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The Crystal Structure of a Pathogenic Protein from the Xanthomonas campestris Reveals a New Tetrameric PilZ Domain Self-Assembled via a Unusual Helical Bundle
Analyse The Crystal Structure of a Pathogenic Protein from the Xanthomonas campestris… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3PH1
- Type
- protein
- Length
- 715 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.1
- Source
- Xanthomonas campestris pv. campestris
- Molecule
- Putative uncharacterized protein
- UniProt
- B0RT03
- Pockets
- 7 · best druggability 0.80
Structure
x-ray diffraction · resolution 2.1 · 4 distinct chains · 37% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Putative uncharacterized protein | protein | 180 | 37% helix, 26% strand | B0RT03 |
| B | Putative uncharacterized protein | protein | 168 | 36% helix, 29% strand | B0RT03 |
| C | Putative uncharacterized protein | protein | 185 | 38% helix, 25% strand | B0RT03 |
| D | Putative uncharacterized protein | protein | 182 | 37% helix, 27% strand | B0RT03 |
Ligands and binding sites
- ACT · Acetate ion · additive · 4 copies · chains A, D, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 823 | 0.80 | 0.83 | 81 | ACT |
| 2 | 770 | 0.78 | 0.82 | 77 | ACT |
| 3 | 674 | 0.76 | 0.82 | 65 | ACT |
| 4 | 445 | 0.68 | 0.80 | 59 | ACT |
| 5 | 122 | 0.57 | 0.82 | 22 | empty |
Interfaces
6 interfaces between chains.
- A–D · 1269 Ų buried · 14 hydrogen bonds · protein-protein
- C–D · 1188 Ų buried · 16 hydrogen bonds · protein-protein
- A–B · 1155 Ų buried · 15 hydrogen bonds · protein-protein
- B–C · 1017 Ų buried · 7 hydrogen bonds · protein-protein
- A–C · 78 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 3PH1 · The crystal structure of a pathogenic protein from the xanthomonas campestris reveals a… · 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 B0RT03
- Elsewhere: RCSB PDB 3PH1 · PDBe 3PH1 · UniProt B0RT03
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