5LJ5: Overall structure of the yeast spliceosome immediately after branching

PDB ID: 5LJ5Download
MMDB ID: 142692
PDB Deposition Date: 2016/7/17
Updated in MMDB: 2019/12
Experimental Method:
electron microscopy
Resolution: 10  Å
Source Organism:
Similar Structures:
Biological Unit for 5LJ5: 45-meric; determined by author
Molecular Components in 5LJ5
Label Count Molecule
Proteins (40 molecules)
1
Pre-mrna-splicing Factor 8
(Gene symbol: PRP8)
Molecule annotation
1
Pre-mrna-splicing Helicase Brr2
(Gene symbol: BRR2)
Molecule annotation
1
Protein Cwc16
(Gene symbol: YJU2)
Molecule annotation
1
Pre-mrna-splicing Factor Cwc25
(Gene symbol: CWC25)
Molecule annotation
1
Pre-mrna-splicing Factor Snu114
(Gene symbol: SNU114)
Molecule annotation
1
Pre-mrna-splicing Factor Isy1
(Gene symbol: ISY1)
Molecule annotation
1
Cwc22
Molecule annotation
1
Pre-mrna-splicing Factor Prp46
(Gene symbol: PRP46)
Molecule annotation
1
Pre-mrna-processing Protein 45
(Gene symbol: PRP45)
Molecule annotation
1
Pre-mrna-splicing Factor Bud31
(Gene symbol: BUD31)
Molecule annotation
1
Pre-mrna-splicing Factor Cwc2
(Gene symbol: CWC2)
Molecule annotation
1
Pre-mrna-splicing Factor Slt11
(Gene symbol: ECM2)
Molecule annotation
1
Pre-mrna-splicing Factor Cef1
(Gene symbol: CEF1)
Molecule annotation
1
Cwc15
Molecule annotation
1
Pre-mrna-splicing Factor Cwc21
(Gene symbol: CWC21)
Molecule annotation
1
Pre-mrna-splicing Factor Clf1
(Gene symbol: CLF1)
Molecule annotation
1
Pre-mrna-splicing Factor Syf1
(Gene symbol: SYF1)
Molecule annotation
2
Small Nuclear Ribonucleoprotein-associated Protein B
(Gene symbol: SMB1)
Molecule annotation
2
Small Nuclear Ribonucleoprotein SM D3
(Gene symbol: SMD3)
Molecule annotation
2
Small Nuclear Ribonucleoprotein E
(Gene symbol: SME1)
Molecule annotation
2
Small Nuclear Ribonucleoprotein F
(Gene symbol: SMX3)
Molecule annotation
2
Small Nuclear Ribonucleoprotein G
(Gene symbol: SMX2)
Molecule annotation
2
Small Nuclear Ribonucleoprotein SM D1
(Gene symbol: SMD1)
Molecule annotation
2
Small Nuclear Ribonucleoprotein SM D2
(Gene symbol: SMD2)
Molecule annotation
1
U2 Small Nuclear Ribonucleoprotein A'
(Gene symbol: LEA1)
Molecule annotation
1
U2 Small Nuclear Ribonucleoprotein B''
(Gene symbol: MSL1)
Molecule annotation
1
Pre-mrna-splicing Factor Atp-dependent RNA Helicase Prp16
(Gene symbol: PRP16)
Molecule annotation
4
Pre-mrna-processing Factor 19
(Gene symbol: PRP19)
Molecule annotation
1
Pre-mrna-splicing Factor Snt309
(Gene symbol: SNT309)
Molecule annotation
1
Unknown
Molecule annotation
Nucleotides(5 molecules)
1
U5 Snrna (Small Nuclear Rna)
Molecule annotation
1
Exon 1 (5' Exon) of Ubc4 Pre-mrna
Molecule annotation
1
Intron of Ubc4 Pre-mrna
Molecule annotation
1
U2 Snrna (Small Nuclear Rna)
Molecule annotation
1
U6 Snrna (Small Nuclear Rna)
Molecule annotation
Chemicals and Non-standard biopolymers (10 molecules)
1
2
MAGNESIUM ION (Link to PubChem not yet available)MAGNESIUM ION
2
7
ZINC ION (Link to PubChem not yet available)ZINC ION
3
1
GUANOSINE-5'-TRIPHOSPHATE (Link to PubChem not yet available)GUANOSINE-5'-TRIPHOSPHATE
* Click molecule labels to explore molecular sequence information.
Citing MMDB
Madej T, Lanczycki CJ, Zhang D, Thiessen PA, Geer RC, Marchler-Bauer A, Bryant SH. " MMDB and VAST+: tracking structural similarities between macromolecular complexes. Nucleic Acids Res. 2014 Jan; 42(Database issue):D297-303