MolNFT v1 · #184214 · protein + RNA
E.COLI delta rbfa pre-30S ribosomal subunit class D
7OI0 · 30S ribosomal protein S4: “E.COLI delta rbfa pre-30S ribosomal subunit class D”. Electron microscopy, 20 pockets (best druggability 0.84). MolNFT v1 #184214 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7OI0
- Type
- protein + RNA
- Length
- 2,000 residues
- Chains
- 11
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 30S ribosomal protein S4; 30S ribosomal protein S6, fully modified isoform; 30S ribosomal…
- UniProt
- A0A6D2XM56, P02358, A0A6D2XYQ3, A0A6D2X4T2, A0A4S5B3M5, A0A4S5B232, A0A6D2XXS6, A0A4S5APA8, A0A6D2XHZ3, A0A4S5B3X7
- Pockets
- 20 · best druggability 0.84
Structure
electron microscopy · 11 distinct chains · 34% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| D | 30S ribosomal protein S4 | protein | 205 | 39% helix, 7% strand | A0A6D2XM56 |
| F | 30S ribosomal protein S6, fully modified isoform | protein | 100 | 31% helix, 27% strand | P02358 |
| H | 30S ribosomal protein S8 | protein | 129 | 29% helix, 25% strand | A0A6D2XYQ3 |
| K | 30S ribosomal protein S11 | protein | 95 | 23% helix, 17% strand | A0A6D2X4T2 |
| L | 30S ribosomal protein S12 | protein | 123 | 5% helix, 26% strand | A0A4S5B3M5 |
| O | 30S ribosomal protein S15 | protein | 88 | 74% helix, 0% strand | A0A4S5B232 |
| P | 30S ribosomal protein S16 | protein | 82 | 27% helix, 38% strand | A0A6D2XXS6 |
| Q | 30S ribosomal protein S17 | protein | 80 | 0% helix, 66% strand | A0A4S5APA8 |
| R | 30S ribosomal protein S18 | protein | 50 | 36% helix, 0% strand | A0A6D2XHZ3 |
| T | 30S ribosomal protein S20 | protein | 85 | 86% helix, 0% strand | A0A4S5B3X7 |
| A | 16S rRNA | rna | 963 | — | — |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 562 | 0.84 | 0.90 | 73 | empty |
| 2 | 1070 | 0.83 | 0.85 | 86 | empty |
| 3 | 1000 | 0.82 | 0.84 | 83 | empty |
| 4 | 574 | 0.79 | 0.86 | 64 | empty |
| 5 | 472 | 0.78 | 0.87 | 50 | empty |
Interfaces
14 interfaces between chains.
- L–A · 2954 Ų buried · 74 hydrogen bonds · protein-nucleic
- D–A · 2829 Ų buried · 68 hydrogen bonds · protein-nucleic
- P–A · 2126 Ų buried · 39 hydrogen bonds · protein-nucleic
- T–A · 1954 Ų buried · 40 hydrogen bonds · protein-nucleic
- H–A · 1817 Ų buried · 43 hydrogen bonds · protein-nucleic
Compared structures
- 7OI0 · E.coli delta rbfA pre-30S ribosomal subunit class D · the same entry in another collection · chain D against D, 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 A0A6D2XM56
- Every structure of UniProt P02358
- Every structure of UniProt A0A6D2XYQ3
- Every structure of UniProt A0A6D2X4T2
- Every structure of UniProt A0A4S5B3M5
- Every structure of UniProt A0A4S5B232
- Every structure of UniProt A0A6D2XXS6
- Every structure of UniProt A0A4S5APA8
- Every structure of UniProt A0A6D2XHZ3
- Every structure of UniProt A0A4S5B3X7
- Elsewhere: RCSB PDB 7OI0 · PDBe 7OI0 · UniProt A0A6D2XM56 · UniProt P02358 · UniProt A0A6D2XYQ3 · UniProt A0A6D2X4T2 · UniProt A0A4S5B3M5 · UniProt A0A4S5B232 · UniProt A0A6D2XXS6 · UniProt A0A4S5APA8 · UniProt A0A6D2XHZ3 · UniProt A0A4S5B3X7
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