3EFX: PDB entry 3EFX
Novel binding site identified in a hybrid between cholera toxin and heat-labile enterotoxin, 1.9A crystal structure reveals the details. Determined by X-ray diffraction at 1.94 Å resolution. Released 23 Sept 2008.
- Method
- X-ray diffraction
- Resolution
- 1.94 Å
- Organism
- Vibrio cholerae
- Chains
- 10
- Atoms
- 8,860
- Mol. weight
- 124.44 kDa
- Released
- 23 Sept 2008
Explore 3EFX in 3D
Show helices and sheets
RCSB PDB
PDBe
Secondary structure: helices and β-sheets
3EFX contains 34 α-helices and 64 β-strands across 10 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.
Chain D: 4 helices, 6 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 5-10 | 6 | |
| β-strand | 15-22 | 8 | 1 |
| β-strand | 26-30 | 5 | 1 |
| β-strand | 38-41 | 4 | 1 |
| β-strand | 47-50 | 4 | 1 |
| α-helix | 51-53 | 3 | |
| α-helix | 62-78 | 17 | |
| α-helix | 80-81 | 2 | |
| β-strand | 82-88 | 7 | 1 |
| β-strand | 94-101 | 8 | 1 |
Chain E: 3 helices, 6 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 5-9 | 5 | |
| β-strand | 15-22 | 8 | 1 |
| β-strand | 26-30 | 5 | 1 |
| β-strand | 38-41 | 4 | 1 |
| β-strand | 47-50 | 4 | 1 |
| α-helix | 61-78 | 18 | |
| α-helix | 80-81 | 2 | |
| β-strand | 82-88 | 7 | 1 |
| β-strand | 94-101 | 8 | 1 |
Chain F: 3 helices, 6 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 5-10 | 6 | |
| β-strand | 15-22 | 8 | 1 |
| β-strand | 26-30 | 5 | 1 |
| β-strand | 38-41 | 4 | 1 |
| β-strand | 47-50 | 4 | 1 |
| α-helix | 60-78 | 19 | |
| α-helix | 80-81 | 2 | |
| β-strand | 82-88 | 7 | 1 |
| β-strand | 94-101 | 8 | 1 |
Chain G: 3 helices, 6 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 5-9 | 5 | |
| β-strand | 15-22 | 8 | 1 |
| β-strand | 26-30 | 5 | 1 |
| β-strand | 38-41 | 4 | 1 |
| β-strand | 47-50 | 4 | 1 |
| α-helix | 62-78 | 17 | |
| α-helix | 80-81 | 2 | |
| β-strand | 82-88 | 7 | 1 |
| β-strand | 94-101 | 8 | 1 |
Chain H: 4 helices, 8 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 5-9 | 5 | |
| β-strand | 15-23 | 9 | 1 |
| β-strand | 26-30 | 5 | 1 |
| β-strand | 32 | 1 | 2 |
| β-strand | 35 | 1 | 2 |
| β-strand | 38-41 | 4 | 1 |
| β-strand | 47-50 | 4 | 1 |
| α-helix | 51-53 | 3 | |
| α-helix | 61-78 | 18 | |
| α-helix | 80 | 1 | |
| β-strand | 81-88 | 8 | 1 |
| β-strand | 94-101 | 8 | 1 |
Chain I: 3 helices, 6 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 5-9 | 5 | |
| β-strand | 15-23 | 9 | 3 |
| β-strand | 26-30 | 5 | 3 |
| β-strand | 38-41 | 4 | 3 |
| β-strand | 47-50 | 4 | 3 |
| α-helix | 62-78 | 17 | |
| α-helix | 80 | 1 | |
| β-strand | 81-88 | 8 | 3 |
| β-strand | 94-101 | 8 | 3 |
Chain J: 3 helices, 6 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 5-10 | 6 | |
| β-strand | 15-23 | 9 | 3 |
| β-strand | 26-30 | 5 | 3 |
| β-strand | 38-41 | 4 | 3 |
| β-strand | 47-50 | 4 | 3 |
| α-helix | 62-78 | 17 | |
| α-helix | 80 | 1 | |
| β-strand | 81-88 | 8 | 3 |
| β-strand | 94-101 | 8 | 3 |
Chain K: 3 helices, 8 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 5-10 | 6 | |
| β-strand | 15-23 | 9 | 3 |
| β-strand | 26-30 | 5 | 3 |
| β-strand | 32 | 1 | 4 |
| β-strand | 35 | 1 | 4 |
| β-strand | 38-41 | 4 | 3 |
| β-strand | 47-50 | 4 | 3 |
| α-helix | 63-77 | 15 | |
| α-helix | 80 | 1 | |
| β-strand | 81-88 | 8 | 3 |
| β-strand | 94-101 | 8 | 3 |
2 more chain groups are not listed. Open the entry in the viewer and use the sequence panel to see them.
Molecules and chains
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|
| Cholera enterotoxin subunit B, Heat-labile enterotoxin B chain | D, E, F, G, H, I, J, K, L, M | protein | 103 | Vibrio cholerae | P01556 (AlphaFold model), P0CK94 (AlphaFold model) |
Sequence of entity 1 (D, E, F, G, H, I, J, K, L, M), FASTA
>3EFX_1 Cholera enterotoxin subunit B, Heat-labile enterotoxin B chain (chains D, E, F, G, H, I, J, K, L, M)
APQNITELCSEYHNTQIYTINDKILSYTESLAGKREMAIITFKNGATFQVEVPGSQHIDS
QKKAIERMKDTLRIAYLTEAKVEKLCVWNNKTPNSIAAISMAN
Primary citation
Novel binding site identified in a hybrid between cholera toxin and heat-labile enterotoxin: 1.9 A crystal structure reveals the details. Holmner, A., Lebens, M., Teneberg, S. et al. Structure (2004) 12:1655-1667. DOI 10.1016/j.str.2004.06.022 · PubMed
Other PDB entries of the same protein (UniProt P01556 (AlphaFold model), which also has an AlphaFold model), best resolution first:
- 5LZG 1.13 Å, Cholera toxin El Tor B-pentamer in complex with inhibitor PC262
- 5LZJ 1.2 Å, Cholera toxin El Tor B-pentamer in complex with inhibitor Laura237
- 3CHB 1.25 Å, Cholera toxin B-pentamer complexed with GM1 pentasaccharide
- 1JR0 1.3 Å, Cholera toxin B-pentamer with ligand bmsc-0011
- 1RDP 1.35 Å, Cholera Toxin B-Pentamer Complexed With Bivalent Nitrophenol-Galactoside Ligand BV3
- 1RF2 1.35 Å, Cholera Toxin B-Pentamer Complexed With Bivalent Nitrophenol-Galactoside Ligand BV4
- 1RD9 1.44 Å, Cholera Toxin B-Pentamer Complexed With Bivalent Nitrophenol-Galactoside Ligand BV2
- 1MD2 1.45 Å, Cholera toxin B-pentamer with decavalent ligand bmsc-0013
- 5ELC 1.5 Å, Cholera toxin El Tor B-pentamer in complex with Lewis-y
- 6HJD 1.54 Å, Cholera toxin classical B-pentamer in complex with Lewis-x
- 5ELF 1.55 Å, Cholera toxin El Tor B-pentamer in complex with A-pentasaccharide
- 1RCV 1.6 Å, Cholera Toxin B-Pentamer Complexed With Bivalent Nitrophenol-Galactoside Ligand BV1
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