Download MendeleyCrystal structure of EthD-like protein (YP_299883.1) from Ralstonia eutropha JMP134 at 2.10 A resolution
Joint Center for Structural Genomics (JCSG)To be published.
3BF4
Crystal structure of an ethd-like protein (reut_b5694) from ralstonia eutropha jmp134 at 2.10 A resolution
- PDB DOI: https://doi.org/10.2210/pdb3BF4/pdb
- Classification: UNKNOWN FUNCTION
- Organism(s): Cupriavidus pinatubonensis JMP134
- Expression System: Escherichia coli
- Mutation(s): Yes
- Deposited: 2007-11-20 Released: 2007-12-04
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.10 Å
- R-Value Free: 0.212
- R-Value Work: 0.178
- R-Value Observed: 0.179
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 |
| Ethyl tert-butyl ether degradation EthD protein | 127 | Cupriavidus pinatubonensis JMP134 | Mutation(s): 3 Gene Names: YP_299883.1, Reut_B5694 |  | |
UniProt | |||||
Find proteins for Q46P95 (Cupriavidus pinatubonensis (strain JMP 134 / LMG 1197)) Explore Q46P95 Go to UniProtKB: Q46P95 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q46P95 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| EDO Query on EDO | C [auth A], D [auth B], E [auth B], F [auth B], G [auth B] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |  | ||
| IPA Query on IPA | H [auth B] | ISOPROPYL ALCOHOL C3 H8 O KFZMGEQAYNKOFK-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: 2.10 Å
- R-Value Free: 0.212
- R-Value Work: 0.178
- R-Value Observed: 0.179
- Space Group: P 43 21 2
- Diffraction Data: https://doi.org/10.18430/M33BF4
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 74.54 | α = 90 |
| b = 74.54 | β = 90 |
| c = 98.87 | γ = 90 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| PHENIX | refinement |
| SHELX | phasing |
| MolProbity | model building |
| XSCALE | data scaling |
| PDB_EXTRACT | data extraction |
| ADSC | data collection |
| XDS | data reduction |
| SHELXD | phasing |
| autoSHARP | phasing |
Entry History
Deposition Data
- Released Date: 2007-12-04 Deposition Author(s): Joint Center for Structural Genomics (JCSG)
Revision History (Full details and data files)
- Version 1.0: 2007-12-04
Type: Initial release - Version 1.1: 2011-07-13
Changes: Advisory, Version format compliance - Version 1.2: 2017-10-25
Changes: Refinement description - Version 1.3: 2019-07-24
Changes: Data collection, Derived calculations, Refinement description - Version 1.4: 2021-10-20
Changes: Database references, Derived calculations - Version 1.5: 2023-01-25
Changes: Database references
