6V8Z
VRC03 and 10-1074 Bound BG505 F14 HIV-1 SOSIP Envelope Trimer Structure
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 (A, G, M) | Envelope glycoprotein gp120 | polymer | 472 | 52955.3 | 3 | UniProt (Q2N0S6) Pfam (PF00516) | Human immunodeficiency virus 1 (HIV-1) | |
| 2 | B, H, N (B, H, N) | envelope glycoprotein gp41 | polymer | 147 | 16677.9 | 3 | UniProt (Q2N0S7) Pfam (PF00517) | Human immunodeficiency virus 1 (HIV-1) | |
| 3 | C, I, O (D, J, P) | 10-1074 Fab Heavy Chain | polymer | 235 | 25316.3 | 3 | UniProt (Q6N089) Pfam (PF07686) Pfam (PF07654) | Homo sapiens (Human) | |
| 4 | D, J, P (E, K, Q) | 10-1074 Fab Light Chain | polymer | 211 | 22843.4 | 3 | UniProt (Q8N5F4) Pfam (PF07686) Pfam (PF07654) | Homo sapiens (Human) | |
| 5 | E, K, Q (C, I, O) | VRC03 Fab Heavy Chain | polymer | 231 | 25104.3 | 3 | UniProt (P0DOX5) Pfam (PF07686) Pfam (PF07654) | Homo sapiens (Human) | |
| 6 | F, L, R (F, L, R) | VRC03 Fab Light Chain | polymer | 208 | 23043.7 | 3 | UniProt (Q6P5S8) Pfam (PF07686) Pfam (PF07654) | Homo sapiens (Human) | |
| 7 | AB, BA, BB, CA, DA... (0, b, 1, c, d...) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 27 | In PDB GlyTouCan (G42666HT) | |||
| 8 | FA, RA, T (f, r, T) | 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 | LA, XA, Z (l, x, Z) | alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-2)-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 (G81980VO) | |||
| 10 | AA, MA, YA (a, m, 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) | |||
| 11 | CB, DB, EB, FB, GB... (A, B, G, H, M...) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 21 | Chemie (NAG) |
Sequence modifications
A, G, M: 32 - 505 (UniProt: Q2N0S6)
B, H, N: 506 - 664 (UniProt: Q2N0S7)
D, J, P: 1 - 108 (PDB: 6V8Z)
D, J, P: 109 - 211 (UniProt: Q6N089)
E, K, Q: 5 - 103 (PDB: 6V8Z)
E, K, Q: 104 - 212 (UniProt: Q8N5F4)
C, I, O: 1 - 110 (PDB: 6V8Z)
C, I, O: 111 - 210 (UniProt: P0DOX5)
F, L, R: 1 - 107 (PDB: 6V8Z)
F, L, R: 108 - 213 (UniProt: Q6P5S8)
| PDB | External Database | Details |
|---|---|---|
| Ile 68 | Val 67 | conflict |
| Ala 142 | Asn 136 | conflict |
| Met 203 | Gln 202 | conflict |
| Val 204 | Ala 203 | conflict |
| Leu 208 | Val 207 | conflict |
| Leu 255 | Val 254 | conflict |
| Leu 300 | Asn 299 | conflict |
| Leu 302 | Asn 301 | conflict |
| Met 320 | Thr 317 | conflict |
| Asn 332 | Thr 330 | conflict |
| Met 422 | Gln 419 | conflict |
| Cys 501 | Ala 498 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Pro 559 | Ile 556 | conflict |
| Cys 605 | Thr 602 | conflict |
D, J, P: 109 - 211 (UniProt: Q6N089)
E, K, Q: 5 - 103 (PDB: 6V8Z)
E, K, Q: 104 - 212 (UniProt: Q8N5F4)
C, I, O: 1 - 110 (PDB: 6V8Z)
C, I, O: 111 - 210 (UniProt: P0DOX5)
F, L, R: 1 - 107 (PDB: 6V8Z)
F, L, R: 108 - 213 (UniProt: Q6P5S8)
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 18 |
| Total formula weight | 497822.8 | |
| Branched | Number of molecules | 36 |
| Total formula weight | 19656.2 | |
| Non-Polymers* | Number of molecules | 21 |
| Total formula weight | 4645.4 | |
| All* | Total formula weight | 522124.4 |
