RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780557|ref|YP_003064970.1| dinucleoside polyphosphate
hydrolase [Candidatus Liberibacter asiaticus str. psy62]
(160 letters)
>gnl|CDD|72891 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 = 157 bits (398), Expect = 1e-39
Identities = 63/155 (40%), Positives = 86/155 (55%), Gaps = 13/155 (8%)
Query: 1 MYRRGVGILILNQDDLVWVGRRCFHDNNKHLSLWQMPQGGINPQEDPLDAAYRELYEETG 60
YR VG+++ N+D V+VGRR WQ PQGGI+ EDP AA REL EETG
Sbjct: 1 PYRPNVGVVLFNEDGKVFVGRRIDTPG-----AWQFPQGGIDEGEDPEQAALRELEEETG 55
Query: 61 IK--SISLLGQGDSYIQYDFPAHC---IQENGYVGQMQKWFAFRFQGLTSEICVDRTAYG 115
+ S+ ++ + +++YD P I Y GQ QKWF FRF G SEI ++
Sbjct: 56 LDPDSVEIIAEIPDWLRYDLPPELKLKIWGGRYRGQEQKWFLFRFTGDDSEIDLNAPE-- 113
Query: 116 YESEFDAWTWVSLWDTPNIVVDFKKEAYRQVVADF 150
EFD W WV L + P+++V FK+ Y V+ +F
Sbjct: 114 -HPEFDEWRWVPLEELPDLIVPFKRPVYEAVLKEF 147
>gnl|CDD|144032 pfam00293, NUDIX, NUDIX domain.
Length = 133
Score = 83.7 bits (207), Expect = 2e-17
Identities = 42/149 (28%), Positives = 66/149 (44%), Gaps = 17/149 (11%)
Query: 2 YRRGVGILILNQDDLVWVGRRCFHDNNKHLSLWQMPQGGINPQEDPLDAAYRELYEETGI 61
RR VG+++LN+D V + RR LW++P G + P E P +AA REL EETG+
Sbjct: 1 RRRAVGVVLLNEDGEVLLVRR--SRTPGTPGLWELPGGKVEPGESPEEAAVRELEEETGL 58
Query: 62 KSISLLGQGDSYIQYDFPAHCIQENGYVGQMQKWFAFRFQGLTSEICVDRTAYGYESEFD 121
+ + LL G ++Y P ++E F G E D E
Sbjct: 59 RVLLLLLLG--VLEYPAPGRDLRE------HVHVFLAELLGGEPEPQPDPG------EVS 104
Query: 122 AWTWVSLWDTPNIVVDFK-KEAYRQVVAD 149
WV L + +++ + +E ++A
Sbjct: 105 EVRWVPLEELLELLLAGEIREVIALLLAL 133
>gnl|CDD|30840 COG0494, MutT, NTP pyrophosphohydrolases including oxidative damage
repair enzymes [DNA replication, recombination, and
repair / General function prediction only].
Length = 161
Score = 60.0 bits (143), Expect = 2e-10
Identities = 32/161 (19%), Positives = 58/161 (36%), Gaps = 8/161 (4%)
Query: 1 MYRRGVGILILNQDDLVWVGRRCFHDNNKHLSLWQMPQGGINPQEDPL-DAAYRELYEET 59
R V + +L D G LW++P G + P E+ +AA REL EET
Sbjct: 7 RKVRDVAVAVLVGRD--GPGEVLLAQRRDDGGLWELPGGKVEPGEELPEEAAARELEEET 64
Query: 60 GIKSISLLGQGDSYIQYDFPAHCIQENGYVGQMQKWFAFRFQGLTSEICVDRTAYGYESE 119
G++ + + +FP + G+ + F + + ++ + E E
Sbjct: 65 GLR----VKDERLELLGEFPPSPGDGSSVGGREHRVFFVAEVDDSLAVAIEGLSAPSE-E 119
Query: 120 FDAWTWVSLWDTPNIVVDFKKEAYRQVVADFAYLIKSEPMG 160
+ WV L + +V+ + A L +
Sbjct: 120 LEDLEWVPLDELAALVLAEDQVKRDAKKALLLLLFLALKRK 160
>gnl|CDD|72880 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 = 59.1 bits (142), Expect = 6e-10
Identities = 31/125 (24%), Positives = 46/125 (36%), Gaps = 19/125 (15%)
Query: 4 RGVGILILNQDDLVWVGRRCFHDNNKHLSLWQMPQGGINPQEDPLDAAYRELYEETGIKS 63
VG +IL++D V + RR W++P GG+ P E +AA RE+ EETG+
Sbjct: 1 VAVGAVILDEDGRVLLVRRADSPGGL----WELPGGGVEPGETLEEAAIREVREETGLDV 56
Query: 64 ISLLGQGDSYIQYDFPAHCIQENGYVGQMQKWFAFRFQGLTSEICVDRTAYGYESEFDAW 123
L G ++ + F R G + E
Sbjct: 57 DVLRLLGVYEVESPDEGE--------HAVVFVFLARLVGGEPTLLPPD-------EISEV 101
Query: 124 TWVSL 128
WV+L
Sbjct: 102 RWVTL 106
>gnl|CDD|72906 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 = 51.8 bits (124), Expect = 9e-08
