCUG 5123 / JCM 12972 / NCTC 11810 / Te3)) Explore D1BR49 Go to UniProtKB: D1BR49 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | D1BR49 | ||||
Protein Feature ViewExpand | |||||
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Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| PGE Query on PGE | B [auth A] | TRIETHYLENE GLYCOL C6 H14 O4 ZIBGPFATKBEMQZ-UHFFFAOYSA-N |  | Ligand Interaction | |
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| MSE Query on MSE | A | L-PEPTIDE LINKING | C5 H11 N O2 Se |  | MET |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.71 Å
- R-Value Free: 0.188
- R-Value Work: 0.140
- R-Value Observed: 0.142
- Space Group: P 21 21 21
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 53.146 | α = 90 |
| b = 58.872 | β = 90 |
| c = 113.751 | γ = 90 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| PDB_EXTRACT | data extraction |
Entry History
Deposition Data
- Released Date: 2013-12-18 Deposition Author(s): Chang, C., Chhor, G., Endres, M., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)
Revision History (Full details and data files)
- Version 1.0: 2013-12-18
Type: Initial release - Version 1.1: 2013-12-25
Changes: Data collection - Version 1.2: 2014-01-22
Changes: Structure summary - Version 1.3: 2015-02-04
Changes: Derived calculations - Version 1.4: 2015-02-11
Changes: Source and taxonomy - Version 1.5: 2017-09-27
Changes: Database references, Derived calculations, Other, Refinement description, Source and taxonomy, Structure summary
