PDBsum entry: 1s2m

RNA binding protein

PDB-id: 1s2m

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PROCHECK

Protein chain

377 a.a. *

Waters ×253

* Residue conservation analysis

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Clefts Calculation

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PDB id:

1s2m

Name:

RNA binding protein

Title:

Crystal structure of the dead box protein dhh1p

Structure:

Putative atp-dependent RNA helicase dhh1. Chain: a. Fragment: core RNA helicase fragment. Synonym: dead box RNA helicase dhh1p. Engineered: yes

Source:

Saccharomyces cerevisiae. Baker's yeast. Organism_taxid: 4932. Gene: dhh1, ydl160c. Expressed in: escherichia coli. Expression_system_taxid: 562.

UniProt:

P39517 (DHH1_YEAST)

Seq:

Struc:

Seq:

506 a.a.

Struc:

377 a.a.

Key:	PfamA domain	PfamB domain
Secondary structure	CATH domain

Resolution:

2.10Å

R-factor:

0.202

R-free:

0.234

Authors:

Z.Cheng,H.Song

Key ref:

Z.Cheng et al. (2005). Crystal structure and functional analysis of DEAD-box protein Dhh1p.. Rna, 11, 1258-1270. [PubMed id: 15987810] [DOI: 10.1261/rna.2920905]

Date:

09-Jan-04

Release date:

01-Mar-05

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Key reference

DOI no: 10.1261/rna.2920905

Rna 11:1258-1270 (2005)

PubMed id: 15987810

Crystal structure and functional analysis of DEAD-box protein Dhh1p.

Z.Cheng, J.Coller, R.Parker, H.Song.

ABSTRACT

The control of mRNA translation and degradation are critical for proper gene expression. A key regulator of both translation and degradation is Dhh1p, which is a DEAD-box protein, and functions both to repress translation and enhance decapping. We describe the crystal structure of the N- and C-terminal truncated Dhh1p (tDhh1p) determined at 2.1 A resolution. This reveals that, like other DEAD-box proteins, tDhh1p contains two RecA-like domains, although with a unique arrangement. In contrast to eIF4A and mjDEAD, in which no motif interactions exist, in Dhh1p, motif V interacts with motif I and the Q-motif, thereby linking the two domains together. Electrostatic potential mapping combined with mutagenesis reveals that motifs I, V, and VI are involved in RNA binding. In addition, trypsin digestion of tDhh1p suggests that ATP binding enhances an RNA-induced conformational change. Interestingly, some mutations located in the conserved motifs and at the interface between the two Dhh1 domains confer dominant negative phenotypes in vivo and disrupt the conformational switch in vitro. This suggests that this conformational change is required in Dhh1 function and identifies key residues involved in that transition.