Identities = 39/126 (30%), Positives = 60/126 (47%), Gaps = 24/126 (19%)
Query: 5 GVGILILNQDDLVWVGRRCFHDNNKHLSLWQMPQGGINPQEDPLDAAYRELYEETGIKS- 63
GVG L+LN+ + V V + + NK + W++P G ++P ED D A RE+ EETGI +
Sbjct: 4 GVGGLVLNEKNEVLVVQ----ERNKTPNGWKLPGGLVDPGEDIFDGAVREVLEETGIDTE 59
Query: 64 -ISLLGQGDSYIQYDFPAHCIQENGYVGQMQKWFAFRFQGLTSEICVDRTAYGYESEFDA 122
+S++G G G+ +F R + L+ +I D SE A
Sbjct: 60 FVSVVGF------------RHAHPGAFGKSDLYFICRLKPLSFDINFD------TSEIAA 101
Query: 123 WTWVSL 128
W+ L
Sbjct: 102 AKWMPL 107
>gnl|CDD|72882 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 = 50.6 bits (121), Expect = 2e-07
Identities = 25/69 (36%), Positives = 35/69 (50%), Gaps = 2/69 (2%)
Query: 5 GVGILILNQDDLVWVGRRCFHDNNKHLSLWQMPQGGINPQEDPLDAAYRELYEETGIKSI 64
V +L + D V + R+ L ++P G I+P EDP +AA REL EETG ++
Sbjct: 4 AVAVLPYDDDGKVVLVRQYRPPVGGWL--LELPAGLIDPGEDPEEAARRELEEETGYEAG 61
Query: 65 SLLGQGDSY 73
L G Y
Sbjct: 62 DLEKLGSFY 70
>gnl|CDD|31251 COG1051, COG1051, ADP-ribose pyrophosphatase [Nucleotide
transport and metabolism].
Length = 145
Score = 50.4 bits (120), Expect = 2e-07
Identities = 20/60 (33%), Positives = 28/60 (46%), Gaps = 4/60 (6%)
Query: 3 RRGVGILILNQDDLVWVGRRCFHDNNKHLSLWQMPQGGINPQEDPLDAAYRELYEETGIK 62
VG LI+ ++ V R N W +P G + E +AA REL EETG++
Sbjct: 10 LVAVGALIVRNGRILLVRRA----NEPGAGYWALPGGFVEIGETLEEAARRELKEETGLR 65
>gnl|CDD|72894 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 = 50.3 bits (120), Expect = 3e-07
Identities = 37/120 (30%), Positives = 48/120 (40%), Gaps = 10/120 (8%)
Query: 31 LSLWQMPQGGINPQEDPLDAAYRELYEETGIKSISLLGQGDSYIQYDFPAHCIQENGYVG 90
L W P G I+P E L+AA REL EETG I LLG + D H I + G
Sbjct: 25 LGSWLQPGGHIDPDESLLEAALRELREETG---IELLGLRPLSVLVDLDVHPIDGHPKRG 81
Query: 91 QMQKW-FAFRFQGLTSEICVDRTAYGYESEFDAWTWVSLWDTPNIVVDFKKEAYRQVVAD 149
RF + D A E DA W L + ++ + E R++V
Sbjct: 82 VPGHLHLDLRFLAVAPA---DDVAPPKSDESDAVRWFPLDELASLELP---EDVRRLVEK 135
>gnl|CDD|72901 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 = 50.3 bits (120), Expect = 3e-07
Identities = 29/106 (27%), Positives = 43/106 (40%), Gaps = 16/106 (15%)
Query: 24 FHDNNKHLSLWQMPQGGINPQEDPLDAAYRELYEETGIK--SISLLGQGDSYIQYDFPAH 81
++K+ WQ GGI E P +AA RE+ EETG+ ++LL +G S +F
Sbjct: 20 LRRSDKYAGFWQSVTGGIEDGESPAEAARREVAEETGLDPERLTLLDRGASIAFVEF-TD 78
Query: 82 CIQENGYVGQMQKWFAFRFQGLTSEICVDRTAYGYESEFDAWTWVS 127
+ + FAF + E DA+ WV
Sbjct: 79 NGRVW-----TEHPFAFH--------LPSDAVVTLDWEHDAFEWVP 111
>gnl|CDD|72904 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 = 49.5 bits (118), Expect = 4e-07
Identities = 26/68 (38%), Positives = 31/68 (45%), Gaps = 9/68 (13%)
Query: 23 CFHDNN-----KHLSLWQMPQGGINPQEDPLDAAYRELYEETGIKSISLLG----QGDSY 73
C K S W +P G I P E PL AA REL EETG++ + LL G S
Sbjct: 7 CRRGGRVLLVRKSGSRWALPGGKIEPGETPLQAARRELQEETGLQGLDLLYLFHVDGGST 66
Query: 74 IQYDFPAH 81
+ F A
Sbjct: 67 RHHVFVAS 74
>gnl|CDD|35867 KOG0648, KOG0648, KOG0648, Predicted NUDIX hydrolase FGF-2 and
related proteins [Signal transduction mechanisms].
