Download MendeleyCrystal structure of truncated Pyrococcus furiosus L-asparaginase with peptide
Sharma, P., Tomar, R., Nath, S.K., Kundu, B., AshishTo be published.
5B5U
Crystal structure of truncated Pyrococcus furiosus L-asparaginase with peptide
- PDB DOI: 10.2210/pdb5B5U/pdb
- Classification: HYDROLASE
- Organism(s): Pyrococcus furiosus DSM 3638, Pyrococcus furiosus
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2016-05-23 Released: 2017-05-31
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.61 Å
- R-Value Free: 0.242
- R-Value Work: 0.203
- R-Value Observed: 0.205
wwPDB Validation 3D Report Full Report
This is version 1.0 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 |
| L-asparaginase | A | 178 | Pyrococcus furiosus DSM 3638 | Mutation(s): 0 Gene Names: PF2047 EC: 3.5.1.1 |  |
UniProt | |||||
Find proteins for Q8TZE8 (Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)) Explore Q8TZE8 Go to UniProtKB: Q8TZE8 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q8TZE8 | ||||
Protein Feature ViewExpand | |||||
| |||||
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| L-asparaginase | B | 127 | Pyrococcus furiosus DSM 3638 | Mutation(s): 0 Gene Names: PF2047 EC: 3.5.1.1 |  |
UniProt | |||||
Find proteins for Q8TZE8 (Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)) Explore Q8TZE8 Go to UniProtKB: Q8TZE8 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q8TZE8 | ||||
Protein Feature ViewExpand | |||||
| |||||
Find similar proteins by: Sequence | 3D Structure
Entity ID: 3 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| LEU-VAL-VAL-ASN | C, D [auth E] | 4 | Pyrococcus furiosus | Mutation(s): 0 |  |
Protein Feature ViewExpand | |||||
| |||||
Small Molecules
| Ligands 4 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| ASP Query on ASP | E [auth A] | ASPARTIC ACID C4 H7 N O4 CKLJMWTZIZZHCS-REOHCLBHSA-N |  | Ligand Interaction | |
| GOL Query on GOL | I [auth A], J [auth A], K [auth A] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | Ligand Interaction | |
| IPA Query on IPA | G [auth A], H [auth A] | ISOPROPYL ALCOHOL C3 H8 O KFZMGEQAYNKOFK-UHFFFAOYSA-N |  | Ligand Interaction | |
| CL Query on CL | F [auth A], L [auth B] | CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M |  | Ligand Interaction | |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.61 Å
- R-Value Free: 0.242
- R-Value Work: 0.203
- R-Value Observed: 0.205
- Space Group: P 65 2 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 91.31 | α = 90 |
| b = 91.31 | β = 90 |
| c = 186.971 | γ = 120 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| iMOSFLM | data reduction |
| SCALA | data scaling |
| MOLREP | phasing |
Entry History
Deposition Data
- Deposited Date: 2016-05-23
- Released Date: 2017-05-31 Deposition Author(s): Sharma, P., Tomar, R., Nath, S.K., Kundu, B., Ashish
Revision History (Full details and data files)
- Version 1.0: 2017-05-31
Type: Initial release
