6NM5

F-pilus/MS2 Maturation protein complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 6.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Structural basis for the adsorption of a single-stranded RNA bacteriophage.

Meng, R.Jiang, M.Cui, Z.Chang, J.Y.Yang, K.Jakana, J.Yu, X.Wang, Z.Hu, B.Zhang, J.

(2019) Nat Commun 10: 3130-3130

  • DOI: https://doi.org/10.1038/s41467-019-11126-8
  • Primary Citation of Related Structures:  
    6NM5

  • PubMed Abstract: 

    Single-stranded RNA bacteriophages (ssRNA phages) infect Gram-negative bacteria via a single maturation protein (Mat), which attaches to a retractile pilus of the host. Here we present structures of the ssRNA phage MS2 in complex with the Escherichia coli F-pilus, showing a network of hydrophobic and electrostatic interactions at the Mat-pilus interface. Moreover, binding of the pilus induces slight orientational variations of the Mat relative to the rest of the phage capsid, priming the Mat-connected genomic RNA (gRNA) for its release from the virions. The exposed tip of the attached Mat points opposite to the direction of the pilus retraction, which may facilitate the translocation of the gRNA from the capsid into the host cytosol. In addition, our structures determine the orientation of the assembled F-pilin subunits relative to the cell envelope, providing insights into the F-like type IV secretion systems.


  • Organizational Affiliation

    Department of Biochemistry and Biophysics, Center for Phage Technology, Texas A&M University, College Station, TX, 77843, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Type IV conjugative transfer system pilin TraA65Escherichia coliMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Maturation proteinXB [auth M]393Emesvirus zinderiMutation(s): 0 
UniProt
Find proteins for P03610 (Escherichia phage MS2)
Explore P03610 
Go to UniProtKB:  P03610
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP03610
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
KSV
Query on KSV

Download Ideal Coordinates CCD File 
AC [auth 1B]
AD [auth 2M]
AE [auth 4L]
BC [auth 1C]
BD [auth 2N]
(2R)-2,3-dihydroxypropyl ethyl hydrogen (S)-phosphate
C5 H13 O6 P
DXARXEBAXKHIOU-RXMQYKEDSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 6.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.13
RECONSTRUCTIONRELION2.1

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Human Genome Research Institute (NIH/NHGRI)United StatesP41GM103832
National Institutes of Health/National Human Genome Research Institute (NIH/NHGRI)United StatesU24GM1167

Revision History  (Full details and data files)

  • Version 1.0: 2019-07-24
    Type: Initial release
  • Version 1.1: 2019-07-31
    Changes: Data collection, Database references
  • Version 1.2: 2019-12-18
    Changes: Author supporting evidence, Other
  • Version 1.3: 2024-03-20
    Changes: Data collection, Database references