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3.1.13.2: exoribonuclease H

This is an abbreviated version!
For detailed information about exoribonuclease H, go to the full flat file.

Word Map on EC 3.1.13.2

Reaction

3'-end directed exonucleolytic cleavage of viral RNA-DNA hybrid =

Synonyms

3'-to-5' RNase H, HIV RNase H, HIV-1 ribonuclease H, HIV-1 RT ribonuclease H, LC11-RNase H1, More, Prp8, retroviral reverse transcriptase RNaseH, retroviral RNase H, reverse transcriptase ribonuclease H, reverse transcriptase-associated ribonuclease H, ribonuclease H, RNase H, RNase H1, RNase HI, RNaseH, RNH, RNH1, RT RNase H, RT/RNase H, T4 RNase H, Ta11

ECTree

     3 Hydrolases
         3.1 Acting on ester bonds
             3.1.13 Exoribonucleases producing 5′-phosphomonoesters
                3.1.13.2 exoribonuclease H

Engineering

Engineering on EC 3.1.13.2 - exoribonuclease H

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PROTEIN VARIANTS
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
D702A/E731A
-
sequences encoding HBV RNaseH residues 809-844 are deleted from pMal-HRHgtC to create pMal-HRHgtCDELTA5. Active site residues D702 and E731 are mutated to alanines to create pMAL-HRHgtC(D702A/E731A) which encodes an inactive RNaseH
D777A
-
the mutant shows loss of catalytic activity
D778A
-
the mutant shows a defect in enzyme activity
K745A
-
the mutant shows a defect in enzyme activity
R703A
-
the mutant shows loss of catalytic activity
R781A
-
the mutant shows a defect in enzyme activity
H264A
-
the mutation causes an about 100fold decrease in kcat under multiple-turnover conditions, but does not alter the Km
D549N
-
unaltered polymerase activity, in the absence and at lower concentrations of Mg2+ the mutant enzyme binds the DNA-DNA substrate more tightly than the wild-type enzyme, at high Mg2+ concentrations the binding is identical for the wild-type and mutant enzymes using DNA-DNA template
E478Q
A360D
-
mutation decreases the virus titer to about 50% of that of the wild-type virus
C280E
-
mutation does not affect RNase H activity
C280H
-
mutation does not affect RNase H activity
C280L
-
mutation does not affect RNase H activity
C280M
-
mutation does not affect RNase H activity
C280P
-
mutation in either p66 or p51 subunits reduces RNase H activity in comparison to wild-type enzyme, the strand-transfer activity is very low
C280Q
-
mutation does not affect RNase H activity
C280R
-
mutation does not affect RNase H activity
C280W
-
mutation in either p66 or p51 subunits reduces RNase H activity in comparison to wild-type enzyme, the strand-transfer activity is very low
C280Y
-
mutation does not affect RNase H activity
D358N
complete loss of Mg2+ and Mn2+-dependent RNase H activity
D426N
complete loss of Mg2+ and Mn2+-dependent RNase H activity
D469N
enhanced Mn2+ dependent RNase H activity in comparison to Mg2+ dependent RNase H activity
D549N
D67N/K70R/T215F/K219Q
the mutant shows reduced sensitivity to inhibitor (E)-3,4-dihydroxy-N'-((2-methoxynaphthalen-1-yl)methylene)benzohydrazide
E396A
-
mutation decreases the virus titer to about 50% of that of the wild-type virus and has significant effect on the extent of enzyme cleavage
E401Q
complete loss of Mg2+ and Mn2+-dependent RNase H activity
E478Q
E89K
-
site-directed mutagenesis, foscarnet-resistance mutation, the mutant enzyme shows different sensitivity for inhibitors compared to the wild-type enzyme, overview
G190A
-
site-directed mutagenesis, the mutation confers resistance to non-nucleoside reverse transcriptase inhibitors, and leads to reduced RNase H activity of the reverse transcriptase and to reduced DNA synthesis from tRNALys,3 that correlate with reductions in replication efficiency, the mutant shows reduced fitness compared to the wild-type enzyme
G190S
-
