8Y6F | pdb_00008y6f

The crystal structure of MMPs cleavable human heavy chain ferritin


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.01 Å
  • R-Value Free: 
    0.287 (Depositor), 0.287 (DCC) 
  • R-Value Work: 
    0.245 (Depositor), 0.245 (DCC) 
  • R-Value Observed: 
    0.247 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 8Y6F

This is version 1.0 of the entry. See complete history

Literature

Engineered protein cages with enhanced extracellular drug release for elevated antitumor efficacy.

Yan, W.Li, H.Ning, J.Huang, S.Jiang, L.Xu, P.Huang, M.Yuan, C.

(2024) Int J Biol Macromol 267: 131492-131492

  • DOI: https://doi.org/10.1016/j.ijbiomac.2024.131492
  • Primary Citation Related Structures: 
    8Y6F

  • PubMed Abstract: 

    Human heavy chain ferritin (HFn) protein cage has been explored as a nanocarrier for targeted anticancer drug delivery. Here, we introduced a matrix metalloproteinases (MMPs)-cleavable sequence into the DE loop of HFn, creating an MMP-responsive variant, MR-HFn, for localized and extracellular drug release. The crystal structure of MR-HFn revealed that the addition of the MMPs recognition sequence did not affect the self-assembly of HFn but presented a surface-exposed loop susceptible to MMPs cleavage. Biochemical analysis indicated that this engineered protein cage is responsive to MMPs, enabling the targeted release of encapsulated drugs. To evaluate the therapeutic potential of this engineered protein cage, monosubstituted β-carboxy phthalocyanine zinc (CPZ), a type of photosensitizer, was loaded inside this protein cage. The prepared CPZ@MR-HFn showed higher uptake and stronger phototoxicity in MMPs overexpressed tumor cells, as well as enhanced penetration into multicellular tumor spheroids compared with its counterpart CPZ@HFn in vitro. In vivo, CPZ@MR-HFn displayed a higher tumor inhibitory rate than CPZ@HFn under illumination. These results indicated that MR-HFn is a promising nanocarrier for anticancer drug delivery and the MMP-responsive strategy here can also be adapted for other stimuli.


  • Organizational Affiliation
    • College of Biological Science and Engineering, Fuzhou University, Fuzhou, Fujian 350108, China.

Macromolecule Content 

  • Total Structure Weight: 273.69 kDa 
  • Atom Count: 19,365 
  • Modeled Residue Count: 2,062 
  • Deposited Residue Count: 2,352 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Ferritin
A, B, C, D, E
A, B, C, D, E, F, G, H, I, J, K, L
196Homo sapiensMutation(s): 0 
Gene Names: FTH1
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 Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP02794
Sequence Annotations
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Reference Sequence

Small Molecules

Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
FE
(Subject of Investigation/LOI)

Query on FE



Download:Ideal Coordinates CCD File
AA [auth H]
BA [auth H]
CA [auth I]
DA [auth I]
FA [auth J]
AA [auth H],
BA [auth H],
CA [auth I],
DA [auth I],
FA [auth J],
GA [auth K],
HA [auth K],
KA [auth L],
O [auth A],
P [auth B],
Q [auth B],
S [auth C],
U [auth D],
V [auth D],
X [auth E],
Y [auth F],
Z [auth G]
FE (III) ION
Fe
VTLYFUHAOXGGBS-UHFFFAOYSA-N
CL
(Subject of Investigation/LOI)

Query on CL



Download:Ideal Coordinates CCD File
IA [auth L],
M [auth A],
N [auth A],
W [auth E]
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
NA
(Subject of Investigation/LOI)

Query on NA



Download:Ideal Coordinates CCD File
EA [auth J],
JA [auth L],
R [auth C],
T [auth D]
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.01 Å
  • R-Value Free:  0.287 (Depositor), 0.287 (DCC) 
  • R-Value Work:  0.245 (Depositor), 0.245 (DCC) 
  • R-Value Observed: 0.247 (Depositor) 
Space Group: P 42 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 219.66α = 90
b = 219.66β = 90
c = 148.31γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
xia2data scaling
xia2data reduction
PHASERphasing

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China32371312
National Natural Science Foundation of China (NSFC)China22077016

Revision History  (Full details and data files)

  • Version 1.0: 2024-07-17
    Type: Initial release