Length = 295
Score = 48.1 bits (114), Expect = 1e-06
Identities = 22/61 (36%), Positives = 30/61 (49%), Gaps = 1/61 (1%)
Query: 3 RRGVGILILNQDDLVWVGRRCFHDNNKHLSLWQMPQGGINPQEDPLDAAYRELYEETGIK 62
R GVG +LN+ V V + K W++P G + ED A RE+ EETGI
Sbjct: 115 RVGVGAFVLNKKKEVLV-VQEKDGAVKIRGGWKLPTGRVEEGEDIWHGAVREVKEETGID 173
Query: 63 S 63
+
Sbjct: 174 T 174
>gnl|CDD|72919 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 = 47.2 bits (112), Expect = 2e-06
Identities = 21/54 (38%), Positives = 28/54 (51%), Gaps = 5/54 (9%)
Query: 33 LWQMPQGGINPQEDPLDAAYRELYEETG--IKSISLLGQGDSYIQ---YDFPAH 81
W +P GGI P E P +A +RE+ EETG ++ LG Y D+ AH
Sbjct: 26 RWDLPGGGIEPGESPEEALHREVLEETGLTVEIGRRLGSASRYFYSPDGDYDAH 79
>gnl|CDD|72913 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 = 46.4 bits (110), Expect = 4e-06
Identities = 20/60 (33%), Positives = 30/60 (50%), Gaps = 3/60 (5%)
Query: 3 RRGVGILILNQDDLVWVGRRCFHDNNKHLSLWQMPQGGINPQEDPLDAAYRELYEETGIK 62
R GVG+ +LN V +G+R + W +P G + E + A RE+ EETG+
Sbjct: 2 RVGVGVFVLNPKGKVLLGKRK---GSHGAGTWALPGGHLEFGESFEECAAREVLEETGLH 58
>gnl|CDD|72911 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 = 46.0 bits (109), Expect = 5e-06
Identities = 22/57 (38%), Positives = 31/57 (54%), Gaps = 6/57 (10%)
Query: 5 GVGILILNQDDLVWVGRRCFHDNNKHLSLWQMPQGGINPQEDPLDAAYRELYEETGI 61
GV ++ + + V + RR DN LW +P G + P E P D A RE+ EETG+
Sbjct: 4 GVTAVVRDDEGRVLLIRR--SDNG----LWALPGGAVEPGESPADTAVREVREETGL 54
>gnl|CDD|72883 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 = 45.5 bits (108), Expect = 6e-06
Identities = 19/57 (33%), Positives = 28/57 (49%), Gaps = 2/57 (3%)
Query: 6 VGILILNQDDLVWVGRRCFHDNNKHLSLWQMPQGGINPQEDPLDAAYRELYEETGIK 62
V +I++ D + + +R LW+ P G + P E P A REL EE GI+
Sbjct: 4 VAAIIIDDDGRILIAQR--PAGKHLGGLWEFPGGKVEPGETPEQALVRELREELGIE 58
>gnl|CDD|72915 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 = 44.5 bits (105), Expect = 1e-05
Identities = 18/59 (30%), Positives = 27/59 (45%), Gaps = 6/59 (10%)
Query: 4 RGVGILILNQDDLVWVGRRCFHDNNKHLSLWQMPQGGINPQEDPLDAAYRELYEETGIK 62
G ++ + D V + R + W +P GG+ E +AA REL EE GI+
Sbjct: 1 LGARAVVTDADGRVLLVRHTYGP------GWYLPGGGLERGETFAEAARRELLEELGIR 53
>gnl|CDD|72912 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 = 44.0 bits (104), Expect = 2e-05
Identities = 20/62 (32%), Positives = 31/62 (50%), Gaps = 6/62 (9%)
Query: 5 GVGILILNQDDLVWVGRRCFHDNNKHLSLWQMPQGGINPQEDPLDAAYRELYEETGIKSI 64
G G+++LN+ V + +R D W +P G + E + A REL EETG++
Sbjct: 9 GAGVILLNEQGEVLLQKR--SDTGD----WGLPGGAMELGESLEETARRELKEETGLEVE 62
Query: 65 SL 66
L
Sbjct: 63 EL 64
>gnl|CDD|72886 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 = 43.3 bits (102), Expect = 3e-05
Identities = 16/30 (53%), Positives = 20/30 (66%)
Query: 34 WQMPQGGINPQEDPLDAAYRELYEETGIKS 63
W P+G + P ED L+AA RE EETGI +
Sbjct: 29 WDFPKGHVEPGEDDLEAALRETEEETGITA 58
>gnl|CDD|72920 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 = 43.4 bits (102), Expect = 3e-05
Identities = 24/63 (38%), Positives = 32/63 (50%), Gaps = 3/63 (4%)
Query: 8 ILILNQDDLVWVGRRCFHD-NNKHLSLWQMPQGGINPQEDPLDAAYRELYEETGIKSISL 66
+++L+ DD V + R D ++ W P GG+ P E P AA REL EETGI L
Sbjct: 5 VVLLDPDDRVLLLR--GDDPDSPGPDWWFTPGGGVEPGESPEQAARRELREETGITVADL 62
Query: 67 LGQ 69
Sbjct: 63 GPP 65
>gnl|CDD|72909 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 = 43.3 bits (102), Expect = 3e-05
Identities = 19/57 (33%), Positives = 25/57 (43%), Gaps = 4/57 (7%)
Query: 5 GVGILILNQDDLVWVGRRCFHDNNKHLSLWQMPQGGINPQEDPLDAAYRELYEETGI 61
VG ++ ++ V R N LW P G + E AA REL EETG+
Sbjct: 2 AVGAVVFRGGRVLLVRRA----NPPDAGLWSFPGGKVELGETLEQAALRELLEETGL 54
>gnl|CDD|72905 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 = 43.0 bits (101), Expect = 4e-05
Identities = 23/84 (27%), Positives = 38/84 (45%), Gaps = 9/84 (10%)
