DIPHTHERIA TOXIN
Corynephage beta
State in the Current Structure
| Assembly | Oligomeric State | Construct | Mutations and Modifications | Ligands, Ions and Associated Components | Method and Experimental Conditions | Structure Quality |
|---|---|---|---|---|---|---|
| 1 | Protein homooligomer Homooligomer Protein × 2 PDB declaration: dimeric（2） Consistent with protein copy count | Chain A； UniProt 33–567 | Not recorded | APU ADENYLYL-3'-5'-PHOSPHO-URIDINE-3'-MONOPHOSPHATE × 2 | X-RAY DIFFRACTION mmCIF provides none of the parsed experimental conditions | Resolution 2.00 Å |
Other States of the Same Protein in the Database
Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.
| Other PDB | Difference from Current Entry 1DDT | Assembly / Oligomeric State | Construct | Mutations and Modifications | Ligands, Ions and Non-polymers | Method and Experimental Conditions | Structure Quality |
|---|---|---|---|---|---|---|---|
| 1DTP THE STRUCTURE OF THE ISOLATED CATALYTIC DOMAIN OF DIPHTHERIA TOXIN Deposited 1994-09-08 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
33–222（190 aa）
|
Not recorded | APU ADENYLYL-3'-5'-PHOSPHO-URIDINE-3'-MONOPHOSPHATE × 1 | X-RAY DIFFRACTION mmCIF provides none of the parsed conditions | Resolution 2.50 Å |
| 1F0L 1.55 ANGSTROM CRYSTAL STRUCTURE OF WILD TYPE DIPHTHERIA TOXIN Deposited 2000-05-16 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
26–560（535 aa）
|
Not recorded | CL CHLORIDE ION × 4 APU ADENYLYL-3'-5'-PHOSPHO-URIDINE-3'-MONOPHOSPHATE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；298 K；2 MICROLITERS OF PROTEIN SOLUTION CONSISTING OF:
8 MG/ML WILD TYPE DIPHTHERIA TOXIN MONOMER + APUP,
0.5 MILLIMOLAR EDTA,
50 MILLIMOLAR TRIS-HCL, PH 7.5
PLUS 2 MICROLITERS OF RESERVIOR SOLUTION CONSISTING OF:
17% PEG 8000,
1 MOLAR SODIUM CHLORIDE,
50 MILLIMOLAR TRIS-HCL, PH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K
|
Resolution 1.55 Å R-free 0.238 |
| 1F0L 1.55 ANGSTROM CRYSTAL STRUCTURE OF WILD TYPE DIPHTHERIA TOXIN Deposited 2000-05-16 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain B
26–560（535 aa）
|
Not recorded | CL CHLORIDE ION × 5 APU ADENYLYL-3'-5'-PHOSPHO-URIDINE-3'-MONOPHOSPHATE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；298 K；2 MICROLITERS OF PROTEIN SOLUTION CONSISTING OF:
8 MG/ML WILD TYPE DIPHTHERIA TOXIN MONOMER + APUP,
0.5 MILLIMOLAR EDTA,
50 MILLIMOLAR TRIS-HCL, PH 7.5
PLUS 2 MICROLITERS OF RESERVIOR SOLUTION CONSISTING OF:
17% PEG 8000,
1 MOLAR SODIUM CHLORIDE,
50 MILLIMOLAR TRIS-HCL, PH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K
|
Resolution 1.55 Å R-free 0.238 |
| 1MDT THE REFINED STRUCTURE OF MONOMERIC DIPHTHERIA TOXIN AT 2.3 ANGSTROMS RESOLUTION Deposited 1994-03-21 | Different construct Different mutation/modification Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric |
Chain A
33–567（535 aa）
Chain B
33–567（535 aa）
|
Not recorded | APU ADENYLYL-3'-5'-PHOSPHO-URIDINE-3'-MONOPHOSPHATE × 2 | X-RAY DIFFRACTION mmCIF provides none of the parsed conditions | Resolution 2.30 Å |
| 1SGK NUCLEOTIDE-FREE DIPHTHERIA TOXIN Deposited 1996-09-12 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric |
Chain A
26–560（535 aa）
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；HANGING DROP, 12 % PEG8000, 0.43M NACL, 0.043M TRIS, PH 7.5, vapor diffusion - hanging drop
|
Resolution 2.30 Å R-free 0.282 |
| 1TOX DIPHTHERIA TOXIN DIMER COMPLEXED WITH NAD Deposited 1995-10-06 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric |
Chain A
26–560（535 aa）
|
Not recorded | NAD NICOTINAMIDE-ADENINE-DINUCLEOTIDE × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 7.5；pH 7.5
|
Resolution 2.30 Å R-free 0.307 |
| 1TOX DIPHTHERIA TOXIN DIMER COMPLEXED WITH NAD Deposited 1995-10-06 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain B
26–560（535 aa）
|
Not recorded | NAD NICOTINAMIDE-ADENINE-DINUCLEOTIDE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 7.5；pH 7.5
|
Resolution 2.30 Å R-free 0.307 |
| 1TOX DIPHTHERIA TOXIN DIMER COMPLEXED WITH NAD Deposited 1995-10-06 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 3 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric |
Chain B
26–560（535 aa）
|
Not recorded | NAD NICOTINAMIDE-ADENINE-DINUCLEOTIDE × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 7.5；pH 7.5
|
Resolution 2.30 Å R-free 0.307 |
| 1XDT COMPLEX OF DIPHTHERIA TOXIN AND HEPARIN-BINDING EPIDERMAL GROWTH FACTOR Deposited 1997-11-18 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain T
33–567（535 aa）
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.5；PROTEIN (15 MG/ML) IN 10 MM TRIS-HCL (PH 7.5), 0.15 M NACL MIXED WITH AN EQUAL VOLUME OF PRECIPITANT CONTAINING 50 MM TRIS-HCL (PH 7.5), 0.15 M NACL, 5% (V/V) GLYCEROL, 22-30% (W/V) POLYETHYLENE GLYCOL 3350; AND EQUILIBRATED BY VAPOR DIFFUSION AGAINST PRECIPITANT, vapor diffusion
|
Resolution 2.65 Å R-free 0.290 |
| 4AE0 Crystal structure of diphtheria toxin mutant CRM197 Deposited 2012-01-04 | Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric |
Chain A
33–567（535 aa）
|
Mutation：YES | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 9；1.9 M AMMONIUM SULFATE, 100 MM BICINE [PH 9.0]
|
Resolution 2.00 Å R-free 0.241 |
| 4AE1 Crystal structure of diphtheria toxin mutant CRM197 in complex with nicotinamide Deposited 2012-01-04 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric |
Chain A
33–567（535 aa）
Chain B
33–567（535 aa）
|
Mutation：YES Mutation：YES | NCA NICOTINAMIDE × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 9；1.9 M AMMONIUM SULFATE, 100 MM BICINE [PH 9.0]
|
Resolution 2.08 Å R-free 0.244 |
8 other PDB entries and 11 assemblies. Open the comparison page and filter oligomeric states
View Construct and Data Evidence
| UniProt name | DTX_CORBE |
| Isoform | — |
| PDB entities | 1 |
| Chains and sequence ranges | Author chain A； PDBConstruct 1–535； UniProt 33–567 |
