Research workbench
Crystal structure of the conserved hypothetical cytosolic protein XCC0516 from xanthomonas campestris
Analyse Crystal structure of the conserved hypothetical cytosolic protein XCC0516 from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2GSC
- Type
- protein
- Length
- 567 residues
- Chains
- 5
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative uncharacterized protein XCC0516
- UniProt
- Q8PD29
- Pockets
- 8 · best druggability 0.73
Structure
x-ray diffraction · 5 distinct chains · 83% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Putative uncharacterized protein XCC0516 | protein | 113 | 84% helix, 0% strand | Q8PD29 |
| B | Putative uncharacterized protein XCC0516 | protein | 117 | 81% helix, 0% strand | Q8PD29 |
| C | Putative uncharacterized protein XCC0516 | protein | 110 | 84% helix, 0% strand | Q8PD29 |
| D | Putative uncharacterized protein XCC0516 | protein | 115 | 82% helix, 0% strand | Q8PD29 |
| E | Putative uncharacterized protein XCC0516 | protein | 112 | 85% helix, 0% strand | Q8PD29 |
Pockets
8 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1135 | 0.73 | 0.77 | 105 | empty |
| 2 | 70 | 0.59 | 0.90 | 17 | empty |
| 3 | 76 | 0.58 | 0.88 | 18 | empty |
| 4 | 69 | 0.52 | 0.86 | 18 | empty |
| 5 | 71 | 0.41 | 0.80 | 23 | empty |
Interfaces
5 interfaces between chains.
- A–B · 1307 Ų buried · 16 hydrogen bonds · protein-protein
- D–E · 1111 Ų buried · 19 hydrogen bonds · protein-protein
- C–D · 999 Ų buried · 18 hydrogen bonds · protein-protein
- B–C · 973 Ų buried · 17 hydrogen bonds · protein-protein
- A–E · 953 Ų buried · 16 hydrogen bonds · protein-protein
Compared structures
- 2GSC · Crystal Structure of the Conserved Hypothetical Cytosolic Protein Xcc0516 from… · the same entry in another collection · chain B against B, 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 Q8PD29
- Elsewhere: RCSB PDB 2GSC · PDBe 2GSC · UniProt Q8PD29
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