Research workbench
Structure and function of the E. COLI protein ymgb: a protein critical for biofilm formation and acid resistance
Analyse Structure and function of the E. COLI protein ymgb: a protein critical for… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2OXL
- Type
- protein
- Length
- 124 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hypothetical protein ymgb
- UniProt
- P75993
- Pockets
- 1 · best druggability 0.58
Structure
x-ray diffraction · 1 distinct chain · 77% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Hypothetical protein ymgb | protein | 62 | 77% helix, 0% strand | P75993 |
Ligands and binding sites
- BOG · octyl beta-D-glucopyranoside · additive · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 103 | 0.58 | 0.85 | 19 | empty |
Interfaces
1 interface between chains.
- A–B · 656 Ų buried · 5 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 modified (engineered).
Compared structures
- 2OXL · Structure and Function of the E. coli Protein YmgB: a Protein Critical for Biofilm… · the same entry in another collection · chain A against A, TM-score 1.00
- P75993 · AlphaFold monomer V2.0 prediction for probable two-component-system connector protein… · 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 P75993
- Elsewhere: RCSB PDB 2OXL · PDBe 2OXL · UniProt P75993
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