3wnw

Structure of Mouse H-chain modified ferritin

Method: X-RAY DIFFRACTION Dmax: 132.3 Å Quality: GOOD

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

Ferritin heavy chain

Mus musculus

UniProt P09528

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 × 24 PDB declaration: 24-meric(24) Consistent with protein copy count Chain A; UniProt 1–182 Chain B; UniProt 1–182 Chain C; UniProt 1–182 Chain D; UniProt 1–182 Chain E; UniProt 1–182 Chain F; UniProt 1–182 Chain G; UniProt 1–182 Chain H; UniProt 1–182 Chain I; UniProt 1–182 Chain J; UniProt 1–182 Chain K; UniProt 1–182 Chain L; UniProt 1–182 Not recorded MG MAGNESIUM ION × 40 FE FE (III) ION × 8 GOL GLYCEROL × 24 K POTASSIUM ION × 4 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 6.5;286 K;0.1M Na-cacodylate PH 6.5, 0.2 M Mg-Ac, 30% MPD, vapor diffusion, sitting drop, temperature 286K Resolution 2.24 Å R-free 0.265

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.

26 other PDB entries and 28 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name FRIH_MOUSE
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 18–199; UniProt 1–182 Author chain B; PDBConstruct 18–199; UniProt 1–182 Author chain C; PDBConstruct 18–199; UniProt 1–182 Author chain D; PDBConstruct 18–199; UniProt 1–182 Author chain E; PDBConstruct 18–199; UniProt 1–182 Author chain F; PDBConstruct 18–199; UniProt 1–182 Author chain G; PDBConstruct 18–199; UniProt 1–182 Author chain H; PDBConstruct 18–199; UniProt 1–182 Author chain I; PDBConstruct 18–199; UniProt 1–182 Author chain J; PDBConstruct 18–199; UniProt 1–182 Author chain K; PDBConstruct 18–199; UniProt 1–182 Author chain L; PDBConstruct 18–199; UniProt 1–182

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 3wnw

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 3wnw
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2. Structure Basics 2. Structure Basics

Entry ID entry_id3wnw
Deposition date deposition_date2013-12-17
Structure title titleStructure of Mouse H-chain modified ferritin
Keywords keywordsFerritin, Four Helix Boundle, Iron Storage, blood, cells, OXIDOREDUCTASE; OXIDOREDUCTASE
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier46.90
Radius of gyration Rg (electron density) rg_electron46.10
Forward intensity I(0) i0924563000.00
Molecular weight molecular_weight243790.0 kDa
Excluded volume excluded_volume301460 ų
Envelope volume envelope_volume451880 ų
Hydration-shell volume shell_volume80056 ų
Envelope diameter envelope_diameter131.8
Shell Rg shell_rg53.82
Envelope Rg envelope_rg43.40
Shape Rg shape_rg46.09
Total Rg total_rg46.45
Total atoms total_atoms17118
Residues n_residues2080
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 dmax132.3
Rg (real space) rg_real46.55
Rg uncertainty (real space) rg_real_error0.98
I(0) (real space) i0_real9.2460e+08
I(0) uncertainty (real space) i0_real_error1.6330e+07
Rg (reciprocal space) rg_reciprocal46.90
I(0) (reciprocal space) i0_reciprocal924900000.0000
Solution quality estimate total_estimate0.8632
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks1
Primary peak position r_peak_primary70.1
Skewness Skewness skewness-0.088
Kurtosis Kurtosis kurtosis-0.818
Angular range angular_range— – 0.1700 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha33430000.0000
Real-space data points n_real_points35
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.987; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.993; Smooth: 0.264

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (6)

7. Fold Classification (SCOP + CATH) 24 domains

SCOP 2.08 (12 domains)

