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Literature summary for 3.1.26.11 extracted from

  • Hartmann, R.K.; Goessringer, M.; Spaeth, B.; Fischer, S.; Marchfelder, A.
    The making of tRNAs and more - RNase P and tRNase Z (2009), Prog. Mol. Biol. Transl. Sci., 85, 319-368.
    View publication on PubMed

Activating Compound

Activating Compound Comment Organism Structure
additional information is only active at low salt concentrations Haloferax volcanii

Crystallization (Commentary)

Crystallization (Comment) Organism
the enzyme forms a homodimer, the monomeric subunits are arranged in head-to-head fashion. The monomers concertedly build an active site cleft which is capable of accommodating single-stranded RNA Bacillus subtilis
the enzyme forms a homodimer, the monomeric subunits are arranged in head-to-head fashion. The monomers concertedly build an active site cleft which is capable of accommodating single-stranded RNA Escherichia coli
the enzyme forms a homodimer, the monomeric subunits are arranged in head-to-head fashion. The monomers concertedly build an active site cleft which is capable of accommodating single-stranded RNA Thermotoga maritima

Inhibitors

Inhibitors Comment Organism Structure
additional information a distortion of one metal-binding site inhibits Zn2+ binding to both metal binding sites in monomer B. Is inhibited by the presence of the CCA motif, maybe the loop between beta1 and beta2 is responsible for the inhibitory effect of CCA-containing tRNA precursors Bacillus subtilis
additional information is inhibited by the presence of the CCA motif, maybe the loop between beta1 and beta2 is responsible for the inhibitory effect of CCA-containing tRNA precursors Escherichia coli
additional information tRNase Z activity is not inhibited by the presence of long 5'-extensions Pyrococcus furiosus

Metals/Ions

Metals/Ions Comment Organism Structure
Zn2+ contains one Zn2+ ion per monomer Thermotoga maritima
Zn2+ shows two fully loaded catalytic sites, which may result from Zn2+ addition during crystallization Escherichia coli
Zn2+ the catalytic core of monomer A contains two Zn2+ Bacillus subtilis

Organism

Organism UniProt Comment Textmining
Aeropyrum pernix
-
-
-
Archaeoglobus fulgidus
-
-
-
Bacillus subtilis
-
-
-
Borreliella burgdorferi
-
-
-
Chlamydia trachomatis
-
-
-
Clostridium perfringens
-
-
-
Deinococcus radiodurans
-
-
-
Escherichia coli
-
-
-
Halobacterium sp.
-
-
-
Haloferax volcanii
-
-
-
Lactococcus lactis
-
-
-
Methanocaldococcus jannaschii
-
-
-
Methanopyrus kandleri
-
-
-
Methanosarcina mazei
-
-
-
Methanothermobacter thermautotrophicus
-
-
-
Nanoarchaeum equitans
-
-
-
Pyrobaculum aerophilum
-
-
-
Pyrococcus abyssi
-
-
-
Pyrococcus furiosus
-
-
-
Saccharolobus solfataricus
-
-
-
Synechocystis sp. PCC 6803
-
-
-
Thermoplasma acidophilum
-
-
-
Thermotoga maritima
-
-
-
Treponema pallidum
-
-
-
Triticum aestivum
-
-
-

Substrates and Products (Substrate)

Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
bis(p-nitrophenyl)phosphate + H2O
-
Pyrococcus furiosus p-nitrophenol + p-nitrophenyl phosphate
-
?
bis(p-nitrophenyl)phosphate + H2O phosphodiesterase activity Escherichia coli p-nitrophenol + p-nitrophenyl phosphate
-
?
additional information can cleave 3' to the CCA motif Thermotoga maritima ?
-
?
additional information cannot cleave substrates carrying a 3'-CCA motif Bacillus subtilis ?
-
?
additional information involvement of tRNase Z in mRNA processing Escherichia coli ?
-
?
additional information involvement of tRNase Z in pre-5S rRNA cleavage Haloferax volcanii ?
-
?
pre-tRNA + H2O cleaves intron-containing tRNA precursors and 5'-extended pre-tRNAs Pyrococcus furiosus ?
-
?
pre-tRNA + H2O cleaves pre-tRNAs 3' to the discriminator. Pre-tRNA with 3'-trailers harboring partial CCA motifs (C and CC) are cleaved in vitro by Trz 3' to C and CC, respectively, whereas CCA-containing pre-tRNAs are not cleaved, but are bound to the enzyme Synechocystis sp. PCC 6803 ?
-
?
pre-tRNA + H2O the glycine/proline-rich ZiPD exosite of tRNase Z takes part in the pre-tRNA binding, it is a flexible arm which protrudes from the main protein body Bacillus subtilis ?
-
?
pre-tRNA + H2O the glycine/proline-rich ZiPD exosite of tRNase Z takes part in the pre-tRNA binding, it is a flexible arm which protrudes from the main protein body Escherichia coli ?
-
?
pre-tRNA + H2O the glycine/proline-rich ZiPD exosite of tRNase Z takes part in the pre-tRNA binding, it is a flexible arm which protrudes from the main protein body Methanocaldococcus jannaschii ?
-
?
pre-tRNA + H2O the TM-type exosite of tRNase Z containing a cluster of 4-5 basic amino acid residues takes part in the pre-tRNA binding, it is a flexible arm which protrudes from the main protein body Thermotoga maritima ?
-
?
S-D-lactoylglutathione + H2O is a glyoxalase II substrate, tRNase Z has a broad substrate spectrum, is able to process a substrate belonging to a different subclass of the MBL family Pyrococcus furiosus ?
-
?
thymidine 5'-p-nitrophenyl phosphate + H2O
-
Escherichia coli p-nitrophenol + TMP
-
?

