RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy18151
(204 letters)
>gnl|CDD|223483 COG0406, phoE, Broad specificity phosphatase PhoE and related
phosphatases [General function prediction only].
Length = 208
Score = 63.7 bits (155), Expect = 1e-12
Identities = 28/102 (27%), Positives = 42/102 (41%), Gaps = 4/102 (3%)
Query: 105 HKQVIWVDDHKALDDIHAGICEGQTYTEIYTNHCAQYIDTRADKFYNRWPQGECYKDVLT 164
+ VDD L +I G EG T E+ + AD + P GE DV
Sbjct: 73 LGLPLEVDD--RLREIDFGDWEGLTIDELAEEPPEELAAWLADPYLAPPPGGESLADVSK 130
Query: 165 RLELIILKI--EHSKSNLLIVSHPAVLRCLLGYFQEEPPDMR 204
R+ + ++ +N+L+VSH V+R LL Y +
Sbjct: 131 RVVAALAELLRSPPGNNVLVVSHGGVIRALLAYLLGLDLEEL 172
>gnl|CDD|234131 TIGR03162, ribazole_cobC, alpha-ribazole phosphatase. Members of
this protein family include the known CobC protein of
Salmonella and Eschichia coli species, and homologous
proteins found in cobalamin biosynthesis regions in
other bacteria. This protein is alpha-ribazole
phosphatase (EC 3.1.3.73) and, like many phosphatases,
can be closely related in sequence to other phosphatases
with different functions. Close homologs excluded from
this model include proteins with duplications, so this
model is built in -g mode to suppress hits to those
proteins [Biosynthesis of cofactors, prosthetic groups,
and carriers, Heme, porphyrin, and cobalamin].
Length = 177
Score = 59.6 bits (145), Expect = 2e-11
Identities = 24/94 (25%), Positives = 40/94 (42%), Gaps = 13/94 (13%)
Query: 116 ALDDIHAGICEGQTYTEIYTNHCAQYIDTRADKFYNRW-----PQGECYKDVLTRLELII 170
L ++ G EG+++ EI D + W P GE + D R+ +
Sbjct: 75 RLREMDFGDWEGRSWDEIPEA------YPELDAWAADWQHARPPGGESFADFYQRVSEFL 128
Query: 171 LKI--EHSKSNLLIVSHPAVLRCLLGYFQEEPPD 202
++ H N+LIV+H V+R LL + P +
Sbjct: 129 EELLKAHEGDNVLIVTHGGVIRALLAHLLGLPLE 162
>gnl|CDD|214859 smart00855, PGAM, Phosphoglycerate mutase family. Phosphoglycerate
mutase (PGAM) and bisphosphoglycerate mutase (BPGM) are
structurally related enzymes that catalyse reactions
involving the transfer of phospho groups between the
three carbon atoms of phosphoglycerate... Both enzymes
can catalyse three different reactions with different
specificities, the isomerization of 2-phosphoglycerate
(2-PGA) to 3-phosphoglycerate (3-PGA) with
2,3-diphosphoglycerate (2,3-DPG) as the primer of the
reaction, the synthesis of 2,3-DPG from 1,3-DPG with
3-PGA as a primer and the degradation of 2,3-DPG to
3-PGA (phosphatase activity). In mammals, PGAM is a
dimeric protein with two isoforms, the M (muscle) and B
(brain) forms. In yeast, PGAM is a tetrameric protein.
Length = 158
Score = 58.6 bits (142), Expect = 4e-11
Identities = 26/88 (29%), Positives = 38/88 (43%), Gaps = 7/88 (7%)
Query: 112 DDHKALDDIHAGICEGQTYTEIYTNHCAQYID---TRADKFYNRWPQGECYKDVLTR--- 165
L + G EG T+ EI + +Y+ D P GE D++ R
Sbjct: 71 LGLPGLRERDFGAWEGLTWDEIAAKYPEEYLAAWRDPYDPAPPAPPGGESLADLVERVEP 130
Query: 166 -LELIILKIEHSKSNLLIVSHPAVLRCL 192
L+ +I + S N+LIVSH V+R L
Sbjct: 131 ALDELIATADASGQNVLIVSHGGVIRAL 158
>gnl|CDD|140343 PTZ00322, PTZ00322,
6-phosphofructo-2-kinase/fructose-2,6-biphosphatase;
Provisional.
