6J73

Crystal structure of IniA from Mycobacterium smegmatis


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.21 Å
  • R-Value Free: 0.258 
  • R-Value Work: 0.219 
  • R-Value Observed: 0.221 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Mycobacterial dynamin-like protein IniA mediates membrane fission.

Wang, M.Guo, X.Yang, X.Zhang, B.Ren, J.Liu, A.Ran, Y.Yan, B.Chen, F.Guddat, L.W.Hu, J.Li, J.Rao, Z.

(2019) Nat Commun 10: 3906-3906

  • DOI: https://doi.org/10.1038/s41467-019-11860-z
  • Primary Citation of Related Structures:  
    6J72, 6J73

  • PubMed Abstract: 

    Mycobacterium tuberculosis infection remains a major threat to human health worldwide. Drug treatments against tuberculosis (TB) induce expression of several mycobacterial proteins, including IniA, but its structure and function remain poorly understood. Here, we report the structures of Mycobacterium smegmatis IniA in both the nucleotide-free and GTP-bound states. The structures reveal that IniA folds as a bacterial dynamin-like protein (BDLP) with a canonical GTPase domain followed by two helix-bundles (HBs), named Neck and Trunk. The distal end of its Trunk domain exists as a lipid-interacting (LI) loop, which binds to negatively charged lipids for membrane attachment. IniA does not form detectable nucleotide-dependent dimers in solution. However, lipid tethering indicates nucleotide-independent association of IniA on the membrane. IniA also deforms membranes and exhibits GTP-hydrolyzing dependent membrane fission. These results confirm the membrane remodeling activity of BDLP and suggest that IniA mediates TB drug-resistance through fission activity to maintain plasma membrane integrity.


  • Organizational Affiliation

    University of Chinese Academy of Sciences, Beijing, 100101, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Isoniazid inducible gene protein IniA
A, B
606Mycolicibacterium smegmatis MC2 155Mutation(s): 0 
Gene Names: iniAMSMEI_0678
UniProt
Find proteins for I7FE16 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Explore I7FE16 
Go to UniProtKB:  I7FE16
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupI7FE16
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.21 Å
  • R-Value Free: 0.258 
  • R-Value Work: 0.219 
  • R-Value Observed: 0.221 
  • Space Group: P 31
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 91.76α = 90
b = 91.76β = 90
c = 137.346γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data scaling
PDB_EXTRACTdata extraction
HKL-2000data reduction
PHASERphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Chinese Academy of SciencesChinaXDB08020200
Ministry of Science and Technology (China)China2016YFA0500201
Ministry of Science and Technology (China)China2017YFC0840300
Ministry of Science and Technology (China)China2014CB542800
Ministry of Science and Technology (China)China2014CBA02003
National Natural Science Foundation of ChinaChina813300237
National Natural Science Foundation of ChinaChina81520108019
National Natural Science Foundation of ChinaChina31630020
National Natural Science Foundation of ChinaChina31500607
Chinese Academy of SciencesChinaXDPB10

Revision History  (Full details and data files)

  • Version 1.0: 2019-09-11
    Type: Initial release