6DE7
Crystal Structure at 4.3 A Resolution of Glycosylated HIV-1 Clade A BG505 SOSIP.664 Prefusion Env Trimer with Interdomain Stabilization 113C-429GCG in Complex with Broadly Neutralizing Antibodies PGT122 and 35O22
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (B) | Envelope glycoprotein gp160 | polymer | 153 | 17146.5 | 1 | UniProt (Q2N0S7) Pfam (PF00517) UniProt (by SIFTS) (P04578) | Human immunodeficiency virus 1 | Env polyprotein |
| 2 | B (D) | 35O22 heavy chain | polymer | 243 | 26170.5 | 1 | Pfam (PF07654) UniProt (by SIFTS) (P01857) | Homo sapiens (human) | |
| 3 | C (E) | 35O22 light chain | polymer | 216 | 23318.8 | 1 | Homo sapiens (human) | ||
| 4 | D (G) | Envelope glycoprotein gp160 | polymer | 483 | 54112.4 | 1 | UniProt (Q2N0S6) Pfam (PF00516) | Human immunodeficiency virus 1 | Env polyprotein |
| 5 | E (H) | PGT122 Heavy chain | polymer | 235 | 25434.7 | 1 | Pfam (PF07654) UniProt (by SIFTS) (P01857) | Homo sapiens (Human) | |
| 6 | F (L) | PGT122 Light Chain | polymer | 213 | 22880.3 | 1 | Pfam (PF07654) UniProt (by SIFTS) (P0DOY2) | Homo sapiens (human) | |
| 7 | G, O (A, O) | beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 586.5 | 2 | In PDB GlyTouCan (G15407YE) | |||
| 8 | H (C) | 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) | |||
| 9 | I (F) | 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) | |||
| 10 | J, L, M, N, Q... (I, K, M, N, Q...) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 8 | In PDB GlyTouCan (G42666HT) | |||
| 11 | K (J) | 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 | P (P) | 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) | |||
| 13 | U (U) | 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 | 1 | In PDB GlyTouCan (G68668TB) | |||
| 14 | AA, V, W, X, Y... (G, B) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 6 | Chemie (NAG) | |||
| 15 | BA (G) | SULFATE ION | non-polymer | 96.1 | 1 | Chemie (SO4) |
Sequence modifications
B: 512 - 664 (UniProt: Q2N0S7)
G: 31 - 513 (UniProt: Q2N0S6)
| PDB | External Database | Details |
|---|---|---|
| Pro 559 | Ile 556 | engineered mutation |
| Cys 605 | Thr 602 | engineered mutation |
| PDB | External Database | Details |
|---|---|---|
| Cys 113 | Asp 112 | engineered mutation |
| Asn 332 | Thr 330 | engineered mutation |
| Gly 429 | - | insertion |
| Cys 429 | - | insertion |
| Gly 429 | Arg 426 | engineered mutation |
| Cys 501 | Ala 498 | engineered mutation |
| Arg 509 | Glu 506 | engineered mutation |
| Arg 510 | Lys 507 | engineered mutation |
| Arg 512 | Ala 509 | engineered mutation |
| Arg 513 | Val 510 | engineered mutation |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 6 |
| Total formula weight | 169063.2 | |
| Branched | Number of molecules | 15 |
| Total formula weight | 10095.3 | |
| Non-Polymers* | Number of molecules | 7 |
| Total formula weight | 1423.3 | |
| All* | Total formula weight | 180581.7 |
