6CUE
Cryo-EM structure at 4.0 A resolution of vaccine-elicited antibody vFP7.04 in complex with HIV-1 Env BG505 DS-SOSIP, and antibodies VRC03 and PGT122
This is a non-PDB format compatible entry.
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, B, C (c, 2, C) | Envelope glycoprotein gp120 | polymer | 473 | 52987.0 | 3 | UniProt (Q2N0S6) Pfam (PF00516) | Human immunodeficiency virus 1 | Env polyprotein |
| 2 | D, K, R (1, D, d) | Envelope glycoprotein gp41 | polymer | 153 | 17162.5 | 3 | UniProt (Q2N0S7) Pfam (PF00517) | Human immunodeficiency virus 1 | Env polyprotein |
| 3 | E, L, S (3, H, h) | vFP7.04 Heavy chain | polymer | 118 | 13152.8 | 3 | Mus musculus (Mouse) | ||
| 4 | F, M, T (4, L, l) | vFP7.04 light chain | polymer | 112 | 12256.8 | 3 | Mus musculus (Mouse) | ||
| 5 | G, N, U (5, M, m) | PGT122 heavy Chain | polymer | 132 | 14838.7 | 3 | Homo sapiens (human) | ||
| 6 | H, O, V (6, N, n) | PGT122 Light chain | polymer | 107 | 11591.7 | 3 | Homo sapiens (human) | ||
| 7 | I, P, W (7, Q, q) | VRC03 Heavy chain | polymer | 129 | 14639.5 | 3 | Homo sapiens (human) | ||
| 8 | J, Q, X (8, R, r) | VRC03 light chain | polymer | 102 | 11386.8 | 3 | Homo sapiens (human) | ||
| 9 | BA, BB, CA, CB, EA... (F, t, G, u, J...) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 21 | In PDB GlyTouCan (G42666HT) | |||
| 10 | AA, AB, GA, GB, MA... (E, s, O, y, W...) | beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 586.5 | 9 | In PDB GlyTouCan (G15407YE) | |||
| 11 | DA, DB, QA (I, v, a) | 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 | 910.8 | 3 | In PDB GlyTouCan (G22768VO) | |||
| 12 | IA, IB, VA (S, 0, i) | alpha-D-mannopyranose-(1-2)-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 | 910.8 | 3 | In PDB GlyTouCan (G42227JK) | |||
| 13 | KA, KB, XA (U, AA, k) | 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) | |||
| 14 | LB, MB, NB (c, 2, C) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 3 | Chemie (NAG) |
Sequence modifications
c, 2, C: 31 - 505 (UniProt: Q2N0S6)
1, D, d: 512 - 664 (UniProt: Q2N0S7)
| PDB | External Database | Details |
|---|---|---|
| Cys 201 | Ile 200 | conflict |
| Asn 332 | Thr 330 | conflict |
| Cys 433 | Ala 430 | conflict |
| Cys 501 | Ala 498 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Cys 605 | Thr 602 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 24 |
| Total formula weight | 444047.5 | |
| Branched | Number of molecules | 39 |
| Total formula weight | 21902.3 | |
| Non-Polymers* | Number of molecules | 3 |
| Total formula weight | 663.6 | |
| All* | Total formula weight | 466613.4 |
