- FASTA Sequence
- PDBx/mmCIF Format
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- BinaryCIF Format (gz)
- Legacy PDB Format
- Legacy PDB Format (gz)
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- Structure Factors (CIF)
- Structure Factors (CIF - gz)
- Validation Full (PDF - gz)
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- Validation (CIF - gz)
- Validation 2fo-fc coefficients (CIF - gz)
- Validation fo-fc coefficients (CIF - gz)
- Biological Assembly 1 (CIF - gz)
- Biological Assembly 1 (PDB - gz)
3JYA|pdb_00003jya
Discovery of 3H-benzo[4,5]thieno[3,2-d]pyrimidin-4-ones as Potent, Highly Selective and Orally Bioavailable Pim Kinases Inhibitors
- PDB DOI: https://doi.org/10.2210/pdb3JYA/pdb
- Classification: TRANSFERASE
- Organism(s): Homo sapiens
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2009-09-21 Released: 2009-11-10
- Deposition Author(s): Stoll, V.S.
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.10 Å
- R-Value Free: 0.257 (Depositor), 0.260 (DCC)
- R-Value Work: 0.233 (Depositor), 0.240 (DCC)
- R-Value Observed: 0.234 (Depositor)
This is version 1.2 of the entry. See complete history.
Literature
Download MendeleyDiscovery of 3H-benzo[4,5]thieno[3,2-d]pyrimidin-4-ones as Potent, Highly Selective and Orally Bioavailable Pim Kinases Inhibitors
Tao, Z.F., Hasvold, L., Leverson, J., Han, E., Guan, R., Johson, E.F., Stoll, V.S., Stewart, K.D., Stamper, G., Soni, N.To be published.
Explore in 3D: Structure |Sequence Annotations |Electron Density |Validation Report |Ligand Interaction (LWG)
Global Symmetry: Asymmetric - C1
Global Stoichiometry: Monomer - A1
Find Similar Assemblies
Biological assembly 1 assigned by authors and generated by PISA (software)
Macromolecule Content
- Total Structure Weight: 34.23 kDa
- Atom Count: 2,246
- Modeled Residue Count: 274
- Deposited Residue Count: 294
- Unique protein chains: 1
Macromolecules
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Proto-oncogene serine/threonine-protein kinase Pim-1 | 294 | Homo sapiens | Mutation(s): 0 Gene Names: PIM1 EC: 2.7.11.1 |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P11309 (Homo sapiens) Explore P11309 Go to UniProtKB: P11309 | |||||
PHAROS: P11309 GTEx: ENSG00000137193 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P11309 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| LWG Query on LWG Download Ideal Coordinates CCD File | B [auth A] | 6,9-dichloro[1]benzothieno[3,2-d]pyrimidin-4(3H)-one C10 H4 Cl2 N2 O S DJUSDFVEBBYFFL-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.10 Å
- R-Value Free: 0.257 (Depositor), 0.260 (DCC)
- R-Value Work: 0.233 (Depositor), 0.240 (DCC)
- R-Value Observed: 0.234 (Depositor)
Space Group: P 65
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 96.764 | α = 90 |
| b = 96.764 | β = 90 |
| c = 80.794 | γ = 120 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
Entry History
Deposition Data
- Released Date: 2009-11-10 Deposition Author(s): Stoll, V.S.
Revision History (Full details and data files)
- Version 1.0: 2009-11-10
Type: Initial release - Version 1.1: 2011-07-13
Changes: Version format compliance - Version 1.2: 2024-02-21
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.