8HC6

SARS-CoV-2 Omicron BA.1 spike trimer (6P) in complex with YB9-258 Fab, focused refinement of Fab region

Entity

Entity ID	Chain ID	Description	Type	Chain length	Formula weight	Number of molecules	DB Name (Accession)	Biological source	Descriptive keywords
1	C	Spike protein S1	polymer	267	30244.2	1	UniProt (P0DTC2) Pfam (PF09408) Pfam (PF19209) In PDB	Severe acute respiratory syndrome coronavirus 2
2	H	Heavy chain of YB9-258 Fab	polymer	220	23126.9	1		Homo sapiens
3	L	Light chain of YB9-258	polymer	215	23177.8	1		Homo sapiens
4	B	Spike protein S1	polymer	273	31138.1	1	UniProt (P0DTC2) Pfam (PF16451) In PDB	Severe acute respiratory syndrome coronavirus 2
5	C, B	2-acetamido-2-deoxy-beta-D-glucopyranose	non-polymer		221.2	7	Chemie (NAG)

Sequence modifications

C: 322 - 588 (UniProt: P0DTC2)

PDB	External Database	Details
Asp 339	Gly 339	variant
Leu 371	Ser 371	variant
Pro 373	Ser 373	variant
Phe 375	Ser 375	variant
Asn 417	Lys 417	variant
Lys 440	Asn 440	variant
Ser 446	Gly 446	variant
Asn 477	Ser 477	variant
Lys 478	Thr 478	variant
Ala 484	Glu 484	variant
Arg 493	Gln 493	variant
Ser 496	Gly 496	variant
Arg 498	Gln 498	variant
Tyr 501	Asn 501	variant
His 505	Tyr 505	variant
Lys 547	Thr 547	variant

B: 14 - 289 (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	conflict
-	Val 143	deletion
-	Tyr 144	deletion
-	Tyr 145	deletion
Ile 210	Leu 212	variant
Glu 210	-	insertion
Pro 210	-	insertion
Glu 210	-	insertion

Contents of the asymmetric unit

Polymers	Number of chains	4
	Total formula weight	107687.0
Non-Polymers*	Number of molecules	7
	Total formula weight	1548.5
All*	Total formula weight	109235.4

*Water molecules are not included.