RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11388
(90 letters)
>gnl|CDD|119425 cd05165, PI3Kc_I, Phosphoinositide 3-kinase (PI3K), class I,
catalytic domain; The PI3K catalytic domain family is
part of a larger superfamily that includes the catalytic
domains of other kinases such as the typical
serine/threonine/tyrosine protein kinases (PKs),
aminoglycoside phosphotransferase, choline kinase, and
RIO kinases. PI3Ks catalyze the transfer of the
gamma-phosphoryl group from ATP to the 3-hydroxyl of the
inositol ring of D-myo-phosphatidylinositol (PtdIns) or
its derivatives. PI3Ks play an important role in a
variety of fundamental cellular processes, including
cell motility, the Ras pathway, vesicle trafficking and
secretion, immune cell activation and apoptosis. They
can be divided into three main classes (I, II, and III),
defined by their substrate specificity, regulation, and
domain structure. Class I PI3Ks are the only enzymes
capable of converting PtdIns(4,5)P2 to the critical
second messenger PtdIns(3,4,5)P3. In vitro, they can
also phosphorylate the substrates PtdIns and PtdIns(4)P.
Class I enzymes are heterodimers and exist in multiple
isoforms consisting of one catalytic subunit (out of
four isoforms) and one of several regulatory subunits.
They are further classified into class IA (alpha, beta
and delta) and IB (gamma).
Length = 366
Score = 135 bits (341), Expect = 3e-40
Identities = 44/85 (51%), Positives = 62/85 (72%)
Query: 3 FNTQCERAFKILREHGSLILSLFAMMISTGLPELSSEKDVNYLRETLVLDLTEEDAIKHF 62
F CE+A+ LR HG+L++ LF+MM+ +GLPEL+S++D+ YLR+TL L +EE+A+K+F
Sbjct: 282 FQDLCEKAYLALRRHGNLLIILFSMMLMSGLPELTSKEDIEYLRDTLALGKSEEEALKYF 341
Query: 63 RSKFGEALANSWKTSLNWASHNLAK 87
KF EAL SW T NW SH + K
Sbjct: 342 LDKFNEALDGSWTTKFNWFSHLVLK 366
>gnl|CDD|119417 cd00891, PI3Kc, Phosphoinositide 3-kinase (PI3K), catalytic domain;
The PI3K catalytic domain family is part of a larger
superfamily that includes the catalytic domains of other
kinases such as the typical serine/threonine/tyrosine
protein kinases (PKs), aminoglycoside
phosphotransferase, choline kinase, and RIO kinases.
PI3Ks catalyze the transfer of the gamma-phosphoryl
group from ATP to the 3-hydroxyl of the inositol ring of
D-myo-phosphatidylinositol (PtdIns) or its derivatives.
PI3Ks play an important role in a variety of fundamental
cellular processes, including cell motility, the Ras
pathway, vesicle trafficking and secretion, immune cell
activation and apoptosis. They can be divided into three
main classes (I, II, and III), defined by their
substrate specificity, regulation, and domain structure.
Class I PI3Ks are the only enzymes capable of converting
PtdIns(4,5)P2 to the critical second messenger
PtdIns(3,4,5)P3. Class I enzymes are heterodimers and
exist in multiple isoforms consisting of one catalytic
subunit (out of four isoforms) and one of several
regulatory subunits. Class II PI3Ks comprise three
catalytic isoforms that do not associate with any
regulatory subunits. They selectively use PtdIns as a
susbtrate to produce PtsIns(3)P.
