› 7oqc

Electron Microscopy
4.1Å resolution

The U1 part of Saccharomyces cerevisiae spliceosomal pre-A complex (delta BS-A ACT1)

Released:
DOI: 10.2210/pdb7oqc/pdb
PDB entry 7oqc coloured by chain, front view.
PDB entry 7oqc coloured by chain, side view.
PDB entry 7oqc coloured by chain, top view.
Source organism: Saccharomyces cerevisiae
Primary publication:
Structural insights into how Prp5 proofreads the pre-mRNA branch site.
Zhang Z, Rigo N, Dybkov O, Fourmann JB, Will CL, Kumar V, Urlaub H, Stark H, Lührmann R
OpenAccess logo Nature 596 296-300 (2021)
PMID: 34349264
Related structures: EMD-13029

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero octadecamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-152396 (preferred)
Entry contents:
16 distinct polypeptide molecules
2 distinct RNA molecules
Macromolecules (18 distinct):
Protein NAM8 Chain: F
Molecule details ›
Chain: F
Length: 523 amino acids
Theoretical weight: 57.01 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: Q00539 (Residues: 1-523; Coverage: 100%)
Gene names: MRE2, MUD15, NAM8, YHR086W
Sequence domains: RNA recognition motif
U1 small nuclear ribonucleoprotein component PRP42 Chain: E
Molecule details ›
Chain: E
Length: 544 amino acids
Theoretical weight: 65.22 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: Q03776 (Residues: 1-544; Coverage: 100%)
Gene names: MUD16, PRP42, SNU65, YD8419.02, YDR235W
U1 small nuclear ribonucleoprotein component SNU71 Chain: J
Molecule details ›
Chain: J
Length: 620 amino acids
Theoretical weight: 71.48 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P53207 (Residues: 1-620; Coverage: 100%)
Gene names: SNU71, YGR013W
56 kDa U1 small nuclear ribonucleoprotein component Chain: G
Molecule details ›
Chain: G
Length: 492 amino acids
Theoretical weight: 56.58 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: Q03782 (Residues: 1-492; Coverage: 100%)
Gene names: MUD10, SNU56, YDR240C
Sequence domains: Snu56-like U1 small nuclear ribonucleoprotein component
U1 small nuclear ribonucleoprotein A Chain: A
Molecule details ›
Chain: A
Length: 298 amino acids
Theoretical weight: 34.44 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P32605 (Residues: 1-298; Coverage: 100%)
Gene names: MUD1, YBR0915, YBR119W
Sequence domains: RNA recognition motif
U1 small nuclear ribonucleoprotein C Chain: C
Molecule details ›
Chain: C
Length: 231 amino acids
Theoretical weight: 27.11 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: Q05900 (Residues: 1-231; Coverage: 100%)
Gene names: L8003.21, YHC1, YLR298C
Sequence domains: U1 zinc finger
Small nuclear ribonucleoprotein-associated protein B Chain: b
Molecule details ›
Chain: b
Length: 196 amino acids
Theoretical weight: 22.43 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P40018 (Residues: 1-196; Coverage: 100%)
Gene names: SMB1, YER029C
Sequence domains: LSM domain
Small nuclear ribonucleoprotein Sm D3 Chain: d
Molecule details ›
Chain: d
Length: 101 amino acids
Theoretical weight: 11.24 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P43321 (Residues: 1-101; Coverage: 100%)
Gene names: L9634.6, SMD3, YLR147C
Sequence domains: LSM domain
Small nuclear ribonucleoprotein E Chain: e
Molecule details ›
Chain: e
Length: 94 amino acids
Theoretical weight: 10.39 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: Q12330 (Residues: 1-94; Coverage: 100%)
Gene names: SME1, YOR159C
Sequence domains: LSM domain
Small nuclear ribonucleoprotein F Chain: f
Molecule details ›
Chain: f
Length: 86 amino acids
Theoretical weight: 9.67 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P54999 (Residues: 1-86; Coverage: 100%)
Gene names: P9705.4, SMX3, YPR182W
Sequence domains: LSM domain
Small nuclear ribonucleoprotein G Chain: g
Molecule details ›
Chain: g
Length: 77 amino acids
Theoretical weight: 8.49 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P40204 (Residues: 1-77; Coverage: 100%)
Gene names: SMX2, SNP2, YFL017Bw, YFL017W-A
Sequence domains: LSM domain
Small nuclear ribonucleoprotein Sm D1 Chain: h
Molecule details ›
Chain: h
Length: 146 amino acids
Theoretical weight: 16.3 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: Q02260 (Residues: 1-146; Coverage: 100%)
Gene names: SMD1, YGR074W
Sequence domains: LSM domain
Small nuclear ribonucleoprotein Sm D2 Chain: i
Molecule details ›
Chain: i
Length: 110 amino acids
Theoretical weight: 12.88 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: Q06217 (Residues: 1-110; Coverage: 100%)
Gene names: L9328.5, SMD2, YLR275W
Sequence domains: LSM domain
Protein LUC7 Chain: H
Molecule details ›
Chain: H
Length: 261 amino acids
Theoretical weight: 30.25 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: Q07508 (Residues: 1-261; Coverage: 100%)
Gene names: EPE1, EXM2, LUC7, YDL087C
Sequence domains: LUC7 N_terminus
Pre-mRNA-processing factor 39 Chain: D
Molecule details ›
Chain: D
Length: 629 amino acids
Theoretical weight: 74.83 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P39682 (Residues: 1-629; Coverage: 100%)
Gene names: PRP39, YM9827.06, YML046W
U1 small nuclear ribonucleoprotein 70 kDa homolog Chain: B
Molecule details ›
Chain: B
Length: 300 amino acids
Theoretical weight: 34.51 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: Q00916 (Residues: 1-300; Coverage: 100%)
Gene names: SNP1, YIL061C
Sequence domains:
ACT1 pre-mRNA (delta BS-A),ACT1 pre-mRNA (delta BS-A),ACT1 pre-mRNA (delta BS-A),ACT1 pre-mRNA (delta BS-A),ACT1 pre-mRNA (delta BS-A),ACT1 pre-mRNA (delta BS-A),ACT1 pre-mRNA (delta BS-A),ACT1 pre-mRNA (delta BS-A),ACT1 pre-mRNA (delta BS-A) Chain: I
Molecule details ›
Chain: I
Length: 371 nucleotides
Theoretical weight: 111.6 KDa
U1 snRNA Chain: 1
Molecule details ›
Chain: 1
Length: 568 nucleotides
Theoretical weight: 182.11 KDa
Sequence domains: Yeast U1 spliceosomal RNA

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 4.1Å
Relevant EMDB volumes: EMD-13029

Quick links

Citations

8 review citations

Cellular functions of eukaryotic RNA helicases and their links to human diseases.
Bohnsack et al. (2023)
7 more