7LL1

Cryo-EM structure of BG505 DS-SOSIP in complex with glycan276-dependent broadly neutralizing antibody VRC40.01 Fab

Entity

Entity ID	Chain ID	Description	Type	Chain length	Formula weight	Number of molecules	DB Name (Accession)	Biological source	Descriptive keywords
1	A, C, G	Envelope glycoprotein gp120	polymer	473	52987.0	3	UniProt (Q2N0S6) Pfam (PF00516) In PDB	Human immunodeficiency virus 1
2	B, D, I	Envelope glycoprotein gp41	polymer	153	17162.5	3	UniProt (Q2N0S7) Pfam (PF00517) In PDB	Human immunodeficiency virus 1	Env polyprotein
3	H, E, J	VRC40.01 Fab Heavy chain	polymer	229	24553.9	3		Homo sapiens (Human)
4	L, F, K	VRC40.01 Fab Light chain	polymer	214	23616.3	3		Homo sapiens (Human)
5	b, c, d, e, f...	beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	branched		586.5	27	In PDB GlyTouCan (G15407YE)
6	a, k, 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	3	In PDB GlyTouCan (G56014GC)
7	A, C, G	2-acetamido-2-deoxy-beta-D-glucopyranose	non-polymer		221.2	9	Chemie (NAG)

Sequence modifications

A, C, G: 31 - 505 (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

B, D, I: 512 - 664 (UniProt: Q2N0S7)

PDB	External Database	Details
Cys 605	Thr 602	conflict

Contents of the asymmetric unit

Polymers	Number of chains	12
	Total formula weight	354959.1
Branched	Number of molecules	30
	Total formula weight	19055.5
Non-Polymers*	Number of molecules	9
	Total formula weight	1990.9
All*	Total formula weight	376005.5

*Water molecules are not included.