7DS2 | pdb_00007ds2

Crystal structure of actin capping protein in complex with twinflin-1 C-terminus tail


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 
    0.183 (Depositor), 0.185 (DCC) 
  • R-Value Work: 
    0.167 (Depositor), 0.168 (DCC) 
  • R-Value Observed: 
    0.168 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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This is version 1.3 of the entry. See complete history

Literature

Structural Insights into the Regulation of Actin Capping Protein by Twinfilin C-terminal Tail.

Takeda, S.Koike, R.Fujiwara, I.Narita, A.Miyata, M.Ota, M.Maeda, Y.

(2021) J Mol Biology 433: 166891-166891

  • DOI: https://doi.org/10.1016/j.jmb.2021.166891
  • Primary Citation Related Structures: 
    7DS2, 7DS3, 7DS4, 7DS6, 7DS8, 7DSA, 7DSB

  • PubMed Abstract: 

    Twinfilin is a conserved actin regulator that interacts with actin capping protein (CP) via C terminus residues (TWtail) that exhibits sequence similarity with the CP interaction (CPI) motif of CARMIL. Here we report the crystal structure of TWtail in complex with CP. Our structure showed that although TWtail and CARMIL CPI bind CP to an overlapping surface via their middle regions, they exhibit different CP-binding modes at both termini. Consequently, TWtail and CARMIL CPI restrict the CP in distinct conformations of open and closed forms, respectively. Interestingly, V-1, which targets CP away from the TWtail binding site, also favors the open-form CP. Consistently, TWtail forms a stable ternary complex with CP and V-1, a striking contrast to CARMIL CPI, which rapidly dissociates V-1 from CP. Our results demonstrate that TWtail is a unique CP-binding motif that regulates CP in a manner distinct from CARMIL CPI.


  • Organizational Affiliation
    • Graduate School of Science, Nagoya University, Nagoya, Aichi 464-8602, Japan. Electronic address: takedashuichi@okayama-u.ac.jp.

Macromolecule Content 

  • Total Structure Weight: 64.81 kDa 
  • Atom Count: 4,883 
  • Modeled Residue Count: 531 
  • Deposited Residue Count: 571 
  • Unique protein chains: 3

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
F-actin-capping protein subunit alpha-1286Gallus gallusMutation(s): 0 
Gene Names: CAPZA1
UniProt
Find proteins for P13127 (Gallus gallus)
Explore P13127 
Go to UniProtKB:  P13127
Entity Groups
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UniProt GroupP13127
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Reference Sequence
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Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
F-actin-capping protein subunit beta isoforms 1244Gallus gallusMutation(s): 0 
Gene Names: CAPZB
UniProt
Find proteins for P14315 (Gallus gallus)
Explore P14315 
Go to UniProtKB:  P14315
Entity Groups
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UniProt GroupP14315
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Reference Sequence
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Entity ID: 3
MoleculeChains  Sequence LengthOrganismDetailsImage
Twinfilin-141Mus musculusMutation(s): 0 
Gene Names: Twf1Ptk9
UniProt & NIH Common Fund Data Resources
Find proteins for Q91YR1 (Mus musculus)
Explore Q91YR1 
Go to UniProtKB:  Q91YR1
IMPC:  MGI:1100520
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ91YR1
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free:  0.183 (Depositor), 0.185 (DCC) 
  • R-Value Work:  0.167 (Depositor), 0.168 (DCC) 
  • R-Value Observed: 0.168 (Depositor) 
Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 52.04α = 90
b = 61.54β = 90
c = 161.47γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata processing
MOLREPphasing

Structure Validation

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Entry History 

& Funding Information

Deposition Data

  • Released Date: 2021-03-03 
  • Deposition Author(s): Takeda, S.

Funding OrganizationLocationGrant Number
Japan Society for the Promotion of Science (JSPS)Japan16K17708
Japan Society for the Promotion of Science (JSPS)Japan17K07373
Japan Society for the Promotion of Science (JSPS)Japan20K06522

Revision History  (Full details and data files)

  • Version 1.0: 2021-03-03
    Type: Initial release
  • Version 1.1: 2021-03-17
    Changes: Database references
  • Version 1.2: 2021-04-07
    Changes: Database references
  • Version 1.3: 2023-11-29
    Changes: Data collection, Database references, Refinement description