Research workbench
The rhodococcus 20S proteasome with unprocessed pro-peptides
Analyse The rhodococcus 20S proteasome with unprocessed pro-peptides in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1Q5R
- Type
- protein
- Length
- 3,290 residues
- Chains
- 14
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Proteasome alpha-type subunit 1; Proteasome beta-type subunit 1
- EC
- 3.4.25.1
- UniProt
- Q53080, Q53079
- Pockets
- 20 · best druggability 0.81
Structure
x-ray diffraction · 2 distinct chains · 37% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G | Proteasome alpha-type subunit 1 (EC 3.4.25.1) | protein | 219 | 37% helix, 23% strand | Q53080 |
| H, I, J, K, L, M, N | Proteasome beta-type subunit 1 | protein | 251 | 37% helix, 25% strand | Q53079 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1110 | 0.81 | 0.82 | 144 | empty |
| 2 | 962 | 0.80 | 0.82 | 124 | empty |
| 3 | 986 | 0.80 | 0.82 | 125 | empty |
| 4 | 706 | 0.80 | 0.84 | 96 | empty |
| 5 | 980 | 0.80 | 0.82 | 111 | empty |
Interfaces
28 interfaces between chains.
- G–N · 1026 Ų buried · 13 hydrogen bonds · protein-protein
- D–K · 1025 Ų buried · 12 hydrogen bonds · protein-protein
- F–M · 1024 Ų buried · 13 hydrogen bonds · protein-protein
- A–H · 1023 Ų buried · 13 hydrogen bonds · protein-protein
- C–J · 1022 Ų buried · 12 hydrogen bonds · protein-protein
Compared structures
- 1Q5R · The Rhodococcus 20S proteasome with unprocessed pro-peptides · the same entry in another collection · chain N against N, 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 Q53080
- Every structure of UniProt Q53079
- Elsewhere: RCSB PDB 1Q5R · PDBe 1Q5R · UniProt Q53080 · UniProt Q53079
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