8DT3
Cryo-EM structure of spike binding to Fab of neutralizing antibody (locally refined)
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| C | 0016020 | cellular_component | membrane |
| C | 0019031 | cellular_component | viral envelope |
| C | 0019064 | biological_process | fusion of virus membrane with host plasma membrane |
| C | 0039654 | biological_process | fusion of virus membrane with host endosome membrane |
| C | 0046813 | biological_process | receptor-mediated virion attachment to host cell |
| C | 0055036 | cellular_component | virion membrane |
| C | 0075509 | biological_process | endocytosis involved in viral entry into host cell |
Functional Information from PROSITE/UniProt
| site_id | PS00290 |
| Number of Residues | 7 |
| Details | IG_MHC Immunoglobulins and major histocompatibility complex proteins signature. YICNVNH |
| Chain | Residue | Details |
| H | TYR202-HIS208 | |
| L | TYR193-HIS199 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 1199 |
| Details | TOPO_DOM: Extracellular => ECO:0000255|HAMAP-Rule:MF_04099 |
| Chain | Residue | Details |
| C | GLN14-PRO1213 |
| site_id | SWS_FT_FI2 |
| Number of Residues | 20 |
| Details | TRANSMEM: Helical => ECO:0000255|HAMAP-Rule:MF_04099 |
| Chain | Residue | Details |
| C | TRP1214-LEU1234 |
| site_id | SWS_FT_FI3 |
| Number of Residues | 38 |
| Details | TOPO_DOM: Cytoplasmic => ECO:0000255|HAMAP-Rule:MF_04099 |
| Chain | Residue | Details |
| C | CYS1235-THR1273 |
| site_id | SWS_FT_FI4 |
| Number of Residues | 1 |
| Details | SITE: Cleavage; by host furin => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32142651, ECO:0000269|PubMed:32362314, ECO:0000269|PubMed:32703818, ECO:0000269|PubMed:34159616 |
| Chain | Residue | Details |
| C | ARG685 |
| site_id | SWS_FT_FI5 |
| Number of Residues | 1 |
| Details | SITE: Cleavage; by host TMPRSS2 or CTSL => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32703818, ECO:0000269|PubMed:34159616 |
| Chain | Residue | Details |
| C | ARG815 |
| site_id | SWS_FT_FI6 |
| Number of Residues | 5 |
| Details | LIPID: S-palmitoyl cysteine; by host ZDHHC20 => ECO:0000269|PubMed:34599882 |
| Chain | Residue | Details |
| C | CYS1235 | |
| C | CYS1236 | |
| C | CYS1240 | |
| C | CYS1241 | |
| C | CYS1243 |
| site_id | SWS_FT_FI7 |
| Number of Residues | 5 |
| Details | LIPID: S-palmitoyl cysteine; by host ZDHHC20; partial => ECO:0000269|PubMed:34599882 |
| Chain | Residue | Details |
| C | CYS1247 | |
| C | CYS1248 | |
| C | CYS1250 | |
| C | CYS1253 | |
| C | CYS1254 |
| site_id | SWS_FT_FI8 |
| Number of Residues | 3 |
| Details | CARBOHYD: N-linked (GlcNAc...) (complex) asparagine; by host => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32366695, ECO:0000269|PubMed:32979942 |
| Chain | Residue | Details |
| C | ASN17 | |
| C | ASN1158 | |
| C | ASN1173 |
| site_id | SWS_FT_FI9 |
| Number of Residues | 5 |
| Details | CARBOHYD: N-linked (GlcNAc...) (hybrid) asparagine; by host => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32155444, ECO:0000269|PubMed:32363391, ECO:0000269|PubMed:32366695, ECO:0000269|PubMed:32979942 |
| Chain | Residue | Details |
| C | ASN61 | |
| C | ASN122 | |
| C | ASN717 | |
| C | ASN801 | |
| C | ASN1074 |
| site_id | SWS_FT_FI10 |
| Number of Residues | 3 |
| Details | CARBOHYD: N-linked (GlcNAc...) (complex) asparagine; by host => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32363391, ECO:0000269|PubMed:32366695, ECO:0000269|PubMed:32979942 |
| Chain | Residue | Details |
| C | ASN74 | |
| C | ASN149 | |
| C | ASN1194 |
| site_id | SWS_FT_FI11 |
| Number of Residues | 7 |
| Details | CARBOHYD: N-linked (GlcNAc...) (complex) asparagine; by host => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32155444, ECO:0000269|PubMed:32363391, ECO:0000269|PubMed:32366695, ECO:0000269|PubMed:32979942 |
| Chain | Residue | Details |
| C | ASN165 | |
| C | ASN282 | |
| C | ASN331 | |
| C | ASN343 | |
| C | ASN616 | |
| C | ASN657 | |
| C | ASN1098 |
| site_id | SWS_FT_FI12 |
| Number of Residues | 2 |
| Details | CARBOHYD: N-linked (GlcNAc...) (high mannose) asparagine; by host => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32155444, ECO:0000269|PubMed:32363391, ECO:0000269|PubMed:32366695, ECO:0000269|PubMed:32979942 |
| Chain | Residue | Details |
| C | ASN234 | |
| C | ASN709 |
| site_id | SWS_FT_FI13 |
| Number of Residues | 1 |
| Details | CARBOHYD: O-linked (GalNAc) threonine; by host => ECO:0000269|PubMed:32363391 |
| Chain | Residue | Details |
| C | THR323 |
| site_id | SWS_FT_FI14 |
| Number of Residues | 1 |
| Details | CARBOHYD: O-linked (HexNAc...) serine; by host => ECO:0000269|PubMed:32363391 |
| Chain | Residue | Details |
| C | SER325 |
| site_id | SWS_FT_FI15 |
| Number of Residues | 1 |
| Details | CARBOHYD: N-linked (GlcNAc...) (hybrid) asparagine; by host => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32155444, ECO:0000269|PubMed:32366695, ECO:0000269|PubMed:32979942 |
| Chain | Residue | Details |
| C | ASN603 |
| site_id | SWS_FT_FI16 |
| Number of Residues | 2 |
| Details | CARBOHYD: O-linked (GlcNAc...) threonine; by host GALNT1 => ECO:0000269|PubMed:34732583 |
| Chain | Residue | Details |
| C | THR676 | |
| C | THR678 |
| site_id | SWS_FT_FI17 |
| Number of Residues | 1 |
| Details | CARBOHYD: N-linked (GlcNAc...) (complex) asparagine; by host => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32155444, ECO:0000269|PubMed:32366695, ECO:0000269|PubMed:32979942 |
| Chain | Residue | Details |
| C | ASN1134 |
