9YQO
AMC008 v4.2 SOSIP Env trimer in complex with PGT121 and VRC01 Fabs
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 | A, G, M (M, C, I) | VRC01 Fab heavy chain | polymer | 224 | 24395.7 | 3 | Homo sapiens (human) | ||
| 2 | B, H, N (N, D, J) | VRC01 Fab light chain | polymer | 210 | 23172.7 | 3 | Homo sapiens (human) | ||
| 3 | C, I, O (Q, E, K) | PGT121 Fab light chain | polymer | 211 | 22574.9 | 3 | Homo sapiens (human) | ||
| 4 | D, J, P (R, F, L) | PGT121 Fab heavy chain | polymer | 235 | 25169.2 | 3 | Homo sapiens (human) | ||
| 5 | E, K, Q (A, G, O) | HIV-1 envelope glycoprotein gp120 | polymer | 488 | 55212.5 | 3 | Human immunodeficiency virus 1 | ||
| 6 | F, L, R (B, H, P) | Envelope glycoprotein gp41 | polymer | 154 | 17428.8 | 3 | UniProt (Q1AII4) | Human immunodeficiency virus 1 | |
| 7 | AA, AB, BA, CB, DA... (a, 0, b, 2, d...) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 33 | In PDB GlyTouCan (G42666HT) | |||
| 8 | KA, V, ZA (k, V, 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 | 3 | In PDB GlyTouCan (G56014GC) | |||
| 9 | BB, MA, X (1, m, X) | 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) | |||
| 10 | CA, GB, RA (c, 6, 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) | |||
| 11 | FA, JB, UA (f, 9, u) | 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 | 1073.0 | 3 | In PDB GlyTouCan (G94106MV) | |||
| 12 | AC, BC, CC, LB, MB... (O, P, A, B, G...) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 18 | Chemie (NAG) |
Sequence modifications
B, H, P: 511 - 664 (UniProt: Q1AII4)
| PDB | External Database | Details |
|---|---|---|
| Thr 514 | Ala 4 | conflict |
| Asn 543 | Gln 33 | conflict |
| Pro 559 | Ile 49 | conflict |
| Cys 605 | Thr 95 | conflict |
| Ser 607 | Ala 97 | conflict |
| Thr 612 | Ala 102 | conflict |
| Leu 646 | Ile 136 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 18 |
| Total formula weight | 503861.7 | |
| Branched | Number of molecules | 45 |
| Total formula weight | 26880.8 | |
| Non-Polymers* | Number of molecules | 18 |
| Total formula weight | 3981.7 | |
| All* | Total formula weight | 534724.2 |
