8K3K

The crystal structure of nanobody Nb4 in complex with receptor binding domain (RBD) of BA.1 Spike protein

Entity

Entity ID	Chain ID	Description	Type	Chain length	Formula weight	Number of molecules	DB Name (Accession)	Biological source	Descriptive keywords
1	A (E)	Spike protein S1	polymer	248	28329.9	1	UniProt (P0DTC2) Pfam (PF09408)	Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2)
2	B (D)	Nanobody Nb4	polymer	153	17057.6	1		synthetic construct
3	C, D (E, D)	water	water		18.0	19	Chemie (HOH)

Sequence modifications

E: 319 - 531 (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
Lys 493	Gln 493	variant
Ser 496	Gly 496	variant
Arg 498	Gln 498	variant
Tyr 501	Asn 501	variant
His 505	Tyr 505	variant
Gly 532	-	expression tag
Thr 533	-	expression tag
Gly 534	-	expression tag
Leu 535	-	expression tag
Asn 536	-	expression tag
Asp 537	-	expression tag
Ile 538	-	expression tag
Phe 539	-	expression tag
Glu 540	-	expression tag
Ala 541	-	expression tag
Gln 542	-	expression tag
Lys 543	-	expression tag
Ile 544	-	expression tag
Glu 545	-	expression tag
Trp 546	-	expression tag
His 547	-	expression tag
Glu 548	-	expression tag
Gly 549	-	expression tag
Ser 550	-	expression tag
Leu 551	-	expression tag
Glu 552	-	expression tag
Val 553	-	expression tag
Leu 554	-	expression tag
Phe 555	-	expression tag
Gln 556	-	expression tag
Gly 557	-	expression tag
Pro 558	-	expression tag
His 559	-	expression tag
His 560	-	expression tag
His 561	-	expression tag
His 562	-	expression tag
His 563	-	expression tag
His 564	-	expression tag
His 565	-	expression tag
His 566	-	expression tag

Contents of the asymmetric unit

Polymers	Number of chains	2
	Total formula weight	45387.5
All*	Total formula weight	45387.5

*Water molecules are not included.