MolNFT v1 · #18365 · protein
Kringle-kringle interactions in multimer kringle structures
1PML · Tissue plasminogen activator kringle 2: “Kringle-kringle interactions in multimer kringle structures”. X-ray diffraction, 1 ligand (CL), 1 pocket (best druggability 0.32). MolNFT v1 #18365 on GenesisL1: 3D structure, binding sites…
- PDB
- 1PML
- Type
- protein
- Length
- 257 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Tissue plasminogen activator kringle 2
- EC
- 3.4.21.68
- UniProt
- P00750
- Ligands
- CL
- Pockets
- 1 · best druggability 0.32
Structure
x-ray diffraction · 2 distinct chains · 6% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Tissue plasminogen activator kringle 2 (EC 3.4.21.68) | protein | 86 | 8% helix, 22% strand | P00750 |
| C | Tissue plasminogen activator kringle 2 (EC 3.4.21.68) | protein | 85 | 5% helix, 22% strand | P00750 |
Ligands and binding sites
- CL · Chloride ion · ion · 3 copies · chains A, C, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 78 | 0.32 | 0.74 | 23 | empty |
Interfaces
2 interfaces between chains.
- B–C · 341 Ų buried · 3 hydrogen bonds · protein-protein
- A–C · 312 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 9 disulfide (disulfide).
Compared structures
- 1PML · Kringle-kringle interactions in multimer kringle structures · the same entry in another collection · chain A against A, TM-score 1.00
- P00750 · AlphaFold monomer V2.0 prediction for tissue-type plasminogen activator (P00750) · a predicted model of the same protein · chain C against A, TM-score 0.97
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 P00750
- Elsewhere: RCSB PDB 1PML · PDBe 1PML · UniProt P00750
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