Download MendeleyStructural mechanisms of calmodulin activation of Shigella effector OspC3 to ADP-riboxanate caspase-4/11 and block pyroptosis
Hou, Y., Zeng, H., Li, Z., Feng, N., Meng, F., Xu, Y., Li, L., Shao, F., Ding, J.(2023) Nat Struct Mol Biol
7WR6
Crystal structure of ADP-riboxanated caspase-4 in complex with Af1521
- PDB DOI: 10.2210/pdb7WR6/pdb
- Classification: HYDROLASE
- Organism(s): Homo sapiens, Archaeoglobus fulgidus
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): Yes
- Deposited: 2022-01-26 Released: 2023-01-25
- Funding Organization(s): Chinese Academy of Sciences
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.96 Å
- R-Value Free: 0.228
- R-Value Work: 0.196
- R-Value Observed: 0.198
wwPDB Validation 3D Report Full Report
This is version 1.0 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 |
| Caspase-4 | A | 280 | Homo sapiens | Mutation(s): 1 Gene Names: CASP4, ICH2 EC: 3.4.22.57 |  |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P49662 (Homo sapiens) Explore P49662 Go to UniProtKB: P49662 | |||||
PHAROS: P49662 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P49662 | ||||
Protein Feature ViewExpand | |||||
| |||||
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| ADP-ribose glycohydrolase AF_1521 | B | 200 | Archaeoglobus fulgidus | Mutation(s): 0 Gene Names: AF_1521 EC: 3.2.2 |  |
UniProt | |||||
Find proteins for O28751 (Archaeoglobus fulgidus (strain ATCC 49558 / DSM 4304 / JCM 9628 / NBRC 100126 / VC-16)) Explore O28751 Go to UniProtKB: O28751 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | O28751 | ||||
Protein Feature ViewExpand | |||||
| |||||
Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| 5ZY (Subject of Investigation/LOI) Query on 5ZY | C [auth B] | [[(3~{a}~{S},5~{R},6~{R},6~{a}~{R})-2-azanylidene-3-[(4~{R})-4-azanyl-5-oxidanylidene-pentyl]-6-oxidanyl-3~{a},5,6,6~{a}-tetrahydrofuro[2,3-d][1,3]oxazol-5-yl]methoxy-oxidanyl-phosphoryl] [(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl hydrogen phosphate C21 H32 N8 O14 P2 ZUWDPDYSBKPILX-IHCGFKTISA-N |  | Ligand Interaction | |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.96 Å
- R-Value Free: 0.228
- R-Value Work: 0.196
- R-Value Observed: 0.198
- Space Group: P 21 21 21
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 42.143 | α = 90 |
| b = 59.92 | β = 90 |
| c = 187.82 | γ = 90 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| XDS | data reduction |
| XDS | data scaling |
| PHASER | phasing |
Entry History & Funding Information
Deposition Data
| Funding Organization | Location | Grant Number |
|---|---|---|
| Chinese Academy of Sciences | China | -- |
Revision History (Full details and data files)
- Version 1.0: 2023-01-25
Type: Initial release
