UniProt P0DTC2
spike glycoprotein (P0DTC2)
spike glycoprotein (UniProt P0DTC2): 2,619 experimental structures on GenesisL1, 43 ligands bound, 16,782 pockets. Binding sites, pockets, druggability and 3D structures in GL1X.
- UniProt
- P0DTC2
- Protein
- spike glycoprotein
- Experimental structures
- 2,619
- Predicted models
- 0
- Ligands
- 43
- Pockets
- 16,782 · 1,257 records with a druggable one
Structures
2,619 records of P0DTC2 in the MolNFT archive: 2619 experimental, 0 predicted.
| Entry | Title | Method | Chains | Ligands | Pockets |
|---|---|---|---|---|---|
| 6LVN | Structure of the 2019-nCoV HR2 Domain | x-ray diffraction | A, B, C, D | — | — |
| 6LVN | Structure of the 2019-ncov HR2 domain | x-ray diffraction | A, B, C, D | — | — |
| 6LXT | Structure of post fusion core of 2019-nCoV S2 subunit | x-ray diffraction | A, B, C, D, E, F | ZN | 5 (best 0.73) |
| 6LXT | Structure of post fusion core of 2019-ncov S2 subunit | x-ray diffraction | A, B, C, D, E, F | ZN | — |
| 6LZG | Structure of novel coronavirus spike receptor-binding domain complexed with its receptor ACE2 | x-ray diffraction | B | NAG | 2 (best 0.72) |
| 6LZG | Structure of novel coronavirus spike receptor-binding domain complexed with its receptor ACE2 | x-ray diffraction | B | NAG | — |
| 6M0J | Crystal structure of SARS-CoV-2 spike receptor-binding domain bound with ACE2 | x-ray diffraction | E | NAG | 3 (best 0.70) |
| 6M0J | Crystal structure of SARS-cov-2 spike receptor-binding domain bound with ACE2 | x-ray diffraction | E | NAG | — |
| 6M17 | The 2019-nCoV RBD/ACE2-B0AT1 complex | electron microscopy | E, F | NAG | 5 (best 0.71) |
| 6M17 | The 2019-ncov RBD/ACE2-B0AT1 complex | electron microscopy | E, F | NAG | — |
| 6M1V | Crystal structure of post fusion core of 2019-nCoV S2 subunit | x-ray diffraction | A | — | — |
| 6M1V | Crystal structure of post fusion core of 2019-ncov S2 subunit | x-ray diffraction | A | — | — |
| 6VSB | Prefusion 2019-ncov spike glycoprotein with a single receptor-binding domain up | electron microscopy | A, B, C | NAG | — |
| 6VW1 | Structure of SARS-cov-2 chimeric receptor-binding domain complexed with its receptor human ACE2 | x-ray diffraction | E, F | BMA, NAG | — |
| 6VXX | Structure of the SARS-CoV-2 spike glycoprotein (closed state) | electron microscopy | A, B, C | NAG | 20 (best 0.87) |
| 6VXX | Structure of the SARS-cov-2 spike glycoprotein (closed state) | electron microscopy | A, B, C | NAG | — |
| 6VYB | SARS-CoV-2 spike ectodomain structure (open state) | electron microscopy | A, B, C | NAG | 20 (best 0.86) |
| 6VYB | SARS-cov-2 spike ectodomain structure (open state) | electron microscopy | A, B, C | NAG | — |
| 6W41 | Crystal structure of SARS-CoV-2 receptor binding domain in complex with human antibody CR3022 | x-ray diffraction | C | NAG | 5 (best 0.41) |
| 6W41 | Crystal structure of SARS-cov-2 receptor binding domain in complex with human antibody CR3022 | x-ray diffraction | C | NAG | — |
| 6WPS | Structure of the SARS-CoV-2 spike glycoprotein in complex with the S309 neutralizing antibody Fab… | electron microscopy | A, B, E | NAG | 20 (best 0.86) |
| 6WPS | Structure of the SARS-cov-2 spike glycoprotein in complex with the S309 neutralizing antibody Fab… | electron microscopy | A, B, E | NAG | — |
| 6WPT | Structure of the SARS-cov-2 spike glycoprotein in complex with the S309 neutralizing antibody Fab… | electron microscopy | A, B, C | NAG | — |
| 6X29 | SARS-CoV-2 rS2d Down State Spike Protein Trimer | electron microscopy | A, B, C | — | 20 (best 0.88) |
| 6X29 | SARS-cov-2 RS2D down state spike protein trimer | electron microscopy | A, B, C | — | — |
| 6X2A | SARS-CoV-2 u1S2q 1-RBD Up Spike Protein Trimer | electron microscopy | A, B, C | — | 20 (best 0.83) |
| 6X2A | SARS-cov-2 U1S2Q 1-rbd up spike protein trimer | electron microscopy | A, B, C | — | — |
| 6X2B | SARS-CoV-2 u1S2q 2-RBD Up Spike Protein Trimer | electron microscopy | A, B, C | — | 20 (best 0.84) |
| 6X2B | SARS-cov-2 U1S2Q 2-rbd up spike protein trimer | electron microscopy | A, B, C | — | — |
| 6X2C | SARS-CoV-2 u1S2q All Down RBD State Spike Protein Trimer | electron microscopy | A, B, C | — | 20 (best 0.85) |
