RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16934
(96 letters)
>gnl|CDD|153093 cd04704, PLA2_bee_venom_like, PLA2_bee_venom_like: A sub-family
of Phospholipase A2, similar to bee venom PLA2. PLA2
is a super-family of secretory and cytosolic enzymes;
the latter are either Ca dependent or Ca independent.
Enzymatically active PLA2 cleaves the sn-2 position of
the glycerol backbone of phospholipids; secreted PLA2s
have also been found to specifically bind to a variety
of soluble and membrane proteins in mammals, including
receptors. As a toxin, PLA2 is a potent presynaptic
neurotoxin which blocks nerve terminals by binding to
the nerve membrane and hydrolyzing stable membrane
lipids. The products of the hydrolysis cannot form
bilayers leading to a change in membrane conformation
and ultimately to a block in the release of
neurotransmitters. PLA2 may form dimers or oligomers.
Bee venom PLA2 has fewer conserved disulfide bridges
than most canonical PLA2s.
Length = 97
Score = 82.7 bits (205), Expect = 2e-22
Identities = 30/53 (56%), Positives = 35/53 (66%)
Query: 22 TKWCGTGDIARDISDTGIFHDIDSCCRDHDLCPENIVAKSTKYNLTNDGSFTR 74
TKWCG G+IA + SD G F + D CCR+HD CP+ I A KY LTN FTR
Sbjct: 6 TKWCGPGNIATNYSDLGAFRETDKCCREHDHCPDIISAGEYKYGLTNTRLFTR 58
>gnl|CDD|147789 pfam05826, Phospholip_A2_2, Phospholipase A2. This family
consists of several phospholipase A2 like proteins
mostly from insects.
Length = 99
Score = 78.9 bits (195), Expect = 8e-21
Identities = 31/53 (58%), Positives = 34/53 (64%)
Query: 22 TKWCGTGDIARDISDTGIFHDIDSCCRDHDLCPENIVAKSTKYNLTNDGSFTR 74
TKWCGTG+IA D D G F D CCR HD CP+ I + TKY LTN G FT
Sbjct: 5 TKWCGTGNIAEDYGDLGEFDKTDRCCRTHDNCPDKIESGETKYGLTNFGPFTI 57
>gnl|CDD|213378 cd12122, AMPKA_C, C-terminal regulatory domain of 5'-AMP-activated
protein kinase (AMPK) alpha catalytic subunit. AMPK, a
serine/threonine protein kinase (STK), catalyzes the
transfer of the gamma-phosphoryl group from ATP to S/T
residues on protein substrates. It acts as a sensor for
the energy status of the cell and is activated by
cellular stresses that lead to ATP depletion such as
hypoxia, heat shock, and glucose deprivation, among
others. AMPK is a heterotrimer of three subunits: alpha,
beta, and gamma. Co-expression of the three subunits is
required for kinase activity; in the absence of one, the
other two subunits get degraded. The AMPK alpha subunit
is the catalytic subunit and it contains an N-terminal
kinase domain and a C-terminal regulatory domain (RD).
Vertebrates contain two isoforms of the alpha subunit,
alpha1 and alpha2, which are encoded by different genes,
PRKAA1 and PRKAA2, respectively. The C-terminal RD of
the AMPK alpha subunit is involved in AMPK heterotrimer
formation. It mainly interacts with the C-terminal
region of the beta subunit to form a tight alpha-beta
complex that is associated with the gamma subunit. The
AMPK alpha subunit RD also contains an auto-inhibitory
region that interacts with the kinase domain; this
inhibition is negated by the interaction with the AMPK
gamma subunit. AMPK is conserved throughout evolution;
the AMPK alpha subunit homologs in yeast and plants are
called Snf1 and SnRK1 (Snf1 related kinase),
respectively.
Length = 132
Score = 42.8 bits (101), Expect = 2e-06
Identities = 16/52 (30%), Positives = 21/52 (40%), Gaps = 4/52 (7%)
Query: 1 MSLQLYQVGYKNYLLDFKSIRTKWCGTGDIARDISDTGIFHDI----DSCCR 48
M LQLY+V YLLDF+S+ + TG D C +
Sbjct: 76 MELQLYKVDDNKYLLDFQSLDYEEERTGPGESAEDAEPQVGSTFLFFDLCAK 127
>gnl|CDD|153092 cd00618, PLA2_like, PLA2_like: Phospholipase A2, a super-family
of secretory and cytosolic enzymes; the latter are
either Ca dependent or Ca independent. PLA2 cleaves the
sn-2 position of the glycerol backbone of phospholipids
(PC or phosphatidylethanolamine), usually in a
metal-dependent reaction, to generate lysophospholipid
(LysoPL) and a free fatty acid (FA). The resulting
products are either dietary or used in synthetic
pathways for leukotrienes and prostaglandins. Often,
arachidonic acid is released as a free fatty acid and
acts as second messenger in signaling networks.
