Download MendeleyThe complete covalent structure and 1.7 A crystal structure of PAP-S1aci reveals a RIP glycoprotein with multiple Asn-GlcNAc modifications
Hogg, T., Bezouska, K., Ulbrich, N., Kuta Smatanova, I., Hilgenfeld, R.To be published.
2Q8W
Crystal structure of PAP-S1aci, a pokeweed antiviral protein from seeds of Phytolacca acinosa
- PDB DOI: https://doi.org/10.2210/pdb2Q8W/pdb
- Classification: HYDROLASE
- Organism(s): Phytolacca acinosa
- Mutation(s): No
- Deposited: 2007-06-12 Released: 2008-06-17
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.70 Å
- R-Value Free: 0.211
- R-Value Work: 0.169
Starting Model: experimental
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This is version 1.4 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 |
| POKEWEED ANTIVIRAL PROTEIN | 261 | Phytolacca acinosa | Mutation(s): 0 EC: 3.2.2.22 |  | |
UniProt | |||||
Find proteins for D0VWY1 (Phytolacca acinosa) Explore D0VWY1 Go to UniProtKB: D0VWY1 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | D0VWY1 | ||||
Glycosylation | |||||
| Glycosylation Sites: 1 | |||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| NAG Query on NAG | B [auth A] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.70 Å
- R-Value Free: 0.211
- R-Value Work: 0.169
- Space Group: I 2 2 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 78.63 | α = 90 |
| b = 84.19 | β = 90 |
| c = 90.88 | γ = 90 |
| Software Name | Purpose |
|---|---|
| CNS | refinement |
| DENZO | data reduction |
| SCALEPACK | data scaling |
| CNS | phasing |
Entry History
Deposition Data
- Released Date: 2008-06-17 Deposition Author(s): Hogg, T., Hilgenfeld, R.
Revision History (Full details and data files)
- Version 1.0: 2008-06-17
Type: Initial release - Version 1.1: 2011-07-13
Changes: Non-polymer description, Version format compliance - Version 1.2: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Data collection, Derived calculations, Structure summary - Version 1.3: 2023-08-30
Changes: Data collection, Database references, Refinement description, Structure summary - Version 1.4: 2024-11-06
Changes: Structure summary
