Modomics - A Database of RNA Modifications

ID Card:

Full name: Ribosomal large subunit pseudouridine synthase B
GI: 251757325
Orf: ypul
COG: COG1187
UniProt: P35159
Alpha Fold Predicted Structure: AF-P35159-F1
Enzyme type: pseudouridine synthase
Position of modification - modification: l:2633(2604) - Y



Protein sequence:

MERLQKVIAHAGVASRRKAEELIKEGKVKVNGKVVTELGVKVTGSDQIEVNGLKVEREEPVYFLLYKPRGVISAAQDDKGRKVVTDFFKNIPQRIYPIGRLDYDTSGLLLLTNDGEFANKLMHPKYEIDKTYVAKVKGIPPKELLRKLERGIRLEEGKTAPAKAKLLSLDKKKQTSIIQLTIHEGRNRQVRRMFEAIGHEVIKLKREEYAFLNLRGLHTGDARELTPHEVKRLRALADHGKNAF

Comments:

When tested in a heterologous in vitro system, purified recombinant B. subtilis RluB (YpuL) produces pseudouridine at position 552 in E.coli 16S rRNA and at positions 1199, 2605, and 2833 in E. coli 23S rRNA. Of these, only pseudouridine at position 2605 (position 2633 in B. subtilis 23S rRNA) is found naturally in 23S rRNA of both B. subtilis and E. coli. For this reason, B. subtilis RluB has been considered as the homolog of E. coli RluB. Notice, though B. subtilis RluB displays 41% sequence similarity with E.coli RsuA (Y516), it does not catalyze the pseudouridine formation at the conserved U in B. subtilis 23S rRNA corresponding to Y516 in E. coli 23S rRNA. Therefore, at variance with site-specific E. coli RluB (Y2605), the B. subtilis homolog displays an in vitro multi-site specificity at other sites than those normally modified in rRNA of E. coli. The in vivo specificity of B. subtilis RluB has not yet been experimentally verified (March 2012).




Reaction Substrate SubstrateType Position (Anti)Codon Modified (Anti)Codon Amino Acid Change Transcript Name Transcript Region Cellular Localization References
U:Y RNA rRNA 2633 LSU-23S Prokaryotic Cytosol 9888802   

Alpha Fold Predicted Structure:






Clear Selection and Reset Camera

Protein sequence:

M E R L Q K V I A H A G V A S R R K A E E L I K E G K V K V N G K V V T E L G V K V T G S D Q I E V N G L K V E R E E P V Y F L L Y K P R G V I S A A Q D D K G R K V V T D F F K N I P Q R I Y P I G R L D Y D T S G L L L L T N D G E F A N K L M H P K Y E I D K T Y V A K V K G I P P K E L L R K L E R G I R L E E G K T A P A K A K L L S L D K K K Q T S I I Q L T I H E G R N R Q V R R M F E A I G H E V I K L K R E E Y A F L N L R G L H T G D A R E L T P H E V K R L R A L A D H G K N A F

Secondary Structure Alphabet

  • G: 3-turn helix (310helix)
  • H: α-helix
  • I: 𝝅-helix (5 - turn helix)
  • T: Hydrogen Bonded Turn
  • B: β-sheet
  • S: Bend
  • C: Coil (residues not present in any of the above conformations)
  • N: Not assigned

Download PDB Structures & DSSP Secondary Structures:

Alpha Fold Pdb Files   AF-P35159-F1.pdb  
Alpha Fold Pdbx/mmCIF Files   AF-P35159-F1.cif  
DSSP Secondary Structures   P35159.dssp  





Publications:

Title Authors Journal Details PubMed Id DOI
Cloning and characterization of the 23S RNA pseudouridine 2633 synthase from Bacillus subtilis. Niu L, Lane BG, Ofengand J Biochemistry [details] 9888802 -

Links:

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