2LR2 | pdb_00002lr2

Designed IgG and lanthanide binding probe for solution NMR, MRI and luminescence microscopy

PDB DOI: https://doi.org/10.2210/pdb2LR2/pdb
BMRB: 18126

Classification: DE NOVO PROTEIN
Organism(s): synthetic construct
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2012-03-21 Released: 2012-09-12
Deposition Author(s): Barb, A.W., Ho, T.G., Prestegard, J.H.

Experimental Data Snapshot

Method: SOLUTION NMR
Conformers Calculated: 50
Conformers Submitted: 2
Selection Criteria: structures with the lowest energy

wwPDB Validation 3D Report Full Report

Validation slider image for 2LR2

This is version 1.3 of the entry. See complete history.

Literature

Lanthanide binding and IgG affinity construct: Potential applications in solution NMR, MRI, and luminescence microscopy.

Barb, A.W., Ho, T.G., Flanagan-Steet, H., Prestegard, J.H.

(2012) Protein Sci 21: 1456-1466

PubMed: 22851279 Search on PubMed Search on PubMed Central
DOI: https://doi.org/10.1002/pro.2133
Primary Citation Related Structures:
2LR2

PubMed Abstract:
Paramagnetic lanthanide ions when bound to proteins offer great potential for structural investigations that utilize solution nuclear magnetic resonance spectroscopy, magnetic resonance imaging, or optical microscopy. However, many proteins do not have native metal ion binding sites and engineering a chimeric protein to bind an ion while retaining affinity for a protein of interest represents a significant challenge. Here we report the characterization of an immunoglobulin G-binding protein redesigned to include a lanthanide binding motif in place of a loop between two helices (Z-L2LBT). It was shown to bind Tb³⁺ with 130 nM affinity. Ions such as Dy³⁺, Yb³⁺, and Ce³⁺ produce paramagnetic effects on NMR spectra and the utility of these effects is illustrated by their use in determining a structural model of the metal-complexed Z-L2LBT protein and a preliminary characterization of the dynamic distribution of IgG Fc glycan positions. Furthermore, this designed protein is demonstrated to be a novel IgG-binding reagent for magnetic resonance imaging (Z-L2LBT:Gd³⁺ complex) and luminescence microscopy (Z-L2LBT: Tb³⁺ complex).

Organizational Affiliation

Complex Carbohydrate Research Center, The University of Georgia, Athens, Georgia, USA.

Macromolecule Content

Total Structure Weight: 9.88 kDa
Atom Count: 600
Modeled Residue Count: 76
Deposited Residue Count: 88
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Immunoglobulin G-binding protein A	A	88	synthetic construct	Mutation(s): 0

Experimental Data & Validation

Experimental Data

Method: SOLUTION NMR
Conformers Calculated: 50
Conformers Submitted: 2
Selection Criteria: structures with the lowest energy

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2012-09-12

Deposition Author(s):

Prestegard, J.H.

Revision History (Full details and data files)

Version 1.0: 2012-09-12
Type: Initial release
Version 1.1: 2012-10-03
Changes: Database references
Version 1.2: 2023-06-14
Changes: Database references, Other
Version 1.3: 2024-05-15
Changes: Data collection, Database references

RCSB PDB is hosted by

RCSB PDB is a member of

RCSB Partners
Nucleic Acid Knowledgebase

CoreTrustSeal

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.