Title: Cryo-EM structure of BG24 Fabs with an inferred germline CDRL1 and 10-1074 Fabs in complex with HIV-1 Env 6405-SOSIP.664
Keywords: HIV-1 Env, neutralizing antibody, CD4 binding site antibody, VIRAL PROTEIN, Germline, precursor, immunogen, VIRAL PROTEIN-IMMUNE SYSTEM complex
Source: Human immunodeficiency virus 1, HOMO SAPIENS
Experimental method: ELECTRON MICROSCOPY
Release date: 2022-11-09
Entity 1: Envelope glycoprotein gp120
Strand: A,B,C
Type: polymer
Polymer type: polypeptide(L)
Details: Env mimic 6405-SOSIP.664
Synonyms: SU,Glycoprotein 120,gp120
Source: Human immunodeficiency virus 1 (Taxonomy ID:
11676)
Expression system: Homo sapiens
Source gene: env
Entity 2: Envelope glycoprotein gp41
Strand: D,E,F
Type: polymer
Polymer type: polypeptide(L)
Details: Env mimic 6405-SOSIP.664
Source: Human immunodeficiency virus 1 (Taxonomy ID:
11676)
Expression system: Homo sapiens
Source gene: env
Entity 3: BG24 with an inferred germline CDRL1 Fab heavy chain
Strand: G,H,I
Type: polymer
Polymer type: polypeptide(L)
Source: HOMO SAPIENS (Taxonomy ID:
9606)
Expression system: HOMO SAPIENS
Entity 4: BG24 with an inferred germline CDRL1 Fab light chain
Strand: J,K,L
Type: polymer
Polymer type: polypeptide(L)
Source: HOMO SAPIENS (Taxonomy ID:
9606)
Expression system: HOMO SAPIENS
Entity 5: 10-1074 Fab heavy chain
Strand: M,N,O
Type: polymer
Polymer type: polypeptide(L)
Source: HOMO SAPIENS (Taxonomy ID:
9606)
Expression system: HOMO SAPIENS
Entity 6: 10-1074 Fab light chain
Strand: P,Q,R
Type: polymer
Polymer type: polypeptide(L)
Source: HOMO SAPIENS (Taxonomy ID:
9606)
Expression system: HOMO SAPIENS
Entity 10: alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-2)-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
Type: branched
Entity 11: alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[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
Type: branched
Entity 12: 2-acetamido-2-deoxy-beta-D-glucopyranose
Type: non-polymer
Entity 7: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
Type: branched
Entity 8: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
Type: branched
Entity 9: 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
Type: branched
Structure entry #551: N-Glycan fragment GlcNAc2Man1 [8 instances]
b-D-Manp-(1-4)-b-D-GlcpNAc-(1-4)-b-D-GlcpNAc-(1-4)-Asn
Structure entry #548: N-Glycan fragment GlcNAc2 [21 instances]
b-D-GlcpNAc-(1-4)-b-D-GlcpNAc-(1-4)-Asn
Structure entry #1517: N-Glycan core structure linked to Asn [3 instances]
a-D-Manp-(1-6)+
|
b-D-Manp-(1-4)-b-D-GlcpNAc-(1-4)-b-D-GlcpNAc-(1-4)-Asn
|
a-D-Manp-(1-3)+
Structure entry #7255: Man-7 N-Glycan M7BC linked to Asn [2 instances]
a-D-Manp-(1-6)+
|
a-D-Manp-(1-6)+
| |
a-D-Manp-(1-3)+ b-D-Manp-(1-4)-b-D-GlcpNAc-(1-4)-b-D-GlcpNAc-(1-4)-Asn
|
a-D-Manp-(1-2)-a-D-Manp-(1-2)-a-D-Manp-(1-3)+
Structure entry #12644: Man-6 N-glycan M6BC2 linked to Asn [1 instances]
a-D-Manp-(1-3)-a-D-Manp-(1-6)+
|
b-D-Manp-(1-4)-b-D-GlcpNAc-(1-4)-b-D-GlcpNAc-(1-4)-Asn
|
a-D-Manp-(1-2)-a-D-Manp-(1-2)-a-D-Manp-(1-3)+
Structure entry #229: N-Glycan fragment GlcNAc1 [24 instances]
b-D-GlcpNAc-(1-4)-Asn
Structure entry #22571 [1 instances]
b-D-Manp-(1-4)-b-D-GlcpNAc-(1-4)-a-D-GlcpNAc-(1-4)-ASN