5WB0
Crystal structure of human metapneumovirus fusion glycoprotein stabilized in the prefusion state
- PDB DOI: https://doi.org/10.2210/pdb5WB0/pdb
- Classification: VIRAL PROTEIN
- Organism(s): human metapneumovirus
- Expression System: Chlorocebus aethiops
- Mutation(s): Yes 
- Deposited: 2017-06-27 Released: 2017-11-22 
- Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID), National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.60 Å
- R-Value Free: 0.207 
- R-Value Work: 0.170 
- R-Value Observed: 0.172 
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 |
Fusion glycoprotein F0 | A [auth F] | 542 | human metapneumovirus | Mutation(s): 3  | |
UniProt | |||||
Find proteins for Q1A2Z0 (Human metapneumovirus) Explore Q1A2Z0  Go to UniProtKB:  Q1A2Z0 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q1A2Z0 | ||||
Sequence AnnotationsExpand | |||||
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Oligosaccharides
Entity ID: 2 | |||||
---|---|---|---|---|---|
Molecule | Chains | Length | 2D Diagram | Glycosylation | 3D Interactions |
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | B [auth A] | 2 | N-Glycosylation | ||
Glycosylation Resources | |||||
GlyTouCan:  G42666HT GlyCosmos:  G42666HT GlyGen:  G42666HT |
Entity ID: 3 | |||||
---|---|---|---|---|---|
Molecule | Chains | Length | 2D Diagram | Glycosylation | 3D Interactions |
alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | C [auth B] | 4 | N-Glycosylation | ||
Glycosylation Resources | |||||
GlyTouCan:  G81315DD GlyCosmos:  G81315DD GlyGen:  G81315DD |
Small Molecules
Ligands 2 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
NAG Query on NAG | D [auth F] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N | |||
SO4 Query on SO4 | E [auth F], F, G [auth F], H [auth F] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.60 Å
- R-Value Free: 0.207 
- R-Value Work: 0.170 
- R-Value Observed: 0.172 
- Space Group: I 21 3
- Diffraction Data: https://doi.org/10.15785/SBGRID/535
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 177.7 | α = 90 |
b = 177.7 | β = 90 |
c = 177.7 | γ = 90 |
Software Name | Purpose |
---|---|
PHENIX | refinement |
MOSFLM | data reduction |
Aimless | data scaling |
PDB_EXTRACT | data extraction |
PHASER | phasing |
Entry History & Funding Information
Deposition Data
- Released Date: 2017-11-22  Deposition Author(s): Battles, M.B., McLellan, J.S.
Funding Organization | Location | Grant Number |
---|---|---|
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID) | United States | 5T32AI007519-18 |
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) | United States | P20GM113132 |
Revision History (Full details and data files)
- Version 1.0: 2017-11-22
Type: Initial release - Version 1.1: 2017-12-06
Changes: Author supporting evidence - Version 1.2: 2018-04-04
Changes: Data collection, Database references - Version 1.3: 2019-12-11
Changes: Author supporting evidence - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Advisory, Atomic model, Data collection, Derived calculations, Structure summary - Version 2.1: 2023-10-04
Changes: Data collection, Database references, Derived calculations, Refinement description, Structure summary