Length = 352
Score = 111 bits (281), Expect = 2e-31
Identities = 39/85 (45%), Positives = 59/85 (69%), Gaps = 1/85 (1%)
Query: 3 FNTQCERAFKILREHGSLILSLFAMMISTGLPELSSEKDVNYLRETLVLDLTEEDAIKHF 62
F C +A+ ILR+HG+L ++LF++M+S G+PEL S +D+ YLR+ L LD ++E+A ++F
Sbjct: 269 FEDLCCKAYNILRKHGNLFINLFSLMLSAGIPELQSIEDIEYLRDALALDKSDEEATEYF 328
Query: 63 RSKFGEALANSWKTSLNWASHNLAK 87
R E+L NS T +N HNLA
Sbjct: 329 RKLIHESL-NSKTTKVNNFIHNLAH 352
>gnl|CDD|119434 cd05174, PI3Kc_IA_delta, Phosphoinositide 3-kinase (PI3K), class
IA, delta isoform, catalytic domain; The PI3K catalytic
domain family is part of a larger superfamily that
includes the catalytic domains of other kinases such as
the typical serine/threonine/tyrosine protein kinases
(PKs), aminoglycoside phosphotransferase, choline
kinase, and RIO kinases. PI3Ks catalyze the transfer of
the gamma-phosphoryl group from ATP to the 3-hydroxyl of
the inositol ring of D-myo-phosphatidylinositol (PtdIns)
or its derivatives. PI3Ks can be divided into three main
classes (I, II, and III), defined by their substrate
specificity, regulation, and domain structure. Class I
PI3Ks are the only enzymes capable of converting
PtdIns(4,5)P2 to the critical second messenger
PtdIns(3,4,5)P3. Class I enzymes are heterodimers and
exist in multiple isoforms consisting of one catalytic
subunit (out of four isoforms) and one of several
regulatory subunits. They are further classified into
class IA (alpha, beta and delta) and IB (gamma). Class
IA enzymes contain an N-terminal p85 binding domain, a
Ras binding domain, a lipid binding C2 domain, a PI3K
homology domain of unknown function, and a C-terminal
ATP-binding cataytic domain. They associate with a
regulatory subunit of the p85 family and are activated
by tyrosine kinase receptors. PI3Kdelta is mainly
expressed in immune cells and plays an important role in
cellular and humoral immunity. It plays a major role in
antigen receptor signaling in B-cells, T-cells, and mast
cells. It regulates the differentiation of peripheral
helper T-cells and controls the development and function
of regulatory T-cells.
Length = 361
Score = 111 bits (278), Expect = 5e-31
Identities = 49/85 (57%), Positives = 65/85 (76%)
Query: 3 FNTQCERAFKILREHGSLILSLFAMMISTGLPELSSEKDVNYLRETLVLDLTEEDAIKHF 62
F CE+A+KILR HG+L L LFA+M + GLPEL+ KD+ YL+++L L TEE+A+KHF
Sbjct: 277 FRGYCEQAYKILRRHGTLFLHLFALMKAAGLPELNCSKDIQYLKDSLALGKTEEEALKHF 336
Query: 63 RSKFGEALANSWKTSLNWASHNLAK 87
R KF EAL SWKT +NW +HN++K
Sbjct: 337 RVKFNEALRESWKTKVNWLAHNVSK 361
>gnl|CDD|119433 cd05173, PI3Kc_IA_beta, Phosphoinositide 3-kinase (PI3K), class IA,
beta isoform, catalytic domain; The PI3K catalytic
domain family is part of a larger superfamily that
includes the catalytic domains of other kinases such as
the typical serine/threonine/tyrosine protein kinases
(PKs), aminoglycoside phosphotransferase, choline
kinase, and RIO kinases. PI3Ks catalyze the transfer of
the gamma-phosphoryl group from ATP to the 3-hydroxyl of
the inositol ring of D-myo-phosphatidylinositol (PtdIns)
or its derivatives. PI3Ks can be divided into three main
classes (I, II, and III), defined by their substrate
specificity, regulation, and domain structure. Class I
PI3Ks are the only enzymes capable of converting
PtdIns(4,5)P2 to the critical second messenger
PtdIns(3,4,5)P3. Class I enzymes are heterodimers and
exist in multiple isoforms consisting of one catalytic
subunit (out of four isoforms) and one of several
regulatory subunits. They are further classified into
class IA (alpha, beta and delta) and IB (gamma). Class
IA enzymes contain an N-terminal p85 binding domain, a
Ras binding domain, a lipid binding C2 domain, a PI3K
homology domain of unknown function, and a C-terminal
ATP-binding cataytic domain. They associate with a
regulatory subunit of the p85 family and are activated
by tyrosine kinase receptors. In addition, PI3Kbeta can
also be activated by G-protein-coupled receptors.
