Research workbench
E. COLI reco complex with ssb C-terminus
Analyse E. COLI reco complex with ssb C-terminus in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3Q8D
- Type
- protein
- Length
- 469 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA repair protein reco; Single-stranded DNA-binding protein
- UniProt
- D5CXR1, D5D6S3
- Ligands
- MLT, CPS
- Pockets
- 2 · best druggability 0.65
Structure
x-ray diffraction · 3 distinct chains · 37% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DNA repair protein reco | protein | 231 | 36% helix, 23% strand | D5CXR1 |
| B | DNA repair protein reco | protein | 232 | 38% helix, 23% strand | D5CXR1 |
| E, F | Single-stranded DNA-binding protein | protein | 3 | 0% helix, 0% strand | D5D6S3 |
Ligands and binding sites
- MLT · D-malate · ligand · chains A, B
- CPS · 3-[(3-cholamidopropyl)dimethylammonio]-1-propanesulfonate · ligand · chains B
- GOL · Glycerol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 268 | 0.65 | 0.82 | 40 | MLT |
| 2 | 51 | 0.32 | 0.78 | 14 | empty |
Interfaces
3 interfaces between chains.
- A–B · 881 Ų buried · 13 hydrogen bonds · protein-protein
- B–F · 302 Ų buried · 5 hydrogen bonds · protein-protein
- A–E · 289 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 3Q8D · E. coli RecO complex with SSB C-terminus · 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 D5CXR1
- Every structure of UniProt D5D6S3
- Elsewhere: RCSB PDB 3Q8D · PDBe 3Q8D · UniProt D5CXR1 · UniProt D5D6S3
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.