Download MendeleyCrystal structure of yurp protein (np_391141.1) from bacillus subtilis at 1.90 A resolution
Joint Center for Structural Genomics (JCSG)To be published.
3EUA | pdb_00003eua
CRYSTAL STRUCTURE OF A PUTATIVE PHOSPHOSUGAR ISOMERASE (BSU32610) FROM BACILLUS SUBTILIS AT 1.90 A RESOLUTION
- PDB DOI: https://doi.org/10.2210/pdb3EUA/pdb
- Classification: ISOMERASE
- Organism(s): Bacillus subtilis
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2008-10-09 Released: 2008-10-21
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.90 Å
- R-Value Free: 0.212 (Depositor), 0.220 (DCC)
- R-Value Work: 0.168 (Depositor), 0.170 (DCC)
- R-Value Observed: 0.170 (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:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| PUTATIVE FRUCTOSE-AMINOACID-6-PHOSPHATE DEGLYCASE | 329 | Bacillus subtilis | Mutation(s): 0 Gene Names: NP_391141.1, BSU32610, yurP EC: 3.5 |  | |
UniProt | |||||
Find proteins for O32157 (Bacillus subtilis (strain 168)) Explore O32157 Go to UniProtKB: O32157 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | O32157 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| FLC Query on FLC | I [auth C], K [auth H] | CITRATE ANION C6 H5 O7 KRKNYBCHXYNGOX-UHFFFAOYSA-K |  | ||
| GOL Query on GOL | J [auth C], L [auth H] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | ||
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| MSE Query on MSE | A, B, C, D, E A, B, C, D, E, F, G, H | L-PEPTIDE LINKING | C5 H11 N O2 Se |  | MET |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.90 Å
- R-Value Free: 0.212 (Depositor), 0.220 (DCC)
- R-Value Work: 0.168 (Depositor), 0.170 (DCC)
- R-Value Observed: 0.170 (Depositor)
Diffraction Data: https://doi.org/10.18430/M33EUA
Space Group: P 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 60.857 | α = 109.3 |
| b = 91.822 | β = 100.45 |
| c = 119.041 | γ = 96.55 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| PHENIX | refinement |
| SHELX | phasing |
| MolProbity | model building |
| SCALA | data scaling |
| PDB_EXTRACT | data extraction |
| MOSFLM | data reduction |
| SHELXD | phasing |
| autoSHARP | phasing |
Entry History
Deposition Data
- Released Date: 2008-10-21 Deposition Author(s): Joint Center for Structural Genomics (JCSG)
Revision History (Full details and data files)
- Version 1.0: 2008-10-21
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: 2023-02-01
Changes: Database references, Derived calculations - Version 1.5: 2024-11-20
Changes: Data collection, Refinement description, Structure summary