Deletion of PI3Kbeta in mice results in early lethality
at around day three of development. PI3Kbeta plays an
important role in regulating sustained integrin
activation and stable platelet agrregation, especially
under conditions of high shear stress.
Length = 362
Score = 106 bits (265), Expect = 4e-29
Identities = 43/86 (50%), Positives = 64/86 (74%)
Query: 3 FNTQCERAFKILREHGSLILSLFAMMISTGLPELSSEKDVNYLRETLVLDLTEEDAIKHF 62
F CE A+ ILR++G+L ++LFA+M++ GLPEL+S KD+ YL+++L L +EE+A+K F
Sbjct: 277 FRQYCEDAYLILRKNGNLFITLFALMLTAGLPELTSVKDIQYLKDSLALGKSEEEALKQF 336
Query: 63 RSKFGEALANSWKTSLNWASHNLAKN 88
R KF EAL SW T +NW +H + K+
Sbjct: 337 RQKFDEALRESWTTKVNWMAHTVRKD 362
>gnl|CDD|119426 cd05166, PI3Kc_II, Phosphoinositide 3-kinase (PI3K), class II,
catalytic domain; The PI3K catalytic domain family is
part of a larger superfamily that includes the catalytic
domains of other kinases such as the typical
serine/threonine/tyrosine protein kinases (PKs),
aminoglycoside phosphotransferase, choline kinase, and
RIO kinases. PI3Ks catalyze the transfer of the
gamma-phosphoryl group from ATP to the 3-hydroxyl of the
inositol ring of D-myo-phosphatidylinositol (PtdIns) or
its derivatives. PI3Ks play an important role in a
variety of fundamental cellular processes, including
cell motility, the Ras pathway, vesicle trafficking and
secretion, immune cell activation and apoptosis. They
can be divided into three main classes (I, II, and III),
defined by their substrate specificity, regulation, and
domain structure. Class II PI3Ks preferentially use
PtdIns as a substrate to produce PtdIns(3)P, but can
also phosphorylate PtdIns(4)P. They function as monomers
and do not associate with any regulatory subunits. Class
II enzymes contain an N-terminal Ras binding domain, a
lipid binding C2 domain, a PI3K homology domain of
unknown function, an ATP-binding cataytic domain, a Phox
homology (PX) domain, and a second C2 domain at the
C-terminus. They are activated by a variety of stimuli
including chemokines, cytokines, lysophosphatidic acid
(LPA), insulin, and tyrosine kinase receptors.
Length = 353
Score = 82.9 bits (205), Expect = 2e-20
Identities = 34/81 (41%), Positives = 50/81 (61%), Gaps = 1/81 (1%)
Query: 7 CERAFKILREHGSLILSLFAMMISTGLPELSSEKDVNYLRETLVLDLTEEDAIKHFRSKF 66
C RA+ I+R+H +L+L+L MM +GLPELS +D+ Y+R+ L LT+ +A F
Sbjct: 274 CCRAYNIIRKHANLLLNLLRMMACSGLPELSKIQDLKYVRDALRPQLTDAEATIQFTKMI 333
Query: 67 GEALANSWKTSLNWASHNLAK 87
+L S T LN+ HNLA+
Sbjct: 334 QSSLG-SAFTKLNFFIHNLAQ 353
>gnl|CDD|88554 cd05175, PI3Kc_IA_alpha, Phosphoinositide 3-kinase (PI3K), class
IA, alpha isoform, catalytic domain; The PI3K catalytic
domain family is part of a larger superfamily that
includes the catalytic domains of other kinases such as
the typical serine/threonine/tyrosine protein kinases
(PKs), aminoglycoside phosphotransferase, choline
kinase, and RIO kinases. PI3Ks catalyze the transfer of
the gamma-phosphoryl group from ATP to the 3-hydroxyl of
the inositol ring of D-myo-phosphatidylinositol (PtdIns)
or its derivatives. PI3Ks can be divided into three main
classes (I, II, and III), defined by their substrate
specificity, regulation, and domain structure. Class I
PI3Ks are the only enzymes capable of converting
PtdIns(4,5)P2 to the critical second messenger
PtdIns(3,4,5)P3. Class I enzymes are heterodimers and
exist in multiple isoforms consisting of one catalytic
subunit (out of four isoforms) and one of several
regulatory subunits. They are further classified into
class IA (alpha, beta and delta) and IB (gamma). Class
IA enzymes contain an N-terminal p85 binding domain, a
Ras binding domain, a lipid binding C2 domain, a PI3K
homology domain of unknown function, and a C-terminal
ATP-binding cataytic domain. They associate with a
regulatory subunit of the p85 family and are activated
by tyrosine kinase receptors. PI3Kalpha plays an
important role in insulin signaling. It also mediates
physiologic heart growth and provides protection from
stress. Activating mutations of PI3Kalpha is associated
with diverse forms of cancer at high frequency.
