8TU8

Cryo-EM structure of Apoferritin collected by SerialEM on Glacios at 2.1 Angstrom resolution

PDB DOI: https://doi.org/10.2210/pdb8TU8/pdb
EM Map EMD-41619: EMDB EMDataResource

Classification: METAL BINDING PROTEIN
Organism(s): Mus musculus
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2023-08-15 Released: 2024-12-18
Deposition Author(s): Jia, L., Ruben, E.A., Olsen, S.K., Wasmuth, E.V.
Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.10 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

Cryo-EM structure of Apoferritin collected by SerialEM on Glacios at 2.1 Angstrom resolution

Jia, L., Ruben, E.A., Olsen, S.K., Wasmuth, E.V.

To be published.

Macromolecule Content

Total Structure Weight: 508.25 kDa
Atom Count: 33,846
Modelled Residue Count: 4,128
Deposited Residue Count: 4,368
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, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X	182	Mus musculus	Mutation(s): 0 Gene Names: Fth1, Fth EC: 1.16.3.1
UniProt & NIH Common Fund Data Resources
Find proteins for P09528 (Mus musculus) Explore P09528 Go to UniProtKB: P09528
IMPC: MGI:95588
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P09528
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ZN (Subject of Investigation/LOI) Query on ZN Download Ideal Coordinates CCD File SDF format, chain AB [auth W] SDF format, chain BA [auth B] SDF format, chain BB [auth X] SDF format, chain DA [auth C] SDF format, chain FA [auth D] SDF format, chain GA [auth E] SDF format, chain IA [auth G] SDF format, chain LA [auth I] SDF format, chain MA [auth J] SDF format, chain NA [auth K] SDF format, chain OA [auth L] SDF format, chain PA [auth M] SDF format, chain QA [auth N] SDF format, chain RA [auth O] SDF format, chain SA [auth P] SDF format, chain UA [auth Q] SDF format, chain VA [auth R] SDF format, chain WA [auth S] SDF format, chain XA [auth T] SDF format, chain YA [auth U] SDF format, chain Z [auth A] SDF format, chain ZA [auth V] SDF format, chain HA [auth F] SDF format, chain JA [auth H] MOL2 format, chain AB [auth W] MOL2 format, chain BA [auth B] MOL2 format, chain BB [auth X] MOL2 format, chain DA [auth C] MOL2 format, chain FA [auth D] MOL2 format, chain GA [auth E] MOL2 format, chain IA [auth G] MOL2 format, chain LA [auth I] MOL2 format, chain MA [auth J] MOL2 format, chain NA [auth K] MOL2 format, chain OA [auth L] MOL2 format, chain PA [auth M] MOL2 format, chain QA [auth N] MOL2 format, chain RA [auth O] MOL2 format, chain SA [auth P] MOL2 format, chain UA [auth Q] MOL2 format, chain VA [auth R] MOL2 format, chain WA [auth S] MOL2 format, chain XA [auth T] MOL2 format, chain YA [auth U] MOL2 format, chain Z [auth A] MOL2 format, chain ZA [auth V] MOL2 format, chain HA [auth F] MOL2 format, chain JA [auth H] mmCIF format, chain AB [auth W] mmCIF format, chain BA [auth B] mmCIF format, chain BB [auth X] mmCIF format, chain DA [auth C] mmCIF format, chain FA [auth D] mmCIF format, chain GA [auth E] mmCIF format, chain IA [auth G] mmCIF format, chain LA [auth I] mmCIF format, chain MA [auth J] mmCIF format, chain NA [auth K] mmCIF format, chain OA [auth L] mmCIF format, chain PA [auth M] mmCIF format, chain QA [auth N] mmCIF format, chain RA [auth O] mmCIF format, chain SA [auth P] mmCIF format, chain UA [auth Q] mmCIF format, chain VA [auth R] mmCIF format, chain WA [auth S] mmCIF format, chain XA [auth T] mmCIF format, chain YA [auth U] mmCIF format, chain Z [auth A] mmCIF format, chain ZA [auth V] mmCIF format, chain HA [auth F] mmCIF format, chain JA [auth H]	AB [auth W] BA [auth B] BB [auth X] DA [auth C] FA [auth D] AB [auth W], BA [auth B], BB [auth X], DA [auth C], FA [auth D], GA [auth E], HA [auth F], IA [auth G], JA [auth H], LA [auth I], MA [auth J], NA [auth K], OA [auth L], PA [auth M], QA [auth N], RA [auth O], SA [auth P], UA [auth Q], VA [auth R], WA [auth S], XA [auth T], YA [auth U], Z [auth A], ZA [auth V]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Interactions Focus chain AB [auth W] Focus chain BA [auth B] Focus chain BB [auth X] Focus chain DA [auth C] Focus chain FA [auth D] Focus chain GA [auth E] Focus chain HA [auth F] Focus chain IA [auth G] Focus chain JA [auth H] Focus chain LA [auth I] Focus chain MA [auth J] Focus chain NA [auth K] Focus chain OA [auth L] Focus chain PA [auth M] Focus chain QA [auth N] Focus chain RA [auth O] Focus chain SA [auth P] Focus chain UA [auth Q] Focus chain VA [auth R] Focus chain WA [auth S] Focus chain XA [auth T] Focus chain YA [auth U] Focus chain Z [auth A] Focus chain ZA [auth V] Interactions & Density Focus chain AB [auth W] Focus chain BA [auth B] Focus chain BB [auth X] Focus chain DA [auth C] Focus chain FA [auth D] Focus chain GA [auth E] Focus chain HA [auth F] Focus chain IA [auth G] Focus chain JA [auth H] Focus chain LA [auth I] Focus chain MA [auth J] Focus chain NA [auth K] Focus chain OA [auth L] Focus chain PA [auth M] Focus chain QA [auth N] Focus chain RA [auth O] Focus chain SA [auth P] Focus chain UA [auth Q] Focus chain VA [auth R] Focus chain WA [auth S] Focus chain XA [auth T] Focus chain YA [auth U] Focus chain Z [auth A] Focus chain ZA [auth V]
FE (Subject of Investigation/LOI) Query on FE Download Ideal Coordinates CCD File SDF format, chain AA [auth B] SDF format, chain EA [auth D] SDF format, chain KA [auth I] SDF format, chain TA [auth Q] SDF format, chain Y [auth A] SDF format, chain CA [auth C] MOL2 format, chain AA [auth B] MOL2 format, chain EA [auth D] MOL2 format, chain KA [auth I] MOL2 format, chain TA [auth Q] MOL2 format, chain Y [auth A] MOL2 format, chain CA [auth C] mmCIF format, chain AA [auth B] mmCIF format, chain EA [auth D] mmCIF format, chain KA [auth I] mmCIF format, chain TA [auth Q] mmCIF format, chain Y [auth A] mmCIF format, chain CA [auth C]	AA [auth B] CA [auth C] EA [auth D] KA [auth I] TA [auth Q] AA [auth B], CA [auth C], EA [auth D], KA [auth I], TA [auth Q], Y [auth A]	FE (III) ION Fe VTLYFUHAOXGGBS-UHFFFAOYSA-N		Interactions Focus chain AA [auth B] Focus chain CA [auth C] Focus chain EA [auth D] Focus chain KA [auth I] Focus chain TA [auth Q] Focus chain Y [auth A] Interactions & Density Focus chain AA [auth B] Focus chain CA [auth C] Focus chain EA [auth D] Focus chain KA [auth I] Focus chain TA [auth Q] Focus chain Y [auth A]