Query: 4 RGVGILILNQDDLVWVGRRCFHDNNKHLSLWQMPQGGINPQEDPLDAAYRELYEETGI-- 61
R ++I +Q +++ + R K + P GGI E P +AA RE EE G+
Sbjct: 2 RASIVIINDQGEILLIRR---IKPGKTY--YVFPGGGIEEGETPEEAAKREALEELGLDV 56
Query: 62 --KSISLLGQGDSYIQYDFPAHCI 83
+ I L+ + ++ F A I
Sbjct: 57 RVEEIFLIVNQNGRTEHYFLARVI 80
>gnl|CDD|72917 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 = 42.6 bits (100), Expect = 4e-05
Identities = 18/61 (29%), Positives = 27/61 (44%), Gaps = 6/61 (9%)
Query: 4 RGVGILILNQDDLVWVGRRCFHDNNKHLS---LWQMPQGGINPQEDPLDAAYRELYEETG 60
GV + +L D + + R D+ + W +P G E PL+ REL EE G
Sbjct: 1 SGVALALLIGDGRLLLQLR---DDKPGIPYPGHWDLPGGHREGGETPLECVLRELLEEIG 57
Query: 61 I 61
+
Sbjct: 58 L 58
>gnl|CDD|72916 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 = 42.6 bits (100), Expect = 5e-05
Identities = 25/81 (30%), Positives = 38/81 (46%), Gaps = 6/81 (7%)
Query: 6 VGILILNQDDLVWVGRRCFHDNNKHLSLWQMPQGGINPQEDPLDAAYRELYEETGIK--S 63
VG+LILN+D + V RR +P G ++P E +A RE+ EETG+K
Sbjct: 4 VGVLILNEDGELLVVRRAR---EPGKGTLDLPGGFVDPGESAEEALIREIREETGLKVTE 60
Query: 64 ISLLGQG-DSYIQYDFPAHCI 83
+S L ++Y +
Sbjct: 61 LSYLFSLPNTYPYGGMEYDTL 81
>gnl|CDD|72892 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 = 41.7 bits (98), Expect = 1e-04
Identities = 21/42 (50%), Positives = 24/42 (57%), Gaps = 1/42 (2%)
Query: 34 WQMPQGGINPQEDPLDAAYRELYEETGIKSISLLGQGDSYIQ 75
W P+G IN ED D A RE+YEETG IS D YI+
Sbjct: 27 WSFPKGKINKDEDDHDCAIREVYEETGF-DISKYIDKDDYIE 67
>gnl|CDD|72893 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 = 41.4 bits (97), Expect = 1e-04
Identities = 19/48 (39%), Positives = 29/48 (60%), Gaps = 2/48 (4%)
Query: 34 WQMPQGGINPQEDPLDAAYRELYEETGIKSISLLGQGDSYIQYDFPAH 81
W +P+G + P E P +AA RE+ EETGI+ + +G I+Y F +
Sbjct: 29 WSLPKGKLEPGETPPEAAVREVEEETGIR--AEVGDPLGTIRYWFSSS 74
>gnl|CDD|72934 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 = 40.8 bits (95), Expect = 2e-04
Identities = 22/60 (36%), Positives = 31/60 (51%), Gaps = 5/60 (8%)
Query: 4 RGVGILILNQD-DLVWVGRRCFHDNNKHLSLWQMPQGGINPQEDPLDAAYRELYEETGIK 62
R G +ILN+ D++ V + LW +P G + E P DAA RE EETG++
Sbjct: 14 RAAGAVILNERNDVLLVQEKGGPKKG----LWHIPSGAVEDGEFPQDAAVREACEETGLR 69
>gnl|CDD|72899 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 = 40.7 bits (95), Expect = 2e-04
Identities = 18/35 (51%), Positives = 20/35 (57%)
Query: 28 NKHLSLWQMPQGGINPQEDPLDAAYRELYEETGIK 62
NK L W +P+G EDPL AA RE EETG
Sbjct: 29 NKDLGAWSIPKGEYTEGEDPLLAAKREFSEETGFC 63
>gnl|CDD|38050 KOG2839, KOG2839, KOG2839, Diadenosine and diphosphoinositol
polyphosphate phosphohydrolase [Signal transduction
mechanisms].
Length = 145
Score = 40.3 bits (94), Expect = 2e-04
Identities = 18/61 (29%), Positives = 26/61 (42%), Gaps = 1/61 (1%)
Query: 29 KHLSLWQMPQGGINPQEDPLDAAYRELYEETGIKSISLLGQGDSYIQYDFPAHCIQENGY 88
K W +P+GG P E +AA RE +EE G+K G + H + G
Sbjct: 33 KKPHRWIVPKGGWEPDESVEEAALRETWEEAGVKGKLGRLLGGFE-DFLSKKHRTKPKGV 91
Query: 89 V 89
+
Sbjct: 92 M 92
>gnl|CDD|72933 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 = 39.1 bits (91), Expect = 6e-04
Identities = 16/58 (27%), Positives = 28/58 (48%), Gaps = 3/58 (5%)
Query: 5 GVGILILNQDDLVWVGRRCFHDNNKHL-SLWQMPQGGINPQEDPLDAAYRELYEETGI 61
V LI+ + + +R + + W++P G + E +A RE+YEETG+
Sbjct: 3 AVAALIVKDVGRILILKR--SKDERTAPGKWELPGGKVEEGETFEEALKREVYEETGL 58
>gnl|CDD|72903 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 = 38.7 bits (90), Expect = 8e-04
Identities = 13/29 (44%), Positives = 19/29 (65%)
Query: 34 WQMPQGGINPQEDPLDAAYRELYEETGIK 62
W +P+GG E P +AA RE +EE G++
Sbjct: 28 WIVPKGGPEKDESPAEAAAREAWEEAGVR 56
>gnl|CDD|33876 COG4119, COG4119, Predicted NTP pyrophosphohydrolase [DNA
replication, recombination, and repair / General
function prediction only].
