7MHC

Structure of human STING in complex with MK-1454


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.32 Å
  • R-Value Free: 0.224 
  • R-Value Work: 0.192 
  • R-Value Observed: 0.194 

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Ligand Structure Quality Assessment 


This is version 1.0 of the entry. See complete history


Literature

A kinase-cGAS cascade to synthesize a therapeutic STING activator.

McIntosh, J.A.Liu, Z.Andresen, B.M.Marzijarani, N.S.Moore, J.C.Marshall, N.M.Borra-Garske, M.Obligacion, J.V.Fier, P.S.Peng, F.Forstater, J.H.Winston, M.S.An, C.Chang, W.Lim, J.Huffman, M.A.Miller, S.P.Tsay, F.R.Altman, M.D.Lesburg, C.A.Steinhuebel, D.Trotter, B.W.Cumming, J.N.Northrup, A.Bu, X.Mann, B.F.Biba, M.Hiraga, K.Murphy, G.S.Kolev, J.N.Makarewicz, A.Pan, W.Farasat, I.Bade, R.S.Stone, K.Duan, D.Alvizo, O.Adpressa, D.Guetschow, E.Hoyt, E.Regalado, E.L.Castro, S.Rivera, N.Smith, J.P.Wang, F.Crespo, A.Verma, D.Axnanda, S.Dance, Z.E.X.Devine, P.N.Tschaen, D.Canada, K.A.Bulger, P.G.Sherry, B.D.Truppo, M.D.Ruck, R.T.Campeau, L.C.Bennett, D.J.Humphrey, G.R.Campos, K.R.Maddess, M.L.

(2022) Nature 603: 439-444

  • DOI: 10.1038/s41586-022-04422-9
  • Primary Citation of Related Structures:  
    7MHC

  • PubMed Abstract: 
  • The introduction of molecular complexity in an atom- and step-efficient manner remains an outstanding goal in modern synthetic chemistry. Artificial biosynthetic pathways are uniquely able to address this challenge by using enzymes to carry out multiple synthetic steps simultaneously or in a one-pot sequence 1-3 ...

    The introduction of molecular complexity in an atom- and step-efficient manner remains an outstanding goal in modern synthetic chemistry. Artificial biosynthetic pathways are uniquely able to address this challenge by using enzymes to carry out multiple synthetic steps simultaneously or in a one-pot sequence 1-3 . Conducting biosynthesis ex vivo further broadens its applicability by avoiding cross-talk with cellular metabolism and enabling the redesign of key biosynthetic pathways through the use of non-natural cofactors and synthetic reagents 4,5 . Here we describe the discovery and construction of an enzymatic cascade to MK-1454, a highly potent stimulator of interferon genes (STING) activator under study as an immuno-oncology therapeutic 6,7 (ClinicalTrials.gov study NCT04220866 ). From two non-natural nucleotide monothiophosphates, MK-1454 is assembled diastereoselectively in a one-pot cascade, in which two thiotriphosphate nucleotides are simultaneously generated biocatalytically, followed by coupling and cyclization catalysed by an engineered animal cyclic guanosine-adenosine synthase (cGAS). For the thiotriphosphate synthesis, three kinase enzymes were engineered to develop a non-natural cofactor recycling system in which one thiotriphosphate serves as a cofactor in its own synthesis. This study demonstrates the substantial capacity that currently exists to use biosynthetic approaches to discover and manufacture complex, non-natural molecules.


    Organizational Affiliation

    Process Research & Development, Merck & Co., Inc., Rahway, NJ, USA.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Stimulator of interferon genes proteinA188Homo sapiensMutation(s): 3 
Gene Names: STING1ERISMITATMEM173STING
UniProt & NIH Common Fund Data Resources
Find proteins for Q86WV6 (Homo sapiens)
Explore Q86WV6 
Go to UniProtKB:  Q86WV6
PHAROS:  Q86WV6
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ86WV6
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZEV (Subject of Investigation/LOI)
Query on ZEV

Download Ideal Coordinates CCD File 
B [auth A](2R,5R,7R,8S,10R,12aR,14R,15S,15aR,16R)-7-(2-amino-6-oxo-1,6-dihydro-9H-purin-9-yl)-14-(6-amino-9H-purin-9-yl)-15,16-difluoro-2,10-bis(sulfanyl)octahydro-2H,10H,12H-5,8-methano-2lambda~5~,10lambda~5~-furo[3,2-l][1,3,6,9,11,2,10]pentaoxadiphosphacyclotetradecine-2,10-dione
C20 H20 F2 N10 O9 P2 S2
YSUIQYOGTINQIN-CLMXYZJCSA-L
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.32 Å
  • R-Value Free: 0.224 
  • R-Value Work: 0.192 
  • R-Value Observed: 0.194 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 88.12α = 90
b = 72.74β = 100.97
c = 36.37γ = 90
Software Package:
Software NamePurpose
BUSTERrefinement
Aimlessdata scaling
PDB_EXTRACTdata extraction
BUSTERphasing
XDSdata processing
XDSdata reduction

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2022-04-06
    Type: Initial release