MolNFT v1 · #139057 · protein
Crystal structure of the ygjg-protein a-ZPA963-PKA catalytic domain
5X3F · Putrescine AMINOTRANSFERASE,IMMUNOGLOBULIN G-binding…: “Crystal structure of the ygjg-protein a-ZPA963-PKA catalytic domain”. X-ray diffraction, 6 pockets (best druggability 0.68). MolNFT v1 #139057 on GenesisL1: 3D structure…
- PDB
- 5X3F
- Type
- protein
- Length
- 842 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putrescine AMINOTRANSFERASE,IMMUNOGLOBULIN G-binding protein a; ZPA963,CAMP-dependent…
- EC
- 2.6.1.82, 2.7.11.11
- UniProt
- P42588, P38507, P05132
- Pockets
- 6 · best druggability 0.68
Structure
x-ray diffraction · 2 distinct chains · 48% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Putrescine AMINOTRANSFERASE,IMMUNOGLOBULIN G-binding protein a (EC 2.6.1.82) | protein | 493 | 49% helix, 15% strand | P42588, P38507 |
| B | ZPA963,CAMP-dependent protein kinase catalytic subunit alpha (EC 2.7.11.11) | protein | 349 | 46% helix, 15% strand | P05132 |
Pockets
6 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 606 | 0.68 | 0.77 | 68 | empty |
| 2 | 492 | 0.68 | 0.78 | 53 | empty |
| 3 | 434 | 0.65 | 0.78 | 45 | empty |
| 4 | 241 | 0.50 | 0.75 | 23 | empty |
| 5 | 72 | 0.48 | 0.83 | 13 | empty |
Interfaces
1 interface between chains.
- A–B · 679 Ų buried · 4 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 modified (phosphorylation).
Compared structures
- 5X3F · Crystal structure of the YgjG-Protein A-Zpa963-PKA catalytic domain · the same entry in another collection · chain A against A, TM-score 1.00
- P42588 · AlphaFold monomer V2.0 prediction for putrescine aminotransferase (P42588) · a predicted model of the same protein · chain A against A, TM-score 0.91
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 P42588
- Every structure of UniProt P38507
- Every structure of UniProt P05132
- Elsewhere: RCSB PDB 5X3F · PDBe 5X3F · UniProt P42588 · UniProt P38507 · UniProt P05132
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