Download MendeleyGlucarate dehydratase and its related protein from Escherichia coli form a heterotetrameric complex.
Lukk, T., Ghasempur, S., Imker, H.J., Nair, S.K., Gerlt, J.A.To be published.
4GYP
Crystal structure of the heterotetrameric complex of GlucD and GlucDRP from E. coli K-12 MG1655 (EFI TARGET EFI-506058)
- PDB DOI: https://doi.org/10.2210/pdb4GYP/pdb
- Classification: LYASE/LYASE
- Organism(s): Escherichia coli K-12
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2012-09-05 Released: 2012-09-12
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.10 Å
- R-Value Free: 0.186
- R-Value Work: 0.149
- R-Value Observed: 0.150
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 |
| Glucarate dehydratase | 446 | Escherichia coli K-12 | Mutation(s): 0 Gene Names: b2787, gudD, JW2758, ygcX EC: 4.2.1.40 |  | |
UniProt | |||||
Find proteins for P0AES2 (Escherichia coli (strain K12)) Explore P0AES2 Go to UniProtKB: P0AES2 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P0AES2 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Glucarate dehydratase-related protein | 458 | Escherichia coli K-12 | Mutation(s): 0 Gene Names: b2788, gudX, JW2759, ygcY EC: 4.2.1 |  | |
UniProt | |||||
Find proteins for Q46915 (Escherichia coli (strain K12)) Explore Q46915 Go to UniProtKB: Q46915 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q46915 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 6 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| P6G Query on P6G | O [auth D] | HEXAETHYLENE GLYCOL C12 H26 O7 IIRDTKBZINWQAW-UHFFFAOYSA-N |  | ||
| CIT Query on CIT | K [auth C], N [auth D] | CITRIC ACID C6 H8 O7 KRKNYBCHXYNGOX-UHFFFAOYSA-N |  | ||
| PEG Query on PEG | H [auth A], M [auth C], R [auth D] | DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N |  | ||
| SO4 Query on SO4 | F [auth A], J [auth B] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L |  | ||
| GOL Query on GOL | G [auth A], L [auth C], P [auth D], Q [auth D] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | ||
| MG Query on MG | E [auth A], I [auth B] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.10 Å
- R-Value Free: 0.186
- R-Value Work: 0.149
- R-Value Observed: 0.150
- Space Group: C 1 2 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 155.47 | α = 90 |
| b = 113.02 | β = 105.89 |
| c = 128.59 | γ = 90 |
| Software Name | Purpose |
|---|---|
| XSCALE | data scaling |
| PHASER | phasing |
| PHENIX | refinement |
| PDB_EXTRACT | data extraction |
| HKL-2000 | data collection |
| XDS | data reduction |
Entry History
Deposition Data
- Released Date: 2012-09-12 Deposition Author(s): Lukk, T., Ghasempur, S., Imker, H.J., Gerlt, J.A., Nair, S.K., Enzyme Function Initiative (EFI)
Revision History (Full details and data files)
- Version 1.0: 2012-09-12
Type: Initial release - Version 1.1: 2012-09-19
Changes: Structure summary - Version 1.2: 2023-09-13
Changes: Data collection, Database references, Derived calculations, Refinement description
