MolNFT v1 · #26555 · protein + RNA
C-terminal domain of elongation factor selb complexed with secis RNA
1WSU · 5'- R(*GP*GP*CP*GP*UP*UP*GP*CP*CP*GP*GP*UP*CP*U*GP*GP*CP*AP*…: “C-terminal domain of elongation factor selb complexed with secis RNA”. X-ray diffraction, 7 pockets (best druggability 0.42). MolNFT v1 #26555 on GenesisL1: 3D…
- PDB
- 1WSU
- Type
- protein + RNA
- Length
- 534 residues
- Chains
- 7
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 5'- R(*GP*GP*CP*GP*UP*UP*GP*CP*CP*GP*GP*UP*CP*U*GP*GP*CP*AP*AP* CP*GP*CP*C)-3'…
- UniProt
- Q46455
- Pockets
- 7 · best druggability 0.42
Structure
x-ray diffraction · 6 distinct chains · 59% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| E, F | 5'- R(*GP*GP*CP*GP*UP*UP*GP*CP*CP*GP*GP*UP*CP*U*GP*GP*CP*AP*AP* CP*GP*CP*C)-3' | rna | 22 | — | — |
| G | 5'- R(*GP*GP*CP*GP*UP*UP*GP*CP*CP*GP*GP*UP*CP*U*GP*GP*CP*AP*AP* CP*GP*CP*C)-3' | rna | 21 | — | — |
| A | Selenocysteine-specific elongation factor | protein | 124 | 60% helix, 14% strand | Q46455 |
| B | Selenocysteine-specific elongation factor | protein | 122 | 61% helix, 14% strand | Q46455 |
| C | Selenocysteine-specific elongation factor | protein | 102 | 59% helix, 10% strand | Q46455 |
| D | Selenocysteine-specific elongation factor | protein | 121 | 58% helix, 12% strand | Q46455 |
Pockets
7 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 174 | 0.42 | 0.74 | 22 | empty |
| 2 | 128 | 0.39 | 0.74 | 17 | empty |
| 3 | 105 | 0.38 | 0.75 | 17 | empty |
| 4 | 94 | 0.36 | 0.75 | 15 | empty |
| 5 | 124 | 0.36 | 0.73 | 15 | empty |
Interfaces
6 interfaces between chains.
- A–B · 759 Ų buried · 14 hydrogen bonds · protein-protein
- C–D · 568 Ų buried · 5 hydrogen bonds · protein-protein
- E–A · 478 Ų buried · 16 hydrogen bonds · protein-nucleic
- F–B · 476 Ų buried · 16 hydrogen bonds · protein-nucleic
- G–C · 387 Ų buried · 10 hydrogen bonds · protein-nucleic
Compared structures
- 1WSU · C-terminal domain of elongation factor selB complexed with SECIS RNA · the same entry in another collection · chain D against D, TM-score 1.00
- Q46455 · AlphaFold monomer V2.0 prediction for selenocysteine-specific elongation factor (Q46455) · a predicted model of the same protein · chain C against A, TM-score 0.99
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 Q46455
- Elsewhere: RCSB PDB 1WSU · PDBe 1WSU · UniProt Q46455
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