8ULR
Cryo-EM structure of the BG505 SOSIPv2 in complex with bNAb 05_B08 Fabs
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, C, E) | Envelope glycoprotein gp160 | polymer | 479 | 53864.1 | 3 | UniProt (Q2N0S6) Pfam (PF00516) | Human immunodeficiency virus 1 | Env polyprotein |
| 2 | B, D, F (B, D, F) | BG505 DS-SOSIP glycoprotein gp41 | polymer | 153 | 17146.5 | 3 | UniProt (Q2N0S5) Pfam (PF00517) UniProt (by SIFTS) (D0PUM0) | Human immunodeficiency virus 1 | |
| 3 | G, H, I (H, I, J) | 05_B08 Fab Heavy Chain | polymer | 232 | 25648.9 | 3 | Homo sapiens | ||
| 4 | J, K, L (L, M, N) | 05_B08 Light Chain | polymer | 210 | 23264.8 | 3 | Homo sapiens | ||
| 5 | AA, BA, DA, EA, GA... (a, b, d, e, g...) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 15 | In PDB GlyTouCan (G42666HT) | |||
| 6 | FA, O, X (f, O, X) | 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) | |||
| 7 | HA, IA, P, Y (h, i, P, Y) | 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 | 748.7 | 4 | In PDB GlyTouCan (G22573RC) | |||
| 8 | Q, Z (Q, Z) | 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 | 2 | In PDB GlyTouCan (G56014GC) | |||
| 9 | CA, MA, T (c, m, T) | 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) | |||
| 10 | JA (j) | 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 | 910.8 | 1 | In PDB GlyTouCan (G42227JK) | |||
| 11 | AB, BB, OA, PA, QA... (E, A, C) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 14 | Chemie (NAG) |
Sequence modifications
A, C, E: 33 - 504 (UniProt: Q2N0S6)
B, D, F: 512 - 664 (UniProt: Q2N0S5)
| PDB | External Database | Details |
|---|---|---|
| Asn 332 | Thr 330 | conflict |
| Cys 501 | Ala 498 | conflict |
| Val 505 | - | expression tag |
| Val 506 | - | expression tag |
| Gly 507 | - | expression tag |
| Arg 508 | - | expression tag |
| Arg 509 | - | expression tag |
| Arg 510 | - | expression tag |
| Arg 511 | - | expression tag |
| Arg 512 | - | expression tag |
| Arg 513 | - | expression tag |
| PDB | External Database | Details |
|---|---|---|
| Pro 559 | Ile 556 | engineered mutation |
| Cys 605 | Thr 602 | engineered mutation |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 12 |
| Total formula weight | 359772.5 | |
| Branched | Number of molecules | 28 |
| Total formula weight | 16909.6 | |
| Non-Polymers* | Number of molecules | 14 |
| Total formula weight | 3096.9 | |
| All* | Total formula weight | 379779.0 |
