RCSB PDB - 5EKH: Human Carbonic Anhydrase II complexed with a two-faced guest (original) (raw)
Human Carbonic Anhydrase II complexed with a two-faced guest
This is version 1.6 of the entry. See complete history.
Programming A Molecular Relay for Ultrasensitive Biodetection through (129) Xe NMR.
[Wang, Y.](/search?q=citation.rcsb%5Fauthors:Wang, Y.), [Roose, B.W.](/search?q=citation.rcsb%5Fauthors:Roose, B.W.), [Philbin, J.P.](/search?q=citation.rcsb%5Fauthors:Philbin, J.P.), [Doman, J.L.](/search?q=citation.rcsb%5Fauthors:Doman, J.L.), [Dmochowski, I.J.](/search?q=citation.rcsb%5Fauthors:Dmochowski, I.J.)
(2016) Angew Chem Int Ed Engl 55: 1733-1736
PubMed Abstract:
A supramolecular strategy for detecting specific proteins in complex media by using hyperpolarized (129) Xe NMR is reported. A cucurbit[6]uril (CB[6])-based molecular relay was programmed for three sequential equilibrium conditions by designing a two-faced guest (TFG) that initially binds CB[6] and blocks the CB[6]-Xe interaction. The protein analyte recruits the TFG and frees CB[6] for Xe binding. TFGs containing CB[6]- and carbonic anhydrase II (CAII)-binding domains were synthesized in one or two steps. X-ray crystallography confirmed TFG binding to Zn(2+) in the deep CAII active-site cleft, which precludes simultaneous CB[6] binding. The molecular relay was reprogrammed to detect avidin by using a different TFG. Finally, Xe binding by CB[6] was detected in buffer and in E. coli cultures expressing CAII through ultrasensitive (129) Xe NMR spectroscopy.
Organizational Affiliation:
Department of Chemistry, University of Pennsylvania, 231 South 34th Street, Philadelphia, PA, 19104-6323, USA.
Macromolecule Content
- Total Structure Weight: 29.7 kDa
- Atom Count: 2,317
- Modelled Residue Count: 257
- Deposited Residue Count: 260
- Unique protein chains: 1
Find similar proteins by:
(by identity cutoff) | 3D Structure
Experimental Data & Validation
Experimental Data
- Space Group: [P 1 21 1](/search?q=symmetry.space%5Fgroup%5Fname%5FH%5FM:P 1 21 1)
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 42.38 | α = 90 |
| b = 41.39 | β = 104.04 |
| c = 72.11 | γ = 90 |
Software Package:
| Software Name | Purpose |
|---|---|
| MOSFLM | data reduction |
| Aimless | data scaling |
| PHENIX | refinement |
| PDB_EXTRACT | data extraction |
| PHASER | phasing |
Entry History & Funding Information
Deposition Data
- Released Date: 2016-01-06 Deposition Author(s): [Roose, B.W.](/search?q=audit%5Fauthor.name:Roose, B.W.), [Dmochowksi, I.J.](/search?q=audit%5Fauthor.name:Dmochowksi, I.J.)
| Funding Organization | Location | Grant Number |
|---|---|---|
| National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) | United States | GM097478 |
Revision History (Full details and data files)
- Version 1.0: 2016-01-06
Type: Initial release - Version 1.1: 2016-01-13
Changes: Database references - Version 1.2: 2016-02-03
Changes: Database references - Version 1.3: 2017-09-13
Changes: Author supporting evidence, Database references, Derived calculations - Version 1.4: 2017-11-22
Changes: Refinement description - Version 1.5: 2019-12-25
Changes: Author supporting evidence - Version 1.6: 2023-09-27
Changes: Data collection, Database references, Derived calculations, Refinement description