7MDT
BG505 SOSIP.v5.2 in complex with the monoclonal antibody Rh4O9.8 (as Fab fragment)
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, E, F (A, C, E) | Surface protein gp120 | polymer | 513 | 57775.9 | 3 | UniProt (Q2N0S6) Pfam (PF00516) | Human immunodeficiency virus 1 | SU, Glycoprotein 120, gp120 |
| 2 | B, G, H (B, D, F) | Transmembrane protein gp41 | polymer | 153 | 17178.5 | 3 | UniProt (Q2N0S6) Pfam (PF00517) | Human immunodeficiency virus 1 | TM, Glycoprotein 41, gp41 |
| 3 | C (L) | Rh4O9.8 monoclonal antibody Light Chain | polymer | 110 | 11339.3 | 1 | Macaca mulatta | ||
| 4 | D (H) | Rh4O9.8 monoclonal antibody Heavy Chain | polymer | 117 | 12736.1 | 1 | Macaca mulatta | ||
| 5 | BA, I, J, L, M... (b, G, I, K, M...) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 16 | In PDB GlyTouCan (G42666HT) | |||
| 6 | K (J) | beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 586.5 | 1 | In PDB GlyTouCan (G15407YE) | |||
| 7 | AA, P, V (a, P, V) | 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) | |||
| 8 | AB, BB, CA, CB, DA... (E, A, C) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 31 | Chemie (NAG) |
Sequence modifications
A, C, E: 31 - 511 (UniProt: Q2N0S6)
B, D, F: 512 - 664 (UniProt: Q2N0S6)
| PDB | External Database | Details |
|---|---|---|
| Met -1 | - | initiating methionine |
| Lys 0 | - | expression tag |
| Arg 1 | - | expression tag |
| Gly 2 | - | expression tag |
| Leu 3 | - | expression tag |
| Cys 4 | - | expression tag |
| Cys 5 | - | expression tag |
| Val 6 | - | expression tag |
| Leu 7 | - | expression tag |
| Leu 8 | - | expression tag |
| Leu 9 | - | expression tag |
| Cys 10 | - | expression tag |
| Gly 11 | - | expression tag |
| Ala 12 | - | expression tag |
| Val 13 | - | expression tag |
| Phe 14 | - | expression tag |
| Val 15 | - | expression tag |
| Ser 16 | - | expression tag |
| Pro 17 | - | expression tag |
| Ser 18 | - | expression tag |
| Gln 19 | - | expression tag |
| Glu 20 | - | expression tag |
| Ile 21 | - | expression tag |
| His 22 | - | expression tag |
| Ala 23 | - | expression tag |
| Arg 24 | - | expression tag |
| Phe 25 | - | expression tag |
| Arg 26 | - | expression tag |
| Arg 27 | - | expression tag |
| Gly 28 | - | expression tag |
| Ala 29 | - | expression tag |
| Arg 30 | - | expression tag |
| Lys 64 | Glu 63 | conflict |
| Cys 73 | Ala 72 | conflict |
| Trp 316 | Ala 313 | conflict |
| Asn 332 | Thr 330 | conflict |
| Cys 501 | Ala 498 | conflict |
| Arg 509 | Glu 506 | conflict |
| Arg 510 | Lys 507 | conflict |
| Arg 512 | - | expression tag |
| Arg 513 | - | expression tag |
| PDB | External Database | Details |
|---|---|---|
| Pro 559 | Ile 556 | conflict |
| Cys 561 | Ala 558 | conflict |
| Cys 605 | Thr 602 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 8 |
| Total formula weight | 248938.7 | |
| Branched | Number of molecules | 20 |
| Total formula weight | 9623.0 | |
| Non-Polymers* | Number of molecules | 31 |
| Total formula weight | 6857.4 | |
| All* | Total formula weight | 265419.1 |
