Modomics - A Database of RNA Modifications

ID Card:

Full name: Mitochondrial transcription factor 1
Synonym: MTF1
GI: 1709156
Orf: YMR228W
UniProt: P14908
Structures: | 1I4W |
Alpha Fold Predicted Structure: AF-P14908-F1
Enzyme type: methyltransferase


PDB Structures:


1I4W

Structure Description:

Title:
Classification:
Technique:

Abstract of the PDB Structure's related Publication:

Although it is commonly accepted that binding of mitochondrial transcription factor sc-mtTFB to the mitochondrial RNA polymerase is required for specific transcription initiation in Saccharomyces cerevisiae, its precise role has remained undefined. In the present work, the crystal structure of sc-mtTFB has been determined to 2.6 A resolution. The protein consists of two domains, an N-terminal alpha/beta-domain and a smaller domain made up of four alpha-helices. Contrary to previous predictions, sc-mtTFB does not resemble Escherichia coli sigma-factors but rather is structurally homologous to rRNA methyltransferase ErmC'. This suggests that sc-mtTFB functions as an RNA-binding protein, an observation standing in contradiction to the existing model, which proposed a direct interaction of sc-mtTFB with the mitochondrial DNA promoter. Based on the structure, we propose that the promoter specificity region is located on the mitochondrial RNA polymerase and that binding of sc-mtTFB indirectly mediates interaction of the core enzyme with the promoter site.

Download RCSB-PDB Structures:

Pdb Files   1I4W.pdb  
Pdbx/mmCIF Files   1I4W.cif  


Protein sequence:

MSVPIPGIKDISKLKFFYGFKYLWNPTVYNKIFDKLDLTKTYKHPEELKVLDLYPGVGIQSAIFYNKYCPRQYSLLEKRSSLYKFLNAKFEGSPLQILKRDPYDWSTYSNLIDEERIFVPEVQSSDHINDKFLTVANVTGEGSEGLIMQWLSCIGNKNWLYRFGKVKMLLWMPSTTARKLLARPGMHSRSKCSVVREAFTDTKLIAISDANELKGFDSQCIEEWDPILFSAAEIWPTKGKPIALVEMDPIDFDFDVDNWDYVTRHLMILKRTPLNTVMDSLGHGGQQYFNSRITDKDLLKKCPIDLTNDEFIYLTKLFMEWPFKPDILMDFVDMYQTEHSG

Comments:

AdoMet is the methyl group donor. Mitochondrial. Numbers of positions like in the bacterial SSU rRNA.




Reaction Substrate SubstrateType Position (Anti)Codon Modified (Anti)Codon Amino Acid Change Transcript Name Transcript Region Cellular Localization References
A:m6A RNA rRNA 1518 SSU-15S 3'M-domain Mitochondrion
m6A:m6,6A RNA rRNA 1518 SSU-15S 3'M-domain Mitochondrion
A:m6A RNA rRNA 1519 SSU-15S 3'M-domain Mitochondrion
m6A:m6,6A RNA rRNA 1519 SSU-15S 3'M-domain Mitochondrion

Alpha Fold Predicted Structure:






Clear Selection and Reset Camera

Protein sequence:

M S V P I P G I K D I S K L K F F Y G F K Y L W N P T V Y N K I F D K L D L T K T Y K H P E E L K V L D L Y P G V G I Q S A I F Y N K Y C P R Q Y S L L E K R S S L Y K F L N A K F E G S P L Q I L K R D P Y D W S T Y S N L I D E E R I F V P E V Q S S D H I N D K F L T V A N V T G E G S E G L I M Q W L S C I G N K N W L Y R F G K V K M L L W M P S T T A R K L L A R P G M H S R S K C S V V R E A F T D T K L I A I S D A N E L K G F D S Q C I E E W D P I L F S A A E I W P T K G K P I A L V E M D P I D F D F D V D N W D Y V T R H L M I L K R T P L N T V M D S L G H G G Q Q Y F N S R I T D K D L L K K C P I D L T N D E F I Y L T K L F M E W P F K P D I L M D F V D M Y Q T E H S 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-P14908-F1.pdb  
Alpha Fold Pdbx/mmCIF Files   AF-P14908-F1.cif  
DSSP Secondary Structures   P14908.dssp  





Publications:

Title Authors Journal Details PubMed Id DOI
Crystal structure of the transcription factor sc-mtTFB offers insights into mitochondrial transcription. Schubot FD, Chen CJ, Rose JP, Dailey TA, Dailey HA, Wang BC Protein Sci [details] 11567089 -