Research workbench
1.7 ångström crystal structure of post-splicing form of a dnae intein from synechocystis sp. pcc 6803
Analyse 1.7 ångström crystal structure of post-splicing form of a dnae intein from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1ZD7
- Type
- protein
- Length
- 318 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA polymerase III alpha subunit
- EC
- 2.7.7.7
- UniProt
- P74750
- Ligands
- SO4
- Pockets
- 1 · best druggability 0.39
Structure
x-ray diffraction · 1 distinct chain · 16% helix, 52% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | DNA polymerase III alpha subunit (EC 2.7.7.7) | protein | 159 | 16% helix, 52% strand | P74750 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 4 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 104 | 0.39 | 0.75 | 19 | empty |
Interfaces
1 interface between chains.
- A–B · 360 Ų buried · 9 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 modified (engineered).
Compared structures
- 1ZD7 · 1.7 Angstrom Crystal Structure Of Post-Splicing Form of a dnaE Intein from Synechocystis… · the same entry in another collection · chain A against A, TM-score 1.00
- P74750 · AlphaFold monomer V2.0 prediction for DNA polymerase III subunit alpha (P74750) · a predicted model of the same protein · chain B 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 P74750
- Elsewhere: RCSB PDB 1ZD7 · PDBe 1ZD7 · UniProt P74750
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.