6ID0: Cryo-EM structure of a human intron lariat spliceosome prior to Prp43 loaded (ILS1 complex) at 2.9 angstrom resolution

PDB ID: 6ID0Download
MMDB ID: 173122
PDB Deposition Date: 2018/9/7
Updated in MMDB: 2022/11
Experimental Method:
electron microscopy
Resolution: 2.9  Å
Source Organism:
Similar Structures:
Biological Unit for 6ID0: 42-meric; determined by author
Molecular Components in 6ID0
Label Count Molecule
Proteins (38 molecules)
1
Pre-mrna-processing-splicing Factor 8
(Gene symbol: PRPF8)
Molecule annotation
1
116 KDA U5 Small Nuclear Ribonucleoprotein Component
(Gene symbol: EFTUD2)
Molecule annotation
1
U5 Small Nuclear Ribonucleoprotein 40 KDA Protein
(Gene symbol: SNRNP40)
Molecule annotation
1
Crooked Neck-like Protein 1
(Gene symbol: CRNKL1)
Molecule annotation
1
Cell Division Cycle 5-like Protein
(Gene symbol: CDC5L)
Molecule annotation
1
Pre-mrna-splicing Factor Syf2
(Gene symbol: SYF2)
Molecule annotation
1
Protein Bud31 Homolog
(Gene symbol: BUD31)
Molecule annotation
1
Pre-mrna-splicing Factor Rbm22
(Gene symbol: RBM22)
Molecule annotation
1
Spliceosome-associated Protein Cwc15 Homolog
(Gene symbol: CWC15)
Molecule annotation
1
SNW Domain-containing Protein 1
(Gene symbol: SNW1)
Molecule annotation
1
Peptidyl-prolyl Cis-trans Isomerase-like 1
(Gene symbol: PPIL1)
Molecule annotation
1
Pleiotropic Regulator 1
(Gene symbol: PLRG1)
Molecule annotation
1
Pre-mrna-processing Factor 17
(Gene symbol: CDC40)
Molecule annotation
1
Cwf19-like Protein 2
(Gene symbol: CWF19L2)
Molecule annotation
1
Pre-mrna-splicing Factor Syf1
(Gene symbol: XAB2)
Molecule annotation
2
Small Nuclear Ribonucleoprotein SM D3
(Gene symbol: SNRPD3)
Molecule annotation
2
Small Nuclear Ribonucleoprotein-associated Protein
Molecule annotation
2
Small Nuclear Ribonucleoprotein SM D1
(Gene symbol: SNRPD1)
Molecule annotation
2
Small Nuclear Ribonucleoprotein SM D2
(Gene symbol: SNRPD2)
Molecule annotation
2
Small Nuclear Ribonucleoprotein F
(Gene symbol: SNRPF)
Molecule annotation
2
Small Nuclear Ribonucleoprotein E
(Gene symbol: SNRPE)
Molecule annotation
2
Small Nuclear Ribonucleoprotein G
(Gene symbol: SNRPG)
Molecule annotation
4
Pre-mrna-processing Factor 19
(Gene symbol: PRPF19)
Molecule annotation
1
Pre-mrna-splicing Factor Spf27
(Gene symbol: BCAS2)
Molecule annotation
1
U2 Small Nuclear Ribonucleoprotein A'
(Gene symbol: SNRPA1)
Molecule annotation
1
U2 Small Nuclear Ribonucleoprotein B''
(Gene symbol: SNRPB2)
Molecule annotation
1
RNA Helicase Aquarius
(Gene symbol: AQR)
Molecule annotation
1
Peptidyl-prolyl Cis-trans Isomerase E
(Gene symbol: PPIE)
Molecule annotation
Nucleotides(4 molecules)
1
U5snrna
Molecule annotation
1
U6snrna
Molecule annotation
1
Pre-mrna
Molecule annotation
1
U2snrna
Molecule annotation
Chemicals and Non-standard biopolymers (16 molecules)
1
1
INOSITOL HEXAKISPHOSPHATE (Link to PubChem not yet available)INOSITOL HEXAKISPHOSPHATE
2
1
GUANOSINE-5'-TRIPHOSPHATE (Link to PubChem not yet available)GUANOSINE-5'-TRIPHOSPHATE
3
7
MAGNESIUM ION (Link to PubChem not yet available)MAGNESIUM ION
4
7
ZINC ION (Link to PubChem not yet available)ZINC ION
* 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