8TNG

Cryo-EM structure of HIV-1 Env BG505 DS-SOSIP in complex with broadly neutralizing llama nanobody R27 targeting the CD4-binding site

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	HIV-1 BG505 DS-SOSIP gp120	polymer	481	54086.3	3	UniProt (Q2N0S6) Pfam (PF00516) In PDB	Human immunodeficiency virus 1
2	B, D, F	Envelope glycoproteiHIV-1 BG505 DS-SOSIP gp41n gp41	polymer	153	17146.5	3	UniProt (Q2N0S6) Pfam (PF00517) In PDB	Human immunodeficiency virus 1	Env polyproten
3	H, I, J	CD4-binding site targeting nanobody R27	polymer	121	12984.4	3		Lama glama (llama)
4	a, b, c, d, e...	2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	branched		424.4	19	In PDB GlyTouCan (G42666HT)
5	K	beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	branched		586.5	1	In PDB GlyTouCan (G15407YE)
6	S, Z	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	2	In PDB GlyTouCan (G81315DD)
7	E, A, B, C	2-acetamido-2-deoxy-beta-D-glucopyranose	non-polymer		221.2	27	Chemie (NAG)

Sequence modifications

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

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	9
	Total formula weight	252651.6
Branched	Number of molecules	22
	Total formula weight	10147.5
Non-Polymers*	Number of molecules	27
	Total formula weight	5972.6
All*	Total formula weight	268771.7

*Water molecules are not included.