RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11365
(95 letters)
>gnl|CDD|240024 cd04666, Nudix_Hydrolase_9, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 122
Score = 72.6 bits (179), Expect = 4e-18
Identities = 32/53 (60%), Positives = 35/53 (66%), Gaps = 2/53 (3%)
Query: 38 ILLVTSSRRPEHWIVPGGGVEPEEEPAATALREVAEEAGVLGKLG-RSLGVFE 89
+LLVTS R WIVP GG E +E PA A RE EEAGV GK+G R LG FE
Sbjct: 17 VLLVTSRRT-GRWIVPKGGPEKDESPAEAAAREAWEEAGVRGKIGKRPLGRFE 68
>gnl|CDD|239217 cd02883, Nudix_Hydrolase, Nudix hydrolase is a superfamily of
enzymes found in all three kingdoms of life, and it
catalyzes the hydrolysis of NUcleoside DIphosphates
linked to other moieties, X. Enzymes belonging to this
superfamily require a divalent cation, such as Mg2+ or
Mn2+ for their activity. Members of this family are
recognized by a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which forms a
structural motif that functions as a metal binding and
catalytic site. Substrates of nudix hydrolase include
intact and oxidatively damaged nucleoside
triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance and "house-cleaning"
enzymes. Substrate specificity is used to define child
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
This superfamily consists of at least nine families:
IPP (isopentenyl diphosphate) isomerase, ADP ribose
pyrophosphatase, mutT pyrophosphohydrolase, coenzyme-A
pyrophosphatase,
MTH1-7,8-dihydro-8-oxoguanine-triphosphatase,
diadenosine tetraphosphate hydrolase, NADH
pyrophosphatase, GDP-mannose hydrolase and the
c-terminal portion of the mutY adenine glycosylase.
Length = 123
Score = 54.4 bits (131), Expect = 5e-11
Identities = 25/58 (43%), Positives = 32/58 (55%), Gaps = 1/58 (1%)
Query: 38 ILLV-TSSRRPEHWIVPGGGVEPEEEPAATALREVAEEAGVLGKLGRSLGVFEVRPKV 94
+LLV + W +PGGGVEP E A+REV EE G+ + R LGV+EV
Sbjct: 14 VLLVRRADSPGGLWELPGGGVEPGETLEEAAIREVREETGLDVDVLRLLGVYEVESPD 71
>gnl|CDD|215841 pfam00293, NUDIX, NUDIX domain.
Length = 133
Score = 54.0 bits (130), Expect = 9e-11
Identities = 26/55 (47%), Positives = 31/55 (56%), Gaps = 3/55 (5%)
Query: 38 ILLVTSSRRPEH---WIVPGGGVEPEEEPAATALREVAEEAGVLGKLGRSLGVFE 89
+LLV SR P W +PGG VEP E P A+RE+ EE G+ L LGV E
Sbjct: 16 VLLVRRSRPPVFPGLWELPGGKVEPGESPEEAAVRELEEETGLRVLLLLLLGVLE 70
>gnl|CDD|223979 COG1051, COG1051, ADP-ribose pyrophosphatase [Nucleotide
transport and metabolism].
Length = 145
Score = 51.2 bits (123), Expect = 1e-09
Identities = 25/72 (34%), Positives = 36/72 (50%), Gaps = 4/72 (5%)
Query: 20 RCPTMALFITTACVMSTLILLVTSSRRPE--HWIVPGGGVEPEEEPAATALREVAEEAGV 77
R P +A+ V + ILLV + P +W +PGG VE E A RE+ EE G+
Sbjct: 7 RTPLVAVGA--LIVRNGRILLVRRANEPGAGYWALPGGFVEIGETLEEAARRELKEETGL 64
Query: 78 LGKLGRSLGVFE 89
++ L VF+
Sbjct: 65 RVRVLELLAVFD 76
>gnl|CDD|240030 cd04673, Nudix_Hydrolase_15, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 122
Score = 48.0 bits (115), Expect = 1e-08
Identities = 19/46 (41%), Positives = 25/46 (54%)
Query: 50 WIVPGGGVEPEEEPAATALREVAEEAGVLGKLGRSLGVFEVRPKVP 95
W PGG VE E ALRE+ EE G+ ++GR L V +V +
Sbjct: 27 WSFPGGKVELGETLEQAALRELLEETGLEAEVGRLLTVVDVIERDA 72
>gnl|CDD|240041 cd04685, Nudix_Hydrolase_26, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily requires a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 133
Score = 48.1 bits (115), Expect = 1e-08
Identities = 17/33 (51%), Positives = 20/33 (60%)
Query: 46 RPEHWIVPGGGVEPEEEPAATALREVAEEAGVL 78
P+ W PGGGVEP E P A RE+ EE G+
Sbjct: 26 GPDWWFTPGGGVEPGESPEQAARRELREETGIT 58
>gnl|CDD|239645 cd03673, Ap6A_hydrolase, Diadenosine hexaphosphate (Ap6A)
hydrolase is a member of the Nudix hydrolase
superfamily. Ap6A hydrolase specifically hydrolyzes
diadenosine polyphosphates, but not ATP or diadenosine
triphosphate, and it generates ATP as the product.
Ap6A, the most preferred substrate, hydrolyzes to
produce two ATP molecules, which is a novel hydrolysis
mode for Ap6A. These results indicate that Ap6A
hydrolase is a diadenosine polyphosphate hydrolase. It
requires the presence of a divalent cation, such as
Mn2+, Mg2+, Zn2+, and Co2+, for activity. Members of
the Nudix superfamily are recognized by a highly
conserved 23-residue nudix motif (GX5EX7REUXEEXGU,
where U = I, L or V), which forms a structural motif
that functions as a metal binding and catalytic site.
Length = 131
Score = 47.6 bits (114), Expect = 2e-08
Identities = 20/49 (40%), Positives = 29/49 (59%), Gaps = 1/49 (2%)
Query: 38 ILLVTSSRRPEHWIVPGGGVEPEEEPAATALREVAEEAGVLGKLGRSLG 86
+LL+ R + W +P G +EP E P A+REV EE G+ ++G LG
Sbjct: 18 VLLIHRPRGDD-WSLPKGKLEPGETPPEAAVREVEEETGIRAEVGDPLG 65
>gnl|CDD|240040 cd04684, Nudix_Hydrolase_25, Contains a crystal structure of the
Nudix hydrolase from Enterococcus faecalis, which has
an unknown function. In general, members of the Nudix
hydrolase superfamily catalyze the hydrolysis of
NUcleoside DIphosphates linked to other moieties, X.
Enzymes belonging to this superfamily require a
divalent cation, such as Mg2+ or Mn2+, for their
activity. They also contain a highly conserved
23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L
or V), which forms a structural motif that functions as
a metal binding and catalytic site. Substrates of nudix
hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 128
Score = 47.6 bits (114), Expect = 2e-08
Identities = 22/56 (39%), Positives = 30/56 (53%), Gaps = 2/56 (3%)
Query: 38 ILLVTSSRRPEH--WIVPGGGVEPEEEPAATALREVAEEAGVLGKLGRSLGVFEVR 91
+LL+ + P W +PGGG+EP E P REV EE G+ ++GR LG
Sbjct: 13 LLLIQKNGGPYEGRWDLPGGGIEPGESPEEALHREVLEETGLTVEIGRRLGSASRY 68
>gnl|CDD|223568 COG0494, MutT, NTP pyrophosphohydrolases including oxidative
damage repair enzymes [DNA replication, recombination,
and repair / General function prediction only].
Length = 161
Score = 47.9 bits (113), Expect = 3e-08
Identities = 21/58 (36%), Positives = 26/58 (44%), Gaps = 1/58 (1%)
Query: 36 TLILLVTSSRRPEHWIVPGGGVEPEEEPA-ATALREVAEEAGVLGKLGRSLGVFEVRP 92
+LL W +PGG VEP EE A RE+ EE G+ K R + E P
Sbjct: 24 GEVLLAQRRDDGGLWELPGGKVEPGEELPEEAAARELEEETGLRVKDERLELLGEFPP 81
>gnl|CDD|239520 cd03428, Ap4A_hydrolase_human_like, Diadenosine tetraphosphate
(Ap4A) hydrolase is a member of the Nudix hydrolase
superfamily. Ap4A hydrolases are well represented in a
variety of prokaryotic and eukaryotic organisms.
