Research workbench
The C-di-gmp responsive global regulator clp links cell-cell signaling to virulence gene expression in xanthomonas campestris
Analyse The C-di-gmp responsive global regulator clp links cell-cell signaling to… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3IWZ
- Type
- protein
- Length
- 829 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Catabolite activation-like protein
- UniProt
- P22260
- Pockets
- 12 · best druggability 0.87
Structure
x-ray diffraction · 3 distinct chains · 39% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Catabolite activation-like protein | protein | 207 | 41% helix, 29% strand | P22260 |
| C | Catabolite activation-like protein | protein | 207 | 38% helix, 23% strand | P22260 |
| D | Catabolite activation-like protein | protein | 208 | 39% helix, 28% strand | P22260 |
Pockets
12 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 971 | 0.87 | 0.88 | 124 | empty |
| 2 | 109 | 0.78 | 0.97 | 23 | empty |
| 3 | 426 | 0.76 | 0.85 | 54 | empty |
| 4 | 357 | 0.62 | 0.78 | 44 | empty |
| 5 | 130 | 0.50 | 0.80 | 16 | empty |
Interfaces
4 interfaces between chains.
- A–D · 1756 Ų buried · 6 hydrogen bonds · protein-protein
- B–C · 1671 Ų buried · 4 hydrogen bonds · protein-protein
- A–B · 448 Ų buried · 11 hydrogen bonds · protein-protein
- A–C · 150 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 3IWZ · The c-di-GMP Responsive Global Regulator CLP Links Cell-Cell Signaling to Virulence Gene… · the same entry in another collection · chain D against D, TM-score 1.00
- P22260 · AlphaFold monomer V2.0 prediction for crp-like protein clp (P22260) · a predicted model of the same protein · chain B against A, TM-score 0.98
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 P22260
- Elsewhere: RCSB PDB 3IWZ · PDBe 3IWZ · UniProt P22260
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