8Q7X image
Deposition Date 2023-08-17
Release Date 2024-04-17
Last Version Date 2024-05-29
Entry Detail
PDB ID:
8Q7X
Keywords:
SPLICING
Title:
Structure of the recycling U5 snRNP bound to chaperone CD2BP2 (State 4)
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Host Organism:
Homo sapiens
Method Details:
Experimental Method:
ELECTRON MICROSCOPY
Resolution:
4.60 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
8Q7X validation report
Macromolecular Entities
Polymer Type:polyribonucleotide
Molecule:U5 snRNA
Chain IDs:A (auth: 5)
Chain Length:117
Number of Molecules:1
Biological Source:Homo sapiens
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Pre-mRNA-processing-splicing factor 8
Gene (Uniprot):PRPF8
Chain IDs:B (auth: A)
Chain Length:2335
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q6P2Q9 Pfam ID:PF08082, PF08083, PF10598, PF10597, PF10596, PF12134, PF01398, PF08084
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U5 small nuclear ribonucleoprotein 200 kDa helicase
Gene (Uniprot):SNRNP200
Chain IDs:C (auth: B)
Chain Length:240
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:O75643 Pfam ID:PF21188, PF18149, PF00270, PF00271, PF02889 EC:3.6.4.13
Protein Blast
Polymer Type:polypeptide(L)
Molecule:116 kDa U5 small nuclear ribonucleoprotein component
Gene (Uniprot):EFTUD2
Chain IDs:D (auth: C)
Chain Length:118
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q15029 Pfam ID:PF16004, PF00009, PF03144, PF14492, PF03764, PF00679
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U5 small nuclear ribonucleoprotein 40 kDa protein
Gene (Uniprot):SNRNP40
Chain IDs:E (auth: D)
Chain Length:126
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q96DI7 Pfam ID:PF00400
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Probable ATP-dependent RNA helicase DDX23
Gene (Uniprot):DDX23
Chain IDs:F (auth: E)
Chain Length:92
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9BUQ8 Pfam ID:PF00270, PF00271
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Pre-mRNA-processing factor 6
Gene (Uniprot):PRPF6
Chain IDs:G (auth: F)
Chain Length:86
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:O94906 Pfam ID:PF06424, PF14559, PF13432
Protein Blast
Polymer Type:polypeptide(L)
Molecule:CD2 antigen cytoplasmic tail-binding protein 2
Gene (Uniprot):CD2BP2
Chain IDs:H (auth: G)
Chain Length:343
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:O95400 Pfam ID:PF02213
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small nuclear ribonucleoprotein Sm D1
Gene (Uniprot):SNRPD1
Chain IDs:I (auth: a)
Chain Length:2335
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P62314 Pfam ID:PF01423
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small nuclear ribonucleoprotein-associated proteins B and B'
Gene (Uniprot):SNRPB
Chain IDs:J (auth: b)
Chain Length:240
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P14678 Pfam ID:PF01423
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small nuclear ribonucleoprotein Sm D2
Gene (Uniprot):SNRPD2
Chain IDs:K (auth: c)
Chain Length:118
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P62316 Pfam ID:PF01423
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small nuclear ribonucleoprotein Sm D3
Gene (Uniprot):SNRPD3
Chain IDs:L (auth: d)
Chain Length:126
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P62318 Pfam ID:PF01423
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small nuclear ribonucleoprotein E
Gene (Uniprot):SNRPE
Chain IDs:M (auth: e)
Chain Length:92
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P62304 Pfam ID:PF01423
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small nuclear ribonucleoprotein F
Gene (Uniprot):SNRPF
Chain IDs:N (auth: f)
Chain Length:86
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P62306 Pfam ID:PF01423
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small nuclear ribonucleoprotein G
Gene (Uniprot):SNRPG
Chain IDs:O (auth: g)
Chain Length:343
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P62308 Pfam ID:PF01423
Ligand Molecules
GTP
MG
Primary Citation
Structural basis of human U5 snRNP late biogenesis and recycling.
Nat.Struct.Mol.Biol. 31 747 751 (2024)
PMID: 38467876 DOI: 10.1038/s41594-024-01243-4

Abstact

Pre-mRNA splicing by the spliceosome requires the biogenesis and recycling of its small nuclear ribonucleoprotein (snRNP) complexes, which are consumed in each round of splicing. The human U5 snRNP is the ~1 MDa 'heart' of the spliceosome and is recycled through an unknown mechanism involving major architectural rearrangements and the dedicated chaperones CD2BP2 and TSSC4. Late steps in U5 snRNP biogenesis similarly involve these chaperones. Here we report cryo-electron microscopy structures of four human U5 snRNP-CD2BP2-TSSC4 complexes, revealing how a series of molecular events primes the U5 snRNP to generate the ~2 MDa U4/U6.U5 tri-snRNP, the largest building block of the spliceosome.

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Disease

Primary Citation of related structures
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