Phylogenetic analysis reveals two distinct subgroups
where plant enzymes fall into one subfamily and
fungi/animals/archaea enzymes, represented by this
subfamily, fall into another. Bacterial enzymes are
found in both subfamilies. Ap4A is a potential
by-product of aminoacyl tRNA synthesis, and
accumulation of Ap4A has been implicated in a range of
biological events, such as DNA replication, cellular
differentiation, heat shock, metabolic stress, and
apoptosis. Ap4A hydrolase cleaves Ap4A asymmetrically
into ATP and AMP. It is important in the invasive
properties of bacteria and thus presents a potential
target for inhibition of such invasive bacteria.
Besides the signature nudix motif (G[X5]E[X7]REUXEEXGU,
where U is Ile, Leu, or Val) that functions as a metal
binding and catalytic site, and a required divalent
cation, Ap4A hydrolase is structurally similar to the
other members of the nudix superfamily with some degree
of variation. Several regions in the sequences are
poorly defined and substrate and metal binding sites
are only predicted based on kinetic studies.
Length = 130
Score = 45.3 bits (108), Expect = 2e-07
Identities = 18/39 (46%), Positives = 22/39 (56%), Gaps = 2/39 (5%)
Query: 39 LLVTSSRRPEHWIVPGGGVEPEEEPAATALREVAEEAGV 77
LL+ +S HW P G VEP E+ ALRE EE G+
Sbjct: 20 LLLQASYG--HWDFPKGHVEPGEDDLEAALRETEEETGI 56
>gnl|CDD|240032 cd04676, Nudix_Hydrolase_17, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 129
Score = 44.2 bits (105), Expect = 4e-07
Identities = 19/39 (48%), Positives = 27/39 (69%)
Query: 50 WIVPGGGVEPEEEPAATALREVAEEAGVLGKLGRSLGVF 88
W +PGG VEP E PA TA+REV EE G+ ++ +G++
Sbjct: 27 WALPGGAVEPGESPADTAVREVREETGLDVEVTGLVGIY 65
>gnl|CDD|240036 cd04680, Nudix_Hydrolase_21, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 120
Score = 42.3 bits (100), Expect = 2e-06
Identities = 18/40 (45%), Positives = 24/40 (60%), Gaps = 1/40 (2%)
Query: 38 ILLVTSSRRPEHWIVPGGGVEPEEEPAATALREVAEEAGV 77
+LLV + P W +PGGG+E E A A RE+ EE G+
Sbjct: 14 VLLVRHTYGP-GWYLPGGGLERGETFAEAARRELLEELGI 52
>gnl|CDD|240042 cd04686, Nudix_Hydrolase_27, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 131
Score = 42.3 bits (100), Expect = 3e-06
Identities = 20/58 (34%), Positives = 30/58 (51%), Gaps = 3/58 (5%)
Query: 37 LILLVTSSRRPEHWIVPGGGVEPEEEPAATALREVAEEAG-VLGKLGRSLGVF-EVRP 92
ILL+ ++R + PGGGVE E+ +RE+ EE G ++ G + E RP
Sbjct: 12 KILLL-YTKRYGDYKFPGGGVEKGEDHIEGLIRELQEETGATNIRVIEKFGTYTERRP 68
>gnl|CDD|239643 cd03671, Ap4A_hydrolase_plant_like, Diadenosine tetraphosphate
(Ap4A) hydrolase is a member of the Nudix hydrolase
superfamily. Members of this family are well
represented in a variety of prokaryotic and eukaryotic
organisms. Phylogenetic analysis reveals two distinct
subgroups where plant enzymes fall into one group
(represented by this subfamily) and
fungi/animals/archaea enzymes fall into another.
Bacterial enzymes are found in both subfamilies. Ap4A
is a potential by-product of aminoacyl tRNA synthesis,
and accumulation of Ap4A has been implicated in a range
of biological events, such as DNA replication, cellular
differentiation, heat shock, metabolic stress, and
apoptosis. Ap4A hydrolase cleaves Ap4A asymmetrically
into ATP and AMP. It is important in the invasive
properties of bacteria and thus presents a potential
target for the inhibition of such invasive bacteria.
Besides the signature nudix motif (G[X5]E[X7]REUXEEXGU
where U is Ile, Leu, or Val), Ap4A hydrolase is
structurally similar to the other members of the nudix
superfamily with some degree of variations. Several
regions in the sequences are poorly defined and
substrate and metal binding sites are only predicted
based on kinetic studies.
Length = 147
Score = 42.2 bits (100), Expect = 4e-06
Identities = 14/31 (45%), Positives = 19/31 (61%)
Query: 47 PEHWIVPGGGVEPEEEPAATALREVAEEAGV 77
P W P GG++ E+P ALRE+ EE G+
Sbjct: 26 PGAWQFPQGGIDEGEDPEQAALRELEEETGL 56
>gnl|CDD|240038 cd04682, Nudix_Hydrolase_23, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 122
Score = 41.1 bits (97), Expect = 5e-06
Identities = 15/31 (48%), Positives = 18/31 (58%)
Query: 47 PEHWIVPGGGVEPEEEPAATALREVAEEAGV 77
P HW +PGG E E P LRE+ EE G+
Sbjct: 28 PGHWDLPGGHREGGETPLECVLRELLEEIGL 58
>gnl|CDD|239646 cd03674, Nudix_Hydrolase_1, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity. They
also contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, U=I, L or V), which forms a
structural motif that functions as a metal binding and
catalytic site. Substrates of nudix hydrolases include
intact and oxidatively damaged nucleoside
triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 138
Score = 41.6 bits (98), Expect = 5e-06
Identities = 19/52 (36%), Positives = 28/52 (53%), Gaps = 1/52 (1%)
Query: 39 LLVTSSRRPEHWIVPGGGVEPEEEPAATALREVAEEAGVLGKLGRSLGVFEV 90
+L+T R+ W+ PGG ++P+E ALRE+ EE G + LG V
Sbjct: 17 VLLTHHRKLGSWLQPGGHIDPDESLLEAALRELREETG-IELLGLRPLSVLV 67
>gnl|CDD|240035 cd04679, Nudix_Hydrolase_20, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 125
Score = 40.9 bits (96), Expect = 8e-06
Identities = 21/54 (38%), Positives = 28/54 (51%), Gaps = 2/54 (3%)
Query: 38 ILLVTSSRRPE--HWIVPGGGVEPEEEPAATALREVAEEAGVLGKLGRSLGVFE 89
+LLV R PE HW +PGG V+ E +RE+ EE G+ R L V +
Sbjct: 16 LLLVKRLRAPEAGHWGIPGGKVDWMEAVEDAVVREIEEETGLSIHSTRLLCVVD 69
>gnl|CDD|240043 cd04687, Nudix_Hydrolase_28, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 128
Score = 40.9 bits (96), Expect = 9e-06
Identities = 19/47 (40%), Positives = 24/47 (51%)
Query: 49 HWIVPGGGVEPEEEPAATALREVAEEAGVLGKLGRSLGVFEVRPKVP 95
+I+PGGG EP E A RE EE G+ ++G L V E P
Sbjct: 26 WYILPGGGQEPGETLEDAAHRECKEEIGIDVEIGPLLFVREYIGHNP 72
>gnl|CDD|240027 cd04670, Nudix_Hydrolase_12, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 127
Score = 40.8 bits (96), Expect = 9e-06
Identities = 14/28 (50%), Positives = 19/28 (67%)
Query: 50 WIVPGGGVEPEEEPAATALREVAEEAGV 77
W +PGG V+P E+ A+REV EE G+
Sbjct: 29 WKLPGGLVDPGEDIFDGAVREVLEETGI 56
>gnl|CDD|240046 cd04690, Nudix_Hydrolase_31, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 118
Score = 40.3 bits (95), Expect = 1e-05
Identities = 17/55 (30%), Positives = 27/55 (49%), Gaps = 2/55 (3%)
Query: 39 LLVTSSRRPEHWIVPGGGVEPEEEPAATALREVAEEAGV-LGKLG-RSLGVFEVR 91
+L+ R + + +PGG +E E P +RE++EE G+ L LG F
Sbjct: 14 VLLVRKRGTDVFYLPGGKIEAGETPLQALIRELSEELGLDLDPDSLEYLGTFRAP 68
>gnl|CDD|240022 cd04664, Nudix_Hydrolase_7, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 129
Score = 40.0 bits (94), Expect = 1e-05
Identities = 18/41 (43%), Positives = 21/41 (51%)
Query: 39 LLVTSSRRPEHWIVPGGGVEPEEEPAATALREVAEEAGVLG 79