Length = 366
Score = 78.2 bits (192), Expect = 1e-18
Identities = 31/85 (36%), Positives = 56/85 (65%)
Query: 3 FNTQCERAFKILREHGSLILSLFAMMISTGLPELSSEKDVNYLRETLVLDLTEEDAIKHF 62
F C +A+ +R+H +L ++LF+MM+ +G+PEL S D+ Y+R+TL LD TE++A+++F
Sbjct: 282 FQEMCYKAYLAIRQHANLFINLFSMMLGSGMPELQSFDDIAYIRKTLALDKTEQEALEYF 341
Query: 63 RSKFGEALANSWKTSLNWASHNLAK 87
+ +A W T ++W H + +
Sbjct: 342 MKQMNDAHHGGWTTKMDWIFHTIKQ 366
>gnl|CDD|119420 cd00894, PI3Kc_IB_gamma, Phosphoinositide 3-kinase (PI3K), class
IB, gamma isoform, catalytic domain; The PI3K catalytic
domain family is part of a larger superfamily that
includes the catalytic domains of other kinases such as
the typical serine/threonine/tyrosine protein kinases
(PKs), aminoglycoside phosphotransferase, choline
kinase, and RIO kinases. PI3Ks catalyze the transfer of
the gamma-phosphoryl group from ATP to the 3-hydroxyl of
the inositol ring of D-myo-phosphatidylinositol (PtdIns)
or its derivatives. PI3Ks can be divided into three main
classes (I, II, and III), defined by their substrate
specificity, regulation, and domain structure. Class I
PI3Ks are the only enzymes capable of converting
PtdIns(4,5)P2 to the critical second messenger
PtdIns(3,4,5)P3. Class I enzymes are heterodimers and
exist in multiple isoforms consisting of one catalytic
subunit (out of four isoforms) and one of several
regulatory subunits. They are further classified into
class IA (alpha, beta and delta) and IB (gamma).
PI3Kgamma associates with one of two regulatory
subunits, p101 and p84. It is activated by
G-protein-coupled receptors (GPCRs) by direct binding to
their betagamma subunits. It contains an N-terminal Ras
binding domain, a lipid binding C2 domain, a PI3K
homology domain of unknown function, and a C-terminal
ATP-binding cataytic domain. PI3Kgamma signaling
controls diverse immune and vascular functions including
cell recruitment, mast cell activation, platelet
aggregation, and smooth muscle contractility.
Length = 365
Score = 74.1 bits (182), Expect = 2e-17
Identities = 31/81 (38%), Positives = 49/81 (60%)
Query: 3 FNTQCERAFKILREHGSLILSLFAMMISTGLPELSSEKDVNYLRETLVLDLTEEDAIKHF 62
F C +A+ LR H +L++ LF+MM+ TG+P+L+S++D+ Y+R+ L + +EEDA KHF
Sbjct: 281 FQDVCVKAYLALRHHTNLLIILFSMMLMTGMPQLTSKEDIEYIRDALTVGKSEEDAKKHF 340
Query: 63 RSKFGEALANSWKTSLNWASH 83
+ W NW H
Sbjct: 341 LDQIEVCRDKGWTVQFNWFLH 361
>gnl|CDD|119422 cd00896, PI3Kc_III, Phosphoinositide 3-kinase (PI3K), class III,
catalytic domain; The PI3K catalytic domain family is
part of a larger superfamily that includes the catalytic
domains of other kinases such as the typical
serine/threonine/tyrosine protein kinases (PKs),
aminoglycoside phosphotransferase, choline kinase, and
RIO kinases. PI3Ks catalyze the transfer of the
gamma-phosphoryl group from ATP to the 3-hydroxyl of the
inositol ring of D-myo-phosphatidylinositol (PtdIns) or
its derivatives. PI3Ks play an important role in a
variety of fundamental cellular processes, including
cell motility, the Ras pathway, vesicle trafficking and
secretion, immune cell activation and apoptosis. They
can be divided into three main classes (I, II, and III),
defined by their substrate specificity, regulation, and
domain structure. Class III PI3Ks, also called Vps34
(vacuolar protein sorting 34), contain an N-terminal
lipid binding C2 domain, a PI3K homology domain of
unknown function, and a C-terminal ATP-binding cataytic
domain. They phosphorylate only the substrate PtdIns.