Secreted PLA2s have also been found to specifically
bind to a variety of soluble and membrane proteins in
mammals, including receptors. As a toxin, PLA2 is a
potent presynaptic neurotoxin which blocks nerve
terminals by binding to the nerve membrane and
hydrolyzing stable membrane lipids. The products of the
hydrolysis (LysoPL and FA) cannot form bilayers leading
to a change in membrane conformation and ultimately to
a block in the release of neurotransmitters. PLA2 may
form dimers or oligomers.
Length = 83
Score = 40.6 bits (95), Expect = 4e-06
Identities = 12/55 (21%), Positives = 17/55 (30%), Gaps = 2/55 (3%)
Query: 22 TKWCGTGDIARDISDTGIFHDIDSCCRDHDLCPENIVAKSTKYNLTNDGSFTRRL 76
+CG G A + D CCR HD C + I + +
Sbjct: 4 GCYCGPGGSACPSGQPV--DETDRCCRKHDCCYDQISDGGCCDGCLSYSFSEGGV 56
>gnl|CDD|213384 cd12199, AMPKA1_C, C-terminal regulatory domain of
5'-AMP-activated protein kinase (AMPK) alpha 1
catalytic subunit. AMPK, a serine/threonine protein
kinase (STK), catalyzes the transfer of the
gamma-phosphoryl group from ATP to S/T residues on
protein substrates. It acts as a sensor for the energy
status of the cell and is activated by cellular
stresses that lead to ATP depletion such as hypoxia,
heat shock, and glucose deprivation, among others. AMPK
is a heterotrimer of three subunits: alpha, beta, and
gamma. Co-expression of the three subunits is required
for kinase activity; in the absence of one, the other
two subunits get degraded. The AMPK alpha subunit is
the catalytic subunit and it contains an N-terminal
kinase domain and a C-terminal regulatory domain (RD).
Vertebrates contain two isoforms of the alpha subunit,
alpha1 and alpha2, which are encoded by different
genes, PRKAA1 and PRKAA2, respectively, and show
varying expression patterns. AMPKalpha1 is the
predominant isoform expressed in bone; it plays a role
in bone remodeling in response to hormonal regulation.
It is selectively regulated by nucleoside diphosphate
kinase (NDPK)-A in an AMP-independent manner.
AMPKalpha1 impacts the regulation of fat metabolism
through its in vivo target, acetyl coenzyme A
carboxylase (ACC). It also mediates the vasoprotective
effects of estrogen through phosphorylation of another
in vivo substrate, RhoA. The C-terminal RD of the AMPK
alpha 1 subunit is involved in AMPK heterotrimer
formation. It mainly interacts with the C-terminal
region of the beta subunit to form a tight alpha-beta
complex that is associated with the gamma subunit. The
AMPK alpha subunit RD also contains an auto-inhibitory
region that interacts with the kinase domain; this
inhibition is negated by the interaction with the AMPK
gamma subunit.
Length = 96
Score = 35.4 bits (81), Expect = 6e-04
Identities = 15/20 (75%), Positives = 17/20 (85%)
Query: 1 MSLQLYQVGYKNYLLDFKSI 20
MSLQLYQV + YLLDF+SI
Sbjct: 55 MSLQLYQVDSRTYLLDFRSI 74
>gnl|CDD|153094 cd04705, PLA2_group_III_like, PLA2_group_III_like: A sub-family
of Phospholipase A2, similar to human group III PLA2.
PLA2 is a super-family of secretory and cytosolic
enzymes; the latter are either Ca dependent or Ca
independent. Enzymatically active PLA2 cleaves the sn-2
position of the glycerol backbone of phospholipids;
secreted PLA2s have also been found to specifically
bind to a variety of soluble and membrane proteins in
mammals, including receptors. As a toxin, PLA2 is a
potent presynaptic neurotoxin which blocks nerve
terminals by binding to the nerve membrane and
hydrolyzing stable membrane lipids. The products of the
hydrolysis cannot form bilayers leading to a change in
membrane conformation and ultimately to a block in the
release of neurotransmitters. PLA2 may form dimers or
oligomers.
