RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11241
(148 letters)
>gnl|CDD|163652 cd07409, MPP_CD73_N, CD73 ecto-5'-nucleotidase and related
proteins, N-terminal metallophosphatase domain. CD73 is
a mammalian ecto-5'-nucleotidase expressed in
endothelial cells and lymphocytes that catalyzes the
conversion of 5'-AMP to adenosine in the final step of a
pathway that generates adenosine from ATP. This pathway
also includes a CD39 nucleoside triphosphate
dephosphorylase that mediates the dephosphorylation of
ATP to ADP and then to 5'-AMP. These enzymes all have
an N-terminal metallophosphatase domain and a C-terminal
5'nucleotidase domain. The N-terminal
metallophosphatase domain belongs to a large superfamily
of distantly related metallophosphatases (MPPs) that
includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA
lariat debranching enzymes, YfcE-like
phosphodiesterases, purple acid phosphatases (PAPs),
YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid
sphingomyelinases (ASMases). MPPs are functionally
diverse, but all share a conserved domain with an active
site consisting of two metal ions (usually manganese,
iron, or zinc) coordinated with octahedral geometry by a
cage of histidine, aspartate, and asparagine residues.
The conserved domain is a double beta-sheet sandwich
with a di-metal active site made up of residues located
at the C-terminal side of the sheets. This domain is
thought to allow for productive metal coordination.
Length = 281
Score = 161 bits (411), Expect = 2e-50
Identities = 65/130 (50%), Positives = 94/130 (72%), Gaps = 4/130 (3%)
Query: 2 IASTG-NLRILDEITSVNKEADRLVREDKVDIVIALSHAGVDLDQTVAKASKHVSIVVGG 60
++S G ++ LDEI + KEAD+L + V+ +IALSH+G ++D+ +A+ V ++VGG
Sbjct: 155 LSSPGGKVKFLDEIEAAQKEADKL-KAQGVNKIIALSHSGYEVDKEIARKVPGVDVIVGG 213
Query: 61 HSHTFLYSGKPPCPHDKPKGPYPIVVTSSVDNRQVLVVQAAAYSRYLGLIHLQYNDKGNI 120
HSHTFLY+G PP +KP GPYP VV ++ D R+VLVVQA AY +YLG + + ++D GN+
Sbjct: 214 HSHTFLYTGPPPSG-EKPVGPYPTVVKNA-DGRKVLVVQAYAYGKYLGYLDVTFDDNGNV 271
Query: 121 VSWRGDPILL 130
SW G+PILL
Sbjct: 272 TSWEGNPILL 281
>gnl|CDD|163620 cd00845, MPP_UshA_N_like, Escherichia coli UshA-like family,
N-terminal metallophosphatase domain. This family
includes the bacterial enzyme UshA, and related enzymes
including SoxB, CpdB, YhcR, and CD73. All members have
a similar domain architecture which includes an
N-terminal metallophosphatase domain and a C-terminal
nucleotidase domain. The N-terminal metallophosphatase
domain belongs to a large superfamily of distantly
related metallophosphatases (MPPs) that includes:
Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat
debranching enzymes, YfcE-like phosphodiesterases,
purple acid phosphatases (PAPs), YbbF-like
UDP-2,3-diacylglucosamine hydrolases, and acid
sphingomyelinases (ASMases). MPPs are functionally
diverse, but all share a conserved domain with an active
site consisting of two metal ions (usually manganese,
iron, or zinc) coordinated with octahedral geometry by a
cage of histidine, aspartate, and asparagine residues.
The conserved domain is a double beta-sheet sandwich
with a di-metal active site made up of residues located
at the C-terminal side of the sheets. This domain is
thought to allow for productive metal coordination.
Length = 252
Score = 70.4 bits (173), Expect = 1e-15
Identities = 30/112 (26%), Positives = 50/112 (44%), Gaps = 22/112 (19%)
Query: 10 ILDEITSVNKEADRLVREDKVDIVIALSHAGVDLDQTVAKASKHVSIVVGGHSHTFLYSG 69
D +V + L + D++I LSH G+D D+ +A+ + +++GGH+H L
Sbjct: 153 FEDLAEAVAVAEELL--AEGADVIILLSHLGLDDDEELAEEVPGIDVILGGHTHHLLEEP 210
Query: 70 KPPCPHDKPKGPYPIVVTSSVDNRQVLVVQAAAYSRYLGLIHLQYNDKGNIV 121
+ V N L+VQA Y +Y+G I L+ +D V
Sbjct: 211 E-------------------VVN-GTLIVQAGKYGKYVGEIDLELDDDTKKV 242
>gnl|CDD|223808 COG0737, UshA, 5'-nucleotidase/2',3'-cyclic phosphodiesterase and
related esterases [Nucleotide transport and metabolism].
Length = 517
Score = 68.6 bits (168), Expect = 2e-14
Identities = 29/130 (22%), Positives = 53/130 (40%), Gaps = 26/130 (20%)
Query: 6 GNLRILDEITSVNKEADRLVREDKVDIVIALSHAGVDLDQTVAKASKHVS--------IV 57
+ D I + K L + + VD++IALSH G++ D +A ++
Sbjct: 181 EGVTFRDPIEAAKKYIPEL-KGEGVDVIIALSHLGIEDDLELASEVPGDVDVAVPGIDLI 239
Query: 58 VGGHSHTFLYSGKPPCPHDKPKGPYPIVVTSSVDNRQVLVVQAAAYSRYLGLIHLQYNDK 117
+GGHSHT G P + +VQA Y +Y+G++ + ++ +
Sbjct: 240 IGGHSHTVFPGGDKPGTVNG-----------------TPIVQAGEYGKYVGVLDITFDGE 282
Query: 118 GNIVSWRGDP 127
G + +
Sbjct: 283 GKVTDIKAVA 292
>gnl|CDD|163669 cd08162, MPP_PhoA_N, Synechococcus sp. strain PCC 7942 PhoA and
related proteins, N-terminal metallophosphatase domain.
Synechococcus sp. strain PCC 7942 PhoA is a large
atypical alkaline phosphatase. It is known to be
transported across the inner cytoplasmic membrane and
into the periplasmic space. In vivo inactivation of the
gene encoding PhoA leads to a loss of extracellular,
phosphate-regulated phosphatase activity, but does not
appear to affect the cells capacity for phosphate
uptake. PhoA may play a role in scavenging phosphate
during growth of Synechococcus sp. strain PCC 7942 in
its natural environment. PhoA belongs to a domain
family which includes the bacterial enzyme UshA and
several other related enzymes including SoxB, CpdB,
YhcR, and CD73. All members have a similar domain
architecture which includes an N-terminal
metallophosphatase domain and a C-terminal nucleotidase
domain. The N-terminal metallophosphatase domain
belongs to a large superfamily of distantly related
metallophosphatases (MPPs) that includes:
Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat
debranching enzymes, YfcE-like phosphodiesterases,
purple acid phosphatases (PAPs), YbbF-like
UDP-2,3-diacylglucosamine hydrolases, and acid
sphingomyelinases (ASMases). MPPs are functionally
diverse, but all share a conserved domain with an active
site consisting of two metal ions (usually manganese,
iron, or zinc) coordinated with octahedral geometry by a
cage of histidine, aspartate, and asparagine residues.
