7FEK

The 1.05 angstrom X-ray structure of the human heart fatty acid-binding protein complexed with perfluorooctanoic acid

• PDB DOI: https://doi.org/10.2210/pdb7FEK/pdb

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


• Deposited: 2021-07-21 Released: 2022-07-27 
• Deposition Author(s): Sugiyama, S., Kakinouchi, K., Hara, T., Nakano, R., Matsuoka, S., Tsuchikawa, H., Sonoyama, M., Inoue, Y., Hayashi, F., Murata, M.
• Funding Organization(s): Japan Science and Technology, Japan Society for the Promotion of Science (JSPS), Other private

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.05 Å
• R-Value Free: 
  0.138 (Depositor), 0.140 (DCC) 
• R-Value Work: 
  0.117 (Depositor), 0.120 (DCC) 
• R-Value Observed: 
  0.118 (Depositor) 

Starting Model: experimental

Literature

The 1.05 angstrom X-ray structure of the human heart fatty acid-binding protein complexed with perfluorooctanoic acid

Sugiyama, S., Kakinouchi, K., Hara, T., Matsuoka, S., Tsuchikawa, H., Sonoyama, M., Inoue, Y., Hayashi, F., Murata, M.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 16.01 kDa 
• Atom Count: 1,549 
• Modelled Residue Count: 133 
• Deposited Residue Count: 133 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fatty acid-binding protein, heart	A	133	Homo sapiens	Mutation(s): 0  Gene Names: FABP3, FABP11, MDGI
UniProt & NIH Common Fund Data Resources
Find proteins for P05413 (Homo sapiens) Explore P05413  Go to UniProtKB:  P05413
PHAROS:  P05413 GTEx:  ENSG00000121769

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
8PF (Subject of Investigation/LOI)	C [auth A], D [auth A]	pentadecafluorooctanoic acid C8 H F15 O2 SNGREZUHAYWORS-UHFFFAOYSA-N
PG4 (Subject of Investigation/LOI)	B [auth A]	TETRAETHYLENE GLYCOL C8 H18 O5 UWHCKJMYHZGTIT-UHFFFAOYSA-N
PEG (Subject of Investigation/LOI)	E [auth A]	DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.05 Å
• R-Value Free:  0.138 (Depositor), 0.140 (DCC) 
• R-Value Work:  0.117 (Depositor), 0.120 (DCC) 
• R-Value Observed: 0.118 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 54.689	α = 90
b = 68.819	β = 90
c = 33.752	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling
MOLREP	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2022-07-27 
Deposition Author(s): Sugiyama, S., Kakinouchi, K., Hara, T., Nakano, R., Matsuoka, S., Tsuchikawa, H., Sonoyama, M., Inoue, Y., Hayashi, F., Murata, M.

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Funding Organization	Location	Grant Number
Japan Science and Technology	Japan	JPMJTM19DC
Japan Society for the Promotion of Science (JSPS)	Japan	19K06588
Japan Science and Technology	Japan	JPMJER1005
Other private	Japan	09-003-005

Revision History  

• Version 1.0: 2022-07-27
  Type: Initial release
  
• Version 1.1: 2023-11-29
  Changes: Data collection, Refinement description