5SZS

Glycan shield and epitope masking of a coronavirus spike protein observed by cryo-electron microscopy

This is a non-PDB format compatible entry.

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 (A, B, C)	Spike glycoprotein	polymer	1325	146814.0	3	UniProt (Q6Q1S2) Pfam (PF01600) Pfam (PF19209) Pfam (PF01601)	Human coronavirus NL63 (HCoV-NL63)	S glycoprotein,E2,Peplomer protein
2	D, TA, Y (D, t, Y)	alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	branched		1073.0	3	In PDB GlyTouCan (G56014GC)
3	BA, CB, DA, E, EA... (b, 2, d, E, e...)	2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	branched		424.4	33	In PDB GlyTouCan (G42666HT)
4	AA, F, KB, PA, U... (a, F, AA, p, U...)	alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	branched		748.7	6	In PDB GlyTouCan (G81315DD)
5	CA, H, XA (c, H, x)	alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	branched		748.7	3	In PDB GlyTouCan (G22573RC)
6	AB, FA, K (0, f, K)	alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-3)-alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	branched		1397.2	3	In PDB GlyTouCan (G83582BK)
7	BB, EB, GA, JA, L... (1, 4, g, j, L...)	beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	branched		586.5	9	In PDB GlyTouCan (G15407YE)
8	DB, IA, LB, N, QA... (3, i, BA, N, q...)	alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	branched		910.8	6	In PDB GlyTouCan (G22768VO)
9	AC, BC, CC, DC, EC... (B, C, A)	2-acetamido-2-deoxy-beta-D-glucopyranose	non-polymer		221.2	21	Chemie (NAG)

Sequence modifications

A, B, C: 16 - 1291 (UniProt: Q6Q1S2)

PDB	External Database	Details
Leu 1292	-	expression tag
Ile 1293	-	expression tag
Lys 1294	-	expression tag
Arg 1295	-	expression tag
Met 1296	-	expression tag
Lys 1297	-	expression tag
Gln 1298	-	expression tag
Ile 1299	-	expression tag
Glu 1300	-	expression tag
Asp 1301	-	expression tag
Lys 1302	-	expression tag
Ile 1303	-	expression tag
Glu 1304	-	expression tag
Glu 1305	-	expression tag
Ile 1306	-	expression tag
Glu 1307	-	expression tag
Ser 1308	-	expression tag
Lys 1309	-	expression tag
Gln 1310	-	expression tag
Lys 1311	-	expression tag
Lys 1312	-	expression tag
Ile 1313	-	expression tag
Glu 1314	-	expression tag
Asn 1315	-	expression tag
Glu 1316	-	expression tag
Ile 1317	-	expression tag
Ala 1318	-	expression tag
Arg 1319	-	expression tag
Ile 1320	-	expression tag
Lys 1321	-	expression tag
Lys 1322	-	expression tag
Ile 1323	-	expression tag
Lys 1324	-	expression tag
Leu 1325	-	expression tag
Val 1326	-	expression tag
Pro 1327	-	expression tag
Arg 1328	-	expression tag
Gly 1329	-	expression tag
Ser 1330	-	expression tag
Leu 1331	-	expression tag
Glu 1332	-	expression tag
Trp 1333	-	expression tag
Ser 1334	-	expression tag
His 1335	-	expression tag
Pro 1336	-	expression tag
Gln 1337	-	expression tag
Phe 1338	-	expression tag
Glu 1339	-	expression tag
Lys 1340	-	expression tag

Contents of the asymmetric unit

Polymers	Number of chains	3
	Total formula weight	440442.0
Branched	Number of molecules	63
	Total formula weight	38897.8
Non-Polymers*	Number of molecules	21
	Total formula weight	4645.4
All*	Total formula weight	483985.1

*Water molecules are not included.