› 3mdi

X-ray diffraction
2.07Å resolution

Crystal Structure of the 25kDa Subunit of Human Cleavage factor Im in complex with RNA UGUAAA

Released:
DOI: 10.2210/pdb3mdi/pdb
PDB entry 3mdi coloured by chain, front view.
PDB entry 3mdi coloured by chain, side view.
PDB entry 3mdi coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural basis of UGUA recognition by the Nudix protein CFI(m)25 and implications for a regulatory role in mRNA 3' processing.
Yang Q, Gilmartin GM, Doublié S
Proc Natl Acad Sci U S A 107 10062-7 (2010)
PMID: 20479262

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-129140 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct RNA molecule
Macromolecules (2 distinct):
Cleavage and polyadenylation specificity factor subunit 5 Chains: A, B
Molecule details ›
Chains: A, B
Length: 227 amino acids
Theoretical weight: 26.26 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: O43809 (Residues: 1-227; Coverage: 100%)
Gene names: CFIM25, CPSF25, CPSF5, NUDT21
Sequence domains: Nucleotide hydrolase
Structure domains: Nucleoside Triphosphate Pyrophosphohydrolase
RNA (5'-R(*UP*GP*UP*AP*AP*A)-3') Chain: C
Molecule details ›
Chain: C
Length: 6 nucleotides
Theoretical weight: 1.9 KDa
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand GOL 2 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU RU300
Spacegroup: P212121
Unit cell:
a: 71.362Å b: 72.037Å c: 96.16Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.183 0.18 0.233
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

31 review citations

Alternative polyadenylation of mRNA precursors.
Tian et al. (2017)
30 more

8 mentions without citation

Delineating the structural blueprint of the pre-mRNA 3'-end processing machinery.
Xiang et al. (2014)
7 more