7G01

Crystal Structure of human FABP5 in complex with 6-chloro-4-phenyl-2-piperidin-1-ylquinoline-3-carboxylic acid

• PDB DOI: https://doi.org/10.2210/pdb7G01/pdb
• Deposition Group: G_1002264 ExploreG_1002264

• Classification: LIPID BINDING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2023-04-27 Released: 2023-06-14 
• Deposition Author(s): Ehler, A., Benz, J., Obst, U., Ceccarelli-Simona, M., Rudolph, M.G.
• Funding Organization(s): F. Hoffmann-La Roche LTD

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.17 Å
• R-Value Free: 0.171 
• R-Value Work: 0.154 
• R-Value Observed: 0.155 

Starting Model: other

Literature

Crystal Structure of a human FABP5 complex

Obst, U., Magnone, C., Kuhn, B., Rudolph, M.G.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 16.48 kDa 
• Atom Count: 1,326 
• Modelled Residue Count: 134 
• Deposited Residue Count: 138 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fatty acid-binding protein 5	A	138	Homo sapiens	Mutation(s): 0  Gene Names: FABP5
UniProt & NIH Common Fund Data Resources
Find proteins for Q01469 (Homo sapiens) Explore Q01469  Go to UniProtKB:  Q01469
PHAROS:  Q01469 GTEx:  ENSG00000164687

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
5M7 (Subject of Investigation/LOI)	D [auth A], E [auth A]	6-chloranyl-4-phenyl-2-piperidin-1-yl-quinoline-3-carboxylic acid C21 H19 Cl N2 O2 URBVMCHIBNRDKB-UHFFFAOYSA-N
PEG	F [auth A]	DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N
SO4	C [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
DMS	B [auth A]	DIMETHYL SULFOXIDE C2 H6 O S IAZDPXIOMUYVGZ-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
5M7	BindingDB:  7G01	Ki: min: 490, max: 500 (nM) from 2 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.17 Å
• R-Value Free: 0.171 
• R-Value Work: 0.154 
• R-Value Observed: 0.155 
• Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 62.444	α = 90
b = 62.444	β = 90
c = 74.999	γ = 90

Software Package:

Software Name	Purpose
XSCALE	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
XDS	data reduction
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-06-14 
Deposition Author(s): Ehler, A., Benz, J., Obst, U., Ceccarelli-Simona, M., Rudolph, M.G.

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Funding Organization	Location	Grant Number
F. Hoffmann-La Roche LTD	Switzerland	--

Revision History  

• Version 1.0: 2023-06-14
  Type: Initial release
  
• Version 1.1: 2024-04-03
  Changes: Data collection, Refinement description