2GM1

Crystal structure of the mitotic kinesin eg5 in complex with mg-adp and n-(3-aminopropyl)-n-((3-benzyl-5-chloro-4-oxo-3,4-dihydropyrrolo[2,1-f][1,2,4]triazin-2-yl)(cyclopropyl)methyl)-4-methylbenzamide

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.269 
  • R-Value Work: 0.230 

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


Literature

Synthesis and SAR of pyrrolotriazine-4-one based Eg5 inhibitors.

Kim, K.S., Lu, S., Cornelius, L.A., Lombardo, L.J., Borzilleri, R.M., Schroeder, G.M., Sheng, C., Rovnyak, G., Crews, D., Schmidt, R.J., Williams, D.K., Bhide, R.S., Traeger, S.C., McDonnell, P.A., Mueller, L., Sheriff, S., Newitt, J.A., Pudzianowski, A.T., Yang, Z., Wild, R., Lee, F.Y., Batorsky, R., Ryder, J.S., Ortega-Nanos, M., Shen, H., Gottardis, M., Roussell, D.L.

(2006) Bioorg Med Chem Lett 16: 3937-3942

  • DOI: https://doi.org/10.1016/j.bmcl.2006.05.037
  • Primary Citation of Related Structures:  
    2GM1

  • PubMed Abstract: 

    • Synthesis and SAR of substituted pyrrolotriazine-4-one analogues as Eg5 inhibitors are described. Many of these analogues displayed potent inhibitory activities in the Eg5 ATPase and A2780 cell proliferation assays. In addition, pyrrolotriazine-4-one analogue 26 demonstrated in vivo efficacy in an iv P388 murine leukemia model ...

    Synthesis and SAR of substituted pyrrolotriazine-4-one analogues as Eg5 inhibitors are described. Many of these analogues displayed potent inhibitory activities in the Eg5 ATPase and A2780 cell proliferation assays. In addition, pyrrolotriazine-4-one analogue 26 demonstrated in vivo efficacy in an iv P388 murine leukemia model. Both NMR and X-ray crystallographic studies revealed that these analogues bind to an allosteric site on the Eg5 protein.

    Organizational Affiliation: 

    Department of Drug Discovery, Bristol-Myers Squibb Pharmaceutical Research Institute, Princeton, NJ 08543-4000, USA. kyoung.kim@bms.com



Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
KINESIN-RELATED MOTOR PROTEIN EG5A,
B,
C [auth D],
D [auth E]		368Homo sapiensMutation(s): 0 
Gene Names: EG5, KIF11, KNSL1, TRIP5
UniProt & NIH Common Fund Data Resources
Find proteins for P52732 (Homo sapiens)
Explore P52732 
Go to UniProtKB:  P52732
PHAROS:  P52732
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP52732
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
2AZ
Query on 2AZ
Download Ideal Coordinates CCD File 
G [auth A],
K [auth B],
O [auth D],
S [auth E]		N-(3-AMINOPROPYL)-N-[(R)-(3-BENZYL-5-CHLORO-4-OXO-3,4-DIHYDROPYRROLO[2,1-F][1,2,4]TRIAZIN-2-YL)(CYCLOPROPYL)METHYL]-4-METHYLBENZAMIDE
C28 H30 Cl N5 O2
IKORZPHBTIOSSU-XMMPIXPASA-N		 Ligand Interaction
ADP
Query on ADP
Download Ideal Coordinates CCD File 
H [auth A],
L [auth B],
P [auth D],
T [auth E]		ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N		 Ligand Interaction
MG
Query on MG
Download Ideal Coordinates CCD File 
E [auth A]
F [auth A]
I [auth B]
J [auth B]
M [auth D]
E [auth A],
F [auth A],
I [auth B],
J [auth B],
M [auth D],
N [auth D],
Q [auth E],
R [auth E]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N		 Ligand Interaction
Binding Affinity Annotations 
IDSourceBinding Affinity
2AZ BindingDB:  2GM1 IC50: 100 (nM) from 1 assay(s)
PDBBind:  2GM1 IC50: 100 (nM) from 1 assay(s)
Binding MOAD:  2GM1 IC50: 100 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.269 
  • R-Value Work: 0.230 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 64.7α = 90
b = 112.6β = 90.2
c = 108.1γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing
CNSrefinement
PDB_EXTRACTdata extraction
CNXrefinement

Structure Validation

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Ligand Structure Quality Assessment 


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Entry History 

Deposition Data

  • Released Date: 2006-06-27 
    • Deposition Author(s): Sheriff, S.

Revision History  (Full details and data files)

  • Version 1.0: 2006-06-27
    Type: Initial release
  • Version 1.1: 2008-05-01
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2017-10-18
    Changes: Refinement description