Domain ID domain_idd3wnwa_
Class classa — All alpha proteins
Fold Fold folda.25 — Ferritin-like
Superfamily Superfamily superfamilya.25.1 — Ferritin-like
Family Family familya.25.1.0 — automated matches
Domain ID domain_idd3wnwb_
Class classa — All alpha proteins
Fold Fold folda.25 — Ferritin-like
Superfamily Superfamily superfamilya.25.1 — Ferritin-like
Family Family familya.25.1.0 — automated matches
Domain ID domain_idd3wnwc_
Class classa — All alpha proteins
Fold Fold folda.25 — Ferritin-like
Superfamily Superfamily superfamilya.25.1 — Ferritin-like
Family Family familya.25.1.0 — automated matches
Domain ID domain_idd3wnwd_
Class classa — All alpha proteins
Fold Fold folda.25 — Ferritin-like
Superfamily Superfamily superfamilya.25.1 — Ferritin-like
Family Family familya.25.1.0 — automated matches
Domain ID domain_idd3wnwe_
Class classa — All alpha proteins
Fold Fold folda.25 — Ferritin-like
Superfamily Superfamily superfamilya.25.1 — Ferritin-like
Family Family familya.25.1.0 — automated matches
Domain ID domain_idd3wnwf_
Class classa — All alpha proteins
Fold Fold folda.25 — Ferritin-like
Superfamily Superfamily superfamilya.25.1 — Ferritin-like
Family Family familya.25.1.0 — automated matches
Domain ID domain_idd3wnwg_
Class classa — All alpha proteins
Fold Fold folda.25 — Ferritin-like
Superfamily Superfamily superfamilya.25.1 — Ferritin-like
Family Family familya.25.1.0 — automated matches
Domain ID domain_idd3wnwh_
Class classa — All alpha proteins
Fold Fold folda.25 — Ferritin-like
Superfamily Superfamily superfamilya.25.1 — Ferritin-like
Family Family familya.25.1.0 — automated matches
Domain ID domain_idd3wnwi_
Class classa — All alpha proteins
Fold Fold folda.25 — Ferritin-like
Superfamily Superfamily superfamilya.25.1 — Ferritin-like
Family Family familya.25.1.0 — automated matches
Domain ID domain_idd3wnwj_
Class classa — All alpha proteins
Fold Fold folda.25 — Ferritin-like
Superfamily Superfamily superfamilya.25.1 — Ferritin-like
Family Family familya.25.1.0 — automated matches
Domain ID domain_idd3wnwk_
Class classa — All alpha proteins
Fold Fold folda.25 — Ferritin-like
Superfamily Superfamily superfamilya.25.1 — Ferritin-like
Family Family familya.25.1.0 — automated matches
Domain ID domain_idd3wnwl_
Class classa — All alpha proteins
Fold Fold folda.25 — Ferritin-like
Superfamily Superfamily superfamilya.25.1 — Ferritin-like
Family Family familya.25.1.0 — automated matches

CATH v4.4 (12 domains)

Domain ID domain_id3wnwA00
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1260 — Ferritin
Homologous superfamily homologous superfamily10 — Ferritin, core subunit, four-helix bundle
Domain ID domain_id3wnwB00
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1260 — Ferritin
Homologous superfamily homologous superfamily10 — Ferritin, core subunit, four-helix bundle
Domain ID domain_id3wnwC00
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1260 — Ferritin
Homologous superfamily homologous superfamily10 — Ferritin, core subunit, four-helix bundle
Domain ID domain_id3wnwD00
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1260 — Ferritin
Homologous superfamily homologous superfamily10 — Ferritin, core subunit, four-helix bundle
Domain ID domain_id3wnwE00
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1260 — Ferritin
Homologous superfamily homologous superfamily10 — Ferritin, core subunit, four-helix bundle
Domain ID domain_id3wnwF00
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1260 — Ferritin
Homologous superfamily homologous superfamily10 — Ferritin, core subunit, four-helix bundle
Domain ID domain_id3wnwG00
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1260 — Ferritin
Homologous superfamily homologous superfamily10 — Ferritin, core subunit, four-helix bundle
Domain ID domain_id3wnwH00
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1260 — Ferritin
Homologous superfamily homologous superfamily10 — Ferritin, core subunit, four-helix bundle
Domain ID domain_id3wnwI00
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1260 — Ferritin
Homologous superfamily homologous superfamily10 — Ferritin, core subunit, four-helix bundle
Domain ID domain_id3wnwJ00
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1260 — Ferritin
Homologous superfamily homologous superfamily10 — Ferritin, core subunit, four-helix bundle
Domain ID domain_id3wnwK00
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1260 — Ferritin
Homologous superfamily homologous superfamily10 — Ferritin, core subunit, four-helix bundle
Domain ID domain_id3wnwL00
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1260 — Ferritin
Homologous superfamily homologous superfamily10 — Ferritin, core subunit, four-helix bundle

8. Citations (1)

9. Files and Curves (10)