| 6X2C | SARS-cov-2 U1S2Q all down rbd state spike protein trimer | electron microscopy | A, B, C | — | — |
| 6X45 | SARS-CoV2 spike glycoprotein N-terminal heptad repeat domain + SARS-CoV2(QEYKKEKE) | x-ray diffraction | E, D, C, F, B, A | — | 1 (best 0.72) |
| 6X45 | SARS-COV2 spike glycoprotein N-terminal heptad repeat domain + SARS- COV2(QEYKKEKE) | x-ray diffraction | E, D, C, F, B, A | NH2 | — |
| 6X6P | Characterization of the SARS-cov-2 S protein: biophysical, biochemical, structural, and antigenic… | electron microscopy | A, B, C | NAG | — |
| 6X79 | Prefusion SARS-CoV-2 S ectodomain trimer covalently stabilized in the closed conformation | electron microscopy | A, B, C | NAG | 20 (best 0.88) |
| 6X79 | Prefusion SARS-cov-2 S ectodomain trimer covalently stabilized in the closed conformation | electron microscopy | A, B, C | NAG | — |
| 6XC2 | Crystal structure of SARS-cov-2 receptor binding domain in complex with neutralizing antibody CC12.1 | x-ray diffraction | A, Z | NAG | — |
| 6XC3 | Crystal structure of SARS-cov-2 receptor binding domain in complex with antibodies CC12.1 and CR3022 | x-ray diffraction | C | NAG | — |
| 6XC4 | Crystal structure of SARS-CoV-2 receptor binding domain in complex with neutralizing antibody CC12.3 | x-ray diffraction | A, Z | NAG | 4 (best 0.71) |
| 6XC4 | Crystal structure of SARS-cov-2 receptor binding domain in complex with neutralizing antibody CC12.3 | x-ray diffraction | A, Z | NAG | — |
| 6XC7 | Crystal structure of SARS-CoV-2 receptor binding domain in complex with antibodies CC12.3 and CR3022 | x-ray diffraction | A | NAG | 7 (best 0.66) |
| 6XC7 | Crystal structure of SARS-cov-2 receptor binding domain in complex with antibodies CC12.3 and CR3022 | x-ray diffraction | A | NAG | — |
| 6XCM | Structure of the SARS-cov-2 spike glycoprotein in complex with the C105 neutralizing antibody Fab… | electron microscopy | A, B, C | NAG, FUC | — |
| 6XCN | Structure of the SARS-cov-2 spike glycoprotein in complex with the C105 neutralizing antibody Fab… | electron microscopy | A, C, E | NAG | — |
| 6XDG | Complex of SARS-CoV-2 receptor binding domain with the Fab fragments of two neutralizing antibodies | electron microscopy | E | NAG | 6 (best 0.72) |
| 6XDG | Complex of SARS-cov-2 receptor binding domain with the Fab fragments of two neutralizing antibodies | electron microscopy | E | NAG | — |
| 6XE1 | Structure of SARS-CoV-2 spike protein receptor binding domain in complex with a potent neutralizing… | x-ray diffraction | E | NAG | 2 (best 0.73) |
| 6XE1 | Structure of SARS-cov-2 spike protein receptor binding domain in complex with a potent neutralizing… | x-ray diffraction | E | NAG | — |
| 6XEY | Cryo-EM structure of the SARS-CoV-2 spike glycoprotein bound to Fab 2-4 | electron microscopy | A, B, C | NAG, BMA | 14 (best 0.83) |
| 6XEY | Cryo-EM structure of the SARS-cov-2 spike glycoprotein bound to Fab 2- 4 | electron microscopy | A, B, C | NAG | — |
| 6XF5 | Cryo-EM structure of a biotinylated SARS-cov-2 spike probe in the prefusion state (rbds down) | electron microscopy | A, B, C | NAG | — |
| 6XF6 | Cryo-EM structure of a biotinylated SARS-CoV-2 spike probe in the prefusion state (1 RBD up) | electron microscopy | A, B, C | NAG | 20 (best 0.85) |
| 6XF6 | Cryo-EM structure of a biotinylated SARS-cov-2 spike probe in the prefusion state (1 rbd up) | electron microscopy | A, B, C | NAG | — |
| 6XKL | SARS-cov-2 hexapro S one rbd up | electron microscopy | A, B, C | NAG | — |
| 6XKP | Crystal structure of SARS-CoV-2 receptor binding domain in complex with neutralizing antibody… | x-ray diffraction | A, B | NAG, SO4 | 9 (best 0.75) |
| 6XKP | Crystal structure of SARS-cov-2 receptor binding domain in complex with neutralizing antibody… | x-ray diffraction | A, B | NAG, SO4 | — |
| 6XKQ | Crystal structure of SARS-cov-2 receptor binding domain in complex with neutralizing antibody… | x-ray diffraction | A | NAG | — |
| 6XLU | Structure of SARS-CoV-2 spike at pH 4.0 | electron microscopy | A, B, C | NAG | 20 (best 0.87) |
| 6XLU | Structure of SARS-cov-2 spike at pH 4.0 | electron microscopy | A, B, C | NAG | — |
| 6XM0 | Consensus structure of SARS-CoV-2 spike at pH 5.5 | electron microscopy | A, B, C | NAG | 20 (best 0.86) |
2,559 records more on the page itself.
