4B8T

RNA BINDING PROTEIN Solution structure of the third KH domain of KSRP in complex with the G-rich target sequence.

• PDB DOI: https://doi.org/10.2210/pdb4B8T/pdb
• BMRB: 18702
• NAKB: 4B8T

• Classification: TRANSCRIPTION/RNA
• Organism(s): Homo sapiens, synthetic construct
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2012-08-30 Released: 2012-11-07 
• Deposition Author(s): Nicastro, G., Garcia-Mayoral, M.F., Hollingworth, D., Kelly, G., Martin, S.R., Briata, P., Gherzi, R., Ramos, A.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 

Literature

Noncanonical G Recognition Mediates Ksrp Regulation of Let-7 Biogenesis

Nicastro, G., Garcia-Mayoral, M.F., Hollingworth, D., Kelly, G., Martin, S.R., Briata, P., Gherzi, R., Ramos, A.

(2012) Nat Struct Mol Biol 19: 1282

• PubMed: 23142982 
• DOI: https://doi.org/10.1038/nsmb.2427
• Primary Citation of Related Structures:  
  4B8T


• PubMed Abstract: 
  

  Let-7 is an important tumor-suppressive microRNA (miRNA) that acts as an on-off switch for cellular differentiation and regulates the expression of a set of human oncogenes. Binding of the human KSRP protein to let-7 miRNA precursors positively regulates their processing to mature let-7, thereby contributing to control of cell proliferation, apoptosis and differentiation. Here we analyze the molecular basis for KSRP-let-7 precursor selectivity and show how the third KH domain of the protein recognizes a G-rich sequence in the pre-let-7 terminal loop and dominates the interaction. The structure of the KH3-RNA complex explains the protein recognition of this noncanonical KH target sequence, and we demonstrate that the specificity of this binding is crucial for the functional interaction between the protein and the miRNA precursor.

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Organizational Affiliation: 

Molecular Structure Division, Medical Research Council National Institute for Medical Research, London, UK.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 generated by PQS (software)

Macromolecule Content

• Total Structure Weight: 12.54 kDa 
• Atom Count: 873 
• Modelled Residue Count: 111 
• Deposited Residue Count: 111 
• Unique protein chains: 1
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
KH-TYPE SPLICING REGULATORY PROTEIN	A	106	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for Q92945 (Homo sapiens) Explore Q92945  Go to UniProtKB:  Q92945
PHAROS:  Q92945 GTEx:  ENSG00000088247

Entity ID: 2
Molecule	Chains	Length	Organism	Image
5'-R(*AP*GP*GP*GP*UP)-3'	B	5	synthetic construct

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-11-07 
Deposition Author(s): Nicastro, G., Garcia-Mayoral, M.F., Hollingworth, D., Kelly, G., Martin, S.R., Briata, P., Gherzi, R., Ramos, A.

Revision History  

• Version 1.0: 2012-11-07
  Type: Initial release
  
• Version 1.1: 2012-11-21
  Changes: Database references
• Version 1.2: 2012-11-28
  Changes: Other, Structure summary
• Version 1.3: 2012-12-05
  Changes: Atomic model
• Version 1.4: 2013-01-16
  Changes: Database references