EMD-8011
Foot region of the yeast spliceosomal U4/U6.U5 tri-snRNP
EMD-8011
Single-particle3.7 Å
Deposition: 15/12/2015
Map released: 03/02/2016
Last modified: 02/10/2019
Name: Foot region of the yeast spliceosomal U4/U6.U5 tri-snRNP
Summary:
- Complex
- RNA
- Protein
- Pre-mRNA-splicing factor 8
- Pre-mRNA-splicing factor SNU114
- Small nuclear ribonucleoprotein-associated protein B
- Small nuclear ribonucleoprotein E
- Small nuclear ribonucleoprotein F
- Small nuclear ribonucleoprotein G
- Unknown polypeptide
- Small nuclear ribonucleoprotein Sm D3
- Small nuclear ribonucleoprotein Sm D1
- Small nuclear ribonucleoprotein Sm D2
- Ligand
Foot region of the yeast spliceosomal U4/U6.U5 tri-snRNP
Name: Natural source [1]
Molecular weight
Experimental | Theoretical | Method |
---|---|---|
- | 350 kDa | - |
Complex Portal [1]
ID | Name | Overlap |
---|---|---|
CPX-30 | U5 small nuclear ribonucleoprotein complex, AAR2 variant | 0.90 |
U5 snRNA
Number of copies: 1
Details: Short form of U5 snRNA (179 nt)
Name: Number of copies: 1
Details: Short form of U5 snRNA (179 nt)
Natural source
Molecular weight
Experimental | Theoretical | Method |
---|---|---|
- | 57 kDa | - |
U6 snRNA, 5' end
Number of copies: 1
Details: The 5' end 31 nucleotides of U6 snRNA
Name: Number of copies: 1
Details: The 5' end 31 nucleotides of U6 snRNA
Natural source
Molecular weight
Experimental | Theoretical | Method |
---|---|---|
- | 9 kDa | - |
Pre-mRNA-splicing factor 8
Number of copies: 1
UniProtKB PDBe-KB AlphaFold DB
Name: Number of copies: 1
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [2]
Natural source
Molecular weight
Experimental | Theoretical | Method |
---|---|---|
- | 85 kDa | - |
Pre-mRNA-splicing factor SNU114
Number of copies: 1
Details: Full length Snu114
UniProtKB PDBe-KB AlphaFold DB
Name: Number of copies: 1
Details: Full length Snu114
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [17]
Biological process:
spliceosomal snRNP assembly generation of catalytic spliceosome for first transesterification step spliceosome conformational change to release U4 (or U4atac) and U1 (or U11) spliceosomal tri-snRNP complex assembly mRNA splicing, via spliceosome
Molecular function:
translation elongation factor activity GTP binding GTPase activity U5 snRNA binding
Cellular location:
cytosol spliceosomal complex cytoplasm U4/U6 x U5 tri-snRNP complex U5 snRNP U2-type catalytic step 2 spliceosome ribonucleoprotein complex nucleus
spliceosomal snRNP assembly generation of catalytic spliceosome for first transesterification step spliceosome conformational change to release U4 (or U4atac) and U1 (or U11) spliceosomal tri-snRNP complex assembly mRNA splicing, via spliceosome
Molecular function:
translation elongation factor activity GTP binding GTPase activity U5 snRNA binding
Cellular location:
cytosol spliceosomal complex cytoplasm U4/U6 x U5 tri-snRNP complex U5 snRNP U2-type catalytic step 2 spliceosome ribonucleoprotein complex nucleus
Natural source
Molecular weight
Experimental | Theoretical | Method |
---|---|---|
- | 114 kDa | - |
Small nuclear ribonucleoprotein-associated protein B
Number of copies: 1
Details: The SmB protein from the U5 snRNP Sm protein ring.
UniProtKB PDBe-KB AlphaFold DB
Name: Number of copies: 1
Details: The SmB protein from the U5 snRNP Sm protein ring.