Length = 161
Score = 38.5 bits (89), Expect = 8e-04
Identities = 20/64 (31%), Positives = 27/64 (42%), Gaps = 11/64 (17%)
Query: 1 MYRRGVG---ILILNQDDLVWVGRRCFHDNNKHLSLWQMPQGGINPQEDPLDAAYRELYE 57
+YR G +L+++ W K W +P+G EDP AA RE E
Sbjct: 10 LYRARAGVVDVLLVHPGGPFWA--------GKDDGAWSIPKGEYTGGEDPWLAARREFSE 61
Query: 58 ETGI 61
E GI
Sbjct: 62 EIGI 65
>gnl|CDD|72925 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 = 37.9 bits (88), Expect = 0.001
Identities = 16/42 (38%), Positives = 20/42 (47%), Gaps = 4/42 (9%)
Query: 34 WQMPQGGINPQEDPLDAAYRELYEETGI----KSISLLGQGD 71
+ +P G I E PL A REL EE G+ S+ LG
Sbjct: 25 FYLPGGKIEAGETPLQALIRELSEELGLDLDPDSLEYLGTFR 66
>gnl|CDD|72885 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 = 37.8 bits (88), Expect = 0.001
Identities = 19/62 (30%), Positives = 24/62 (38%), Gaps = 10/62 (16%)
Query: 30 HLSLWQMPQGGINPQEDPLDAAYRELYEET----------GIKSISLLGQGDSYIQYDFP 79
W P G + P E P + A REL EET GI G+ + Y + F
Sbjct: 24 GWGGWNGPGGKVEPGETPEECAIRELKEETGLTIDNLKLVGIIKFPFPGEEERYGVFVFL 83
Query: 80 AH 81
A
Sbjct: 84 AT 85
>gnl|CDD|72921 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 = 37.6 bits (87), Expect = 0.002
Identities = 18/72 (25%), Positives = 33/72 (45%), Gaps = 7/72 (9%)
Query: 10 ILNQDDLVWVGRRCFHDNNKHLSLWQMPQGGINPQEDPLDAAYRELYEETGIKSISLLGQ 69
I+ Q D + + + ++ P GG+ ED ++ REL EETG +I ++ +
Sbjct: 6 IILQGDKILL----LYTKRYGD--YKFPGGGVEKGEDHIEGLIRELQEETGATNIRVIEK 59
Query: 70 GDSYIQYDFPAH 81
+Y + P
Sbjct: 60 FGTYTERR-PWR 70
>gnl|CDD|72902 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 = 37.2 bits (86), Expect = 0.002
Identities = 16/38 (42%), Positives = 25/38 (65%), Gaps = 2/38 (5%)
Query: 34 WQMPQGGINPQEDPLDAAYRELYEETGIK--SISLLGQ 69
W+ P G + P E +AA RE++EETG + S++L+G
Sbjct: 23 WEFPGGHVEPGETIEEAARREVWEETGAELGSLTLVGY 60
>gnl|CDD|72918 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 = 37.2 bits (86), Expect = 0.002
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 2/53 (3%)
Query: 9 LILNQDDLVWVGRRCFHDNNKHLSLWQMPQGGINPQEDPLDAAYRELYEETGI 61
++L +DD V + RR W +P G + ED + AA RE EE G+
Sbjct: 5 VLLRRDDEVLLQRRANTGYMDGQ--WALPAGHLEKGEDAVTAAVREAREEIGV 55
>gnl|CDD|72929 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 = 36.9 bits (85), Expect = 0.003
Identities = 24/74 (32%), Positives = 37/74 (50%), Gaps = 7/74 (9%)
Query: 5 GVGILILNQDDLVWVGRRCFHDNNKHLSLWQMPQGGINPQEDPLDAAYRELYEETGI--- 61
GV +L+ + D + + RR ++W P G + E+ L+A REL EETG+
Sbjct: 3 GVAVLLQSSDQKLLLTRRASSLRI-FPNVWVPPGGHVELGENLLEAGLRELNEETGLTLD 61
Query: 62 ---KSISLLGQGDS 72
KS +LG +S
Sbjct: 62 PIDKSWQVLGLWES 75
>gnl|CDD|72884 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 = 36.7 bits (85), Expect = 0.003
Identities = 19/57 (33%), Positives = 28/57 (49%), Gaps = 4/57 (7%)
Query: 21 RRCFHDNNKHLSLWQMPQGGINP-QEDPLDAAYRELYEETGI--KSISLLGQGDSYI 74
+R H + H P G ++P EDP+ A RE EE G+ S+ +LG+ Y
Sbjct: 22 KRASHLRS-HPGQVAFPGGKVDPGDEDPVATALREAEEEIGLPPDSVEVLGRLPPYY 77
>gnl|CDD|38251 KOG3041, KOG3041, KOG3041, Nucleoside diphosphate-sugar hydrolase
of the MutT (NUDIX) family [Replication, recombination
and repair].
