6B0N
Crystal structure of the cleavage-independent prefusion HIV Env glycoprotein trimer of the clade A BG505 isolate (NFL construct) in complex with Fabs PGT122 and PGV19 at 3.39 A
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | D | PGV19 Fab heavy chain | polymer | 223 | 24246.4 | 1 | Homo sapiens (Human) | ||
| 2 | E | PGV19 light chain | polymer | 209 | 22219.6 | 1 | Homo sapiens (Human) | ||
| 3 | G | Envelope glycoprotein gp140 | polymer | 638 | 70846.0 | 1 | UniProt (Q2N0S6) UniProt (Q2N0S9) Pfam (PF00516) Pfam (PF00517) In PDB | Human immunodeficiency virus 1 | Env polyprotein |
| 4 | H | PGT122 Fab heavy chain | polymer | 235 | 25434.7 | 1 | Homo sapiens (Human) | ||
| 5 | L | PGT122 light chain | polymer | 213 | 22880.3 | 1 | Homo sapiens (Human) | ||
| 6 | A | alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[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 (G07617FP) | |||
| 7 | B, C | beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 586.5 | 2 | In PDB GlyTouCan (G15407YE) | |||
| 8 | F | alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)-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 | 1397.2 | 1 | In PDB GlyTouCan (G81980VO) | |||
| 9 | I, O | 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) | |||
| 10 | J, P, R | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 3 | In PDB GlyTouCan (G42666HT) | |||
| 11 | K | 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 | 748.7 | 1 | In PDB GlyTouCan (G22573RC) | |||
| 12 | M | alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-6)]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 | 1397.2 | 1 | In PDB GlyTouCan (G48018RF) | |||
| 13 | N | alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose | branched | 504.4 | 1 | In PDB GlyTouCan (G25559RS) | |||
| 14 | Q | alpha-D-mannopyranose-(1-3)-alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose | branched | 666.6 | 1 | In PDB GlyTouCan (G65169RI) | |||
| 15 | S | alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]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 | 1397.2 | 1 | In PDB GlyTouCan (G80966KZ) | |||
| 16 | G | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 12 | Chemie (NAG) | |||
| 17 | G | alpha-D-mannopyranose | non-polymer | 180.2 | 2 | Chemie (MAN) |
Sequence modifications
G: 31 - 506 (UniProt: Q2N0S6)
G: 512 - 664 (UniProt: Q2N0S9)
| PDB | External Database | Details |
|---|---|---|
| Asn 332 | Thr 330 | engineered mutation |
| Gly 507 | - | linker |
| Gly 508 | - | linker |
| Gly 509 | - | linker |
| Gly 509 | - | linker |
| Gly 509 | - | linker |
| Ser 509 | - | linker |
| Gly 509 | - | linker |
| Gly 509 | - | linker |
| Gly 509 | - | linker |
| Gly 509 | - | linker |
| Ser 511 | - | linker |
| PDB | External Database | Details |
|---|---|---|
| Pro 559 | Ile 558 | engineered mutation |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 5 |
| Total formula weight | 165627.1 | |
| Branched | Number of molecules | 14 |
| Total formula weight | 11614.5 | |
| Non-Polymers* | Number of molecules | 14 |
| Total formula weight | 3014.8 | |
| All* | Total formula weight | 180256.3 |
