Research workbench
Crystal structure of an uncharacterized protein from Helicobacter pylori G27
Analyse Crystal structure of an uncharacterized protein from Helicobacter pylori G27 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6MTZ
- Type
- protein
- Length
- 691 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.15
- Source
- Helicobacter pylori (strain G27)
- Molecule
- HepC.19480.a.B1
- UniProt
- B5Z6F2
- Ligands
- IOD, CL
- Pockets
- 7 · best druggability 0.69
Structure
x-ray diffraction · resolution 2.15 · 2 distinct chains · 49% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | HepC.19480.a.B1 | protein | 344 | 48% helix, 17% strand | B5Z6F2 |
| B | HepC.19480.a.B1 | protein | 347 | 50% helix, 17% strand | B5Z6F2 |
Ligands and binding sites
- IOD · Iodide ion · ion · 30 copies · chains A, B
- CL · Chloride ion · ion · 4 copies · chains A, B
- EDO · 1,2-ethanediol · additive · 7 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 133 | 0.69 | 0.90 | 21 | EDO, IOD |
| 2 | 682 | 0.68 | 0.76 | 63 | IOD |
| 3 | 293 | 0.56 | 0.76 | 28 | IOD |
| 4 | 208 | 0.50 | 0.76 | 24 | empty |
| 5 | 142 | 0.40 | 0.74 | 20 | CL |
Interfaces
1 interface between chains.
- A–B · 961 Ų buried · 16 hydrogen bonds · protein-protein
Compared structures
- 6MTZ · Crystal structure of an uncharacterized protein from helicobacter pylori G27 · 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 B5Z6F2
- Elsewhere: RCSB PDB 6MTZ · PDBe 6MTZ · UniProt B5Z6F2
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