9PNI
Cryo-EM structure of J601-1B2 Fab in complex with HIV-1 BG505 DS-SOSIP Env trimer
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, C, E (A, B, F) | Envelope glycoprotein BG505 DS-SOSIP gp41 | polymer | 153 | 17162.5 | 3 | UniProt (Q2N0S7) | Human immunodeficiency virus 1 | |
| 2 | B, D, F (C, G, I) | Envelope glycoprotein BG505 DS-SOSIP gp120 | polymer | 473 | 52987.0 | 3 | UniProt (Q2N0S6) | Human immunodeficiency virus 1 | |
| 3 | G, I, K (H, J, D) | J601-1B2 heavy chain | polymer | 234 | 25073.9 | 3 | Macaca mulatta | ||
| 4 | H, J, L (L, K, E) | J601-1B2 light chain | polymer | 214 | 23471.0 | 3 | Macaca mulatta | ||
| 5 | AB, BB, FA, GA, IA... (0, 1, f, g, i...) | beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 586.5 | 21 | In PDB GlyTouCan (G15407YE) | |||
| 6 | BA, N, PA (b, N, p) | 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) | |||
| 7 | AA, CA, DA, HA, O... (a, c, d, h, O...) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 10 | In PDB GlyTouCan (G42666HT) | |||
| 8 | EA, P, SA (e, P, s) | 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) | |||
| 9 | LA, T, V, W, ZA (l, T, V, W, z) | 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 | 5 | In PDB GlyTouCan (G81315DD) | |||
| 10 | CB, DB, EB, FB, GB... (A, C, B, G, F...) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 19 | Chemie (NAG) | |||
| 11 | NB, UB (G, I) | alpha-D-mannopyranose | non-polymer | 180.2 | 2 | Chemie (MAN) |
Sequence modifications
A, B, F: 512 - 664 (UniProt: Q2N0S7)
C, G, I: 31 - 505 (UniProt: Q2N0S6)
| PDB | External Database | Details |
|---|---|---|
| Cys 605 | Thr 602 | engineered mutation |
| PDB | External Database | Details |
|---|---|---|
| Cys 201 | Ile 200 | engineered mutation |
| Asn 332 | Thr 330 | engineered mutation |
| Cys 433 | Ala 430 | engineered mutation |
| Cys 501 | Ala 498 | engineered mutation |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 12 |
| Total formula weight | 356083.2 | |
| Branched | Number of molecules | 42 |
| Total formula weight | 26256.2 | |
| Non-Polymers* | Number of molecules | 21 |
| Total formula weight | 4563.3 | |
| All* | Total formula weight | 386902.6 |
