Research workbench
PKA riibeta holoenzyme with DNAJB1-pkac fusion in fibrolamellar hepatoceullar carcinoma
Analyse PKA riibeta holoenzyme with DNAJB1-pkac fusion in fibrolamellar hepatoceullar… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6WJG
- Type
- protein
- Length
- 944 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Dnaj homolog subfamily B member 1, camp-dependent protein kinase catalytic subunit alpha…
- EC
- 2.7.11.11
- UniProt
- P25685, P17612, P12369
- Pockets
- 20 · best druggability 0.86
Structure
electron microscopy · 2 distinct chains · 27% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Dnaj homolog subfamily B member 1, camp-dependent protein kinase catalytic subunit alpha fusion (EC 2.7.11.11) | protein | 310 | 27% helix, 13% strand | P25685, P17612 |
| C, D | Camp-dependent protein kinase type II-beta regulatory subunit | protein | 162 | 27% helix, 16% strand | P12369 |
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 | 664 | 0.86 | 0.89 | 75 | empty |
| 2 | 596 | 0.84 | 0.89 | 86 | empty |
| 3 | 522 | 0.83 | 0.89 | 75 | empty |
| 4 | 566 | 0.81 | 0.87 | 70 | empty |
| 5 | 480 | 0.81 | 0.88 | 49 | empty |
Interfaces
6 interfaces between chains.
- A–C · 1303 Ų buried · 5 hydrogen bonds · protein-protein
- B–D · 1272 Ų buried · 5 hydrogen bonds · protein-protein
- B–C · 647 Ų buried · 10 hydrogen bonds · protein-protein
- A–D · 604 Ų buried · 9 hydrogen bonds · protein-protein
- C–D · 517 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 6WJG · PKA RIIbeta holoenzyme with DnaJB1-PKAc fusion in fibrolamellar hepatoceullar carcinoma · the same entry in another collection · chain D against D, TM-score 1.00
- P17612 · AlphaFold monomer V2.0 prediction for camp-dependent protein kinase catalytic subunit… · a predicted model of the same protein · chain A against A, TM-score 0.91
- P12369 · AlphaFold monomer V2.0 prediction for camp-dependent protein kinase type II-beta… · a predicted model of the same protein · chain C against A, TM-score 0.86
- P25685 · AlphaFold monomer V2.0 prediction for dnaj homolog subfamily B member 1 (P25685) · a predicted model of the same protein · chain A against A, TM-score 0.22
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 P25685
- Every structure of UniProt P17612
- Every structure of UniProt P12369
- Elsewhere: RCSB PDB 6WJG · PDBe 6WJG · UniProt P25685 · UniProt P17612 · UniProt P12369
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