Research workbench
Pria helicase bound to ssb C-terminal tail peptide
Analyse Pria helicase bound to ssb C-terminal tail peptide in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4NL8
- Type
- protein
- Length
- 1,697 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Single-stranded DNA-binding protein; Primosome assembly protein pria
- UniProt
- G8W6B0, A6TGC5
- Ligands
- ZN
- Pockets
- 20 · best druggability 0.80
Structure
x-ray diffraction · 5 distinct chains · 33% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C, F | Single-stranded DNA-binding protein | protein | 3 | 0% helix, 0% strand | G8W6B0 |
| A | Primosome assembly protein pria | protein | 549 | 34% helix, 22% strand | A6TGC5 |
| D | Single-stranded DNA-binding protein | protein | 5 | 0% helix, 0% strand | G8W6B0 |
| B | Primosome assembly protein pria | protein | 566 | 33% helix, 23% strand | A6TGC5 |
| E | Primosome assembly protein pria | protein | 571 | 33% helix, 22% strand | A6TGC5 |
Ligands and binding sites
- ZN · Zinc ion · metal · 6 copies · chains A, B, E
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
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 | 396 | 0.80 | 0.89 | 76 | empty |
| 2 | 338 | 0.79 | 0.89 | 39 | empty |
| 3 | 729 | 0.79 | 0.83 | 91 | empty |
| 4 | 869 | 0.79 | 0.82 | 79 | empty |
| 5 | 292 | 0.78 | 0.90 | 53 | empty |
Interfaces
6 interfaces between chains.
- A–E · 638 Ų buried · 9 hydrogen bonds · protein-protein
- A–B · 566 Ų buried · 13 hydrogen bonds · protein-protein
- D–B · 333 Ų buried · 1 hydrogen bond · protein-protein
- F–E · 287 Ų buried · 2 hydrogen bonds · protein-protein
- C–A · 265 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 4NL8 · PriA Helicase Bound to SSB C-terminal Tail Peptide · the same entry in another collection · chain C against C, 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 G8W6B0
- Every structure of UniProt A6TGC5
- Elsewhere: RCSB PDB 4NL8 · PDBe 4NL8 · UniProt G8W6B0 · UniProt A6TGC5
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.