7NVO

Human TRiC complex in open state with nanobody bound


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.4 of the entry. See complete history


Literature

Snapshots of actin and tubulin folding inside the TRiC chaperonin.

Kelly, J.J.Tranter, D.Pardon, E.Chi, G.Kramer, H.Happonen, L.Knee, K.M.Janz, J.M.Steyaert, J.Bulawa, C.Paavilainen, V.O.Huiskonen, J.T.Yue, W.W.

(2022) Nat Struct Mol Biol 29: 420-429

  • DOI: https://doi.org/10.1038/s41594-022-00755-1
  • Primary Citation of Related Structures:  
    7NVL, 7NVM, 7NVN, 7NVO

  • PubMed Abstract: 

    The integrity of a cell's proteome depends on correct folding of polypeptides by chaperonins. The chaperonin TCP-1 ring complex (TRiC) acts as obligate folder for >10% of cytosolic proteins, including he cytoskeletal proteins actin and tubulin. Although its architecture and how it recognizes folding substrates are emerging from structural studies, the subsequent fate of substrates inside the TRiC chamber is not defined. We trapped endogenous human TRiC with substrates (actin, tubulin) and cochaperone (PhLP2A) at different folding stages, for structure determination by cryo-EM. The already-folded regions of client proteins are anchored at the chamber wall, positioning unstructured regions toward the central space to achieve their native fold. Substrates engage with different sections of the chamber during the folding cycle, coupled to TRiC open-and-close transitions. Further, the cochaperone PhLP2A modulates folding, acting as a molecular strut between substrate and TRiC chamber. Our structural snapshots piece together an emerging model of client protein folding within TRiC.


  • Organizational Affiliation

    Centre for Medicines Discovery, Nuffield Department of Clinical Medicine, University of Oxford, Oxford, UK.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
T-complex protein 1 subunit epsilonA [auth E],
J [auth e]
541Homo sapiensMutation(s): 0 
Gene Names: CCT5CCTEKIAA0098
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PHAROS:  P48643
GTEx:  ENSG00000150753 
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UniProt GroupP48643
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
T-complex protein 1 subunit etaB [auth H],
K [auth h]
543Homo sapiensMutation(s): 0 
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Find proteins for Q99832 (Homo sapiens)
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PHAROS:  Q99832
GTEx:  ENSG00000135624 
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UniProt GroupQ99832
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
T-complex protein 1 subunit thetaC [auth Q],
L [auth q]
548Homo sapiensMutation(s): 0 
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Find proteins for P50990 (Homo sapiens)
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PHAROS:  P50990
GTEx:  ENSG00000156261 
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UniProt GroupP50990
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
T-complex protein 1 subunit zetaD [auth Z],
M [auth z]
531Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000146731 
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
T-complex protein 1 subunit gammaE [auth G],
N [auth g]
545Homo sapiensMutation(s): 0 
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PHAROS:  P49368
GTEx:  ENSG00000163468 
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UniProt GroupP49368
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
T-complex protein 1 subunit alphaF [auth A],
O [auth a]
556Homo sapiensMutation(s): 0 
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PHAROS:  P17987
GTEx:  ENSG00000120438 
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UniProt GroupP17987
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
T-complex protein 1 subunit deltaG [auth D],
P [auth d]
539Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000115484 
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
T-complex protein 1 subunit betaH [auth B],
Q [auth b]
535Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000166226 
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
NanobodyI [auth N],
R [auth n]
129Lama glamaMutation(s): 0 
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Small Molecules
Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
ADP
Query on ADP

Download Ideal Coordinates CCD File 
AA [auth Z]
CB [auth a]
DA [auth G]
GA [auth A]
GB [auth d]
AA [auth Z],
CB [auth a],
DA [auth G],
GA [auth A],
GB [auth d],
HB [auth b],
KA [auth D],
LA [auth B],
PA [auth e],
QA [auth h],
T [auth E],
TA [auth q],
U [auth H],
WA [auth z],
X [auth Q],
ZA [auth g]
ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
AF3
Query on AF3

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BB [auth g]
CA [auth Z]
EB [auth a]
FA [auth G]
IA [auth A]
BB [auth g],
CA [auth Z],
EB [auth a],
FA [auth G],
IA [auth A],
JB [auth b],
NA [auth B],
SA [auth h],
VA [auth q],
W [auth H],
YA [auth z],
Z [auth Q]
ALUMINUM FLUORIDE
Al F3
KLZUFWVZNOTSEM-UHFFFAOYSA-K
MG
Query on MG

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AB [auth g]
BA [auth Z]
DB [auth a]
EA [auth G]
FB [auth d]
AB [auth g],
BA [auth Z],
DB [auth a],
EA [auth G],
FB [auth d],
HA [auth A],
IB [auth b],
JA [auth D],
MA [auth B],
OA [auth e],
RA [auth h],
S [auth E],
UA [auth q],
V [auth H],
XA [auth z],
Y [auth Q]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Wellcome TrustUnited Kingdom092809/Z/10/Z
Academy of FinlandFinland314669

Revision History  (Full details and data files)

  • Version 1.0: 2022-03-02
    Type: Initial release
  • Version 1.1: 2022-05-04
    Changes: Database references
  • Version 1.2: 2022-05-11
    Changes: Database references
  • Version 1.3: 2022-06-01
    Changes: Database references
  • Version 1.4: 2024-07-10
    Changes: Data collection