Length = 664
Score = 59.1 bits (143), Expect = 2e-10
Identities = 32/81 (39%), Positives = 44/81 (54%), Gaps = 1/81 (1%)
Query: 117 LDDIHAGICEGQTYTEIYTNHCAQYIDTRADKFYNRWPQGECYKDVL-TRLELIILKIEH 175
LDDI+ G CEGQ +++ +AD +Y WP GEC V RLE I I+
Sbjct: 516 LDDINHGDCEGQLLSDVRRTMPNTLQSMKADPYYTAWPNGECIHQVFNARLEPHIHDIQA 575
Query: 176 SKSNLLIVSHPAVLRCLLGYF 196
S + +L+VSH +L+ L YF
Sbjct: 576 STTPVLVVSHLHLLQGLYSYF 596
>gnl|CDD|215845 pfam00300, His_Phos_1, Histidine phosphatase superfamily (branch
1). The histidine phosphatase superfamily is so named
because catalysis centres on a conserved His residue
that is transiently phosphorylated during the catalytic
cycle. Other conserved residues contribute to a
'phosphate pocket' and interact with the phospho group
of substrate before, during and after its transfer to
the His residue. Structure and sequence analyses show
that different families contribute different additional
residues to the 'phosphate pocket' and, more
surprisingly, differ in the position, in sequence and in
three dimensions, of a catalytically essential acidic
residue. The superfamily may be divided into two main
branches. The larger branch 1 contains a wide variety of
catalytic functions, the best known being fructose
2,6-bisphosphatase (found in a bifunctional protein with
2-phosphofructokinase) and cofactor-dependent
phosphoglycerate mutase. The latter is an unusual
example of a mutase activity in the superfamily: the
vast majority of members appear to be phosphatases. The
bacterial regulatory protein phosphatase SixA is also in
branch 1 and has a minimal, and possible ancestral-like
structure, lacking the large domain insertions that
contribute to binding of small molecules in branch 1
members.
Length = 154
Score = 54.4 bits (131), Expect = 1e-09
Identities = 26/92 (28%), Positives = 39/92 (42%), Gaps = 2/92 (2%)
Query: 103 INHKQVIWVDDHKALDDIHAGICEGQTYTEIYTNHCAQYIDTRADKFYNRWPQGECYKDV 162
+ + + L + G EG T+ EI + D R P GE DV
Sbjct: 63 LAEALGLPIIVDPRLRERDFGDWEGLTFDEIKAEFPEELRAWLEDPADFRPPGGESLADV 122
Query: 163 LTRLELIILKI--EHSKSNLLIVSHPAVLRCL 192
R+E + ++ +H N+LIVSH V+R L
Sbjct: 123 YERVEAALEELLAKHPGGNVLIVSHGGVIRAL 154
>gnl|CDD|132718 cd07067, HP_PGM_like, Histidine phosphatase domain found in
phosphoglycerate mutases and related proteins, mostly
phosphatases; contains a His residue which is
phosphorylated during the reaction. Subgroup of the
catalytic domain of a functionally diverse set of
proteins, most of which are phosphatases. The conserved
catalytic core of this domain contains a His residue
which is phosphorylated in the reaction. This subgroup
contains cofactor-dependent and cofactor-independent
phosphoglycerate mutases (dPGM, and BPGM respectively),
fructose-2,6-bisphosphatase (F26BP)ase, Sts-1, SixA, and
related proteins. Functions include roles in metabolism,
signaling, or regulation, for example, F26BPase affects
glycolysis and gluconeogenesis through controlling the
concentration of F26BP; BPGM controls the concentration
of 2,3-BPG (the main allosteric effector of hemoglobin
in human blood cells); human Sts-1 is a T-cell
regulator; Escherichia coli Six A participates in the
ArcB-dependent His-to-Asp phosphorelay signaling system.