Ligands
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · in 2,028 records
- FUC · alpha-L-fucopyranose · in 122 records
- BMA · beta-D-mannopyranose · in 61 records
- SO4 · Sulfate ion · in 54 records
- MAN · alpha-D-mannopyranose · in 39 records
- CL · Chloride ion · in 38 records
- EIC · Linoleic acid · in 31 records
- BLA · Biliverdine IX alpha · in 28 records
- PO4 · Phosphate ion · in 10 records
- NA · Sodium ion · in 7 records
- CA · Calcium ion · in 5 records
- NO3 · Nitrate ion · in 5 records
- GAL · beta-D-galactopyranose · in 4 records
- ZN · Zinc ion · in 4 records
- BR · Bromide ion · in 3 records
- IDU · 2-O-sulfo-beta-L-altropyranuronic acid · in 3 records
- MG · Magnesium ion · in 3 records
- NH2 · Amino group · in 3 records
- VCG · 2-hydroxyethyl 2-deoxy-3,5-bis-O-(2-hydroxyethyl)-6-O-(2-{[(9E)-octadec-9-enoyl]oxy}ethyl)-alpha-L-xylo-hexofuranoside · in 3 records
- ACE · Acetyl group · in 2 records
- BLR · 3-[5-[(Z)-(4-ethenyl-3-methyl-5-oxidanylidene-pyrrol-2-ylidene)methyl]-2-[[5-[(Z)-(3-ethenyl-4-methyl-5-oxidanylidene-pyrrol-2-ylidene)methyl]-3-(3-hydroxy-3-oxopropyl)-4-methyl-1H-pyrrol-2-yl]methyl]-4-methyl-1H-pyrrol-3-yl]propanoic acid · in 2 records
- CD · Cadmium ion · in 2 records
- DHL · 2-amino-ethanethiol · in 2 records
- ELA · 9-octadecenoic acid · in 2 records
- GE9 · 2,3,5-tris(iodanyl)benzamide · in 2 records
- K · Potassium ion · in 2 records
- NDG · 2-acetamido-2-deoxy-alpha-D-glucopyranose · in 2 records
- PRO · Proline · in 2 records
- REA · Retinoic acid · in 2 records
- SIA · N-acetyl-alpha-neuraminic acid · in 2 records
Experiment against prediction
- 6VW1 chain F against the predicted model 3SCI: TM-score 0.86, RMSD 1.16 Å
- 6VW1 chain F against the predicted model 3SCI: TM-score 0.86, RMSD 1.16 Å
- 6VW1 chain F against the predicted model 3SCJ: TM-score 0.86, RMSD 1.19 Å
- 6VW1 chain F against the predicted model 3SCJ: TM-score 0.86, RMSD 1.19 Å
- 6VW1 chain E against the predicted model 3SCJ: TM-score 0.87, RMSD 1.26 Å
- 6VW1 chain E against the predicted model 3SCJ: TM-score 0.87, RMSD 1.26 Å
- 6VW1 chain F against the predicted model 3SCK: TM-score 0.86, RMSD 1.22 Å
- 6VW1 chain F against the predicted model 3SCK: TM-score 0.86, RMSD 1.22 Å
- 6VW1 chain E against the predicted model 3SCI: TM-score 0.87, RMSD 1.25 Å
- 6VW1 chain E against the predicted model 3SCI: TM-score 0.87, RMSD 1.25 Å
Elsewhere
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