9Q09
Cryo-EM structure of PGT121 Fab and Rhesus macaque Ab76 Fab in complex with HIV-1 Env trimer BG505 SOSIP.664
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, F, H (A, G, I) | BG505 SOSIP.664 gp120 | polymer | 481 | 54064.3 | 3 | UniProt (Q2N0S5) | Human immunodeficiency virus 1 | |
| 2 | B, C, I (B, C, J) | BG505 SOSIP.664 gp41 | polymer | 153 | 17146.5 | 3 | UniProt (Q2N0S5) | Human immunodeficiency virus 1 | |
| 3 | D, G, J (D, H, K) | Ab76 Fab heavy chain | polymer | 230 | 24511.4 | 3 | Macaca mulatta | ||
| 4 | E, K, L (E, L, M) | Ab76 Fab light chain | polymer | 222 | 23473.0 | 3 | Macaca mulatta | ||
| 5 | M, O, Q (h, d, k) | PGT121 Fab heavy chain | polymer | 235 | 25169.2 | 3 | Homo sapiens | ||
| 6 | N, P, R (l, e, m) | PGT121 Fab light chain | polymer | 213 | 22869.3 | 3 | Homo sapiens | ||
| 7 | AB, BB, CB, DB, EB... (0, 1, 2, 3, 4...) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 26 | In PDB GlyTouCan (G42666HT) | |||
| 8 | AA, DA, FA, T, U... (Z, U, W, N, O...) | 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 | 6 | In PDB GlyTouCan (G81315DD) | |||
| 9 | BA, CA, V, X (S, T, P, R) | 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 | 4 | In PDB GlyTouCan (G56014GC) | |||
| 10 | IA, RA, Y (u, w, 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) | |||
| 11 | GA, JA, Z (s, y, Y) | alpha-D-mannopyranose-(1-3)-alpha-D-mannopyranose-(1-6)-[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 | 1073.0 | 3 | In PDB GlyTouCan (G09724ZC) | |||
| 12 | EA (V) | 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) | |||
| 13 | HA (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 | 1 | In PDB GlyTouCan (G22768VO) | |||
| 14 | AC, KB, LB, MB, NB... (I, A, B, C, G) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 17 | Chemie (NAG) PubChem (24139) |
Sequence modifications
A, G, I: 31 - 511 (UniProt: Q2N0S5)
B, C, J: 512 - 664 (UniProt: Q2N0S5)
| PDB | External Database | Details |
|---|---|---|
| Asn 332 | Thr 330 | conflict |
| Cys 501 | Ala 498 | conflict |
| Arg 509 | Glu 506 | engineered mutation |
| Arg 510 | Lys 507 | engineered mutation |
| Arg 512 | - | insertion |
| Arg 513 | - | insertion |
| PDB | External Database | Details |
|---|---|---|
| Pro 559 | Ile 556 | conflict |
| Cys 605 | Thr 602 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 18 |
| Total formula weight | 501701.1 | |
| Branched | Number of molecules | 44 |
| Total formula weight | 29537.1 | |
| Non-Polymers* | Number of molecules | 17 |
| Total formula weight | 3760.5 | |
| All* | Total formula weight | 534998.7 |
