5JKL

Binary crystal structure of positively and negatively supercharged variants Ftn(pos) and Ftn(neg) from human heavy chain ferritin (Mg formate condition)

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 0.176 
  • R-Value Work: 0.147 
  • R-Value Observed: 0.148 

wwPDB Validation   3D Report Full Report


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


Literature

Binary Protein Crystals for the Assembly of Inorganic Nanoparticle Superlattices.

Kunzle, M., Eckert, T., Beck, T.

(2016) J Am Chem Soc 138: 12731-12734

  • DOI: 10.1021/jacs.6b07260
  • Primary Citation of Related Structures:  
    5JKL, 5JKM

  • PubMed Abstract: 

    • Biomolecules can act as functional templates for the organization of inorganic particles. Here we use two protein containers, engineered with opposite surface charge, as building blocks for the construction of a new type of biohybrid material. Binary structures with crystalline order were obtained, adopting a tetragonal lattice ...

    Biomolecules can act as functional templates for the organization of inorganic particles. Here we use two protein containers, engineered with opposite surface charge, as building blocks for the construction of a new type of biohybrid material. Binary structures with crystalline order were obtained, adopting a tetragonal lattice. Moreover, the cavity of the engineered protein containers can be filled with inorganic nanoparticles. The controlled assembly of these protein-nanoparticle composites yields highly ordered binary nanoparticle superlattices as free-standing crystals, with up to a few hundred micrometers in size. Because the structure and lattice parameters of the protein-nanoparticle crystals are independent of their nanoparticle cargo, the binary protein material may serve as a generally applicable matrix for the assembly of a variety of nanoparticles types.

    Organizational Affiliation: 

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



Macromolecules
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(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Ferritin heavy chain
A, B, C, D, E, F
A, B, C, D, E, F
183Homo sapiensMutation(s): 10 
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
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP02794
Protein Feature View
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  • Reference Sequence
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(by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Ferritin heavy chain
G, H, I, J, K, L
G, H, I, J, K, L
183Homo sapiensMutation(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
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP02794
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL
Download Ideal Coordinates CCD File 
EA [auth E],
T [auth B],
W [auth C]		GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N		 Ligand Interaction
FE
Query on FE
Download Ideal Coordinates CCD File 
CA [auth E],
FA [auth F],
GA [auth F],
JA [auth G],
KA [auth G],
CA [auth E],
FA [auth F],
GA [auth F],
JA [auth G],
KA [auth G],
M [auth A],
N [auth A],
OA [auth H],
PA [auth H],
R [auth B],
SA [auth I],
TA [auth J],
U [auth C],
VA [auth K],
X [auth D],
XA [auth L],
Y [auth D],
YA [auth L]
FE (III) ION
Fe
VTLYFUHAOXGGBS-UHFFFAOYSA-N		 Ligand Interaction
CL
Query on CL
Download Ideal Coordinates CCD File 
AB [auth L],
BA [auth D],
IA [auth F],
NA [auth G],
Q [auth A],
AB [auth L],
BA [auth D],
IA [auth F],
NA [auth G],
Q [auth A],
RA [auth H]
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M		 Ligand Interaction
MG
Query on MG
Download Ideal Coordinates CCD File 
AA [auth D],
DA [auth E],
HA [auth F],
LA [auth G],
MA [auth G],
AA [auth D],
DA [auth E],
HA [auth F],
LA [auth G],
MA [auth G],
O [auth A],
P [auth A],
QA [auth H],
S [auth B],
UA [auth J],
V [auth C],
WA [auth K],
Z [auth D],
ZA [auth L]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N		 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 0.176 
  • R-Value Work: 0.147 
  • R-Value Observed: 0.148 
  • Space Group: P 4
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 126.62α = 90
b = 126.62β = 90
c = 174.86γ = 90
Software Package:
Software NamePurpose
XDSdata reduction
XSCALEdata scaling
PHASERphasing
REFMACrefinement
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report



View more in-depth experimental data

Entry History 

Deposition Data

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

Revision History  (Full details and data files)

  • Version 1.0: 2016-10-26
    Type: Initial release