The conserved domain is a double beta-sheet sandwich
with a di-metal active site made up of residues located
at the C-terminal side of the sheets. This domain is
thought to allow for productive metal coordination.
Length = 313
Score = 60.4 bits (147), Expect = 1e-11
Identities = 31/137 (22%), Positives = 58/137 (42%), Gaps = 14/137 (10%)
Query: 2 IASTGNLRILD----------EITSVNKEADRLVREDKVDIVIALSHA-GVDLDQTVAKA 50
I+S G + + + + D L + ++ +I LSH + ++Q +A
Sbjct: 171 ISSPGGVTVNPDDTADMQALAAVEQIQPSIDALTAQG-INKIILLSHLQQISIEQALAAL 229
Query: 51 SKHVSIVVGGHSHTFLY-SGKPPCPHDKPKGPYPIVVTSSVDNRQVLVVQAAAYSRYLGL 109
V +++ G S+T L P D G YP+V T + D VL+V +Y+G
Sbjct: 230 LSGVDVIIAGGSNTLLADETDRLRPGDTAAGDYPLVTTDA-DGNPVLIVNTDGNYKYVGR 288
Query: 110 IHLQYNDKGNIVSWRGD 126
+ + ++ G I+
Sbjct: 289 LVVDFDANGVIIPISDA 305
>gnl|CDD|163655 cd07412, MPP_YhcR_N, Bacillus subtilis YhcR endonuclease and
related proteins, N-terminal metallophosphatase domain.
YhcR is a Bacillus subtilis sugar-nonspecific
endonuclease. It cleaves endonucleolytically to yield
nucleotide 3'-monophosphate products, similar to
Staphylococcus aureus micrococcal nuclease. YhcR appears
to be located in the cell wall, and is thought to be a
substrate for a Bacillus subtilis sortase. YhcR is the
major calcium-activated nuclease of B. subtilis. The
N-terminal metallophosphatase domain belongs to a large
superfamily of distantly related metallophosphatases
(MPPs) that includes: Mre11/SbcD-like exonucleases,
Dbr1-like RNA lariat debranching enzymes, YfcE-like
phosphodiesterases, purple acid phosphatases (PAPs),
YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid
sphingomyelinases (ASMases). MPPs are functionally
diverse, but all share a conserved domain with an active
site consisting of two metal ions (usually manganese,
iron, or zinc) coordinated with octahedral geometry by a
cage of histidine, aspartate, and asparagine residues.
The conserved domain is a double beta-sheet sandwich
with a di-metal active site made up of residues located
at the C-terminal side of the sheets. This domain is
thought to allow for productive metal coordination.
Length = 288
Score = 58.1 bits (141), Expect = 8e-11
Identities = 27/133 (20%), Positives = 46/133 (34%), Gaps = 35/133 (26%)
Query: 7 NLRILDEITSVNKEADRLVREDKVDIVIALSHAGVDLDQT--------------VAKASK 52
L DE+ ++N A L + VD ++ L+H G V +
Sbjct: 170 GLEFTDEVEAINAVAPEL-KAGGVDAIVVLAHEGGSTKGGDDTCSAASGPIADIVNRLDP 228
Query: 53 HVSIVVGGHSHTFLYSGKPPCPHDKPKGPYPIVVTSSVDNRQVLVVQAAAYSRYLGLIHL 112
V +V GH+H Y+ P P LV QA +Y + + + L
Sbjct: 229 DVDVVFAGHTHQA-YNCTVP-----AGNP-------------RLVTQAGSYGKAVADVDL 269
Query: 113 QYN-DKGNIVSWR 124
+ ++V+
Sbjct: 270 TIDPATKDVVNKS 282
>gnl|CDD|236505 PRK09419, PRK09419, bifunctional 2',3'-cyclic nucleotide
2'-phosphodiesterase/3'-nucleotidase precursor protein;
Reviewed.
Length = 1163
Score = 54.1 bits (130), Expect = 3e-09
Identities = 39/140 (27%), Positives = 59/140 (42%), Gaps = 32/140 (22%)
Query: 7 NLRILDEITSVNKEADRLVREDKVDIVIALSHAGVDLDQT--------VAKASKHVSIVV 58
NL D + K L ++KVD +IAL+H G + D+T +AK K V ++
Sbjct: 816 NLEFKDPAEAAKKWVKELKEKEKVDAIIALTHLGSNQDRTTGEITGLELAKKVKGVDAII 875
Query: 59 GGHSHTFLYSGKPPCPHDKPKGPYPIVVTSSVDNRQVLVVQAAAYSRYLGLIHLQYNDKG 118
H+HT DK VVQA Y R LG + ++++ KG
Sbjct: 876 SAHTHT---------LVDKVVNG-------------TPVVQAYKYGRALGRVDVKFDKKG 913
Query: 119 NIV--SWRGDPILLDKHIQE 136
+V + R D +D + E
Sbjct: 914 VVVVKTSRIDLSKIDDDLPE 933
Score = 39.4 bits (92), Expect = 3e-04
Identities = 26/118 (22%), Positives = 48/118 (40%), Gaps = 19/118 (16%)
Query: 6 GNLRILDEITSVNKEADRLVREDKVDIVIALSHAGV----------DLDQTVAKASKHVS 55
G + + + + NK + ++ D+++AL+H+G+ D +A+ +K +
Sbjct: 212 GKVEVKNIVEEANKTIPEM-KKGGADVIVALAHSGIESEYQSSGAEDSVYDLAEKTKGID 270
Query: 56 IVVGGHSHTFLYSGKPPCPHDKPKGPYPIVVTSSVDNRQVLVVQAAAYSRYLGLIHLQ 113
+V GH H P KG N + VV ++ +YLG I L
Sbjct: 271 AIVAGHQHGLF-------PGADYKGVPQFDNAKGTIN-GIPVVMPKSWGKYLGKIDLT 320
>gnl|CDD|163654 cd07411, MPP_SoxB_N, Thermus thermophilus SoxB and related
proteins, N-terminal metallophosphatase domain. SoxB
(sulfur oxidation protein B) is a periplasmic
thiosulfohydrolase and an essential component of the
sulfur oxidation pathway in archaea and bacteria. SoxB
has a dinuclear manganese cluster and is thought to
catalyze the release of sulfate from a protein-bound
cysteine S-thiosulfonate. SoxB is expressed from the
sox (sulfur oxidation) gene cluster, which encodes 15
other sox genes, and has two domains, an N-terminal
metallophosphatase domain and a C-terminal
5'-nucleotidase domain. SoxB binds the SoxYZ complex
and is thought to function as a sulfate-thiohydrolase.
SoxB is closely related to the UshA, YchR, and CpdB
proteins, all of which have the same two-domain
architecture. The N-terminal metallophosphatase domain
belongs to a large superfamily of distantly related
metallophosphatases (MPPs) that includes:
Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat
debranching enzymes, YfcE-like phosphodiesterases,
purple acid phosphatases (PAPs), YbbF-like
UDP-2,3-diacylglucosamine hydrolases, and acid
sphingomyelinases (ASMases). MPPs are functionally
diverse, but all share a conserved domain with an active
site consisting of two metal ions (usually manganese,
iron, or zinc) coordinated with octahedral geometry by a
cage of histidine, aspartate, and asparagine residues.
