1sgk

NUCLEOTIDE-FREE DIPHTHERIA TOXIN

Method: X-RAY DIFFRACTION

1. Protein Identity and Related Structures Protein Identity & Related Structures

DIPHTHERIA TOXIN (DIMERIC)

OrganismNot specified

UniProt P00588

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein homooligomer Homooligomer Protein 2 water × 2 Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name DTX_CORBE
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–535; UniProt 26–560

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

2. Structure Basics 2. Structure Basics

Entry ID entry_id1sgk
Deposition date deposition_date1996-09-12
Structure title titleNUCLEOTIDE-FREE DIPHTHERIA TOXIN
Keywords keywordsTOXIN, ADP-RIBOSYLATION, TRANSFERASE, GLYCOSYLTRANSFERASE, NAD, ADP-RIBOSYL TRANSFERASE; TOXIN
Experimental Method methodX-RAY DIFFRACTION

3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

1sgk__assembly_1__model_1

Assembly 1 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

1sgk__assembly_1__model_1 | I(q)

10-2 10-1 106 107 108 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

1sgk__assembly_1__model_1 | P(r) · Pending

The new assembly/model P(r) has not been calculated yet This placeholder does not display legacy data r (Angstrom) P(r)
P(r) will be calculated and displayed separately for the same assembly/model.
Rg(Guinier)33.59 Å
Rg (electron density)32.83 Å
Total Rg33.44 Å
Atom count8042
Residues1046
Excluded volume142460 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 1sgk__assembly_1__model_1 dimeric (2) Success 4.1.3-1-20251215 (887e7ef) View Download

4. Crystallography and Experiment 4. Crystallography & Experiment

5. Entities and Polymers Entities & Polymers (2)

6. Fold Classification (SCOP + CATH) 6 domains

SCOP 2.08 (3 domains)

Domain ID domain_idd1sgka1
Class classb — All beta proteins
Fold Fold foldb.2 — Common fold of diphtheria toxin/transcription factors/cytochrome f
Superfamily Superfamily superfamilyb.2.1 — Diphtheria toxin, C-terminal domain
Family Family familyb.2.1.1 — Diphtheria toxin, C-terminal domain
Domain ID domain_idd1sgka2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.166 — ADP-ribosylation
Superfamily Superfamily superfamilyd.166.1 — ADP-ribosylation
Family Family familyd.166.1.1 — ADP-ribosylating toxins
Domain ID domain_idd1sgka3
Class classf — Membrane and cell surface proteins and peptides
Fold Fold foldf.1 — Toxins' membrane translocation domains
Superfamily Superfamily superfamilyf.1.2 — Diphtheria toxin, middle domain
Family Family familyf.1.2.1 — Diphtheria toxin, middle domain

CATH v4.4 (3 domains)

Domain ID domain_id1sgkA01
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology175 — Diphtheria Toxin; domain 1
Homologous superfamily homologous superfamily10 — Diphtheria Toxin, domain 1
Domain ID domain_id1sgkA02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology490 — Globin-like
Homologous superfamily homologous superfamily40 — Diphtheria toxin, translocation domain
Domain ID domain_id1sgkA03
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily700 — Diphtheria toxin, receptor-binding domain

7. Citations (6)