7JH1

Solution structure of a reconstructed XCL1 ancestor

  • Classification: CYTOKINE
  • Organism(s): synthetic construct
  • Expression System: Escherichia coli BL21(DE3)
  • Mutation(s): No 

  • Deposited: 2020-07-20 Released: 2020-12-30 
  • Deposition Author(s): Tyler, R.C., Peterson, F.C., Volkman, B.F.
  • Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID), National Institutes of Health/National Center for Research Resources (NIH/NCRR), National Institutes of Health/National Cancer Institute (NIH/NCI), National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 100 
  • Conformers Submitted: 20 
  • Selection Criteria: target function 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Evolution of fold switching in a metamorphic protein.

Dishman, A.F.Tyler, R.C.Fox, J.C.Kleist, A.B.Prehoda, K.E.Babu, M.M.Peterson, F.C.Volkman, B.F.

(2021) Science 371: 86-90

  • DOI: https://doi.org/10.1126/science.abd8700
  • Primary Citation of Related Structures:  
    7JH1

  • PubMed Abstract: 

    Metamorphic proteins switch between different folds, defying the protein folding paradigm. It is unclear how fold switching arises during evolution. With ancestral reconstruction and nuclear magnetic resonance, we studied the evolution of the metamorphic human protein XCL1, which has two distinct folds with different functions, making it an unusual member of the chemokine family, whose members generally adopt one conserved fold. XCL1 evolved from an ancestor with the chemokine fold. Evolution of a dimer interface, changes in structural constraints and molecular strain, and alteration of intramolecular protein contacts drove the evolution of metamorphosis. Then, XCL1 likely evolved to preferentially populate the noncanonical fold before reaching its modern-day near-equal population of folds. These discoveries illuminate how one sequence has evolved to encode multiple structures, revealing principles for protein design and engineering.


  • Organizational Affiliation

    Department of Biochemistry, Medical College of Wisconsin, Milwaukee, WI, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
XCL1 ancestor64synthetic constructMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 100 
  • Conformers Submitted: 20 
  • Selection Criteria: target function 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United StatesR56 AI103225
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United StatesR01 AI058072
National Institutes of Health/National Center for Research Resources (NIH/NCRR)United StatesS10 OD020000
National Institutes of Health/National Cancer Institute (NIH/NCI)United StatesF30 CA236182
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesT32 GM080202

Revision History  (Full details and data files)

  • Version 1.0: 2020-12-30
    Type: Initial release
  • Version 1.1: 2021-01-13
    Changes: Database references, Source and taxonomy
  • Version 1.2: 2023-06-14
    Changes: Database references, Other