Research workbench
The structures of met and azidomet hemerythrin at 1.66 ångströms resolution
Analyse The structures of met and azidomet hemerythrin at 1.66 ångströms resolution in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2HMQ
- Type
- protein
- Length
- 452 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hemerythrin
- UniProt
- P02246
- Ligands
- FEO
- Pockets
- 5 · best druggability 0.53
Structure
x-ray diffraction · 1 distinct chain · 72% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | Hemerythrin | protein | 113 | 72% helix, 0% strand | P02246 |
Ligands and binding sites
- FEO · Mu-oxo-diiron · ligand · 4 copies · chains A, B, C, D
- ACT · Acetate ion · additive · 4 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 287 | 0.53 | 0.75 | 30 | empty |
| 2 | 64 | 0.36 | 0.78 | 13 | empty |
| 3 | 51 | 0.30 | 0.76 | 14 | empty |
| 4 | 51 | 0.29 | 0.76 | 15 | empty |
| 5 | 53 | 0.26 | 0.73 | 12 | empty |
Interfaces
3 interfaces between chains.
- C–D · 938 Ų buried · 18 hydrogen bonds · protein-protein
- A–D · 212 Ų buried · 2 hydrogen bonds · protein-protein
- A–B · 165 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 covalent (additive adduct).
Compared structures
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 P02246
- Elsewhere: RCSB PDB 2HMQ · PDBe 2HMQ · UniProt P02246
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.