8DP1
Cryo-EM structure of HIV-1 Env(BG505.T332N SOSIP) in complex with DH1030.1 Fab
This is a non-PDB format compatible entry.
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, G, K (M, F, O) | DH1030.1 Fab light chain | polymer | 219 | 24050.7 | 3 | Macaca mulatta | ||
| 2 | B, F, J (R, E, N) | DH1030.1 Fab Heavy chain | polymer | 230 | 24947.8 | 3 | Macaca mulatta | ||
| 3 | C, H, L (S, H, Q) | Envelope glycoprotein gp41 | polymer | 153 | 17146.5 | 3 | UniProt (Q2N0S6) Pfam (PF00517) | Human immunodeficiency virus 1 | Env polyprotein |
| 4 | D, E, I (W, B, J) | Envelope glycoprotein gp120 | polymer | 481 | 54021.3 | 3 | UniProt (Q2N0S6) Pfam (PF00516) | Human immunodeficiency virus 1 | |
| 5 | M, R, W (A, K, V) | 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-(1-3)]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 | 1721.5 | 3 | In PDB GlyTouCan (G40702WU) | |||
| 6 | N, O, S, V, X (C, D, L, U, X) | 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) | |||
| 7 | P, Q, T, U, Y... (G, I, P, T, Y...) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 6 | In PDB GlyTouCan (G42666HT) | |||
| 8 | AA (a) | 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) | |||
| 9 | AB, BA, BB, CA, CB... (J, S, W, Q, B...) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 33 | Chemie (NAG) |
Sequence modifications
S, H, Q: 512 - 664 (UniProt: Q2N0S6)
W, B, J: 31 - 508 (UniProt: Q2N0S6)
| PDB | External Database | Details |
|---|---|---|
| Pro 559 | Ile 556 | conflict |
| Cys 605 | Thr 602 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Ala 137 | Asn 136 | engineered mutation |
| Asn 332 | Thr 330 | engineered mutation |
| Cys 501 | Ala 498 | conflict |
| Arg 509 | - | expression tag |
| Arg 510 | - | expression tag |
| Arg 511 | - | expression tag |
| Arg 512 | - | expression tag |
| Arg 513 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 12 |
| Total formula weight | 360498.8 | |
| Branched | Number of molecules | 15 |
| Total formula weight | 11554.5 | |
| Non-Polymers* | Number of molecules | 33 |
| Total formula weight | 7299.9 | |
| All* | Total formula weight | 379353.2 |
