Modomics - A Database of RNA Modifications

ID Card:

Full name: YTH N6-methyladenosine RNA binding protein 3
Synonym: FLJ31657
GI: 74738853
UniProt: Q7Z739
Structures: | 6zot |
Alpha Fold Predicted Structure: AF-Q7Z739-F1


PDB Structures:


6zot

Structure Description:

Title:
Classification:
Technique:

Abstract of the PDB Structure's related Publication:

Three YTH-domain family proteins (YTHDF1, YTHDF2, and YTHDF3) recognize the N 6 -methyladenosine (m 6 A) modification of mRNA in cells. However, the redundancy of their cellular functions has been disputed. We investigate their interactions with m 6 A-containing RNA using X-ray crystallography and molecular dynamics (MD). The new X-ray structures and MD simulations show that the three proteins share identical interactions with the m 6 A-containing RNA and have similar intrinsic plasticity, thus evidencing the redundant roles of the three proteins in cellular functions.

Download RCSB-PDB Structures:

Pdb Files   6zot.pdb  
Pdbx/mmCIF Files   6zot.cif  


Protein sequence:

MSATSVDQRPKGQGNKVSVQNGSIHQKDAVNDDDFEPYLSSQTNQSNSYPPMSDPYMPSYYAPSIGFPYSLGEAAWSTAGDQPMPYLTTYGQMSNGEHHYIPDGVFSQPGALGNTPPFLGQHGFNFFPGNADFSTWGTSGSQGQSTQSSAYSSSYGYPPSSLGRAITDGQAGFGNDTLSKVPGISSIEQGMTGLKIGGDLTAAVTKTVGTALSSSGMTSIATNSVPPVSSAAPKPTSWAAIARKPAKPQPKLKPKGNVGIGGSAVPPPPIKHNMNIGTWDEKGSVVKAPPTQPVLPPQTIIQQPQPLIQPPPLVQSQLPQQQPQPPQPQQQQGPQPQAQPHQVQPQQQQLQNRWVAPRNRGAGFNQNNGAGSENFGLGVVPVSASPSSVEVHPVLEKLKAINNYNPKDFDWNLKNGRVFIIKSYSEDDIHRSIKYSIWCSTEHGNKRLDAAYRSLNGKGPLYLLFSVNGSGHFCGVAEMKSVVDYNAYAGVWSQDKWKGKFEVKWIFVKDVPNNQLRHIRLENNDNKPVTNSRDTQEVPLEKAKQVLKIIATFKHTTSIFDDFAHYEKRQEEEEAMRRERNRNKQ

Comments:

None





Alpha Fold Predicted Structure:






Clear Selection and Reset Camera

Protein sequence:

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

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-Q7Z739-F1.pdb  
Alpha Fold Pdbx/mmCIF Files   AF-Q7Z739-F1.cif  
DSSP Secondary Structures   Q7Z739.dssp  





Diseases connected to this enzyme:

Description Reaction Disease Name
m6A-related targets were altered at protein level; overexpression of the enzymes was associated with poor prognosis on overal survival; YTHDF3 is considered independent prognosis factor for OS and relapse free survival. A:m6A
Breast cancer

Publications:

Title Authors Journal Details PubMed Id DOI