9YDW
Cryo-EM structure of single-bound FDG antibody VRC49.01 in complex with HIV-1 Env BG505 DS-SOSIP trimer
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, G, I (A, B, I) | BG505 SOSIP.664 gp41 | polymer | 153 | 17146.5 | 3 | UniProt (Q2N0S5) | Human immunodeficiency virus 1 | |
| 2 | B, H, J (C, D, J) | HIV-1 BG505 DS-SOSIP gp120 | polymer | 481 | 54086.3 | 3 | UniProt (Q2N0S6) | Human immunodeficiency virus 1 | |
| 3 | C, E (K, M) | VRC49.01 Heavy | polymer | 125 | 13690.3 | 2 | Homo sapiens | ||
| 4 | D, F (L, N) | VRC49.01 Light | polymer | 107 | 11691.1 | 2 | Homo sapiens | ||
| 5 | AA, CA, DA, EA, GA... (a, c, d, e, g...) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 22 | In PDB GlyTouCan (G42666HT) | |||
| 6 | FA, L, V (f, F, V) | 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) | |||
| 7 | Q, T (Q, T) | alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-2)-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 | 1559.4 | 2 | In PDB GlyTouCan (G83161QT) | |||
| 8 | BA, IA, R (b, i, R) | beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 586.5 | 3 | In PDB GlyTouCan (G15407YE) | |||
| 9 | AB, BB, CB, DB, EB... (B, D, I, J, A...) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 33 | Chemie (NAG) PubChem (24139) |
Sequence modifications
A, B, I: 512 - 664 (UniProt: Q2N0S5)
C, D, J: 31 - 508 (UniProt: Q2N0S6)
| PDB | External Database | Details |
|---|---|---|
| Pro 559 | Ile 556 | engineered mutation |
| 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 |
| Arg 509 | - | expression tag |
| Arg 510 | - | expression tag |
| Arg 511 | - | expression tag |
| Arg 512 | - | expression tag |
| Arg 513 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 10 |
| Total formula weight | 264461.1 | |
| Branched | Number of molecules | 30 |
| Total formula weight | 17434.1 | |
| Non-Polymers* | Number of molecules | 33 |
| Total formula weight | 7299.9 | |
| All* | Total formula weight | 289195.1 |
