Research workbench
Architecture and DNA recognition elements of the fanconi anemia fancm- FAAP24 complex
Analyse Architecture and DNA recognition elements of the fanconi anemia fancm- FAAP24… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4BXO
- Type
- protein + DNA
- Length
- 420 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Fanconi anemia group M protein; Fanconi anemia-associated protein of 24 kda…
- EC
- 3.6.4.13
- UniProt
- Q8IYD8, Q9BTP7
- Ligands
- CA
- Pockets
- 5 · best druggability 0.53
Structure
x-ray diffraction · 4 distinct chains · 50% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Fanconi anemia group M protein (EC 3.6.4.13) | protein | 202 | 51% helix, 15% strand | Q8IYD8 |
| B | Fanconi anemia-associated protein of 24 kda | protein | 196 | 48% helix, 15% strand | Q9BTP7 |
| H | 5'-D(*TP*CP*AP*GP*CP*AP*TP*CP*AP*TP*CP)-3' | dna | 11 | — | — |
| I | 5'-D(*GP*AP*TP*GP*AP*TP*GP*CP*TP*GP*CP)-3' | dna | 11 | — | — |
Ligands and binding sites
- CA · Calcium ion · metal · 4 copies · chains A, B, I, H
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 210 | 0.53 | 0.77 | 41 | empty |
| 2 | 119 | 0.48 | 0.80 | 22 | empty |
| 3 | 182 | 0.44 | 0.75 | 27 | empty |
| 4 | 81 | 0.37 | 0.76 | 16 | empty |
| 5 | 66 | 0.28 | 0.73 | 13 | empty |
Interfaces
4 interfaces between chains.
- A–B · 2297 Ų buried · 30 hydrogen bonds · protein-protein
- H–I · 503 Ų buried · 50 hydrogen bonds · nucleic-nucleic
- B–I · 198 Ų buried · 8 hydrogen bonds · protein-nucleic
- B–H · 173 Ų buried · 7 hydrogen bonds · protein-nucleic
Compared structures
- 4BXO · Architecture and DNA recognition elements of the Fanconi anemia FANCM- FAAP24 complex · the same entry in another collection · chain A against A, TM-score 1.00
- Q8IYD8 · AlphaFold monomer V2.0 prediction for fanconi anemia group M protein (Q8IYD8) · a predicted model of the same protein · chain A against A, TM-score 0.96
- Q9BTP7 · AlphaFold monomer V2.0 prediction for fanconi anemia core complex- associated protein 24… · a predicted model of the same protein · chain B against A, TM-score 0.96
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 Q8IYD8
- Every structure of UniProt Q9BTP7
- Elsewhere: RCSB PDB 4BXO · PDBe 4BXO · UniProt Q8IYD8 · UniProt Q9BTP7
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.