The conserved domain is a double beta-sheet sandwich
with a di-metal active site made up of residues located
at the C-terminal side of the sheets. This domain is
thought to allow for productive metal coordination.
Length = 264
Score = 52.2 bits (126), Expect = 8e-09
Identities = 28/108 (25%), Positives = 51/108 (47%), Gaps = 20/108 (18%)
Query: 17 VNKEADRLVREDKVDIVIALSHAGVDLDQTVAKASKHVSIVVGGHSHTFLYSGKPPCPHD 76
+ + +L RE+ VD+V+ LSH G+ +D +A+ + +++ GH+H KP
Sbjct: 171 LQEVVVKLRREEGVDVVVLLSHNGLPVDVELAERVPGIDVILSGHTHERTP--KP----- 223
Query: 77 KPKGPYPIVVTSSVDNRQVLVVQAAAYSRYLGLIHLQYNDKGNIVSWR 124
+ LVV+A ++ ++LG + L D IV +R
Sbjct: 224 ------------IIAGGGTLVVEAGSHGKFLGRLDLDVRDGK-IVDYR 258
>gnl|CDD|163653 cd07410, MPP_CpdB_N, Escherichia coli CpdB and related proteins,
N-terminal metallophosphatase domain. CpdB is a
bacterial periplasmic protein with an N-terminal
metallophosphatase domain and a C-terminal
3'-nucleotidase domain. This alignment model represents
the N-terminal metallophosphatase domain, which has
2',3'-cyclic phosphodiesterase activity, hydrolyzing the
2',3'-cyclic phosphates of adenosine, guanosine,
cytosine and uridine to yield nucleoside and phosphate.
CpdB also hydrolyzes the chromogenic substrates
p-nitrophenyl phosphate (PNPP), bis(PNPP) and
p-nitrophenyl phosphorylcholine (NPPC). CpdB is thought
to play a scavenging role during RNA hydrolysis by
converting the non-transportable nucleotides produced by
RNaseI to nucleosides which can easily enter a cell for
use as a carbon source. This family also includes YfkN,
a Bacillus subtilis nucleotide phosphoesterase with two
copies of each of the metallophosphatase and
3'-nucleotidase domains. The N-terminal
metallophosphatase domain belongs to a large superfamily
of distantly related metallophosphatases (MPPs) that
includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA
lariat debranching enzymes, YfcE-like
phosphodiesterases, purple acid phosphatases (PAPs),
YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid
sphingomyelinases (ASMases). MPPs are functionally
diverse, but all share a conserved domain with an active
site consisting of two metal ions (usually manganese,
iron, or zinc) coordinated with octahedral geometry by a
cage of histidine, aspartate, and asparagine residues.
The conserved domain is a double beta-sheet sandwich
with a di-metal active site made up of residues located
at the C-terminal side of the sheets. This domain is
thought to allow for productive metal coordination.
Length = 277
Score = 48.7 bits (117), Expect = 1e-07
Identities = 24/119 (20%), Positives = 41/119 (34%), Gaps = 33/119 (27%)
Query: 6 GNLRILDEITSVNKEADRLVREDKVDIVIALSHAGVDLDQT-----------VAKASKHV 54
G L+ D + + K +L R + D+V+ L+H G + D +A+ +
Sbjct: 161 GGLKFTDPVETAKKYVPKL-RAEGADVVVVLAHGGFERDLEESLTGENAAYELAEEVPGI 219
Query: 55 SIVVGGHSHTFLYSGKPPCPHDKPKGPYPIVVTSSVDNRQVLVVQAAAYSRYLGLIHLQ 113
++ GH H V VVQ + +LG+I L
Sbjct: 220 DAILTGHQHR---------------------RFPGPTVNGVPVVQPGNWGSHLGVIDLT 257
>gnl|CDD|163651 cd07408, MPP_SA0022_N, Staphylococcus aureus SA0022 and related
proteins, N-terminal metallophosphatase domain. SA0022
is an uncharacterized Staphylococcus aureus UshA-like
protein with two putative domains, an N-terminal
metallophosphatase domain and a C-terminal nucleotidase
domain. SA0022 also contains a putative C-terminal cell
wall anchor domain. The N-terminal metallophosphatase
domain belongs to a large superfamily of distantly
related metallophosphatases (MPPs) that includes:
Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat
debranching enzymes, YfcE-like phosphodiesterases,
purple acid phosphatases (PAPs), YbbF-like
UDP-2,3-diacylglucosamine hydrolases, and acid
sphingomyelinases (ASMases). MPPs are functionally
diverse, but all share a conserved domain with an active
site consisting of two metal ions (usually manganese,
iron, or zinc) coordinated with octahedral geometry by a
cage of histidine, aspartate, and asparagine residues.
The conserved domain is a double beta-sheet sandwich
with a di-metal active site made up of residues located
at the C-terminal side of the sheets. This domain is
thought to allow for productive metal coordination.
Length = 257
Score = 47.7 bits (114), Expect = 3e-07
Identities = 26/112 (23%), Positives = 43/112 (38%), Gaps = 25/112 (22%)
Query: 12 DEITSVNKEADRLVREDKVDIVIALSHAGVDLD------QTVAKASKHVSIVVGGHSHTF 65
D I K ++ D+++AL H GVD +A + +++ GHSHT
Sbjct: 154 DPIEEAKKVIVAALKAKGADVIVALGHLGVDRTSSPWTSTELAANVTGIDLIIDGHSHTT 213
Query: 66 LYSGKPPCPHDKPKGPYPIVVTSSVDNRQVLVVQAAAYSRYLGLIHLQYNDK 117
+ GK +N VL+ Q AY +G + L ++
Sbjct: 214 IEIGK-----------------KDGNN--VLLTQTGAYLANIGEVTLVFDTT 246
>gnl|CDD|163649 cd07406, MPP_CG11883_N, Drosophila melanogaster CG11883 and related
proteins, N-terminal metallophosphatase domain. CG11883
is an uncharacterized Drosophila melanogaster UshA-like
protein with two domains, an N-terminal
metallophosphatase domain and a C-terminal nucleotidase
domain. The N-terminal metallophosphatase domain
belongs to a large superfamily of distantly related
metallophosphatases (MPPs) that includes:
Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat
debranching enzymes, YfcE-like phosphodiesterases,
purple acid phosphatases (PAPs), YbbF-like
UDP-2,3-diacylglucosamine hydrolases, and acid
sphingomyelinases (ASMases). MPPs are functionally
diverse, but all share a conserved domain with an active
site consisting of two metal ions (usually manganese,
iron, or zinc) coordinated with octahedral geometry by a
cage of histidine, aspartate, and asparagine residues.
The conserved domain is a double beta-sheet sandwich
with a di-metal active site made up of residues located
at the C-terminal side of the sheets. This domain is
thought to allow for productive metal coordination.
