Cryo-EM structure of SARS-CoV-2 S-Kappa variant (B.1.617.1), dimer of S trimer conformation 2
Yang, T.J., Yu, P.Y., Chang, Y.C., Hsu, S.T.D.To be published.
Experimental Data Snapshot
wwPDB Validation 3D Report Full Report
Entity ID: 1 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Spike glycoprotein | 1,283 | Severe acute respiratory syndrome coronavirus 2 | Mutation(s): 12 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 | ||||
Glycosylation | |||||
Glycosylation Sites: 15 | Go to GlyGen: P0DTC2-1 | ||||
Sequence AnnotationsExpand | |||||
|
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], AB [auth 0], BA [auth b], BB [auth 1], CA [auth c], | 2 | N-Glycosylation | ||
Glycosylation Resources | |||||
GlyTouCan: G42666HT GlyCosmos: G42666HT GlyGen: G42666HT |
Entity ID: 3 | |||||
---|---|---|---|---|---|
Molecule | Chains | Length | 2D Diagram | Glycosylation | 3D Interactions |
beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | GB [auth 6], IA [auth i], K, SB [auth IA], UA [auth u], | 3 | N-Glycosylation | ||
Glycosylation Resources | |||||
GlyTouCan: G15407YE GlyCosmos: G15407YE GlyGen: G15407YE |
Ligands 1 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
NAG (Subject of Investigation/LOI) Query on NAG | AC [auth A] BC [auth A] CC [auth A] DC [auth A] EC [auth B] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N |
Task | Software Package | Version |
---|---|---|
RECONSTRUCTION | cryoSPARC |
Funding Organization | Location | Grant Number |
---|---|---|
Ministry of Science and Technology (MoST, Taiwan) | Taiwan | 109-3114-Y-001-001 |
Academia Sinica (Taiwan) | Taiwan | AS-CDA-109-L08 |
Academia Sinica (Taiwan) | Taiwan | AS-CFII-108-110 |
Academia Sinica (Taiwan) | Taiwan | AS-CFII108-111 |