5TGW

NMR structure of apo-PS1


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 20 
  • Conformers Submitted: 20 
  • Selection Criteria: structures with the lowest energy 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

De novo design of a hyperstable non-natural protein-ligand complex with sub- angstrom accuracy.

Polizzi, N.F.Wu, Y.Lemmin, T.Maxwell, A.M.Zhang, S.Q.Rawson, J.Beratan, D.N.Therien, M.J.DeGrado, W.F.

(2017) Nat Chem 9: 1157-1164

  • DOI: 10.1038/nchem.2846
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • Protein catalysis requires the atomic-level orchestration of side chains, substrates and cofactors, and yet the ability to design a small-molecule-binding protein entirely from first principles with a precisely predetermined structure has not been de ...

    Protein catalysis requires the atomic-level orchestration of side chains, substrates and cofactors, and yet the ability to design a small-molecule-binding protein entirely from first principles with a precisely predetermined structure has not been demonstrated. Here we report the design of a novel protein, PS1, that binds a highly electron-deficient non-natural porphyrin at temperatures up to 100 °C. The high-resolution structure of holo-PS1 is in sub-Å agreement with the design. The structure of apo-PS1 retains the remote core packing of the holoprotein, with a flexible binding region that is predisposed to ligand binding with the desired geometry. Our results illustrate the unification of core packing and binding-site definition as a central principle of ligand-binding protein design.


    Organizational Affiliation

    Department of Pharmaceutical Chemistry, Cardiovascular Research Institute, University of California, San Francisco, California 94158, USA.



Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
PS1
A
109Escherichia coliMutation(s): 0 
Protein Feature View
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 20 
  • Conformers Submitted: 20 
  • Selection Criteria: structures with the lowest energy 
  • OLDERADO: 5TGW Olderado

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data

  • Deposited Date: 2016-09-28 
  • Released Date: 2017-08-09 
  • Deposition Author(s): Polizzi, N.F., Wu, Y.

Funding OrganizationLocationGrant Number
National Science Foundation (NSF, United States)United StatesCHE-1413333
National Science Foundation (NSF, United States)United StatesCHE-1413295
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesGM-071628
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesGM-048043

Revision History 

  • Version 1.0: 2017-08-09
    Type: Initial release
  • Version 1.1: 2017-09-27
    Changes: Author supporting evidence
  • Version 1.2: 2017-12-06
    Changes: Database references
  • Version 1.3: 2019-11-27
    Changes: Author supporting evidence, Data collection