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [19]
Biological process:
U2-type prespliceosome assembly spliceosomal complex assembly mRNA 5'-splice site recognition spliceosomal snRNP assembly 7-methylguanosine cap hypermethylation mRNA splicing, via spliceosome
Molecular function:
RNA binding
Cellular location:
spliceosomal complex U4/U6 snRNP nucleus commitment complex catalytic step 2 spliceosome U2-type prespliceosome U5 snRNP U4 snRNP U4/U6 x U5 tri-snRNP complex U1 snRNP U2 snRNP cytoplasm
U2-type prespliceosome assembly spliceosomal complex assembly mRNA 5'-splice site recognition spliceosomal snRNP assembly 7-methylguanosine cap hypermethylation mRNA splicing, via spliceosome
Molecular function:
RNA binding
Cellular location:
spliceosomal complex U4/U6 snRNP nucleus commitment complex catalytic step 2 spliceosome U2-type prespliceosome U5 snRNP U4 snRNP U4/U6 x U5 tri-snRNP complex U1 snRNP U2 snRNP cytoplasm
Natural source
Molecular weight
Experimental | Theoretical | Method |
---|---|---|
- | 22 kDa | - |
Small nuclear ribonucleoprotein E
Number of copies: 1
Details: The SmE protein from the U5 snRNP Sm protein ring.
UniProtKB PDBe-KB AlphaFold DB
Name: Number of copies: 1
Details: The SmE protein from the U5 snRNP Sm protein ring.
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [21]
Biological process:
spliceosomal complex assembly mRNA 5'-splice site recognition U2-type prespliceosome assembly 7-methylguanosine cap hypermethylation spliceosomal snRNP assembly mRNA splicing, via spliceosome
Molecular function:
RNA binding splicing factor binding
Cellular location:
U1 snRNP pICln-Sm protein complex commitment complex spliceosomal complex nucleus U4/U6 snRNP U5 snRNP U4 snRNP precatalytic spliceosome U2 snRNP U4/U6 x U5 tri-snRNP complex cytoplasm U2-type prespliceosome
spliceosomal complex assembly mRNA 5'-splice site recognition U2-type prespliceosome assembly 7-methylguanosine cap hypermethylation spliceosomal snRNP assembly mRNA splicing, via spliceosome
Molecular function:
RNA binding splicing factor binding
Cellular location:
U1 snRNP pICln-Sm protein complex commitment complex spliceosomal complex nucleus U4/U6 snRNP U5 snRNP U4 snRNP precatalytic spliceosome U2 snRNP U4/U6 x U5 tri-snRNP complex cytoplasm U2-type prespliceosome
Natural source
Molecular weight
Experimental | Theoretical | Method |
---|---|---|
- | 10 kDa | - |
Small nuclear ribonucleoprotein F
Number of copies: 1
Details: The SmF protein from the U5 snRNP Sm protein ring.
UniProtKB PDBe-KB AlphaFold DB
Name: Number of copies: 1
Details: The SmF protein from the U5 snRNP Sm protein ring.
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [21]
Biological process:
mRNA 5'-splice site recognition U2-type prespliceosome assembly spliceosomal complex assembly 7-methylguanosine cap hypermethylation mRNA splicing, via spliceosome spliceosomal snRNP assembly
Molecular function:
splicing factor binding RNA binding poly(U) RNA binding
Cellular location:
pICln-Sm protein complex spliceosomal complex U4/U6 snRNP U4 snRNP commitment complex nucleus cytoplasm U4/U6 x U5 tri-snRNP complex U2 snRNP catalytic step 2 spliceosome U1 snRNP U5 snRNP
mRNA 5'-splice site recognition U2-type prespliceosome assembly spliceosomal complex assembly 7-methylguanosine cap hypermethylation mRNA splicing, via spliceosome spliceosomal snRNP assembly
Molecular function:
splicing factor binding RNA binding poly(U) RNA binding
Cellular location:
pICln-Sm protein complex spliceosomal complex U4/U6 snRNP U4 snRNP commitment complex nucleus cytoplasm U4/U6 x U5 tri-snRNP complex U2 snRNP catalytic step 2 spliceosome U1 snRNP U5 snRNP
Natural source
Molecular weight
Experimental | Theoretical | Method |
---|---|---|
- | 9 kDa | - |
Small nuclear ribonucleoprotein G
Number of copies: 1
Details: The SmG protein from the U5 snRNP Sm protein ring.
