MolNFT v1 · #141177 · protein
Crystal structure of staphylococcus aureus single-stranded DNA-binding protein ssbb
5YYU: “Crystal structure of staphylococcus aureus single-stranded DNA-binding protein ssbb”. X-ray diffraction, 3 pockets (best druggability 0.48). MolNFT v1 #141177 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5YYU
- Type
- protein
- Length
- 399 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Single-stranded DNA-binding protein
- Pockets
- 3 · best druggability 0.48
Structure
x-ray diffraction · 4 distinct chains · 10% helix, 58% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Single-stranded DNA-binding protein | protein | 106 | 9% helix, 55% strand | — |
| B | Single-stranded DNA-binding protein | protein | 104 | 10% helix, 58% strand | — |
| C | Single-stranded DNA-binding protein | protein | 101 | 10% helix, 57% strand | — |
| D | Single-stranded DNA-binding protein | protein | 88 | 11% helix, 61% strand | — |
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 166 | 0.48 | 0.77 | 32 | empty |
| 2 | 94 | 0.38 | 0.76 | 20 | empty |
| 3 | 112 | 0.35 | 0.73 | 22 | empty |
Interfaces
6 interfaces between chains.
- B–C · 1255 Ų buried · 16 hydrogen bonds · protein-protein
- A–D · 1119 Ų buried · 15 hydrogen bonds · protein-protein
- A–C · 475 Ų buried · 7 hydrogen bonds · protein-protein
- B–D · 455 Ų buried · 5 hydrogen bonds · protein-protein
- A–B · 260 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 5YYU · Crystal structure of Staphylococcus aureus single-stranded DNA-binding protein SsbB · 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
- Elsewhere: RCSB PDB 5YYU · PDBe 5YYU
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.