8VFV
HIV Env BG505_MD39_B16 SOSIP boosting trimer in complex with B16_d77.5 mouse Fab and RM20A3 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, E, K (G, C, M) | RM20A3 Fab heavy chain | polymer | 125 | 13511.1 | 3 | Macaca mulatta (Rhesus monkey) | ||
| 2 | B, F, L (I, D, N) | RM20A3 Fab light chain | polymer | 128 | 13508.8 | 3 | Macaca mulatta (Rhesus monkey) | ||
| 3 | C, I, M (E, A, J) | Envelope glycoprotein gp120 | polymer | 481 | 54221.7 | 3 | UniProt (Q2N0S6) Pfam (PF00516) | Human immunodeficiency virus 1 | Env polyprotein |
| 4 | D, J, N (F, B, K) | Transmembrane protein gp41 | polymer | 153 | 17134.3 | 3 | UniProt (Q2N0S6) Pfam (PF00517) | Human immunodeficiency virus 1 | TM, Glycoprotein 41, gp41 |
| 5 | G (H) | B16_d77.5 mouse Fab heavy chain Fv | polymer | 130 | 13972.7 | 1 | Mus musculus (mouse) | ||
| 6 | H (L) | B16_d77.5 mouse Fab light chain Fv | polymer | 111 | 12012.3 | 1 | Mus musculus (mouse) | ||
| 7 | O, R, U (O, R, U) | 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 | 3 | In PDB GlyTouCan (G56014GC) | |||
| 8 | P, S, V (P, S, 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) | |||
| 9 | Q, T, W (Q, T, W) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 3 | In PDB GlyTouCan (G42666HT) | |||
| 10 | AA, AB, BA, BB, CA... (E, J, K, F, A...) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 36 | Chemie (NAG) |
Sequence modifications
E, A, J: 31 - 513 (UniProt: Q2N0S6)
F, B, K: 512 - 664 (UniProt: Q2N0S6)
| PDB | External Database | Details |
|---|---|---|
| Glu 106 | Thr 105 | conflict |
| Tyr 134 | Val 133 | conflict |
| Glu 136 | Asn 135 | conflict |
| Lys 137 | Asn 136 | conflict |
| Leu 138 | Ile 137 | conflict |
| Arg 139 | Thr 138 | conflict |
| Ser 140 | Asp 139 | conflict |
| Met 141 | Asp 140 | conflict |
| Lys 151 | Arg 142 | conflict |
| Ile 271 | Met 270 | conflict |
| Leu 288 | Phe 287 | conflict |
| Val 304 | Arg 303 | conflict |
| Tyr 319 | Ala 316 | conflict |
| His 325 | Asp 323 | conflict |
| Asn 332 | Thr 330 | conflict |
| Gln 363 | Asn 361 | conflict |
| Cys 501 | Ala 498 | conflict |
| Arg 509 | Glu 506 | conflict |
| Arg 510 | Lys 507 | conflict |
| Arg 512 | Ala 509 | conflict |
| Arg 513 | Val 510 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Ser 519 | Phe 516 | conflict |
| Pro 559 | Ile 556 | conflict |
| Pro 561 | Ala 558 | conflict |
| Asp 568 | Leu 565 | conflict |
| His 570 | Val 567 | conflict |
| His 585 | Arg 582 | conflict |
| Cys 605 | Thr 602 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 14 |
| Total formula weight | 321112.7 | |
| Branched | Number of molecules | 9 |
| Total formula weight | 6738.1 | |
| Non-Polymers* | Number of molecules | 36 |
| Total formula weight | 7963.5 | |
| All* | Total formula weight | 335814.3 |
