Download MendeleyCrystal structure of a putative GDSL-like lipase (PARMER_00689) from Parabacteroides merdae ATCC 43184 at 2.86 A resolution
Joint Center for Structural Genomics (JCSG)To be published.
4Q9A
Crystal structure of a putative GDSL-like lipase (PARMER_00689) from Parabacteroides merdae ATCC 43184 at 2.86 A resolution
- PDB DOI: https://doi.org/10.2210/pdb4Q9A/pdb
- Classification: HYDROLASE
- Organism(s): Parabacteroides merdae ATCC 43184
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2014-04-30 Released: 2014-06-25
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.86 Å
- R-Value Free: 0.232
- R-Value Work: 0.182
- R-Value Observed: 0.185
wwPDB Validation 3D Report Full Report
This is version 1.2 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 |
| Tat pathway signal sequence domain protein | 229 | Parabacteroides merdae ATCC 43184 | Mutation(s): 0 Gene Names: PARMER_00689 |  | |
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Modified Residues 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| MSE Query on MSE | A, B | L-PEPTIDE LINKING | C5 H11 N O2 Se |  | MET |
| SEP Query on SEP | A, B | L-PEPTIDE LINKING | C3 H8 N O6 P |  | SER |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.86 Å
- R-Value Free: 0.232
- R-Value Work: 0.182
- R-Value Observed: 0.185
- Space Group: I 4 2 2
- Diffraction Data: https://doi.org/10.18430/M34Q9A
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 128.829 | α = 90 |
| b = 128.829 | β = 90 |
| c = 149.65 | γ = 90 |
| 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: 2014-06-25 Deposition Author(s): Joint Center for Structural Genomics (JCSG)
Revision History (Full details and data files)
- Version 1.0: 2014-06-25
Type: Initial release - Version 1.1: 2017-11-22
Changes: Refinement description - Version 1.2: 2023-02-01
Changes: Database references, Derived calculations
