RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16776
(214 letters)
>gnl|CDD|206040 pfam13869, NUDIX_2, Nucleotide hydrolase. Nudix hydrolases are
found in all classes of organism and hydrolyse a wide
range of organic pyrophosphates, including nucleoside
di- and triphosphates, di-nucleoside and
diphospho-inositol polyphosphates, nucleotide sugars and
RNA caps, with varying degrees of substrate specificity.
Length = 188
Score = 298 bits (765), Expect = e-104
Identities = 117/184 (63%), Positives = 139/184 (75%), Gaps = 4/184 (2%)
Query: 35 NLYPLSNYTFDIKDPLFEKDSSVPARFQRMRDEFEKIGMRRSVDGVLLVHEHGLPHVLML 94
+LYPLSNYTF K+ L EKD SV R +R+++ +EK GMRRSV+GVLLVH HG PHVL+L
Sbjct: 4 DLYPLSNYTFGTKEALVEKDISVAERLKRLKNNYEKNGMRRSVEGVLLVHRHGHPHVLLL 63
Query: 95 QLGTTFFKLPGGELNQGEDEIEGLKRLLSDTLGRRDGVKQEWIVEDTIGNWWRPNFEPPQ 154
Q+G TFFKLPGG L GEDEIEGLKR L+ L DGV+++W V + +G WWRPNFE
Sbjct: 64 QIGNTFFKLPGGRLRPGEDEIEGLKRKLAKKLSPEDGVEEDWEVGECLGEWWRPNFETSM 123
Query: 155 YPYVPVHITSPKEHRRLFLVQLPER----VPKNYKLVAAPLVELYDNSQGYGPIISSLPQ 210
YPY+P HIT PKE +L+LVQLPE+ VPKN KL+A PL ELYDN+ YGPIISSLP
Sbjct: 124 YPYLPAHITKPKECIKLYLVQLPEKCKFAVPKNMKLLAVPLFELYDNAAKYGPIISSLPH 183
Query: 211 ALCR 214
L R
Sbjct: 184 LLSR 187
>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 = 35.4 bits (82), Expect = 0.006
Identities = 19/54 (35%), Positives = 26/54 (48%), Gaps = 5/54 (9%)
Query: 101 FKLPGGELNQGEDEIEGLKRLLSDTLG---RRDGVKQEWIVEDTIGNWWRPNFE 151
+K PGG + +GED IEGL R L + G R K E W +P+ +
Sbjct: 24 YKFPGGGVEKGEDHIEGLIRELQEETGATNIRVIEKFGTYTERRP--WRKPDAD 75
>gnl|CDD|178576 PLN02997, PLN02997, flavonol synthase.
Length = 325
Score = 35.0 bits (80), Expect = 0.018
Identities = 35/100 (35%), Positives = 44/100 (44%), Gaps = 11/100 (11%)
Query: 79 GVLLVHEHGLPHVLMLQL---GTTFFKLPGGELN--QGEDEIEGLKRLLSDTLGRRDGVK 133
GV V HG+P LM QL G FF+LP E E++ EG KR + D
Sbjct: 58 GVFQVVNHGIPTELMRQLQMVGKQFFELPEAEKETVAKEEDFEGYKRNYLGGINNWDEHL 117
Query: 134 QEWIVEDTIGN--WWRPNFEPPQYPYVPVHITSPKEHRRL 171
+ +I N +W N PPQY V T K +RL
Sbjct: 118 FHRLSPPSIINYKYWPKN--PPQYREVTEEYT--KHMKRL 153
>gnl|CDD|215841 pfam00293, NUDIX, NUDIX domain.
