9NC0

AMC008 v4.2 SOSIP Env trimer in complex with b12 Fab

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, E, I (A, C, E)	Envelope glycoprotein gp120	polymer	488	55212.5	3		Human immunodeficiency virus 1
2	B, F, J (B, D, F)	Envelope glycoprotein gp41	polymer	154	17428.8	3	UniProt (Q1AII4)	Human immunodeficiency virus 1
3	C, G, K (H, G, J)	b12 Fab heavy chain	polymer	230	24910.8	3		Homo sapiens (human)
4	D, H, L (L, I, K)	b12 Fab light chain	polymer	215	23707.4	3		Homo sapiens (human)
5	AA, BB, CA, CB, DA... (a, 1, c, 2, d...)	2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	branched		424.4	24	In PDB GlyTouCan (G42666HT)
6	N (N)	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	1	In PDB GlyTouCan (G81315DD)
7	BA, DB, FA, GA, IB... (b, 3, f, g, 8...)	beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	branched		586.5	14	In PDB GlyTouCan (G15407YE)
8	HA, HB, P, PA, X... (h, 7, P, p, X...)	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	Q (Q)	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	1	In PDB GlyTouCan (G56014GC)
10	EB, MA, U (4, m, U)	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)
11	JB, RA, Z (9, r, Z)	alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-6)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(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		1924.7	3	In PDB
12	IA (i)	alpha-D-mannopyranose-(1-3)-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		910.8	1	In PDB GlyTouCan (G78750JU)
13	AB (0)	alpha-D-mannopyranose-(1-3)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)-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		1235.1	1	In PDB GlyTouCan (G84881ST)
14	AC, BC, CC, OB, PB... (E, F, A, B, C...)	2-acetamido-2-deoxy-beta-D-glucopyranose	non-polymer		221.2	15	Chemie (NAG)

Sequence modifications

B, D, F: 511 - 664 (UniProt: Q1AII4)

PDB	External Database	Details
Thr 514	Ala 4	conflict
Asn 543	Gln 33	conflict
Pro 559	Ile 49	conflict
Cys 605	Thr 95	conflict
Ser 607	Ala 97	conflict
Thr 612	Ala 102	conflict
Leu 646	Ile 136	conflict

Contents of the asymmetric unit

Polymers	Number of chains	12
	Total formula weight	363778.6
Branched	Number of molecules	54
	Total formula weight	35849.9
Non-Polymers*	Number of molecules	15
	Total formula weight	3318.1
All*	Total formula weight	402946.7

*Water molecules are not included.