Length = 100
Score = 32.9 bits (75), Expect = 0.005
Identities = 10/31 (32%), Positives = 14/31 (45%)
Query: 38 GIFHDIDSCCRDHDLCPENIVAKSTKYNLTN 68
G F + D CC H CP +I+ + N
Sbjct: 29 GEFKEPDRCCWKHKQCPGHIIPPFSSDGHHN 59
>gnl|CDD|213385 cd12200, AMPKA2_C, C-terminal regulatory domain of
5'-AMP-activated serine/threonine kinase, subunit
alpha. AMPK, a serine/threonine protein kinase (STK),
catalyzes the transfer of the gamma-phosphoryl group
from ATP to S/T residues on protein substrates. It acts
as a sensor for the energy status of the cell and is
activated by cellular stresses that lead to ATP
depletion such as hypoxia, heat shock, and glucose
deprivation, among others. AMPK is a heterotrimer of
three subunits: alpha, beta, and gamma. Co-expression
of the three subunits is required for kinase activity;
in the absence of one, the other two subunits get
degraded. The AMPK alpha subunit is the catalytic
subunit and it contains an N-terminal kinase domain and
a C-terminal regulatory domain (RD). Vertebrates
contain two isoforms of the alpha subunit, alpha1 and
alpha2, which are encoded by different genes, PRKAA1
and PRKAA2, respectively, and show varying expression
patterns. AMPKalpha2 shows cytoplasmic and nuclear
localization, whereas AMPKalpha1 is localized only in
the cytoplasm. The C-terminal RD of the AMPK alpha 1
subunit is involved in AMPK heterotrimer formation. It
mainly interacts with the C-terminal region of the beta
subunit to form a tight alpha-beta complex that is
associated with the gamma subunit. The AMPK alpha
subunit RD also contains an auto-inhibitory region that
interacts with the kinase domain; this inhibition is
negated by the interaction with the AMPK gamma subunit.
Length = 102
Score = 32.0 bits (72), Expect = 0.012
Identities = 16/20 (80%), Positives = 18/20 (90%)
Query: 1 MSLQLYQVGYKNYLLDFKSI 20
MSLQLYQV ++YLLDFKSI
Sbjct: 59 MSLQLYQVDNRSYLLDFKSI 78
>gnl|CDD|153095 cd04706, PLA2_plant, PLA2_plant: Plant-specific sub-family of
Phospholipase A2, a super-family of secretory and
cytosolic enzymes; the latter are either Ca dependent
or Ca independent. Enzymatically active PLA2 cleaves
the sn-2 position of the glycerol backbone of
phospholipids; secreted PLA2s have also been found to
specifically bind to a variety of soluble and membrane
proteins in mammals, including receptors. As a toxin,
PLA2 is a potent presynaptic neurotoxin which blocks
nerve terminals by binding to the nerve membrane and
hydrolyzing stable membrane lipids. The products of the
hydrolysis cannot form bilayers leading to a change in
membrane conformation and ultimately to a block in the
release of neurotransmitters. PLA2 may form dimers or
oligomers. This sub-family does not appear to have a
conserved active site and metal-binding loop.
Length = 117
Score = 31.2 bits (71), Expect = 0.029
Identities = 11/41 (26%), Positives = 20/41 (48%), Gaps = 8/41 (19%)
Query: 42 DIDSCCRDHDLCPENIVAKSTKYNLTN---DGSFTRRLRKF 79
D+D+CC HD C ++ K + + + F +R+F
Sbjct: 43 DLDACCMTHDAC-----VQAKKNDYLSLECNEKFKNCVRRF 78
>gnl|CDD|236636 PRK09950, PRK09950, putative transporter; Provisional.
Length = 506
Score = 27.8 bits (62), Expect = 0.73
Identities = 12/30 (40%), Positives = 15/30 (50%)
Query: 52 LCPENIVAKSTKYNLTNDGSFTRRLRKFYW 81
L +N + S + DGSFTR FYW
Sbjct: 289 LTTQNFLQMSLFTDPMGDGSFTRNWTVFYW 318
>gnl|CDD|176650 cd06129, RNaseD_like, DEDDy 3'-5' exonuclease domain of RNase D,
WRN, and similar proteins. The RNase D-like group is
composed of RNase D, WRN, and similar proteins. They
contain a DEDDy-type, DnaQ-like, 3'-5' exonuclease
domain that contains three conserved sequence motifs
termed ExoI, ExoII and ExoIII, with a specific YX(3)D
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. RNase D is involved in the
3'-end processing of tRNA precursors. RNase D-like
proteins in eukaryotes include yeast Rrp6p, human
PM/Scl-100 and Drosophila melanogaster egalitarian
(Egl) protein. WRN is a unique DNA helicase possessing
exonuclease activity. Mutation in the WRN gene is
implicated in Werner syndrome, a disease associated
with premature aging and increased predisposition to
cancer. Yeast Rrp6p and the human
Polymyositis/scleroderma autoantigen 100kDa
(PM/Scl-100) are exosome-associated proteins involved
in the degradation and processing of precursors to
stable RNAs. Egl is a component of an mRNA-binding
complex which is required for oocyte specification. The
Egl subfamily does not possess a completely conserved
YX(3)D pattern at the ExoIII motif.
