4GIP
Structure of the cleavage-activated prefusion form of the parainfluenza virus 5 (PIV5) fusion protein
- PDB DOI: https://doi.org/10.2210/pdb4GIP/pdb
- Classification: VIRAL PROTEIN
- Organism(s): Simian virus 5 (strain W3)
- Expression System: Trichoplusia ni
- Mutation(s): No 
- Deposited: 2012-08-08 Released: 2012-09-19 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.00 Å
- R-Value Free: 0.243 
- R-Value Work: 0.220 
- R-Value Observed: 0.221 
This is version 1.4 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 |
Fusion glycoprotein F2 | A, C [auth B], E [auth C] | 81 | Simian virus 5 (strain W3) | Mutation(s): 0  Gene Names: F | |
UniProt | |||||
Find proteins for P04849 (Parainfluenza virus 5 (strain W3)) Explore P04849  Go to UniProtKB:  P04849 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P04849 | ||||
Sequence AnnotationsExpand | |||||
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Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Fusion glycoprotein F1 | B [auth D], D [auth E], F | 409 | Simian virus 5 (strain W3) | Mutation(s): 0  Gene Names: F | |
UniProt | |||||
Find proteins for P04849 (Parainfluenza virus 5 (strain W3)) Explore P04849  Go to UniProtKB:  P04849 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P04849 | ||||
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 | G [auth A] H [auth D] I [auth D] J [auth B] K [auth E] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.00 Å
- R-Value Free: 0.243 
- R-Value Work: 0.220 
- R-Value Observed: 0.221 
- Space Group: C 1 2 1
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 250.93 | α = 90 |
b = 140.52 | β = 99.84 |
c = 84.6 | γ = 90 |
Software Name | Purpose |
---|---|
DENZO | data reduction |
SCALEPACK | data scaling |
PHASER | phasing |
PHENIX | refinement |
PDB_EXTRACT | data extraction |
HKL-2000 | data collection |
HKL-2000 | data reduction |
HKL-2000 | data scaling |
Entry History 
Deposition Data
- Released Date: 2012-09-19  Deposition Author(s): Welch, B.D., Liu, Y., Kors, C.A., Leser, G.P., Jardetzky, T.S., Lamb, R.A.
Revision History (Full details and data files)
- Version 1.0: 2012-09-19
Type: Initial release - Version 1.1: 2012-10-31
Changes: Database references - Version 1.2: 2017-11-15
Changes: Advisory, Refinement description - Version 1.3: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Data collection, Database references, Derived calculations, Structure summary - Version 1.4: 2023-09-13
Changes: Data collection, Database references, Refinement description, Structure summary