7WT7

SARS-CoV-2 Omicron variant spike in complex with Fab 9A8 (State 1)

Entity

Entity ID	Chain ID	Description	Type	Chain length	Formula weight	Number of molecules	DB Name (Accession)	Biological source	Descriptive keywords
1	A, B, C	Spike glycoprotein	polymer	1270	141277.9	3	UniProt (P0DTC2) Pfam (PF16451) Pfam (PF09408) Pfam (PF19209) Pfam (PF01601) In PDB	Severe acute respiratory syndrome coronavirus 2	S glycoprotein,E2,Peplomer protein
2	H	Heavy chain of Fab 9A8	polymer	122	12998.5	1		Homo sapiens
3	D	Light chain of Fab 9A8	polymer	107	11816.0	1		Homo sapiens
4	E	beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	branched		586.5	1	In PDB GlyTouCan (G15407YE)
5	F, G, I	2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	branched		424.4	3	In PDB GlyTouCan (G42666HT)
6	B, A, C	2-acetamido-2-deoxy-beta-D-glucopyranose	non-polymer		221.2	41	Chemie (NAG)

Sequence modifications

A, B, C: 1 - 1270 (UniProt: P0DTC2)

PDB	External Database	Details
Val 67	Ala 67	variant
-	His 69	deletion
-	Val 70	deletion
Ile 95	Thr 95	variant
Asp 142	Gly 142	variant
-	Val 143	deletion
-	Tyr 144	deletion
-	Tyr 145	deletion
Ile 208	Leu 212	variant
Glu 211	-	insertion
Pro 212	-	insertion
Glu 213	-	insertion
Asp 336	Gly 339	variant
Leu 368	Ser 371	variant
Pro 370	Ser 373	variant
Phe 372	Ser 375	variant
Asn 414	Lys 417	variant
Lys 437	Asn 440	variant
Ser 443	Gly 446	variant
Asn 474	Ser 477	variant
Lys 475	Thr 478	variant
Ala 481	Glu 484	variant
Arg 490	Gln 493	variant
Ser 493	Gly 496	variant
Arg 495	Gln 498	variant
Tyr 498	Asn 501	variant
His 502	Tyr 505	variant
Lys 544	Thr 547	variant
Gly 611	Asp 614	variant
Tyr 652	His 655	variant
Lys 676	Asn 679	variant
His 678	Pro 681	variant
Ala 680	Arg 683	variant
Ala 682	Arg 685	variant
Lys 761	Asn 764	variant
Tyr 793	Asp 796	variant
Pro 814	Phe 817	engineered mutation
Lys 853	Asn 856	variant
Pro 889	Ala 892	engineered mutation
Pro 896	Ala 899	engineered mutation
Pro 939	Ala 942	engineered mutation
His 951	Gln 954	variant
Lys 966	Asn 969	variant
Phe 978	Leu 981	variant
Pro 983	Lys 986	engineered mutation
Pro 984	Val 987	engineered mutation

Contents of the asymmetric unit

Polymers	Number of chains	5
	Total formula weight	448648.2
Branched	Number of molecules	4
	Total formula weight	1859.7
Non-Polymers*	Number of molecules	41
	Total formula weight	9069.5
All*	Total formula weight	459577.5

*Water molecules are not included.