6OSY
Cryo-EM structure of vaccine-elicited antibody 0PV-a.01 in complex with HIV-1 Env BG505 DS-SOSIP and antibodies VRC03 and PGT122
This is a non-PDB format compatible entry.
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | 2, B, K | BG505 gp120 | polymer | 480 | 53987.2 | 3 | UniProt (Q2N0S6) Pfam (PF00516) In PDB | Human immunodeficiency virus 1 | Env polyprotein |
| 2 | 5, C, M | PGT122 Heavy | polymer | 235 | 25434.7 | 3 | Homo sapiens | ||
| 3 | 6, D, N | PGT122 Light | polymer | 213 | 22880.3 | 3 | Homo sapiens | ||
| 4 | 7, E, O | VRC03 Light | polymer | 209 | 23146.8 | 3 | Homo sapiens | ||
| 5 | 8, F, P | VRC03 Heavy | polymer | 233 | 25248.4 | 3 | Homo sapiens | ||
| 6 | A, G, Q | BG505 gp41 | polymer | 153 | 17146.5 | 3 | Pfam (PF00517) UniProt (by SIFTS) (Q2N0S6) In PDB | Human immunodeficiency virus 1 | |
| 7 | H, I, R | 0PV-a.01 Heavy | polymer | 235 | 25411.5 | 3 | Homo sapiens | ||
| 8 | J, L, S | 0PV-a.01 Light | polymer | 213 | 23409.8 | 3 | Homo sapiens | ||
| 9 | V, y, z, 1, i... | 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 | 9 | In PDB GlyTouCan (G81315DD) | |||
| 10 | v, x, Z, 0, b... | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 18 | In PDB GlyTouCan (G42666HT) | |||
| 11 | W, 3, e, FA, m... | 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 | 6 | In PDB GlyTouCan (G22768VO) | |||
| 12 | X, d, 4, EA, n... | 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) | |||
| 13 | Y, 9, o | 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 | 3 | In PDB GlyTouCan (G22573RC) | |||
| 14 | a, BA, q | 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) | |||
| 15 | w, g, HA | alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]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 | 1559.4 | 3 | In PDB GlyTouCan (G68668TB) | |||
| 16 | K, Q, 2, A, B... | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 9 | Chemie (NAG) |
Sequence modifications
2, B, K: 31 - 511 (UniProt: Q2N0S6)
| PDB | External Database | Details |
|---|---|---|
| Cys 201 | Ile 200 | conflict |
| Asn 332 | Thr 330 | conflict |
| Cys 433 | Ala 430 | conflict |
| Cys 501 | Ala 498 | conflict |
| Gly 506 | Val 503 | conflict |
| Arg 507 | Gly 504 | conflict |
| Arg 509 | Glu 506 | conflict |
| Arg 510 | Lys 507 | conflict |
| Arg 512 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 24 |
| Total formula weight | 649995.6 | |
| Branched | Number of molecules | 48 |
| Total formula weight | 33504.6 | |
| Non-Polymers* | Number of molecules | 9 |
| Total formula weight | 1990.9 | |
| All* | Total formula weight | 685491.1 |
