8GTQ

cryo-EM structure of Omicron BA.5 S protein in complex with S2L20

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0016020	cellular_component	membrane
A	0019031	cellular_component	viral envelope
A	0019064	biological_process	fusion of virus membrane with host plasma membrane
A	0039654	biological_process	fusion of virus membrane with host endosome membrane
A	0046813	biological_process	receptor-mediated virion attachment to host cell
A	0055036	cellular_component	virion membrane
A	0075509	biological_process	endocytosis involved in viral entry into host cell
B	0016020	cellular_component	membrane
B	0019031	cellular_component	viral envelope
B	0019064	biological_process	fusion of virus membrane with host plasma membrane
B	0039654	biological_process	fusion of virus membrane with host endosome membrane
B	0046813	biological_process	receptor-mediated virion attachment to host cell
B	0055036	cellular_component	virion membrane
B	0075509	biological_process	endocytosis involved in viral entry into host cell
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 SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	3597
Details	TOPO_DOM: Extracellular => ECO:0000255|HAMAP-Rule:MF_04099

Chain	Residue	Details
A	GLN14-TYR1215
B	GLN14-TYR1215
C	GLN14-TYR1215

---

site_id	SWS_FT_FI2
Number of Residues	60
Details	TRANSMEM: Helical => ECO:0000255|HAMAP-Rule:MF_04099

Chain	Residue	Details
A	ILE1216-CYS1236
B	ILE1216-CYS1236
C	ILE1216-CYS1236

---

site_id	SWS_FT_FI3
Number of Residues	114
Details	TOPO_DOM: Cytoplasmic => ECO:0000255|HAMAP-Rule:MF_04099

Chain

Residue

Details

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site_id	SWS_FT_FI4
Number of Residues	3
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
A	VAL687
B	VAL687
C	VAL687

---

site_id	SWS_FT_FI5
Number of Residues	3
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
A	PRO817
B	PRO817
C	PRO817

---

site_id	SWS_FT_FI6
Number of Residues	15
Details	LIPID: S-palmitoyl cysteine; by host ZDHHC20 => ECO:0000269|PubMed:34599882

Chain	Residue	Details
A	MET1237
A	THR1238
A	SER1242
A	CYS1243
A	LYS1245
B	MET1237
B	THR1238
B	SER1242
B	CYS1243
B	LYS1245
C	MET1237
C	THR1238
C	SER1242
C	CYS1243
C	LYS1245

---

site_id	SWS_FT_FI7
Number of Residues	15
Details	LIPID: S-palmitoyl cysteine; by host ZDHHC20; partial => ECO:0000269|PubMed:34599882

Chain	Residue	Details
A	SER1249
A	CYS1250
A	SER1252
A	LYS1255
A	PHE1256
B	SER1249
B	CYS1250
B	SER1252
B	LYS1255
B	PHE1256
C	SER1249
C	CYS1250
C	SER1252
C	LYS1255
C	PHE1256

---

site_id	SWS_FT_FI8
Number of Residues	9
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
A	ASN17
A	THR1160
A	SER1175
B	ASN17
B	THR1160
B	SER1175
C	ASN17
C	THR1160
C	SER1175

---

site_id	SWS_FT_FI9
Number of Residues	15
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
A	ASN61
A	THR124
A	THR719
A	SER803
A	THR1076
B	ASN61
B	THR124
B	THR719
B	SER803
B	THR1076
C	ASN61
C	THR124
C	THR719
C	SER803
C	THR1076

---

site_id	SWS_FT_FI10
Number of Residues	9
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
A	THR76
A	SER151
A	SER1196
B	THR76
B	SER151
B	SER1196
C	THR76
C	SER151
C	SER1196

---

site_id	SWS_FT_FI11
Number of Residues	21
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
A	THR167
A	THR284
A	THR333
A	THR345
A	THR618
A	SER659
A	THR1100
B	THR167
B	THR284
B	THR333
B	THR345
B	THR618
B	SER659
B	THR1100
C	THR167
C	THR284
C	THR333
C	THR345
C	THR618
C	SER659
C	THR1100

---

site_id	SWS_FT_FI12
Number of Residues	6
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
A	THR236
A	SER711
B	THR236
B	SER711
C	THR236
C	SER711

---

site_id	SWS_FT_FI13
Number of Residues	3
Details	CARBOHYD: O-linked (GalNAc) threonine; by host => ECO:0000269|PubMed:32363391

Chain	Residue	Details
A	SER325
B	SER325
C	SER325

---

site_id	SWS_FT_FI14
Number of Residues	3
Details	CARBOHYD: O-linked (HexNAc...) serine; by host => ECO:0000269|PubMed:32363391

Chain	Residue	Details
A	VAL327
B	VAL327
C	VAL327

---

site_id	SWS_FT_FI15
Number of Residues	3
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
A	SER605
B	SER605
C	SER605

---

site_id	SWS_FT_FI16
Number of Residues	6
Details	CARBOHYD: O-linked (GlcNAc...) threonine; by host GALNT1 => ECO:0000269|PubMed:34732583

Chain	Residue	Details
A	THR678
A	SER680
B	THR678
B	SER680
C	THR678
C	SER680

---

site_id	SWS_FT_FI17
Number of Residues	3
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
A	THR1136
B	THR1136
C	THR1136

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