6MPH
Cryo-EM structure at 3.8 A resolution of HIV-1 fusion peptide-directed antibody, DF1W-a.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 | 1, 3, H | DF1W-a.01 heavy chain | polymer | 118 | 12956.6 | 3 | Macaca mulatta | ||
| 2 | 2, 4, L | DF1W-a.01 Light chain | polymer | 112 | 12194.7 | 3 | Macaca mulatta | ||
| 3 | 6, D, E | Envelope glycoprotein gp41 | polymer | 153 | 17162.5 | 3 | UniProt (Q2N0S7) Pfam (PF00517) In PDB | Human immunodeficiency virus 1 | |
| 4 | A, B, C | Envelope glycoprotein gp120 | polymer | 473 | 52987.0 | 3 | UniProt (Q2N0S6) Pfam (PF00516) In PDB | Human immunodeficiency virus 1 | |
| 5 | M, X, Y | PGT122 heavy chain | polymer | 132 | 14838.7 | 3 | Homo sapiens (Human) | ||
| 6 | N, Z, a | PGT122 Light Chain | polymer | 107 | 11591.7 | 3 | Homo sapiens (Human) | ||
| 7 | Q, f, g | VRC03 Heavy chain | polymer | 227 | 24653.8 | 3 | Homo sapiens (Human) | ||
| 8 | R, h, i | VRC03 Light Chain | polymer | 102 | 11386.8 | 3 | Homo sapiens (Human) | ||
| 9 | J, w, W, 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 | 8 | In PDB GlyTouCan (G22768VO) | |||
| 10 | O, y, T, 5, U... | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 12 | In PDB GlyTouCan (G42666HT) | |||
| 11 | I, v, c, BA, 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 | 7 | In PDB GlyTouCan (G81315DD) | |||
| 12 | K, x, P, z, V... | beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 586.5 | 12 | In PDB GlyTouCan (G15407YE) | |||
| 13 | S, 0, n | 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) | |||
| 14 | 6, A, B, C, D... | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 9 | Chemie (NAG) |
Sequence modifications
6, D, E: 512 - 664 (UniProt: Q2N0S7)
A, B, 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 | 473315.4 | |
| Branched | Number of molecules | 42 |
| Total formula weight | 27877.6 | |
| Non-Polymers* | Number of molecules | 9 |
| Total formula weight | 1990.9 | |
| All* | Total formula weight | 503183.9 |
