8HPQ

Cryo-EM structure of SARS-CoV-2 Omicron BA.4 S-trimer in complex with fab L4.65 and L5.34

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 protein S2'	polymer	1129	125336.2	3	UniProt (P0DTC2) Pfam (PF16451) Pfam (PF09408) Pfam (PF19209) Pfam (PF01601) In PDB	Severe acute respiratory syndrome coronavirus 2 (2019nCoV SARS-CoV-2)
2	H, P, I	fab L4.65	polymer	231	24953.9	3		Homo sapiens
3	L, Q, J	fab L4.65	polymer	215	23556.1	3		Homo sapiens
4	M, E, R	fab L5.34	polymer	224	23592.4	3		Homo sapiens
5	N, F, S	fab L5.34	polymer	216	23379.9	3		Homo sapiens
6	A, B, C	2-acetamido-2-deoxy-beta-D-glucopyranose	non-polymer		221.2	3	Chemie (NAG)

Sequence modifications

A, B, C: 33 - 1161 (UniProt: P0DTC2)

PDB	External Database	Details
Ile 38	Thr 19	conflict
-	Leu 24	deletion
-	Pro 25	deletion
-	Pro 26	deletion
Ser 43	Ala 27	variant
-	His 69	deletion
-	Val 70	deletion
Asp 156	Gly 142	variant
Asp 353	Gly 339	variant
Phe 385	Ser 371	variant
Pro 387	Ser 373	variant
Phe 389	Ser 375	variant
Ala 390	Thr 376	variant
Asn 419	Asp 405	variant
Ser 422	Arg 408	variant
Asn 431	Lys 417	variant
Lys 454	Asn 440	variant
Arg 466	Leu 452	variant
Asn 491	Ser 477	variant
Lys 492	Thr 478	variant
Ala 498	Glu 484	variant
Val 500	Phe 486	variant
Arg 512	Gln 498	variant
Tyr 515	Asn 501	variant
His 519	Tyr 505	variant
Gly 628	Asp 614	variant
Tyr 669	His 655	variant
Lys 778	Asn 764	variant
Tyr 810	Asp 796	variant
Pro 831	Phe 817	conflict
Pro 906	Ala 892	conflict
Pro 913	Ala 899	conflict
Pro 956	Ala 942	conflict
His 968	Gln 954	variant
Lys 983	Asn 969	variant
Pro 1000	Lys 986	conflict
Pro 1001	Val 987	conflict

Contents of the asymmetric unit

Polymers	Number of chains	15
	Total formula weight	662455.6
Non-Polymers*	Number of molecules	3
	Total formula weight	663.6
All*	Total formula weight	663119.2

*Water molecules are not included.