site-directed mutagenesis, the mutation confers resistance to non-nucleoside reverse transcriptase inhibitors, and leads to reduced RNase H activity of the reverse transcriptase and to reduced DNA synthesis from tRNALys,3 that correlate with reductions in replication efficiency, the mutant shows highly reduced fitness compared to the wild-type enzyme
G359S
-
mutation decreases the virus titer to about 50% of that of the wild-type virus
H361A
-
mutation decreases the virus titer to about 25% of that of the wild-type virus and affects the frequency of the generation of linear viral DNAs with aberrant ends
H427A
enhanced Mn2+ dependent RNase H activity in comparison to Mg2+ dependent RNase H activity
H539D
-
site-directed mutagenesis, the mutant enzyme shows an altered cleavage pattern compared to the wild-type enzyme, the mutant is inhibited in performing secondary cleavage directed by the 3' end primer independent of the presence of a hairpin structure or the need to carry out strand displacement
H539F
-
site-directed mutagenesis, the mutant enzyme shows an altered cleavage pattern compared to the wild-type enzyme, the mutant is inhibited in performing secondary cleavage directed by the 3' end primer independent of the presence of a hairpin structure or the need to carry out strand displacement
H539N
-
site-directed mutagenesis, leads to a slowing down in the degradation of the RNA strand, decreases the frequency of reverse transcriptase template-switching by 2fold
H539R
-
site-directed mutagenesis, the mutant enzyme shows an altered cleavage pattern compared to the wild-type enzyme, the mutant is inhibited in performing secondary cleavage directed by the 3' end primer independent of the presence of a hairpin structure or the need to carry out strand displacement
K103N
K103N/Y181C
K390A
-
mutation decreases the virus titer less than twofold in comparison of wild-type enzyme
K395A
-
mutation decreases the virus titer less than twofold in comparison of wild-type enzyme
K476A
-
reduces the virus titre
K476C
-
the mutation disrupts the chemical cross-linking while maintaining activity
K65R
-
nucleoside reverse transcriptase inhibitor resistance mutation
L74V
-
nucleoside reverse transcriptase inhibitor resistance mutation
M184I
-
nucleoside reverse transcriptase inhibitor resistance mutation
M41L/D67N/L210W/T215Y/A360V
-
mutation decreases efficiency of RNase H cleavage and increases excision of AZT in the presence of the pyrophosphate donor ATP
M41L/D67N/L210W/T215Y/A360V/N348I/E478Q
-
mutation decreases efficiency of RNase H cleavage and increases excision of AZT in the presence of the pyrophosphate donor ATP
M41L/D67N/L210W/T215Y/E478Q
-
mutation decreases efficiency of RNase H cleavage and increases excision of AZT in the presence of the pyrophosphate donor ATP
M41L/D67N/L210W/T215Y/N348I
-
mutation decreases efficiency of RNase H cleavage and increases excision of AZT in the presence of the pyrophosphate donor ATP
M41L/D67N/L210W/T215Y/N348I/A360V
-
mutant accumulates transiently formed, shorter hybrids that can rebind to reverse transcriptase before the template is irreversibly degraded
N474A
-
reduces the virus titre
P236L
naturally occuring mutations leading to reduced RNase H activity and increased resistance of the reverse trancriptase to NRTIs
Q151N
-
nucleoside reverse transcriptase inhibitor resistance mutation
Q500A
-
reduces the virus titre
T362A
-
mutation decreases the virus titer less than twofold in comparison of wild-type enzyme
T473A
-
abolishes HIV-1 replication
V106A
naturally occuring mutations leading to reduced RNase H activity and increased resistance of the reverse trancriptase to NRTIs
V106A/Y181C
Y181C
Y188L
Y459A
enhanced Mn2+ dependent RNase H activity in comparison to Mg2+ dependent RNase H activity
Y5014-(phenylcarbonyl)-L-Phe
-
