2ZL6
Atomic resolution structural characterization of recognition of histo-blood group antigens by Norwalk virus
- PDB DOI: https://doi.org/10.2210/pdb2ZL6/pdb
- Classification: VIRAL PROTEIN
- Organism(s): Norwalk virus
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2008-04-02 Released: 2008-07-22
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.43 Å
- R-Value Free: 0.200
- R-Value Work: 0.179
- R-Value Observed: 0.180
wwPDB Validation 3D Report Full Report
This is version 2.1 of the entry. See complete history.
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| 58 kd capsid protein | 295 | Norwalk virus | Mutation(s): 0 Gene Names: ORF2 |  | |
UniProt | |||||
Find proteins for Q83884 (Norovirus (strain Human/NoV/United States/Norwalk/1968/GI)) Explore Q83884 Go to UniProtKB: Q83884 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q83884 | ||||
Sequence AnnotationsExpand | |||||
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Oligosaccharides
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Length | 2D Diagram | Glycosylation | 3D Interactions |
| alpha-L-fucopyranose-(1-2)-beta-D-galactopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-3)-beta-D-galactopyranose-(1-4)-beta-D-glucopyranose | C | 5 |  | N/A | |
Glycosylation Resources | |||||
GlyTouCan: G00050MO GlyCosmos: G00050MO GlyGen: G00050MO | |||||
Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| ACT Query on ACT | E [auth A] | ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M |  | ||
| MG Query on MG | D [auth A], F [auth B] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.43 Å
- R-Value Free: 0.200
- R-Value Work: 0.179
- R-Value Observed: 0.180
- Space Group: P 31 2 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 83.512 | α = 90 |
| b = 83.512 | β = 90 |
| c = 162.929 | γ = 120 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| HKL-3000 | data collection |
| HKL-2000 | data reduction |
| SCALEPACK | data scaling |
| PHASER | phasing |
Entry History
Deposition Data
- Released Date: 2008-07-22 Deposition Author(s): Choi, J.M., Huston, A.M., Estes, M.K., Prasad, B.V.V.
Revision History (Full details and data files)
- Version 1.0: 2008-07-22
Type: Initial release - Version 1.1: 2011-07-13
Changes: Non-polymer description, Version format compliance - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Derived calculations, Structure summary - Version 2.1: 2023-11-01
Changes: Data collection, Database references, Refinement description, Structure summary
