1JWC | pdb_00001jwc

NMR SOLUTION STRUCTURE OF THE RNA HAIRPIN BINDING SITE FOR THE HISTONE STEM-LOOP BINDING PROTEIN

• PDB DOI: https://doi.org/10.2210/pdb1JWC/pdb
• NAKB: 1JWC
• BMRB: 5170

• Classification: RNA
• Mutation(s): No 


• Deposited: 2001-09-03 Released: 2002-03-20 
• Deposition Author(s): Dejong, E.S., Marzluff, W.F., Nikonowicz, E.P.

---

Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Submitted: 1 

Literature

NMR structure and dynamics of the RNA-binding site for the histone mRNA stem-loop binding protein.

DeJong, E.S., Marzluff, W.F., Nikonowicz, E.P.

(2002) RNA 8: 83-96

• PubMed: 11871662 
• DOI: https://doi.org/10.1017/s1355838202013869
• Primary Citation Related Structures: 
  1JU7, 1JWC


• PubMed Abstract: 
  

  The 3' end of replication-dependent histone mRNAs terminate in a conserved sequence containing a stem-loop. This 26-nt sequence is the binding site for a protein, stem-loop binding protein (SLBP), that is involved in multiple aspects of histone mRNA metabolism and regulation. We have determined the structure of the 26-nt sequence by multidimensional NMR spectroscopy. There is a 16-nt stem-loop motif, with a conserved 6-bp stem and a 4-nt loop. The loop is closed by a conserved U.A base pair that terminates the canonical A-form stem. The pyrimidine-rich 4-nt loop, UUUC, is well organized with the three uridines stacking on the helix, and the fourth base extending across the major groove into the solvent. The flanking nucleotides at the base of the hairpin stem do not assume a unique conformation, despite the fact that the 5' flanking nucleotides are a critical component of the SLBP binding site.

---

Organizational Affiliation: 
• Department of Biochemistry and Cell Biology, Rice University, Houston, Texas 77251-1892, USA.

Biological Assembly 1  

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 8.93 kDa 
• Atom Count: 334 
• Modeled Residue Count: 16 
• Deposited Residue Count: 28 
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Length	Organism	Image
5'-R(*GP*GP*CP*CP*AP*AP*AP*GP*GP*CP*CP*CP*UP*UP*UP*UP*CP*AP*GP*GP*GP*CP*CP*AP*CP*CP*CP*A)-3'	A	28	N/A

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Submitted: 1 

Structure Validation

Entry History 

Deposition Data

• Released Date: 2002-03-20 
Deposition Author(s): Dejong, E.S., Marzluff, W.F., Nikonowicz, E.P.

Revision History  

• Version 1.0: 2002-03-20
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2022-02-23
  Changes: Data collection, Database references, Derived calculations
• Version 1.4: 2024-05-22
  Changes: Data collection