Length = 257
Score = 45.3 bits (108), Expect = 2e-06
Identities = 25/121 (20%), Positives = 49/121 (40%), Gaps = 26/121 (21%)
Query: 7 NLRILDEITSVNKEADRLVREDKVDIVIALSHAGVDLDQTVAKASKHVSIVVGGHSHTFL 66
+R D + + + D L RE D++IAL+H + D+ +A+ + +++GGH H +
Sbjct: 150 YVRYRDYVETARELVDEL-REQGADLIIALTHMRLPNDKRLAREVPEIDLILGGHDHEY- 207
Query: 67 YSGKPPCPHDKPKGPYPIVVTSSVDNRQVLVVQAAAYSRYLGLIHLQYNDKGN---IVSW 123
V +V++ + R + +I L Y+ K + S
Sbjct: 208 ---------------------ILVQVGGTPIVKSGSDFRTVYIITLTYDTKTRKVQVNSR 246
Query: 124 R 124
Sbjct: 247 L 247
>gnl|CDD|236566 PRK09558, ushA, bifunctional UDP-sugar hydrolase/5'-nucleotidase
periplasmic precursor; Reviewed.
Length = 551
Score = 44.9 bits (107), Expect = 3e-06
Identities = 34/148 (22%), Positives = 67/148 (45%), Gaps = 30/148 (20%)
Query: 13 EITSVNKEADRLVRE----DKVDIVIALSHAG--------------VDLDQTVAKASKHV 54
E +EA +++ E +K D++IAL+H G V++ +++ +
Sbjct: 189 EFRDPAEEAKKVIPELKQTEKPDVIIALTHMGHYDDGEHGSNAPGDVEMARSLPAGG--L 246
Query: 55 SIVVGGHSHTFLYSGKPPCPHDKPKGPYPIVV-TSSVDNRQ--VLVVQAAAYSRYLGLIH 111
++VGGHS P C + K V T ++Q +VQA + +Y+G
Sbjct: 247 DMIVGGHSQD------PVCMAAENKKQVDYVPGTPCKPDQQNGTWIVQAHEWGKYVGRAD 300
Query: 112 LQY-NDKGNIVSWRGDPILLDKHIQEGN 138
++ N + +VS++ P+ L K ++ +
Sbjct: 301 FEFRNGELKLVSYQLIPVNLKKKVKWED 328
>gnl|CDD|211667 TIGR01530, nadN, NAD pyrophosphatase/5'-nucleotidase NadN. This
model describes NadN of Haemophilus influenzae and a
small number of close homologs in pathogenic,
Gram-negative bacteria. NadN is a periplasmic enzyme
that cleaves NAD (nicotinamide adenine dinucleotide) to
NMN (nicotinamide mononucleotide) and AMP. The NMN must
be converted by a 5'-nucleotidase to nicotinamide
riboside for import. NadN belongs a large family of
5'-nucleotidases and has NMN 5'-nucleotidase activity
for NMN, AMP, etc [Transport and binding proteins,
Other, Biosynthesis of cofactors, prosthetic groups, and
carriers, Pyridine nucleotides].
Length = 545
Score = 45.0 bits (106), Expect = 4e-06
Identities = 35/136 (25%), Positives = 68/136 (50%), Gaps = 6/136 (4%)
Query: 1 NIASTG-NLRILDEITSVNKEADRLVREDKVDIVIALSHAGVDLDQTVAKASKHVSIVVG 59
N +S G +++ DEI + A+ L ++ ++ +I LSHAG + + +A+ + ++V
Sbjct: 154 NSSSPGKDVKFYDEIATAQIMANAL-KQQGINKIILLSHAGSEKNIEIAQKVNDIDVIVT 212
Query: 60 GHSHTFLYSGKPPCPHDKPK-GPYPIVVTSSVDNRQVLVVQAAAYSRYLGLIHLQYNDKG 118
G SH +LY P YP+ + + V V++ AYS +G + ++++ +G
Sbjct: 213 GDSH-YLYGNDELRSLKLPVIYEYPLEFKNP-NGEPVFVMEGWAYSAVVGDLGVKFSPEG 270
Query: 119 NIVSWRGDP-ILLDKH 133
R P +L+ H
Sbjct: 271 IASITRKIPHVLMSSH 286
>gnl|CDD|163648 cd07405, MPP_UshA_N, Escherichia coli UshA and related proteins,
N-terminal metallophosphatase domain. UshA is a
bacterial periplasmic enzyme with UDP-sugar hydrolase
and dinucleoside-polyphosphate hydrolase activities
associated with its N-terminal metallophosphatase
domain, and 5'-nucleotidase activity associated with its
C-terminal domain. UshA has been studied in Escherichia
coli where it is expressed from the ushA gene as an
immature precursor and proteolytically cleaved to form a
mature product upon export to the periplasm. UshA
hydrolyzes many different nucleotides and nucleotide
derivitives and has been shown to degrade external
UDP-glucose to uridine, glucose 1-phosphate and
phosphate for utilization by the cell. The N-terminal
metallophosphatase domain belongs to a large superfamily
of distantly related metallophosphatases (MPPs) that
includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA
lariat debranching enzymes, YfcE-like
phosphodiesterases, purple acid phosphatases (PAPs),
YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid
sphingomyelinases (ASMases). MPPs are functionally
diverse, but all share a conserved domain with an active
site consisting of two metal ions (usually manganese,
iron, or zinc) coordinated with octahedral geometry by a
cage of histidine, aspartate, and asparagine residues.
The conserved domain is a double beta-sheet sandwich
with a di-metal active site made up of residues located
at the C-terminal side of the sheets. This domain is
thought to allow for productive metal coordination.
Length = 285
Score = 41.4 bits (97), Expect = 5e-05
Identities = 26/129 (20%), Positives = 48/129 (37%), Gaps = 17/129 (13%)
Query: 8 LRILDEITSVNKEADRLVREDKVDIVIALSHAG------------VDLDQTVAKASKHVS 55
+ I + L +++K DIVIA +H G D++ A + +
Sbjct: 153 IEFRPPIHEAKEVVPEL-KQEKPDIVIAATHMGHYDNGEHGSNAPGDVEMARALPAGGLD 211
Query: 56 IVVGGHSHTFLYSGKPPCPHDKPKGPYPIVVTSSVDNRQVLVVQAAAYSRYLGLIHLQYN 115
++VGGHS + K P V +VQA + +Y+G ++
Sbjct: 212 LIVGGHSQD---PVCMAAENKKQVDYVPGTPCKPDVQNGVWIVQAHEWGKYVGRADFEFR 268
Query: 116 DKGNIVSWR 124
+ G + +
Sbjct: 269 N-GKLKLVK 276
>gnl|CDD|107340 cd06345, PBP1_ABC_ligand_binding_like_10, Type I periplasmic
ligand-binding domain of uncharacterized ABC (Atpase
Binding Cassette)-type active transport systems that are
predicted to be involved in uptake of amino acids,
peptides, or inorganic ions. This subgroup includes the
type I periplasmic ligand-binding domain of
uncharacterized ABC (Atpase Binding Cassette)-type
active transport systems that are predicted to be
involved in uptake of amino acids, peptides, or
inorganic ions. This subgroup has high sequence
similarity to members of the family of hydrophobic amino
acid transporters (HAAT), such as
leucine/isoleucine/valine binding protein (LIVBP);
however its ligand specificity has not been determined
experimentally.
Length = 344
Score = 33.9 bits (78), Expect = 0.022
Identities = 18/45 (40%), Positives = 24/45 (53%), Gaps = 1/45 (2%)
Query: 19 KEADRLVREDKVDIVIALSHAGVDL-DQTVAKASKHVSIVVGGHS 62
+ +RLV +DKVD V+ + V L Q VA +K IV G S
Sbjct: 57 RAFERLVSQDKVDAVVGGYSSEVVLALQDVAAENKVPFIVTGAAS 101
>gnl|CDD|236504 PRK09418, PRK09418, bifunctional 2',3'-cyclic nucleotide
2'-phosphodiesterase/3'-nucleotidase precursor protein;
Reviewed.
