Modomics - A Database of RNA Modifications

ID Card:

Full name: Fibrillarin-like rRNA/tRNA 2′-O-methyltransferase
Synonym: aFib, MJ0697, Fibrillarin-like
GI: 15668878
COG: COG1889
UniProt: Q58108
Structures: | 1G8S | 1FBN |
Alpha Fold Predicted Structure: AF-Q58108-F1
Complex: C/D RNP
Enzyme type: methyltransferase
Position of modification - modification: l:many - Xm
s:many - Xm


PDB Structures:


1G8S

Structure Description:

Title:
Classification:
Technique:

Abstract of the PDB Structure's related Publication:

Fibrillarin is a phylogenetically conserved protein essential for efficient processing of pre-rRNA through its association with a class of small nucleolar RNAs during ribosomal biogenesis. The protein is the antigen for the autoimmune disease scleroderma. Here we report the crystal structure of the fibrillarin homologue from Methanococcus jannaschii, a hyperthermophile, at 1.6 A resolution. The structure consists of two domains, with a novel fold in the N-terminal region and a methyltransferase-like domain in the C-terminal region. Mapping temperature-sensitive mutations found in yeast fibrillarin Nop1 to the Methanococcus homologue structure reveals that many of the mutations cluster in the core of the methyltransferase-like domain.

Download RCSB-PDB Structures:

Pdb Files   1FBN.pdb   1G8S.pdb  
Pdbx/mmCIF Files   1FBN.cif   1G8S.cif  


Protein sequence:

MEDIKIKEIFENIYEVDLGDGLKRIATKSIVKGKKVYDEKIIKIGDEEYRIWNPNKSKLAAAIIKGLKVMPIKRDSKILYLGASAGTTPSHVADIADKGIVYAIEYAPRIMRELLDACAERENIIPILGDANKPQEYANIVEKVDVIYEDVAQPNQAEILIKNAKWFLKKGGYGMIAIKARSIDVTKDPKEIFKEQKEILEAGGFKIVDEVDIEPFEKDHVMFVGIWEGK

Comments:

Homologue of yeast Nop1 protein and human fibrillarin. A catalytic subunit of C/D RNP complex, which in Archaea is composed of FlpA (fibrillarin), L7Ae and Nop56/58 proteins.




Reaction Substrate SubstrateType Position (Anti)Codon Modified (Anti)Codon Amino Acid Change Transcript Name Transcript Region Cellular Localization References
N:Nm undefined RNA ()   3'end

Alpha Fold Predicted Structure:






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Protein sequence:

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

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-Q58108-F1.pdb  
Alpha Fold Pdbx/mmCIF Files   AF-Q58108-F1.cif  
DSSP Secondary Structures   Q58108.dssp  





Publications:

Title Authors Journal Details PubMed Id DOI
Crystal structure of a fibrillarin homologue from Methanococcus jannaschii, a hyperthermophile, at 1.6 A resolution. Wang H, Boisvert D, Kim KK, Kim R, Kim SH EMBO J [details] 10654930 -
Expression, purification and preliminary X-ray analysis of a fibrillarin homolog from Methanococcus jannaschii, a hyperthermophile. Wang H, Yokota H, Kim R, Kim SH Acta Crystallogr D Biol Crystallogr [details] 10089444 -

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