Length = 225
Score = 36.5 bits (84), Expect = 0.003
Identities = 15/28 (53%), Positives = 18/28 (64%)
Query: 35 QMPQGGINPQEDPLDAAYRELYEETGIK 62
++P G I+ ED AA REL EETG K
Sbjct: 106 ELPAGLIDDGEDFEGAAIRELEEETGYK 133
>gnl|CDD|72907 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 = 35.3 bits (81), Expect = 0.009
Identities = 17/55 (30%), Positives = 28/55 (50%), Gaps = 5/55 (9%)
Query: 34 WQMPQGGINPQEDPLDAAYRELYEETGIKS-----ISLLGQGDSYIQYDFPAHCI 83
W +P G + P E +A RE+ EETG+ +S+ QG S+ ++ F +
Sbjct: 28 WYLPAGRMEPGETIEEAVKREVKEETGLDCEPTTLLSVEEQGGSWFRFVFTGNIT 82
>gnl|CDD|72895 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 = 34.4 bits (79), Expect = 0.014
Identities = 12/29 (41%), Positives = 17/29 (58%)
Query: 33 LWQMPQGGINPQEDPLDAAYRELYEETGI 61
++ P G + P E ++AA RE EETG
Sbjct: 25 VFNQPAGHLEPGESLIEAAVRETLEETGW 53
>gnl|CDD|72910 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 = 34.2 bits (78), Expect = 0.018
Identities = 20/56 (35%), Positives = 25/56 (44%), Gaps = 3/56 (5%)
Query: 6 VGILILNQDDLVWVGRRCFHDNNKHLSLWQMPQGGINPQEDPLDAAYRELYEETGI 61
V + +L DD + V RR +P G I E DA REL EETG+
Sbjct: 6 VVVALLPVDDGLLVIRR---GIEPGRGKLALPGGFIELGETWQDAVARELLEETGV 58
>gnl|CDD|72900 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 = 33.4 bits (76), Expect = 0.026
Identities = 14/31 (45%), Positives = 19/31 (61%)
Query: 35 QMPQGGINPQEDPLDAAYRELYEETGIKSIS 65
Q+ +G + P E P AA REL EE+G+ S
Sbjct: 27 QIVKGTVEPGETPEAAALRELQEESGLPSFL 57
>gnl|CDD|38294 KOG3084, KOG3084, KOG3084, NADH pyrophosphatase I of the Nudix
family of hydrolases [Replication, recombination and
repair].
Length = 345
Score = 33.1 bits (75), Expect = 0.038
Identities = 13/30 (43%), Positives = 17/30 (56%)
Query: 33 LWQMPQGGINPQEDPLDAAYRELYEETGIK 62
LW G + P E +A RE +EETGI+
Sbjct: 214 LWTCLAGFLEPGESIEEAVRRETWEETGIE 243
>gnl|CDD|72926 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 = 32.2 bits (73), Expect = 0.062
Identities = 18/58 (31%), Positives = 26/58 (44%), Gaps = 1/58 (1%)
Query: 8 ILILNQDDLVWVGRRCFHDNNKHLSLWQMPQGGINPQEDPLDAAYRELYEETGIKSIS 65
+ +L DD V + RR N +P G I E +A RE+ EE G+ +S
Sbjct: 4 VGVLFSDDKVLLERRSLTKNADP-GKLNIPGGHIEAGESQEEALLREVQEELGVDPLS 60
>gnl|CDD|72922 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 = 32.2 bits (73), Expect = 0.070
Identities = 19/59 (32%), Positives = 28/59 (47%), Gaps = 5/59 (8%)
Query: 3 RRGVGILILNQDDLVWVGRRCFHDNNKHLSLWQMPQGGINPQEDPLDAAYRELYEETGI 61
R +I+ D ++ + HD+ + +P GG P E DAA+RE EE GI
Sbjct: 1 RNSAKAVIIKNDKILLIK---HHDDGG--VWYILPGGGQEPGETLEDAAHRECKEEIGI 54
>gnl|CDD|72914 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 = 31.8 bits (72), Expect = 0.089
Identities = 28/83 (33%), Positives = 37/83 (44%), Gaps = 6/83 (7%)
Query: 3 RRGVGILILNQDDLVWVGRRCFHDNNKHLSLWQMPQGGINPQEDPLDAAYRELYEETG-- 60
R G G IL D + + +R H W +P G ++ E DA RE+ EETG
Sbjct: 2 RVGCGAAILRDDGKLLLVKRLRAPEAGH---WGIPGGKVDWMEAVEDAVVREIEEETGLS 58
Query: 61 IKSISLLGQGDSYIQYDFPAHCI 83
I S LL D I+ P H +
Sbjct: 59 IHSTRLLCVVDHIIEEP-PQHWV 80
>gnl|CDD|72931 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 = 30.6 bits (69), Expect = 0.22
Identities = 20/57 (35%), Positives = 26/57 (45%), Gaps = 5/57 (8%)
Query: 6 VGILILNQDDLVWVGRRCFHDNNKHLSLWQMPQGGINPQEDPLDAAYRELYEETGIK 62
VG LI D + + R K LW +P G + E +A RE EETG+K
Sbjct: 5 VGALIYAPDGRILLVR-----TTKWRGLWGVPGGKVEWGETLEEALKREFREETGLK 56
>gnl|CDD|72923 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 = 29.4 bits (66), Expect = 0.42
Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 6/46 (13%)
Query: 23 CFHDN------NKHLSLWQMPQGGINPQEDPLDAAYRELYEETGIK 62
