Research workbench
ERAP1 binds peptide C-terminus of a lpf sequence (aaaafkarkf)
Analyse ERAP1 binds peptide C-terminus of a lpf sequence (aaaafkarkf) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7MWC
- Type
- protein
- Length
- 1,593 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Endoplasmic reticulum aminopeptidase 1,LPF sequence
- EC
- 3.4.11.-, 3.4.1.1
- UniProt
- Q9NZ08
- Pockets
- 18 · best druggability 0.77
Structure
x-ray diffraction · 4 distinct chains · 59% helix, 7% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Endoplasmic reticulum aminopeptidase 1,LPF sequence (EC 3.4.11.-, 3.4.1.1) | protein | 396 | 59% helix, 7% strand | Q9NZ08 |
| B | Endoplasmic reticulum aminopeptidase 1,LPF sequence (EC 3.4.11.-, 3.4.1.1) | protein | 400 | 62% helix, 9% strand | Q9NZ08 |
| C | Endoplasmic reticulum aminopeptidase 1,LPF sequence (EC 3.4.11.-, 3.4.1.1) | protein | 399 | 58% helix, 8% strand | Q9NZ08 |
| D | Endoplasmic reticulum aminopeptidase 1,LPF sequence (EC 3.4.11.-, 3.4.1.1) | protein | 398 | 59% helix, 6% strand | Q9NZ08 |
Pockets
18 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 887 | 0.77 | 0.80 | 99 | empty |
| 2 | 773 | 0.74 | 0.79 | 63 | empty |
| 3 | 490 | 0.72 | 0.81 | 48 | empty |
| 4 | 387 | 0.69 | 0.81 | 55 | empty |
| 5 | 756 | 0.67 | 0.75 | 64 | empty |
Interfaces
3 interfaces between chains.
- A–D · 1473 Ų buried · 18 hydrogen bonds · protein-protein
- B–C · 1333 Ų buried · 12 hydrogen bonds · protein-protein
- A–B · 203 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 7MWC · ERAP1 binds peptide C-terminus of a LPF sequence (AAAAFKARKF) · the same entry in another collection · chain D against D, TM-score 1.00
- Q9NZ08 · AlphaFold monomer V2.0 prediction for endoplasmic reticulum aminopeptidase 1 (Q9NZ08) · a predicted model of the same protein · chain A against A, TM-score 0.98
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 Q9NZ08
- Elsewhere: RCSB PDB 7MWC · PDBe 7MWC · UniProt Q9NZ08
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