Length = 780
Score = 32.4 bits (73), Expect = 0.076
Identities = 18/61 (29%), Positives = 33/61 (54%), Gaps = 9/61 (14%)
Query: 13 EITSVNKEADRLVREDKVDIVIALSHAGVD---LDQTVAKASKHVSIVVG------GHSH 63
+I K+ ++ + D+++AL+H+GVD + + AS +++ V G GHSH
Sbjct: 228 DIVETAKKMVPKMKAEGADVIVALAHSGVDKSGYNVGMENASYYLTEVPGVDAVLMGHSH 287
Query: 64 T 64
T
Sbjct: 288 T 288
>gnl|CDD|130457 TIGR01390, CycNucDiestase, 2',3'-cyclic-nucleotide
2'-phosphodiesterase. 2',3'-cyclic-nucleotide
2'-phosphodiesterase is a bifunctional enzyme localized
to the periplasm of Gram-negative bacteria.
2',3'-cyclic-nucleotide 2'-phosphodiesters are
intermediates formed during the hydrolysis of RNA by the
ribonuclease I, which is also found to the periplasm,
and other enzymes of the RNAse T2 family. Bacteria are
unable to transport 2',3'-cyclic-nucleotides into the
cytoplasm. 2',3'-cyclic-nucleotide 2'-phosphodiesterase
contains 2 active sites which catalyze the reactions
that convert the 2',3'-cyclic-nucleotide into a
3'-nucleotide, which is then converted into nucleic acid
and phosphate. Both final products can be transported
into the cytoplasm. Thus, it has been suggested that
2',3'-cyclic-nucleotide 2'-phosphodiesterase has a
'scavenging' function. Experimental evidence indicates
that 2',3'-cyclic-nucleotide 2'-phosphodiesterase
enables Yersinia enterocolitica O:8 to grow on 2'3'-cAMP
as a sole source of carbon and energy (PMID:11160814)
[Purines, pyrimidines, nucleosides, and nucleotides,
Other].
Length = 626
Score = 31.4 bits (71), Expect = 0.14
Identities = 33/119 (27%), Positives = 53/119 (44%), Gaps = 21/119 (17%)
Query: 13 EITSVNKEADRLVREDK---VDIVIALSHAGVDLD--QTVAKAS-------KHVSIVVGG 60
+ A + V E K DI++AL+H+G+ D Q A+ S + V+ G
Sbjct: 176 TTADIVDTARKYVPEMKAKGADIIVALAHSGISADPYQPGAENSAYYLTKVPGIDAVLFG 235
Query: 61 HSHTFLYSGKPPCPHDKPKGPYPIVVTSSVDNRQVLVVQAAAYSRYLGLIHLQYN-DKG 118
HSH ++ GK D P + +++ V V A + +LG++ LQ N D G
Sbjct: 236 HSHA-VFPGK-----DFATIPGADITNGTING--VPAVMAGYWGNHLGVVDLQLNYDSG 286
>gnl|CDD|163624 cd07381, MPP_CapA, CapA and related proteins, metallophosphatase
domain. CapA is one of three membrane-associated
enzymes in Bacillus anthracis that is required for
synthesis of gamma-polyglutamic acid (PGA), a major
component of the bacterial capsule. The YwtB and PgsA
proteins of Bacillus subtilis are closely related to
CapA and are also included in this alignment model.
CapA belongs to the metallophosphatase (MPP)
superfamily. MPPs are functionally diverse, but all
share a conserved domain with an active site consisting
of two metal ions (usually manganese, iron, or zinc)
coordinated with octahedral geometry by a cage of
histidine, aspartate, and asparagine residues. The MPP
superfamily includes: Mre11/SbcD-like exonucleases,
Dbr1-like RNA lariat debranching enzymes, YfcE-like
phosphodiesterases, purple acid phosphatases (PAPs),
YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid
sphingomyelinases (ASMases). The conserved domain is a
double beta-sheet sandwich with a di-metal active site
made up of residues located at the C-terminal side of
the sheets. This domain is thought to allow for
productive metal coordination.
Length = 239
Score = 31.1 bits (71), Expect = 0.17
Identities = 16/64 (25%), Positives = 22/64 (34%), Gaps = 15/64 (23%)
Query: 23 RLVRE--DKVDIVIALSHAGVDLDQTVAKASKH---------VSIVVGGHSHTF----LY 67
+ E K DIVI H GV+ + +V+G H H +Y
Sbjct: 166 ADIAEAKKKADIVIVSLHWGVEYSYYPTPEQRELARALIDAGADLVIGHHPHVLQGIEIY 225
Query: 68 SGKP 71
GK
Sbjct: 226 KGKL 229
>gnl|CDD|237019 PRK11907, PRK11907, bifunctional 2',3'-cyclic nucleotide
2'-phosphodiesterase/3'-nucleotidase precursor protein;
Reviewed.
Length = 814
Score = 31.0 bits (70), Expect = 0.21
Identities = 31/103 (30%), Positives = 40/103 (38%), Gaps = 13/103 (12%)
Query: 25 VREDKVDIVIALSHAGVDLDQTVAK--------AS-KHVSIVVGGHSHTFLYSGKPPCPH 75
+R DIV+ LSH+G+ DQ AS V VV GHSH SG +
Sbjct: 305 MRAAGADIVLVLSHSGIGDDQYEVGEENVGYQIASLSGVDAVVTGHSHAEFPSGNGTSFY 364
Query: 76 DKPKGPYPIVVTSSVDNRQVLVVQAAAYSRYLGLIHLQYNDKG 118
K Y V + V A Y +LG+I L +
Sbjct: 365 AK----YSGVDDINGKINGTPVTMAGKYGDHLGIIDLNLSYTD 403
>gnl|CDD|220300 pfam09587, PGA_cap, Bacterial capsule synthesis protein PGA_cap.
This protein is a putative poly-gamma-glutamate capsule
biosynthesis protein found in bacteria.
Poly-gamma-glutamate is a natural polymer that may be
involved in virulence and may help bacteria survive in
high salt concentrations. It is a surface-associated
protein.
Length = 237
Score = 30.7 bits (70), Expect = 0.22
Identities = 16/64 (25%), Positives = 22/64 (34%), Gaps = 15/64 (23%)
Query: 23 RLVRE--DKVDIVIALSHAGVDLDQTVAKASKH---------VSIVVGGHSHTF----LY 67
+R K DIVI H GV+ + +V+G H H +Y
Sbjct: 162 ADIRRAKKKADIVIVSLHWGVEYQYEPTPEQRELAHALIDAGADLVIGHHPHVLQPIEVY 221
Query: 68 SGKP 71
GK
Sbjct: 222 KGKL 225
>gnl|CDD|225399 COG2843, PgsA, Putative enzyme of poly-gamma-glutamate biosynthesis
(capsule formation) [Cell envelope biogenesis, outer
membrane].