Deficiency and mutation in many of the human members
result in disease, for example erythrocyte BPGM
deficiency is a disease associated with a decrease in
the concentration of 2,3-BPG.
Length = 153
Score = 36.5 bits (85), Expect = 0.003
Identities = 14/40 (35%), Positives = 20/40 (50%), Gaps = 2/40 (5%)
Query: 165 RLELIILKI--EHSKSNLLIVSHPAVLRCLLGYFQEEPPD 202
R+ + ++ H N+LIVSH VLR LL Y +
Sbjct: 85 RVLPALEELIAPHDGKNVLIVSHGGVLRALLAYLLGLSDE 124
>gnl|CDD|172065 PRK13463, PRK13463, phosphatase PhoE; Provisional.
Length = 203
Score = 33.5 bits (76), Expect = 0.048
Identities = 33/95 (34%), Positives = 49/95 (51%), Gaps = 14/95 (14%)
Query: 109 IWVDDHKALDDIHAGICEGQTYTEIYTNHCAQYIDTRADKFYN-----RWPQGECYKDVL 163
I D+H +I+ GI EGQT +I QY D F+N + GE ++ V
Sbjct: 75 IIADEH--FYEINMGIWEGQTIDDIER----QYPD-DIQLFWNEPHLFQSTSGENFEAVH 127
Query: 164 TR-LELIILKIE-HSKSNLLIVSHPAVLRCLLGYF 196
R +E + L +E H ++LIVSH A + L+G+F
Sbjct: 128 KRVIEGMQLLLEKHKGESILIVSHAAAAKLLVGHF 162
>gnl|CDD|132716 cd07040, HP, Histidine phosphatase domain found in a functionally
diverse set of proteins, mostly phosphatases; contains a
His residue which is phosphorylated during the reaction.
Catalytic domain of a functionally diverse set of
proteins, most of which are phosphatases. The conserved
catalytic core of this domain contains a His residue
which is phosphorylated in the reaction. This set of
proteins includes cofactor-dependent and
cofactor-independent phosphoglycerate mutases (dPGM, and
BPGM respectively), fructose-2,6-bisphosphatase
(F26BP)ase, Sts-1, SixA, histidine acid phosphatases,
phytases, and related proteins. Functions include roles
in metabolism, signaling, or regulation, for example
F26BPase affects glycolysis and gluconeogenesis through
controlling the concentration of F26BP; BPGM controls
the concentration of 2,3-BPG (the main allosteric
effector of hemoglobin in human blood cells); human
Sts-1 is a T-cell regulator; Escherichia coli Six A
participates in the ArcB-dependent His-to-Asp
phosphorelay signaling system; phytases scavenge
phosphate from extracellular sources. Deficiency and
mutation in many of the human members result in disease,
for example erythrocyte BPGM deficiency is a disease
associated with a decrease in the concentration of
2,3-BPG. Clinical applications include the use of
prostatic acid phosphatase (PAP) as a serum marker for
prostate cancer. Agricultural applications include the
addition of phytases to animal feed.
Length = 153
Score = 31.6 bits (72), Expect = 0.14
Identities = 10/37 (27%), Positives = 16/37 (43%)
Query: 166 LELIILKIEHSKSNLLIVSHPAVLRCLLGYFQEEPPD 202
L ++ + N+LIVSH +R LL +
Sbjct: 88 LLELLARHLLDGKNVLIVSHGGTIRALLAALLGLSDE 124
>gnl|CDD|184966 PRK15004, PRK15004, alpha-ribazole phosphatase; Provisional.
Length = 199
Score = 29.2 bits (66), Expect = 0.98
Identities = 16/42 (38%), Positives = 20/42 (47%), Gaps = 2/42 (4%)
Query: 154 PQGECYKDVLTRLELII--LKIEHSKSNLLIVSHPAVLRCLL 193
GE ++ R+E I L NLLIVSH VL L+
Sbjct: 116 TNGEGFQAFSQRVERFIARLSAFQHYQNLLIVSHQGVLSLLI 157
>gnl|CDD|223661 COG0588, GpmA, Phosphoglycerate mutase 1 [Carbohydrate transport
and metabolism].
