8XI2 image
Entry Detail
PDB ID:
8XI2
EMDB ID:
Keywords:
Title:
Cryo-EM structure of the Chlamydomonas C* complex
Biological Source:
Source Organism:
PDB Version:
Deposition Date:
2023-12-19
Release Date:
2024-10-09
Method Details:
Experimental Method:
Resolution:
2.60 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polyribonucleotide
Description:RNA (173-mer)
Chain IDs:HA (auth: 3)
Chain Length:173
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
Polymer Type:polyribonucleotide
Description:RNA (5'-R(P*CP*CP*GP*AP*AP*CP*G)-3')
Chain IDs:GA (auth: 5)
Chain Length:7
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
Polymer Type:polypeptide(L)
Description:MPN domain-containing protein
Chain IDs:A
Chain Length:127
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
Polymer Type:polyribonucleotide
Description:U5 snRNA
Chain IDs:B
Chain Length:265
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
Polymer Type:polypeptide(L)
Description:Elongation factor Tu, chloroplastic
Chain IDs:C
Chain Length:989
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
Polymer Type:polypeptide(L)
Description:U5-40K
Chain IDs:D (auth: E)
Chain Length:87
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
Polymer Type:polyribonucleotide
Description:U6 snRNA
Chain IDs:E (auth: F)
Chain Length:85
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
Polymer Type:polyribonucleotide
Description:U2 snRNA
Chain IDs:Y (auth: H)
Chain Length:192
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
Polymer Type:polypeptide(L)
Description:Syf1
Chain IDs:Q (auth: I)
Chain Length:925
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
Polymer Type:polypeptide(L)
Description:Crooked neck protein
Chain IDs:R (auth: J)
Chain Length:835
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
Polymer Type:polypeptide(L)
Description:Pre-mRNA-splicing factor SPF27
Chain IDs:CA (auth: K)
Chain Length:303
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
Polymer Type:polypeptide(L)
Description:Cdc5L
Chain IDs:BA (auth: L)
Chain Length:833
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
Polymer Type:polypeptide(L)
Description:PPIase cyclophilin-type domain-containing protein
Chain IDs:T (auth: M)
Chain Length:563
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
Polymer Type:polypeptide(L)
Description:G10 protein
Chain IDs:W (auth: N)
Chain Length:233
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
Polymer Type:polypeptide(L)
Description:Rbm22
Chain IDs:V (auth: O)
Chain Length:417
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
Polymer Type:polypeptide(L)
Description:Cwf15/Cwc15 cell cycle control protein
Chain IDs:S (auth: P)
Chain Length:235
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
Polymer Type:polypeptide(L)
Description:Intron-binding protein aquarius
Chain IDs:FA (auth: Q)
Chain Length:503
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
Polymer Type:polypeptide(L)
Description:SKI-interacting protein SKIP SNW domain-containing protein
Chain IDs:X (auth: R)
Chain Length:684
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
Polymer Type:polypeptide(L)
Description:Peptidyl-prolyl cis-trans isomerase
Chain IDs:Z (auth: S)
Chain Length:157
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
Polymer Type:polypeptide(L)
Description:PLRG1
Chain IDs:U (auth: T)
Chain Length:518
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
Polymer Type:polypeptide(L)
Description:CWF21 domain-containing protein
Chain IDs:DA (auth: U)
Chain Length:721
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
Polymer Type:polypeptide(L)
Description:MI domain-containing protein
Chain IDs:EA (auth: V)
Chain Length:928
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
Polymer Type:polypeptide(L)
Description:Prp17
Chain IDs:AA (auth: W)
Chain Length:576
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
Polymer Type:polypeptide(L)
Description:Small nuclear ribonucleoprotein Sm D3
Chain IDs:J (auth: a)
Chain Length:127
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
Polymer Type:polypeptide(L)
Description:Sm domain-containing protein
Chain IDs:P (auth: b)
Chain Length:265
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
Polymer Type:polypeptide(L)
Description:Small nuclear ribonucleoprotein Sm D1
Chain IDs:O (auth: c)
Chain Length:989
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
Polymer Type:polypeptide(L)
Description:Small nuclear ribonucleoprotein Sm D2
Chain IDs:N (auth: d)
Chain Length:110
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
Polymer Type:polypeptide(L)
Description:Small nuclear ribonucleoprotein E
Chain IDs:L (auth: e)
Chain Length:87
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
Polymer Type:polypeptide(L)
Description:Sm protein F
Chain IDs:M (auth: f)
Chain Length:85
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
Polymer Type:polypeptide(L)
Description:Small nuclear ribonucleoprotein G
Chain IDs:K (auth: g)
Chain Length:77
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
Polymer Type:polypeptide(L)
Description:Pre-mRNA-processing factor 19
Chain IDs:F (auth: q), G (auth: r), H (auth: s), I (auth: t)
Chain Length:503
Number of Molecules:4
Biological Source:Chlamydomonas reinhardtii
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
SEP X SER modified residue
Primary Citation
Structure of a step II catalytically activated spliceosome from Chlamydomonas reinhardtii.
Embo J. 44 975 990 (2025)
PMID: 39415054 DOI: 10.1038/s44318-024-00274-3

Abstact

Pre-mRNA splicing, a fundamental step in eukaryotic gene expression, is executed by the spliceosomes. While there is extensive knowledge of the composition and structure of spliceosomes in yeasts and humans, the structural diversity of spliceosomes in non-canonical organisms remains unclear. Here, we present a cryo-EM structure of a step II catalytically activated spliceosome (C* complex) derived from the unicellular green alga Chlamydomonas reinhardtii at 2.6 Å resolution. This Chlamydomonas C* complex comprises 29 proteins and four RNA elements, creating a dynamic assembly that shares a similar overall architecture with yeast and human counterparts but also has unique features of its own. Distinctive structural characteristics include variations in protein compositions as well as some noteworthy RNA features. The splicing factor Prp17, with four fragments and a WD40 domain, is engaged in intricate interactions with multiple protein and RNA components. The structural elucidation of Chlamydomonas C* complex provides insights into the molecular mechanism of RNA splicing in plants and understanding splicing evolution in eukaryotes.

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Primary Citation of related structures