Research workbench
Models for ribosome components that are nearest neighbors to the bovine mitochondrial initiation FACTOR2 bound to the E. COLI ribosome
Analyse Models for ribosome components that are nearest neighbors to the bovine… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3IZZ
- Type
- protein + RNA
- Length
- 582 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Helix 5, 14, 15 (small subunit); Helix 18 (small subunit); Helix 44 (small subunit)…
- Pockets
- 15 · best druggability 0.61
Structure
electron microscopy · 6 distinct chains · 6% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Helix 5, 14, 15 (small subunit) | rna | 59 | — | — |
| D | Helix 18 (small subunit) | rna | 60 | — | — |
| E | Helix 44 (small subunit) | rna | 100 | — | — |
| F | Protein S12 (small subunit) | protein | 124 | 9% helix, 23% strand | — |
| B | Helix 69, 71, 89, 92, 95 (large subunit) | rna | 118 | — | — |
| G | Protein L14 (large subunit) | protein | 121 | 2% helix, 21% strand | — |
Pockets
15 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 720 | 0.61 | 0.73 | 48 | empty |
| 2 | 470 | 0.59 | 0.75 | 25 | empty |
| 3 | 332 | 0.55 | 0.75 | 29 | empty |
| 4 | 120 | 0.49 | 0.81 | 25 | empty |
| 5 | 292 | 0.49 | 0.73 | 32 | empty |
Interfaces
7 interfaces between chains.
- E–B · 1292 Ų buried · 359 hydrogen bonds · nucleic-nucleic
- D–F · 1132 Ų buried · 49 hydrogen bonds · protein-nucleic
- B–G · 562 Ų buried · 3 hydrogen bonds · protein-nucleic
- A–G · 184 Ų buried · 6 hydrogen bonds · protein-nucleic
- E–G · 168 Ų buried · 2 hydrogen bonds · protein-nucleic
Compared structures
- 3IZZ · Models for ribosome components that are nearest neighbors to the bovine mitochondrial… · the same entry in another collection · chain A against A, TM-score 1.00
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Elsewhere: RCSB PDB 3IZZ · PDBe 3IZZ
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.