They interact with a regulatory subunit, Vps15, to form
a membrane-associated complex. Class III PI3Ks are
involved in protein and vesicular trafficking and
sorting, autophagy, trimeric G-protein signaling, and
phagocytosis.
Length = 350
Score = 68.0 bits (167), Expect = 4e-15
Identities = 27/87 (31%), Positives = 48/87 (55%), Gaps = 6/87 (6%)
Query: 1 MLFNTQCERAFKILREHGSLILSLFAMMISTGLPELSSEKDVNYLR--ETLVLDLTEEDA 58
F + C A+ ILR+ +LIL+LF++M+ +P+++ + D L+ E LDL++E+A
Sbjct: 261 QEFKSYCCEAYNILRKSANLILNLFSLMVDANIPDIALDPDKAILKVQEKFRLDLSDEEA 320
Query: 59 IKHFRSKFGEA----LANSWKTSLNWA 81
IKHF++ ++ WA
Sbjct: 321 IKHFQNLINDSVNALFPVVVDRLHAWA 347
>gnl|CDD|119435 cd05176, PI3Kc_C2_alpha, Phosphoinositide 3-kinase (PI3K), class
II, alpha isoform, catalytic domain; The PI3K catalytic
domain family is part of a larger superfamily that
includes the catalytic domains of other kinases such as
the typical serine/threonine/tyrosine protein kinases
(PKs), aminoglycoside phosphotransferase, choline
kinase, and RIO kinases. PI3Ks catalyze the transfer of
the gamma-phosphoryl group from ATP to the 3-hydroxyl of
the inositol ring of D-myo-phosphatidylinositol (PtdIns)
or its derivatives. PI3Ks play an important role in a
variety of fundamental cellular processes, including
cell motility, the Ras pathway, vesicle trafficking and
secretion, immune cell activation and apoptosis. They
can be divided into three main classes (I, II, and III),
defined by their substrate specificity, regulation, and
domain structure. Class II PI3Ks preferentially use
PtdIns as a substrate to produce PtdIns(3)P, but can
also phosphorylate PtdIns(4)P. They function as monomers
and do not associate with any regulatory subunits. Class
II enzymes contain an N-terminal Ras binding domain, a
lipid binding C2 domain, a PI3K homology domain of
unknown function, an ATP-binding cataytic domain, a Phox
homology (PX) domain, and a second C2 domain at the
C-terminus. The class II alpha isoform, PI3K-C2alpha,
plays key roles in clathrin assembly and
clathrin-mediated membrane trafficking, insulin
signaling, vascular smooth muscle contraction, and the
priming of neurosecretory granule exocytosis.
