Modomics - A Database of RNA Modifications

ID Card:

Full name: RNA methyltransferase-like protein 1
Synonym: MRM3
GI: 8922534
Orf: HC90
COG: COG0566
UniProt: Q9HC36
Structures: | 7OI6 |
Alpha Fold Predicted Structure: AF-Q9HC36-F1
Enzyme type: methyltransferase
Position of modification - modification: l:1370(2553) - Gm


PDB Structures:


7OI6

Structure Description:

Title:
Classification:
Technique:

Abstract of the PDB Structure's related Publication:

Assembly of the mitoribosome is largely enigmatic and involves numerous assembly factors. Little is known about their function and the architectural transitions of the pre-ribosomal intermediates. Here, we solve cryo-EM structures of the human 39S large subunit pre-ribosomes, representing five distinct late states. Besides the MALSU1 complex used as bait for affinity purification, we identify several assembly factors, including the DDX28 helicase, MRM3, GTPBP10 and the NSUN4-mTERF4 complex, all of which keep the 16S rRNA in immature conformations. The late transitions mainly involve rRNA domains IV and V, which form the central protuberance, the intersubunit side and the peptidyltransferase center of the 39S subunit. Unexpectedly, we find deacylated tRNA in the ribosomal E-site, suggesting a role in 39S assembly. Taken together, our study provides an architectural inventory of the distinct late assembly phase of the human 39S mitoribosome.

Download RCSB-PDB Structures:

Pdb Files   7OI6.pdb  
Pdbx/mmCIF Files   7OI6.cif  


Protein sequence:

MAALVRPARFVVRPLLQVVQAWDLDARRWVRALRRSPVKVVFPSGEVVEQKRAPGKQPRKAPSEASAQEQREKQPLEESASRAPSTWEESGLRYDKAYPGDRRLSSVMTIVKSRPFREKQGKILLEGRRLISDALKAGAVPKMFFFSRLEYLKELPVDKLKGVSLIKVKFEDIKDWSDLVTPQGIMGIFAKPDHVKMTYPKTQLQHSLPLLLICDNLRDPGNLGTILRSAAGAGCSKVLLTKGCVDAWEPKVLRAGMGAHFRMPIINNLEWETVPNYLPPDTRVYVADNCGLYAQAEMSNKASDHGWVCDQRVMKFHKYEEEEDVETGASQDWLPHVEVQSYDSDWTEAPAAVVIGGETYGVSLESLQLAESTGGKRLLIPVVPGVDSLNSAMAASILLFEGKRQLRGRAEDLSRDRSYH

Comments:

Mitochondrial.




Reaction Substrate SubstrateType Position (Anti)Codon Modified (Anti)Codon Amino Acid Change Transcript Name Transcript Region Cellular Localization References
G:Gm rRNA (r) LSU/16S/mitochondrion 1370 25074936   

Alpha Fold Predicted Structure:






Clear Selection and Reset Camera

Protein sequence:

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

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-Q9HC36-F1.pdb  
Alpha Fold Pdbx/mmCIF Files   AF-Q9HC36-F1.cif  
DSSP Secondary Structures   Q9HC36.dssp  





Publications:

Title Authors Journal Details PubMed Id DOI
Assignment of 2'-O-methyltransferases to Modification Sites on the Mammalian Mitochondrial Large Subunit 16S rRNA. Lee KW, Bogenhagen DF... J Biol Chem [details] 25074936 -