9BF6
Cryo-EM structure of the HIV-1 WITO IDL Env trimer in complex with PGT122 Fab
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, E, I (A, B, I) | Envelope glycoprotein gp41 | polymer | 153 | 17381.8 | 3 | UniProt (Q5G5U5) Pfam (PF00517) | Human immunodeficiency virus 1 (HIV-1) | |
| 2 | B, F, J (C, F, J) | Envelope glycoprotein gp120 | polymer | 480 | 53827.1 | 3 | UniProt (Q5G5U5) Pfam (PF00516) | Human immunodeficiency virus 1 (HIV-1) | Env polyprotein |
| 3 | C, G, K (D, G, K) | PGT122 heavy chain | polymer | 132 | 14838.7 | 3 | Homo sapiens (human) | ||
| 4 | D, H, L (E, H, L) | PGT122 light chain | polymer | 105 | 11423.5 | 3 | Homo sapiens (human) | ||
| 5 | AA, CA, EA, GA, M... (a, c, e, g, M...) | beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 586.5 | 12 | In PDB GlyTouCan (G15407YE) | |||
| 6 | BA, DA, N, P, U... (b, d, N, P, U...) | 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 | 6 | In PDB GlyTouCan (G56014GC) | |||
| 7 | FA, R, Y (f, R, Y) | 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 | AB, AC, BB, CB, DB... (F, J, A, C, I...) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 45 | Chemie (NAG) | |||
| 9 | LB (F) | PHOSPHATE ION | non-polymer | 95.0 | 1 | Chemie (PO4) |
Sequence modifications
A, B, I: 512 - 664 (UniProt: Q5G5U5)
C, F, J: 31 - 508 (UniProt: Q5G5U5)
| PDB | External Database | Details |
|---|---|---|
| Pro 559 | Ile 552 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Cys 113 | Asp 112 | conflict |
| Ser 190 | Gly 189 | conflict |
| Unk 356 | - | insertion |
| Gly 432 | - | insertion |
| Cys 432 | - | insertion |
| Gly 432 | Lys 425 | conflict |
| Arg 509 | - | expression tag |
| Arg 510 | - | expression tag |
| Arg 511 | - | expression tag |
| Arg 512 | - | expression tag |
| Arg 513 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 12 |
| Total formula weight | 292413.5 | |
| Branched | Number of molecules | 21 |
| Total formula weight | 15722.3 | |
| Non-Polymers* | Number of molecules | 46 |
| Total formula weight | 10049.3 | |
| All* | Total formula weight | 318185.2 |
