5WDU
HIV-1 Env BG505 SOSIP.664 H72C-H564C trimer in complex with bNAbs PGT122 Fab, 35O22 Fab and NIH45-46 scFv
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, C, E (G, F, Q) | Envelope glycoprotein gp160 | polymer | 471 | 52756.7 | 3 | UniProt (Q2N0S6) Pfam (PF00516) | Human immunodeficiency virus 1 | Env polyprotein |
| 2 | B, D, F (D, O, W) | bnAb NIH45-46 scFv | polymer | 250 | 27420.5 | 3 | Homo sapiens (Human) | ||
| 3 | G, L, Q (A, J, R) | Envelope glycoprotein gp160 | polymer | 147 | 16694.0 | 3 | UniProt (Q2N0S8) Pfam (PF00517) UniProt (by SIFTS) (Q2N0S6) | Human immunodeficiency virus 1 | Env polyprotein |
| 4 | H, M, R (B, K, S) | bnAb PGT122 Fab light chain | polymer | 210 | 22560.9 | 3 | Homo sapiens | ||
| 5 | I, N, S (C, L, T) | bnAb PGT122 Fab heavy chain | polymer | 232 | 25115.3 | 3 | Homo sapiens | ||
| 6 | J, O, T (H, M, U) | bnAb 35O22 Fab heavy chain | polymer | 242 | 26042.4 | 3 | Homo sapiens | ||
| 7 | K, P, U (I, N, V) | bnAb 35O22 Fab light chain | polymer | 213 | 23000.5 | 3 | Homo sapiens | ||
| 8 | CA, EA, GA, LA, NA... (c, e, g, l, n...) | 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 | 9 | In PDB GlyTouCan (G22768VO) | |||
| 9 | FA, OA, W (f, o, P) | 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) | |||
| 10 | HA, QA, Y (h, q, Y) | 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) | |||
| 11 | IA, RA, Z (i, r, Z) | alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]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 | 1235.1 | 3 | In PDB GlyTouCan (G55220VL) | |||
| 12 | AA, JA, SA (a, j, s) | 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) | |||
| 13 | BA, KA, TA (b, k, t) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 3 | In PDB GlyTouCan (G42666HT) | |||
| 14 | DA, MA, VA (d, m, v) | 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 | 1397.2 | 3 | In PDB GlyTouCan (G80966KZ) | |||
| 15 | AB, AC, BB, BC, CB... (G, R, F, Q, A...) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 33 | Chemie (NAG) |
Sequence modifications
G, F, Q: 32 - 504 (UniProt: Q2N0S6)
A, J, R: 518 - 664 (UniProt: Q2N0S8)
| PDB | External Database | Details |
|---|---|---|
| Cys 72 | His 71 | conflict |
| Asn 332 | Thr 330 | conflict |
| Ala 460 | Ser 457 | conflict |
| Asn 461 | Thr 458 | conflict |
| Thr 463 | Ser 460 | conflict |
| Ser 464 | Thr 461 | conflict |
| Cys 501 | Ala 498 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Cys 605 | Thr 604 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 21 |
| Total formula weight | 580770.8 | |
| Branched | Number of molecules | 27 |
| Total formula weight | 24592.2 | |
| Non-Polymers* | Number of molecules | 33 |
| Total formula weight | 7299.9 | |
| All* | Total formula weight | 612662.8 |