UniProtKB PDBe-KB AlphaFold DB
Name: Number of copies: 1
Details: The SmG protein from the U5 snRNP Sm protein ring.
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [24]
Biological process:
U2-type prespliceosome assembly spliceosomal complex assembly mRNA 5'-splice site recognition mRNA splicing, via spliceosome 7-methylguanosine cap hypermethylation spliceosomal snRNP assembly
Molecular function:
RNA binding
Cellular location:
spliceosomal complex nucleus U4/U6 snRNP commitment complex cytoplasm U2-type prespliceosome spliceosomal tri-snRNP complex U4 snRNP catalytic step 2 spliceosome U4/U6 x U5 tri-snRNP complex U12-type spliceosomal complex U1 snRNP SMN-Sm protein complex U5 snRNP ribonucleoprotein complex U2 snRNP precatalytic spliceosome
U2-type prespliceosome assembly spliceosomal complex assembly mRNA 5'-splice site recognition mRNA splicing, via spliceosome 7-methylguanosine cap hypermethylation spliceosomal snRNP assembly
Molecular function:
RNA binding
Cellular location:
spliceosomal complex nucleus U4/U6 snRNP commitment complex cytoplasm U2-type prespliceosome spliceosomal tri-snRNP complex U4 snRNP catalytic step 2 spliceosome U4/U6 x U5 tri-snRNP complex U12-type spliceosomal complex U1 snRNP SMN-Sm protein complex U5 snRNP ribonucleoprotein complex U2 snRNP precatalytic spliceosome
Natural source
Molecular weight
Experimental | Theoretical | Method |
---|---|---|
- | 8 kDa | - |
Unknown polypeptide
Number of copies: 1
Name: Number of copies: 1
Natural source
Molecular weight
Experimental | Theoretical | Method |
---|---|---|
- | 1 kDa | - |
Small nuclear ribonucleoprotein Sm D3
Number of copies: 1
Details: The SmD3 protein from the U5 snRNP Sm protein ring.
UniProtKB PDBe-KB AlphaFold DB
Name: Number of copies: 1
Details: The SmD3 protein from the U5 snRNP Sm protein ring.
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [26]
Biological process:
spliceosomal complex assembly U2-type prespliceosome assembly mRNA 5'-splice site recognition 7-methylguanosine cap hypermethylation mRNA splicing, via spliceosome spliceosomal snRNP assembly
Molecular function:
RNA binding mRNA binding
Cellular location:
U4/U6 snRNP cytoplasm nucleus spliceosomal complex U4 snRNP commitment complex catalytic step 2 spliceosome U1 snRNP U12-type spliceosomal complex SMN-Sm protein complex U5 snRNP cytosol precatalytic spliceosome U2-type prespliceosome pICln-Sm protein complex spliceosomal tri-snRNP complex U4/U6 x U5 tri-snRNP complex U2 snRNP
spliceosomal complex assembly U2-type prespliceosome assembly mRNA 5'-splice site recognition 7-methylguanosine cap hypermethylation mRNA splicing, via spliceosome spliceosomal snRNP assembly
Molecular function:
RNA binding mRNA binding
Cellular location:
U4/U6 snRNP cytoplasm nucleus spliceosomal complex U4 snRNP commitment complex catalytic step 2 spliceosome U1 snRNP U12-type spliceosomal complex SMN-Sm protein complex U5 snRNP cytosol precatalytic spliceosome U2-type prespliceosome pICln-Sm protein complex spliceosomal tri-snRNP complex U4/U6 x U5 tri-snRNP complex U2 snRNP
Natural source
Molecular weight
Experimental | Theoretical | Method |
---|---|---|
- | 11 kDa | - |
Small nuclear ribonucleoprotein Sm D1
Number of copies: 1
Details: The SmD1 protein from the U5 snRNP Sm protein ring.
