Research workbench
Conserved hypothetical protein from clostridium thermocellum cth-2968
Analyse Conserved hypothetical protein from clostridium thermocellum cth-2968 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1XRG
- Type
- protein
- Length
- 400 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative translation initiation inhibitor, yjgf family
- Ligands
- UNX
- Pockets
- 6 · best druggability 0.81
Structure
x-ray diffraction · 3 distinct chains · 27% helix, 32% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Putative translation initiation inhibitor, yjgf family | protein | 125 | 29% helix, 30% strand | — |
| B | Putative translation initiation inhibitor, yjgf family | protein | 138 | 25% helix, 32% strand | — |
| C | Putative translation initiation inhibitor, yjgf family | protein | 137 | 28% helix, 33% strand | — |
Ligands and binding sites
- UNX · Unknown atom or ion · ion · 17 copies · chains A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
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 | 130 | 0.81 | 0.99 | 26 | UNX |
| 2 | 178 | 0.60 | 0.82 | 24 | empty |
| 3 | 174 | 0.58 | 0.82 | 23 | empty |
| 4 | 194 | 0.58 | 0.80 | 22 | UNX |
| 5 | 84 | 0.42 | 0.79 | 24 | UNX |
Interfaces
3 interfaces between chains.
- B–C · 1252 Ų buried · 20 hydrogen bonds · protein-protein
- A–B · 1226 Ų buried · 20 hydrogen bonds · protein-protein
- A–C · 1012 Ų buried · 12 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 5 modified (engineered).
Compared structures
- 1XRG · Conserved hypothetical protein from Clostridium thermocellum Cth-2968 · 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
- Elsewhere: RCSB PDB 1XRG · PDBe 1XRG
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