Research workbench
Structure of S. cerevisiae HRR25:MAM1 complex, form 1
Analyse Structure of S. cerevisiae HRR25:MAM1 complex, form 1 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5CYZ
- Type
- protein
- Length
- 471 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Casein kinase I homolog HRR25; Monopolin complex subunit MAM1
- EC
- 2.7.11.1
- UniProt
- P29295, P40065
- Ligands
- ZN
- Pockets
- 6 · best druggability 0.64
Structure
x-ray diffraction · 2 distinct chains · 46% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Casein kinase I homolog HRR25 (EC 2.7.11.1) | protein | 369 | 44% helix, 15% strand | P29295 |
| C | Monopolin complex subunit MAM1 | protein | 102 | 51% helix, 2% strand | P40065 |
Ligands and binding sites
- ZN · Zinc ion · metal · chains C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 51 | 0.64 | 0.95 | 17 | empty |
| 2 | 238 | 0.63 | 0.82 | 38 | empty |
| 3 | 170 | 0.54 | 0.80 | 26 | empty |
| 4 | 120 | 0.42 | 0.76 | 27 | empty |
| 5 | 71 | 0.33 | 0.75 | 13 | empty |
Interfaces
1 interface between chains.
- A–C · 2900 Ų buried · 37 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 19 modified (methylation).
Compared structures
- 5CYZ · Structure of S. cerevisiae Hrr25:Mam1 complex, form 1 · the same entry in another collection · chain A against A, TM-score 1.00
- P40065 · AlphaFold monomer V2.0 prediction for monopolin complex subunit MAM1 (P40065) · a predicted model of the same protein · chain C against A, TM-score 0.99
- P29295 · AlphaFold monomer V2.0 prediction for casein kinase I homolog HRR25 (P29295) · a predicted model of the same protein · chain A 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 P29295
- Every structure of UniProt P40065
- Elsewhere: RCSB PDB 5CYZ · PDBe 5CYZ · UniProt P29295 · UniProt P40065
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