8TNU
Cryo-EM structure of TRNM-b*01 Fab in complex with HIV-1 Env trimer BG505.DS SOSIP
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, D, F (B, J, H) | TRNM-b*01 heavy chain | polymer | 226 | 24706.6 | 3 | Macaca mulatta (Rhesus monkey) | ||
| 2 | B, E, G (C, K, L) | TRNM-b*01 light chain | polymer | 213 | 23050.6 | 3 | Macaca mulatta (Rhesus monkey) | ||
| 3 | C, K, L (Z, X, Y) | Transmembrane protein gp41 | polymer | 153 | 17146.5 | 3 | UniProt (Q2N0S5) Pfam (PF00517) | Human immunodeficiency virus 1 | Env polyprotein |
| 4 | H, I, J (G, E, F) | BG505 DS-SOSIP Surface protein gp120 | polymer | 481 | 54086.3 | 3 | UniProt (Q2N0S5) Pfam (PF00516) | Human immunodeficiency virus 1 | Env polyprotein |
| 5 | BA, CA, EA, FA, HA... (b, c, e, f, h...) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 17 | In PDB GlyTouCan (G42666HT) | |||
| 6 | U, Z (R, W) | 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 | 2 | In PDB GlyTouCan (G22768VO) | |||
| 7 | AA, DA, GA, IA (a, d, 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 | 4 | In PDB GlyTouCan (G15407YE) | |||
| 8 | AB, BB, CB, DB, EB... (E, F, Z, G, X...) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 37 | Chemie (NAG) |
Sequence modifications
Z, X, Y: 512 - 664 (UniProt: Q2N0S5)
G, E, F: 31 - 511 (UniProt: Q2N0S5)
| PDB | External Database | Details |
|---|---|---|
| Pro 559 | Ile 556 | conflict |
| Cys 605 | Thr 602 | conflict |
| 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 |
| Arg 509 | Glu 506 | engineered mutation |
| Arg 510 | Lys 507 | engineered mutation |
| Arg 512 | - | insertion |
| Arg 513 | - | insertion |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 12 |
| Total formula weight | 356970.1 | |
| Branched | Number of molecules | 23 |
| Total formula weight | 11382.6 | |
| Non-Polymers* | Number of molecules | 37 |
| Total formula weight | 8184.7 | |
| All* | Total formula weight | 376537.4 |