LL S + W GG+E E PA A REVAEE G+
Sbjct: 19 LLRRSDKYAGFWQSVTGGIEDGESPAEAARREVAEETGLDP 59
>gnl|CDD|240026 cd04669, Nudix_Hydrolase_11, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 121
Score = 39.7 bits (93), Expect = 2e-05
Identities = 16/41 (39%), Positives = 23/41 (56%), Gaps = 1/41 (2%)
Query: 38 ILLVTSSRRPEH-WIVPGGGVEPEEEPAATALREVAEEAGV 77
ILL+ + + ++ PGGG+E E P A RE EE G+
Sbjct: 14 ILLIRRIKPGKTYYVFPGGGIEEGETPEEAAKREALEELGL 54
>gnl|CDD|240023 cd04665, Nudix_Hydrolase_8, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 118
Score = 39.6 bits (93), Expect = 2e-05
Identities = 17/44 (38%), Positives = 20/44 (45%)
Query: 50 WIVPGGGVEPEEEPAATALREVAEEAGVLGKLGRSLGVFEVRPK 93
W PGG VEP E A REV EE G +G ++V
Sbjct: 23 WEFPGGHVEPGETIEEAARREVWEETGAELGSLTLVGYYQVDLF 66
>gnl|CDD|240044 cd04688, Nudix_Hydrolase_29, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 126
Score = 39.6 bits (93), Expect = 3e-05
Identities = 19/53 (35%), Positives = 26/53 (49%)
Query: 39 LLVTSSRRPEHWIVPGGGVEPEEEPAATALREVAEEAGVLGKLGRSLGVFEVR 91
LLV + + PGGG+E E +RE EE G+ ++ R LGV E
Sbjct: 14 LLVQKNPDETFYRPPGGGIEFGESSEEALIREFKEELGLKIEITRLLGVVENI 66
>gnl|CDD|240033 cd04677, Nudix_Hydrolase_18, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 132
Score = 38.7 bits (91), Expect = 5e-05
Identities = 13/27 (48%), Positives = 16/27 (59%)
Query: 50 WIVPGGGVEPEEEPAATALREVAEEAG 76
W +PGG +E E TA RE+ EE G
Sbjct: 32 WGLPGGAMELGESLEETARRELKEETG 58
>gnl|CDD|240029 cd04672, Nudix_Hydrolase_14, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 123
Score = 38.7 bits (91), Expect = 5e-05
Identities = 17/52 (32%), Positives = 26/52 (50%), Gaps = 1/52 (1%)
Query: 38 ILLVTSSRRPEHWIVPGGGVEPEEEPAATALREVAEEAGVLGKLGRSLGVFE 89
ILLV + W +PGG + PA ++EV EE G+ K+ + V +
Sbjct: 15 ILLV-REKSDGLWSLPGGWADVGLSPAENVVKEVKEETGLDVKVRKLAAVDD 65
>gnl|CDD|239516 cd03424, ADPRase_NUDT5, ADP-ribose pyrophosphatase (ADPRase)
catalyzes the hydrolysis of ADP-ribose and a variety of
additional ADP-sugar conjugates to AMP and
ribose-5-phosphate. Like other members of the Nudix
hydrolase superfamily, it requires a divalent cation,
such as Mg2+, for its activity. It also contains a
highly conserved 23-residue Nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V) which functions
as a metal binding site/catalytic site. In addition to
the Nudix motif, there are additional conserved amino
acid residues, distal from the signature sequence, that
correlate with substrate specificity. In humans, there
are four distinct ADPRase activities, three putative
cytosolic enzymes (ADPRase-I, -II, and -Mn) and a
single mitochondrial enzyme (ADPRase-m). Human
ADPRase-II is also referred to as NUDT5. It lacks the
N-terminal target sequence unique to mitochondrial
ADPRase. The different cytosolic types are
distinguished by their specificities for substrate and
specific requirement for metal ions. NUDT5 forms a
homodimer.
Length = 137
Score = 38.6 bits (91), Expect = 7e-05
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 52 VPGGGVEPEEEPAATALREVAEEAG 76
+P G ++P E+P A RE+ EE G
Sbjct: 33 LPAGLIDPGEDPEEAARRELEEETG 57
>gnl|CDD|239519 cd03427, MTH1, MutT homolog-1 (MTH1) is a member of the Nudix
hydrolase superfamily. MTH1, the mammalian counterpart
of MutT, hydrolyzes oxidized purine nucleoside
triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to
monophosphates, thereby preventing the incorporation of
such oxygen radicals during replication. This is an
important step in the repair mechanism in genomic and
mitochondrial DNA. Like other members of the Nudix
family, it requires a divalent cation, such as Mg2+ or
Mn2+, for activity, and contain the Nudix motif, a
highly conserved 23-residue block (GX5EX7REUXEEXGU,
where U = I, L or V), that functions as a metal binding
and catalytic site. MTH1 is predominantly localized in
the cytoplasm and mitochondria. Structurally, this
enzyme adopts a similar fold to MutT despite low
sequence similarity outside the conserved nudix motif.
The most distinctive structural difference between MutT
and MTH1 is the presence of a beta-hairpin, which is
absent in MutT. This results in a much deeper and
narrower substrate binding pocket. Mechanistically,
MTH1 contains dual specificity for nucleotides that
contain 2-OH-adenine bases and those that contain
8-oxo-guanine bases.
Length = 137
Score = 37.2 bits (87), Expect = 2e-04
Identities = 17/52 (32%), Positives = 23/52 (44%), Gaps = 10/52 (19%)
Query: 36 TLILLVTSSR-------RPEH---WIVPGGGVEPEEEPAATALREVAEEAGV 77
TL + + + W PGG VEP E P A+RE+ EE G+
Sbjct: 4 TLCFIKDPDKVLLLNRKKGPGWGGWNGPGGKVEPGETPEECAIRELKEETGL 55
>gnl|CDD|236361 PRK08999, PRK08999, hypothetical protein; Provisional.
Length = 312
Score = 37.9 bits (89), Expect = 2e-04
Identities = 20/46 (43%), Positives = 23/46 (50%), Gaps = 9/46 (19%)
Query: 38 ILLVTSSRRPEH------WIVPGGGVEPEEEPAATALREVAEEAGV 77
ILL +RRPE W PGG VEP E RE+ EE G+
Sbjct: 19 ILL---ARRPEGKHQGGLWEFPGGKVEPGETVEQALARELQEELGI 61
>gnl|CDD|239642 cd03670, ADPRase_NUDT9, ADP-ribose pyrophosphatase (ADPRase)
catalyzes the hydrolysis of ADP-ribose to AMP and
ribose-5-P. Like other members of the Nudix hydrolase
superfamily of enzymes, it is thought to require a
divalent cation, such as Mg2+, for its activity. It
also contains a 23-residue Nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V) which functions
as a metal binding site/catalytic site. In addition to
the Nudix motif, there are additional conserved amino
acid residues, distal from the signature sequence, that
correlate with substrate specificity. In humans, there
are four distinct ADPRase activities, three putative
cytosolic (ADPRase-I, -II, and -Mn) and a single
mitochondrial enzyme (ADPRase-m). ADPRase-m is also
known as NUDT9. It can be distinugished from the
cytosolic ADPRase by a N-terminal target sequence
unique to mitochondrial ADPRase. NUDT9 functions as a
monomer.
Length = 186
Score = 37.5 bits (87), Expect = 3e-04
Identities = 18/40 (45%), Positives = 24/40 (60%), Gaps = 2/40 (5%)
Query: 38 ILLVTSSRRP--EHWIVPGGGVEPEEEPAATALREVAEEA 75
IL + +RP W +PGG V+P E+ +AT RE EEA
Sbjct: 48 ILQFVAIKRPDSGEWAIPGGMVDPGEKISATLKREFGEEA 87
>gnl|CDD|131752 TIGR02705, nudix_YtkD, nucleoside triphosphatase YtkD. The
functional assignment to the proteins of this family is
contentious. Reference challenges the findings of
reference , both in interpretation and in enzyme assay
results. This protein belongs to the nudix family and
shares some sequence identity with E. coli MutT but
appears not to be functionally interchangeable with it
[DNA metabolism, DNA replication, recombination, and
repair].
