7CRG

Beta-strand-mediated dimeric formation of the extended Ig-like domains of human lamin A/C


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 0.216 
  • R-Value Work: 0.193 
  • R-Value Observed: 0.194 

Starting Model: experimental
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This is version 1.3 of the entry. See complete history


Literature

Beta-strand-mediated dimeric formation of the Ig-like domains of human lamin A/C and B1.

Ahn, J.Lee, J.Jeong, S.Kang, S.M.Park, B.J.Ha, N.C.

(2021) Biochem Biophys Res Commun 550: 191-196

  • DOI: https://doi.org/10.1016/j.bbrc.2021.02.102
  • Primary Citation of Related Structures:  
    7CRG, 7DTG

  • PubMed Abstract: 

    Lamins are nuclear intermediate filament proteins that play an essential role in maintaining the nuclear structure by forming a 3-D meshwork. Lamins consist of the N-terminal unstructured head, the coiled-coil rod domain, and the C-terminal tail, which is mostly unstructured except for the Ig-like domain. To date, the Ig-like domain has been characterized as a monomeric structure. Here, we determined the crystal structures of human lamin A/C, including the Ig-like domain and its N- and C-terminal flanking sequences. Interestingly, the structures showed a homodimer formed by beta-strand interactions between the N- and C-terminal flanking sequences. This interaction also provides a molecular implication for the creation of a 3-D meshwork between the 3.5-nm-thick filaments. Furthermore, we determined the crystal structure of the corresponding region of lamin B1. The structure showed a similar dimeric assembly, also formed by beta-strand interactions, albeit the intersubunit distance was much shorter. Since the Ig-like domain contains many genetic hotspots causing lamin-related diseases in lamin A/C, our findings will help understand the detailed assembly of lamins in a 3-D meshwork structure and lamin-related diseases at the molecular level.


  • Organizational Affiliation

    Department of Agricultural Biotechnology, Centre for Food Safety and Toxicology, Centre for Food and Bioconvergence, Research Institute for Agriculture and Life Sciences, CALS, Seoul National University, Seoul, 08826, Republic of Korea.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Prelamin-A/C
A, B, C
155Homo sapiensMutation(s): 0 
Gene Names: LMNALMN1
UniProt & NIH Common Fund Data Resources
Find proteins for P02545 (Homo sapiens)
Explore P02545 
Go to UniProtKB:  P02545
PHAROS:  P02545
GTEx:  ENSG00000160789 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP02545
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 0.216 
  • R-Value Work: 0.193 
  • R-Value Observed: 0.194 
  • Space Group: P 64 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 92.648α = 90
b = 92.648β = 90
c = 205.98γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data scaling
DENZOdata reduction
MOLREPphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2021-08-25
    Type: Initial release
  • Version 1.1: 2021-09-01
    Changes: Derived calculations
  • Version 1.2: 2021-11-03
    Changes: Database references
  • Version 1.3: 2023-11-29
    Changes: Data collection, Refinement description