Length = 372
Score = 30.5 bits (69), Expect = 0.27
Identities = 18/67 (26%), Positives = 23/67 (34%), Gaps = 10/67 (14%)
Query: 6 GNLRILDEITSVNKEADRLVREDKVDIVIALSHAGVDLDQTVA---KASKH------VSI 56
G DE A L + D+VI H GV+ A +A I
Sbjct: 201 GVWLEDDEALERVL-AAVLAAKKGADLVIVQPHWGVEYAYEPAAGQRALARRLIDAGADI 259
Query: 57 VVGGHSH 63
+VG H H
Sbjct: 260 IVGHHPH 266
>gnl|CDD|223027 PHA03262, PHA03262, Capsid triplex subunit 1; Provisional.
Length = 264
Score = 30.0 bits (68), Expect = 0.37
Identities = 11/25 (44%), Positives = 15/25 (60%), Gaps = 1/25 (4%)
Query: 74 PHDKPKGPYPI-VVTSSVDNRQVLV 97
++ P+G I VV SSV +R LV
Sbjct: 166 DYNGPEGKPGIYVVLSSVRHRHTLV 190
>gnl|CDD|214858 smart00854, PGA_cap, Bacterial capsule synthesis protein PGA_cap.
This protein is a putative poly-gamma-glutamate capsule
biosynthesis protein found in bacteria.
Poly-gamma-glutamate is a natural polymer that may be
involved in virulence and may help bacteria survive in
high salt concentrations. It is a surface-associated
protein.
Length = 239
Score = 29.9 bits (68), Expect = 0.45
Identities = 13/56 (23%), Positives = 20/56 (35%), Gaps = 13/56 (23%)
Query: 29 KVDIVIALSHAGVDLDQTVAKASKH---------VSIVVGGHSHTF----LYSGKP 71
+ D+VI H GV+ + +V+G H H +Y GK
Sbjct: 172 EADVVIVSLHWGVEYQYEPTPEQRELAHALIDAGADVVIGHHPHVLQPIEIYKGKL 227
>gnl|CDD|205489 pfam13309, HTH_22, HTH domain. This domain is a helix-turn-helix
domain that is likely to act as a DNA-binding domain.
Length = 64
Score = 27.8 bits (63), Expect = 0.63
Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 2/50 (4%)
Query: 9 RILDE-ITSVNKEADRLVREDKVDIVIALSHAGV-DLDQTVAKASKHVSI 56
++DE I V K RL +E+K +IV L G+ + V ++ + I
Sbjct: 5 SLIDEVIAEVGKPPARLSKEEKREIVRELDEKGIFLIKGAVEYVAEALGI 54
>gnl|CDD|201110 pfam00245, Alk_phosphatase, Alkaline phosphatase.
Length = 421
Score = 29.3 bits (66), Expect = 0.70
Identities = 18/80 (22%), Positives = 27/80 (33%), Gaps = 14/80 (17%)
Query: 31 DIVIALSHAGVDLDQTVAKASKH-------VSIVVGGHSHTFLYSGKPPCPHDKPKGPYP 83
D AL VD DQ V A + + +V HSH F + G P+G
Sbjct: 274 DACGALGET-VDFDQAVKAALEFAKSEKDTLVVVTADHSHVFSFGGYT------PRGWSI 326
Query: 84 IVVTSSVDNRQVLVVQAAAY 103
+ + + + Y
Sbjct: 327 FGLAPAKATPDGMAFKLILY 346
>gnl|CDD|107327 cd06332, PBP1_aromatic_compounds_like, Type I periplasmic binding
proteins of active transport systems that are predicted
to be involved in transport of aromatic compounds such
as 2-nitrobenzoic acid and alkylbenzenes. This group
includes the type I periplasmic binding proteins of
active transport systems that are predicted to be
involved in transport of aromatic compounds such as
2-nitrobenzoic acid and alkylbenzenes; their substrate
specificities are not well characterized, however.
Members also exhibit close similarity to active
transport systems for short chain amides and/or urea
found in bacteria and archaea.
Length = 333
Score = 28.7 bits (65), Expect = 0.98
Identities = 8/21 (38%), Positives = 14/21 (66%)
Query: 21 ADRLVREDKVDIVIALSHAGV 41
A +L+ +DKVD+V+ + V
Sbjct: 57 ARKLIEQDKVDVVVGPVFSNV 77
>gnl|CDD|236506 PRK09420, cpdB, bifunctional 2',3'-cyclic nucleotide
2'-phosphodiesterase/3'-nucleotidase periplasmic
precursor protein; Reviewed.
Length = 649
Score = 28.7 bits (65), Expect = 1.2
Identities = 17/47 (36%), Positives = 24/47 (51%), Gaps = 9/47 (19%)
Query: 26 REDKVDIVIALSHAGVDLDQTVAKA---SKHVSIVVG------GHSH 63
+E DIV+A+ H+G+ D A A ++S V G GHSH
Sbjct: 215 KEKGADIVVAIPHSGISADPYKAMAENSVYYLSEVPGIDAIMFGHSH 261
>gnl|CDD|107322 cd06327, PBP1_SBP_like_1, Periplasmic solute-binding domain of
active transport proteins that belong to the type I
periplasmic binding fold protein family. Periplasmic
solute-binding domain of active transport proteins that
belong to the type I periplasmic binding fold protein
family. Solute binding proteins are the primary specific
receptors that initiate uptake of a broad range of
solutes, including amino acids, peptides and inorganic
ions. The members are predicted to have a similar
function to an active transport system for short chain
amides and urea by sequence comparison and phylogenetic
analysis. Moreover, this binding domain has high
sequence identity to the family of hydrophobic amino
acid transporters (HAAT), and thus may also be involved
in transport of amino acids.
Length = 334
Score = 28.7 bits (65), Expect = 1.2
Identities = 14/43 (32%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 21 ADRLVREDKVDIVIALSHAGVDLD-QTVAKASKHVSIVVGGHS 62
A + D VD+++ ++ V L Q VA+ K + IV G S
Sbjct: 58 AREWIDRDGVDMIVGGPNSAVALAVQEVAREKKKIYIVTGAGS 100
>gnl|CDD|237983 cd00016, alkPPc, Alkaline phosphatase homologues; alkaline
phosphatases are non-specific phosphomonoesterases that
catalyze the hydrolysis reaction via a phosphoseryl
intermediate to produce inorganic phosphate and the
corresponding alcohol, optimally at high pH. Alkaline
phosphatase exists as a dimer, each monomer binding 2
zinc atoms and one magnesium atom, which are essential
for enzymatic activity.
