Research workbench
Mooring stone-like ARG114 pulls diverse bulged peptides: first insight into african swine fever virus-derived T cell epitopes presented by swine major histocompatibility complex class I
Analyse Mooring stone-like ARG114 pulls diverse bulged peptides: first insight into… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7EMC
- Type
- protein
- Length
- 1,146 residues
- Chains
- 9
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Leucocyte antigen; Beta-2-microglobulin; Ala-thr-glu-ile-arg-glu-leu-leu-val
- UniProt
- O19075, Q07717
- Pockets
- 13 · best druggability 0.69
Structure
x-ray diffraction · 3 distinct chains · 19% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, D, G | Leucocyte antigen | protein | 275 | 27% helix, 41% strand | O19075 |
| B, E, H | Beta-2-microglobulin | protein | 98 | 0% helix, 50% strand | Q07717 |
| C, F, I | Ala-thr-glu-ile-arg-glu-leu-leu-val | protein | 9 | 0% helix, 0% strand | — |
Pockets
13 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 508 | 0.69 | 0.79 | 53 | empty |
| 2 | 533 | 0.69 | 0.79 | 52 | empty |
| 3 | 534 | 0.69 | 0.79 | 52 | empty |
| 4 | 467 | 0.62 | 0.76 | 40 | empty |
| 5 | 422 | 0.59 | 0.75 | 38 | empty |
Interfaces
10 interfaces between chains.
- A–B · 1411 Ų buried · 27 hydrogen bonds · protein-protein
- G–H · 1400 Ų buried · 26 hydrogen bonds · protein-protein
- D–E · 1394 Ų buried · 27 hydrogen bonds · protein-protein
- G–I · 860 Ų buried · 25 hydrogen bonds · protein-protein
- A–C · 856 Ų buried · 22 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 9 disulfide (disulfide).
Compared structures
- 7EMC · Mooring Stone-Like Arg114 Pulls Diverse Bulged Peptides: First Insight into African Swine… · the same entry in another collection · chain F against F, TM-score 1.00
- Q07717 · AlphaFold monomer V2.0 prediction for beta-2-microglobulin (Q07717) · 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 O19075
- Every structure of UniProt Q07717
- Elsewhere: RCSB PDB 7EMC · PDBe 7EMC · UniProt O19075 · UniProt Q07717
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