6MPG
Cryo-EM structure at 3.2 A resolution of HIV-1 fusion peptide-directed antibody, A12V163-b.01, elicited by vaccination of Rhesus macaques, in complex with stabilized HIV-1 Env BG505 DS-SOSIP, which was also bound to 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, K, X (B, 4, Y) | A12V163-b.01 Light Chain | polymer | 113 | 12326.7 | 3 | Macaca mulatta | ||
| 2 | B, P, R (U, A, D) | Envelope glycoprotein gp41 | polymer | 153 | 17162.5 | 3 | UniProt (Q2N0S7) Pfam (PF00517) | Human immunodeficiency virus 1 | |
| 3 | C, I, Q (V, 2, C) | Envelope glycoprotein gp120 | polymer | 473 | 52987.0 | 3 | UniProt (Q2N0S6) Pfam (PF00516) | Human immunodeficiency virus 1 | |
| 4 | D, J, W (W, 3, X) | A12V163-b.01 Heavy Chain | polymer | 117 | 12858.4 | 3 | Macaca mulatta | ||
| 5 | E, L, S (m, 5, M) | PGT122 Heavy chain | polymer | 132 | 14838.7 | 3 | Homo sapiens (Human) | ||
| 6 | F, M, T (n, 6, N) | PGT122 Light chain | polymer | 107 | 11591.7 | 3 | Homo sapiens (Human) | ||
| 7 | G, O, U (q, 8, Q) | VRC03 heavy chain | polymer | 227 | 24653.8 | 3 | Homo sapiens (Human) | ||
| 8 | H, N, V (r, 7, R) | VRC03 Light chain | polymer | 102 | 11386.8 | 3 | Homo sapiens (Human) | ||
| 9 | AA, AB, BA, CA, CB... (G, t, H, I, v...) | 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 | BB, HA, JB, KA, MB... (u, P, 9, Z, CA...) | 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) | |||
| 11 | DA, FB, RA (J, y, g) | 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 | GA, IB, LA, NB, UA... (O, 1, a, DA, j...) | beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 586.5 | 6 | In PDB GlyTouCan (G15407YE) | |||
| 13 | IA, KB, WA (S, AA, l) | 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) | |||
| 14 | OB, PB, QB, RB, SB... (U, V, 2, A, C...) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 12 | Chemie (NAG) |
Sequence modifications
U, A, D: 512 - 664 (UniProt: Q2N0S7)
V, 2, C: 31 - 505 (UniProt: Q2N0S6)
| PDB | External Database | Details |
|---|---|---|
| Cys 605 | Thr 602 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Cys 201 | Ile 200 | conflict |
| Asn 332 | Thr 330 | conflict |
| Cys 433 | Ala 430 | conflict |
| Cys 501 | Ala 498 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 24 |
| Total formula weight | 473416.8 | |
| Branched | Number of molecules | 42 |
| Total formula weight | 26580.4 | |
| Non-Polymers* | Number of molecules | 12 |
| Total formula weight | 2654.5 | |
| All* | Total formula weight | 502651.7 |
