MolNFT v1 · #97918 · protein + RNA
Crystal structure of double-helical ggc-repetitive RNA 19MER complexed with rss P19
4KTG · RNA silencing suppressor P19: “Crystal structure of double-helical ggc-repetitive RNA 19MER complexed with rss P19”. X-ray diffraction, 1 ligand (SO4), 3 pockets (best druggability 0.61). MolNFT v1 #97918 on GenesisL1: 3D structure…
- PDB
- 4KTG
- Type
- protein + RNA
- Length
- 159 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RNA silencing suppressor P19; 5'-R(P*GP*CP*GP*GP*CP*GP*GP*CP*GP*GP*CP*GP*GP*CP*GP*GP*CP*G…
- UniProt
- P69517
- Ligands
- SO4
- Pockets
- 3 · best druggability 0.61
Structure
x-ray diffraction · 2 distinct chains · 40% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | RNA silencing suppressor P19 | protein | 121 | 40% helix, 26% strand | P69517 |
| B, E | 5'-R(P*GP*CP*GP*GP*CP*GP*GP*CP*GP*GP*CP*GP*GP*CP*GP*GP*CP*G P*C)-3' | rna | 19 | — | — |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 3 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 508 | 0.61 | 0.75 | 30 | SO4 |
| 2 | 97 | 0.45 | 0.80 | 21 | empty |
| 3 | 82 | 0.27 | 0.72 | 12 | empty |
Interfaces
3 interfaces between chains.
- B–E · 938 Ų buried · 108 hydrogen bonds · nucleic-nucleic
- A–B · 520 Ų buried · 13 hydrogen bonds · protein-nucleic
- A–E · 395 Ų buried · 4 hydrogen bonds · protein-nucleic
Compared structures
- 4KTG · Crystal structure of double-helical GGC-repetitive RNA 19mer complexed with RSS p19 · 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
- Every structure of UniProt P69517
- Elsewhere: RCSB PDB 4KTG · PDBe 4KTG · UniProt P69517
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