6CUF
Cryo-EM structure at 4.2 A resolution of vaccine-elicited antibody vFP1.01 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 | 3, H, h | vFP1.01 heavy chain | polymer | 211 | 22972.8 | 3 | Mus musculus (Mouse) | ||
| 2 | 4, L, l | vFP1.01 Light chain | polymer | 219 | 24127.9 | 3 | Mus musculus (Mouse) | ||
| 3 | 5, M, m | PGT122 Heavy chain | polymer | 132 | 14838.7 | 3 | Homo sapiens (human) | ||
| 4 | 6, N, n | PGT122 light chain | polymer | 105 | 11423.5 | 3 | Homo sapiens (human) | ||
| 5 | 7, R, r | VRC03 light chain | polymer | 102 | 11386.8 | 3 | Homo sapiens (human) | ||
| 6 | 8, Q, q | VRC03 heavy chain | polymer | 128 | 14506.3 | 3 | Homo sapiens (human) | ||
| 7 | C, 2, d | Envelope glycoprotein gp120 | polymer | 473 | 52964.9 | 3 | UniProt (Q2N0S6) Pfam (PF00516) In PDB | Human immunodeficiency virus 1 | |
| 8 | D, A, c | Envelope glycoprotein gp41 | polymer | 153 | 17162.5 | 3 | UniProt (Q2N0S7) Pfam (PF00517) UniProt (by SIFTS) (Q2N0S6) In PDB | Human immunodeficiency virus 1 | |
| 9 | t, u, W, X, Y... | 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 | 9 | In PDB GlyTouCan (G81315DD) | |||
| 10 | F, I, v, x, P... | 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 | G, w, K, O, z... | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 15 | In PDB GlyTouCan (G42666HT) | |||
| 12 | J, y, e | 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) | |||
| 13 | S, 9, j | 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) | |||
| 14 | U, BA, o | 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-2-deoxy-beta-D-glucopyranose | branched | 1559.4 | 3 | In PDB GlyTouCan (G68668TB) | |||
| 15 | C, D, 2, A, c... | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 9 | Chemie (NAG) |
Sequence modifications
C, 2, d: 31 - 505 (UniProt: Q2N0S6)
D, A, c: 512 - 664 (UniProt: Q2N0S7)
| PDB | External Database | Details |
|---|---|---|
| Asn 332 | Thr 330 | 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 | 508150.6 | |
| Branched | Number of molecules | 42 |
| Total formula weight | 29012.5 | |
| Non-Polymers* | Number of molecules | 9 |
| Total formula weight | 1990.9 | |
| All* | Total formula weight | 539154.0 |
