7RXD

CryoEM structure of RBD domain of COVID-19 in complex with Legobody

Entity

Entity ID	Chain ID	Description	Type	Chain length	Formula weight	Number of molecules	DB Name (Accession)	Biological source	Descriptive keywords
1	A (B)	Maltodextrin-binding protein,Immunoglobulin G-binding protein A,Immunoglobulin G-binding protein G	polymer	545	59233.2	1	UniProt (A0A4Z0THX4) UniProt (P99134) UniProt (P06654) Pfam (PF02216) Pfam (PF01378)	Escherichia coli	IgG-binding protein A,Staphylococcal protein A,SpA,IgG-binding protein G
2	B (H)	Fab_8D3_2 heavy chain	polymer	234	25252.2	1		Mus musculus (mouse)
3	C (L)	Fab_8D3_2 light chain	polymer	219	24095.9	1		Mus musculus (mouse)
4	D (N)	Nb_RBD	polymer	129	14661.2	1		Vicugna pacos (Alpaca Lama pacos)
5	E (R)	Spike protein S1	polymer	235	25995.6	1	UniProt (P0DTC2) Pfam (PF09408)	Severe acute respiratory syndrome coronavirus 2 (2019-nCoV SARS-CoV-2)
6	F (A)	alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose	branched		342.3	1	In PDB BIRD (PRD_900001) GlyTouCan (G07411ON)

Sequence modifications

B: 2 - 359 (UniProt: A0A4Z0THX4)

PDB	External Database	Details
Met 1	-	initiating methionine

B: 360 - 467 (UniProt: P99134)

PDB	External Database	Details
Ala 361	Gln 44	conflict
Leu 362	Asn 45	conflict
Ala 365	Tyr 48	conflict
Ile 367	Val 50	conflict
Ile 369	Asn 52	conflict
Thr 374	Asn 57	conflict
Glu 375	Ala 58	conflict
Glu 376	Asp 59	conflict
Val 391	Gln 74	conflict
Lys 393	Ala 76	conflict
Glu 394	Asn 77	conflict
Ile 395	Val 78	conflict
Ala 397	Gly 80	conflict
Lys 400	Gln 83	conflict
Glu 404	Asp 87	conflict
His 405	Ser 88	conflict
-	Ala 93	deletion
Gly 410	Asp 94	conflict
Gly 411	Ala 95	conflict
Ser 412	Gln 96	conflict
Gly 413	Gln 97	conflict
Gly 414	Asn 98	conflict
Ala 415	Asn 99	conflict
Gly 416	Phe 100	conflict
Ser 417	Asn 101	conflict
Gly 418	Lys 102	conflict
Gly 468	-	linker
Gly 469	-	linker
Gly 470	-	linker
Ser 471	-	linker
Gly 472	-	linker
Gly 473	-	linker
Gly 474	-	linker
Ser 475	-	linker
Gly 476	-	linker
Gly 477	-	linker
Ser 478	-	linker

B: 479 - 536 (UniProt: P06654)

PDB	External Database	Details
Gly 537	-	expression tag
Ser 538	-	expression tag
Gly 539	-	expression tag
His 540	-	expression tag
His 541	-	expression tag
His 542	-	expression tag
His 543	-	expression tag
His 544	-	expression tag
His 545	-	expression tag

R: 334 - 526 (UniProt: P0DTC2)

PDB	External Database	Details
Gly 307	-	expression tag
Asp 308	-	expression tag
Tyr 309	-	expression tag
Lys 310	-	expression tag
Asp 311	-	expression tag
Asp 312	-	expression tag
Asp 313	-	expression tag
Asp 314	-	expression tag
Lys 315	-	expression tag
Gly 316	-	expression tag
Gly 317	-	expression tag
Glu 318	-	expression tag
Asn 319	-	expression tag
Leu 320	-	expression tag
Tyr 321	-	expression tag
Phe 322	-	expression tag
Gln 323	-	expression tag
Gly 324	-	expression tag
Gly 325	-	expression tag
Ser 326	-	expression tag
Gly 327	-	expression tag
Asp 328	-	expression tag
Ser 329	-	expression tag
Thr 330	-	expression tag
Gly 331	-	expression tag
Ser 332	-	expression tag
Ser 333	-	expression tag
Gly 527	-	expression tag
Gly 528	-	expression tag
Gly 529	-	expression tag
Ser 530	-	expression tag
Gly 531	-	expression tag
Ser 532	-	expression tag
Gly 533	-	expression tag
His 534	-	expression tag
His 535	-	expression tag
His 536	-	expression tag
His 537	-	expression tag
His 538	-	expression tag
His 539	-	expression tag
His 540	-	expression tag
His 541	-	expression tag

Contents of the asymmetric unit

Polymers	Number of chains	5
	Total formula weight	149238.1
Branched	Number of molecules	1
	Total formula weight	342.3
All*	Total formula weight	149580.4

*Water molecules are not included.