4V6B

Crystal structure of human ferritin Phe167SerfsX26 mutant.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.85 Å
  • R-Value Free: 0.291 
  • R-Value Work: 0.249 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Unraveling of the E-helices and disruption of 4-fold pores are associated with iron mishandling in a mutant ferritin causing neurodegeneration

Baraibar, M.A.Muhoberac, B.B.Garringer, H.J.Hurley, T.D.Vidal, R.

(2010) J.Biol.Chem. 285: 1950-1956

  • DOI: 10.1074/jbc.M109.042986
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Mutations in the coding sequence of the ferritin light chain (FTL) gene cause a neurodegenerative disease known as neuroferritinopathy or hereditary ferritinopathy, which is characterized by the presence of intracellular inclusion bodies containing t ...

    Mutations in the coding sequence of the ferritin light chain (FTL) gene cause a neurodegenerative disease known as neuroferritinopathy or hereditary ferritinopathy, which is characterized by the presence of intracellular inclusion bodies containing the mutant FTL polypeptide and by abnormal accumulation of iron in the brain. Here, we describe the x-ray crystallographic structure and report functional studies of ferritin homopolymers formed from the mutant FTL polypeptide p.Phe167SerfsX26, which has a C terminus that is altered in amino acid sequence and length. The structure was determined and refined to 2.85 A resolution and was very similar to the wild type between residues Ile-5 and Arg-154. However, instead of the E-helices normally present in wild type ferritin, the C-terminal sequences of all 24 mutant subunits showed substantial amounts of disorder, leading to multiple C-terminal polypeptide conformations and a large disruption of the normally tiny 4-fold axis pores. Functional studies underscored the importance of the mutant C-terminal sequence in iron-induced precipitation and revealed iron mishandling by soluble mutant FTL homopolymers in that only wild type incorporated iron when in direct competition in solution with mutant ferritin. Even without competition, the amount of iron incorporation over the first few minutes differed severalfold. Our data suggest that disruption at the 4-fold pores may lead to direct iron mishandling through attenuated iron incorporation by the soluble form of mutant ferritin and that the disordered C-terminal polypeptides may play a major role in iron-induced precipitation and formation of ferritin inclusion bodies in hereditary ferritinopathy.


    Related Citations: 
    • Iron-mediated aggregation and a localized structural change characterize ferritin from a mutant light chain polypeptide that causes neurodegeneration.
      Baraibar, M.A.,Barbeito, A.G.,Muhoberac, B.B.,Vidal, R.
      (2008) J.Biol.Chem. 283: 31679


    Organizational Affiliation

    Department of Pathology and Laboratory Medicine, Indiana University School of Medicine, Indianapolis, Indiana 46202, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Ferritin
AA, Aa, AB, Ab, AC, Ac, AD, Ad, AE, Ae, AF, Af, AG, Ag, AH, Ah, AI, Ai, AJ, Aj, AK, Ak, AL, Al, AM, Am, AN, An, AO, Ao, AP, Ap, AQ, Aq, AR, Ar, AS, As, AT, At, AU, Au, AV, Av, AW, Aw, AX, Ax, BA, Ba, BB, Bb, BC, Bc, BD, Bd, BE, Be, BF, Bf, BG, Bg, BH, Bh, BI, Bi, BJ, Bj, BK, Bk, BL, Bl, BM, Bm, BN, Bn, BO, Bo, BP, Bp, BQ, Bq, BR, Br, BS, Bs, BT, Bt, BU, Bu, BV, Bv, BW, Bw, BX, Bx, CA, Ca, CB, Cb, CC, Cc, CD, Cd, CE, Ce, CF, Cf, CG, Cg, CH, Ch, CI, Ci, CJ, Cj, CK, Ck, CL, Cl, CM, Cm, CN, Cn, CO, Co, CP, Cp, CQ, Cq, CR, Cr, CS, Cs, CT, Ct, CU, Cu, CV, Cv, CW, Cw, CX, Cx
192Homo sapiensMutation(s): 0 
Gene Names: FTL
Find proteins for Q6S4P3 (Homo sapiens)
Go to Gene View: FTL
Go to UniProtKB:  Q6S4P3
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CA
Query on CA

Download SDF File 
Download CCD File 
AA, Aa, AB, Ac, AC, Ad, Ae, AF, Ag, Ah, AH, Aj, AL, AM, An, AO, BA, Ba, BB, Bb, BC, Bc, BD, Bd, Be, Bf, Bg, BG, BH, BN, BR, Bu, Ca, CA, Cb, CB, CC, CD, Ce, CE, CF, Cg, CH, Ck, Cl, Cn, CO, Cp
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.85 Å
  • R-Value Free: 0.291 
  • R-Value Work: 0.249 
  • Space Group: P 1
Unit Cell:
Length (Å)Angle (°)
a = 212.340α = 94.69
b = 236.940β = 115.06
c = 249.710γ = 114.96
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
HKL-3000data reduction
AMoREphasing
ADSCdata collection
CNSrefinement
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-07-09
    Type: Initial release
  • Version 1.1: 2014-12-10
    Type: Other
  • Version 1.2: 2017-11-22
    Type: Refinement description