1VJY|pdb_00001vjy
Crystal Structure of a Naphthyridine Inhibitor of Human TGF-beta Type I Receptor
- PDB DOI: https://doi.org/10.2210/pdb1VJY/pdb
- Classification: TRANSFERASE
- Organism(s): Homo sapiens
- Expression System: Spodoptera frugiperda
- Mutation(s): No
- Deposited: 2004-04-07 Released: 2004-08-31
- Deposition Author(s): Gellibert, F.,Woolven, J.,Fouchet, M.-H.,Mathews, N.,Goodland, H.,Lovegrove, V.,Laroze, A.,Nguyen, V.-L.,Sautet, S.,Wang, R.,Janson, C.,Smith, W.,Krysa, G.,Boullay, V.,de Gouville, A.-C.,Huet, S.,Hartley, D.
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.00 Å
- R-Value Free: 0.275 (Depositor)
- R-Value Work: 0.223 (Depositor)
wwPDB Validation 3D Report Full Report
Download MendeleyIdentification of 1,5-Naphthyridine Derivatives as a Novel Series of Potent and Selective TGF-beta Type I Receptor Inhibitors.
Gellibert, F., Woolven, J., Fouchet, M.-H., Mathews, N., Goodland, H., Lovegrove, V., Laroze, A., Nguyen, V.-L., Sautet, S., Wang, R., Janson, C., Smith, W., Krysa, G., Boullay, V., De Gouville, A.-C., Huet, S., Hartley, D.(2004) J Med Chem 47: 4494-4506
- PubMed: 15317461 Search on PubMed
- DOI: https://doi.org/10.1021/jm0400247
- Primary Citation of Related Structures:
1VJY - PubMed Abstract:
Optimization of the screening hit 1 led to the identification of novel 1,5-naphthyridine aminothiazole and pyrazole derivatives, which are potent and selective inhibitors of the transforming growth factor-beta type I receptor, ALK5. Compounds 15 and 19, which inhibited ALK5 autophosphorylation with IC50 = 6 and 4 nM, respectively, showed potent activities in both binding and cellular assays and exhibited selectivity over p38 mitogen-activated protein kinase. The X-ray crystal structure of 19 in complex with human ALK5 is described, confirming the binding mode proposed from docking studies.
Organizational Affiliation:
Department of Medicinal Chemistry, GlaxoSmithKline, 25-27 Avenue du Québec, 91951 Les Ulis, France. fjg23217@gsk.com
Explore in 3D: Structure |Sequence Annotations |Validation Report |Ligand Interaction (460)
Global Symmetry: Asymmetric - C1
Global Stoichiometry: Monomer - A1
Find Similar Assemblies
Biological assembly 1 assigned by authors.
Macromolecule Content
- Total Structure Weight: 35.01 kDa
- Atom Count: 2,542
- Modelled Residue Count: 299
- Deposited Residue Count: 303
- Unique protein chains: 1
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| TGF-beta receptor type I | 303 | Homo sapiens | Mutation(s): 0 EC: 2.7.1.37 (PDB Primary Data), 2.7.11.30 (UniProt) |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P36897 (Homo sapiens) Explore P36897 Go to UniProtKB: P36897 | |||||
PHAROS: P36897 GTEx: ENSG00000106799 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P36897 | ||||
Sequence AnnotationsExpand | |||||
| |||||
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| 460 Query on 460 Download Ideal Coordinates CCD File | B [auth A] | 2-[5-(6-METHYLPYRIDIN-2-YL)-2,3-DIHYDRO-1H-PYRAZOL-4-YL]-1,5-NAPHTHYRIDINE C17 H15 N5 YRBHUKMLAGQYHS-UHFFFAOYSA-N |  | ||
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.00 Å
- R-Value Free: 0.275 (Depositor)
- R-Value Work: 0.223 (Depositor)
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 42.069 | α = 90 |
| b = 75.775 | β = 90 |
| c = 89.589 | γ = 90 |
| Software Name | Purpose |
|---|---|
| HKL-2000 | data collection |
| SCALEPACK | data scaling |
| CNX | refinement |
| HKL-2000 | data reduction |
| CNX | phasing |
Deposition Data
- Released Date: 2004-08-31 Deposition Author(s): Gellibert, F.,Woolven, J.,Fouchet, M.-H.,Mathews, N.,Goodland, H.,Lovegrove, V.,Laroze, A.,Nguyen, V.-L.,Sautet, S.,Wang, R.,Janson, C.,Smith, W.,Krysa, G.,Boullay, V.,de Gouville, A.-C.,Huet, S.,Hartley, D.
Revision History (Full details and data files)
- Version 1.0: 2004-08-31
Type: Initial release - Version 1.1: 2008-04-26
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Version format compliance - Version 1.3: 2023-12-27
Changes: Data collection, Database references, Derived calculations
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RCSB PDB Core Operations are funded by theU.S. National Science Foundation (DBI-2321666), theUS Department of Energy (DE-SC0019749), and theNational Cancer Institute,National Institute of Allergy and Infectious Diseases, andNational Institute of General Medical Sciences of theNational Institutes of Health under grant R01GM157729.