Research workbench
Crystal structure of the eukaryotic ribosome associated complex (rac), a unique HSP70/HSP40 pair
Analyse Crystal structure of the eukaryotic ribosome associated complex (rac), a unique… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5MB9
- Type
- protein
- Length
- 1,060 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative heat shock protein; Putative ribosome associated protein
- UniProt
- G0RZX9, G0RYD6
- Ligands
- ATP, MG
- Pockets
- 13 · best druggability 0.83
Structure
x-ray diffraction · 4 distinct chains · 34% helix, 32% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Putative heat shock protein | protein | 505 | 32% helix, 33% strand | G0RZX9 |
| B | Putative heat shock protein | protein | 491 | 34% helix, 32% strand | G0RZX9 |
| C | Putative ribosome associated protein | protein | 29 | 55% helix, 17% strand | G0RYD6 |
| D | Putative ribosome associated protein | protein | 35 | 43% helix, 26% strand | G0RYD6 |
Ligands and binding sites
- ATP · Adenosine-5'-triphosphate · ligand · 2 copies · chains A, B
- MG · Magnesium ion · metal · 2 copies · chains A, B
- GOL · Glycerol · additive · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
13 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 860 | 0.83 | 0.85 | 98 | ATP, MG |
| 2 | 504 | 0.78 | 0.86 | 67 | ATP, MG |
| 3 | 68 | 0.67 | 0.94 | 17 | empty |
| 4 | 58 | 0.54 | 0.87 | 17 | empty |
| 5 | 73 | 0.50 | 0.84 | 18 | empty |
Interfaces
3 interfaces between chains.
- A–D · 1838 Ų buried · 27 hydrogen bonds · protein-protein
- B–C · 1505 Ų buried · 18 hydrogen bonds · protein-protein
- A–B · 379 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 5MB9 · Crystal structure of the eukaryotic ribosome associated complex (RAC), a unique… · 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 G0RZX9
- Every structure of UniProt G0RYD6
- Elsewhere: RCSB PDB 5MB9 · PDBe 5MB9 · UniProt G0RZX9 · UniProt G0RYD6
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