7TF2
Cryo-EM structure of SARS-CoV-2 Kappa (B.1.617.1) Q484I spike protein
- PDB DOI: https://doi.org/10.2210/pdb7TF2/pdb
- EM Map EMD-25859: EMDB EMDataResource
- Classification: VIRAL PROTEIN
- Organism(s): Severe acute respiratory syndrome coronavirus 2
- Expression System: Homo sapiens
- Mutation(s): Yes 
- Deposited: 2022-01-06 Released: 2022-03-30 
- Funding Organization(s): Canada Excellence Research Chair Award, Other government
Experimental Data Snapshot
- Method: ELECTRON MICROSCOPY
- Resolution: 3.62 Å
- Aggregation State: PARTICLE 
- Reconstruction Method: SINGLE PARTICLE 
wwPDB Validation   3D Report Full Report
This is version 1.0 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 |
Spike glycoprotein | 1,288 | Severe acute respiratory syndrome coronavirus 2 | Mutation(s): 15  Gene Names: S, 2 | ||
UniProt | |||||
Find proteins for P0DTC2 (Severe acute respiratory syndrome coronavirus 2) Explore P0DTC2  Go to UniProtKB:  P0DTC2 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P0DTC2 | ||||
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 | AA [auth a], BA [auth b], CA [auth c], DA [auth d], EA [auth e], AA [auth a], BA [auth b], CA [auth c], DA [auth d], EA [auth e], FA [auth f], G, GA [auth g], H, HA [auth h], I, IA [auth i], J, JA [auth j], K, KA [auth k], L, LA [auth l], M, MA [auth m], N, NA [auth n], O, OA [auth o], P, PA [auth p], Q, R, S, T, U, V, W, X, Y, Z | 2 | N/A | N-Glycosylation | |
Glycosylation Resources | |||||
GlyTouCan:  G42666HT GlyCosmos:  G42666HT GlyGen:  G42666HT |
Small Molecules
Ligands 1 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
NAG Query on NAG | AB [auth B] AC [auth E] BB [auth B] BC [auth E] CB [auth B] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N |
Experimental Data & Validation
Experimental Data
- Method: ELECTRON MICROSCOPY
- Resolution: 3.62 Å
- Aggregation State: PARTICLE 
- Reconstruction Method: SINGLE PARTICLE 
Entry History & Funding Information
Deposition Data
- Released Date: 2022-03-30  Deposition Author(s): Zhu, X., Saville, J.W., Mannar, D., Srivastava, S.S., Berezuk, A.M., Demers, J.P., Zhou, S., Tuttle, K.S., Subramaniam, S.
Funding Organization | Location | Grant Number |
---|---|---|
Canada Excellence Research Chair Award | Precision Cancer Drug Design | |
Other government | COVID-19 research |
Revision History (Full details and data files)
- Version 1.0: 2022-03-30
Type: Initial release