PDBsum entry 2kh9

Splicing/RNA

PDB id

2kh9

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Contents

			Protein chain

					86 a.a. *

			DNA/RNA

* Residue conservation analysis

PDB id:

2kh9

Links

Name:

Splicing/RNA

Title:

Solution structure of yeast prp24-rrm2 bound to a fragment of u6 RNA

Structure:

U4/u6 snrna-associated-splicing factor prp24. Chain: a. Fragment: unp residues 115-197. Synonym: u4/u6 snrnp protein. Engineered: yes. 5'-r( Ap Gp Ap Gp Ap U)-3'. Chain: b. Engineered: yes

Source:

Saccharomyces cerevisiae. Yeast. Organism_taxid: 4932. Gene: prp24, ymr268c, ym8156.10c. Expressed in: escherichia coli. Expression_system_taxid: 562. Synthetic: yes. Other_details: synthetic RNA

NMR struc:

10 models

Authors:

S.A.Martin-Tumasz,S.E.Butcher

Key ref:

S.Martin-Tumasz et al. (2010). Structure and functional implications of a complex containing a segment of U6 RNA bound by a domain of Prp24. Rna, 16, 792-804. PubMed id: 20181740

Date:

27-Mar-09

Release date:

09-Mar-10

PROCHECK

	Headers

	References

Protein chain

P49960 (PRP24_YEAST) - U4/U6 snRNA-associated-splicing factor PRP24 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: Struc:					444 a.a. 86 a.a.*

Key:

PfamA domain

Secondary structure

CATH domain

* PDB and UniProt seqs differ at 3 residue positions (black crosses)

DNA/RNA chain

A-G-A-G-A-U 6 bases



		Enzyme reactions

Enzyme class:

E.C.?

[IntEnz] [ExPASy] [KEGG] [BRENDA]

	Rna 16:792-804 (2010)
PubMed id: 20181740

Structure and functional implications of a complex containing a segment of U6 RNA bound by a domain of Prp24.
S.Martin-Tumasz, N.J.Reiter, D.A.Brow, S.E.Butcher.

ABSTRACT

U6 RNA plays a critical role in pre-mRNA splicing. Assembly of U6 into the spliceosome requires a significant structural rearrangement and base-pairing with U4 RNA. In the yeast Saccharomyces cerevisiae, this process requires the essential splicing factor Prp24. We present the characterization and structure of a complex containing one of Prp24's four RNA recognition motif (RRM) domains, RRM2, and a fragment of U6 RNA. NMR methods were used to identify the preferred U6 binding sequence of RRM2 (5'-GAGA-3'), measure the affinity of the interaction, and solve the structure of RRM2 bound to the hexaribonucleotide AGAGAU. Interdomain contacts observed between RRM2 and RRM3 in a crystal structure of the free protein are not detectable in solution. A structural model of RRM1 and RRM2 bound to a longer segment of U6 RNA is presented, and a partial mechanism for Prp24's annealing activity is proposed.

Literature references that cite this PDB file's key reference

PubMed id

Reference

21241883

C.Dominguez, M.Schubert, O.Duss, S.Ravindranathan, and F.H.Allain (2011).
Structure determination and dynamics of protein-RNA complexes by NMR spectroscopy.

Prog Nucl Magn Reson Spectrosc, 58, 1.

20926394

K.Tsuda, T.Someya, K.Kuwasako, M.Takahashi, F.He, S.Unzai, M.Inoue, T.Harada, S.Watanabe, T.Terada, N.Kobayashi, M.Shirouzu, T.Kigawa, A.Tanaka, S.Sugano, P.Güntert, S.Yokoyama, and Y.Muto (2011).
Structural basis for the dual RNA-recognition modes of human Tra2-β RRM.

Nucleic Acids Res, 39, 1538-1553.

PDB codes:

2rra 2rrb

20862284

S.Khoshnevis, P.Neumann, and R.Ficner (2010).
Crystal structure of the RNA recognition motif of yeast translation initiation factor eIF3b reveals differences to human eIF3b.

PLoS One, 5, 0.

PDB codes:

3ns5 3ns6

The most recent references are shown first. Citation data come partly from CiteXplore and partly from an automated harvesting procedure. Note that this is likely to be only a partial list as not all journals are covered by either method. However, we are continually building up the citation data so more and more references will be included with time. Where a reference describes a PDB structure, the PDB codes are shown on the right.