Research workbench
Structure of tPA and PAI-1
Analyse Structure of tPA and PAI-1 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5ZLZ
- Type
- protein
- Length
- 620 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 3.581
- Source
- Homo sapiens
- Molecule
- Plasminogen activator inhibitor 1; Tissue-type plasminogen activator
- EC
- 3.4.21.68
- UniProt
- P05121, P00750
- Pockets
- 7 · best druggability 0.69
Structure
x-ray diffraction · resolution 3.581 · 2 distinct chains · 19% helix, 31% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| I | Plasminogen activator inhibitor 1 | protein | 372 | 27% helix, 28% strand | P05121 |
| E | Tissue-type plasminogen activator (EC 3.4.21.68) | protein | 248 | 8% helix, 35% strand | P00750 |
Ligands and binding sites
- GOL · Glycerol · additive · 2 copies · chains E
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 90 | 0.69 | 0.92 | 25 | empty |
| 2 | 75 | 0.67 | 0.93 | 23 | empty |
| 3 | 246 | 0.60 | 0.80 | 38 | empty |
| 4 | 165 | 0.59 | 0.83 | 40 | empty |
| 5 | 200 | 0.49 | 0.76 | 29 | GOL |
Interfaces
1 interface between chains.
- I–E · 1273 Ų buried · 22 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 5 disulfide (disulfide).
Compared structures
- 5ZLZ · Structure of tpa and pai-1 · the same entry in another collection · chain E against E, TM-score 1.00
- P00750 · AlphaFold monomer V2.0 prediction for tissue-type plasminogen activator (P00750) · a predicted model of the same protein · chain E against A, TM-score 0.98
- P05121 · AlphaFold monomer V2.0 prediction for plasminogen activator inhibitor 1 (P05121) · a predicted model of the same protein · chain I against A, TM-score 0.96
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt P05121
- Every structure of UniProt P00750
- Elsewhere: RCSB PDB 5ZLZ · PDBe 5ZLZ · UniProt P05121 · UniProt P00750
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