MolNFT v1 · #66953 · protein + RNA
Structure of MSS116P bound to ssrna and AMP-pnp
3I5X · ATP-dependent RNA helicase MSS116: “Structure of MSS116P bound to ssrna and AMP-pnp”. X-ray diffraction, 2 ligands (ANP, MG), 6 pockets (best druggability 0.62). MolNFT v1 #66953 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 3I5X
- Type
- protein + RNA
- Length
- 519 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- ATP-dependent RNA helicase MSS116; 5'-R(*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3'
- EC
- 3.6.1.-
- UniProt
- P15424
- Ligands
- ANP, MG
- Pockets
- 6 · best druggability 0.62
Structure
x-ray diffraction · 2 distinct chains · 46% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | ATP-dependent RNA helicase MSS116 (EC 3.6.1.-) | protein | 509 | 46% helix, 17% strand | P15424 |
| B | 5'-R(*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3' | rna | 10 | — | — |
Ligands and binding sites
- ANP · Phosphoaminophosphonic acid-adenylate ester · ligand · chains A
- MG · Magnesium ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 244 | 0.62 | 0.81 | 40 | ANP, MG |
| 2 | 193 | 0.50 | 0.77 | 34 | empty |
| 3 | 138 | 0.40 | 0.74 | 25 | empty |
| 4 | 61 | 0.35 | 0.77 | 14 | empty |
| 5 | 77 | 0.30 | 0.74 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 1132 Ų buried · 34 hydrogen bonds · protein-nucleic
Compared structures
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 P15424
- Elsewhere: RCSB PDB 3I5X · PDBe 3I5X · UniProt P15424
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.