Length = 230
Score = 28.4 bits (64), Expect = 2.0
Identities = 17/46 (36%), Positives = 22/46 (47%), Gaps = 4/46 (8%)
Query: 154 PQGECYKDVLTRL----ELIILKIEHSKSNLLIVSHPAVLRCLLGY 195
P E KD + R+ E I S N+LIV+H LR L+ Y
Sbjct: 147 PLTESLKDTVERVLPYWEDDIAPNLKSGKNVLIVAHGNSLRALIKY 192
>gnl|CDD|217807 pfam03945, Endotoxin_N, delta endotoxin, N-terminal domain. This
family contains insecticidal toxins produced by Bacillus
species of bacteria. During spore formation the bacteria
produce crystals of this protein. When an insect ingests
these proteins they are activated by proteolytic
cleavage. The N terminus is cleaved in all of the
proteins and a C terminal extension is cleaved in some
members. Once activated the endotoxin binds to the gut
epithelium and causes cell lysis leading to death. This
activated region of the delta endotoxin is composed of
three structural domains. The N-terminal helical domain
is involved in membrane insertion and pore formation.
The second and third domains are involved in receptor
binding.
Length = 224
Score = 28.4 bits (64), Expect = 2.5
Identities = 5/22 (22%), Positives = 10/22 (45%)
Query: 128 QTYTEIYTNHCAQYIDTRADKF 149
+ YT+HC + +T +
Sbjct: 167 LERIKEYTDHCVNWYNTGLNNL 188
>gnl|CDD|99838 cd06135, Orn, DEDDh 3'-5' exonuclease domain of oligoribonuclease
and similar proteins. Oligoribonuclease (Orn) is a
DEDDh-type DnaQ-like 3'-5' exoribonuclease that is
responsible for degrading small oligoribonucleotides to
mononucleotides. It contains three conserved sequence
motifs termed ExoI, ExoII and ExoIII, with a specific
Hx(4)D conserved pattern at ExoIII. These motifs are
clustered around the active site and contain four
conserved acidic residues that serve as ligands for the
two metal ions required for catalysis. Orn is essential
for Escherichia coli survival. The human homolog, also
called Sfn (small fragment nuclease), is able to
hydrolyze short single-stranded RNA and DNA oligomers.
It plays a role in cellular nucleotide recycling.
Length = 173
Score = 27.5 bits (62), Expect = 3.4
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 113 DHKALDDIHAGICEGQTYTEIY 134
H+ALDDI I E + Y E
Sbjct: 151 THRALDDIRESIAELKYYRENI 172
>gnl|CDD|238867 cd01829, SGNH_hydrolase_peri2, SGNH_peri2; putative periplasmic
member of the SGNH-family of hydrolases, a diverse
family of lipases and esterases. The tertiary fold of
the enzyme is substantially different from that of the
alpha/beta hydrolase family and unique among all known
hydrolases; its active site closely resembles the
Ser-His-Asp(Glu) triad found in other serine hydrolases.
Length = 200
Score = 27.6 bits (62), Expect = 4.1
Identities = 9/27 (33%), Positives = 15/27 (55%), Gaps = 3/27 (11%)
Query: 88 KWEITYQVRTESVVNI---NHKQVIWV 111
+WE Y+ R + ++N+ VIWV
Sbjct: 88 EWEEEYRQRIDELLNVARAKGVPVIWV 114
>gnl|CDD|235611 PRK05793, PRK05793, amidophosphoribosyltransferase; Provisional.
