9NW0
Cryo-EM structure of rhesus antibody CH42-Apex1.01 in complex with HIV Env trimer Q23-APEX-GT2
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (H) | CH42-Apex1.01 heavy chain | polymer | 243 | 26402.3 | 1 | Macaca mulatta | ||
| 2 | B (L) | CH42-Apex1.01 kappa chain | polymer | 214 | 23331.8 | 1 | Macaca mulatta | ||
| 3 | C, E, G (b, d, f) | HIV envelope gp120 | polymer | 478 | 53550.6 | 3 | UniProt (O55774) | Human immunodeficiency virus 1 | Env polyprotein |
| 4 | D, F, H (c, e, g) | HIV envelope gp41 ectodomain | polymer | 153 | 17205.7 | 3 | UniProt (O55774) | Human immunodeficiency virus 1 | Env polyprotein |
| 5 | AA, BA, CA, DA, EA... (U, V, W, X, Y...) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 30 | In PDB GlyTouCan (G42666HT) | |||
| 6 | J, JA, OA, P, W (B, j, o, I, Q) | 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 | K, X (C, R) | 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 | 2 | In PDB GlyTouCan (G81315DD) | |||
| 8 | KA, UA (k, u) | 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 | 2 | In PDB GlyTouCan (G22768VO) | |||
| 9 | VA (v) | alpha-D-mannopyranose-(1-6)-alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose | branched | 666.6 | 1 | In PDB | |||
| 10 | AB, BB, CB, DB, EB... (b, c, d, e, f...) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 30 | Chemie (NAG) |
Sequence modifications
b, d, f: 31 - 517 (UniProt: O55774)
c, e, g: 512 - 664 (UniProt: O55774)
| PDB | External Database | Details |
|---|---|---|
| Ala 31 | Val 30 | conflict |
| Glu 49 | Asp 48 | conflict |
| Arg 132 | Thr 131 | conflict |
| Glu 153 | Gly 144 | conflict |
| Thr 158 | Ser 149 | conflict |
| Cys 201 | Ile 193 | conflict |
| Ala 219 | Thr 211 | conflict |
| Tyr 302 | Asn 294 | conflict |
| Met 320 | Thr 310 | conflict |
| Ser 334 | Thr 325 | conflict |
| Cys 433 | Ala 423 | conflict |
| Cys 501 | Ala 491 | conflict |
| Gly 508 | Arg 498 | conflict |
| Gly 509 | Glu 499 | conflict |
| Gly 510 | Lys 500 | conflict |
| Gly 511 | Arg 501 | conflict |
| Ser 512 | Ala 502 | conflict |
| Gly 513 | Val 503 | conflict |
| Gly 515 | Ile 505 | conflict |
| Ser 517 | Ala 507 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Arg 519 | Phe 509 | conflict |
| Arg 520 | Leu 510 | conflict |
| Ala 533 | Thr 523 | conflict |
| Pro 551 | Gln 541 | conflict |
| Pro 559 | Ile 549 | conflict |
| Gly 569 | Thr 559 | conflict |
| Cys 605 | Thr 595 | conflict |
| Gly 636 | Asn 626 | conflict |
| Ala 662 | Glu 652 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 8 |
| Total formula weight | 262003.0 | |
| Branched | Number of molecules | 40 |
| Total formula weight | 19650.3 | |
| Non-Polymers* | Number of molecules | 30 |
| Total formula weight | 6636.2 | |
| All* | Total formula weight | 288289.6 |
