4AC4

CRYSTAL STRUCTURE OF TRANSTHYRETIN IN COMPLEX WITH LIGAND C-18

• PDB DOI:  https://doi.org/10.2210/pdb4AC4/pdb

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


• Deposited: 2011-12-13 Released: 2012-12-26 
• Deposition Author(s): Tomar, D., Khan, T., Singh, R.R., Mishra, S., Gupta, S., Surolia, A., Salunke, D.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.258 
• R-Value Work: 0.219 
• R-Value Observed: 0.222 

Literature

Crystallographic Study of Novel Transthyretin Ligands Exhibiting Negative-Cooperativity between Two Thyroxine Binding Sites.

Tomar, D., Khan, T., Singh, R.R., Mishra, S., Gupta, S., Surolia, A., Salunke, D.M.

(2012) PLoS One 7: 43522

• PubMed: 22973437 
• DOI: https://doi.org/10.1371/journal.pone.0043522
• Primary Citation of Related Structures:  
  4ABQ, 4ABU, 4ABV, 4ABW, 4AC2, 4AC4, 4ANK


• PubMed Abstract: 
  

Transthyretin (TTR) is a homotetrameric serum and cerebrospinal fluid protein that transports thyroxine (T4) and retinol by binding to retinol binding protein. Rate-limiting tetramer dissociation and rapid monomer misfolding and disassembly of TTR lead to amyloid fibril formation in different tissues causing various amyloid diseases. Based on the current understanding of the pathogenesis of TTR amyloidosis, it is considered that the inhibition of amyloid fibril formation by stabilization of TTR in native tetrameric form is a viable approach for the treatment of TTR amyloidosis.

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Organizational Affiliation: 

Structural Biology Unit, National Institute of Immunology, New Delhi, India.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 28.04 kDa 
• Atom Count: 1,949 
• Modelled Residue Count: 232 
• Deposited Residue Count: 254 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TRANSTHYRETIN	A, B	127	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

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
HKA	C [auth A], D [auth B]	3-METHOXY-4-PHENOXYBENZOIC ACID C14 H12 O4 BHLHNTNYVDUKFV-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
HKA	BindingDB:  4AC4	IC50: 4.10e+4 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.258 
• R-Value Work: 0.219 
• R-Value Observed: 0.222 
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 85.33	α = 90
b = 42.86	β = 90
c = 64.28	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-12-26 
Deposition Author(s): Tomar, D., Khan, T., Singh, R.R., Mishra, S., Gupta, S., Surolia, A., Salunke, D.M.

Revision History  

• Version 1.0: 2012-12-26
  Type: Initial release
  
• Version 1.1: 2014-10-29
  Changes: Database references
• Version 1.2: 2015-04-01
  Changes: Database references
• Version 1.3: 2019-01-30
  Changes: Data collection, Derived calculations, Experimental preparation, Other
• Version 1.4: 2019-02-06
  Changes: Data collection, Experimental preparation
• Version 1.5: 2019-07-17
  Changes: Data collection, Derived calculations