2NNQ

Crystal structure of human adipocyte fatty acid binding protein in complex with ((2'-(5-ethyl-3,4-diphenyl-1H-pyrazol-1-yl)-3-biphenylyl)oxy)acetic acid

• PDB DOI: https://doi.org/10.2210/pdb2NNQ/pdb

• Classification: LIPID TRANSPORT
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2006-10-24 Released: 2007-06-12 
• Deposition Author(s): Jacobson, B.L.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.235 
• R-Value Work: 0.188 
• R-Value Observed: 0.193 

Starting Model: other

Literature

Potent and selective biphenyl azole inhibitors of adipocyte fatty acid binding protein (aFABP).

Sulsky, R., Magnin, D.R., Huang, Y., Simpkins, L., Taunk, P., Patel, M., Zhu, Y., Stouch, T.R., Bassolino-Klimas, D., Parker, R., Harrity, T., Stoffel, R., Taylor, D.S., Lavoie, T.B., Kish, K., Jacobson, B.L., Sheriff, S., Adam, L.P., Ewing, W.R., Robl, J.A.

(2007) Bioorg Med Chem Lett 17: 3511-3515

• PubMed: 17502136 
• DOI: https://doi.org/10.1016/j.bmcl.2006.12.044
• Primary Citation of Related Structures:  
  2NNQ


• PubMed Abstract: 
  

  Herein we report the first disclosure of biphenyl azoles that are nanomolar binders of adipocyte fatty acid binding protein (aFABP or aP2) with up to thousand-fold selectivity against muscle fatty acid binding protein and epidermal fatty acid binding protein. In addition a new radio-ligand to determine binding against the three fatty acid binding proteins was also synthesized.

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Organizational Affiliation: 

Department of Metabolic Disease Chemistry, Bristol Myers-Squibb Pharmaceutical Research Institute, PO Box 5400, Princeton, NJ 08543-5400, USA. [e-mail]

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 15.28 kDa 
• Atom Count: 1,212 
• Modelled Residue Count: 131 
• Deposited Residue Count: 131 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fatty acid-binding protein, adipocyte	A	131	Homo sapiens	Mutation(s): 0  Gene Names: FABP4
UniProt & NIH Common Fund Data Resources
Find proteins for P15090 (Homo sapiens) Explore P15090  Go to UniProtKB:  P15090
PHAROS:  P15090 GTEx:  ENSG00000170323

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
T4B	D [auth A]	((2'-(5-ETHYL-3,4-DIPHENYL-1H-PYRAZOL-1-YL)-3-BIPHENYLYL)OXY)ACETIC ACID C31 H26 N2 O3 SJRVJRYZAQYCEE-UHFFFAOYSA-N
SO4	B [auth A], C [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Binding Affinity Annotations
ID	Source	Binding Affinity
T4B	PDBBind:  2NNQ	Ki: 2 (nM) from 1 assay(s)
	BindingDB:  2NNQ	Ki: min: 2, max: 253 (nM) from 7 assay(s)
		Kd: min: 4, max: 2050 (nM) from 3 assay(s)
		IC50: min: 221, max: 2.50e+4 (nM) from 3 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.235 
• R-Value Work: 0.188 
• R-Value Observed: 0.193 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 32.62	α = 90
b = 53.93	β = 90
c = 74.41	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
PDB_EXTRACT	data extraction
X-GEN	data reduction
X-GEN	data scaling
AMoRE	phasing
CNX	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-06-12 
Deposition Author(s): Jacobson, B.L.

Revision History  

• Version 1.0: 2007-06-12
  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: 2012-06-20
  Changes: Data collection
• Version 1.4: 2017-10-18
  Changes: Refinement description
• Version 1.5: 2023-12-27
  Changes: Data collection, Database references, Derived calculations
• Version 1.6: 2024-04-03
  Changes: Refinement description