H+ N + ++ P GGI E +A RE EE G+K
Sbjct: 8 IIHNGKLLVQKNPDETFYRPPGGGIEFGESSEEALIREFKEELGLK 53
>gnl|CDD|72932 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 = 29.5 bits (66), Expect = 0.45
Identities = 20/69 (28%), Positives = 27/69 (39%), Gaps = 4/69 (5%)
Query: 4 RGVGILILNQDDLVWVGRRCFHDNNKHL-SLWQMPQGG-INPQEDPLDAAYRELYEETGI 61
R I + N + + V +R W + GG + E L A REL EE GI
Sbjct: 1 RATYIFVFNSEGKLCVHKR--TLTKDWCPGYWDIAFGGVVQAGESYLQNAQRELEEELGI 58
Query: 62 KSISLLGQG 70
+ L G
Sbjct: 59 DGVQLTPLG 67
>gnl|CDD|72930 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 = 28.7 bits (64), Expect = 0.67
Identities = 15/33 (45%), Positives = 16/33 (48%)
Query: 34 WQMPQGGINPQEDPLDAAYRELYEETGIKSISL 66
W GG+ E AA REL EETGI L
Sbjct: 29 WCHVAGGVEAGETAWQAALRELKEETGISLPEL 61
>gnl|CDD|72908 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 = 28.6 bits (64), Expect = 0.91
Identities = 10/30 (33%), Positives = 16/30 (53%)
Query: 33 LWQMPQGGINPQEDPLDAAYRELYEETGIK 62
LW +P G + P + +E+ EETG+
Sbjct: 25 LWSLPGGWADVGLSPAENVVKEVKEETGLD 54
>gnl|CDD|36226 KOG1008, KOG1008, KOG1008, Uncharacterized conserved protein,
contains WD40 repeats [Function unknown].
Length = 783
Score = 28.1 bits (62), Expect = 1.3
Identities = 23/117 (19%), Positives = 39/117 (33%), Gaps = 25/117 (21%)
Query: 25 HDNNKHLSLWQMPQGGINPQEDPLDAAYRELYEETGIKSIS------LLGQG---DSYIQ 75
H N+ L +W + P+E PL ++ G S+ L+ G S
Sbjct: 125 HRNDSSLKIWDINSLLTVPKESPLFSSSTLD----GQNSVCWLRDTKLVLAGMTSRSVHI 180
Query: 76 YDFPAHCIQENGYVGQMQKWFAFRFQGLTSEICVDRTAYGYESEFDAWTWVSLWDTP 132
+D + + QG+T VD + Y +++WDT
Sbjct: 181 FDLRQSLDSVSSVNTKY-------VQGIT----VDPFSPNYFCSNSD-GDIAIWDTY 225
>gnl|CDD|72927 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 = 27.9 bits (62), Expect = 1.3
Identities = 11/24 (45%), Positives = 13/24 (54%)
Query: 39 GGINPQEDPLDAAYRELYEETGIK 62
G I E PL+ REL EE G+
Sbjct: 41 GHILAGETPLEDGIRELEEELGLD 64
>gnl|CDD|72896 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 = 27.5 bits (61), Expect = 1.6
Identities = 12/45 (26%), Positives = 19/45 (42%)
Query: 17 VWVGRRCFHDNNKHLSLWQMPQGGINPQEDPLDAAYRELYEETGI 61
+W+ RR L + GG+ E P + +E EE G+
Sbjct: 50 IWIPRRSPTKATWPGMLDNLVAGGLGHGEGPEETLVKECDEEAGL 94
>gnl|CDD|38148 KOG2937, KOG2937, KOG2937, Decapping enzyme complex, predicted
pyrophosphatase DCP2 [RNA processing and modification].
Length = 348
Score = 27.3 bits (60), Expect = 2.0
Identities = 15/45 (33%), Positives = 21/45 (46%), Gaps = 1/45 (2%)
Query: 34 WQMPQGGINPQEDPLDAAYRELYEETGIKSISLLGQGDSYIQYDF 78
W P+G I+ E D A RE+ EETG L + I+ +
Sbjct: 108 WSFPRGKISKDESDSDCAIREVTEETGFDYSKQLQD-NEGIETNI 151
>gnl|CDD|35377 KOG0155, KOG0155, KOG0155, Transcription factor CA150
[Transcription].
Length = 617
Score = 27.4 bits (60), Expect = 2.1
Identities = 9/24 (37%), Positives = 14/24 (58%), Gaps = 2/24 (8%)
Query: 16 LVWVG--RRCFHDNNKHLSLWQMP 37
+VW G R F++ LS+W+ P
Sbjct: 118 VVWTGDNRVFFYNPKTKLSVWERP 141
>gnl|CDD|72887 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 = 27.0 bits (60), Expect = 2.7
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 39 GGINPQEDPLDAAYRELYEETGIK 62
G + P E +A RE+ EE GI+
Sbjct: 32 GFVEPGESLEEAVRREVKEEVGIR 55
>gnl|CDD|72897 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 = 26.7 bits (59), Expect = 2.7
Identities = 10/28 (35%), Positives = 13/28 (46%)
Query: 33 LWQMPQGGINPQEDPLDAAYRELYEETG 60
W +P G + E A RE +EE G
Sbjct: 39 FWTLPAGFMENGETTEQGALRETWEEAG 66
>gnl|CDD|36285 KOG1067, KOG1067, KOG1067, Predicted RNA-binding polyribonucleotide
nucleotidyltransferase [General function prediction
only].
