MMSYN1 0437

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Author Information

Sasha Perigo sperigo@stanford.edu

Basic Information

  • ID: MMSYN1_043
  • Name: putative 3'-5' exoribonuclease YhaM
  • Organism: JCVI-Syn3.0
  • Description: This gene is involved in L-cysteine detoxification. Not much else is known about it [1].
  • DNA Length: 981 base pairs
  • DNA sequence:

ATG AAG AAG GTT AAA GAT ATT AAC ATC GAG GAT CAT CTT ATC GAC ACT ATC TTG CGT ATT GAA CGT GTC ATT GTG AGC ACT GGC TCC TCG GGC AAT AAC TAT TTG ATC CTT CAT CTT GCA GAT TCA ACA GGG CGT ATC GAG GCC CGC AAG TGG GTC GTT AGC GAG AAA GAT AAA CAG CTG TTG AAG CCG AAT ACT ATC GTG CTT TTA AAA GAC ACG ATC GTA CAT GAG TAT CGT AAC ATC TTA CAG CTG AAA GTC GAG GAT TAT CAG GTG ATC GAC GAG AAG GAT TTA CTG AAA TAT AAC TTG AAT AAA ACC GAC CTG TAC ATC ACA GCA CCT TTG GAC ATC AAG ACG TCT TAC CTT GAG TTA ATC TCA CTG TTA AAC TCA ATT AAT AAT CAA ACA TAC AAA ACC ATC ACG CTT AAT TTA ATC GAG AAA TAC AAG AAG GAA TTT CTT ACT TTC CCA GCG GCC ATG TCT ATC CAC CAC AAC GTA ACT TCC GGG CTT TTC TGG CAT AGT TAT ACC CTT GTA AAG AAC GTA TTA AAT TTG AAG GAA AAC TAT TTT TAT GCG AAT ATT GAT TGG GAC TTA TTA ATC TGT GGT GCA ATT TTG CAT GAC ATC GGA AAG GTC ATC GAG ATC TCG GAT GTG AAT GGT AGC GAT TAC TCG CTT GAG GGG AAA CTT CTG GGC CAT ATC TCA ATT GGG AAT GCG GAA ATC AAC AAG TTG GCA GAC AAG TTA AAT CTT TAT AAA GAT CAG AAC AAC AAA ATT AAC AAG GAG ATC ACC CTG TTA CAA CAT ATG ATT TTA GCT AGT CAT GGC AAG AAG GAA TTT GGC AGT CCT ATT GAA CCG GTA CTT ATT GAA GCA GTG ATC CTT TCT GCG TTA GAT GAT TTA GAT GCG AAA GTC TAT AAA ATT AAT GAT GAA CTG TCG AAG ATC GAA ATT GAC AAT TGG ACA CAG AAG ATT ACC AGC ATT GAT AAC AAG ATG TTC TAC AAA CAC AAA AAA

  • Amino Acid length: 326 amino acids
  • Amino Acid sequence:

MKKVKDINIEDHLIDTILRIERVIVSTGSSGNNYLILHLADSTGRIEARKWVVSEKDKQLLKPNTIVLLKDTIVHEYRNILQLKVEDYQVIDEKDLLKYNLNKTDLYITAPLDIKTSYLELISLLNSINNQTYKTITLNLIEKYKKEFLTFPAAMSIHHNVTSGLFWHSYTLVKNVLNLKENYFYANIDWDLLICGAILHDIGKVIEISDVNGSDYSLEGKLLGHISIGNAEINKLADKLNLYKDQNNKINKEITLLQHMILASHGKKEFGSPIEPVLIEAVILSALDDLDAKVYKINDELSKIEIDNWTQKITSIDNKMFYKHKK

Function and Homologs

  • Product: UPF0597 protein YhaM
  • Module: RNA metabolism?
  • Closest homologous proteins: The top (max three) homologous proteins to this protein, as identified by BLAST searches.
    • metal-dependent phosphohydrolase [Mycoplasma feriruminatoris], 607/100%/0.0/91%, WP_008363991.1
    • 3'->5' exoribonuclease Bsu YhaM [Mesoplasma florum], 447/100%/1e-155/63%, WP_023025594.1
    • HD domain-containing protein [Mesoplasma photuris], 428/100%/5e-148/60%, WP_031543404.1
  • Equivalent E. coli / JCVI functional protein: EG12752

Expression

  • Expression Level: Low
  • Expression Level Hypothesis: I guessed low by looking at similar genes on the Ecoli expression data list.
  • Expression Level References and Description: [2]
  • Expression Time: unknown/impossible to tell
  • Expression Time References and Description: There's no relevant information on Uniprot or anywhere else online.

Gene Context

  • Other Components in the functional module: unknown/impossible to tell
  • Possible Dependencies: unknown/impossible to tell
  • Process: L-cysteine detoxification
    • Inputs: L-cysteine
    • Outputs: L-cysteine

Construct

We will handle this - not part of your assignment

  • Synthesis Score: The synthesis score: 1, 2,3
  • Predicted Translation Rate: Prediction of construct translation rate from the RBS calculator
  • Design Notes and Details:
  • GenBank File: A link to the GenBank file. file