8VPZ

UIC-1-BPE1MER mutation of UIC-1-cap

  • Classification: DE NOVO PROTEIN
  • Organism(s): synthetic construct
  • Mutation(s): No 

  • Deposited: 2024-01-17 Released: 2024-08-07 
  • Deposition Author(s): Ganatra, P.
  • Funding Organization(s): Department of Energy (DOE, United States)

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.04 Å
  • R-Value Free: 0.101 
  • R-Value Work: 0.086 
  • R-Value Observed: 0.088 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Diverse Proteomimetic Frameworks via Rational Design of pi-Stacking Peptide Tectons.

Ganatra, P.Wang, D.F.Ganatra, V.Dang, V.T.Nguyen, A.I.

(2024) J Am Chem Soc 146: 22236-22246

  • DOI: https://doi.org/10.1021/jacs.4c03094
  • Primary Citation of Related Structures:  
    8VOG, 8VP7, 8VPC, 8VPD, 8VPE, 8VPJ, 8VPS, 8VPT, 8VPX, 8VPY, 8VPZ, 8VQ0, 8VSF, 8VT8, 8VW7, 8VW8, 8VXS

  • PubMed Abstract: 

    Peptide-based frameworks aim to integrate protein architecture into solid-state materials using simpler building blocks. Despite the growing number of peptide frameworks, there are few strategies to rationally engineer essential properties like pore size and shape. Designing peptide assemblies is generally hindered by the difficulty of predicting complex networks of weak intermolecular interactions. Peptides conjugated to polyaromatic groups are a unique case where assembly appears to be strongly driven by π-π interactions, suggesting that rationally adjusting the geometry of the π-stackers could create novel structures. Here, we report peptide elongation as a simple mechanism to predictably tune the angle between the π-stacking groups to produce a remarkable diversity of pore shapes and sizes, including some that are mesoporous. Notably, rapid jumps in pore size and shape can occur with just a single amino acid insertion. The geometry of the π-stacking residues also significantly influences framework structure, representing an additional dimension for tuning. Lastly, sequence identity can also indirectly modulate the π-π interactions. By correlating each of these factors with detailed crystallographic data, we find that, despite the complexity of peptide structure, the shape and polarity of the tectons are straightforward predictors of framework structure. These guidelines are expected to accelerate the development of advanced porous materials with protein-like capabilities.


  • Organizational Affiliation

    Department of Chemistry, University of Illinois Chicago, Chicago, Illinois 60607, United States.


Macromolecules

Find similar proteins by:  Sequence   |   3D Structure  

Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
UIC-1-BPE1MER11synthetic constructMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
MOH
Query on MOH

Download Ideal Coordinates CCD File 
B [auth A]METHANOL
C H4 O
OKKJLVBELUTLKV-UHFFFAOYSA-N
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
AIB
Query on AIB
A
L-PEPTIDE LINKINGC4 H9 N O2ALA
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.04 Å
  • R-Value Free: 0.101 
  • R-Value Work: 0.086 
  • R-Value Observed: 0.088 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 16.643α = 90
b = 9.082β = 98.93
c = 27.945γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XDSdata scaling
PHASERphasing

Structure Validation

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Entry History & Funding Information

Deposition Data

  • Released Date: 2024-08-07 
  • Deposition Author(s): Ganatra, P.

Funding OrganizationLocationGrant Number
Department of Energy (DOE, United States)United StatesDE-AC02-06CH11357

Revision History  (Full details and data files)

  • Version 1.0: 2024-08-07
    Type: Initial release
  • Version 1.1: 2024-08-14
    Changes: Database references
  • Version 1.2: 2024-09-04
    Changes: Database references