Length = 161
Score = 27.5 bits (61), Expect = 0.77
Identities = 14/60 (23%), Positives = 21/60 (35%), Gaps = 4/60 (6%)
Query: 3 LQLYQVGYKNYLLDFKSIRTKWCGTGDIARDISDTGIFH----DIDSCCRDHDLCPENIV 58
+QL K YL D S+ W G + + S H D+ RD + +
Sbjct: 35 IQLCVSEEKCYLFDPLSLSVDWQGLKMLLENPSIVKALHGIEGDLWKLLRDFGEKLQRLF 94
>gnl|CDD|234295 TIGR03652, FeS_repair_RIC, iron-sulfur cluster repair di-iron
protein. Members of this protein family, designated
variously as YftE, NorA, DrnN, and NipC, are di-iron
proteins involved in the repair of iron-sulfur
clusters. Previously assigned names reflect pleiotropic
effects of damage from NO or other oxidative stress
when this protein is mutated. The suggested name now is
RIC, for Repair of Iron Centers [Biosynthesis of
cofactors, prosthetic groups, and carriers, Other].
Length = 216
Score = 27.2 bits (61), Expect = 1.0
Identities = 9/23 (39%), Positives = 12/23 (52%), Gaps = 3/23 (13%)
Query: 28 GDIARDISD-TGIF--HDIDSCC 47
G+I +I IF + ID CC
Sbjct: 2 GEIVTEIPRAARIFRKYGIDFCC 24
>gnl|CDD|218319 pfam04900, Fcf1, Fcf1. Fcf1 is a nucleolar protein involved in
pre-rRNA processing. Depletion of yeast Fcf1 and Fcf2
leads to a decrease in synthesis of the 18S rRNA and
results in a deficit in 40S ribosomal subunits.
Length = 101
Score = 26.4 bits (59), Expect = 1.3
Identities = 12/31 (38%), Positives = 14/31 (45%), Gaps = 1/31 (3%)
Query: 51 DLCPENIVAKSTKYNL-TNDGSFTRRLRKFY 80
D C + V K Y + T D RRLRK
Sbjct: 54 DDCILDRVGKHNCYIVATQDRELRRRLRKIP 84
>gnl|CDD|214508 smart00085, PA2c, Phospholipase A2.
Length = 117
Score = 26.8 bits (60), Expect = 1.4
Identities = 6/20 (30%), Positives = 7/20 (35%)
Query: 42 DIDSCCRDHDLCPENIVAKS 61
D CC HD C +
Sbjct: 39 ATDRCCFVHDCCYGKAEKEG 58
>gnl|CDD|183506 PRK12406, PRK12406, long-chain-fatty-acid--CoA ligase; Provisional.
Length = 509
Score = 26.2 bits (58), Expect = 2.9
Identities = 8/14 (57%), Positives = 8/14 (57%)
Query: 72 FTRRLRKFYWEKQG 85
F RRLR YW G
Sbjct: 493 FKRRLRDPYWANAG 506
>gnl|CDD|153091 cd00125, PLA2c, PLA2c: Phospholipase A2, a family of secretory
and cytosolic enzymes; the latter are either Ca
dependent or Ca independent. PLA2 cleaves the sn-2
position of the glycerol backbone of phospholipids (PC
or phosphatidylethanolamine), usually in a
metal-dependent reaction, to generate lysophospholipid
(LysoPL) and a free fatty acid (FA). The resulting
products are either dietary or used in synthetic
pathways for leukotrienes and prostaglandins. Often,
arachidonic acid is released as a free fatty acid and
acts as second messenger in signaling networks.
Secreted PLA2s have also been found to specifically
bind to a variety of soluble and membrane proteins in
mammals, including receptors. As a toxin, PLA2 is a
potent presynaptic neurotoxin which blocks nerve
terminals by binding to the nerve membrane and
hydrolyzing stable membrane lipids. The products of the
hydrolysis (LysoPL and FA) cannot form bilayers leading
to a change in membrane conformation and ultimately to
a block in the release of neurotransmitters. PLA2 may
form dimers or oligomers.
