8ch6

Electron Microscopy
5.9Å resolution

Structure of a late-stage activated spliceosome (BAqr) arrested with a dominant-negative Aquarius mutant (state B complex).

Released:
Source organism: Homo sapiens
Related structures: EMD-16658

Function and Biology Details

Reactions catalysed:
S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + N(6)-ubiquitinyl-[acceptor protein]-L-lysine
ATP + H(2)O = ADP + phosphate
Peptidylproline (omega=180) = peptidylproline (omega=0)
Biochemical function:
Biological process:
Cellular component:

Structure analysis Details

Assembly composition:
hetero 59-mer (preferred)
PDBe Complex ID:
PDB-CPX-301284 (preferred)
Entry contents:
45 distinct polypeptide molecules
4 distinct RNA molecules
Macromolecules (49 distinct):
Small nuclear ribonucleoprotein E Chains: 1, i
Molecule details ›
Chains: 1, i
Length: 92 amino acids
Theoretical weight: 10.82 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P62304 (Residues: 1-92; Coverage: 100%)
Gene name: SNRPE
Sequence domains: LSM domain
Small nuclear ribonucleoprotein F Chains: 2, h
Molecule details ›
Chains: 2, h
Length: 86 amino acids
Theoretical weight: 9.73 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P62306 (Residues: 1-86; Coverage: 100%)
Gene names: PBSCF, SNRPF
Sequence domains: LSM domain
Small nuclear ribonucleoprotein Sm D3 Chains: 3, j
Small nuclear ribonucleoprotein Sm D2 Chains: 4, l
Small nuclear ribonucleoprotein Sm D1 Chains: 5, k
Small nuclear ribonucleoprotein-associated proteins B and B' Chains: 8, n
Small nuclear ribonucleoprotein G Chains: 9, m
Splicing factor 3B subunit 3 Chain: A
Splicing factor 3B subunit 5 Chain: B
Splicing factor 3B subunit 1 Chain: C
PHD finger-like domain-containing protein 5A Chain: D
Splicing factor 3B subunit 2 Chain: E
Splicing factor 3B subunit 4 Chain: F
G-patch domain and KOW motifs-containing protein Chain: G
Splicing factor 3A subunit 1 Chain: H
Splicing factor 3A subunit 2 Chain: I
Splicing factor 3A subunit 3 Chain: J
Pre-mRNA-processing factor 19 Chains: K, M, R, v
BUD13 homolog Chain: L
Pre-mRNA-splicing factor ATP-dependent RNA helicase DHX16 Chain: N
Pleiotropic regulator 1 Chain: O
Cell division cycle 5-like protein Chain: P
Spliceosome-associated protein CWC15 homolog Chain: Q
Pre-mRNA-splicing factor SPF27 Chain: S
Protein BUD31 homolog Chain: T
Pre-mRNA-splicing factor RBM22 Chain: U
Peptidyl-prolyl cis-trans isomerase-like 4 Chain: V
Pre-mRNA-splicing factor CWC22 homolog Chain: W
Crooked neck-like protein 1 Chain: X
SNW domain-containing protein 1 Chain: Y
E3 ubiquitin-protein ligase RNF113A Chain: Z
Pre-mRNA-processing-splicing factor 8 Chain: a
116 kDa U5 small nuclear ribonucleoprotein component Chain: b
U5 small nuclear ribonucleoprotein 200 kDa helicase Chain: c
U5 small nuclear ribonucleoprotein 40 kDa protein Chain: o
Peptidyl-prolyl cis-trans isomerase-like 1 Chain: p
Serine/arginine repetitive matrix protein 2 Chain: q
U2 small nuclear ribonucleoprotein A' Chain: r
U2 small nuclear ribonucleoprotein B'' Chain: s
Pre-mRNA-splicing factor ISY1 homolog Chain: t
RING-type E3 ubiquitin-protein ligase PPIL2 Chain: u
Peptidyl-prolyl cis-trans isomerase E Chain: w
Pre-mRNA-processing factor 17 Chain: x
RNA helicase aquarius Chain: y
Pre-mRNA-splicing factor SYF1 Chain: z
RNU6-1 Chain: d
RNU5A-1 Chain: e
RNU2-1 Chain: f
MINX-M3 Chain: g

Ligands and Environments

No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this EM entry.
Resolution: 5.9Å
Relevant EMDB volumes: EMD-16658