Length = 353
Score = 60.0 bits (145), Expect = 2e-12
Identities = 29/86 (33%), Positives = 51/86 (59%), Gaps = 1/86 (1%)
Query: 2 LFNTQCERAFKILREHGSLILSLFAMMISTGLPELSSEKDVNYLRETLVLDLTEEDAIKH 61
LF C +A+ ++R+H +L L+L ++M +GLPEL+ +D+ Y+ + L T+ +A
Sbjct: 269 LFVDLCCQAYNLIRKHSNLFLNLLSLMTQSGLPELTGVQDLKYVYDALQPQTTDAEATIF 328
Query: 62 FRSKFGEALANSWKTSLNWASHNLAK 87
F ++ E+ S T N+ HNLA+
Sbjct: 329 F-TRLIESSLGSVATKFNFFIHNLAQ 353
>gnl|CDD|119421 cd00895, PI3Kc_C2_beta, Phosphoinositide 3-kinase (PI3K), class II,
beta isoform, catalytic domain; The PI3K catalytic
domain family is part of a larger superfamily that
includes the catalytic domains of other kinases such as
the typical serine/threonine/tyrosine protein kinases
(PKs), aminoglycoside phosphotransferase, choline
kinase, and RIO kinases. PI3Ks catalyze the transfer of
the gamma-phosphoryl group from ATP to the 3-hydroxyl of
the inositol ring of D-myo-phosphatidylinositol (PtdIns)
or its derivatives. PI3Ks play an important role in a
variety of fundamental cellular processes, including
cell motility, the Ras pathway, vesicle trafficking and
secretion, immune cell activation and apoptosis. They
can be divided into three main classes (I, II, and III),
defined by their substrate specificity, regulation, and
domain structure. Class II PI3Ks preferentially use
PtdIns as a substrate to produce PtdIns(3)P, but can
also phosphorylate PtdIns(4)P. They function as monomers
and do not associate with any regulatory subunits. Class
II enzymes contain an N-terminal Ras binding domain, a
lipid binding C2 domain, a PI3K homology domain of
unknown function, an ATP-binding cataytic domain, a Phox
homology (PX) domain, and a second C2 domain at the
C-terminus. The class II beta isoform, PI3K-C2beta,
contributes to the migration and survival of cancer
cells. It regulates Rac activity and impacts membrane
ruffling, cell motility, and cadherin-mediated cell-cell
adhesion.
Length = 354
Score = 60.0 bits (145), Expect = 3e-12
Identities = 31/81 (38%), Positives = 50/81 (61%), Gaps = 1/81 (1%)
Query: 7 CERAFKILREHGSLILSLFAMMISTGLPELSSEKDVNYLRETLVLDLTEEDAIKHFRSKF 66
C +A+ ++R+H L L+L +M+S G+PELS +D+ Y+ + L TE DA +F ++
Sbjct: 275 CCQAYNLIRKHTHLFLNLLGLMLSCGIPELSDLEDLKYVYDALRPQDTEADATTYF-TRL 333
Query: 67 GEALANSWKTSLNWASHNLAK 87
E+ S T LN+ HNLA+
Sbjct: 334 IESSLGSVATKLNFFIHNLAQ 354
>gnl|CDD|119436 cd05177, PI3Kc_C2_gamma, Phosphoinositide 3-kinase (PI3K), class
II, gamma isoform, catalytic domain; The PI3K catalytic
domain family is part of a larger superfamily that
includes the catalytic domains of other kinases such as
the typical serine/threonine/tyrosine protein kinases
(PKs), aminoglycoside phosphotransferase, choline
kinase, and RIO kinases. PI3Ks catalyze the transfer of
the gamma-phosphoryl group from ATP to the 3-hydroxyl of
the inositol ring of D-myo-phosphatidylinositol (PtdIns)
or its derivatives. PI3Ks play an important role in a
variety of fundamental cellular processes, including
cell motility, the Ras pathway, vesicle trafficking and
secretion, immune cell activation and apoptosis. They
can be divided into three main classes (I, II, and III),
defined by their substrate specificity, regulation, and
domain structure. Class II PI3Ks preferentially use
PtdIns as a substrate to produce PtdIns(3)P, but can
also phosphorylate PtdIns(4)P. They function as monomers
and do not associate with any regulatory subunits. Class
II enzymes contain an N-terminal Ras binding domain, a
lipid binding C2 domain, a PI3K homology domain of
unknown function, an ATP-binding cataytic domain, a Phox
homology (PX) domain, and a second C2 domain at the
C-terminus. The class II gamma isoform, PI3K-C2gamma, is
expressed in the liver, breast, and prostate. It's
biological function remains unknown.