inserting a benzophenone into the RNase H primer grip (p66501BpF/p51 reverse transcriptase) creates an enzyme that is resistant to beta-thujaplicinol at inhibitor concentrations as high as 300 microM
Y5014-azido-L-Phe
-
nonnatural amino acid substitution introducing an azido function
Y501A
complete loss of activity in comparison to wild-type enzyme
Y501Az-F
-
p-azido-L-phenylalanine (Az-F), site-directed mutagenesis, sensitivity of HIV-1 reverse transcriptase Tyr501 variants to NSC727447 inhibition tested
Y501Bp-F
-
p-benzoyl-L-phenylalanine, site-directed mutagenesis, sensitivity of HIV-1 reverse transcriptase Tyr501 variants to NSC727447 inhibition tested
Y501E
25% activity in comparison to wild-type enzyme
Y501F
Y501G
complete loss of activity in comparison to wild-type enzyme
Y501H
complete loss of activity in comparison to wild-type enzyme
Y501L
complete loss of activity in comparison to wild-type enzyme
Y501Q
complete loss of activity in comparison to wild-type enzyme
Y501R
90% activity in comparison to wild-type enzyme, the mutant is completely resistant to N-(4-tert-butylbenzoyl)-2-hydroxynaphthaldehyde hydrazone inhibition
Y501S
complete loss of activity in comparison to wild-type enzyme
Y501W
Q294A
-
6.6fold RNase H activity compared to wild-type
Q294C
-
9.2fold RNase H activity compared to wild-type
Q294E
-
4.0fold RNase H activity compared to wild-type
Q294H
-
4.2fold RNase H activity compared to wild-type
Q294M
-
4.3fold RNase H activity compared to wild-type
Q294N
-
4.9fold RNase H activity compared to wild-type
Q294P
-
5.1fold RNase H activity compared to wild-type
Q294Q/Q294R
-
4.2fold RNase H activity compared to wild-type, Gln294 is modified in p54subunit, Q in p68, R in p54
Q294R
-
4.8fold RNase H activity compared to wild-type
Q294S
-
6.9fold RNase H activity compared to wild-type
Q294W
-
5.1fold RNase H activity compared to wild-type
Q294Y
-
4.8fold RNase H activity compared to wild-type
D549N
-
unaltered polymerase activity, in the absence and at lower concentrations of Mg2+ the mutant enzyme binds the DNA-DNA substrate more tightly than the wild-type enzyme, at high Mg2+ concentrations the binding is identical for the wild-type and mutant enzymes using DNA-DNA template
-
E478Q
-
unaltered polymerase activity, in the absence and at lower concentrations of Mg2+ the mutant enzyme binds the DNA-DNA substrate more tightly than the wild-type enzyme, at high Mg2+ concentrations the binding is identical for the wild-type and mutant enzymes using DNA-DNA template
-
C654S
the mutant shows wild type activity
D599N/H742N
the RNase H activity of the mutant is seriously impaired
D224A
two Moloney murine leukemia virus reverse transcriptase variants (named MRT-D224A and MRT-D524A) as a negative control, in which the catalytically important residue for the reverse transcription activity, Asp224 and that for the RNase H activity, Asp524, are substituted with Ala, respectively
D524A
two Moloney murine leukemia virus reverse transcriptase variants (named MRT-D224A and MRT-D524A) as a negative control, in which the catalytically important residue for the reverse transcription activity, Asp224 and that for the RNase H activity, Asp524, are substituted with Ala, respectively
A558V
-
site-directed mutagenesis, the mutation in the enzyme primer grip results in about 3fold increased viral mutation rates compared to the wild-type enzyme/virus, reduced titer
Q559L
-
site-directed mutagenesis, the mutation in the enzyme primer grip results in about 3fold increased viral mutation rates compared to the wild-type enzyme/virus
S557A
-
site-directed mutagenesis, the mutation in the enzyme primer grip results in about 3fold increased viral mutation rates compared to the wild-type enzyme/virus, reduced titer
T590A
-
site-directed mutagenesis, the mutation in the enzyme primer grip results in similar viral mutation rates compared to the wild-type enzyme/virus
