6RO5

1Yr-Y: Lysozyme with Re Cluster 1 year on shelf


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.68 Å
  • R-Value Free: 0.273 
  • R-Value Work: 0.241 
  • R-Value Observed: 0.242 

wwPDB Validation   3D Report Full Report


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Literature

Formation of a highly dense tetra-rhenium cluster in a protein crystal and its implications in medical imaging.

Brink, A.Helliwell, J.R.

(2019) IUCrJ 6: 695-702

  • DOI: 10.1107/S2052252519006651
  • Primary Citation of Related Structures:  
    6RO3, 6RO5

  • PubMed Abstract: 
  • The fact that a protein crystal can serve as a chemical reaction vessel is intrinsically fascinating. That it can produce an electron-dense tetranuclear rhenium cluster compound from a rhenium tri-carbonyl tri-bromo starting compound adds to the fascination ...

    The fact that a protein crystal can serve as a chemical reaction vessel is intrinsically fascinating. That it can produce an electron-dense tetranuclear rhenium cluster compound from a rhenium tri-carbonyl tri-bromo starting compound adds to the fascination. Such a cluster has been synthesized previously in vitro , where it formed under basic conditions. Therefore, its synthesis in a protein crystal grown at pH 4.5 is even more unexpected. The X-ray crystal structures presented here are for the protein hen egg-white lysozyme incubated with a rhenium tri-carbonyl tri-bromo compound for periods of one and two years. These reveal a completed, very well resolved, tetra-rhenium cluster after two years and an intermediate state, where the carbonyl ligands to the rhenium cluster are not yet clearly resolved, after one year. A dense tetranuclear rhenium cluster, and its technetium form, offer enhanced contrast in medical imaging. Stimulated by these crystallography results, the unusual formation of such a species directly in an in vivo situation has been considered. It offers a new option for medical imaging compounds, particularly when considering the application of the pre-formed tetranuclear cluster, suggesting that it may be suitable for medical diagnosis because of its stability, preference of formation and biological compatibility.


    Organizational Affiliation

    School of Chemistry, University of Manchester, Brunswick Street, Manchester M13 9PL, UK.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Lysozyme CA, B129Gallus gallusMutation(s): 0 
Gene Names: LYZ
EC: 3.2.1.17
UniProt
Find proteins for P00698 (Gallus gallus)
Explore P00698 
Go to UniProtKB:  P00698
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 6 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
QEB (Subject of Investigation/LOI)
Query on QEB

Download Ideal Coordinates CCD File 
N [auth A], O [auth A], P [auth A], Q [auth A], R [auth A], S [auth A][Re4(mu3-OH)4(CO)12]
O4 Re4
NXFRRTQSEIQUNR-UHFFFAOYSA-N
 Ligand Interaction
RRE (Subject of Investigation/LOI)
Query on RRE

Download Ideal Coordinates CCD File 
DA [auth B], T [auth A]fac-tricarbonyl-triaqua rhenium(I)
C3 O6 Re
LTJPXUNQIJYHLE-UHFFFAOYSA-K
 Ligand Interaction
RE
Query on RE

Download Ideal Coordinates CCD File 
BA [auth B] , C [auth A] , CA [auth B] , D [auth A] , I [auth A] , J [auth A] , K [auth A] , L [auth A] , 
BA [auth B],  C [auth A],  CA [auth B],  D [auth A],  I [auth A],  J [auth A],  K [auth A],  L [auth A],  M [auth A],  U [auth B],  V [auth B],  W [auth B],  X [auth B]
RHENIUM
Re
WUAPFZMCVAUBPE-UHFFFAOYSA-N
 Ligand Interaction
ACT
Query on ACT

Download Ideal Coordinates CCD File 
EA [auth B], H [auth A]ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
 Ligand Interaction
CL
Query on CL

Download Ideal Coordinates CCD File 
E [auth A], F [auth A], Y [auth B], Z [auth B]CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
NA
Query on NA

Download Ideal Coordinates CCD File 
AA [auth B], G [auth A]SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.68 Å
  • R-Value Free: 0.273 
  • R-Value Work: 0.241 
  • R-Value Observed: 0.242 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 37.88α = 90
b = 78.65β = 90
c = 80.67γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
MOSFLMdata reduction
SCALAdata scaling
PHASERphasing

Structure Validation

View Full Validation Report




Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Research Foundation in South AfricaSouth Africa99139

Revision History  (Full details and data files)

  • Version 1.0: 2019-06-19
    Type: Initial release
  • Version 1.1: 2019-07-31
    Changes: Data collection, Database references