Length = 133
Score = 32.5 bits (74), Expect = 0.060
Identities = 29/115 (25%), Positives = 49/115 (42%), Gaps = 25/115 (21%)
Query: 74 RRSVDGVLLVHEHGLPHVLMLQ-----LGTTFFKLPGGELNQGEDEIEGLKRLLSDTLGR 128
RR+V GV+L++E G VL+++ + ++LPGG++ GE E R L + G
Sbjct: 2 RRAV-GVVLLNEDG--EVLLVRRSRPPVFPGLWELPGGKVEPGESPEEAAVRELEEETGL 58
Query: 129 RDGVKQEWIVEDTIGNWWRPNFEPPQYPYVPVHITSPKEHRRLFLVQLPERVPKN 183
R V ++ + + P EH +FL +L P+
Sbjct: 59 R--VLLLLLL--GVLEYPAP-------------GRDGGEHVHVFLAELLGGEPEP 96
>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 = 31.5 bits (72), Expect = 0.12
Identities = 19/49 (38%), Positives = 30/49 (61%), Gaps = 4/49 (8%)
Query: 80 VLLVHEHGLPHVLMLQL-GTTFFKLPGGELNQGEDEIEGLKRLLSDTLG 127
++LV + VL+++ GT F LPGG++ GE ++ L R LS+ LG
Sbjct: 6 LILVRD---GRVLLVRKRGTDVFYLPGGKIEAGETPLQALIRELSEELG 51
>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 = 31.2 bits (71), Expect = 0.16
Identities = 18/56 (32%), Positives = 25/56 (44%), Gaps = 10/56 (17%)
Query: 72 GMRRSVDGVLLVHEHGLPHVLMLQLGTTFFKLPGGELNQGEDEIEGLKRLLSDTLG 127
+ R+ + VLL G PH + LPGG + GE L+R L + LG
Sbjct: 6 AIVRAGNKVLLARVIGQPH----------YFLPGGHVEPGETAENALRRELQEELG 51
>gnl|CDD|240017 cd04659, Piwi_piwi-like_ProArk, Piwi_piwi-like_ProArk: PIWI domain,
Piwi-like subfamily found in Archaea and Bacteria. RNA
silencing refers to a group of related gene-silencing
mechanisms mediated by short RNA molecules, including
siRNAs, miRNAs, and heterochromatin-related guide RNAs.
The central component of the RNA-induced silencing
complex (RISC) and related complexes is Argonaute. The
PIWI domain is the C-terminal portion of Argonaute and
consists of two subdomains, one of which provides the 5'
anchoring of the guide RNA and the other, the catalytic
site for slicing. This domain is also found in closely
related proteins, including the Piwi subfamily, where it
is believed to perform a crucial role in germline cells,
via a similar mechanism.
Length = 404
Score = 32.0 bits (73), Expect = 0.19
Identities = 19/85 (22%), Positives = 33/85 (38%), Gaps = 13/85 (15%)
Query: 73 MRRSVDGVLLVHEHGLPHVLMLQLGTTFFKLPGGELNQGEDEIEGLKRLLSDTLGRRDGV 132
++R ++G H P L+L F ++EIEGLK L + + D V
Sbjct: 244 LKRVLEGYRESHRGRDPKRLVLHKDGRFT----------DEEIEGLKEALEELGIKVDLV 293
Query: 133 KQEWIVEDTIGNWWRPNFEPPQYPY 157
+++ +R P +P
Sbjct: 294 ---EVIKSGPHRLFRFGTYPNGFPP 315
>gnl|CDD|237233 PRK12853, PRK12853, glucose-6-phosphate 1-dehydrogenase;
Provisional.
Length = 482
Score = 31.0 bits (71), Expect = 0.41
Identities = 23/85 (27%), Positives = 32/85 (37%), Gaps = 17/85 (20%)
Query: 81 LLVHEHGLPHVLM-LQLGTTFFKLPGGELNQGEDEIEGLKRLLSDTL-G------RRDGV 132
L V G L ++L + E +E +RLL D L G R D V
Sbjct: 381 LNVKRPGPGMRLRPVELDADY--------ADDERPLEAYERLLLDVLRGDPTLFVRADEV 432
Query: 133 KQEW-IVEDTIGNWWRPNFEPPQYP 156
+ W IV+ + W P +YP
Sbjct: 433 EAAWRIVDPVLDAWAADPVPPHEYP 457
>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 = 28.8 bits (65), Expect = 1.1
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 103 LPGGELNQGEDEIEGLKRLLSDTLG 127
LPGG L +GE E +R L + LG
Sbjct: 27 LPGGGLERGETFAEAARRELLEELG 51
>gnl|CDD|199815 cd10491, MH1_SMAD_2_3, N-terminal Mad Homology 1 (MH1) domain in
SMAD2 and SMAD3. The MH1 is a small DNA-binding domain
present in SMAD (small mothers against decapentaplegic)
family of proteins, which are signal transducers and
transcriptional modulators that mediate multiple
signaling pathways. MH1 binds to the DNA major groove
in an unusual manner via a beta hairpin structure. It
negatively regulates the functions of the MH2 domain,
the C-terminal domain of SMAD. This MH1 is found in
SMAD2 as well as SMAD3. SMAD2 mediates the signal of
the transforming growth factor (TGF)-beta, and thereby
regulates multiple cellular processes, such as cell
proliferation, apoptosis, and differentiation. It plays
a role in the transmission of extracellular signals
from ligands of the TGF-beta superfamily growth factors
into the cell nucleus. SMAD3 modulates signals of
activin and TGF-beta. It binds SMAD4, enabling its
transmigration into the nucleus where it forms
complexes with other proteins and acts as a
transcription factor. Increased SMAD3 activity has been
implicated in the pathogenesis of scleroderma.
