Download MendeleyTurning an Asparaginyl Endopeptidase into a Peptide Ligase
Hemu, X., El Sahili, A., Hu, S., Zhang, X., Serra, A., Goh, B.C., Darwis, D.A., Chen, M.W., Sze, S.K., Liu, C.F., Lescar, J., Tam, J.P.(2020) ACS Catal 10: 8825-8834
6L4Y
Turning an asparaginyl endopeptidase into a peptide ligase
- PDB DOI: https://doi.org/10.2210/pdb6L4Y/pdb
- Classification: HYDROLASE
- Organism(s): Clitoria ternatea
- Expression System: Spodoptera aff. frugiperda 1 BOLD-2017
- Mutation(s): Yes
- Deposited: 2019-10-21 Released: 2020-10-07
- Funding Organization(s): Ministry of Education (MoE, Singapore)
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.50 Å
- R-Value Free: 0.190
- R-Value Work: 0.172
- R-Value Observed: 0.172
This is version 2.1 of the entry. See complete history.
Literature
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Asparaginyl endopeptidase | 502 | Clitoria ternatea | Mutation(s): 2 EC: 3.4.22.34 |  | |
UniProt | |||||
Find proteins for A0A0P0QM28 (Clitoria ternatea) Explore A0A0P0QM28 Go to UniProtKB: A0A0P0QM28 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | A0A0P0QM28 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| NAG Query on NAG | C [auth A], F [auth B] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N |  | ||
| PEG Query on PEG | E [auth A] | DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N |  | ||
| EDO Query on EDO | D [auth A] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |  | ||
| Modified Residues 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| OCS Query on OCS | A, B | L-PEPTIDE LINKING | C3 H7 N O5 S |  | CYS |
| SNN Query on SNN | A, B | L-PEPTIDE LINKING | C4 H6 N2 O2 |  | ASN |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.50 Å
- R-Value Free: 0.190
- R-Value Work: 0.172
- R-Value Observed: 0.172
- Space Group: P 1 21 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 44.61 | α = 90 |
| b = 79.6 | β = 93.95 |
| c = 136.47 | γ = 90 |
| Software Name | Purpose |
|---|---|
| BUSTER | refinement |
| XDS | data reduction |
| XDS | data scaling |
| MOLREP | phasing |
Entry History & Funding Information
Deposition Data
- Released Date: 2020-10-07 Deposition Author(s): El Sahili, A., Lescar, J.
| Funding Organization | Location | Grant Number |
|---|---|---|
| Ministry of Education (MoE, Singapore) | Singapore | MOE2016-T3-1-003 |
Revision History (Full details and data files)
- Version 1.0: 2020-10-07
Type: Initial release - Version 2.0: 2023-11-15
Changes: Atomic model, Data collection, Database references, Derived calculations - Version 2.1: 2023-11-22
Changes: Refinement description