UniProtKB PDBe-KB AlphaFold DB
Name: Number of copies: 1
Details: The SmD1 protein from the U5 snRNP Sm protein ring.
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [27]
Biological process:
U2-type prespliceosome assembly mRNA 5'-splice site recognition spliceosomal complex assembly mRNA splicing, via spliceosome spliceosomal snRNP assembly 7-methylguanosine cap hypermethylation
Molecular function:
RNA binding mRNA binding
Cellular location:
U4/U6 snRNP spliceosomal complex cytoplasm U2-type prespliceosome U1 snRNP nucleus precatalytic spliceosome small nuclear ribonucleoprotein complex U4 snRNP catalytic step 2 spliceosome commitment complex spliceosomal tri-snRNP complex SMN-Sm protein complex U12-type spliceosomal complex pICln-Sm protein complex U4/U6 x U5 tri-snRNP complex cytosol U5 snRNP U2 snRNP
U2-type prespliceosome assembly mRNA 5'-splice site recognition spliceosomal complex assembly mRNA splicing, via spliceosome spliceosomal snRNP assembly 7-methylguanosine cap hypermethylation
Molecular function:
RNA binding mRNA binding
Cellular location:
U4/U6 snRNP spliceosomal complex cytoplasm U2-type prespliceosome U1 snRNP nucleus precatalytic spliceosome small nuclear ribonucleoprotein complex U4 snRNP catalytic step 2 spliceosome commitment complex spliceosomal tri-snRNP complex SMN-Sm protein complex U12-type spliceosomal complex pICln-Sm protein complex U4/U6 x U5 tri-snRNP complex cytosol U5 snRNP U2 snRNP
Natural source
Molecular weight
Experimental | Theoretical | Method |
---|---|---|
- | 16 kDa | - |
Small nuclear ribonucleoprotein Sm D2
Number of copies: 1
Details: The SmD2 protein from the U5 snRNP Sm protein ring.
UniProtKB PDBe-KB AlphaFold DB
Name: Number of copies: 1
Details: The SmD2 protein from the U5 snRNP Sm protein ring.
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [22]
Biological process:
spliceosomal complex assembly mRNA 5'-splice site recognition U2-type prespliceosome assembly spliceosomal snRNP assembly 7-methylguanosine cap hypermethylation mRNA splicing, via spliceosome
Molecular function:
RNA binding
Cellular location:
pICln-Sm protein complex cytoplasm U4/U6 snRNP U4 snRNP commitment complex nucleus spliceosomal complex U5 snRNP U2 snRNP catalytic step 2 spliceosome U1 snRNP U4/U6 x U5 tri-snRNP complex precatalytic spliceosome U2-type prespliceosome cytosol
spliceosomal complex assembly mRNA 5'-splice site recognition U2-type prespliceosome assembly spliceosomal snRNP assembly 7-methylguanosine cap hypermethylation mRNA splicing, via spliceosome
Molecular function:
RNA binding
Cellular location:
pICln-Sm protein complex cytoplasm U4/U6 snRNP U4 snRNP commitment complex nucleus spliceosomal complex U5 snRNP U2 snRNP catalytic step 2 spliceosome U1 snRNP U4/U6 x U5 tri-snRNP complex precatalytic spliceosome U2-type prespliceosome cytosol
Natural source
Molecular weight
Experimental | Theoretical | Method |
---|---|---|
- | 12 kDa | - |
GUANOSINE-5'-TRIPHOSPHATE
HET code: GTP
Number of copies: 1
ChEMBL ChEBI DrugBank
Name: HET code: GTP
Number of copies: 1
ChEMBL ChEBI DrugBank
Molecular weight
Experimental | Theoretical | Method |
---|---|---|
- | 523 Da | - |