9SYA
Crystal structure of HERV-K envelope glycoprotein surface subunit with cholates and sulfates bound
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, B (A, B) | Surface protein | polymer | 343 | 39114.6 | 2 | UniProt (P61570) Pfam (PF13804) | Homo sapiens (human) | SU |
| 2 | C, H, I (C, H, I) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 3 | In PDB GlyTouCan (G42666HT) | |||
| 3 | D (D) | beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 586.5 | 1 | In PDB GlyTouCan (G15407YE) | |||
| 4 | E, F, G (E, F, G) | 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 | 3 | In PDB GlyTouCan (G09724ZC) | |||
| 5 | J, O (A, B) | 3-[(3-CHOLAMIDOPROPYL)DIMETHYLAMMONIO]-1-PROPANESULFONATE | non-polymer | 614.9 | 2 | Chemie (CPS) PubChem (107670) | |||
| 6 | K (A) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 1 | Chemie (NAG) PubChem (24139) | |||
| 7 | L, M, P, Q (A, B) | SULFATE ION | non-polymer | 96.1 | 4 | Chemie (SO4) | |||
| 8 | N (B) | CHOLIC ACID | non-polymer | 408.6 | 1 | Chemie (CHD) PubChem (221493) | |||
| 9 | R, S (A, B) | water | water | 18.0 | 292 | Chemie (HOH) |
Sequence modifications
A, B: 111 - 430 (UniProt: P61570)
| PDB | External Database | Details |
|---|---|---|
| Ala 96 | - | expression tag |
| Pro 97 | - | expression tag |
| Phe 98 | - | expression tag |
| Asp 99 | - | expression tag |
| Asp 100 | - | expression tag |
| Asp 101 | - | expression tag |
| Asp 102 | - | expression tag |
| Lys 103 | - | expression tag |
| Leu 104 | - | expression tag |
| Glu 105 | - | expression tag |
| Val 106 | - | expression tag |
| Leu 107 | - | expression tag |
| Phe 108 | - | expression tag |
| Gln 109 | - | expression tag |
| Gly 110 | - | expression tag |
| Ala 141 | Cys 141 | conflict |
| Arg 167 | Thr 167 | conflict |
| Thr 185 | Ile 185 | conflict |
| Pro 431 | - | expression tag |
| Gly 432 | - | expression tag |
| His 433 | - | expression tag |
| His 434 | - | expression tag |
| His 435 | - | expression tag |
| His 436 | - | expression tag |
| His 437 | - | expression tag |
| His 438 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 2 |
| Total formula weight | 78229.2 | |
| Branched | Number of molecules | 7 |
| Total formula weight | 5078.6 | |
| Non-Polymers* | Number of molecules | 8 |
| Total formula weight | 2243.8 | |
| All* | Total formula weight | 85551.7 |
