Modomics - A Database of RNA Modifications

ID Card:

Full name: tRNA 2-selenouridine(34) synthase
Synonym: SelU, YbbB
GI: 2506609
Orf: ybbB, b0503
COG: COG2603
UniProt: P33667
Alpha Fold Predicted Structure: AF-P33667-F1
Enzyme type: selenotransferase/geranyltransferase
Position of modification - modification: t:34 - mnm5se2U
t:34 - mnm5ges2U
t:34 - cmnm5ges2U



Protein sequence:

MQERHTEQDYRALLIADTPIIDVRAPIEFEHGAMPAAINLPLMNNDERAAVGTCYKQQGSDAALALGHKLVAGEIRQQRMDAWRAACLQNPQGILCCARGGQRSHIVQSWLHAAGIDYPLVEGGYKALRQTAIQATIELAQKPIVLIGGCTGSGKTLLVQQQPNGVDLEGLARHRGSAFGRTLQPQLSQASFENLLAAEMLKTDARQNLRLWVLEDESRMIGSNHLPECLRERMTQAAIAVVEDPFEIRLERLNEEYFLRMHHDFTHAYGDEQGWQEYCEYLHHGLSAIKRRLGLQRYNELAARLDAALTTQLTTGSTDGHLAWLVPLLEEYYDPMYRYQLEKKAEKVVFRGEWAEVAEWVKAR

Comments:

ybbB is a gene that is frequently found within bacterial operons that contain SelD, the selenophosphate synthetase gene, suggesting a role in selenium metabolism. ybbB is required in vivo for the specific substitution of selenium for sulfur in 2-thiouridine residues in E.coli tRNAs (Wolfe et al. 2004 ). ybbB directly catalyses the geranylation of E.coli tRNAs that contain (c)mnm5s2U (Dumelin et al. 2012 )





Alpha Fold Predicted Structure:




Downloading... [48890/336121]


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Protein sequence:

M Q E R H T E Q D Y R A L L I A D T P I I D V R A P I E F E H G A M P A A I N L P L M N N D E R A A V G T C Y K Q Q G S D A A L A L G H K L V A G E I R Q Q R M D A W R A A C L Q N P Q G I L C C A R G G Q R S H I V Q S W L H A A G I D Y P L V E G G Y K A L R Q T A I Q A T I E L A Q K P I V L I G G C T G S G K T L L V Q Q Q P N G V D L E G L A R H R G S A F G R T L Q P Q L S Q A S F E N L L A A E M L K T D A R Q N L R L W V L E D E S R M I G S N H L P E C L R E R M T Q A A I A V V E D P F E I R L E R L N E E Y F L R M H H D F T H A Y G D E Q G W Q E Y C E Y L H H G L S A I K R R L G L Q R Y N E L A A R L D A A L T T Q L T T G S T D G H L A W L V P L L E E Y Y D P M Y R Y Q L E K K A E K V V F R G E W A E V A E W V K A R
50100150200250300350SequenceGHITBSN

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-P33667-F1.pdb  
Alpha Fold Pdbx/mmCIF Files   AF-P33667-F1.cif  
DSSP Secondary Structures   P33667.dssp  





Publications:

Links:

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