Research workbench
Pseudo-atomic model of the AKAP18-PKA complex in a linear conformation derived from electron microscopy
Analyse Pseudo-atomic model of the AKAP18-PKA complex in a linear conformation derived… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3J4R
- Type
- protein
- Length
- 1,644 residues
- Chains
- 5
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- A-kinase anchor protein 18; Camp-dependent protein kinase type II-alpha regulatory…
- EC
- 2.7.11.11
- UniProt
- Q8K1M3, P05132
- Pockets
- 20 · best druggability 0.72
Structure
electron microscopy · 3 distinct chains · 36% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | A-kinase anchor protein 18 | protein | 230 | 39% helix, 24% strand | — |
| B, C | Camp-dependent protein kinase type II-alpha regulatory subunit | protein | 382 | 33% helix, 25% strand | Q8K1M3 |
| D, E | Camp-dependent protein kinase catalytic subunit alpha (EC 2.7.11.11) | protein | 325 | 37% helix, 13% strand | P05132 |
Pockets
20 pockets found on a 1 Å grid, 12 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 948 | 0.72 | 0.76 | 66 | empty |
| 2 | 943 | 0.71 | 0.75 | 71 | empty |
| 3 | 570 | 0.69 | 0.78 | 64 | empty |
| 4 | 280 | 0.61 | 0.80 | 41 | empty |
| 5 | 339 | 0.60 | 0.77 | 34 | empty |
Interfaces
5 interfaces between chains.
- B–D · 1746 Ų buried · 28 hydrogen bonds · protein-protein
- C–E · 1734 Ų buried · 26 hydrogen bonds · protein-protein
- B–C · 734 Ų buried · 0 hydrogen bonds · protein-protein
- A–C · 313 Ų buried · 0 hydrogen bonds · protein-protein
- A–B · 309 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 3J4R · Pseudo-atomic model of the AKAP18-PKA Complex in a linear conformation derived from… · 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 Q8K1M3
- Every structure of UniProt P05132
- Elsewhere: RCSB PDB 3J4R · PDBe 3J4R · UniProt Q8K1M3 · UniProt P05132
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