3P70
Structural basis of thrombin-mediated factor V activation: essential role of the hirudin-like sequence Glu666-Glu672 for processing at the heavy chain-B domain junction
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, C, E, G | HUMAN ALPHA-THROMBIN, LIGHT CHAIN | polymer | 36 | 4096.5 | 4 | UniProt (P00734) Pfam (PF09396) In PDB | Homo sapiens (human) | Coagulation factor II, Thrombin light chain |
| 2 | B, D, F, H | HUMAN ALPHA-THROMBIN, HEAVY CHAIN | polymer | 259 | 29780.2 | 4 | UniProt (P00734) Pfam (PF00089) In PDB | Homo sapiens (human) | Coagulation factor II, Thrombin heavy chain |
| 3 | M, N, O, P | HUMAN FACTOR V, A2-B DOMAIN LINKER | polymer | 71 | 8391.9 | 4 | UniProt (P12259) In PDB | Homo sapiens (human) | Activated protein C cofactor |
| 4 | I, J | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 2 | In PDB GlyTouCan (G42666HT) | |||
| 5 | B, D | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 2 | Chemie (NAG) | |||
| 6 | H, B, D, F | BENZAMIDINE | non-polymer | 120.2 | 4 | Chemie (BEN) | |||
| 7 | G, H, B, C, D... | SODIUM ION | non-polymer | 23.0 | 7 | Chemie (NA) | |||
| 8 | H, B, F | beta-D-glucopyranose | non-polymer | 180.2 | 3 | Chemie (BGC) | |||
| 9 | water | water | 18.0 | 24 | Chemie (HOH) |
Sequence modifications
M, N, O, P: 657 - 709 (UniProt: P12259)
| PDB | External Database | Details |
|---|---|---|
| Ala 639 | - | expression tag |
| His 640 | - | expression tag |
| His 641 | - | expression tag |
| His 642 | - | expression tag |
| His 643 | - | expression tag |
| His 644 | - | expression tag |
| His 645 | - | expression tag |
| Val 646 | - | expression tag |
| Gly 647 | - | expression tag |
| Thr 648 | - | expression tag |
| Trp 649 | - | expression tag |
| Glu 650 | - | expression tag |
| Asn 651 | - | expression tag |
| Leu 652 | - | expression tag |
| Tyr 653 | - | expression tag |
| Phe 654 | - | expression tag |
| Gln 655 | - | expression tag |
| Ser 656 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 12 |
| Total formula weight | 169074.8 | |
| Branched | Number of molecules | 2 |
| Total formula weight | 848.8 | |
| Non-Polymers* | Number of molecules | 16 |
| Total formula weight | 1624.4 | |
| All* | Total formula weight | 171548.0 |