Length = 156
Score = 37.0 bits (86), Expect = 3e-04
Identities = 18/41 (43%), Positives = 23/41 (56%)
Query: 53 PGGGVEPEEEPAATALREVAEEAGVLGKLGRSLGVFEVRPK 93
PGG VEP E A+REV EE G + K +G +EV +
Sbjct: 50 PGGKVEPGETSKEAAIREVMEETGAIVKELHYIGQYEVEGE 90
>gnl|CDD|185369 PRK15472, PRK15472, nucleoside triphosphatase NudI; Provisional.
Length = 141
Score = 36.6 bits (85), Expect = 4e-04
Identities = 18/46 (39%), Positives = 22/46 (47%), Gaps = 6/46 (13%)
Query: 47 PEHWIVPGGGVEPEEEPAATALREVAEEAGVLGKLGRSLGVFEVRP 92
P W + GGGVEP E RE+ EE LG L + E+ P
Sbjct: 30 PGQWALSGGGVEPGERIEEALRREIREE------LGEQLLLTEITP 69
>gnl|CDD|240021 cd04663, Nudix_Hydrolase_6, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belong to this superfamily requires a divalent cation,
such as Mg2+ or Mn2+ for their activity and contain a
highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, U=I, L or V) which functions as metal
binding and catalytic site. Substrates of nudix
hydrolase include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 126
Score = 36.4 bits (84), Expect = 4e-04
Identities = 19/41 (46%), Positives = 24/41 (58%), Gaps = 1/41 (2%)
Query: 52 VPGGGVEPEEEPAATALREVAEEAGVLGKLG-RSLGVFEVR 91
+ G VEP E P A ALRE+ EE+G+ L L V+E R
Sbjct: 28 IVKGTVEPGETPEAAALRELQEESGLPSFLSDYILHVWERR 68
>gnl|CDD|239518 cd03426, CoAse, Coenzyme A pyrophosphatase (CoAse), a member of
the Nudix hydrolase superfamily, functions to catalyze
the elimination of oxidized inactive CoA, which can
inhibit CoA-utilizing enzymes. The need of CoAses
mainly arises under conditions of oxidative stress.
CoAse has a conserved Nudix fold and requires a single
divalent cation for catalysis. In addition to a
signature Nudix motif G[X5]E[X7]REUXEEXGU, where U is
Ile, Leu, or Val, CoAse contains an additional motif
upstream called the NuCoA motif (LLTXT(SA)X3RX3GX3FPGG)
which is postulated to be involved in CoA recognition.
CoA plays a central role in lipid metabolism. It is
involved in the initial steps of fatty acid sythesis in
the cytosol, in the oxidation of fatty acids and the
citric acid cycle in the mitochondria, and in the
oxidation of long-chain fatty acids in peroxisomes. CoA
has the important role of activating fatty acids for
further modification into key biological signalling
molecules.
Length = 157
Score = 36.4 bits (85), Expect = 5e-04
Identities = 20/37 (54%), Positives = 23/37 (62%), Gaps = 8/37 (21%)
Query: 53 PGGGVEPEEE-PAATALREVAEEAG-------VLGKL 81
PGG V+P +E P ATALRE EE G VLG+L
Sbjct: 37 PGGKVDPGDEDPVATALREAEEEIGLPPDSVEVLGRL 73
>gnl|CDD|240025 cd04667, Nudix_Hydrolase_10, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 112
Score = 35.4 bits (82), Expect = 8e-04
Identities = 21/67 (31%), Positives = 28/67 (41%), Gaps = 2/67 (2%)
Query: 29 TTACVMSTLILLVTSSRRPEHWIVPGGGVEPEEEPAATALREVAEEAGVLGKLGRSLGVF 88
T C +LLV + W +PGG +EP E P A RE+ EE G+ G L
Sbjct: 4 TVICRRGGRVLLV--RKSGSRWALPGGKIEPGETPLQAARRELQEETGLQGLDLLYLFHV 61
Query: 89 EVRPKVP 95
+
Sbjct: 62 DGGSTRH 68
>gnl|CDD|240045 cd04689, Nudix_Hydrolase_30, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U=I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 125
Score = 34.7 bits (80), Expect = 0.001
Identities = 23/52 (44%), Positives = 28/52 (53%), Gaps = 2/52 (3%)
Query: 39 LLVTSSRRPEHWIVPGGGVEPEEEPAATAL-REVAEEAGVLGKLGRSLGVFE 89
+L+ H+ +PGG VEP E A AL RE+ EE GV GR LG E
Sbjct: 14 VLLARVIGQPHYFLPGGHVEP-GETAENALRRELQEELGVAVSDGRFLGAIE 64
>gnl|CDD|235436 PRK05379, PRK05379, bifunctional nicotinamide mononucleotide
adenylyltransferase/ADP-ribose pyrophosphatase;
Provisional.
Length = 340
Score = 35.4 bits (82), Expect = 0.002
Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 4/55 (7%)
Query: 27 FITT--ACVMSTLILLVTSSRRPEH--WIVPGGGVEPEEEPAATALREVAEEAGV 77
F+T V S +LLV P W +PGG +E +E LRE+ EE G+
Sbjct: 203 FVTVDAVVVQSGHVLLVRRRAEPGKGLWALPGGFLEQDETLLDACLRELREETGL 257
>gnl|CDD|240055 cd04700, DR1025_like, DR1025 from Deinococcus radiodurans, a
member of the Nudix hydrolase superfamily, show
nucleoside triphosphatase and dinucleoside
polyphosphate pyrophosphatase activities. Like other
enzymes belonging to this superfamily, it requires a
divalent cation, in this case Mg2+, for its activity.
It also contains a highly conserved 23-residue nudix
motif (GX5EX7REUXEEXGU, where U = I, L or V), which
functions as a metal binding and catalytic site. In
general, substrates of nudix hydrolases include intact
and oxidatively damaged nucleoside triphosphates,
dinucleoside polyphosphates, nucleotide-sugars and
dinucleotide enzymes. These substrates are metabolites
or cell signaling molecules that require regulation
during different stages of the cell cycle or during
periods of stress. In general, the role of the nudix
hydrolase is to sanitize the nucleotide pools and to
maintain cell viability, thereby serving as
surveillance & "house-cleaning" enzymes. Substrate
specificity is used to define families within the
superfamily. Differences in substrate specificity are
determined by the N-terminal extension or by residues
in variable loop regions. Mechanistically, substrate
hydrolysis occurs by a nucleophilic substitution
reaction, with variation in the numbers and roles of
divalent cations required.
Length = 142
Score = 34.5 bits (79), Expect = 0.003
Identities = 19/53 (35%), Positives = 27/53 (50%), Gaps = 2/53 (3%)
Query: 38 ILLVTSSRRPEH--WIVPGGGVEPEEEPAATALREVAEEAGVLGKLGRSLGVF 88
+LLV P+ W +P G VE E P A+RE EE G+ + + LG +
Sbjct: 27 VLLVQEKGGPKKGLWHIPSGAVEDGEFPQDAAVREACEETGLRVRPVKFLGTY 79
>gnl|CDD|236516 PRK09438, nudB, dihydroneopterin triphosphate pyrophosphatase;
Provisional.
Length = 148
Score = 34.1 bits (79), Expect = 0.003
Identities = 15/32 (46%), Positives = 19/32 (59%)
Query: 46 RPEHWIVPGGGVEPEEEPAATALREVAEEAGV 77
P+ W G +E E PA TA+REV EE G+
Sbjct: 29 DPDFWQSVTGSLEEGETPAQTAIREVKEETGI 60
>gnl|CDD|239517 cd03425, MutT_pyrophosphohydrolase, The MutT pyrophosphohydrolase
is a prototypical Nudix hydrolase that catalyzes the
hydrolysis of nucleoside and deoxynucleoside
triphosphates (NTPs and dNTPs) by substitution at a
beta-phosphorus to yield a nucleotide monophosphate
(NMP) and inorganic pyrophosphate (PPi). This enzyme
requires two divalent cations for activity; one
coordinates the phosphoryl groups of the NTP/dNTP
substrate, and the other coordinates to the enzyme. It
also contains the Nudix motif, a highly conserved
23-residue block (GX5EX7REUXEEXGU, where U = I, L or
V), that functions as metal binding and catalytic site.
MutT pyrophosphohydrolase is important in preventing
errors in DNA replication by hydrolyzing mutagenic
nucleotides such as 8-oxo-dGTP (a product of oxidative
damage), which can mispair with template adenine during
DNA replication, to guanine nucleotides.
