MolNFT v1 · #119335 · protein
Crystal structure of GP37(DIP) from bacteriophage phikz bound to RNase E of pseudomonas aeruginosa
5FT1: “Crystal structure of GP37(DIP) from bacteriophage phikz bound to RNase E of pseudomonas aeruginosa”. X-ray diffraction, 20 pockets (best druggability 0.76). MolNFT v1 #119335 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 5FT1
- Type
- protein
- Length
- 1,523 residues
- Chains
- 12
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- GP37; Ribonuclease E
- EC
- 3.1.26.12
- UniProt
- Q8SDC5, Q9HZM8
- Pockets
- 20 · best druggability 0.76
Structure
x-ray diffraction · 12 distinct chains · 30% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | GP37 | protein | 250 | 30% helix, 24% strand | Q8SDC5 |
| B | GP37 | protein | 243 | 33% helix, 26% strand | Q8SDC5 |
| C | Ribonuclease E (EC 3.1.26.12) | protein | 9 | 0% helix, 0% strand | Q9HZM8 |
| D | Ribonuclease E (EC 3.1.26.12) | protein | 9 | 0% helix, 0% strand | Q9HZM8 |
| E | GP37 | protein | 245 | 32% helix, 18% strand | Q8SDC5 |
| F | Ribonuclease E (EC 3.1.26.12) | protein | 6 | 0% helix, 0% strand | Q9HZM8 |
| G | GP37 | protein | 249 | 31% helix, 23% strand | Q8SDC5 |
| H | Ribonuclease E (EC 3.1.26.12) | protein | 8 | 0% helix, 0% strand | Q9HZM8 |
| I | GP37 | protein | 248 | 32% helix, 24% strand | Q8SDC5 |
| J | Ribonuclease E (EC 3.1.26.12) | protein | 10 | 0% helix, 0% strand | Q9HZM8 |
| K | GP37 | protein | 240 | 28% helix, 24% strand | Q8SDC5 |
| L | Ribonuclease E (EC 3.1.26.12) | protein | 6 | 0% helix, 0% strand | Q9HZM8 |
Pockets
20 pockets found on a 1 Å grid, 17 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 768 | 0.76 | 0.80 | 77 | empty |
| 2 | 1194 | 0.76 | 0.78 | 123 | empty |
| 3 | 1124 | 0.76 | 0.78 | 108 | empty |
| 4 | 71 | 0.74 | 0.98 | 18 | empty |
| 5 | 622 | 0.65 | 0.75 | 50 | empty |
Interfaces
17 interfaces between chains.
- A–E · 1093 Ų buried · 11 hydrogen bonds · protein-protein
- B–G · 1038 Ų buried · 11 hydrogen bonds · protein-protein
- I–K · 1008 Ų buried · 8 hydrogen bonds · protein-protein
- E–G · 686 Ų buried · 7 hydrogen bonds · protein-protein
- B–I · 668 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 5FT1 · Crystal structure of gp37(Dip) from bacteriophage phiKZ bound to RNase E of Pseudomonas… · 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 Q8SDC5
- Every structure of UniProt Q9HZM8
- Elsewhere: RCSB PDB 5FT1 · PDBe 5FT1 · UniProt Q8SDC5 · UniProt Q9HZM8
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