Length = 354
Score = 59.5 bits (144), Expect = 5e-12
Identities = 30/81 (37%), Positives = 45/81 (55%), Gaps = 1/81 (1%)
Query: 7 CERAFKILREHGSLILSLFAMMISTGLPELSSEKDVNYLRETLVLDLTEEDAIKHFRSKF 66
C RA+ I+R+H L+L+L MM+ GLPEL +D+ Y+ L T+ +A +F K
Sbjct: 275 CCRAYNIVRKHSQLLLNLLEMMLHAGLPELKDIQDLKYVYNNLRPQDTDLEATSYFTKKI 334
Query: 67 GEALANSWKTSLNWASHNLAK 87
E+L + LN H LA+
Sbjct: 335 KESL-ECFPVKLNNLIHTLAQ 354
>gnl|CDD|214538 smart00146, PI3Kc, Phosphoinositide 3-kinase, catalytic domain.
Phosphoinositide 3-kinase isoforms participate in a
variety of processes, including cell motility, the Ras
pathway, vesicle trafficking and secretion, and
apoptosis. These homologues may be either lipid kinases
and/or protein kinases: the former phosphorylate the
3-position in the inositol ring of inositol
phospholipids. The ataxia telangiectesia-mutated gene
produced, the targets of rapamycin (TOR) and the
DNA-dependent kinase have not been found to possess
lipid kinase activity. Some of this family possess PI-4
kinase activities.
Length = 240
Score = 48.8 bits (117), Expect = 2e-08
Identities = 18/39 (46%), Positives = 27/39 (69%)
Query: 2 LFNTQCERAFKILREHGSLILSLFAMMISTGLPELSSEK 40
LF + CERA + LR++ +LI+SL +M+ GLP+ S K
Sbjct: 202 LFRSLCERALRALRKNSNLIMSLLELMLYDGLPDWRSGK 240
>gnl|CDD|119419 cd00893, PI4Kc_III, Phosphoinositide 4-kinase (PI4K), Type III,
catalytic domain; The PI4K catalytic domain family is
part of a larger superfamily that includes the catalytic
domains of other kinases such as the typical
serine/threonine/tyrosine protein kinases (PKs),
aminoglycoside phosphotransferase, choline kinase, and
RIO kinases. PI4Ks catalyze the transfer of the
gamma-phosphoryl group from ATP to the 4-hydroxyl of the
inositol ring of D-myo-phosphatidylinositol (PtdIns) to
generate PtdIns(4)P, the major precursor in the
synthesis of other phosphoinositides including
PtdIns(4,5)P2, PtdIns(3,4)P2, and PtdIns(3,4,5)P3. There
are two types of PI4Ks, types II and III. Type II PI4Ks
lack the characteristic catalytic kinase domain present
in PI3Ks and type III PI4Ks, and are excluded from this
family. Two isoforms of type III PI4K, alpha and beta,
exist in most eukaryotes.
Length = 289
Score = 45.5 bits (108), Expect = 4e-07
Identities = 25/77 (32%), Positives = 39/77 (50%), Gaps = 2/77 (2%)
Query: 2 LFNTQCERAFKILREHGSLILSLFAMMISTGLPELSSEKDVNYLRETLVLDLTEEDAIKH 61
F C R F +R+H L++SL ++I +GLP L+E L L+++E++AI
Sbjct: 203 KFRYLCLRGFIAVRKHMDLVISLVYLLIFSGLPCFRGSTIKK-LKERLCLNMSEKEAINT 261
Query: 62 FRSKFGEALANSWKTSL 78
K + NS T L
Sbjct: 262 VMKKIDSSY-NSITTKL 277
>gnl|CDD|189554 pfam00454, PI3_PI4_kinase, Phosphatidylinositol 3- and 4-kinase.
Some members of this family probably do not have lipid
kinase activity and are protein kinases, .
