2AD9

Solution structure of Polypyrimidine Tract Binding protein RBD1 complexed with CUCUCU RNA

• PDB DOI:  https://doi.org/10.2210/pdb2AD9/pdb
• NAKB: 2AD9

• Classification: RNA BINDING PROTEIN/RNA
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2005-07-20 Released: 2005-10-04 
• Deposition Author(s): Oberstrass, F.C., Auweter, S.D., Erat, M., Hargous, Y., Henning, A., Wenter, P., Reymond, L., Pitsch, S., Black, D.L., Allain, F.H.T.

---

Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 40 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 

Literature

Structure of PTB bound to RNA: specific binding and implications for splicing regulation

Oberstrass, F.C., Auweter, S.D., Erat, M., Hargous, Y., Henning, A., Wenter, P., Reymond, L., Amir-Ahmady, B., Pitsch, S., Black, D.L., Allain, F.H.T.

(2005) Science 309: 2054-2057

• PubMed: 16179478 
• DOI: https://doi.org/10.1126/science.1114066
• Primary Citation of Related Structures:  
  2AD9, 2ADB, 2ADC


• PubMed Abstract: 
  

The polypyrimidine tract binding protein (PTB) is a 58-kilodalton RNA binding protein involved in multiple aspects of messenger RNA metabolism, including the repression of alternative exons. We have determined the solution structures of the four RNA binding domains (RBDs) of PTB, each bound to a CUCUCU oligonucleotide. Each RBD binds RNA with a different binding specificity. RBD3 and RBD4 interact, resulting in an antiparallel orientation of their bound RNAs. Thus, PTB will induce RNA looping when bound to two separated pyrimidine tracts within the same RNA. This leads to structural models for how PTB functions as an alternative-splicing repressor.

---

Organizational Affiliation: 

Institute for Molecular Biology and Biophysics, Department of Biology, Swiss Federal Institute of Technology, Zürich, ETH-Hönggerberg, CH-8093 Zürich, Switzerland.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 14.94 kDa 
• Atom Count: 878 
• Modelled Residue Count: 104 
• Deposited Residue Count: 125 
• Unique protein chains: 1
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Polypyrimidine tract-binding protein 1	B [auth A]	119	Homo sapiens	Mutation(s): 0  Gene Names: PTB-1, PTBP1, PTB
UniProt & NIH Common Fund Data Resources
Find proteins for P26599 (Homo sapiens) Explore P26599  Go to UniProtKB:  P26599
PHAROS:  P26599

Entity ID: 1
Molecule	Chains	Length	Organism	Image
5'-R(*CP*UP*CP*UP*CP*U)-3'	A [auth B]	6	N/A

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 40 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 

Structure Validation

Entry History 

Deposition Data

• Released Date: 2005-10-04 
Deposition Author(s): Oberstrass, F.C., Auweter, S.D., Erat, M., Hargous, Y., Henning, A., Wenter, P., Reymond, L., Pitsch, S., Black, D.L., Allain, F.H.T.

Revision History  

• Version 1.0: 2005-10-04
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2022-03-09
  Changes: Data collection, Database references, Derived calculations