7E59

interferon-inducible anti-viral protein truncated


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.00 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.218 
  • R-Value Observed: 0.220 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structural basis for GTP-induced dimerization and antiviral function of guanylate-binding proteins.

Cui, W.Braun, E.Wang, W.Tang, J.Zheng, Y.Slater, B.Li, N.Chen, C.Liu, Q.Wang, B.Li, X.Duan, Y.Xiao, Y.Ti, R.Hotter, D.Ji, X.Zhang, L.Cui, J.Xiong, Y.Sauter, D.Wang, Z.Kirchhoff, F.Yang, H.

(2021) Proc Natl Acad Sci U S A 118

  • DOI: https://doi.org/10.1073/pnas.2022269118
  • Primary Citation of Related Structures:  
    7CKF, 7E58, 7E59, 7E5A

  • PubMed Abstract: 

    Guanylate-binding proteins (GBPs) form a family of dynamin-related large GTPases which mediate important innate immune functions. They were proposed to form oligomers upon GTP binding/hydrolysis, but the molecular mechanisms remain elusive. Here, we present crystal structures of C-terminally truncated human GBP5 (hGBP5 1-486 ), comprising the large GTPase (LG) and middle (MD) domains, in both its nucleotide-free monomeric and nucleotide-bound dimeric states, together with nucleotide-free full-length human GBP2. Upon GTP-loading, hGBP5 1-486 forms a closed face-to-face dimer. The MD of hGBP5 undergoes a drastic movement relative to its LG domain and forms extensive interactions with the LG domain and MD of the pairing molecule. Disrupting the MD interface (for hGBP5) or mutating the hinge region (for hGBP2/5) impairs their ability to inhibit HIV-1. Our results point to a GTP-induced dimerization mode that is likely conserved among all GBP members and provide insights into the molecular determinants of their antiviral function.


  • Organizational Affiliation

    School of Life Sciences, Tianjin University, Tianjin, 300072, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Guanylate-binding protein 5A [auth G],
B [auth A],
C [auth B],
D [auth C]
487Homo sapiensMutation(s): 1 
Gene Names: GBP5UNQ2427/PRO4987
EC: 3.6.5
UniProt & NIH Common Fund Data Resources
Find proteins for Q96PP8 (Homo sapiens)
Explore Q96PP8 
Go to UniProtKB:  Q96PP8
PHAROS:  Q96PP8
GTEx:  ENSG00000154451 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ96PP8
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.00 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.218 
  • R-Value Observed: 0.220 
  • Space Group: P 2 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 90.874α = 90
b = 137.312β = 90
c = 203.308γ = 90
Software Package:
Software NamePurpose
HKL-2000data scaling
PHENIXrefinement
PDB_EXTRACTdata extraction
HKL-2000data reduction
PHENIXphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China81772204

Revision History  (Full details and data files)

  • Version 1.0: 2021-05-05
    Type: Initial release
  • Version 1.1: 2023-11-29
    Changes: Data collection, Database references, Refinement description