8V07
Crystal structure of mouse PLD3 co-crystallized with 5'Pi-ssDNA for 30 days
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 (B, A, C, D) | 5'-3' exonuclease PLD3 | polymer | 467 | 51856.2 | 4 | UniProt (O35405) Pfam (PF13918) | Mus musculus (house mouse) | |
| 2 | E, H (E, H) | 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 | 2 | In PDB GlyTouCan (G55220VL) | |||
| 3 | F, G, J, K (F, G, J, K) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 4 | In PDB GlyTouCan (G42666HT) | |||
| 4 | I (I) | 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) | |||
| 5 | L (B) | CITRIC ACID | non-polymer | 192.1 | 1 | Chemie (CIT) | |||
| 6 | M, O, R, T, V... (B, A, C, D) | GLYCEROL | non-polymer | 92.1 | 6 | Chemie (GOL) | |||
| 7 | N (B) | ACETYL GROUP | non-polymer | 44.1 | 1 | Chemie (ACE) | |||
| 8 | P, S, U, X (B, A, C, D) | PHOSPHATE ION | non-polymer | 95.0 | 4 | Chemie (PO4) | |||
| 9 | Q (A) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 1 | Chemie (NAG) | |||
| 10 | AA, BA, Y, Z (C, D, B, A) | water | water | 18.0 | 558 | Chemie (HOH) |
Sequence modifications
B, A, C, D: 63 - 488 (UniProt: O35405)
| PDB | External Database | Details |
|---|---|---|
| His 22 | - | expression tag |
| His 23 | - | expression tag |
| His 24 | - | expression tag |
| His 25 | - | expression tag |
| His 26 | - | expression tag |
| His 27 | - | expression tag |
| Gly 28 | - | expression tag |
| Pro 29 | - | expression tag |
| Leu 30 | - | expression tag |
| Val 31 | - | expression tag |
| Asp 32 | - | expression tag |
| Val 33 | - | expression tag |
| Ala 34 | - | expression tag |
| Ser 35 | - | expression tag |
| Asn 36 | - | expression tag |
| Glu 37 | - | expression tag |
| Gln 38 | - | expression tag |
| Lys 39 | - | expression tag |
| Leu 40 | - | expression tag |
| Ile 41 | - | expression tag |
| Ser 42 | - | expression tag |
| Glu 43 | - | expression tag |
| Glu 44 | - | expression tag |
| Asp 45 | - | expression tag |
| Leu 46 | - | expression tag |
| Ala 47 | - | expression tag |
| Ser 48 | - | expression tag |
| Met 49 | - | expression tag |
| Thr 50 | - | expression tag |
| Gly 51 | - | expression tag |
| Gly 52 | - | expression tag |
| Gln 53 | - | expression tag |
| Gln 54 | - | expression tag |
| Met 55 | - | expression tag |
| Gly 56 | - | expression tag |
| Arg 57 | - | expression tag |
| Asp 58 | - | expression tag |
| Ile 59 | - | expression tag |
| Glu 60 | - | expression tag |
| Gly 61 | - | expression tag |
| Arg 62 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 4 |
| Total formula weight | 207424.8 | |
| Branched | Number of molecules | 7 |
| Total formula weight | 4916.5 | |
| Non-Polymers* | Number of molecules | 13 |
| Total formula weight | 1389.8 | |
| All* | Total formula weight | 213731.1 |
