Research workbench
Crystal structure of salmonella zinc metalloprotease effector gtga in complex with P65
Analyse Crystal structure of salmonella zinc metalloprotease effector gtga in complex… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6GGR
- Type
- protein
- Length
- 359 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Transcription factor P65; Bacteriophage virulence determinant
- UniProt
- Q04207, A0A0F6AZI6
- Ligands
- CL
- Pockets
- 4 · best druggability 0.70
Structure
x-ray diffraction · 2 distinct chains · 28% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Transcription factor P65 | protein | 168 | 10% helix, 36% strand | Q04207 |
| B | Bacteriophage virulence determinant | protein | 191 | 44% helix, 11% strand | A0A0F6AZI6 |
Ligands and binding sites
- CL · Chloride ion · ion · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 401 | 0.70 | 0.82 | 59 | CL |
| 2 | 94 | 0.40 | 0.77 | 21 | empty |
| 3 | 79 | 0.35 | 0.76 | 21 | empty |
| 4 | 53 | 0.33 | 0.77 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 1227 Ų buried · 22 hydrogen bonds · protein-protein
Compared structures
- 6GGR · Crystal structure of Salmonella zinc metalloprotease effector GtgA in complex with p65 · the same entry in another collection · chain A against A, TM-score 1.00
- Q04207 · AlphaFold monomer V2.0 prediction for transcription factor P65 (Q04207) · a predicted model of the same protein · chain A against A, TM-score 0.97
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 Q04207
- Every structure of UniProt A0A0F6AZI6
- Elsewhere: RCSB PDB 6GGR · PDBe 6GGR · UniProt Q04207 · UniProt A0A0F6AZI6
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