Modomics - A Database of RNA Modifications

ID Card:

Full name: Ribosomal large subunit pseudouridine synthase B
Synonym: YciL
GI: 1175678
Orf: yciL, b1269
COG: COG1187
UniProt: P37765
Alpha Fold Predicted Structure: AF-P37765-F1
Enzyme type: pseudouridine synthase
Position of modification - modification: l:2605(2605) - Y



Protein sequence:

MSEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRESAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTDGELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLRELVELPPETSSKVAVEKDRRRMKANQIRRAVKRHSQVSGGRRSGGRNNNG

Comments:

The site-specific RluB (formerly YciL) catalyzes the formation of pseudouridine at position 2605 in the stem of helix 93 in Domain V (Peptidyl Transferase Center) of 23S rRNA (pseudourodine at position 2604 is catalyzed by a different multi-site RNA pseudouridine synthase RluC). RluB (but not RluC) belongs to the same subgroup of RNA pseudouridine synthases as E. coli RluE and RluF.




Reaction Substrate SubstrateType Position (Anti)Codon Modified (Anti)Codon Amino Acid Change Transcript Name Transcript Region Cellular Localization References
U:Y RNA rRNA 2605 LSU-23S DOMAIN-V Prokaryotic Cytosol 11720289   

Alpha Fold Predicted Structure:






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Protein sequence:

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

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-P37765-F1.pdb  
Alpha Fold Pdbx/mmCIF Files   AF-P37765-F1.cif  
DSSP Secondary Structures   P37765.dssp  





Publications:

Title Authors Journal Details PubMed Id DOI
Identification and site of action of the remaining four putative pseudouridine synthases in Escherichia coli. Del Campo M, Kaya Y, Ofengand J RNA [details] 11720289 -
Pseudouridines and pseudouridine synthases of the ribosome. Ofengand J, Malhotra A, Remme J, Gutgsell NS, Del Campo M, Jean-Charles S, Peil L, Kaya Y Cold Spring Harb Symp Quant Biol [details] 12762017 -