Length = 124
Score = 28.6 bits (64), Expect = 1.1
Identities = 14/27 (51%), Positives = 18/27 (66%), Gaps = 1/27 (3%)
Query: 71 IGMRRSVDGVLLV-HEHGLPHVLMLQL 96
I + RS+DG L V H GLPHV+ +L
Sbjct: 57 ITIPRSLDGRLQVSHRKGLPHVIYCRL 83
>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 = 28.2 bits (63), Expect = 1.5
Identities = 13/47 (27%), Positives = 16/47 (34%), Gaps = 8/47 (17%)
Query: 74 RRSVDGVLLVHEHGLPHVLMLQLGTTFFKLPGGELNQGEDEIEGLKR 120
VLLV P ++LPGG + GE E R
Sbjct: 8 LDEDGRVLLVRRADSP--------GGLWELPGGGVEPGETLEEAAIR 46
>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 = 28.5 bits (64), Expect = 1.5
Identities = 18/86 (20%), Positives = 28/86 (32%), Gaps = 14/86 (16%)
Query: 97 GTTFFKLPGGELNQGEDEIEGLKRLLSDTLGRRDGVKQEWIVEDTIGNWWRPNFEPPQYP 156
G ++ PGG + GE + +R L + G V D WR +
Sbjct: 26 GPDWWFTPGGGVEPGESPEQAARRELREETG--------ITVADLGPPVWRRDA------ 71
Query: 157 YVPVHITSPKEHRRLFLVQLPERVPK 182
++ R FL + P P
Sbjct: 72 AFTFLGVDGRQEERFFLARTPRTEPS 97
>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 = 28.0 bits (63), Expect = 1.7
Identities = 14/41 (34%), Positives = 19/41 (46%), Gaps = 8/41 (19%)
Query: 80 VLLVHEHGLPHVLMLQLGTTFFKLPGGELNQGEDEIEGLKR 120
VL+V E +KLPGG ++ GED +G R
Sbjct: 16 VLVVQERNK--------TPNGWKLPGGLVDPGEDIFDGAVR 48
>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 = 28.1 bits (63), Expect = 1.7
Identities = 11/40 (27%), Positives = 18/40 (45%), Gaps = 4/40 (10%)
Query: 92 LMLQLGTTF----FKLPGGELNQGEDEIEGLKRLLSDTLG 127
L + T + + LP G L +GED + R + +G
Sbjct: 15 LQRRANTGYMDGQWALPAGHLEKGEDAVTAAVREAREEIG 54
>gnl|CDD|151163 pfam10651, DUF2479, Domain of unknown function (DUF2479). This
domain is found in phage from a number of different
bacteria. It is purported to be a putative long tail
fibre (Bacteriophage A118) protein, but this could not
be confirmed.
Length = 170
Score = 28.4 bits (64), Expect = 1.8
Identities = 11/49 (22%), Positives = 25/49 (51%), Gaps = 5/49 (10%)
Query: 28 LQYNRKKNLYPLSNYTFDIKDPLFEKDSSVPA-----RFQRMRDEFEKI 71
L+YN ++ ++N++F+I+D L + S F +++ E+
Sbjct: 105 LEYNGNGDVLVVANFSFEIEDALINQIVSKVKESYIRDFDDLKEIIEEK 153
>gnl|CDD|100114 cd05822, TLP_HIUase, HIUase (5-hydroxyisourate hydrolase) catalyzes
the second step in a three-step ureide pathway in which
5-hydroxyisourate (HIU), a product of the uricase (urate
oxidase) reaction, is hydrolyzed to
2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU).
HIUase has high sequence similarity with transthyretins
and is a member of the transthyretin-like protein (TLP)
family. HIUase is distinguished from transthyretins by
a conserved signature motif at its C-terminus that forms
part of the active site. In HIUase, this motif is YRGS,
while transthyretins have a conserved TAVV sequence in
the same location. Most HIUases are cytosolic but in
plants and slime molds, they are peroxisomal based on
the presence of N-terminal periplasmic localization
sequences. HIUase forms a homotetramer with each
subunit consisting of eight beta-strands arranged in two
sheets and a short alpha-helix. The central channel of
the tetramer contains two independent binding sites,
each located between a pair of subunits.
