8HEJ | pdb_00008hej

Crystal structure of Transthyretin in complex with a covalent inhibitor trans-styrylpyrazole

• PDB DOI: https://doi.org/10.2210/pdb8HEJ/pdb

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


• Deposited: 2022-11-08 Released: 2023-11-15 
• Deposition Author(s): Kim, H., Choi, S., Lee, C.
• Funding Organization(s): National Research Foundation (NRF, Korea)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.54 Å
• R-Value Free: 
  0.223 (Depositor), 0.180 (DCC) 
• R-Value Work: 
  0.186 (Depositor), 0.190 (DCC) 
• R-Value Observed: 
  0.188 (Depositor) 

Starting Model: other

Literature

Crystal structure of Transthyretin in complex with a covalent inhibitor trans-styrylpyrazole

Lee, S., Choi, S.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 26.07 kDa 
• Atom Count: 2,006 
• Modeled Residue Count: 228 
• Deposited Residue Count: 228 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transthyretin	A, B	114	Homo sapiens	Mutation(s): 0  Gene Names: TTR, PALB
UniProt & NIH Common Fund Data Resources
Find proteins for P02766 (Homo sapiens) Explore P02766  Go to UniProtKB:  P02766
PHAROS:  P02766 GTEx:  ENSG00000118271

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
XHF (Subject of Investigation/LOI)	C [auth A], E [auth B]	2,6-dibromo-4-[(E)-2-(3,5-dimethyl-1H-pyrazol-4-yl)ethenyl]phenol C13 H12 Br2 N2 O XZGHAJHJHNISEB-ONEGZZNKSA-N
XHB (Subject of Investigation/LOI)	D [auth A], F [auth B]	2,4,6-trifluorobenzaldehyde C7 H3 F3 O KPJIEPBITZLHPQ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.54 Å
• R-Value Free:  0.223 (Depositor), 0.180 (DCC) 
• R-Value Work:  0.186 (Depositor), 0.190 (DCC) 
• R-Value Observed: 0.188 (Depositor) 

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 84.945	α = 90
b = 42.685	β = 90
c = 64.272	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-11-15 
Deposition Author(s): Kim, H., Choi, S., Lee, C.

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Funding Organization	Location	Grant Number
National Research Foundation (NRF, Korea)	Korea, Republic Of	NRF-2021M3A9G8022417

Revision History  

• Version 1.0: 2023-11-15
  Type: Initial release
  
• Version 1.1: 2024-11-06
  Changes: Structure summary