5UYX | pdb_00005uyx

Structure of Human T-complex protein 1 subunit epsilon (CCT5)

• PDB DOI: https://doi.org/10.2210/pdb5UYX/pdb

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


• Deposited: 2017-02-24 Released: 2017-07-05 
• Deposition Author(s): Pereira, J.H., McAndrew, R.P., Sergeeva, O.A., Ralston, C.Y., King, J.A., Adams, P.D.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.50 Å
• R-Value Free: 
  0.318 (Depositor), 0.320 (DCC) 
• R-Value Work: 
  0.269 (Depositor), 0.270 (DCC) 
• R-Value Observed: 
  0.271 (Depositor) 

Starting Model: experimental

Literature

Structure of the human TRiC/CCT Subunit 5 associated with hereditary sensory neuropathy.

Pereira, J.H., McAndrew, R.P., Sergeeva, O.A., Ralston, C.Y., King, J.A., Adams, P.D.

(2017) Sci Rep 7: 3673-3673

• PubMed: 28623285 
• DOI: https://doi.org/10.1038/s41598-017-03825-3
• Primary Citation of Related Structures:  
  5UYX, 5UYZ


• PubMed Abstract: 
  

  The human chaperonin TRiC consists of eight non-identical subunits, and its protein-folding activity is critical for cellular health. Misfolded proteins are associated with many human diseases, such as amyloid diseases, cancer, and neuropathies, making TRiC a potential therapeutic target. A detailed structural understanding of its ATP-dependent folding mechanism and substrate recognition is therefore of great importance. Of particular health-related interest is the mutation Histidine 147 to Arginine (H147R) in human TRiC subunit 5 (CCT5), which has been associated with hereditary sensory neuropathy. In this paper, we describe the crystal structures of CCT5 and the CCT5-H147R mutant, which provide important structural information for this vital protein-folding machine in humans. This first X-ray crystallographic study of a single human CCT subunit in the context of a hexadecameric complex can be expanded in the future to the other 7 subunits that form the TRiC complex.

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Organizational Affiliation: 

Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.

Biological Assembly 1  

Global Symmetry: Dihedral - D8  (Explore in 3D)
Global Stoichiometry: Homo 16-mer - A16 

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

Biological Assembly Evidence: microscopy

Macromolecule Content

• Total Structure Weight: 240.71 kDa 
• Atom Count: 14,749 
• Modelled Residue Count: 1,901 
• Deposited Residue Count: 2,164 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
T-complex protein 1 subunit epsilon	A, B, C, D	541	Homo sapiens	Mutation(s): 0  Gene Names: CCT5, CCTE, KIAA0098
UniProt & NIH Common Fund Data Resources
Find proteins for P48643 (Homo sapiens) Explore P48643  Go to UniProtKB:  P48643
PHAROS:  P48643 GTEx:  ENSG00000150753

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ADP	E [auth A], F [auth B], G [auth C], H [auth D]	ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.50 Å
• R-Value Free:  0.318 (Depositor), 0.320 (DCC) 
• R-Value Work:  0.269 (Depositor), 0.270 (DCC) 
• R-Value Observed: 0.271 (Depositor) 

Space Group: P 4 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 204.71	α = 90
b = 204.71	β = 90
c = 162.95	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
xia2	data reduction
xia2	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2017-07-05 
Deposition Author(s): Pereira, J.H., McAndrew, R.P., Sergeeva, O.A., Ralston, C.Y., King, J.A., Adams, P.D.

Revision History  

• Version 1.0: 2017-07-05
  Type: Initial release
  
• Version 1.1: 2023-10-04
  Changes: Data collection, Database references, Refinement description