9Q3S
Cryo-EM structure of PGT121 Fab and Rhesus macaque Ab4 Fab in complex with HIV-1 Env trimer BG505 SOSIP.664
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 (B, C, J) | BG505 SOSIP.664 gp41 | polymer | 153 | 17146.5 | 3 | UniProt (Q2N0S5) | Human immunodeficiency virus 1 | |
| 2 | B, H, N (G, A, I) | BG505 SOSIP.664 gp120 | polymer | 481 | 54064.3 | 3 | UniProt (Q2N0S5) | Human immunodeficiency virus 1 | |
| 3 | C, I, O (H, D, K) | Ab 4 Fab heavy chain | polymer | 229 | 24438.2 | 3 | Macaca mulatta (Rhesus macaque) | ||
| 4 | D, J, P (L, E, M) | Ab 4 Fab light chain | polymer | 215 | 22666.2 | 3 | Macaca mulatta (Rhesus macaque) | ||
| 5 | E, K, Q (h, d, k) | PGT121 Fab heavy chain | polymer | 235 | 25169.2 | 3 | Homo sapiens | ||
| 6 | F, L, R (l, e, m) | PGT121 Fab light chain | polymer | 213 | 22869.3 | 3 | Homo sapiens | ||
| 7 | GA, S, UA (b, N, v) | 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 | 3 | In PDB GlyTouCan (G81315DD) | |||
| 8 | HA, T, VA (c, O, w) | 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 | AA, AB, BA, BB, CA... (V, 1, W, 2, X...) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 30 | In PDB GlyTouCan (G42666HT) | |||
| 10 | LA, X, ZA (j, S, 0) | 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) | |||
| 11 | DA, FB, RA (Y, 6, s) | 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) | |||
| 12 | AC, BC, CC, IB, JB... (I, B, G, C, A...) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 21 | Chemie (NAG) PubChem (24139) |
Sequence modifications
B, C, J: 512 - 664 (UniProt: Q2N0S5)
G, A, I: 31 - 511 (UniProt: Q2N0S5)
| PDB | External Database | Details |
|---|---|---|
| Pro 559 | Ile 556 | engineered mutation |
| Cys 605 | Thr 602 | engineered mutation |
| PDB | External Database | Details |
|---|---|---|
| Asn 332 | Thr 330 | engineered mutation |
| Cys 501 | Ala 498 | engineered mutation |
| Arg 509 | Glu 506 | engineered mutation |
| Arg 510 | Lys 507 | engineered mutation |
| Arg 512 | - | insertion |
| Arg 513 | - | insertion |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 18 |
| Total formula weight | 499061.4 | |
| Branched | Number of molecules | 42 |
| Total formula weight | 24634.8 | |
| Non-Polymers* | Number of molecules | 21 |
| Total formula weight | 4645.4 | |
| All* | Total formula weight | 528341.5 |
