5wlc

Electron Microscopy
3.8Å resolution

The complete structure of the small subunit processome

Released:
Primary publication:
The complete structure of the small-subunit processome.
Nat Struct Mol Biol 24 944-953 (2017)
PMID: 28945246
Related structures: EMD-8859

Function and Biology Details

Reaction catalysed:
S-adenosyl-L-methionine + pseudouridine(1191) in yeast 18S rRNA = S-adenosyl-L-homocysteine + N(1)-methylpseudouridine(1191) in yeast 18S rRNA 
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
hetero 70-mer (preferred)
PDBe Complex ID:
PDB-CPX-285062 (preferred)
Entry contents:
63 distinct polypeptide molecules
3 distinct RNA molecules
Macromolecules (66 distinct):
Small ribosomal subunit protein uS13A Chain: L3
Molecule details ›
Chain: L3
Length: 146 amino acids
Theoretical weight: 16.77 KDa
Source organism: Saccharomyces cerevisiae BY4741
Small ribosomal subunit protein eS4A Chain: L4
Molecule details ›
Chain: L4
Length: 261 amino acids
Theoretical weight: 29.47 KDa
Source organism: Saccharomyces cerevisiae BY4741
Rps5p Chain: L5
Small ribosomal subunit protein eS6A Chain: L6
Small ribosomal subunit protein eS7A Chain: L7
Small ribosomal subunit protein eS8A Chain: L8
Small ribosomal subunit protein uS4A Chain: L9
Small ribosomal subunit protein uS9A Chain: LC
Small ribosomal subunit protein uS17A Chain: LD
Small ribosomal subunit protein uS8A Chain: LE
Small ribosomal subunit protein eS24A Chain: LF
Small ribosomal subunit protein eS28A Chain: LG
NET1-associated nuclear protein 1 Chain: LH
U3 small nucleolar RNA-associated protein 8 Chain: LI
U3 small nucleolar RNA-associated protein 15 Chain: LJ
U3 small nucleolar RNA-associated protein 9 Chain: LK
U3 small nucleolar RNA-associated protein 5 Chain: LL
U3 small nucleolar RNA-associated protein 10 Chain: LM
U3 small nucleolar RNA-associated protein 4 Chain: LN
Periodic tryptophan protein 2 Chain: LO
U3 small nucleolar RNA-associated protein 6 Chain: LP
U3 small nucleolar RNA-associated protein 12 Chain: LQ
U3 small nucleolar RNA-associated protein 13 Chain: LR
U3 small nucleolar RNA-associated protein 18 Chain: LS
U3 small nucleolar RNA-associated protein 21 Chain: LT
Protein SOF1 Chain: LU
Ribosome biogenesis protein ENP2 Chain: LV
U3 small nucleolar RNA-associated protein 7 Chain: LW
RNA cytidine acetyltransferase Chains: LX, LY
U3 small nucleolar ribonucleoprotein protein IMP3 Chain: LZ
U3 small nucleolar RNA-associated protein MPP10 Chain: NA
Something about silencing protein 10 Chain: NB
U3 small nucleolar ribonucleoprotein protein LCP5 Chain: NC
U3 small nucleolar RNA-associated protein 16 Chain: ND
Protein FAF1 Chain: NE
Small ribosomal subunit protein uS15 Chain: NF
Small ribosomal subunit protein uS11A Chain: NG
U3 small nucleolar RNA-associated protein 22 Chain: NH
Ribosomal RNA-processing protein 7 Chain: NI
rRNA biogenesis protein RRP5 Chain: NJ
KRR1 small subunit processome component Chain: NK
Nucleolar protein 56 Chain: SA
Nucleolar protein 58 Chain: SB
rRNA 2'-O-methyltransferase fibrillarin Chains: SC, SD
13 kDa ribonucleoprotein-associated protein Chains: SE, SF
Ribosomal RNA-processing protein 9 Chain: SG
RNA 3'-terminal phosphate cyclase-like protein Chain: SH
Ribosome biogenesis protein BMS1 Chain: SI
Ribosomal RNA small subunit methyltransferase NEP1 Chains: SJ, SK
rRNA-processing protein FCF1 Chain: SL
U3 small nucleolar ribonucleoprotein protein IMP4 Chain: SM
Ribosome biogenesis protein UTP30 Chain: SN
Pre-rRNA-processing protein PNO1 Chain: SO
Utp20 Chain: SP
rRNA-processing protein FCF2 Chain: SQ
Small ribosomal subunit protein uS12A Chain: SR
U3 small nucleolar RNA-associated protein 14 Chain: SS
Nucleolar complex protein 14 Chain: ST
Nucleolar complex protein 4 Chain: SU
Regulator of rDNA transcription 14 Chain: SV
Unassigned peptides Chain: SX
U3 small nucleolar RNA-associated protein 11 Chain: SY
Essential nuclear protein 1 Chain: SZ
5' ETS Chain: L0
18S pre-rRNA Chain: L1
U3 snoRNA Chain: L2

Ligands and Environments

1 bound ligand:
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.8Å
Relevant EMDB volumes: EMD-8859