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 | Envelope glycoprotein gp120 | polymer | 443 | 49860.9 | 3 | UniProt (Q2N0S5) Pfam (PF00516) In PDB | Human immunodeficiency virus 1 | Env polyprotein |
2 | D, E, F | Envelope glycoprotein gp41 | polymer | 128 | 14577.6 | 3 | Pfam (PF00517) UniProt (by SIFTS) (Q2N0S5) In PDB | Human immunodeficiency virus 1 | |
3 | M, N, O | 10-1074 Fab heavy chain | polymer | 133 | 14791.4 | 3 | Homo sapiens | ||
4 | G, H, I | BG24 mature Fab heavy chain | polymer | 120 | 13384.0 | 3 | Homo sapiens | ||
5 | P, Q, R | 10-1074 Fab light chain | polymer | 107 | 11701.0 | 3 | Homo sapiens | ||
6 | J, K, L | BG24 mature Fab light chain | polymer | 105 | 11084.1 | 3 | Homo sapiens | ||
7 | 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 | 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 | 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 | 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 |