8ULU
Cryo-EM structure of the BG505 SOSIPv2 in complex with bNAb 04_A06 and PGDM1400 Fabs
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 (A, C, E) | Envelope glycoprotein gp120 | polymer | 479 | 53864.1 | 3 | UniProt (Q2N0S6) | Human immunodeficiency virus 1 | Env polyprotein |
| 2 | B, D, F (B, D, F) | Envelope glycoprotein gp41 | polymer | 153 | 17146.5 | 3 | UniProt (Q2N0S5) UniProt (by SIFTS) (D0PUM0) | Human immunodeficiency virus 1 | |
| 3 | G (G) | PGDM1400 Fab Light Chain | polymer | 219 | 24093.7 | 1 | Homo sapiens | ||
| 4 | H, I, J (H, I, J) | 04_A06 Fab Heavy Chain | polymer | 245 | 26690.9 | 3 | Homo sapiens | ||
| 5 | K (K) | PGDM1400 Fab Heavy Chain | polymer | 253 | 27526.8 | 1 | Homo sapiens | ||
| 6 | L, M, N (L, M, N) | 04_A06 Fab Light Chain | polymer | 211 | 23142.6 | 3 | Homo sapiens | ||
| 7 | AA, CA, DA, EA, FA... (a, c, d, e, f...) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 24 | In PDB GlyTouCan (G42666HT) | |||
| 8 | HA, KA, LA, NA, P (h, k, l, n, 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 | 5 | In PDB GlyTouCan (G15407YE) | |||
| 9 | JA, Q, T (j, Q, 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 | 3 | In PDB GlyTouCan (G22768VO) | |||
| 10 | BA (b) | 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 | 1 | In PDB GlyTouCan (G55220VL) | |||
| 11 | MA (m) | 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 | 1 | In PDB GlyTouCan (G56014GC) | |||
| 12 | PA (p) | 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 | 1 | In PDB GlyTouCan (G81315DD) | |||
| 13 | AB, BB, CB, DB, XA... (C, E, A) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 7 | Chemie (NAG) |
Sequence modifications
A, C, E: 33 - 504 (UniProt: Q2N0S6)
B, D, F: 512 - 664 (UniProt: Q2N0S5)
| PDB | External Database | Details |
|---|---|---|
| Asn 332 | Thr 330 | conflict |
| Cys 501 | Ala 498 | conflict |
| Val 505 | - | expression tag |
| Val 506 | - | expression tag |
| Gly 507 | - | expression tag |
| Arg 508 | - | expression tag |
| Arg 509 | - | expression tag |
| Arg 510 | - | expression tag |
| Arg 511 | - | expression tag |
| Arg 512 | - | expression tag |
| Arg 513 | - | expression tag |
| PDB | External Database | Details |
|---|---|---|
| Pro 559 | Ile 556 | engineered mutation |
| Cys 605 | Thr 602 | engineered mutation |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 14 |
| Total formula weight | 414152.8 | |
| Branched | Number of molecules | 35 |
| Total formula weight | 18907.6 | |
| Non-Polymers* | Number of molecules | 7 |
| Total formula weight | 1548.5 | |
| All* | Total formula weight | 434608.8 |