Length = 115
Score = 25.3 bits (56), Expect = 4.7
Identities = 7/12 (58%), Positives = 8/12 (66%)
Query: 42 DIDSCCRDHDLC 53
D D CC+ HD C
Sbjct: 38 DTDRCCQVHDCC 49
>gnl|CDD|224108 COG1187, RsuA, 16S rRNA uridine-516 pseudouridylate synthase and
related pseudouridylate synthases [Translation,
ribosomal structure and biogenesis].
Length = 248
Score = 25.3 bits (56), Expect = 5.9
Identities = 9/20 (45%), Positives = 9/20 (45%), Gaps = 2/20 (10%)
Query: 66 LTNDGSFTRRL--RKFYWEK 83
LTNDG RL EK
Sbjct: 117 LTNDGELAHRLMHPSSEVEK 136
>gnl|CDD|178049 PLN02430, PLN02430, long-chain-fatty-acid-CoA ligase.
Length = 660
Score = 25.5 bits (56), Expect = 6.0
Identities = 13/35 (37%), Positives = 18/35 (51%), Gaps = 1/35 (2%)
Query: 10 YKNYLLDFKSIRTKWCGTGDIARDISDTGIFHDID 44
YKN L + ++ W TGDI +I G+ ID
Sbjct: 480 YKNPELTEEVMKDGWFHTGDIG-EILPNGVLKIID 513
>gnl|CDD|211347 cd02870, PseudoU_synth_RsuA_like, Pseudouridine synthases, RsuA
subfamily. Pseudouridine synthases are responsible
for the synthesis of pseudouridine from uracil in
ribosomal RNA. The RsuA subfamily includes
Pseudouridine Synthase similar to Ribosomal small
subunit pseudouridine 516 synthase. Most of the
proteins in this family are bacterial proteins.
Length = 146
Score = 24.8 bits (55), Expect = 7.5
Identities = 7/11 (63%), Positives = 7/11 (63%)
Query: 66 LTNDGSFTRRL 76
LTNDG RL
Sbjct: 50 LTNDGELANRL 60
>gnl|CDD|211993 TIGR04270, Rama_corrin_act, methylamine methyltransferase corrinoid
protein reductive activase. Members of this family
occur as paralogs in species capable of generating
methane from mono-, di-, and tri-methylamine. Members
include RamA (Reductive Activation of Methyltransfer,
Amines) from Methanosarcina barkeri MS (DSM 800). Member
proteins have two C-terminal motifs with four Cys each,
likely to bind one 4Fe-4S cluster per motif.
Length = 535
Score = 25.1 bits (55), Expect = 7.5
Identities = 14/63 (22%), Positives = 24/63 (38%)
Query: 13 YLLDFKSIRTKWCGTGDIARDISDTGIFHDIDSCCRDHDLCPENIVAKSTKYNLTNDGSF 72
L+D ++ K G A+ I+ TG+ I + +I K +L D
Sbjct: 240 PLVDPRTGEFKESGNPRPAKGITGTGVIAAIYLGIECGLIELPHIKTPDGKIHLGEDIYL 299
Query: 73 TRR 75
T +
Sbjct: 300 TEK 302
>gnl|CDD|236901 PRK11360, PRK11360, sensory histidine kinase AtoS; Provisional.
Length = 607
Score = 24.9 bits (55), Expect = 7.6
Identities = 8/21 (38%), Positives = 9/21 (42%)
Query: 19 SIRTKWCGTGDIARDISDTGI 39
IRT G +A I D G
Sbjct: 523 RIRTWQYSDGQVAVSIEDNGC 543
>gnl|CDD|129547 TIGR00455, apsK, adenylylsulfate kinase (apsK). This protein,
adenylylsulfate kinase, is often found as a fusion
protein with sulfate adenylyltransferase. Important
residue (active site in E.coli) is residue 100 of the
seed alignment [Central intermediary metabolism, Sulfur
metabolism].
Length = 184
Score = 24.7 bits (54), Expect = 9.0
Identities = 7/21 (33%), Positives = 11/21 (52%)
Query: 5 LYQVGYKNYLLDFKSIRTKWC 25
L GY+ Y+LD ++R
Sbjct: 42 LESKGYRVYVLDGDNVRHGLN 62
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
0.322 0.138 0.438
Gapped
Lambda K H
0.267 0.0785 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,730,927
Number of extensions: 373048
Number of successful extensions: 286
Number of sequences better than 10.0: 1
Number of HSP's gapped: 285
Number of HSP's successfully gapped: 22
Length of query: 96
Length of database: 10,937,602
Length adjustment: 63
Effective length of query: 33
Effective length of database: 8,143,300
Effective search space: 268728900
Effective search space used: 268728900
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 (24.1 bits)