› 7abh

Electron Microscopy
4.5Å resolution

Human pre-Bact-2 spliceosome (SF3b/U2 snRNP portion)

Released:
DOI: 10.2210/pdb7abh/pdb
PDB entry 7abh coloured by chain, front view.
PDB entry 7abh coloured by chain, side view.
PDB entry 7abh coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Mechanism of protein-guided folding of the active site U2/U6 RNA during spliceosome activation.
Townsend C, Leelaram MN, Agafonov DE, Dybkov O, Will CL, Bertram K, Urlaub H, Kastner B, Stark H, Lührmann R
Science 370 (2020)
PMID: 33243851
Related structures: EMD-11696

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero hexadecamer (preferred)
PDBe Complex ID:
PDB-CPX-130106 (preferred)
Entry contents:
14 distinct polypeptide molecules
2 distinct RNA molecules
Macromolecules (16 distinct):
Cell division cycle 5-like protein Chain: L
Molecule details ›
Chain: L
Length: 802 amino acids
Theoretical weight: 92.41 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: Q99459 (Residues: 1-802; Coverage: 100%)
Gene names: CDC5L, KIAA0432, PCDC5RP
Sequence domains:
PHD finger-like domain-containing protein 5A Chain: y
Molecule details ›
Chain: y
Length: 110 amino acids
Theoretical weight: 12.43 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: Q7RTV0 (Residues: 1-110; Coverage: 100%)
Gene name: PHF5A
Sequence domains: PHF5-like protein
Splicing factor 3A subunit 2 Chain: F
Molecule details ›
Chain: F
Length: 464 amino acids
Theoretical weight: 49.33 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: Q15428 (Residues: 1-464; Coverage: 100%)
Gene names: SAP62, SF3A2
Sequence domains:
Splicing factor 3A subunit 3 Chain: 4
Molecule details ›
Chain: 4
Length: 501 amino acids
Theoretical weight: 58.93 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: Q12874 (Residues: 1-501; Coverage: 100%)
Gene names: SAP61, SF3A3
Sequence domains:
Splicing factor 3B subunit 1 Chain: u
Molecule details ›
Chain: u
Length: 1304 amino acids
Theoretical weight: 146.02 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: O75533 (Residues: 1-1304; Coverage: 100%)
Gene names: SAP155, SF3B1
Sequence domains:
Splicing factor 3B subunit 2 Chain: T
Molecule details ›
Chain: T
Length: 895 amino acids
Theoretical weight: 100.38 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: Q13435 (Residues: 1-895; Coverage: 100%)
Gene names: SAP145, SF3B2
Sequence domains:
Splicing factor 3B subunit 3 Chain: E
Molecule details ›
Chain: E
Length: 1217 amino acids
Theoretical weight: 135.72 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: Q15393 (Residues: 1-1217; Coverage: 100%)
Gene names: KIAA0017, SAP130, SF3B3
Sequence domains:
Splicing factor 3B subunit 4 Chain: w
Molecule details ›
Chain: w
Length: 424 amino acids
Theoretical weight: 44.44 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: Q15427 (Residues: 1-424; Coverage: 100%)
Gene names: SAP49, SF3B4
Sequence domains: RNA recognition motif
Splicing factor 3B subunit 5 Chain: x
Molecule details ›
Chain: x
Length: 86 amino acids
Theoretical weight: 10.15 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: Q9BWJ5 (Residues: 1-86; Coverage: 100%)
Gene names: SF3B10, SF3B5
Sequence domains: Splicing factor 3B subunit 10 (SF3b10)
Splicing factor 3B subunit 6 Chain: z
Molecule details ›
Chain: z
Length: 125 amino acids
Theoretical weight: 14.61 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: Q9Y3B4 (Residues: 1-125; Coverage: 100%)
Gene names: CGI-110, HSPC175, HT006, SAP14, SF3B14, SF3B14A, SF3B6
Sequence domains: RNA recognition motif
Smad nuclear-interacting protein 1 Chain: 0
Molecule details ›
Chain: 0
Length: 396 amino acids
Theoretical weight: 45.88 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: Q8TAD8 (Residues: 1-396; Coverage: 100%)
Gene name: SNIP1
Sequence domains: FHA domain
RNA-binding motif protein, X-linked 2 Chain: 1
Molecule details ›
Chain: 1
Length: 322 amino acids
Theoretical weight: 37.43 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: Q9Y388 (Residues: 1-322; Coverage: 100%)
Gene names: CGI-79, RBMX2
Sequence domains: RNA recognition motif
Serine/arginine repetitive matrix protein 1 Chain: Y
Molecule details ›
Chain: Y
Length: 904 amino acids
Theoretical weight: 102.6 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: Q8IYB3 (Residues: 1-904; Coverage: 100%)
Gene names: SRM160, SRRM1
Sequence domains: PWI domain
DNA/RNA-binding protein KIN17 Chain: 7
Molecule details ›
Chain: 7
Length: 393 amino acids
Theoretical weight: 45.45 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: O60870 (Residues: 1-393; Coverage: 100%)
Gene names: BTCD, KIN, KIN17
Sequence domains:
MINX M3 pre-mRNA Chain: Z
Molecule details ›
Chain: Z
Length: 230 nucleotides
Theoretical weight: 73.71 KDa
U2 snRNA Chain: 2
Molecule details ›
Chain: 2
Length: 188 nucleotides
Theoretical weight: 60.19 KDa
Sequence domains: U2 spliceosomal RNA

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 4.5Å
Relevant EMDB volumes: EMD-11696

Quick links

Citations

9 review citations

Regulation of pre-mRNA splicing: roles in physiology and disease, and therapeutic prospects.
Rogalska et al. (2023)
8 more