Research workbench
Escherichia COLI replication terminator protein (tus) complexed with DNA- locked form
Analyse Escherichia COLI replication terminator protein (tus) complexed with DNA… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2EWJ
- Type
- protein + DNA
- Length
- 331 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 5'-D(*T*TP*AP*GP*TP*TP*AP*CP*AP*AP*CP*AP*TP*AP*CP*T)-3'…
- UniProt
- P16525
- Ligands
- IOD
- Pockets
- 6 · best druggability 0.62
Structure
x-ray diffraction · 3 distinct chains · 39% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | 5'-D(*T*TP*AP*GP*TP*TP*AP*CP*AP*AP*CP*AP*TP*AP*CP*T)-3' | dna | 14 | — | — |
| C | 5'-D(*TP*G*AP*TP*AP*TP*GP*TP*TP*GP*TP*AP*AP*CP*TP*A)-3' | dna | 12 | — | — |
| A | DNA replication terminus site-binding protein | protein | 305 | 39% helix, 27% strand | P16525 |
Ligands and binding sites
- IOD · Iodide ion · ion · 3 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 183 | 0.62 | 0.83 | 33 | empty |
| 2 | 366 | 0.59 | 0.76 | 25 | IOD |
| 3 | 104 | 0.42 | 0.77 | 20 | empty |
| 4 | 104 | 0.40 | 0.77 | 14 | empty |
| 5 | 79 | 0.34 | 0.76 | 15 | empty |
Interfaces
3 interfaces between chains.
- B–A · 1716 Ų buried · 28 hydrogen bonds · protein-nucleic
- C–A · 1186 Ų buried · 16 hydrogen bonds · protein-nucleic
- B–C · 528 Ų buried · 38 hydrogen bonds · nucleic-nucleic
Compared structures
- 2EWJ · Escherichia Coli Replication Terminator Protein (Tus) Complexed With DNA- Locked form · the same entry in another collection · chain B against B, TM-score 1.00
- P16525 · AlphaFold monomer V2.0 prediction for DNA replication terminus site- binding protein… · a predicted model of the same protein · chain A against A, TM-score 0.99
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 P16525
- Elsewhere: RCSB PDB 2EWJ · PDBe 2EWJ · UniProt P16525
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.