Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 17.90 kDa 
• Atom Count: 970 
• Modelled Residue Count: 114 
• Deposited Residue Count: 148 
• Unique protein chains: 1

2XV5

Human lamin A coil 2B fragment

• PDB DOI: 10.2210/pdb2XV5/pdb

• Classification: STRUCTURAL PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2010-10-22 Released: 2011-03-09 
• Deposition Author(s): Kapinos, L.E., Burkhard, P., Aebi, U., Herrmann, H., Strelkov, S.V.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.284 
• R-Value Work: 0.241 
• R-Value Observed: 0.245 

Literature

Simultaneous Formation of Right- and Left-Handed Anti-Parallel Coiled-Coil Interfaces by a Coil2 Fragment of Human Lamin A.

Kapinos, L.E., Burkhard, P., Herrmann, H., Aebi, U., Strelkov, S.V.

(2011) J Mol Biol 408: 135

• PubMed: 21354179 
• DOI: 10.1016/j.jmb.2011.02.037
• Primary Citation of Related Structures:  
  2XV5


• PubMed Abstract: 
  

The elementary building block of all intermediate filaments (IFs) is a dimer featuring a central α-helical rod domain flanked by the N- and C-terminal end domains. In nuclear IF proteins (lamins), the rod domain consists of two coiled-coil segments, coil1 and coil2, that are connected by a short non-helical linker. Coil1 and the C-terminal part of coil2 contain the two highly conserved IF consensus motifs involved in the longitudinal assembly of dimers. The previously solved crystal structure of a lamin A fragment (residues 305-387) corresponding to the second half of coil2 has yielded a parallel left-handed coiled coil. Here, we present the crystal structure and solution properties of another human lamin A fragment (residues 328-398), which is largely overlapping with fragment 305-387 but harbors a short segment of the tail domain. Unexpectedly, no parallel coiled coil forms within the crystal. Instead, the α-helices are arranged such that two anti-parallel coiled-coil interfaces are formed. The most significant interface has a right-handed geometry, which is accounted for by a characteristic 15-residue repeat pattern that overlays with the canonical heptad repeat pattern. The second interface is a left-handed anti-parallel coiled coil based on the predicted heptad repeat pattern. In solution, the fragment reveals only a weak dimerization propensity. We speculate that the C-terminus of coil2 might unzip, thereby allowing for a right-handed coiled-coil interface to form between two laterally aligned dimers. Such an interface might co-exist with a heterotetrameric left-handed coiled-coil assembly, which is expected to be responsible for the longitudinal A(CN) contact.

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Organizational Affiliation: 

M.E. Müller Institute for Structural Biology, Biozentrum, University of Basel, Switzerland. [e-mail]

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
LAMIN-A/C	A, B	74	Homo sapiens	Mutation(s): 0  Gene Names: LMNA, LMN1
UniProt & NIH Common Fund Data Resources
Find proteins for P02545 (Homo sapiens) Explore P02545  Go to UniProtKB:  P02545
PHAROS:  P02545 GTEx:  ENSG00000160789

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.284 
• R-Value Work: 0.241 
• R-Value Observed: 0.245 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 35.093	α = 90
b = 50.114	β = 90
c = 89.745	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
SCALEPACK	data scaling
SHELXD	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2010-10-22 
• Released Date: 2011-03-09 
Deposition Author(s): Kapinos, L.E., Burkhard, P., Aebi, U., Herrmann, H., Strelkov, S.V.

Revision History  

• Version 1.0: 2011-03-09
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2019-03-06
  Changes: Data collection, Derived calculations, Experimental preparation, Other