Y586A
-
site-directed mutagenesis, the mutant virus is not stable and cannot be expressed, no colonies
Y586F
-
site-directed mutagenesis, the mutation in the enzyme primer grip results in 17fold increased viral mutation rates compared to the wild-type enzyme/virus
D1853A
failure of D1853A and R1937A mutants of scPrp8 to grow on 5-fluoroorotic acid plates, lethal mutation
D1853N
cell viability assay monitoring the effects of exchanging invariant Prp8 residues D1853, D1854, T1855, T1936 and R1937 as indicated. After selection of clones, the culture and serial dilutions are spotted and grown at the temperatures 16, 25, 30, and 37°C for 2 days
D1854A
cell viability assay monitoring the effects of exchanging invariant Prp8 residues D1853, D1854, T1855, T1936 and R1937 as indicated. After selection of clones, the culture and serial dilutions are spotted and grown at the temperatures 16, 25, 30, and 37°C for 2 days
D1854N
cell viability assay monitoring the effects of exchanging invariant Prp8 residues D1853, D1854, T1855, T1936 and R1937 as indicated. After selection of clones, the culture and serial dilutions are spotted and grown at the temperatures 16, 25, 30, and 37°C for 2 days
E1960K
mutant of prp8-101
K1864E
prp8-D143, that suppress second-step defects in the 5'splice site, 3'splice site or branch point sequence map to the present Prp8 region
N1869D
prp8-151, that suppress second-step defects in the 5'splice site, 3'splice site or branch point sequence map to the present Prp8 region
N1869D/S1970R
prp8-152, that suppress second-step defects in the 5'splice site, 3'splice site or branch point sequence map to the present Prp8 region
R1937A
failure of D1853A and R1937A mutants of scPrp8 to grow on 5-fluoroorotic acid plates, lethal mutation
R1937K
cell viability assay monitoring the effects of exchanging invariant Prp8 residues D1853, D1854, T1855, T1936 and R1937 as indicated. After selection of clones, the culture and serial dilutions are spotted and grown at the temperatures 16, 25, 30, and 37°C for 2 days
T1855A
cell viability assay monitoring the effects of exchanging invariant Prp8 residues D1853, D1854, T1855, T1936 and R1937 as indicated. After selection of clones, the culture and serial dilutions are spotted and grown at the temperatures 16, 25, 30, and 37°C for 2 days
T1936A
cell viability assay monitoring the effects of exchanging invariant Prp8 residues D1853, D1854, T1855, T1936 and R1937 as indicated. After selection of clones, the culture and serial dilutions are spotted and grown at the temperatures 16, 25, 30, and 37°C for 2 days
T1982A
prp8-153, that suppress second-step defects in the 5'splice site, 3'splice site or branch point sequence map to the present Prp8 region
T1982A, SA1966/7AG
prp8-154, that suppress second-step defects in the 5'splice site, 3'splice site or branch point sequence map to the present Prp8 region
T1982A,V1987A
prp8-155, that suppress second-step defects in the 5'splice site, 3'splice site or branch point sequence map to the present Prp8 region
V1870N
prp8-162, that suppress second-step defects in the 5'splice site, 3'splice site or branch point sequence map to the present Prp8 region
C724A
Tequatrovirus T4
site-directed mutagenesis
L242I
Tequatrovirus T4
naturally occuring mutation, the substitution does not affect the structure of RNase H and its role in providing the das-effect remains unclear
V43I
Tequatrovirus T4
naturally occuring mutation, the V43I substitution may lead to disposition of H4 helix, responsible for the interaction with the first base pairs of 5' end of branched DNA. These structural changes may affect unwinding of the first base pairs of gapped or nicked DNA generating a short flap and therefore may stabilize the DNA-enzyme complex
additional information