Length = 112
Score = 27.9 bits (63), Expect = 2.1
Identities = 10/29 (34%), Positives = 13/29 (44%), Gaps = 2/29 (6%)
Query: 142 IGNWWRPNFEPPQYPYVPVH--ITSPKEH 168
G ++ + YP V V IT P EH
Sbjct: 66 TGAYFAARGQESFYPEVEVRFTITDPTEH 94
>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 = 27.6 bits (62), Expect = 3.0
Identities = 13/43 (30%), Positives = 20/43 (46%), Gaps = 7/43 (16%)
Query: 78 DGVLLVHEHGLPHVLMLQLGTTFFKLPGGELNQGEDEIEGLKR 120
+LL+ ++G P+ + LPGG + GE E L R
Sbjct: 11 GKLLLIQKNGGPY-------EGRWDLPGGGIEPGESPEEALHR 46
>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 = 27.3 bits (61), Expect = 3.4
Identities = 12/41 (29%), Positives = 21/41 (51%), Gaps = 4/41 (9%)
Query: 81 LLVHEHGLPHVLMLQL-GTTFFKLPGGELNQGEDEIEGLKR 120
+++H +L+ + TF++ PGG + GE E L R
Sbjct: 7 IIIHNG---KLLVQKNPDETFYRPPGGGIEFGESSEEALIR 44
>gnl|CDD|215557 PLN03069, PLN03069, magnesiumprotoporphyrin-IX chelatase subunit H;
Provisional.
Length = 1220
Score = 27.4 bits (61), Expect = 6.3
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 106 GELNQGEDEIEGLKRLLSDTLGR 128
L++ ED I GL +L++ +GR
Sbjct: 777 AALDRPEDNISGLPGILAEAVGR 799
>gnl|CDD|185039 PRK15081, PRK15081, glutathione ABC transporter permease GsiC;
Provisional.
Length = 306
Score = 27.0 bits (60), Expect = 8.2
Identities = 27/89 (30%), Positives = 41/89 (46%), Gaps = 16/89 (17%)
Query: 55 SSVPARFQR------MRDEFEKIGMRRSVDGVLLVHEHGL-----PHVLM--LQLGTTFF 101
++V ARF R + +++ + + V +V +HGL P V M LQ G F
Sbjct: 185 AAVMARFTRASFVEVLSEDYMRTARAKGVSETWVVLKHGLRNAMIPVVTMMGLQFG---F 241
Query: 102 KLPGGELNQGEDEIEGLKRLLSDTLGRRD 130
L G + + GL RLL D++ RD
Sbjct: 242 LLGGSIVVEKVFNWPGLGRLLVDSVEMRD 270
>gnl|CDD|199814 cd10490, MH1_SMAD_1_5_9, N-terminal Mad Homology 1 (MH1) domain
in SMAD1, SMAD5 and SMAD9 (also known as SMAD8). The
MH1 is a small DNA-binding domain present in SMAD
(small mothers against decapentaplegic) family of
proteins, which are signal transducers and
transcriptional modulators that mediate multiple
signaling pathways. MH1 binds to the DNA major groove
in an unusual manner via a beta hairpin structure. It
negatively regulates the functions of the MH2 domain,
the C-terminal domain of SMAD. This MH1 domain is found
in SMAD1, SMAD5 and SMAD9, all closely related receptor
regulated SMADs (R-SMADs). SMAD1 plays an essential
role in bone development and postnatal bone formation
through activation by bone morphogenetic protein (BMP)
type 1 receptor kinase. SMAD5 is involved in bone
morphogenetic proteins (BMP) signal modulation and may
also play a role in the pathway involving inhibition of
hematopoietic progenitor cells by TGF-beta. SMAD9
mediates the differentiation of mesenchymal stem cells
(MSCs) into tendon-like cells by inhibiting the
osteogenic pathway.
Length = 124
Score = 25.9 bits (57), Expect = 9.5
Identities = 12/19 (63%), Positives = 14/19 (73%), Gaps = 1/19 (5%)
Query: 75 RSVDGVLLV-HEHGLPHVL 92
RS+DG L V H GLPHV+
Sbjct: 61 RSLDGRLQVSHRKGLPHVI 79
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
0.319 0.139 0.423
Gapped
Lambda K H
0.267 0.0778 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,302,099
Number of extensions: 1080258
Number of successful extensions: 960
Number of sequences better than 10.0: 1
Number of HSP's gapped: 958
Number of HSP's successfully gapped: 27
Length of query: 214
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 121
Effective length of database: 6,812,680
Effective search space: 824334280
Effective search space used: 824334280
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 (21.7 bits)
S2: 57 (25.6 bits)