Length = 124
Score = 33.6 bits (78), Expect = 0.004
Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 6/39 (15%)
Query: 45 RRPEH------WIVPGGGVEPEEEPAATALREVAEEAGV 77
+RP W PGG VEP E P +RE+ EE G+
Sbjct: 19 QRPAGKHLGGLWEFPGGKVEPGETPEQALVRELREELGI 57
>gnl|CDD|182536 PRK10546, PRK10546, pyrimidine (deoxy)nucleoside triphosphate
pyrophosphohydrolase; Provisional.
Length = 135
Score = 33.6 bits (77), Expect = 0.005
Identities = 21/53 (39%), Positives = 27/53 (50%), Gaps = 11/53 (20%)
Query: 38 ILLVTSSRRPEH------WIVPGGGVEP-EEEPAATALREVAEEAGVLGKLGR 83
ILL ++RP H W GG VEP E +P A RE+ EE G+ +G
Sbjct: 17 ILL---AQRPAHSDQAGLWEFAGGKVEPGESQPQALI-RELREELGIEATVGE 65
>gnl|CDD|240052 cd04696, Nudix_Hydrolase_37, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 125
Score = 33.2 bits (76), Expect = 0.006
Identities = 17/40 (42%), Positives = 20/40 (50%)
Query: 37 LILLVTSSRRPEHWIVPGGGVEPEEEPAATALREVAEEAG 76
ILLV +++ W VPGG VE E RE EE G
Sbjct: 15 RILLVRTTKWRGLWGVPGGKVEWGETLEEALKREFREETG 54
>gnl|CDD|240050 cd04694, Nudix_Hydrolase_35, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 143
Score = 33.2 bits (76), Expect = 0.006
Identities = 14/31 (45%), Positives = 17/31 (54%)
Query: 47 PEHWIVPGGGVEPEEEPAATALREVAEEAGV 77
P W+ PGG VE E LRE+ EE G+
Sbjct: 28 PNVWVPPGGHVELGENLLEAGLRELNEETGL 58
>gnl|CDD|240053 cd04697, Nudix_Hydrolase_38, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 126
Score = 32.8 bits (75), Expect = 0.007
Identities = 21/68 (30%), Positives = 29/68 (42%), Gaps = 14/68 (20%)
Query: 35 STLILLVTSS------RR-------PEHW-IVPGGGVEPEEEPAATALREVAEEAGVLGK 80
+T I + S +R P +W I GG V+ E A RE+ EE G+ G
Sbjct: 2 ATYIFVFNSEGKLCVHKRTLTKDWCPGYWDIAFGGVVQAGESYLQNAQRELEEELGIDGV 61
Query: 81 LGRSLGVF 88
LG+F
Sbjct: 62 QLTPLGLF 69
>gnl|CDD|234820 PRK00714, PRK00714, RNA pyrophosphohydrolase; Reviewed.
Length = 156
Score = 32.8 bits (76), Expect = 0.009
Identities = 13/33 (39%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 46 RPEH-WIVPGGGVEPEEEPAATALREVAEEAGV 77
H W P GG++P E P RE+ EE G+
Sbjct: 29 GQGHSWQFPQGGIDPGETPEQAMYRELYEEVGL 61
>gnl|CDD|182721 PRK10776, PRK10776, nucleoside triphosphate pyrophosphohydrolase;
Provisional.
Length = 129
Score = 32.3 bits (74), Expect = 0.011
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 50 WIVPGGGVEPEEEPAATALREVAEEAGV 77
W PGG +E E P +RE+ EE G+
Sbjct: 33 WEFPGGKIEAGETPEQALIRELQEEVGI 60
>gnl|CDD|240047 cd04691, Nudix_Hydrolase_32, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 117
Score = 32.1 bits (73), Expect = 0.015
Identities = 14/31 (45%), Positives = 16/31 (51%)
Query: 47 PEHWIVPGGGVEPEEEPAATALREVAEEAGV 77
P +PGG +E E LREV EE GV
Sbjct: 26 PGKLNIPGGHIEAGESQEEALLREVQEELGV 56
>gnl|CDD|240054 cd04699, Nudix_Hydrolase_39, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 129
Score = 32.0 bits (73), Expect = 0.016
Identities = 16/44 (36%), Positives = 21/44 (47%), Gaps = 4/44 (9%)
Query: 38 ILLVTSSRRPEH----WIVPGGGVEPEEEPAATALREVAEEAGV 77
IL++ S+ W +PGG VE E REV EE G+
Sbjct: 15 ILILKRSKDERTAPGKWELPGGKVEEGETFEEALKREVYEETGL 58
>gnl|CDD|240020 cd04662, Nudix_Hydrolase_5, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 126
Score = 31.7 bits (72), Expect = 0.020
Identities = 11/27 (40%), Positives = 14/27 (51%)
Query: 50 WIVPGGGVEPEEEPAATALREVAEEAG 76
W +P G E+P A RE +EE G
Sbjct: 35 WSIPKGEYTEGEDPLLAAKREFSEETG 61
>gnl|CDD|240039 cd04683, Nudix_Hydrolase_24, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 120
Score = 31.6 bits (72), Expect = 0.025
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 50 WIVPGGGVEPEEEPAATALREVAEEAGV 77
W +P G +E E+ A+RE EE GV
Sbjct: 28 WALPAGHLEKGEDAVTAAVREAREEIGV 55
>gnl|CDD|240028 cd04671, Nudix_Hydrolase_13, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 123
Score = 31.3 bits (71), Expect = 0.028
Identities = 12/27 (44%), Positives = 14/27 (51%)
Query: 50 WIVPGGGVEPEEEPAATALREVAEEAG 76
W +P G +EP E REV EE G
Sbjct: 28 WYLPAGRMEPGETIEEAVKREVKEETG 54
>gnl|CDD|239948 cd04511, Nudix_Hydrolase_4, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, U=I, L or V), which functions as a
metal binding and catalytic site. Substrates of nudix
hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 130
Score = 31.5 bits (72), Expect = 0.030
Identities = 19/55 (34%), Positives = 26/55 (47%), Gaps = 2/55 (3%)
Query: 38 ILLVTSSRRPEH--WIVPGGGVEPEEEPAATALREVAEEAGVLGKLGRSLGVFEV 90
+LL + P H W +P G +E E ALRE EEAG ++ V+ V
Sbjct: 26 VLLCRRAIEPRHGFWTLPAGFMENGETTEQGALRETWEEAGARVEIDGLYAVYSV 80
>gnl|CDD|200031 TIGR00586, mutt, mutator mutT protein. All proteins in this
family for which functions are known are involved in
repairing oxidative damage to dGTP (they are
8-oxo-dGTPases). This family is based on the
phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis,
Stanford University). Lowering the threshold picks up
members of MutT superfamily well [DNA metabolism, DNA
replication, recombination, and repair].
Length = 128
Score = 30.6 bits (69), Expect = 0.054
Identities = 11/28 (39%), Positives = 14/28 (50%)
Query: 50 WIVPGGGVEPEEEPAATALREVAEEAGV 77
PGG E E P +RE+ EE G+
Sbjct: 33 LEFPGGKEEGGETPEQAVVRELEEEIGI 60
>gnl|CDD|240051 cd04695, Nudix_Hydrolase_36, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 131
Score = 30.5 bits (69), Expect = 0.054
Identities = 15/43 (34%), Positives = 20/43 (46%)
Query: 35 STLILLVTSSRRPEHWIVPGGGVEPEEEPAATALREVAEEAGV 77
+ ++LL W GGVE E ALRE+ EE G+
Sbjct: 14 TKVLLLKRVKTLGGFWCHVAGGVEAGETAWQAALRELKEETGI 56
>gnl|CDD|239644 cd03672, Dcp2p, mRNA decapping enzyme 2 (Dcp2p), the catalytic
subunit, and Dcp1p are the two components of the
decapping enzyme complex. Decapping is a key step in
both general and nonsense-mediated 5'->3' mRNA-decay
pathways. Dcp2p contains an all-alpha helical
N-terminal domain and a C-terminal domain which has the
Nudix fold. While decapping is not dependent on the
N-terminus of Dcp2p, it does affect its efficiency.
Dcp1p binds the N-terminal domain of Dcp2p stimulating
the decapping activity of Dcp2p. Decapping permits the
degradation of the transcript and is a site of numerous
control inputs. It is responsible for nonsense-mediated
decay as well as AU-rich element (ARE)-mediated decay.
In addition, it may also play a role in the levels of
mRNA. Enzymes belonging to the Nudix superfamily
require a divalent cation, such as Mg2+ or Mn2+, for
their activity and are recognized by a highly conserved
23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L
or V).
