5JKK

Crystal structure of the negatively supercharged variant Ftn(neg) of human heavy chain ferritin

PDB DOI: https://doi.org/10.2210/pdb5JKK/pdb

Classification: OXIDOREDUCTASE
Organism(s): Homo sapiens
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2016-04-26 Released: 2017-05-10
Deposition Author(s): Kuenzle, M., Beck, T.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.60 Å
R-Value Free: 0.143
R-Value Work: 0.124
R-Value Observed: 0.125

wwPDB Validation 3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

Metal-Assisted Assembly of Protein Containers Loaded with Inorganic Nanoparticles.

Kunzle, M., Eckert, T., Beck, T.

(2018) Inorg Chem 57: 13431-13436

PubMed: 30351078 Search on PubMed
DOI: https://doi.org/10.1021/acs.inorgchem.8b01995
Primary Citation of Related Structures:
5JKK

PubMed Abstract:
Protein containers are suitable building blocks for bioinorganic materials. Here, we show that high concentrations of magnesium ions induce the formation of a unitary protein scaffold, whereas low magnesium concentration leads to a binary protein scaffold. The molecular interactions in the protein scaffold were characterized with X-ray crystallography to high resolution. We show that the unitary framework can be applied for the assembly of inorganic nanoparticles such as metal oxides into highly ordered bioinorganic structures. Our work emphasizes the structural tunability of protein-container-based materials, important for adjusting emerging properties of such materials.

Organizational Affiliation

Institute of Inorganic Chemistry , RWTH Aachen University , 52074 Aachen , Germany.

Macromolecule Content

Total Structure Weight: 171.89 kDa
Atom Count: 13,086
Modelled Residue Count: 1,376
Deposited Residue Count: 1,464
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Ferritin heavy chain	A, B, C, D, E A, B, C, D, E, F, G, H	183	Homo sapiens	Mutation(s): 5 Gene Names: FTH1, FTH, FTHL6, OK/SW-cl.84, PIG15 EC: 1.16.3.1
UniProt & NIH Common Fund Data Resources
Find proteins for P02794 (Homo sapiens) Explore P02794 Go to UniProtKB: P02794
PHAROS: P02794 GTEx: ENSG00000167996
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P02794
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
FE Query on FE Download Ideal Coordinates CCD File SDF format, chain DA [auth F] SDF format, chain HA [auth G] SDF format, chain I [auth A] SDF format, chain J [auth A] SDF format, chain JA [auth H] SDF format, chain N [auth B] SDF format, chain Q [auth C] SDF format, chain U [auth D] SDF format, chain V [auth D] SDF format, chain Z [auth E] MOL2 format, chain DA [auth F] MOL2 format, chain HA [auth G] MOL2 format, chain I [auth A] MOL2 format, chain J [auth A] MOL2 format, chain JA [auth H] MOL2 format, chain N [auth B] MOL2 format, chain Q [auth C] MOL2 format, chain U [auth D] MOL2 format, chain V [auth D] MOL2 format, chain Z [auth E]	DA [auth F] HA [auth G] I [auth A] J [auth A] JA [auth H] DA [auth F], HA [auth G], I [auth A], J [auth A], JA [auth H], N [auth B], Q [auth C], U [auth D], V [auth D], Z [auth E]	FE (III) ION Fe VTLYFUHAOXGGBS-UHFFFAOYSA-N		Interactions Focus chain DA [auth F] Focus chain HA [auth G] Focus chain I [auth A] Focus chain J [auth A] Focus chain JA [auth H] Focus chain N [auth B] Focus chain Q [auth C] Focus chain U [auth D] Focus chain V [auth D] Focus chain Z [auth E] Interactions & Density Focus chain DA [auth F] Focus chain HA [auth G] Focus chain I [auth A] Focus chain J [auth A] Focus chain JA [auth H] Focus chain N [auth B] Focus chain Q [auth C] Focus chain U [auth D] Focus chain V [auth D] Focus chain Z [auth E]
CL Query on CL Download Ideal Coordinates CCD File SDF format, chain M [auth A] SDF format, chain Y [auth D] MOL2 format, chain M [auth A] MOL2 format, chain Y [auth D]	M [auth A], Y [auth D]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Interactions Focus chain M [auth A] Focus chain Y [auth D] Interactions & Density Focus chain M [auth A] Focus chain Y [auth D]
MG Query on MG Download Ideal Coordinates CCD File SDF format, chain AA [auth E] SDF format, chain BA [auth E] SDF format, chain CA [auth E] SDF format, chain EA [auth F] SDF format, chain FA [auth F] SDF format, chain GA [auth F] SDF format, chain IA [auth G] SDF format, chain K [auth A] SDF format, chain KA [auth H] SDF format, chain L [auth A] SDF format, chain O [auth B] SDF format, chain P [auth B] SDF format, chain R [auth C] SDF format, chain S [auth C] SDF format, chain T [auth C] SDF format, chain W [auth D] SDF format, chain X [auth D] MOL2 format, chain AA [auth E] MOL2 format, chain BA [auth E] MOL2 format, chain CA [auth E] MOL2 format, chain EA [auth F] MOL2 format, chain FA [auth F] MOL2 format, chain GA [auth F] MOL2 format, chain IA [auth G] MOL2 format, chain K [auth A] MOL2 format, chain KA [auth H] MOL2 format, chain L [auth A] MOL2 format, chain O [auth B] MOL2 format, chain P [auth B] MOL2 format, chain R [auth C] MOL2 format, chain S [auth C] MOL2 format, chain T [auth C] MOL2 format, chain W [auth D] MOL2 format, chain X [auth D]	AA [auth E] BA [auth E] CA [auth E] EA [auth F] FA [auth F] AA [auth E], BA [auth E], CA [auth E], EA [auth F], FA [auth F], GA [auth F], IA [auth G], K [auth A], KA [auth H], L [auth A], O [auth B], P [auth B], R [auth C], S [auth C], T [auth C], W [auth D], X [auth D]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain AA [auth E] Focus chain BA [auth E] Focus chain CA [auth E] Focus chain EA [auth F] Focus chain FA [auth F] Focus chain GA [auth F] Focus chain IA [auth G] Focus chain K [auth A] Focus chain KA [auth H] Focus chain L [auth A] Focus chain O [auth B] Focus chain P [auth B] Focus chain R [auth C] Focus chain S [auth C] Focus chain T [auth C] Focus chain W [auth D] Focus chain X [auth D] Interactions & Density Focus chain AA [auth E] Focus chain BA [auth E] Focus chain CA [auth E] Focus chain EA [auth F] Focus chain FA [auth F] Focus chain GA [auth F] Focus chain IA [auth G] Focus chain K [auth A] Focus chain KA [auth H] Focus chain L [auth A] Focus chain O [auth B] Focus chain P [auth B] Focus chain R [auth C] Focus chain S [auth C] Focus chain T [auth C] Focus chain W [auth D] Focus chain X [auth D]