Length = 760
Score = 26.5 bits (58), Expect = 3.1
Identities = 11/36 (30%), Positives = 18/36 (50%), Gaps = 3/36 (8%)
Query: 58 ETGIKSISLLG---QGDSYIQYDFPAHCIQENGYVG 90
E+ K SL+G + + Y+FP + E G +G
Sbjct: 404 ESAQKLDSLIGPDNGINFMLHYEFPPYATNEVGKIG 439
>gnl|CDD|72881 cd02885, IPP_Isomerase, Isopentenyl diphosphate (IPP) isomerase,
a member of the Nudix hydrolase superfamily, is a key
enzyme in the isoprenoid biosynthetic pathway.
Isoprenoids comprise a large family of natural products
including sterols, carotenoids, dolichols and
prenylated proteins. These compounds are synthesized
from two precursors: isopentenyl diphosphate (IPP) and
dimethylallyl diphosphate (DMAPP). IPP isomerase
catalyzes the interconversion of IPP and DMAPP by a
stereoselective antarafacial transposition of hydrogen.
The enzyme requires one Mn2+ or Mg2+ ion in its active
site to fold into an active conformation and also
contains 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. The
metal binding site is present within the active site
and plays structural and catalytical roles. IPP
isomerase is well represented in several bacteria,
archaebacteria and eukaryotes, including fungi, mammals
and plants. Despite sequence variations (mainly at the
N-terminus), the core structure is highly conserved..
Length = 165
Score = 25.9 bits (57), Expect = 5.1
Identities = 11/20 (55%), Positives = 11/20 (55%)
Query: 43 PQEDPLDAAYRELYEETGIK 62
P E DAA R L EE GI
Sbjct: 70 PGEGVKDAAQRRLREELGIT 89
>gnl|CDD|37728 KOG2517, KOG2517, KOG2517, Ribulose kinase and related carbohydrate
kinases [Carbohydrate transport and metabolism].
Length = 516
Score = 26.0 bits (57), Expect = 5.1
Identities = 13/42 (30%), Positives = 14/42 (33%), Gaps = 2/42 (4%)
Query: 90 GQMQKWFAFRFQGLTSEICVDRTAYGYESEFDAWTWVSLWDT 131
G W A G +S C D T F T LWD
Sbjct: 171 GTFDTWLATGLTGRSSCHCTDVTNASRTGLF--NTESGLWDL 210
>gnl|CDD|107328 cd06333, PBP1_ABC-type_HAAT_like, Type I periplasmic binding
component of ABC (ATPase Binding Cassette)-type
transport systems that are predicted to be involved in
uptake of amino acids. This subgroup includes the type
I periplasmic binding component of ABC (ATPase Binding
Cassette)-type transport systems that are predicted to
be involved in uptake of amino acids. Members of this
subgroup are sequence-similar to members of the family
of ABC-type hydrophobic amino acid transporters (HAAT),
such as leucine-isoleucine-valine-binding protein
(LIVBP); their ligand specificity has not been
determined experimentally, however.
Length = 312
Score = 25.6 bits (57), Expect = 5.8
Identities = 10/34 (29%), Positives = 18/34 (52%), Gaps = 5/34 (14%)
Query: 43 PQEDPLDAAYRELYEE---TGIKSISLLGQGDSY 73
PQ D L A + + G+K+++ +G D+Y
Sbjct: 114 PQNDRLMAEA--ILADMKKRGVKTVAFIGFSDAY 145
>gnl|CDD|153079 cd07932, arginine_kinase_like, Phosphagen (guanidino) kinases such
as arginine kinase and similar enzymes. Eukaryotic
arginine kinase-like phosphagen (guanidino) kinases are
enzymes that transphosphorylate a high energy
phosphoguanidino compound, like phosphoarginine in the
case of arginine kinase (AK), which is used as an
energy-storage and -transport metabolite, to ADP,
thereby creating ATP. The substrate binding site is
located in the cleft between the N and C-terminal
domains, but most of the catalytic residues are found in
the larger C-terminal domain. Besides AK, one of the
most studied members of this family, this model also
represents a phosphagen kinase with different substrate
specificity, hypotaurocyamine kinase (HTK).
Length = 350
Score = 25.4 bits (56), Expect = 7.2
Identities = 17/59 (28%), Positives = 25/59 (42%), Gaps = 19/59 (32%)
Query: 18 W-VGRRCFHDNNK----------HLSLWQMPQGGINPQEDPLDAAYRELYEETGIKSIS 65
W GR FH+++K HL + M +GG L A Y+ L T +K +
Sbjct: 198 WPTGRGIFHNDDKTFLVWVNEEDHLRIISMQKGG------DLGAVYKRLV--TALKELE 248
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.322 0.140 0.457
Gapped
Lambda K H
0.267 0.0641 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 2,145,065
Number of extensions: 106909
Number of successful extensions: 246
Number of sequences better than 10.0: 1
Number of HSP's gapped: 239
Number of HSP's successfully gapped: 65
Length of query: 160
Length of database: 6,263,737
Length adjustment: 86
Effective length of query: 74
Effective length of database: 4,405,363
Effective search space: 325996862
Effective search space used: 325996862
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 (21.9 bits)
S2: 53 (24.4 bits)