Length = 145
Score = 30.7 bits (70), Expect = 0.062
Identities = 14/39 (35%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 38 ILLVTSSRRPEHWIVPGGGVEPEEEPAATALREVAEEAG 76
+LLV + + W P G + +E+ A+REV EE G
Sbjct: 16 VLLVKGWKS-KSWSFPKGKINKDEDDHDCAIREVYEETG 53
>gnl|CDD|240037 cd04681, Nudix_Hydrolase_22, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 130
Score = 30.1 bits (68), Expect = 0.075
Identities = 15/42 (35%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 38 ILLVTSSRRPEH--WIVPGGGVEPEEEPAATALREVAEEAGV 77
+L+V +R P +PGG V+P E +RE+ EE G+
Sbjct: 15 LLVVRRAREPGKGTLDLPGGFVDPGESAEEALIREIREETGL 56
>gnl|CDD|182663 PRK10707, PRK10707, putative NUDIX hydrolase; Provisional.
Length = 190
Score = 30.3 bits (69), Expect = 0.097
Identities = 20/52 (38%), Positives = 25/52 (48%), Gaps = 10/52 (19%)
Query: 53 PGGGVEPEE-EPAATALREVAEEAG-------VLGKLG--RSLGVFEVRPKV 94
PGG V+P + ATALRE EE V+G L S ++V P V
Sbjct: 65 PGGAVDPTDASLIATALREAQEEVAIPPSAVEVIGVLPPVDSSTGYQVTPVV 116
>gnl|CDD|239521 cd03429, NADH_pyrophosphatase, NADH pyrophosphatase, a member of
the Nudix hydrolase superfamily, catalyzes the cleavage
of NADH into reduced nicotinamide mononucleotide (NMNH)
and AMP. Like other members of the Nudix family, it
requires a divalent cation, such as Mg2+ or Mn2+, for
activity. Members of this family are also recognized by
the Nudix motif, a highly conserved 23-residue block
(GX5EX7REUXEEXGU, where U = I, L or V), that functions
as a metal binding and catalytic site. A block of 8
conserved amino acids downstream of the nudix motif is
thought to give NADH pyrophosphatase its specificity
for NADH. NADH pyrophosphatase forms a dimer.
Length = 131
Score = 29.8 bits (68), Expect = 0.12
Identities = 16/41 (39%), Positives = 19/41 (46%), Gaps = 1/41 (2%)
Query: 38 ILLVTSSRRPEH-WIVPGGGVEPEEEPAATALREVAEEAGV 77
ILL R P + + G VEP E REV EE G+
Sbjct: 14 ILLARQPRFPPGMYSLLAGFVEPGESLEEAVRREVKEEVGI 54
>gnl|CDD|240049 cd04693, Nudix_Hydrolase_34, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 127
Score = 29.3 bits (66), Expect = 0.19
Identities = 17/49 (34%), Positives = 20/49 (40%), Gaps = 6/49 (12%)
Query: 46 RPEHWIVPGGGVEPEEEPAATALREVAEEAGVLGKLGRSLGVFEVRPKV 94
P W + GG E + A REV EE LG L E+RP
Sbjct: 26 WPGMWDLSVGGHVQAGETSTAAEREVKEE------LGLELDFSELRPLF 68
>gnl|CDD|226604 COG4119, COG4119, Predicted NTP pyrophosphohydrolase [DNA
replication, recombination, and repair / General
function prediction only].
Length = 161
Score = 28.7 bits (64), Expect = 0.27
Identities = 11/28 (39%), Positives = 15/28 (53%)
Query: 50 WIVPGGGVEPEEEPAATALREVAEEAGV 77
W +P G E+P A RE +EE G+
Sbjct: 38 WSIPKGEYTGGEDPWLAARREFSEEIGI 65
>gnl|CDD|220600 pfam10147, CR6_interact, Growth arrest and DNA-damage-inducible
proteins-interacting protein 1. Members of this family
of proteins act as negative regulators of G1 to S cell
cycle phase progression by inhibiting cyclin-dependent
kinases. Inhibitory effects are additive with GADD45
proteins but occur also in the absence of GADD45
proteins. Furthermore, they act as a repressor of the
orphan nuclear receptor NR4A1 by inhibiting AB
domain-mediated transcriptional activity.
Length = 217
Score = 28.6 bits (64), Expect = 0.32
Identities = 12/71 (16%), Positives = 22/71 (30%), Gaps = 2/71 (2%)
Query: 17 SVRRCPTMALFITTACVMSTLILLVTSSRRPEHWIVPGGGVEPEEEPAATALREVAEEAG 76
R ++ T + S RP H + + + P+ E
Sbjct: 7 RRRNLLSLPRTFVTLREAEIAPKVDRSRLRPRHRNLLAPYLPDPQSPSWH--LTEKYERK 64
Query: 77 VLGKLGRSLGV 87
+ G+ G + GV
Sbjct: 65 LFGRYGLASGV 75
>gnl|CDD|239522 cd03430, GDPMH, GDP-mannose glycosyl hydrolase (AKA GDP-mannose
mannosyl hydrolase (GDPMH)) is a member of the Nudix
hydrolase superfamily. This class of enzymes is unique
from other members of the superfamily in two aspects.
First, it contains a modified Nudix signature sequence.
The slight changes to the conserved sequence motif,
GX5EX7REUXEEXGU, where U = I, L or V), are believed to
contribute to the removal of all magnesium binding
sites but one, retaining only the metal site that
coordinates the pyrophosphate of the substrate.
Secondly, it is not a pyrophosphatase that substitutes
at a phosphorus; instead, it hydrolyzes nucleotide
sugars such as GDP-mannose to GDP and mannose, cleaving
the phosphoglycosyl bond by substituting at a carbon
position. GDP-mannose provides mannosyl components for
cell wall synthesis and is required for the synthesis
of other glycosyl donors (such as GDP-fucose and
colitose) for the cell wall. The importance of
GDP-sugar hydrolase activities is thus closely related
to the regulation of cell wall biosynthesis. Enzymes in
this family are believed to regulate the concentration
of GDP-mannose and GDP-glucose in the bacterial cell
wall.
Length = 144
Score = 28.5 bits (64), Expect = 0.34
Identities = 14/42 (33%), Positives = 18/42 (42%), Gaps = 2/42 (4%)
Query: 50 WIVPGGGVEPEEEPAATALREVAEEAGVLGKL--GRSLGVFE 89
W VPGG + E R +E G+ + LGVFE
Sbjct: 40 WFVPGGRIRKNETLTEAFERIAKDELGLEFLISDAELLGVFE 81
>gnl|CDD|183303 PRK11762, nudE, adenosine nucleotide hydrolase NudE; Provisional.
Length = 185
Score = 28.2 bits (64), Expect = 0.40
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 53 PGGGVEPEEEPAATALREVAEEAG 76
P G ++P E P A RE+ EE G
Sbjct: 79 PKGLIDPGETPLEAANRELKEEVG 102
>gnl|CDD|223784 COG0712, AtpH, F0F1-type ATP synthase, delta subunit
(mitochondrial oligomycin sensitivity protein) [Energy
production and conversion].
Length = 178
Score = 28.4 bits (64), Expect = 0.43
Identities = 12/38 (31%), Positives = 17/38 (44%), Gaps = 4/38 (10%)
Query: 61 EEPAATALREVAEEAGVLGK----LGRSLGVFEVRPKV 94
A AL E+AEE G L + L + + PK+
Sbjct: 8 ARRYAKALFELAEEKGQLEEVEEELTFLAEILKNSPKL 45
>gnl|CDD|239647 cd03675, Nudix_Hydrolase_2, Contains a crystal structure of the
Nudix hydrolase from Nitrosomonas europaea, which has
an unknown function. In general, members of the Nudix
hydrolase superfamily catalyze the hydrolysis of
NUcleoside DIphosphates linked to other moieties, X.
Enzymes belonging to this superfamily require a
divalent cation, such as Mg2+ or Mn2+, for their
activity. They also contain a highly conserved
23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L
or V), which forms a structural motif that functions as
a metal binding and catalytic site. Substrates of nudix
hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 134
Score = 27.9 bits (63), Expect = 0.45
Identities = 13/36 (36%), Positives = 18/36 (50%)
Query: 53 PGGGVEPEEEPAATALREVAEEAGVLGKLGRSLGVF 88
P G +EP E A+RE EE G + LG++
Sbjct: 29 PAGHLEPGESLIEAAVRETLEETGWHVEPTALLGIY 64
>gnl|CDD|129162 TIGR00052, TIGR00052, nudix-type nucleoside diphosphatase,
YffH/AdpP family. Members of this family include
proteins of about 200 amino acids, including the
recently characterized nudix hydrolase YffH, shows to be
highly active as a GDP-mannose pyrophosphatase. It also
includes the C-terminal half of a 361-amino acid
protein, TrgB from Rhodobacter sphaeroides, shown
experimentally to help confer tellurite resistance. This
model also hits a region near the C-terminus of a
1092-amino acid protein of C. elegans [Unknown function,
Enzymes of unknown specificity].
