9JKF
Asymmetric structure of cleaved HIV-1 Tri FPPR envelope glycoprotein trimer in amphipol-lipid nanodiscs (Tri FPPR.1)
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, B, C, D, E... (B, C, D, E, A...) | Envelope glycoprotein gp160 | polymer | 722 | 82233.8 | 6 | UniProt (G1JZH9) Pfam (PF00516) Pfam (PF00517) | Simian-Human immunodeficiency virus | Env polyprotein |
| 2 | AA, AB, CA, DB, FB... (a, 0, c, 3, 5...) | beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 586.5 | 29 | In PDB GlyTouCan (G15407YE) | |||
| 3 | BA, EA, EB, FA, GB... (b, e, 4, f, 6...) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 16 | In PDB GlyTouCan (G42666HT) | |||
| 4 | O (O) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 570.5 | 1 | In PDB GlyTouCan (G21290RB) | |||
| 5 | S (S) | 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 | 1 | In PDB GlyTouCan (G56014GC) | |||
| 6 | T (T) | 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) | |||
| 7 | BB, IA, JA, W (1, i, j, W) | 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 | 4 | In PDB GlyTouCan (G22768VO) | |||
| 8 | NB, UA, X (DA, u, X) | 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 | 1235.1 | 3 | In PDB GlyTouCan (G23799GS) | |||
| 9 | CB, JB, MB, PB, QB... (2, 9, CA, FA, GA...) | 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 | 7 | In PDB GlyTouCan (G81315DD) | |||
| 10 | DA, TB, YA (d, JA, y) | beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 732.7 | 3 | In PDB GlyTouCan (G32152BH) | |||
| 11 | PA (p) | 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) | |||
| 12 | TA, XA (t, x) | 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 | 2 | In PDB GlyTouCan (G22573RC) | |||
| 13 | IB (8) | alpha-D-mannopyranose-(1-3)-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 | 1073.0 | 1 | In PDB GlyTouCan (G09724ZC) | |||
| 14 | AC, CC, XB (E, A, C) | 1-[(2R)-4-(benzenecarbonyl)-2-methylpiperazin-1-yl]-2-(4-methoxy-1H-pyrrolo[2,3-b]pyridin-3-yl)ethane-1,2-dione | non-polymer | 406.4 | 3 | Chemie (83G) | |||
| 15 | BC, DC, YB, ZB (E, A, C) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 4 | Chemie (NAG) |
Sequence modifications
B, C, D, E, A, F: 21 - 714 (UniProt: G1JZH9)
| PDB | External Database | Details |
|---|---|---|
| Met 2 | - | initiating methionine |
| Arg 3 | - | expression tag |
| Val 4 | - | expression tag |
| Lys 5 | - | expression tag |
| Glu 6 | - | expression tag |
| Lys 7 | - | expression tag |
| Tyr 8 | - | expression tag |
| Gln 9 | - | expression tag |
| His 10 | - | expression tag |
| Leu 11 | - | expression tag |
| Trp 12 | - | expression tag |
| Arg 13 | - | expression tag |
| Trp 14 | - | expression tag |
| Gly 15 | - | expression tag |
| Trp 16 | - | expression tag |
| Arg 17 | - | expression tag |
| Trp 18 | - | expression tag |
| Gly 19 | - | expression tag |
| Thr 20 | - | expression tag |
| Thr 32 | Val 30 | conflict |
| Lys 34 | Asn 32 | conflict |
| Glu 115 | Gln 113 | conflict |
| Val 532 | Ala 530 | conflict |
| Met 535 | Ile 533 | conflict |
| Gln 543 | Leu 541 | conflict |
| Lys 567 | Gln 565 | conflict |
| Thr 582 | Ala 580 | conflict |
| Gly 715 | - | expression tag |
| Gly 716 | - | expression tag |
| Gly 717 | - | expression tag |
| His 718 | - | expression tag |
| His 719 | - | expression tag |
| His 720 | - | expression tag |
| His 721 | - | expression tag |
| His 722 | - | expression tag |
| His 723 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 6 |
| Total formula weight | 493402.9 | |
| Branched | Number of molecules | 69 |
| Total formula weight | 45109.5 | |
| Non-Polymers* | Number of molecules | 7 |
| Total formula weight | 2104.1 | |
| All* | Total formula weight | 540616.5 |