Length = 384
Score = 28.0 bits (63), Expect = 1.8
Identities = 8/39 (20%), Positives = 10/39 (25%), Gaps = 7/39 (17%)
Query: 41 VDLDQTVAKASKHVS-------IVVGGHSHTFLYSGKPP 72
+ D V A +V HSH G
Sbjct: 277 LAFDDAVEAALDFAKKDGDTLVVVTADHSHGGTILGYAG 315
>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 = 27.5 bits (62), Expect = 2.6
Identities = 12/31 (38%), Positives = 17/31 (54%), Gaps = 3/31 (9%)
Query: 7 NLRILD---EITSVNKEADRLVREDKVDIVI 34
L +LD + T A +L+ EDKVD +I
Sbjct: 41 ELIVLDDGSDPTKAVTNARKLIEEDKVDAII 71
>gnl|CDD|187551 cd05240, UDP_G4E_3_SDR_e, UDP-glucose 4 epimerase (G4E), subgroup
3, extended (e) SDRs. Members of this bacterial
subgroup are identified as possible sugar epimerases,
such as UDP-glucose 4 epimerase. However, while the
NAD(P)-binding motif is fairly well conserved, not all
members retain the canonical active site tetrad of the
extended SDRs. UDP-glucose 4 epimerase (aka
UDP-galactose-4-epimerase), is a homodimeric extended
SDR. It catalyzes the NAD-dependent conversion of
UDP-galactose to UDP-glucose, the final step in Leloir
galactose synthesis. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 306
Score = 27.7 bits (62), Expect = 2.6
Identities = 20/73 (27%), Positives = 27/73 (36%), Gaps = 12/73 (16%)
Query: 18 NKEADRLVREDKVDIVIALSHAGVDLDQTVAKASKHVSIVVGGHSHTFLYSGKPPCPHDK 77
+ A + RE + D V+ H LD A +H I V G + P
Sbjct: 51 DPAAADVFREREADAVV---HLAFILDPPRDGAERH-RINVDGTQNVLDACAAAGVPR-- 104
Query: 78 PKGPYPIVVTSSV 90
+VVTSSV
Sbjct: 105 ------VVVTSSV 111
>gnl|CDD|223755 COG0683, LivK, ABC-type branched-chain amino acid transport
systems, periplasmic component [Amino acid transport and
metabolism].
Length = 366
Score = 27.4 bits (61), Expect = 2.9
Identities = 18/94 (19%), Positives = 30/94 (31%), Gaps = 10/94 (10%)
Query: 21 ADRLVREDKVDIVI--ALSHAGVDLDQTVAKASKHVSIVVGGHSHTFLYSGKPP-----C 73
A +L+ +D VD V+ S + VA+ + I + G P
Sbjct: 70 ARKLITQDGVDAVVGPTTSGVALAASP-VAEEAGVPLISPSATAPQLTGRGLKPNVFRTG 128
Query: 74 PHDKPKGP--YPIVVTSSVDNRQVLVVQAAAYSR 105
P D + +V R ++ AY
Sbjct: 129 PTDNQQAAAAADYLVKKGGKKRVAIIGDDYAYGE 162
>gnl|CDD|163665 cd07422, MPP_ApaH, Escherichia coli ApaH and related proteins,
metallophosphatase domain. ApaH (also known as
symmetrically cleaving Ap4A hydrolase and
bis(5'nucleosyl)-tetraphosphatase) is a bacterial member
of the PPP (phosphoprotein phosphatase) family of
serine/threonine phosphatases that hydrolyzes the
nucleotide-signaling molecule diadenosine tetraphosphate
(Ap(4)A) into two ADP and also hydrolyzes Ap(5)A,
Gp(4)G, and other extending compounds. Null mutations
in apaH result in high intracellular levels of Ap(4)A
which correlate with multiple phenotypes, including a
decreased expression of catabolite-repressible genes, a
reduction in the expression of flagellar operons, and an
increased sensitivity to UV and heat. Ap4A hydrolase
is important in responding to heat shock and oxidative
stress via regulating the concentration of Ap4A in
bacteria. Ap4A hydrolase is also thought to play a role
in siderophore production, but the mechanism by which
ApaH interacts with siderophore pathways in unknown.
The PPP (phosphoprotein phosphatase) family, to which
ApaH belongs, is one of two known protein phosphatase
families specific for serine and threonine. The PPP
family also includes: PP1, PP2A, PP2B (calcineurin),
PP4, PP5, PP6, PP7, Bsu1, RdgC, PrpE, and PrpA/PrpB. The
PPP catalytic domain is defined by three conserved
motifs (-GDXHG-, -GDXVDRG- and -GNHE-). The PPP enzyme
family is ancient with members found in all eukaryotes,
and in most bacterial and archeal genomes.
Dephosphorylation of phosphoserines and
phosphothreonines on target proteins plays a central
role in the regulation of many cellular processes. PPPs
belong to the metallophosphatase (MPP) superfamily.
MPPs are functionally diverse, but all share a conserved
domain with an active site consisting of two metal ions
(usually manganese, iron, or zinc) coordinated with
octahedral geometry by a cage of histidine, aspartate,
and asparagine residues. The MPP superfamily includes:
Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat
debranching enzymes, YfcE-like phosphodiesterases,
purple acid phosphatases (PAPs), YbbF-like
UDP-2,3-diacylglucosamine hydrolases, and acid
sphingomyelinases (ASMases). The conserved domain is a
double beta-sheet sandwich with a di-metal active site
made up of residues located at the C-terminal side of
the sheets. This domain is thought to allow for
productive metal coordination.
Length = 257
Score = 27.1 bits (61), Expect = 3.7
Identities = 15/64 (23%), Positives = 28/64 (43%), Gaps = 9/64 (14%)
Query: 24 LVREDKVDIVIALSHAGVDLDQTVAKASKHV----SIVVGGHSHTFL---YSGKPPCPHD 76
L R+ ++ I+ + HAG+ ++ +A K + + G + FL Y +P D
Sbjct: 106 LHRDPELGIL--MVHAGIPPQWSIEQALKLAREVEAALRGPNYREFLKNMYGNEPDRWSD 163
Query: 77 KPKG 80
G
Sbjct: 164 DLTG 167
>gnl|CDD|173945 cd08186, Fe-ADH8, Iron-containing alcohol dehydrogenase. Type III
Iron-containing alcohol dehydrogenases (ADH). Alcohol
dehydrogenase catalyzes the reduction of acetaldehyde to
alcohol with NADP as cofactor. The ADH of
hyperthermophilic archaeon Thermococcus hydrothermalis
oxidizes a series of primary aliphatic and aromatic
alcohols preferentially from C2 to C8 but is also active
towards methanol and glycerol and stereospecific for
monoterpenes. It was suggested that the type III ADHs in
microorganisms are involved in acetaldehyde detoxication
rather than in alcohol turnover.
Length = 383
Score = 27.3 bits (61), Expect = 3.7
Identities = 18/69 (26%), Positives = 30/69 (43%), Gaps = 13/69 (18%)
Query: 20 EADRLVREDKVDIVIALSHAGVDLDQTVAKASKHVSIVV--GGHSHTFLYSGKPPCPHDK 77
EA +L RE VIA+ G +D ++K +I++ G + LY K
Sbjct: 75 EAAKLGREFGAQAVIAIG-GGSPID-----SAKSAAILLEHPGKTARDLYEFKF-----T 123
Query: 78 PKGPYPIVV 86
P+ P++
Sbjct: 124 PEKALPLIA 132
>gnl|CDD|177451 PHA02669, PHA02669, hypothetical protein; Provisional.
Length = 210
Score = 26.9 bits (59), Expect = 4.5
Identities = 13/32 (40%), Positives = 15/32 (46%)
Query: 59 GGHSHTFLYSGKPPCPHDKPKGPYPIVVTSSV 90
G HS L SG P + P PYP V+ V
Sbjct: 131 GYHSRETLCSGPPRQANIPPVTPYPDEVSVGV 162
>gnl|CDD|215750 pfam00149, Metallophos, Calcineurin-like phosphoesterase. This
family includes a diverse range of phosphoesterases,
including protein phosphoserine phosphatases,
nucleotidases, sphingomyelin phosphodiesterases and
2'-3' cAMP phosphodiesterases as well as nucleases such
as bacterial SbcD or yeast MRE11. The most conserved
regions in this superfamily centre around the metal
chelating residues.
