3K7R

Crystal structure of [TM][CuAtx1]3


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.28 Å
  • R-Value Free: 0.256 
  • R-Value Work: 0.202 
  • R-Value Observed: 0.204 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Tetrathiomolybdate inhibits copper trafficking proteins through metal cluster formation.

Alvarez, H.M.Xue, Y.Robinson, C.D.Canalizo-Hernandez, M.A.Marvin, R.G.Kelly, R.A.Mondragon, A.Penner-Hahn, J.E.O'Halloran, T.V.

(2010) Science 327: 331-334

  • DOI: https://doi.org/10.1126/science.1179907
  • Primary Citation of Related Structures:  
    3K7R

  • PubMed Abstract: 

    Tetrathiomolybdate (TM) is an orally active agent for treatment of disorders of copper metabolism. Here we describe how TM inhibits proteins that regulate copper physiology. Crystallographic results reveal that the surprising stability of the drug complex with the metallochaperone Atx1 arises from formation of a sulfur-bridged copper-molybdenum cluster reminiscent of those found in molybdenum and iron sulfur proteins. Spectroscopic studies indicate that this cluster is stable in solution and corresponds to physiological clusters isolated from TM-treated Wilson's disease animal models. Finally, mechanistic studies show that the drug-metallochaperone inhibits metal transfer functions between copper-trafficking proteins. The results are consistent with a model wherein TM can directly and reversibly down-regulate copper delivery to secreted metalloenzymes and suggest that proteins involved in metal regulation might be fruitful drug targets.


  • Organizational Affiliation

    The Chemistry of Life Processes Institute, Northwestern University, Evanston, IL 60208, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Metal homeostasis factor ATX1
A, B, C, D, E
A, B, C, D, E, F, G, H, I, J, K, L
73Saccharomyces cerevisiaeMutation(s): 0 
Gene Names: ATX1N0840YNL259C
UniProt
Find proteins for P38636 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P38636 
Go to UniProtKB:  P38636
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP38636
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
4SM
Query on 4SM

Download Ideal Coordinates CCD File 
BA [auth I],
EA [auth J],
Q [auth C],
T [auth D]
TETRATHIOMOLYBDATE
Mo S4
CXVCSRUYMINUSF-UHFFFAOYSA-N
MLT
Query on MLT

Download Ideal Coordinates CCD File 
HA [auth L],
U [auth D]
D-MALATE
C4 H6 O5
BJEPYKJPYRNKOW-UWTATZPHSA-N
CU
Query on CU

Download Ideal Coordinates CCD File 
AA [auth I]
CA [auth J]
DA [auth J]
FA [auth K]
GA [auth L]
AA [auth I],
CA [auth J],
DA [auth J],
FA [auth K],
GA [auth L],
M [auth A],
N [auth A],
O [auth B],
P [auth C],
R [auth D],
S [auth D],
V [auth E],
W [auth F],
X [auth G],
Y [auth G],
Z [auth H]
COPPER (II) ION
Cu
JPVYNHNXODAKFH-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.28 Å
  • R-Value Free: 0.256 
  • R-Value Work: 0.202 
  • R-Value Observed: 0.204 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 109.887α = 90
b = 182.242β = 90
c = 52.722γ = 90
Software Package:
Software NamePurpose
HKL-2000data collection
PHASERphasing
SHARPphasing
autoSHARPphasing
REFMACrefinement
DENZOdata reduction
HKL-2000data scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2009-11-24
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Advisory, Version format compliance
  • Version 1.2: 2017-11-01
    Changes: Refinement description
  • Version 1.3: 2023-09-06
    Changes: Data collection, Database references, Derived calculations, Refinement description