6L2W

Crystal structure of a novel fold protein Gp72 from the freshwater cyanophage Mic1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.29 Å
  • R-Value Free: 0.238 
  • R-Value Work: 0.199 
  • R-Value Observed: 0.201 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Crystal structure of a novel fold protein Gp72 from the freshwater cyanophage Mic1.

Wang, Y.Jin, H.Yang, F.Jiang, Y.L.Zhao, Y.Y.Chen, Z.P.Li, W.F.Chen, Y.Zhou, C.Z.Li, Q.

(2020) Proteins 88: 1226-1232

  • DOI: https://doi.org/10.1002/prot.25896
  • Primary Citation of Related Structures:  
    6L2W

  • PubMed Abstract: 

    Cyanophages, widespread in aquatic systems, are a class of viruses that specifically infect cyanobacteria. Though they play important roles in modulating the homeostasis of cyanobacterial populations, little is known about the freshwater cyanophages, especially those hypothetical proteins of unknown function. Mic1 is a freshwater siphocyanophage isolated from the Lake Chaohu. It encodes three hypothetical proteins Gp65, Gp66, and Gp72, which share an identity of 61.6% to 83%. However, we find these three homologous proteins differ from each other in oligomeric state. Moreover, we solve the crystal structure of Gp72 at 2.3 Å, which represents a novel fold in the α + β class. Structural analyses combined with redox assays enable us to propose a model of disulfide bond mediated oligomerization for Gp72. Altogether, these findings provide structural and biochemical basis for further investigations on the freshwater cyanophage Mic1.


  • Organizational Affiliation

    Hefei National Laboratory for Physical Sciences at the Microscale and School of Life Sciences, University of Science and Technology of China, Hefei, Anhui, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
freshwater cyanophage protein
A, B
124Microcystis phage Mic1Mutation(s): 0 
UniProt
Find proteins for A0A4Y5TR47 (Microcystis phage Mic1)
Explore A0A4Y5TR47 
Go to UniProtKB:  A0A4Y5TR47
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A4Y5TR47
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.29 Å
  • R-Value Free: 0.238 
  • R-Value Work: 0.199 
  • R-Value Observed: 0.201 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 85.702α = 90
b = 45.534β = 94.29
c = 67.368γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling
AutoSolphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of ChinaChina31630001
National Natural Science Foundation of ChinaChina31621002
Ministry of Science and Technology (China)China2018YFA0903100
Ministry of Science and Technology (China)China2016YFA0400900
Chinese Academy of SciencesChina--

Revision History  (Full details and data files)

  • Version 1.0: 2020-05-13
    Type: Initial release
  • Version 1.1: 2020-08-12
    Changes: Database references
  • Version 1.2: 2024-03-27
    Changes: Data collection, Database references