PDBsum entry 4l8r

RNA/RNA binding protein/hydrolase

PDB id: 4l8r

Contents

Protein chains

276 a.a.

67 a.a.

DNA/RNA

Waters ×135

PDB id:

4l8r

Name:

RNA/RNA binding protein/hydrolase

Title:

Structure of mRNA stem-loop, human stem-loop binding protein and 3'hexo ternary complex

Structure:

Histone mRNA stem-loop. Chain: a, d. Engineered: yes. 3'-5' exoribonuclease 1. Chain: b, e. Fragment: sap domain and nuclease domain, unp residues 55-349. Synonym: 3'-5' exonuclease eri1, eri-1 homolog, histone mRNA 3'-end- specific exoribonuclease, histone mRNA 3'-exonuclease 1, protein 3'hexo, hexo.

Source:

Synthetic: yes. Other_details: synthesized by idt. Homo sapiens. Human. Organism_taxid: 9606. Gene: 3'exo, eri1, thex1. Expressed in: escherichia coli. Expression_system_taxid: 469008. Gene: hbp, slbp.

Resolution:

2.60Å R-factor: 0.199 R-free: 0.249

Authors:

D.Tan,L.Tong

Key ref:

D.Tan et al. (2013). Structure of histone mRNA stem-loop, human stem-loop binding protein, and 3'hExo ternary complex. Science, 339, 318-321. PubMed id: 23329046

Date:

17-Jun-13 Release date: 10-Jul-13

Supersedes:

4hxh

Protein chains

Q8IV48  (ERI1_HUMAN) -  3'-5' exoribonuclease 1 from Homo sapiens

Seq: 349 a.a.

Struc: 276 a.a.

Protein chain

Q14493  (SLBP_HUMAN) -  Histone RNA hairpin-binding protein from Homo sapiens

Seq: 270 a.a.

Struc: 67 a.a.

DNA/RNA chains

C-C-A-A-A-G-G-C-U-C-U-U-U-U-C-A-G-A-G-C-C-A-C-C-C-A 26 bases

C-U-C-U-U-U-U-C-A-G-A-G-C-C-A-C-C-C-A 19 bases

Enzyme reactions

• Enzyme class: Chains B, E: E.C.3.1.-.-

Science 339:318-321 (2013)

PubMed id: 23329046

Structure of histone mRNA stem-loop, human stem-loop binding protein, and 3'hExo ternary complex.

D.Tan, W.F.Marzluff, Z.Dominski, L.Tong.

ABSTRACT

Metazoan replication-dependent histone messenger RNAs (mRNAs) have a conserved stem-loop (SL) at their 3'-end. The stem-loop binding protein (SLBP) specifically recognizes the SL to regulate histone mRNA metabolism, and the 3'-5' exonuclease 3'hExo trims its 3'-end after processing. We report the crystal structure of a ternary complex of human SLBP RNA binding domain, human 3'hExo, and a 26-nucleotide SL RNA. Only one base of the SL is recognized specifically by SLBP, and the two proteins primarily recognize the shape of the RNA. SLBP and 3'hExo have no direct contact with each other, and induced structural changes in the loop of the SL mediate their cooperative binding. The 3' flanking sequence is positioned in the 3'hExo active site, but the ternary complex limits the extent of trimming.