8Q1K
Structural analysis of PLD3 reveals insights into the mechanism of lysosomal 5' exonuclease-mediated nucleic acid degradation
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, B | 5'-3' exonuclease PLD3 | polymer | 422 | 46945.8 | 2 | UniProt (Q8IV08) Pfam (PF13918) In PDB | Homo sapiens (human) | |
| 2 | C | alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]alpha-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 (G09609EN) | |||
| 3 | D, E | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 2 | In PDB GlyTouCan (G42666HT) | |||
| 4 | F | 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) | |||
| 5 | A, B | 1,2-ETHANEDIOL | non-polymer | 62.1 | 7 | Chemie (EDO) | |||
| 6 | A, B | PHOSPHATE ION | non-polymer | 95.0 | 8 | Chemie (PO4) | |||
| 7 | A, B | MANGANESE (II) ION | non-polymer | 54.9 | 4 | Chemie (MN) | |||
| 8 | water | water | 18.0 | 1224 | Chemie (HOH) |
Sequence modifications
A, B: 72 - 490 (UniProt: Q8IV08)
| PDB | External Database | Details |
|---|---|---|
| Ala 491 | - | expression tag |
| Ala 492 | - | expression tag |
| Gln 493 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 2 |
| Total formula weight | 93891.5 | |
| Branched | Number of molecules | 4 |
| Total formula weight | 3319.0 | |
| Non-Polymers* | Number of molecules | 19 |
| Total formula weight | 1414.0 | |
| All* | Total formula weight | 98624.5 |