Length = 185
Score = 28.2 bits (63), Expect = 0.54
Identities = 17/38 (44%), Positives = 18/38 (47%)
Query: 55 GGVEPEEEPAATALREVAEEAGVLGKLGRSLGVFEVRP 92
G VE E P A RE EEAG K R L F + P
Sbjct: 84 GMVEKGESPEDVARREAIEEAGYQVKNLRKLLSFYMSP 121
>gnl|CDD|178311 PLN02709, PLN02709, nudix hydrolase.
Length = 222
Score = 27.8 bits (61), Expect = 0.73
Identities = 19/49 (38%), Positives = 25/49 (51%), Gaps = 1/49 (2%)
Query: 42 TSSRRPEHWIVPGGGVEPEE-EPAATALREVAEEAGVLGKLGRSLGVFE 89
T S P +PGG + E+ + ATALRE EE G+ L + V E
Sbjct: 61 TLSSHPGEVALPGGKRDEEDKDDIATALREAREEIGLDPSLVTIISVLE 109
>gnl|CDD|237966 PRK15434, PRK15434, GDP-mannose mannosyl hydrolase NudD;
Provisional.
Length = 159
Score = 27.4 bits (61), Expect = 0.91
Identities = 18/53 (33%), Positives = 25/53 (47%), Gaps = 4/53 (7%)
Query: 38 ILLVTSSRRPE--HWIVPGGGVEPEEEPAATALREVAEEAGVLGKLGRSLGVF 88
LL + RP +W VPGG V+ +E A R E G+ +L + G F
Sbjct: 31 FLLGKRTNRPAQGYWFVPGGRVQKDETLEAAFERLTMAELGL--RLPITAGQF 81
>gnl|CDD|235748 PRK06224, PRK06224, citrate synthase; Provisional.
Length = 263
Score = 27.1 bits (61), Expect = 1.3
Identities = 15/43 (34%), Positives = 20/43 (46%), Gaps = 3/43 (6%)
Query: 40 LVTSSRRPEHWIVPGGG--VEPEEEPAATALREVAEEAGVLGK 80
+V R VPG G + +P A L +A EAGV G+
Sbjct: 133 IVAEYRA-AGKRVPGFGHPLHKPVDPRAPRLLALAREAGVAGR 174
>gnl|CDD|240034 cd04678, Nudix_Hydrolase_19, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 129
Score = 26.8 bits (60), Expect = 1.4
Identities = 13/28 (46%), Positives = 16/28 (57%)
Query: 50 WIVPGGGVEPEEEPAATALREVAEEAGV 77
W +PGG +E E A REV EE G+
Sbjct: 30 WALPGGHLEFGESFEECAAREVLEETGL 57
>gnl|CDD|240019 cd04661, MRP_L46, Mitochondrial ribosomal protein L46 (MRP L46)
is a component of the large subunit (39S) of the
mammalian mitochondrial ribosome and a member of the
Nudix hydrolase superfamily. MRPs are thought to be
involved in the maintenance of the mitochondrial DNA.
In general, members of the Nudix superfamily require a
divalent cation, such as Mg2+ or Mn2+, for activity and
contain the Nudix motif, a highly conserved 23-residue
block (GX5EX7REUXEEXGU, where U = I, L or V), which
functions as a metal binding and catalytic site. MRP
L46 appears to contain a modified nudix motif.
Length = 132
Score = 26.2 bits (58), Expect = 2.2
Identities = 17/46 (36%), Positives = 21/46 (45%), Gaps = 1/46 (2%)
Query: 32 CVMSTLILLVTSS-RRPEHWIVPGGGVEPEEEPAATALREVAEEAG 76
+ TL+LLV HWI+P G E E TA R + E G
Sbjct: 9 KLDDTLVLLVQQKVGSQNHWILPQGKREEGETLRQTAERTLKELCG 54
>gnl|CDD|233107 TIGR00734, hisAF_rel, hisA/hisF family protein. This model models
a family of proteins found so far in three archaeal
species: Methanobacterium thermoautotrophicum,
Methanococcus jannaschii, and Archaeoglobus fulgidus.
This protein is homologous to
phosphoribosylformimino-5-aminoimidazole carboxamide
ribotide isomerase (HisA) and, with lower similarity, to
the cyclase HisF, both of which are enzymes of histidine
biosynthesis. Each species with this protein also
encodes HisA. The function of this protein is unknown
[Unknown function, General].
Length = 221
Score = 26.0 bits (57), Expect = 2.7
Identities = 11/34 (32%), Positives = 17/34 (50%), Gaps = 6/34 (17%)
Query: 48 EHWIVPGGGVEPEEEPAATALREVAEEAGVLGKL 81
EH ++ GGG+ E+ E+ +E GV L
Sbjct: 184 EHPVMLGGGISGVEDL------ELLKEMGVSAVL 211
>gnl|CDD|201228 pfam00440, TetR_N, Bacterial regulatory proteins, tetR family.
Length = 47
Score = 24.7 bits (55), Expect = 2.8
Identities = 9/14 (64%), Positives = 12/14 (85%)
Query: 64 AATALREVAEEAGV 77
AT +RE+A+EAGV
Sbjct: 15 DATTVREIAKEAGV 28
>gnl|CDD|240048 cd04692, Nudix_Hydrolase_33, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 144
Score = 25.7 bits (57), Expect = 3.1
Identities = 11/32 (34%), Positives = 15/32 (46%), Gaps = 1/32 (3%)
Query: 47 PEHW-IVPGGGVEPEEEPAATALREVAEEAGV 77
P W I G + E P +RE+ EE G+
Sbjct: 32 PGLWDISSAGHILAGETPLEDGIRELEEELGL 63
>gnl|CDD|239648 cd03676, Nudix_hydrolase_3, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belong to this superfamily requires a divalent cation,
such as Mg2+ or Mn2+, for their activity and contain a
highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 180
Score = 25.7 bits (57), Expect = 3.4
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 54 GGGVEPEEEPAATALREVAEEAGV 77
GG+ E P T ++E EEAG+
Sbjct: 71 AGGLGHGEGPEETLVKECDEEAGL 94
>gnl|CDD|240031 cd04674, Nudix_Hydrolase_16, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity and
contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability,
thereby serving as surveillance & "house-cleaning"
enzymes. Substrate specificity is used to define
families within the superfamily. Differences in
substrate specificity are determined by the N-terminal
extension or by residues in variable loop regions.
Mechanistically, substrate hydrolysis occurs by a
nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 118
Score = 25.5 bits (56), Expect = 3.6
Identities = 11/28 (39%), Positives = 14/28 (50%)
Query: 50 WIVPGGGVEPEEEPAATALREVAEEAGV 77
+PGG +E E RE+ EE GV
Sbjct: 31 LALPGGFIELGETWQDAVARELLEETGV 58
>gnl|CDD|182682 PRK10729, nudF, ADP-ribose pyrophosphatase NudF; Provisional.
Length = 202
Score = 25.5 bits (56), Expect = 4.7
Identities = 10/23 (43%), Positives = 12/23 (52%)
Query: 55 GGVEPEEEPAATALREVAEEAGV 77
G +E E A RE EEAG+
Sbjct: 89 GMIEEGESVEDVARREAIEEAGL 111
>gnl|CDD|212666 cd07802, FGGY_L-XK, L-xylulose kinases; a subfamily of the FGGY
family of carbohydrate kinases. This subfamily is
composed of bacterial L-xylulose kinases (L-XK, also
known as L-xylulokinase; EC 2.7.1.53), which catalyze
the ATP-dependent phosphorylation of L-xylulose to
produce L-xylulose 5-phosphate and ADP. The presence of
Mg2+ might be required for catalytic activity. Some
uncharacterized sequences are also included in this
subfamily. L-XKs belong to the FGGY family of
carbohydrate kinases, the monomers of which contain two
large domains, which are separated by a deep cleft that
forms the active site. This model includes both the
N-terminal domain, which adopts a ribonuclease H-like
fold, and the structurally related C-terminal domain.
