PDBsum entry 6dnh

RNA binding protein/RNA

PDB id: 6dnh

Contents

Protein chains

1177 a.a.

376 a.a.

117 a.a.

DNA/RNA

Metals

_ZN ×3

PDB id:

6dnh

Name:

RNA binding protein/RNA

Title:

Cryo-em structure of human cpsf-160-wdr33-cpsf-30-pas RNA complex at 3.4 a resolution

Structure:

Cleavage and polyadenylation specificity factor subunit 1. Chain: a. Synonym: cleavage and polyadenylation specificity factor 160 kda subunit, cpsf 160 kda subunit. Engineered: yes. Pre-mRNA 3' end processing protein wdr33. Chain: b. Synonym: wd repeat-containing protein 33, wd repeat-containing protein wdc146.

Source:

Homo sapiens. Human. Organism_taxid: 9606. Gene: cpsf1, cpsf160. Expressed in: trichoplusia ni. Expression_system_taxid: 7111. Gene: wdr33, wdc146. Gene: cpsf4, cpsf30, nar, neb1. Expressed in: escherichia coli.

Authors:

Y.Sun,Y.Zhang,K.Hamilton,T.Walz,L.Tong

Key ref:

Y.Sun et al. (2018). Molecular basis for the recognition of the human AAUAAA polyadenylation signal. Proc Natl Acad Sci U S A, 115, E1419. PubMed id: 29208711

Date:

06-Jun-18 Release date: 27-Jun-18

Supersedes:

6bll

Protein chain

Q10570  (CPSF1_HUMAN) -  Cleavage and polyadenylation specificity factor subunit 1 from Homo sapiens

Seq: 1443 a.a.

Struc: 1177 a.a.

Protein chain

Q9C0J8  (WDR33_HUMAN) -  pre-mRNA 3' end processing protein WDR33 from Homo sapiens

Seq: 1336 a.a.

Struc: 376 a.a.

Protein chain

O95639  (CPSF4_HUMAN) -  Cleavage and polyadenylation specificity factor subunit 4 from Homo sapiens

Seq: 269 a.a.

Struc: 117 a.a.

DNA/RNA chain

A-A-U-A-A-A-C 7 bases

Proc Natl Acad Sci U S A 115:E1419 (2018)

PubMed id: 29208711

Molecular basis for the recognition of the human AAUAAA polyadenylation signal.

Y.Sun, Y.Zhang, K.Hamilton, J.L.Manley, Y.Shi, T.Walz, L.Tong.

ABSTRACT

Nearly all eukaryotic messenger RNA precursors must undergo cleavage and polyadenylation at their 3'-end for maturation. A crucial step in this process is the recognition of the AAUAAA polyadenylation signal (PAS), and the molecular mechanism of this recognition has been a long-standing problem. Here, we report the cryo-electron microscopy structure of a quaternary complex of human CPSF-160, WDR33, CPSF-30, and an AAUAAA RNA at 3.4-Å resolution. Strikingly, the AAUAAA PAS assumes an unusual conformation that allows this short motif to be bound directly by both CPSF-30 and WDR33. The A1 and A2 bases are recognized specifically by zinc finger 2 (ZF2) of CPSF-30 and the A4 and A5 bases by ZF3. Interestingly, the U3 and A6 bases form an intramolecular Hoogsteen base pair and directly contact WDR33. CPSF-160 functions as an essential scaffold and preorganizes CPSF-30 and WDR33 for high-affinity binding to AAUAAA. Our findings provide an elegant molecular explanation for how PAS sequences are recognized for mRNA 3'-end formation.