1LV2|pdb_00001lv2
Hepatocyte Nuclear Factor 4 is a Transcription Factor that Constitutively Binds Fatty Acids
- PDB DOI: https://doi.org/10.2210/pdb1LV2/pdb
- Classification: TRANSCRIPTION
- Organism(s): Homo sapiens
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2002-05-24 Released: 2002-12-18
- Deposition Author(s): Wisely, B.,Miller, A.B.,Davis, R.G.,Spitzer, T.,Shearer, B.,Moore, J.T.,Johnson, R.,Sefler, A.,Willson, T.M.,Williams, S.P.
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.70 Å
- R-Value Free: 0.264 (Depositor)
- R-Value Work: 0.245 (Depositor)
- R-Value Observed: 0.247 (Depositor)
Starting Model:other
View more details
wwPDB Validation 3D Report Full Report
Download MendeleyHepatocyte Nuclear Factor 4 Is a Transcription Factor that Constitutively Binds Fatty Acids.
Wisely, G.B., Miller, A.B., Davis, R.G., Jr Thornquest, A.D., Johnson, R., Spitzer, T., Sefler, A., Shearer, B., Moore, J.T., Willson, T.M., Williams, S.P.(2002) Structure 10: 1225-1234
- PubMed: 12220494 Search on PubMed
- DOI: https://doi.org/10.1016/s0969-2126(02)00829-8
- Primary Citation of Related Structures:
1LV2 - PubMed Abstract:
The 2.7 A X-ray crystal structure of the HNF4gamma ligand binding domain (LBD) revealed the presence of a fatty acid within the pocket, with the AF2 helix in a conformation characteristic of a transcriptionally active nuclear receptor. GC/MS and NMR analysis of chloroform/methanol extracts from purified HNF4alpha and HNF4gamma LBDs identified mixtures of saturated and cis-monounsaturated C14-18 fatty acids. The purified HNF4 LBDs interacted with nuclear receptor coactivators, and both HNF4 subtypes show high constitutive activity in transient transfection assays, which was reduced by mutations designed to interfere with fatty acid binding. The endogenous fatty acids did not readily exchange with radiolabeled palmitic acid, and all attempts to displace them without denaturing the protein failed. Our results suggest that the HNF4s may be transcription factors that are constitutively bound to fatty acids.
- GlaxoSmithKline Inc., 5 Moore Drive, Research Triangle Park, NC 27709, USA.
Organizational Affiliation:
Explore in 3D: Structure |Sequence Annotations |Validation Report |Ligand Interaction (PLM)
Global Symmetry: Asymmetric - C1
Global Stoichiometry: Monomer - A1
Find Similar Assemblies
Biological assembly 1 assigned by authors.
Macromolecule Content
- Total Structure Weight: 26.11 kDa
- Atom Count: 1,806
- Modeled Residue Count: 225
- Deposited Residue Count: 229
- Unique protein chains: 1
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Hepatocyte nuclear factor 4-gamma | 229 | Homo sapiens | Mutation(s): 0 Gene Names: HNF4G |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q14541 (Homo sapiens) Explore Q14541 Go to UniProtKB: Q14541 | |||||
PHAROS: Q14541 GTEx: ENSG00000164749 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q14541 | ||||
Sequence AnnotationsExpand | |||||
| |||||
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| PLM Query on PLM Download Ideal Coordinates CCD File | B [auth A] | PALMITIC ACID C16 H32 O2 IPCSVZSSVZVIGE-UHFFFAOYSA-N |  | ||
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.70 Å
- R-Value Free: 0.264 (Depositor)
- R-Value Work: 0.245 (Depositor)
- R-Value Observed: 0.247 (Depositor)
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 152.708 | α = 90 |
| b = 152.708 | β = 90 |
| c = 93.421 | γ = 90 |
| Software Name | Purpose |
|---|---|
| MAR345 | data collection |
| HKL-2000 | data reduction |
| SHARP | phasing |
| CNS | refinement |
| HKL-2000 | data scaling |
Deposition Data
- Released Date: 2002-12-18 Deposition Author(s): Wisely, B.,Miller, A.B.,Davis, R.G.,Spitzer, T.,Shearer, B.,Moore, J.T.,Johnson, R.,Sefler, A.,Willson, T.M.,Williams, S.P.
Revision History (Full details and data files)
- Version 1.0: 2002-12-18
Type: Initial release - Version 1.1: 2008-04-28
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Version format compliance - Version 1.3: 2011-11-16
Changes: Atomic model - Version 1.4: 2017-10-11
Changes: Refinement description - Version 1.5: 2018-01-31
Changes: Experimental preparation - Version 1.6: 2024-02-14
Changes: Data collection, Database references, Derived calculations - Version 1.7: 2024-04-03
Changes: Refinement description
- RCSB PDB is hosted by
- RCSB PDB is a member of
- RCSB Partners
- Nucleic Acid Knowledgebase
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.