Subunits

Subunits Comment Organism
homodimer crystallography Bacillus subtilis
homodimer crystallography Escherichia coli
homodimer crystallography Thermotoga maritima

Synonyms

Synonyms Comment Organism
Elac
-
Escherichia coli
RNase BN
-
Escherichia coli
RNase Z
-
Chlamydia trachomatis
RNase Z
-
Bacillus subtilis
RNase Z
-
Escherichia coli
RNase Z
-
Triticum aestivum
RNase Z
-
Methanothermobacter thermautotrophicus
RNase Z
-
Pyrococcus furiosus
RNase Z
-
Lactococcus lactis
RNase Z
-
Haloferax volcanii
RNase Z
-
Thermoplasma acidophilum
RNase Z
-
Saccharolobus solfataricus
RNase Z
-
Clostridium perfringens
RNase Z
-
Methanocaldococcus jannaschii
RNase Z
-
Archaeoglobus fulgidus
RNase Z
-
Methanopyrus kandleri
RNase Z
-
Thermotoga maritima
RNase Z
-
Deinococcus radiodurans
RNase Z
-
Treponema pallidum
RNase Z
-
Methanosarcina mazei
RNase Z
-
Borreliella burgdorferi
RNase Z
-
Pyrobaculum aerophilum
RNase Z
-
Synechocystis sp. PCC 6803
RNase Z
-
Halobacterium sp.
RNase Z
-
Aeropyrum pernix
RNase Z
-
Pyrococcus abyssi
RNase Z
-
Nanoarchaeum equitans
tRNase Z
-
Chlamydia trachomatis
tRNase Z
-
Bacillus subtilis
tRNase Z
-
Escherichia coli
tRNase Z
-
Triticum aestivum
tRNase Z
-
Methanothermobacter thermautotrophicus
tRNase Z
-
Pyrococcus furiosus
tRNase Z
-
Lactococcus lactis
tRNase Z
-
Haloferax volcanii
tRNase Z
-
Thermoplasma acidophilum
tRNase Z
-
Saccharolobus solfataricus
tRNase Z
-
Clostridium perfringens
tRNase Z
-
Methanocaldococcus jannaschii
tRNase Z
-
Archaeoglobus fulgidus
tRNase Z
-
Methanopyrus kandleri
tRNase Z
-
Thermotoga maritima
tRNase Z
-
Deinococcus radiodurans
tRNase Z
-
Treponema pallidum
tRNase Z
-
Methanosarcina mazei
tRNase Z
-
Borreliella burgdorferi
tRNase Z
-
Pyrobaculum aerophilum
tRNase Z
-
Synechocystis sp. PCC 6803
tRNase Z
-
Halobacterium sp.
tRNase Z
-
Aeropyrum pernix
tRNase Z
-
Pyrococcus abyssi
tRNase Z
-
Nanoarchaeum equitans
Trz
-
Thermotoga maritima
zinc-dependent phosphodiesterase
-
Escherichia coli
ZiPD
-
Escherichia coli

General Information

General Information Comment Organism
malfunction in a mutant strain, the chromosomal tRNase Z gene is put under control of an IPTG-dependent promoter. Removal of IPTG from the culture medium results in complete growth inhibition, tRNase Z is essential for the organism. Downregulation of Trz expression leads to an accumulation of CCA-less pre-tRNAs in vivo Bacillus subtilis
malfunction strains with simultanoeus deletion of genes from RNases II, Z, D, T and PH are not viable, but cells survive when only one of these genes is active Escherichia coli
physiological function is not essential for cell viability, role in RNA metabolism. May also work as a backup 3'-maturation enzyme for pre-tRNAs with incorrect nucleotides incorporated into the CCA triplet Escherichia coli
physiological function is required for maturation of pre-tRNAs lacking a CCA motif and is thus essential for cell viability Bacillus subtilis