1fwz

GLU20ALA DTXR

Method: X-RAY DIFFRACTION Dmax: 70.3 Å Quality: GOOD

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

DIPHTHERIA TOXIN REPRESSOR

Corynebacterium diphtheriae

UniProt P33120

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 1–226 Mutation:E20A Non-standard monomer:Yes (specific site not provided by mmCIF) SO4 SULFATE ION × 2 ZN ZINC ION × 2 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 8.5;298 K;1.6-2.0 ammonium sulfate, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K Resolution 2.30 Å R-free 0.285

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.

23 other PDB entries and 24 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name DTXR_CORDI
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–226; UniProt 1–226

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.

SAXS scattering curve SAXS Profile

SAXS profile for 1fwz

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 1fwz
Download Download

2. Structure Basics 2. Structure Basics

Entry ID entry_id1fwz
Deposition date deposition_date2000-09-25
Structure title titleGLU20ALA DTXR
Keywords keywordsmetal binding protein, DNA binding protein, regulator, GENE REGULATION; GENE REGULATION
Experimental Method methodX-RAY DIFFRACTION

3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier22.00
Radius of gyration Rg (electron density) rg_electron21.48
Forward intensity I(0) i09888510.00
Molecular weight molecular_weight22677.0 kDa
Excluded volume excluded_volume28046 ų
Envelope volume envelope_volume34971 ų
Hydration-shell volume shell_volume14644 ų
Envelope diameter envelope_diameter70.3
Shell Rg shell_rg26.47
Envelope Rg envelope_rg21.39
Shape Rg shape_rg21.53
Total Rg total_rg22.05
Total atoms total_atoms1587
Residues n_residues210
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 −1
Data points n_points101
Shell type shell_typedirectional
Solvent electron density solvent_density0.3340 e/ų
Shell contrast contrast_shell0.0300 e/ų
CRYSOL version crysol_version4.1.3

4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax70.3
Rg (real space) rg_real22.14
Rg uncertainty (real space) rg_real_error0.47
I(0) (real space) i0_real9.8890e+06
I(0) uncertainty (real space) i0_real_error1.2930e+05
Rg (reciprocal space) rg_reciprocal22.12
I(0) (reciprocal space) i0_reciprocal9888000.0000
Solution quality estimate total_estimate0.8406
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary17.8
Skewness Skewness skewness0.350
Kurtosis Kurtosis kurtosis-0.715
Angular range angular_range— – 0.3600 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha3685000.0000
Real-space data points n_real_points68
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.745; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.714; Smooth: 0.973

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (4)

7. Fold Classification (SCOP + CATH) 6 domains

SCOP 2.08 (3 domains)

Domain ID domain_idd1fwza1
Class classa — All alpha proteins
Fold Fold folda.4 — DNA/RNA-binding 3-helical bundle
Superfamily Superfamily superfamilya.4.5 — 'Winged helix' DNA-binding domain
Family Family familya.4.5.24 — Iron-dependent repressor protein
Domain ID domain_idd1fwza2
Class classa — All alpha proteins
Fold Fold folda.76 — Iron-dependent repressor protein, dimerization domain
Superfamily Superfamily superfamilya.76.1 — Iron-dependent repressor protein, dimerization domain
Family Family familya.76.1.1 — Iron-dependent repressor protein, dimerization domain
Domain ID domain_idd1fwza3
Class classb — All beta proteins
Fold Fold foldb.34 — SH3-like barrel
Superfamily Superfamily superfamilyb.34.1 — C-terminal domain of transcriptional repressors
Family Family familyb.34.1.2 — FeoA-like

CATH v4.4 (3 domains)

Domain ID domain_id1fwzA01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily10 — Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain
Domain ID domain_id1fwzA02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology60 — Diphtheria Toxin Repressor; domain 2
Homologous superfamily homologous superfamily10 — Iron dependent repressor, metal binding and dimerisation domain
Domain ID domain_id1fwzA03
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology30 — SH3 type barrels.
Homologous superfamily homologous superfamily90 — Ferrous iron transport protein A (FeoA)

8. Citations (1)

9. Files and Curves (10)