8GBH

Porous framework formed by assembly of a bipyridyl-conjugated helical peptide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.02 Å
  • R-Value Free: 0.133 
  • R-Value Work: 0.104 
  • R-Value Observed: 0.107 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.0 of the entry. See complete history


Literature

Noncovalent Peptide Assembly Enables Crystalline, Permutable, and Reactive Thiol Frameworks.

Hess, S.S.Coppola, F.Dang, V.T.Tran, P.N.Mickel, P.J.Oktawiec, J.Ren, Z.Kral, P.Nguyen, A.I.

(2023) J Am Chem Soc 145: 19588-19600

  • DOI: https://doi.org/10.1021/jacs.3c03645
  • Primary Citation of Related Structures:  
    8GB9, 8GBA, 8GBH, 8GBI, 8GBM, 8GBO, 8GD6, 8GD8, 8GIV, 8GJ7, 8GK1, 8GK2, 8GK9, 8GKB, 8GKX, 8GL0, 8GL4, 8GL5, 8SW2, 8SY4

  • PubMed Abstract: 

    Though thiols are exceptionally versatile, their high reactivity has also hindered the synthesis and characterization of well-defined thiol-containing porous materials. Leveraging the mild conditions of the noncovalent peptide assembly, we readily synthesized and characterized a number of frameworks with thiols displayed at many unique positions and in several permutations. Importantly, nearly all assemblies were structurally determined using single-crystal X-ray diffraction to reveal their rich sequence-structure landscape and the cooperative noncovalent interactions underlying their assembly. These observations and supporting molecular dynamics calculations enabled rational engineering by the positive and negative design of noncovalent interactions. Furthermore, the thiol-containing frameworks undergo diverse single-crystal-to-single-crystal reactions, including toxic metal ion coordination (e.g., Cd 2+ , Pb 2+ , and Hg 2+ ), selective uptake of Hg 2+ ions, and redox transformations. Notably, we find a framework that supports thiol-nitrosothiol interconversion, which is applicable for biocompatible nitric oxide delivery. The modularity, ease of synthesis, functionality, and well-defined nature of these peptide-based thiol frameworks are expected to accelerate the design of complex materials with reactive active sites.


  • 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
LEU-(AIB)-ALA-SER-LEU-ALA-(OCS)-(AIB)-LEU9synthetic constructMutation(s): 0 
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
I77
Query on I77

Download Ideal Coordinates CCD File 
C [auth A]5'-(hydrazinecarbonyl)[2,2'-bipyridine]-5-carboxamide
C12 H11 N5 O2
HCFBUFHFZAJOFM-UHFFFAOYSA-N
NIO
Query on NIO

Download Ideal Coordinates CCD File 
B [auth A]NICOTINIC ACID
C6 H5 N O2
PVNIIMVLHYAWGP-UHFFFAOYSA-N
Modified Residues  2 Unique
IDChains TypeFormula2D DiagramParent
AIB
Query on AIB
A
L-PEPTIDE LINKINGC4 H9 N O2ALA
OCS
Query on OCS
A
L-PEPTIDE LINKINGC3 H7 N O5 SCYS
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.02 Å
  • R-Value Free: 0.133 
  • R-Value Work: 0.104 
  • R-Value Observed: 0.107 
  • Space Group: P 21 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 8.446α = 90
b = 16.54β = 90
c = 55.093γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XDSdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Other private--

Revision History  (Full details and data files)

  • Version 1.0: 2023-11-15
    Type: Initial release