8TOP

Cryo-EM structure of HIV-1 Env BG505 DS-SOSIP in complex with antibody GPZ6-b.01 targeting the fusion peptide

Entity

Entity ID	Chain ID	Description	Type	Chain length	Formula weight	Number of molecules	DB Name (Accession)	Biological source	Descriptive keywords
1	A, C, E, S, U... (O, Q, S, A, C...)	HIV-1 BG505 DS-SOSIP gp120	polymer	481	54086.3	6	UniProt (Q2N0S6) Pfam (PF00516)	Human immunodeficiency virus 1
2	B, D, F, T, V... (P, R, T, B, D...)	HIV-1 BG505 DS-SOSIP glycoprotein gp41	polymer	153	17146.5	6	UniProt (Q2N0S6) Pfam (PF00517)	Human immunodeficiency virus 1	Env polyproten
3	G, H, K, M, O... (H, J, M, U, W...)	Heavy chain of antibody GPZ6-b.01	polymer	237	25294.4	6		Macaca mulatta (Rhesus monkey)
4	I, J, L, N, P... (K, L, N, V, X...)	Light chain of antibody GPZ6-b.01	polymer	214	23162.6	6		Macaca mulatta (Rhesus monkey)
5	AA, CA, EA, GA, HA... (a, c, e, g, h...)	2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	branched		424.4	9	In PDB GlyTouCan (G42666HT)
6	BA, DA, FA, IA, LA... (b, d, f, i, l...)	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)
7	AB, AC, AD, BB, BC... (Q, S, C, T, A...)	2-acetamido-2-deoxy-beta-D-glucopyranose	non-polymer		221.2	82	Chemie (NAG)

Sequence modifications

O, Q, S, A, C, E: 31 - 508 (UniProt: Q2N0S6)

PDB	External Database	Details
Cys 201	Ile 200	conflict
Asn 332	Thr 330	conflict
Cys 433	Ala 430	conflict
Cys 501	Ala 498	conflict
Arg 509	-	expression tag
Arg 510	-	expression tag
Arg 511	-	expression tag
Arg 512	-	expression tag
Arg 513	-	expression tag

P, R, T, B, D, F: 512 - 664 (UniProt: Q2N0S6)

PDB	External Database	Details
Pro 559	Ile 556	conflict
Cys 605	Thr 602	conflict

Contents of the asymmetric unit

Polymers	Number of chains	24
	Total formula weight	718138.9
Branched	Number of molecules	15
	Total formula weight	8311.7
Non-Polymers*	Number of molecules	82
	Total formula weight	18139.1
All*	Total formula weight	744589.7

*Water molecules are not included.