5CEZ
Crystal Structure of the BG505 SOSIP gp140 HIV-1 Env trimer in Complex with an early putative precursor of the PGT121 family at 3.0 Angstrom
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (G) | Envelope glycoprotein gp160 | polymer | 480 | 53950.2 | 1 | UniProt (Q2N0S6) Pfam (PF00516) | Human immunodeficiency virus 1 | Endogenous retrovirus group K member 113 Env polyprotein,Endogenous retrovirus group K member 13-1 Env polyprotein,Endogenous retrovirus group K member 18 Env polyprotein,Endogenous retrovirus group K member 19 Env polyprotein,Endogenous retrovirus group K member 21 Env polyprotein,Endogenous retrovirus group K member 24 Env polyprotein,Endogenous retrovirus group K member 25 Env polyprotein,Endogenous retrovirus group K member 6 Env polyprotein,Endogenous retrovirus group K member 7 Env polyprotein,Endogenous retrovirus group K member 8 Env polyprotein,Endogenous retrovirus group K member 9 Env polyprotein,Envelope glycoprotein gp160 |
| 2 | B (B) | Envelope glycoprotein gp160 | polymer | 153 | 17146.5 | 1 | UniProt (Q2N0S6) Pfam (PF00517) | Human immunodeficiency virus 1 | Endogenous retrovirus group K member 113 Env polyprotein,Endogenous retrovirus group K member 13-1 Env polyprotein,Endogenous retrovirus group K member 18 Env polyprotein,Endogenous retrovirus group K member 19 Env polyprotein,Endogenous retrovirus group K member 21 Env polyprotein,Endogenous retrovirus group K member 24 Env polyprotein,Endogenous retrovirus group K member 25 Env polyprotein,Endogenous retrovirus group K member 6 Env polyprotein,Endogenous retrovirus group K member 7 Env polyprotein,Endogenous retrovirus group K member 8 Env polyprotein,Endogenous retrovirus group K member 9 Env polyprotein,Envelope glycoprotein gp160 |
| 3 | C (L) | 3H+109L Fab Light Chain | polymer | 218 | 23427.0 | 1 | Homo sapiens | ||
| 4 | D (H) | 3H+109L Fab Heavy Chain | polymer | 236 | 25339.4 | 1 | Homo sapiens | ||
| 5 | E (D) | 35022 Fab Heavy Chain | polymer | 240 | 25783.1 | 1 | Homo sapiens | ||
| 6 | F (E) | 35022 Fab Light Chain | polymer | 216 | 23318.8 | 1 | Homo sapiens | ||
| 7 | G (A) | alpha-D-mannopyranose-(1-2)-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 | 1235.1 | 1 | In PDB GlyTouCan (G46836GH) | |||
| 8 | H, I, J, K, L... (C, F, I, J, K...) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 6 | In PDB GlyTouCan (G42666HT) | |||
| 9 | N (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 | 1 | In PDB GlyTouCan (G22768VO) | |||
| 10 | O (O) | 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) | |||
| 11 | P (P) | alpha-D-mannopyranose-(1-3)-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 | 1073.0 | 1 | In PDB GlyTouCan (G09724ZC) | |||
| 12 | Q (Q) | alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-2)-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 (G04414GO) | |||
| 13 | R, S, T, U, V... (G, B) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 6 | Chemie (NAG) | |||
| 14 | X, Y (H, D) | alpha-D-mannopyranose | non-polymer | 180.2 | 2 | Chemie (MAN) |
Sequence modifications
G: 32 - 511 (UniProt: Q2N0S6)
B: 512 - 664 (UniProt: Q2N0S6)
| PDB | External Database | Details |
|---|---|---|
| Ala 137 | Asn 136 | engineered mutation |
| Asn 332 | Thr 330 | engineered mutation |
| Cys 501 | Ala 498 | engineered mutation |
| Arg 509 | Glu 506 | insertion |
| Arg 510 | Lys 507 | insertion |
| Arg 512 | - | insertion |
| Arg 513 | - | insertion |
| 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 | 6 |
| Total formula weight | 168964.9 | |
| Branched | Number of molecules | 11 |
| Total formula weight | 8073.4 | |
| Non-Polymers* | Number of molecules | 8 |
| Total formula weight | 1687.6 | |
| All* | Total formula weight | 178725.9 |
