[English] 日本語
![](img/lk-miru.gif)
- EMDB-26996: Cryo-EM structure of Ferritin 2 from Caenorhabditis elegans, FTN-2 -
+
Open data
-
Basic information
Entry | ![]() | |||||||||
---|---|---|---|---|---|---|---|---|---|---|
Title | Cryo-EM structure of Ferritin 2 from Caenorhabditis elegans, FTN-2 | |||||||||
![]() | Ferritin 2 from Caenorhabditis elegans, FTN-2 | |||||||||
![]() |
| |||||||||
![]() | Oxidoreductase / ferroxidase | |||||||||
Function / homology | ![]() Iron uptake and transport / Neutrophil degranulation / ferroxidase / intracellular sequestering of iron ion / ferroxidase activity / ferric iron binding / ferrous iron binding / iron ion transport / defense response to Gram-positive bacterium / identical protein binding ...Iron uptake and transport / Neutrophil degranulation / ferroxidase / intracellular sequestering of iron ion / ferroxidase activity / ferric iron binding / ferrous iron binding / iron ion transport / defense response to Gram-positive bacterium / identical protein binding / cytoplasm / cytosol Similarity search - Function | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 1.91 Å | |||||||||
![]() | Malcolm TR / Brown HG / Hanssen E | |||||||||
Funding support | ![]()
| |||||||||
![]() | ![]() Title: Biochemical Characterization of Caenorhabditis elegans Ferritins Authors: Mubarak SMM / Malcolm TR / Brown HG / Hanssen E / Maher MJ / McColl G / Jameson GNL | |||||||||
History |
|
-
Structure visualization
Supplemental images |
---|
-
Downloads & links
-EMDB archive
Map data | ![]() | 67.9 MB | ![]() | |
---|---|---|---|---|
Header (meta data) | ![]() ![]() | 13.8 KB 13.8 KB | Display Display | ![]() |
Images | ![]() | 89.1 KB | ||
Filedesc metadata | ![]() | 5.1 KB | ||
Others | ![]() ![]() | 124.6 MB 124.6 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 867 KB | Display | ![]() |
---|---|---|---|---|
Full document | ![]() | 866.5 KB | Display | |
Data in XML | ![]() | 14.1 KB | Display | |
Data in CIF | ![]() | 16.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 8cu8MC M: atomic model generated by this map C: citing same article ( |
---|---|
Similar structure data | Similarity search - Function & homology ![]() |
-
Links
EMDB pages | ![]() ![]() |
---|---|
Related items in Molecule of the Month |
-
Map
File | ![]() | ||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Annotation | Ferritin 2 from Caenorhabditis elegans, FTN-2 | ||||||||||||||||||||
Voxel size | X=Y=Z: 0.82 Å | ||||||||||||||||||||
Density |
| ||||||||||||||||||||
Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
|
-Supplemental data
-Half map: Ferritin 2 from Caenorhabditis elegans, FTN-2
File | emd_26996_half_map_1.map | ||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Annotation | Ferritin 2 from Caenorhabditis elegans, FTN-2 | ||||||||||||
Projections & Slices |
| ||||||||||||
Density Histograms |
-Half map: Ferritin 2 from Caenorhabditis elegans, FTN-2
File | emd_26996_half_map_2.map | ||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Annotation | Ferritin 2 from Caenorhabditis elegans, FTN-2 | ||||||||||||
Projections & Slices |
| ||||||||||||
Density Histograms |
-
Sample components
-Entire : Homo 24-mer of Ferritin 2
Entire | Name: Homo 24-mer of Ferritin 2 |
---|---|
Components |
|
-Supramolecule #1: Homo 24-mer of Ferritin 2
Supramolecule | Name: Homo 24-mer of Ferritin 2 / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1 |
---|---|
Source (natural) | Organism: ![]() ![]() |
-Macromolecule #1: Ferritin
Macromolecule | Name: Ferritin / type: protein_or_peptide / ID: 1 / Number of copies: 24 / Enantiomer: LEVO / EC number: ferroxidase |
---|---|
Source (natural) | Organism: ![]() ![]() |
Molecular weight | Theoretical: 19.371547 KDa |
Recombinant expression | Organism: ![]() ![]() |
Sequence | String: SLARQNYHSE VEAAVNKQIN IELYASYVYL SMSFYFDRDD VALPNIAKFF KEQSDEEREH ATELMRVQNL RGGRVVLQDI QKPENDEWG TALKAFEAAL ALEKFNNESL LKLHSTAGNH NDAHLTDFIE EKYLDEQVKS INEFARMVAN LKRVGPGVGE Y VFDKEHFS UniProtKB: Ferritin |
-Macromolecule #2: FE (III) ION
Macromolecule | Name: FE (III) ION / type: ligand / ID: 2 / Number of copies: 24 / Formula: FE |
---|---|
Molecular weight | Theoretical: 55.845 Da |
-Macromolecule #3: water
Macromolecule | Name: water / type: ligand / ID: 3 / Number of copies: 2271 / Formula: HOH |
---|---|
Molecular weight | Theoretical: 18.015 Da |
Chemical component information | ![]() ChemComp-HOH: |
-Experimental details
-Structure determination
Method | cryo EM |
---|---|
![]() | single particle reconstruction |
Aggregation state | particle |
-
Sample preparation
Buffer | pH: 8 |
---|---|
Grid | Model: UltrAuFoil R1.2/1.3 / Material: GOLD |
Vitrification | Cryogen name: ETHANE |
-
Electron microscopy
Microscope | TFS KRIOS |
---|---|
Image recording | Film or detector model: FEI FALCON IV (4k x 4k) / Average electron dose: 47.6 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 1.4000000000000001 µm / Nominal defocus min: 0.6 µm |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |
-
Image processing
Startup model | Type of model: PDB ENTRY PDB model - PDB ID: |
---|---|
Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 1.91 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 398769 |
Initial angle assignment | Type: MAXIMUM LIKELIHOOD |
Final angle assignment | Type: MAXIMUM LIKELIHOOD |