8TO7
Cryo-EM structure of HERH-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, E, I (E, D, F) | Surface protein gp120 | polymer | 481 | 54086.3 | 3 | UniProt (Q2N0S5) Pfam (PF00516) | Human immunodeficiency virus 1 | Env polyprotein |
| 2 | B, F, J (B, A, C) | Transmembrane protein gp41 | polymer | 153 | 17146.5 | 3 | UniProt (Q2N0S5) Pfam (PF00517) | Human immunodeficiency virus 1 | Env polyprotein |
| 3 | C, G, K (H, G, I) | HERH-b*01 heavy chain | polymer | 238 | 25558.5 | 3 | Macaca mulatta (Rhesus monkey) | ||
| 4 | D, H, L (L, J, K) | HERH-b*01 light chain | polymer | 219 | 23998.7 | 3 | Macaca mulatta (Rhesus monkey) | ||
| 5 | AA, M, Q, R, V... (a, M, Q, R, 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 | 6 | In PDB GlyTouCan (G15407YE) | |||
| 6 | N, O, S, T, X... (N, O, S, T, X...) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 6 | In PDB GlyTouCan (G42666HT) | |||
| 7 | P, U, Z (P, U, Z) | 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) | |||
| 8 | AB, BA, BB, CA, CB... (D, E, A, F, B...) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 45 | Chemie (NAG) |
Sequence modifications
E, D, F: 31 - 511 (UniProt: Q2N0S5)
B, A, C: 512 - 664 (UniProt: Q2N0S5)
| PDB | External Database | Details |
|---|---|---|
| Cys 201 | Ile 200 | conflict |
| Asn 332 | Thr 330 | conflict |
| Cys 433 | Ala 430 | conflict |
| Cys 501 | Ala 498 | conflict |
| Arg 509 | Glu 506 | conflict |
| Arg 510 | Lys 507 | conflict |
| Arg 512 | - | expression tag |
| Arg 513 | - | expression tag |
| PDB | External Database | Details |
|---|---|---|
| Pro 559 | Ile 556 | conflict |
| Cys 605 | Thr 602 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 12 |
| Total formula weight | 362370.1 | |
| Branched | Number of molecules | 15 |
| Total formula weight | 8798.1 | |
| Non-Polymers* | Number of molecules | 45 |
| Total formula weight | 9954.4 | |
| All* | Total formula weight | 381122.6 |
