6NQD

Cryo-EM structure of T/F100 SOSIP.664 HIV-1 Env trimer in complex with 8ANC195 Fab

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, E, I)	T/F100 Env gp120	polymer	486	54739.1	3	UniProt (A0A140EMT3) Pfam (PF00516)	Human immunodeficiency virus 1
2	B, F, J (B, F, J)	T/F100 Env gp41	polymer	184	20333.9	3	UniProt (A0A140EMT3) Pfam (PF00517)	Human immunodeficiency virus 1
3	C, G, K (C, G, K)	8ANC195 G52K5 heavy chain, IG gamma-1 chain	polymer	244	26153.3	3	UniProt (S6B2A6) Pfam (PF07686) Pfam (PF07654)	Homo sapiens (Human)
4	D, H, L (D, H, L)	8ANC195 G52K5 light chain	polymer	215	23460.0	3	UniProt (P0DOX7) Pfam (PF07686) Pfam (PF07654)	Homo sapiens (Human)
5	IA, M, X (i, M, X)	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)-[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		1721.5	3	In PDB GlyTouCan (G40702WU)
6	JA, N, Y (j, N, 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)
7	AA, BA, CA, DA, EA... (a, b, c, d, e...)	2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	branched		424.4	21	In PDB GlyTouCan (G42666HT)
8	GA, RA, V (g, r, V)	beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	branched		586.5	3	In PDB GlyTouCan (G15407YE)
9	HA, SA, W (h, s, W)	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	3	In PDB GlyTouCan (G81315DD)
10	AB, BB, CB, DB, EB... (B, C, E, F, G...)	2-acetamido-2-deoxy-beta-D-glucopyranose	non-polymer		221.2	30	Chemie (NAG)

Sequence modifications

A, E, I: 30 - 507 (UniProt: A0A140EMT3)

PDB	External Database	Details
Cys 501	Ala 502	conflict
Arg 508	-	expression tag
Arg 509	-	expression tag
Arg 510	-	expression tag
Arg 511	-	expression tag
Arg 512	-	expression tag
Arg 513	-	expression tag

B, F, J: 512 - 664 (UniProt: A0A140EMT3)

PDB	External Database	Details
Pro 559	Ile 560	conflict
Cys 605	Thr 606	conflict
Ala 665	-	expression tag
Ala 666	-	expression tag
Ala 667	-	expression tag
Trp 668	-	expression tag
Ser 669	-	expression tag
His 670	-	expression tag
Pro 671	-	expression tag
Gln 672	-	expression tag
Phe 673	-	expression tag
Glu 674	-	expression tag
Lys 675	-	expression tag
Gly 676	-	expression tag
Gly 677	-	expression tag
Gly 678	-	expression tag
Ser 679	-	expression tag
Gly 680	-	expression tag
Gly 681	-	expression tag
Gly 682	-	expression tag
Ser 683	-	expression tag
Gly 684	-	expression tag
Gly 685	-	expression tag
Ser 686	-	expression tag
Ala 687	-	expression tag
Trp 688	-	expression tag
Ser 689	-	expression tag
His 690	-	expression tag
Pro 691	-	expression tag
Gln 692	-	expression tag
Phe 693	-	expression tag
Glu 694	-	expression tag
Lys 695	-	expression tag

C, G, K: 1 - 113 (PDB: 6NQD)
C, G, K: 114 - 220 (UniProt: S6B2A6)

PDB	External Database	Details
His 221	-	expression tag
His 222	-	expression tag
His 223	-	expression tag
His 224	-	expression tag
His 225	-	expression tag

D, H, L: 1 - 108 (PDB: 6NQD)
D, H, L: 109 - 214 (UniProt: P0DOX7)

Contents of the asymmetric unit

Polymers	Number of chains	12
	Total formula weight	374059.0
Branched	Number of molecules	33
	Total formula weight	21301.6
Non-Polymers*	Number of molecules	30
	Total formula weight	6636.2
All*	Total formula weight	401996.8

*Water molecules are not included.