1WR0

Structural characterization of the MIT domain from human Vps4b


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 94 
  • Conformers Submitted: 20 
  • Selection Criteria: structures with the lowest energy 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural characterization of the MIT domain from human Vps4b

Takasu, H.Jee, J.G.Ohno, A.Goda, N.Fujiwara, K.Tochio, H.Shirakawa, M.Hiroaki, H.

(2005) Biochem.Biophys.Res.Commun. 334: 460-465

  • DOI: 10.1016/j.bbrc.2005.06.110

  • PubMed Abstract: 
  • The microtubule interacting and trafficking (MIT) domain is a small protein module of unknown function that is conserved in proteins of diverse function, such as Vps4, sorting nexin 15 (SNX15), and spastin. One non-synonymous single nucleotide polymo ...

    The microtubule interacting and trafficking (MIT) domain is a small protein module of unknown function that is conserved in proteins of diverse function, such as Vps4, sorting nexin 15 (SNX15), and spastin. One non-synonymous single nucleotide polymorphism was reported, which results in a Ile58-to-Met (I58M) substitution in hVps4b. Here, we have determined the solution structure of the MIT domain isolated from the NH(2)-terminus of human Vps4b, an AAA-ATPase involved in multivesicular body formation. The MIT domain adopts an 'up-and-down' three-helix bundle. Comparison with the sequences of other MIT domains clearly shows that the residues involved in inter-helical contacts are well conserved. The Ile58-to-Met substitution resulted a substantial thermal instability. In addition, we found a shallow crevice between helices A and C that may serve as a protein-binding site. We propose that the MIT domain serves as a putative adaptor domain for the ESCRT-III complex involved in endosomal trafficking.


    Organizational Affiliation

    International Graduate School of Arts and Sciences, Yokohama City University, Yokohama, Kanagawa 230 0045, Japan.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
SKD1 protein
A
81Homo sapiensMutation(s): 0 
Gene Names: VPS4B (SKD1, VPS42)
EC: 3.6.4.6
Find proteins for O75351 (Homo sapiens)
Go to Gene View: VPS4B
Go to UniProtKB:  O75351
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 94 
  • Conformers Submitted: 20 
  • Selection Criteria: structures with the lowest energy 
  • Olderado: 1WR0 Olderado

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2005-08-02
    Type: Initial release
  • Version 1.1: 2007-10-03
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance