Research workbench
Cyanophycin synthetase 1 from synechocystis sp. UTEX2470 with ATP and 16X(ASP-arg)
Analyse Cyanophycin synthetase 1 from synechocystis sp. UTEX2470 with ATP and… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7TXU
- Type
- protein
- Length
- 3,508 residues
- Chains
- 12
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cyanophycin synthase; 16X(ASP-arg)
- EC
- 6.3.2.29, 6.3.2.30
- UniProt
- A0A068N621
- Ligands
- ATP, MG, ZN
- Pockets
- 20 · best druggability 0.79
Structure
electron microscopy · 2 distinct chains · 33% helix, 21% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | Cyanophycin synthase (EC 6.3.2.29, 6.3.2.30) | protein | 869 | 34% helix, 21% strand | A0A068N621 |
| E, F, G, H, I, J, K, L | 16X(ASP-arg) | protein | 4 | 0% helix, 0% strand | — |
Ligands and binding sites
- ATP · Adenosine-5'-triphosphate · ligand · 8 copies · chains A, B, C, D
- MG · Magnesium ion · metal · 16 copies · chains A, B, J, C, K, D, I, L
- ZN · Zinc ion · metal · 4 copies · chains A, I, B, J, C, K, D, L
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
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 | 1020 | 0.79 | 0.80 | 91 | MG, ATP |
| 2 | 1010 | 0.79 | 0.80 | 89 | MG, ATP |
| 3 | 950 | 0.77 | 0.80 | 87 | MG, ATP |
| 4 | 1152 | 0.75 | 0.78 | 84 | MG, ATP |
| 5 | 656 | 0.72 | 0.79 | 56 | MG, ATP |
Interfaces
16 interfaces between chains.
- C–D · 1832 Ų buried · 9 hydrogen bonds · protein-protein
- A–B · 1807 Ų buried · 8 hydrogen bonds · protein-protein
- D–L · 732 Ų buried · 26 hydrogen bonds · protein-protein
- A–I · 732 Ų buried · 26 hydrogen bonds · protein-protein
- C–K · 728 Ų buried · 26 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 32 modified (nonstandard).
Compared structures
- 7TXU · Cyanophycin synthetase 1 from Synechocystis sp. UTEX2470 with ATP and 16x(Asp-Arg) · 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 A0A068N621
- Elsewhere: RCSB PDB 7TXU · PDBe 7TXU · UniProt A0A068N621
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