MolNFT v1 · #184180 · protein + RNA
A cooperative pnpase-hfq-RNA carrier complex facilitates bacterial riboregulation. pnpase-3'ETS(LEUZ)
7OGK · Polyribonucleotide nucleotidyltransferase: “A cooperative pnpase-hfq-RNA carrier complex facilitates bacterial riboregulation. pnpase-3'ETS(LEUZ)”. Electron microscopy, 20 pockets (best druggability 0.86). MolNFT v1 #184180 on…
- PDB
- 7OGK
- Type
- protein + RNA
- Length
- 2,093 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Polyribonucleotide nucleotidyltransferase; 3'ETS(LEUZ)
- EC
- 2.7.7.8
- UniProt
- P05055
- Pockets
- 20 · best druggability 0.86
Structure
electron microscopy · 2 distinct chains · 32% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | Polyribonucleotide nucleotidyltransferase (EC 2.7.7.8) | protein | 695 | 32% helix, 27% strand | P05055 |
| D | 3'ETS(LEUZ) | rna | 8 | — | — |
Pockets
20 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 980 | 0.86 | 0.88 | 116 | empty |
| 2 | 850 | 0.84 | 0.86 | 106 | empty |
| 3 | 1184 | 0.77 | 0.79 | 147 | empty |
| 4 | 1099 | 0.73 | 0.77 | 143 | empty |
| 5 | 173 | 0.70 | 0.89 | 32 | empty |
Interfaces
6 interfaces between chains.
- B–C · 2144 Ų buried · 21 hydrogen bonds · protein-protein
- A–B · 2013 Ų buried · 31 hydrogen bonds · protein-protein
- A–C · 1986 Ų buried · 26 hydrogen bonds · protein-protein
- B–D · 362 Ų buried · 4 hydrogen bonds · protein-nucleic
- A–D · 282 Ų buried · 2 hydrogen bonds · protein-nucleic
Compared structures
- 7OGK · A cooperative PNPase-Hfq-RNA carrier complex facilitates bacterial riboregulation.… · the same entry in another collection · chain A against A, TM-score 1.00
- P05055 · AlphaFold monomer V2.0 prediction for polyribonucleotide nucleotidyltransferase (P05055) · a predicted model of the same protein · chain A against A, TM-score 0.84
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 P05055
- Elsewhere: RCSB PDB 7OGK · PDBe 7OGK · UniProt P05055
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