Length = 447
Score = 25.2 bits (56), Expect = 5.4
Identities = 17/52 (32%), Positives = 25/52 (48%), Gaps = 4/52 (7%)
Query: 40 LVTSSRRPEHWIVPGGGVE--PEE--EPAATALREVAEEAGVLGKLGRSLGV 87
+ +SRR G VE +E E A +RE+ E+AGV + +GV
Sbjct: 24 IAVASRRNPTLTPQPGYVEQDMDELWEAVAAVIRELLEKAGVDAEDIAGIGV 75
>gnl|CDD|110325 pfam01312, Bac_export_2, FlhB HrpN YscU SpaS Family. This family
includes the following members: FlhB, HrpN, YscU, SpaS,
HrcU SsaU and YopU. All of these proteins export
peptides using the type III secretion system. The
peptides exported are quite diverse.
Length = 343
Score = 25.3 bits (56), Expect = 5.7
Identities = 18/56 (32%), Positives = 24/56 (42%), Gaps = 16/56 (28%)
Query: 45 RRPEHWIVPGGGVEPEEEPA-----------ATALREVAEEAGVL----GKLGRSL 85
P H+ V +PEE PA A A+R +AEE G+ L R+L
Sbjct: 263 TNPTHYAV-ALYYDPEEMPAPRIVAKGEDEQALAIRAIAEENGIPVVENPPLARAL 317
>gnl|CDD|227394 COG5062, COG5062, Uncharacterized membrane protein [Function
unknown].
Length = 429
Score = 25.2 bits (55), Expect = 5.9
Identities = 6/28 (21%), Positives = 11/28 (39%)
Query: 26 LFITTACVMSTLILLVTSSRRPEHWIVP 53
+ C++ L L R+P + P
Sbjct: 65 TYALFLCLLGFLFLFWRRLRKPVNPGNP 92
>gnl|CDD|143605 cd07581, nitrilase_3, Uncharacterized subgroup of the nitrilase
superfamily (putative class 13 nitrilases). The
nitrilase superfamily is comprised of nitrile- or
amide-hydrolyzing enzymes and amide-condensing enzymes,
which depend on a Glu-Lys-Cys catalytic triad. This
superfamily has been classified in the literature based
on global and structure based sequence analysis into
thirteen different enzyme classes (referred to as
1-13). Class 13 represents proteins that at the time
were difficult to place in a distinct similarity group;
this subgroup represents either a new class or one that
was included previously in class 13. Members of this
superfamily generally form homomeric complexes, the
basic building block of which is a homodimer.
Length = 255
Score = 25.2 bits (56), Expect = 6.4
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 58 EPEEEPAATALREVAEEAGV 77
EP + P +AL +A E G+
Sbjct: 56 EPLDGPFVSALARLARELGI 75
>gnl|CDD|143600 cd07576, R-amidase_like, Pseudomonas sp. MCI3434 R-amidase and
related proteins (putative class 13 nitrilases).
Pseudomonas sp. MCI3434 R-amidase hydrolyzes
(R,S)-piperazine-2-tert-butylcarboxamide to form
(R)-piperazine-2-carboxylic acid. It does so with
strict R-stereoselectively. Its preferred substrates
are carboxamide compounds which have the amino or imino
group connected to their beta- or gamma-carbon. This
subgroup belongs to a larger nitrilase superfamily
comprised of nitrile- or amide-hydrolyzing enzymes and
amide-condensing enzymes, which depend on a Glu-Lys-Cys
catalytic triad. This superfamily has been classified
in the literature based on global and structure based
sequence analysis into thirteen different enzyme
classes (referred to as 1-13), class 13 represents
proteins that at the time were difficult to place in a
distinct similarity group. It has been suggested that
this subgroup represents a new class. Members of the
nitrilase superfamily generally form homomeric
complexes, the basic building block of which is a
homodimer. Native R-amidase however appears to be a
monomer.
Length = 254
Score = 25.2 bits (56), Expect = 6.5
Identities = 9/20 (45%), Positives = 12/20 (60%)
Query: 58 EPEEEPAATALREVAEEAGV 77
EP + PA ALR +A G+
Sbjct: 57 EPADGPALQALRAIARRHGI 76
>gnl|CDD|235939 PRK07114, PRK07114,
keto-hydroxyglutarate-aldolase/keto-deoxy-
phosphogluconate aldolase; Provisional.
Length = 222
Score = 25.0 bits (55), Expect = 7.8
Identities = 12/25 (48%), Positives = 15/25 (60%), Gaps = 2/25 (8%)
Query: 40 LVTSSRRPEHW--IVPGGGVEPEEE 62
V + + P W I+P GGVEP EE
Sbjct: 148 FVKAIKGPMPWTKIMPTGGVEPTEE 172
>gnl|CDD|140234 PTZ00207, PTZ00207, hypothetical protein; Provisional.
Length = 591
Score = 24.8 bits (54), Expect = 8.7
Identities = 11/24 (45%), Positives = 17/24 (70%), Gaps = 1/24 (4%)
Query: 20 RCP-TMALFITTACVMSTLILLVT 42
R P T+ALFI + C+++ L L +T
Sbjct: 426 RVPITIALFIPSVCIITMLTLFLT 449
>gnl|CDD|183012 PRK11172, dkgB, 2,5-diketo-D-gluconate reductase B; Provisional.
Length = 267
Score = 24.6 bits (54), Expect = 8.9
Identities = 13/39 (33%), Positives = 15/39 (38%), Gaps = 7/39 (17%)
Query: 49 HWIVPGGGVEPEEEPAATALREVAEEAGVLGKLGRSLGV 87
HW P V EE A EA G L R +G+
Sbjct: 97 HWPSPNDEVSVEEFMQALL------EAKKQG-LTREIGI 128
>gnl|CDD|214423 MTH00112, ND2, NADH dehydrogenase subunit 2; Provisional.
Length = 346
Score = 24.8 bits (55), Expect = 9.2
Identities = 11/30 (36%), Positives = 16/30 (53%), Gaps = 5/30 (16%)
Query: 22 PTMALFITTACVMSTLILLVTSSRRPEHWI 51
P L ITT+ ++ T+I SS HW+
Sbjct: 3 PHAKLIITTSLILGTII--TISS---NHWL 27
>gnl|CDD|225373 COG2816, NPY1, NTP pyrophosphohydrolases containing a Zn-finger,
probably nucleic-acid-binding [DNA replication,
recombination, and repair].
Length = 279
Score = 24.6 bits (54), Expect = 9.7
Identities = 15/41 (36%), Positives = 18/41 (43%), Gaps = 1/41 (2%)
Query: 38 ILLVTSSRRPEH-WIVPGGGVEPEEEPAATALREVAEEAGV 77
ILL R + + G VEP E REV EE G+
Sbjct: 157 ILLARHPRHFPGMYSLLAGFVEPGETLEQAVAREVFEEVGI 197
>gnl|CDD|233197 TIGR00937, 2A51, chromate transporter, chromate ion transporter
(CHR) family. Members of this family probably act as
chromate transporters, and are found in Pseudomonas
aeruginosa, Alcaligenes eutrophus, Vibrio cholerae,
Bacillus subtilis, cyanobacteria and archaea. The
protein reduces chromate accumulation and is essential
for chromate resistance. Cutoffs for this model have now
been lowered, compared to a previous version, giving the
model a scope more similar to that of pfam02417. Members
of the original, more narrowly defined family score
above 500.00 bits [Transport and binding proteins,
Anions].
Length = 368
Score = 24.6 bits (54), Expect = 9.7
Identities = 8/31 (25%), Positives = 13/31 (41%), Gaps = 1/31 (3%)
Query: 28 ITTACV-MSTLILLVTSSRRPEHWIVPGGGV 57
I T V +S L+ + PE +V +
Sbjct: 336 IPTLLVFVSLFAALLKFKKLPEWVVVLLAAL 366
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.320 0.137 0.424
Gapped
Lambda K H
0.267 0.0638 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,874,669
Number of extensions: 400988
Number of successful extensions: 679
Number of sequences better than 10.0: 1
Number of HSP's gapped: 675
Number of HSP's successfully gapped: 110
Length of query: 95
Length of database: 10,937,602
Length adjustment: 62
Effective length of query: 33
Effective length of database: 8,187,654
Effective search space: 270192582
Effective search space used: 270192582
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (24.4 bits)