Length = 185
Score = 26.6 bits (58), Expect = 4.9
Identities = 13/62 (20%), Positives = 20/62 (32%), Gaps = 14/62 (22%)
Query: 18 NKEADRLVREDKVDIVIALSHAGV-----DLDQTVAKASKH---------VSIVVGGHSH 63
+ D L+ VD I L H + D + V +V+ GH+H
Sbjct: 124 LELLDLLLLAALVDGKILLVHGPLSPSLDSGDDIYLFGEEALEDLLKDNGVDLVLRGHTH 183
Query: 64 TF 65
Sbjct: 184 VP 185
>gnl|CDD|234673 PRK00166, apaH, diadenosine tetraphosphatase; Reviewed.
Length = 275
Score = 26.7 bits (60), Expect = 4.9
Identities = 12/54 (22%), Positives = 21/54 (38%), Gaps = 7/54 (12%)
Query: 34 IALSHAGV----DLDQTVAKASKHVSIVVGGHSHTFL---YSGKPPCPHDKPKG 80
+ + HAG+ DL +A A + +++ FL Y +P G
Sbjct: 116 LVMVHAGIPPQWDLATALALAREVEAVLRSDDYRDFLANMYGNEPDRWSPDLTG 169
>gnl|CDD|218606 pfam05488, PAAR_motif, PAAR motif. This motif is found usually
in pairs in a family of bacterial membrane proteins. It
is also found as a triplet of tandem repeats comprising
the entire length in a another family of hypothetical
proteins.
Length = 75
Score = 25.3 bits (56), Expect = 5.0
Identities = 15/49 (30%), Positives = 19/49 (38%), Gaps = 10/49 (20%)
Query: 56 IVVGGHSHTFLYSGKP------PCPHDKPKGPYPIVVTSS---VDNRQV 95
V+ G S T GKP P K GP PIV S ++ +
Sbjct: 12 TVITG-SSTVFIDGKPVARVGDPVTCPKCGGPGPIVEGSPTVFINGKPA 59
>gnl|CDD|211680 TIGR01664, DNA-3'-Pase, DNA 3'-phosphatase. This model
represents a family of proteins and protein domains
which catalyze the dephosphorylation of DNA
3'-phosphates. It is believed that this activity is
important for the repair of single-strand breaks in DNA
caused by radiation or oxidative damage. This domain is
often (TIGR01663), but not always linked to a DNA
5'-kinase domain. The central phosphatase domain is a
member of the IIIA subfamily (TIGR01662) of the
haloacid dehalogenase (HAD) superfamily of
aspartate-nucleophile hydrolases. As is common in this
superfamily, the enzyme is magnesium dependent. A
difference between this enzyme and other
HAD-superfamily phosphatases is in the third conserved
catalytic motif which usually contains two conserved
aspartate residues believed to be involved in binding
the magnesium ion. Here, the second aspartate is
usually replaced by an arginine residue which may
indicate an interaction with the phosphate backbone of
the substrate. Alternatively, there is an additional
conserved aspartate downstream of the ususal site which
may indicate slightly different fold in this region.
Length = 166
Score = 26.3 bits (58), Expect = 6.2
Identities = 11/43 (25%), Positives = 12/43 (27%), Gaps = 1/43 (2%)
Query: 31 DIVIALSH-AGVDLDQTVAKASKHVSIVVGGHSHTFLYSGKPP 72
D S A DLD T+ FLY P
Sbjct: 7 DGPKPQSKVAAFDLDGTLITTRSGKVFPTSASDWRFLYPEIPA 49
>gnl|CDD|178500 PLN02912, PLN02912, oxidoreductase, 2OG-Fe(II) oxygenase family
protein.
Length = 348
Score = 26.1 bits (57), Expect = 8.3
Identities = 8/32 (25%), Positives = 14/32 (43%)
Query: 43 LDQTVAKASKHVSIVVGGHSHTFLYSGKPPCP 74
+ +++ VS +G H + PPCP
Sbjct: 177 ISESLGLEKDRVSNTLGKHGQHMAINYYPPCP 208
>gnl|CDD|215405 PLN02760, PLN02760, 4-aminobutyrate:pyruvate transaminase.
Length = 504
Score = 25.9 bits (57), Expect = 8.9
Identities = 17/57 (29%), Positives = 25/57 (43%), Gaps = 10/57 (17%)
Query: 25 VREDKVDIVIALSHAGVDLDQTVAKASKHVSIVVGGHS-------HTFLYSGKP-PC 73
++ D V + ALS A + + + S +S V+ S H F YSG P C
Sbjct: 320 IKPDLVSLAKALSSAYMPIGAVLV--SPEISDVIHSQSNKLGSFAHGFTYSGHPVSC 374
>gnl|CDD|215116 PLN02172, PLN02172, flavin-containing monooxygenase FMO GS-OX.
Length = 461
Score = 26.0 bits (57), Expect = 9.5
Identities = 15/51 (29%), Positives = 26/51 (50%), Gaps = 4/51 (7%)
Query: 27 EDKVDIVIALSHAGVDLDQTVAKASKHVSIVV-GGHSHTFLYSGKPPCPHD 76
+++V +VI +G D+ + +AK +K V I S T+ K P P +
Sbjct: 203 KNEVVVVIGNFASGADISRDIAKVAKEVHIASRASESDTY---EKLPVPQN 250
>gnl|CDD|107326 cd06331, PBP1_AmiC_like, Type I periplasmic components of
amide-binding protein (AmiC) and the active transport
system for short-chain and urea (FmdDEF). This group
includes the type I periplasmic components of
amide-binding protein (AmiC) and the active transport
system for short-chain and urea (FmdDEF), found in
bacteria and Archaea. AmiC controls expression of the
amidase operon by a ligand-triggered conformational
switch. In the absence of ligand or presence of
butyramide (repressor), AmiC (the ligand sensor and
negative regulator) adopts an open conformation and
inhibits the transcription antitermination function of
AmiR by direct protein-protein interaction. In the
presence of inducing ligands such as acetamide, AmiC
adopts a closed conformation which disrupts a silencing
AmiC-AmiR complex and the expression of amidase and
other genes of the operon is induced. FmdDEF is
predicted to be an ATP-dependent transporter and
closely resembles the periplasmic binding protein and
the two transmembrane proteins present in various
hydrophobic amino acid-binding transport systems.
Length = 333
Score = 26.0 bits (58), Expect = 9.8
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 19 KEADRLVREDKVDIVIA 35
K A RL+R+DKVD V
Sbjct: 57 KAARRLIRDDKVDAVFG 73
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 0.137 0.401
Gapped
Lambda K H
0.267 0.0782 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,551,327
Number of extensions: 678725
Number of successful extensions: 764
Number of sequences better than 10.0: 1
Number of HSP's gapped: 733
Number of HSP's successfully gapped: 61
Length of query: 148
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 60
Effective length of database: 7,034,450
Effective search space: 422067000
Effective search space used: 422067000
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: 54 (24.5 bits)