MolNFT v1 · #152977 · protein
Crystal structure of E. COLI peptide deformylase and methionine aminopeptidase fitted into the cryo-EM density MAP of the complex
6IZI: “Crystal structure of E. COLI peptide deformylase and methionine aminopeptidase fitted into the cryo-EM…”. Electron microscopy, 4 pockets (best druggability 0.55). MolNFT v1 #152977 on GenesisL1: 3D structure, binding sites and…
- PDB
- 6IZI
- Type
- protein
- Length
- 430 residues
- Chains
- 2
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Peptide deformylase; Methionine aminopeptidase
- EC
- 3.5.1.88, 3.4.11.18
- UniProt
- P0A6K3, P0AE18
- Pockets
- 4 · best druggability 0.55
Structure
electron microscopy · 2 distinct chains · 0% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| P | Peptide deformylase (EC 3.5.1.88) | protein | 168 | 0% helix, 0% strand | P0A6K3 |
| Q | Methionine aminopeptidase (EC 3.4.11.18) | protein | 262 | 0% helix, 0% strand | P0AE18 |
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 326 | 0.55 | 0.73 | 78 | empty |
| 2 | 144 | 0.44 | 0.74 | 41 | empty |
| 3 | 58 | 0.31 | 0.74 | 21 | empty |
| 4 | 61 | 0.30 | 0.73 | 21 | empty |
Interfaces
1 interface between chains.
- P–Q · 23 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 6IZI · Crystal structure of E. coli peptide deformylase and methionine aminopeptidase fitted… · the same entry in another collection · chain P against P, TM-score 1.00
- P0AE18 · AlphaFold monomer V2.0 prediction for methionine aminopeptidase (P0AE18) · a predicted model of the same protein · chain Q against A, TM-score 0.98
- P0A6K3 · AlphaFold monomer V2.0 prediction for peptide deformylase (P0A6K3) · a predicted model of the same protein · chain P against A, TM-score 0.92
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 P0A6K3
- Every structure of UniProt P0AE18
- Elsewhere: RCSB PDB 6IZI · PDBe 6IZI · UniProt P0A6K3 · UniProt P0AE18
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.