5T3S
HIV gp140 trimer MD39-10MUTA in complex with Fabs PGT124 and 35022
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | G | Envelope glycoprotein gp160 | polymer | 481 | 54151.5 | 1 | UniProt (Q2N0S6) Pfam (PF00516) In PDB | Human immunodeficiency virus 1 | |
| 2 | B | Envelope glycoprotein gp160 | polymer | 153 | 17134.3 | 1 | UniProt (Q2N0S6) Pfam (PF00517) In PDB | Human immunodeficiency virus 1 | |
| 3 | L | Fab PGT124 light chain | polymer | 214 | 23056.6 | 1 | Homo sapiens | ||
| 4 | H | Fab PGT124 heavy chain | polymer | 236 | 25460.5 | 1 | Homo sapiens | ||
| 5 | D | Fab 35022 heavy chain | polymer | 240 | 25783.1 | 1 | Homo sapiens | ||
| 6 | E | Fab 35022 light chain | polymer | 216 | 23318.8 | 1 | Homo sapiens | ||
| 7 | A | alpha-D-mannopyranose-(1-2)-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 | 1235.1 | 1 | In PDB GlyTouCan (G46836GH) | |||
| 8 | C, F, I, J | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 4 | In PDB GlyTouCan (G42666HT) | |||
| 9 | K | alpha-D-mannopyranose-(1-2)-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 | 910.8 | 1 | In PDB GlyTouCan (G42227JK) | |||
| 10 | M, N | 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) | |||
| 11 | O | alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-6)-[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 | 1235.1 | 1 | In PDB GlyTouCan (G55220VL) | |||
| 12 | P | 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 | 1 | In PDB GlyTouCan (G40702WU) | |||
| 13 | G, B | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 7 | Chemie (NAG) |
Sequence modifications
G: 31 - 508 (UniProt: Q2N0S6)
B: 512 - 664 (UniProt: Q2N0S6)
| PDB | External Database | Details |
|---|---|---|
| Glu 106 | Thr 105 | conflict |
| Tyr 134 | Val 133 | conflict |
| Ala 135 | Thr 134 | conflict |
| Pro 136 | Asn 135 | conflict |
| Phe 137 | Asn 136 | conflict |
| Leu 138 | Ile 137 | conflict |
| Ile 139 | Thr 138 | conflict |
| Asn 140 | Asp 139 | conflict |
| Asn 149 | Asp 140 | conflict |
| Ile 271 | Met 270 | conflict |
| Leu 288 | Phe 287 | conflict |
| Val 304 | Arg 303 | conflict |
| Tyr 319 | Ala 316 | conflict |
| Met 328 | Gln 326 | conflict |
| Asn 332 | Thr 330 | conflict |
| Gln 363 | Asn 361 | conflict |
| 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 |
| 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 | 6 |
| Total formula weight | 168904.9 | |
| Branched | Number of molecules | 10 |
| Total formula weight | 8297.5 | |
| Non-Polymers* | Number of molecules | 7 |
| Total formula weight | 1548.5 | |
| All* | Total formula weight | 178750.8 |
