Download MendeleyCrystal structure of a hypothetical protein (lpg0956) from Legionella pneumophila subsp. pneumophila str. Philadelphia 1 at 2.00 A resolution
Joint Center for Structural Genomics (JCSG)To be published.
4KH9
Crystal structure of a DUF4785 family protein (lpg0956) from Legionella pneumophila subsp. pneumophila str. Philadelphia 1 at 2.00 A resolution
- PDB DOI: https://doi.org/10.2210/pdb4KH9/pdb
- Classification: Structural Genomics, Unknown Function
- Organism(s): Legionella pneumophila subsp. pneumophila str. Philadelphia 1
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2013-04-30 Released: 2013-07-03
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.00 Å
- R-Value Free: 0.221
- R-Value Work: 0.194
- R-Value Observed: 0.195
wwPDB Validation 3D Report Full Report
This is version 1.5 of the entry. See complete history.
Re-refinement Note
A newer entry is available that reflects an alternative modeling of the original data: 6K9O
Literature
To be published.
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| hypothetical protein | 374 | Legionella pneumophila subsp. pneumophila str. Philadelphia 1 | Mutation(s): 0 Gene Names: lpg0956, YP_094990.1 |  | |
UniProt | |||||
Find proteins for Q5ZWX8 (Legionella pneumophila subsp. pneumophila (strain Philadelphia 1 / ATCC 33152 / DSM 7513)) Explore Q5ZWX8 Go to UniProtKB: Q5ZWX8 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q5ZWX8 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| 1PE Query on 1PE | G [auth B] | PENTAETHYLENE GLYCOL C10 H22 O6 JLFNLZLINWHATN-UHFFFAOYSA-N |  | ||
| PEG Query on PEG | F [auth B] | DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N |  | ||
| CA Query on CA | C [auth A], D [auth B], E [auth B] | CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N |  | ||
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| MSE Query on MSE | A, B | L-PEPTIDE LINKING | C5 H11 N O2 Se |  | MET |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.00 Å
- R-Value Free: 0.221
- R-Value Work: 0.194
- R-Value Observed: 0.195
- Space Group: P 1
- Diffraction Data: https://doi.org/10.18430/M34KH9
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 53.807 | α = 64.13 |
| b = 62.975 | β = 82.94 |
| c = 70.632 | γ = 67.17 |
| Software Name | Purpose |
|---|---|
| MolProbity | model building |
| PDB_EXTRACT | data extraction |
| SHELX | phasing |
| SHARP | phasing |
| XSCALE | data scaling |
| BUSTER-TNT | refinement |
| XDS | data reduction |
| SHELXD | phasing |
| BUSTER | refinement |
Entry History
Deposition Data
- Released Date: 2013-07-03 Deposition Author(s): Joint Center for Structural Genomics (JCSG)
Revision History (Full details and data files)
- Version 1.0: 2013-07-03
Type: Initial release - Version 1.1: 2014-12-24
Changes: Structure summary - Version 1.2: 2017-11-15
Changes: Refinement description - Version 1.3: 2018-01-24
Changes: Database references - Version 1.4: 2023-02-01
Changes: Database references, Derived calculations - Version 1.5: 2024-11-20
Changes: Data collection, Structure summary
