8HP9

Cryo-EM structure of SARS-CoV-2 Omicron BA.2 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	1131	125564.5	3	UniProt (P0DTC2) Pfam (PF16451) Pfam (PF09408) Pfam (PF19209) Pfam (PF01601) In PDB	Severe acute respiratory syndrome coronavirus 2 (2019-nCoV SARS-CoV-2)
2	L, Q, J	fab L4.65	polymer	215	23556.1	3		Homo sapiens
3	H, P, I	fab L4.65	polymer	231	24953.9	3		Homo sapiens
4	M, E, K	fab L5.34	polymer	224	23592.4	3		Homo sapiens
5	N, F, O	fab L5.34	polymer	216	23379.9	3		Homo sapiens
6	B, C, A	2-acetamido-2-deoxy-beta-D-glucopyranose	non-polymer		221.2	32	Chemie (NAG)

Sequence modifications

A, B, C: 33 - 1163 (UniProt: P0DTC2)

PDB	External Database	Details
Ile 38	Thr 19	conflict
Ser 43	Ala 27	variant
Asp 158	Gly 142	variant
Gly 229	Val 213	variant
Asp 355	Gly 339	variant
Phe 387	Ser 371	variant
Pro 389	Ser 373	variant
Phe 391	Ser 375	variant
Ala 392	Thr 376	variant
Asn 421	Asp 405	variant
Ser 424	Arg 408	variant
Asn 433	Lys 417	variant
Lys 456	Asn 440	variant
Asn 493	Ser 477	variant
Lys 494	Thr 478	variant
Ala 500	Glu 484	variant
Arg 509	Gln 493	variant
Arg 514	Gln 498	variant
Tyr 517	Asn 501	variant
His 521	Tyr 505	variant
Gly 630	Asp 614	variant
Tyr 671	His 655	variant
Lys 780	Asn 764	variant
Tyr 812	Asp 796	variant
Pro 833	Phe 817	conflict
Pro 908	Ala 892	conflict
Pro 915	Ala 899	conflict
Pro 958	Ala 942	conflict
His 970	Gln 954	variant
Lys 985	Asn 969	variant
Pro 1002	Lys 986	conflict
Pro 1003	Val 987	conflict

Contents of the asymmetric unit

Polymers	Number of chains	15
	Total formula weight	663140.4
Non-Polymers*	Number of molecules	32
	Total formula weight	7078.7
All*	Total formula weight	670219.1

*Water molecules are not included.