Download MendeleyCrystal structure of thioesterase superfamily (YP_508616.1) from Jannaschia sp. CCS1 at 2.00 A resolution
Joint Center for Structural Genomics (JCSG)To be published.
2OAF | pdb_00002oaf
2OAF | pdb_00002oaf
Crystal structure of thioesterase superfamily (YP_508616.1) from Jannaschia sp. CCS1 at 2.00 A resolution
- PDB DOI: https://doi.org/10.2210/pdb2OAF/pdb
- Classification: HYDROLASE
- Organism(s): Jannaschia sp. CCS1
- Expression System: Escherichia coli
- Mutation(s): Yes
- Deposited: 2006-12-15 Released: 2007-02-13
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.00 Å
- R-Value Free: 0.193 (Depositor), 0.204 (DCC)
- R-Value Work: 0.167 (Depositor), 0.178 (DCC)
- R-Value Observed: 0.168 (Depositor)
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:
| 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Thioesterase superfamily | 151 | Jannaschia sp. CCS1 | Mutation(s): 2 Gene Names: YP_508616.1 |  | |
UniProt | |||||
Find proteins for A0ACD6B874 (Jannaschia sp. (strain CCS1)) Explore A0ACD6B874 Go to UniProtKB: A0ACD6B874 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | A0ACD6B874 | ||||
Sequence AnnotationsExpand | |||||
Reference Sequence | |||||
Small Molecules
| Ligands 4 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| CIT Download:Ideal Coordinates CCD File | F [auth A], G [auth A] | CITRIC ACID C6 H8 O7 KRKNYBCHXYNGOX-UHFFFAOYSA-N |  | ||
| PGE Download:Ideal Coordinates CCD File | I [auth B], J [auth B], K [auth B] | TRIETHYLENE GLYCOL C6 H14 O4 ZIBGPFATKBEMQZ-UHFFFAOYSA-N |  | ||
| PO4 Download:Ideal Coordinates CCD File | C [auth A], D [auth A], H [auth B] | PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K |  | ||
| CL Download:Ideal Coordinates CCD File | E [auth A] | CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M |  | ||
| 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: 0.193 (Depositor), 0.204 (DCC)
- R-Value Work: 0.167 (Depositor), 0.178 (DCC)
- R-Value Observed: 0.168 (Depositor)
Diffraction Data:
Space Group: P 61 2 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 68.412 | α = 90 |
| b = 68.412 | β = 90 |
| c = 260.002 | γ = 120 |
| Software Name | Purpose |
|---|---|
| MolProbity | model building |
| SHELX | phasing |
| REFMAC | refinement |
| SCALA | data scaling |
| PDB_EXTRACT | data extraction |
| MOSFLM | data reduction |
| CCP4 | data scaling |
| SHELXD | phasing |
| SHARP | phasing |
Entry History
Deposition Data
- Released Date: 2007-02-13 Deposition Author(s): Joint Center for Structural Genomics (JCSG)
Revision History (Full details and data files)
- Version 1.0: 2007-02-13
Type: Initial release - Version 1.1: 2008-05-01
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Advisory, Derived calculations, Source and taxonomy, Version format compliance - Version 1.3: 2017-10-18
Changes: Refinement description - Version 1.4: 2023-12-27
Changes: Data collection, Database references, Derived calculations, Refinement description - Version 1.5: 2024-10-30
Changes: Structure summary
