MolNFT v1 · #72479 · protein
Crystal structure of the complex between the 25 kda subunit and the 59 kda subunit (rrm domain) of human cleavage factor im
3N9U · Cleavage and polyadenylation specificity factor subunit 5: “Crystal structure of the complex between the 25 kda subunit and the 59 kda subunit (rrm domain) of human…”. X-ray diffraction, 9 pockets (best druggability 0.69). MolNFT v1…
- PDB
- 3N9U
- Type
- protein
- Length
- 590 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cleavage and polyadenylation specificity factor subunit 5; Cleavage and polyadenylation…
- UniProt
- O43809, Q8N684
- Pockets
- 9 · best druggability 0.69
Structure
x-ray diffraction · 4 distinct chains · 26% helix, 35% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Cleavage and polyadenylation specificity factor subunit 5 | protein | 206 | 23% helix, 37% strand | O43809 |
| B | Cleavage and polyadenylation specificity factor subunit 5 | protein | 201 | 23% helix, 38% strand | O43809 |
| C | Cleavage and polyadenylation specificity factor subunit 7 | protein | 96 | 36% helix, 31% strand | Q8N684 |
| I | Cleavage and polyadenylation specificity factor subunit 7 | protein | 87 | 30% helix, 28% strand | Q8N684 |
Ligands and binding sites
- GOL · Glycerol · additive · 3 copies · chains A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 554 | 0.69 | 0.78 | 48 | GOL |
| 2 | 550 | 0.68 | 0.78 | 47 | GOL |
| 3 | 181 | 0.53 | 0.78 | 33 | empty |
| 4 | 152 | 0.50 | 0.78 | 31 | empty |
| 5 | 133 | 0.50 | 0.80 | 18 | empty |
Interfaces
5 interfaces between chains.
- A–B · 1436 Ų buried · 14 hydrogen bonds · protein-protein
- B–C · 584 Ų buried · 14 hydrogen bonds · protein-protein
- A–I · 537 Ų buried · 11 hydrogen bonds · protein-protein
- B–I · 331 Ų buried · 1 hydrogen bond · protein-protein
- A–C · 275 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 3N9U · Crystal Structure of the Complex between the 25 kDa Subunit and the 59 kDa Subunit (RRM… · the same entry in another collection · chain I against I, TM-score 1.00
- Q8N684 · AlphaFold monomer V2.0 prediction for cleavage and polyadenylation specificity factor… · a predicted model of the same protein · chain C against A, TM-score 0.99
- O43809 · AlphaFold monomer V2.0 prediction for cleavage and polyadenylation specificity factor… · a predicted model of the same protein · chain B against A, TM-score 0.99
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 O43809
- Every structure of UniProt Q8N684
- Elsewhere: RCSB PDB 3N9U · PDBe 3N9U · UniProt O43809 · UniProt Q8N684
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