Research workbench
The crystal structure of the C-terminal domain of helicobacter pylori motb (residues 125-256).
Analyse The crystal structure of the C-terminal domain of helicobacter pylori motb… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3CYP
- Type
- protein
- Length
- 527 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Chemotaxis protein motb
- UniProt
- P56427
- Pockets
- 4 · best druggability 0.81
Structure
x-ray diffraction · 3 distinct chains · 44% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | Chemotaxis protein motb | protein | 129 | 44% helix, 18% strand | P56427 |
| C | Chemotaxis protein motb | protein | 134 | 42% helix, 17% strand | P56427 |
| D, E | Chemotaxis protein motb | protein | 132 | 45% helix, 17% strand | P56427 |
Pockets
4 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1095 | 0.81 | 0.83 | 103 | empty |
| 2 | 62 | 0.54 | 0.87 | 17 | empty |
| 3 | 61 | 0.52 | 0.87 | 16 | empty |
| 4 | 51 | 0.40 | 0.82 | 13 | empty |
Interfaces
6 interfaces between chains.
- C–D · 855 Ų buried · 17 hydrogen bonds · protein-protein
- B–E · 734 Ų buried · 8 hydrogen bonds · protein-protein
- B–C · 670 Ų buried · 3 hydrogen bonds · protein-protein
- D–E · 599 Ų buried · 5 hydrogen bonds · protein-protein
- C–E · 107 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 3CYP · The crystal structure of the C-terminal domain of Helicobacter pylori MotB (residues… · the same entry in another collection · chain B against B, TM-score 1.00
- P56427 · AlphaFold monomer V2.0 prediction for motility protein B (P56427) · a predicted model of the same protein · chain D against A, TM-score 0.82
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 P56427
- Elsewhere: RCSB PDB 3CYP · PDBe 3CYP · UniProt P56427
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