7UGP
Cryo-EM structure of BG24 Fabs with an inferred germline light chain and 10-1074 Fabs in complex with HIV-1 Env immunogen BG505-SOSIPv4.1-GT1 containing the N276 gp120 glycan- Class 1
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, B, C (A, B, C) | Envelope glycoprotein gp120 | polymer | 443 | 49860.9 | 3 | UniProt (Q2N0S5) Pfam (PF00516) | Human immunodeficiency virus 1 | Env polyprotein |
| 2 | D, E, F (D, E, F) | Envelope glycoprotein gp41 | polymer | 128 | 14577.6 | 3 | Pfam (PF00517) UniProt (by SIFTS) (Q2N0S5) | Human immunodeficiency virus 1 | |
| 3 | G, H, I (M, N, O) | 10-1074 Fab heavy chain | polymer | 133 | 14791.4 | 3 | Homo sapiens | ||
| 4 | J, K, L (G, H, I) | BG24 mature Fab heavy chain | polymer | 120 | 13384.0 | 3 | Homo sapiens | ||
| 5 | M, N, O (P, Q, R) | 10-1074 Fab light chain | polymer | 107 | 11701.0 | 3 | Homo sapiens | ||
| 6 | P, Q, R (J, K, L) | BG24 mature Fab light chain | polymer | 105 | 11084.1 | 3 | Homo sapiens | ||
| 7 | S, V, Z (S, V, Z) | alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-4)-[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 | |||
| 8 | AA, T, W (a, 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) | |||
| 9 | U, X, Y (U, X, Y) | beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 586.5 | 3 | In PDB GlyTouCan (G15407YE) | |||
| 10 | AB, BA, BB, CA, CB... (C, A, D, E, F...) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 33 | Chemie (NAG) |
Sequence modifications
A, B, C: 32 - 506 (UniProt: Q2N0S5)
| PDB | External Database | Details |
|---|---|---|
| - | Ala 57 | deletion |
| - | Lys 58 | deletion |
| - | Ala 59 | deletion |
| - | Tyr 60 | deletion |
| - | Glu 61 | deletion |
| - | Thr 62 | deletion |
| Lys 64 | Glu 63 | conflict |
| - | Thr 138 | deletion |
| - | Asp 139 | deletion |
| - | Asp 140 | deletion |
| - | Met 141 | deletion |
| - | Arg 142 | deletion |
| Arg 169 | Lys 160 | conflict |
| His 173 | Tyr 164 | conflict |
| Ala 174 | Ser 165 | conflict |
| Lys 178 | Arg 169 | conflict |
| Ile 181 | Val 172 | conflict |
| Pro 183 | Gln 174 | conflict |
| - | Gly 180 | deletion |
| - | Asn 181 | deletion |
| - | Arg 182 | deletion |
| - | Ser 183 | deletion |
| - | Asn 184 | deletion |
| - | Asn 185 | deletion |
| - | Ser 186 | deletion |
| Thr 189 | Lys 188 | conflict |
| Ser 190 | Glu 189 | conflict |
| Ala 199 | Ser 198 | conflict |
| Trp 316 | Ala 313 | conflict |
| Asn 332 | Thr 330 | conflict |
| Asp 386 | Asn 384 | conflict |
| - | Asn 396 | deletion |
| - | Thr 397 | deletion |
| - | Ser 398 | deletion |
| - | Val 399 | deletion |
| - | Gln 400 | deletion |
| - | Gly 401 | deletion |
| - | Ser 402 | deletion |
| - | Asn 403 | deletion |
| - | Ser 404 | deletion |
| - | Thr 405 | deletion |
| - | Gly 406 | deletion |
| - | Ser 407 | deletion |
| Asp 462 | Asn 459 | conflict |
| Ser 471 | Gly 468 | conflict |
| Cys 501 | Ala 498 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 18 |
| Total formula weight | 346197.2 | |
| Branched | Number of molecules | 9 |
| Total formula weight | 6251.7 | |
| Non-Polymers* | Number of molecules | 33 |
| Total formula weight | 7299.9 | |
| All* | Total formula weight | 359748.8 |
