4Z4U
Crystal structure of GII.10 P domain in complex with 37.5mM fucose
- PDB DOI: https://doi.org/10.2210/pdb4Z4U/pdb
- Classification: VIRAL PROTEIN
- Organism(s): Norovirus GII.10
- Expression System: Escherichia coli BL21
- Mutation(s): No 
- Deposited: 2015-04-02 Released: 2015-05-27 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.89 Å
- R-Value Free: 0.199 
- R-Value Work: 0.157 
- R-Value Observed: 0.159 
This is version 1.3 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 |
Capsid protein | 315 | Norovirus GII.10 | Mutation(s): 0  | ||
UniProt | |||||
Find proteins for Q5F4T5 (Norwalk virus) Explore Q5F4T5  Go to UniProtKB:  Q5F4T5 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q5F4T5 | ||||
Sequence AnnotationsExpand | |||||
|
Small Molecules
Ligands 2 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
FUL Query on FUL | G [auth A], L [auth B] | beta-L-fucopyranose C6 H12 O5 SHZGCJCMOBCMKK-KGJVWPDLSA-N | |||
EDO Query on EDO | C [auth A] D [auth A] E [auth A] F [auth A] H [auth B] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.89 Å
- R-Value Free: 0.199 
- R-Value Work: 0.157 
- R-Value Observed: 0.159 
- Space Group: P 1 21 1
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 65.317 | α = 90 |
b = 78.774 | β = 99.52 |
c = 68.512 | γ = 90 |
Software Name | Purpose |
---|---|
PHASER | phasing |
PHENIX | refinement |
PDB_EXTRACT | data extraction |
XDS | data reduction |
Entry History 
Deposition Data
- Released Date: 2015-05-27  Deposition Author(s): Koromyslova, A.D., Leuthold, M.M., Hansman, G.S.
Revision History (Full details and data files)
- Version 1.0: 2015-05-27
Type: Initial release - Version 1.1: 2015-06-03
Changes: Database references - Version 1.2: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Data collection, Derived calculations, Structure summary - Version 1.3: 2024-01-10
Changes: Data collection, Database references, Refinement description, Structure summary