Research workbench
Crystal structure of archeoglobus fulgidus L7AE bound to its cognate utr K-turn
Analyse Crystal structure of archeoglobus fulgidus L7AE bound to its cognate utr K-turn in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6HCT
- Type
- protein + RNA
- Length
- 408 residues
- Chains
- 7
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RNA (5'- R(*GP*CP*CP*GP*AP*UP*GP*AP*AP*UP*GP*CP*AP*UP*GP*AP*AP*GP*C)-3'); 50S ribosomal…
- UniProt
- O29494
- Ligands
- NA, SO4
- Pockets
- 2 · best druggability 0.50
Structure
x-ray diffraction · 4 distinct chains · 50% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | RNA (5'- R(*GP*CP*CP*GP*AP*UP*GP*AP*AP*UP*GP*CP*AP*UP*GP*AP*AP*GP*C)-3') | rna | 19 | — | — |
| C, D, G | 50S ribosomal protein L7AE | protein | 117 | 50% helix, 16% strand | O29494 |
| E | RNA (5'-R(*GP*CP*CP*GP*AP*UP*GP*AP*AP*UP*G)-3') | rna | 11 | — | — |
| F | RNA (5'-R(P*CP*AP*UP*GP*AP*AP*GP*C)-3') | rna | 8 | — | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
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 | 232 | 0.50 | 0.76 | 24 | NA |
| 2 | 82 | 0.42 | 0.80 | 18 | empty |
Interfaces
11 interfaces between chains.
- A–B · 1264 Ų buried · 97 hydrogen bonds · nucleic-nucleic
- E–F · 636 Ų buried · 56 hydrogen bonds · nucleic-nucleic
- E–G · 481 Ų buried · 17 hydrogen bonds · protein-nucleic
- B–D · 473 Ų buried · 17 hydrogen bonds · protein-nucleic
- A–C · 466 Ų buried · 13 hydrogen bonds · protein-nucleic
Compared structures
- 6HCT · Crystal structure of Archeoglobus fulgidus L7Ae bound to its cognate UTR k-turn · the same entry in another collection · chain G against G, TM-score 1.00
- O29494 · AlphaFold monomer V2.0 prediction for 50S ribosomal protein L7AE (O29494) · a predicted model of the same protein · chain C against A, TM-score 0.98
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 O29494
- Elsewhere: RCSB PDB 6HCT · PDBe 6HCT · UniProt O29494
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