MolNFT v1 · #46506 · protein
Structure of native RTP34 from treponema pallidum from zinc-soaked crystals
2O6E · 34 kda membrane antigen: “Structure of native RTP34 from treponema pallidum from zinc-soaked crystals”. X-ray diffraction, 3 ligands (ZN, SO4, CL), 3 pockets (best druggability 0.56). MolNFT v1 #46506 on GenesisL1: 3D structure…
- PDB
- 2O6E
- Type
- protein
- Length
- 315 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 34 kda membrane antigen
- UniProt
- P19478
- Ligands
- ZN, SO4, CL
- Pockets
- 3 · best druggability 0.56
Structure
x-ray diffraction · 2 distinct chains · 4% helix, 46% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | 34 kda membrane antigen | protein | 158 | 4% helix, 46% strand | P19478 |
| B | 34 kda membrane antigen | protein | 157 | 4% helix, 46% strand | P19478 |
Ligands and binding sites
- ZN · Zinc ion · metal · 8 copies · chains A, B
- SO4 · Sulfate ion · ion · 2 copies · chains A, B
- CL · Chloride ion · ion · 2 copies · chains A, B
- EDO · 1,2-ethanediol · additive · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 343 | 0.56 | 0.75 | 62 | empty |
| 2 | 103 | 0.42 | 0.77 | 22 | ZN |
| 3 | 50 | 0.33 | 0.78 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 1730 Ų buried · 30 hydrogen bonds · protein-protein
Compared structures
- 2O6E · Structure of native rTp34 from Treponema pallidum from zinc-soaked crystals · the same entry in another collection · chain A against A, TM-score 1.00
- P19478 · AlphaFold monomer V2.0 prediction for 34 kda membrane antigen (P19478) · a predicted model of the same protein · 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 P19478
- Elsewhere: RCSB PDB 2O6E · PDBe 2O6E · UniProt P19478
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