7NVL

Human TRiC complex in closed state with nanobody bound (Consensus Map)


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.3 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: 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 ...

    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

    Biosciences Institute, Medical School, Newcastle University, Newcastle upon Tyne, UK. wyatt.yue@cmd.ox.ac.uk.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
T-complex protein 1 subunit alphaA,
J [auth a]
556Homo sapiensMutation(s): 0 
Gene Names: TCP1CCT1CCTA
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UniProt GroupP17987
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
T-complex protein 1 subunit betaB,
K [auth b]
535Homo sapiensMutation(s): 0 
Gene Names: CCT299D8.1CCTB
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Find proteins for P78371 (Homo sapiens)
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UniProt GroupP78371
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
T-complex protein 1 subunit deltaC [auth D],
L [auth d]
539Homo sapiensMutation(s): 0 
Gene Names: CCT4CCTDSRB
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UniProt GroupP50991
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
T-complex protein 1 subunit epsilonD [auth E],
M [auth e]
541Homo sapiensMutation(s): 0 
Gene Names: CCT5CCTEKIAA0098
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
T-complex protein 1 subunit gammaE [auth G],
N [auth g]
545Homo sapiensMutation(s): 0 
Gene Names: CCT3CCTGTRIC5
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
T-complex protein 1 subunit etaF [auth H],
O [auth h]
543Homo sapiensMutation(s): 0 
Gene Names: CCT7CCTHNIP7-1
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
Nanobody Nb18G [auth N],
P [auth n]
129Lama glamaMutation(s): 0 
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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetailsImage
T-complex protein 1 subunit thetaH [auth Q],
Q [auth q]
548Homo sapiensMutation(s): 0 
Gene Names: CCT8C21orf112CCTQKIAA0002
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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetailsImage
T-complex protein 1 subunit zetaI [auth Z],
R [auth z]
531Homo sapiensMutation(s): 0 
Gene Names: CCT6ACCT6CCTZ
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Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ADP
Query on ADP

Download Ideal Coordinates CCD File 
BA [auth E],
CB [auth g],
EA [auth G],
FB [auth h],
HA [auth H],
BA [auth E],
CB [auth g],
EA [auth G],
FB [auth h],
HA [auth H],
IB [auth q],
KA [auth Q],
LB [auth z],
NA [auth Z],
QA [auth a],
S [auth A],
TA [auth b],
V [auth B],
WA [auth d],
Y [auth D],
ZA [auth e]
ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
 Ligand Interaction
AF3
Query on AF3

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AA [auth D],
BB [auth e],
DA [auth E],
EB [auth g],
GA [auth G],
AA [auth D],
BB [auth e],
DA [auth E],
EB [auth g],
GA [auth G],
HB [auth h],
JA [auth H],
KB [auth q],
MA [auth Q],
NB [auth z],
PA [auth Z],
SA [auth a],
U [auth A],
VA [auth b],
X [auth B],
YA [auth d]
ALUMINUM FLUORIDE
Al F3
KLZUFWVZNOTSEM-UHFFFAOYSA-K
 Ligand Interaction
MG
Query on MG

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AB [auth e],
CA [auth E],
DB [auth g],
FA [auth G],
GB [auth h],
AB [auth e],
CA [auth E],
DB [auth g],
FA [auth G],
GB [auth h],
IA [auth H],
JB [auth q],
LA [auth Q],
MB [auth z],
OA [auth Z],
RA [auth a],
T [auth A],
UA [auth b],
W [auth B],
XA [auth d],
Z [auth D]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.50 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