MolNFT v2 · #14187 · protein
structural model of human decay-accelerating factor bound to echovirus 7 from cryo-electron microscopy
1M11: “structural model of human decay-accelerating factor bound to echovirus 7 from cryo-electron microscopy”. Electron microscopy at 16.0, 2 pockets (best druggability 0.32). MolNFT v2 #14187 on GenesisL1: 3D structure, binding sites and…
- PDB
- 1M11
- Type
- protein
- Length
- 1,013 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 16.0
- Source
- Homo sapiens; Human echovirus 7
- Molecule
- decay-accelerating factor; Coat protein VP1; Coat protein VP2; Coat protein VP3
- UniProt
- P08174, Q914E0
- Pockets
- 2 · best druggability 0.32
Structure
electron microscopy · resolution 16.0 · 4 distinct chains · 0% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| R | decay-accelerating factor | protein | 243 | 0% helix, 0% strand | P08174 |
| 1 | Coat protein VP1 | protein | 278 | 0% helix, 0% strand | Q914E0 |
| 2 | Coat protein VP2 | protein | 254 | 0% helix, 0% strand | Q914E0 |
| 3 | Coat protein VP3 | protein | 238 | 0% helix, 0% strand | Q914E0 |
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 75 | 0.32 | 0.72 | 29 | empty |
| 2 | 60 | 0.29 | 0.72 | 18 | empty |
Interfaces
3 interfaces between chains.
- 1–3 · 612 Ų buried · 0 hydrogen bonds · protein-protein
- 1–2 · 384 Ų buried · 0 hydrogen bonds · protein-protein
- 2–3 · 236 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 1M11 · Structural model of human decay-accelerating factor bound to echovirus 7 from… · the same entry in another collection · chain 1 against 1, TM-score 1.00
- P08174 · AlphaFold monomer V2.0 prediction for complement decay-accelerating factor (P08174) · a predicted model of the same protein · chain R against A, TM-score 0.40
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 P08174
- Every structure of UniProt Q914E0
- Elsewhere: RCSB PDB 1M11 · PDBe 1M11 · UniProt P08174 · UniProt Q914E0
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