Length = 469
Score = 28.1 bits (63), Expect = 4.1
Identities = 21/69 (30%), Positives = 28/69 (40%), Gaps = 20/69 (28%)
Query: 52 YNSPSTIPFVI-----RYCGRPLKAVVQS--EINSILPLKPLKKWEITYQVRTESVVNIN 104
Y S IP+ I +Y GR A Q E + L PLK VN+
Sbjct: 306 YAEASGIPYGIGFIKNKYVGRTFIAPSQELRERAVRVKLNPLK-------------VNVE 352
Query: 105 HKQVIWVDD 113
K+V+ +DD
Sbjct: 353 GKRVVLIDD 361
>gnl|CDD|233017 TIGR00549, mevalon_kin, mevalonate kinase. This model represents
mevalonate kinase, the third step in the mevalonate
pathway of isopentanyl pyrophosphate (IPP)
biosynthesis. IPP is a common intermediate for a number
of pathways including cholesterol biosynthesis. This
model covers enzymes from eukaryotes, archaea and
bacteria. The related enzyme from the same pathway,
phosphmevalonate kinase, serves as an outgroup for this
clade. Paracoccus exhibits two genes within the
phosphomevalonate/mevalonate kinase family, one of
which falls between trusted and noise cutoffs of this
model. The degree of divergence is high, but if the
trees created from this model are correct, the proper
names of these genes have been swapped [Central
intermediary metabolism, Other].
Length = 274
Score = 27.3 bits (61), Expect = 5.2
Identities = 14/63 (22%), Positives = 25/63 (39%), Gaps = 7/63 (11%)
Query: 21 VFSSSSEFGLKSSLGRPGLDKSFYGDRHRSEYNS-PSTIPFVIRYCGRPLKAVVQSEINS 79
+ SS ++S LGR LD + E + S + + Y ++ I+S
Sbjct: 33 IESSDGFSFIESDLGRGSLDDA------PDELDGLVSYVAEALSYFSELNPPPLEITIDS 86
Query: 80 ILP 82
+P
Sbjct: 87 EIP 89
>gnl|CDD|235429 PRK05359, PRK05359, oligoribonuclease; Provisional.
Length = 181
Score = 27.0 bits (61), Expect = 5.3
Identities = 9/19 (47%), Positives = 11/19 (57%)
Query: 114 HKALDDIHAGICEGQTYTE 132
H+AL DI I E + Y E
Sbjct: 155 HRALADIRESIAELKYYRE 173
>gnl|CDD|240280 PTZ00123, PTZ00123, phosphoglycerate mutase like-protein;
Provisional.
Length = 236
Score = 26.9 bits (60), Expect = 6.9
Identities = 14/47 (29%), Positives = 21/47 (44%), Gaps = 4/47 (8%)
Query: 154 PQGECYKDVLTRL----ELIILKIEHSKSNLLIVSHPAVLRCLLGYF 196
P EC KD + R+ E I + +L+ +H LR L+ Y
Sbjct: 134 PNTECLKDTVERVLPYWEDHIAPDILAGKKVLVAAHGNSLRALVKYL 180
>gnl|CDD|184519 PRK14120, gpmA, phosphoglyceromutase; Provisional.
Length = 249
Score = 26.9 bits (60), Expect = 7.2
Identities = 15/43 (34%), Positives = 21/43 (48%), Gaps = 4/43 (9%)
Query: 154 PQGECYKDVLTRL----ELIILKIEHSKSNLLIVSHPAVLRCL 192
P+ EC KDV+ R E I+ + +LI +H LR L
Sbjct: 148 PRTECLKDVVARFLPYWEDDIVPDLKAGKTVLIAAHGNSLRAL 190
>gnl|CDD|224860 COG1949, Orn, Oligoribonuclease (3'->5' exoribonuclease) [RNA
processing and modification].
Length = 184
Score = 26.5 bits (59), Expect = 9.0
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 113 DHKALDDIHAGICEGQTYTE 132
H+ALDDI I E + Y E
Sbjct: 157 THRALDDIRESIAELRYYRE 176
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
0.321 0.137 0.428
Gapped
Lambda K H
0.267 0.0657 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,164,289
Number of extensions: 901871
Number of successful extensions: 572
Number of sequences better than 10.0: 1
Number of HSP's gapped: 563
Number of HSP's successfully gapped: 24
Length of query: 204
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 112
Effective length of database: 6,857,034
Effective search space: 767987808
Effective search space used: 767987808
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: 57 (25.9 bits)