Length = 233
Score = 38.9 bits (91), Expect = 7e-05
Identities = 14/37 (37%), Positives = 23/37 (62%)
Query: 2 LFNTQCERAFKILREHGSLILSLFAMMISTGLPELSS 38
LF CE A++ LR + +L+ +L +M+ GLP+ S
Sbjct: 197 LFRELCETAYEALRRNLNLLTNLLLLMVEDGLPDWRS 233
>gnl|CDD|119427 cd05167, PI4Kc_III_alpha, Phosphoinositide 4-kinase (PI4K), Type
III, alpha isoform, catalytic domain; The PI4K catalytic
domain family is part of a larger superfamily that
includes the catalytic domains of other kinases such as
the typical serine/threonine/tyrosine protein kinases
(PKs), aminoglycoside phosphotransferase, choline
kinase, and RIO kinases. PI4Ks catalyze the transfer of
the gamma-phosphoryl group from ATP to the 4-hydroxyl of
the inositol ring of D-myo-phosphatidylinositol (PtdIns)
to generate PtdIns(4)P, the major precursor in the
synthesis of other phosphoinositides including
PtdIns(4,5)P2, PtdIns(3,4)P2, and PtdIns(3,4,5)P3. Two
isoforms of type III PI4K, alpha and beta, exist in most
eukaryotes. PI4KIIIalpha is a 220 kDa protein found in
the plasma membrane and the endoplasmic reticulum (ER).
The role of PI4KIIIalpha in the ER remains unclear. In
the plasma membrane, it provides PtdIns(4)P, which is
then converted by PI5Ks to PtdIns(4,5)P2, an important
signaling molecule. Vertebrate PI4KIIIalpha is also part
of a signaling complex associated with P2X7 ion
channels. The yeast homolog, Stt4p, is also important in
regulating the conversion of phosphatidylserine to
phosphatidylethanolamine at the ER and Golgi interface.
Mammalian PI4KIIIalpha is highly expressed in the
nervous system.
Length = 311
Score = 38.4 bits (90), Expect = 1e-04
Identities = 19/71 (26%), Positives = 32/71 (45%), Gaps = 1/71 (1%)
Query: 2 LFNTQCERAFKILREHGSLILSLFAMMISTGLPELSSEKDVNYLRETLVLDLTEEDAIKH 61
F C RAF +R + I+SL +M+ +GLP + LR+ + +E +A +
Sbjct: 225 WFVELCVRAFLAVRPYMDEIVSLVELMLDSGLPCF-RGDTIKNLRQRFAPEKSEREAAEF 283
Query: 62 FRSKFGEALAN 72
S E+
Sbjct: 284 MLSLIAESYEK 294
>gnl|CDD|119428 cd05168, PI4Kc_III_beta, Phosphoinositide 4-kinase (PI4K), Type
III, beta isoform, catalytic domain; The PI4K catalytic
domain family is part of a larger superfamily that
includes the catalytic domains of other kinases such as
the typical serine/threonine/tyrosine protein kinases
(PKs), aminoglycoside phosphotransferase, choline
kinase, and RIO kinases. PI4Ks catalyze the transfer of
the gamma-phosphoryl group from ATP to the 4-hydroxyl of
the inositol ring of D-myo-phosphatidylinositol (PtdIns)
to generate PtdIns(4)P, the major precursor in the
synthesis of other phosphoinositides including
PtdIns(4,5)P2, PtdIns(3,4)P2, and PtdIns(3,4,5)P3. Two
isoforms of type III PI4K, alpha and beta, exist in most
eukaryotes. PI4KIIIbeta (also called Pik1p in yeast) is
a 110 kDa protein that is localized to the Golgi and the
nucleus. It is required for maintaining the structural
integrity of the Golgi complex (GC), and is a key
regulator of protein transport from the GC to the plasma
membrane. PI4KIIIbeta also functions in the genesis,
transport, and exocytosis of synaptic vesicles. The
Drosophila PI4KIIIbeta is essential for cytokinesis
during spermatogenesis.
Length = 293
Score = 35.2 bits (82), Expect = 0.001
Identities = 22/82 (26%), Positives = 36/82 (43%), Gaps = 11/82 (13%)
Query: 3 FNTQCERAFKILREHGSLILSLFAMM-ISTGLPELSS-EKDVNYLRETLVLDLTEEDAIK 60
F + F LR+H I+ L +M + LP + E + LR+ +L+LTEE
Sbjct: 205 FKKLFLKGFMALRKHVDRIILLVEIMQSDSKLPCFKAGEFTIQQLRDRFMLNLTEEQLEV 264
Query: 61 HFRSKFGEAL----ANSWKTSL 78
+ L ++W+T L
Sbjct: 265 FV-----DELINQSLDNWRTRL 281
>gnl|CDD|119416 cd00142, PI3Kc_like, Phosphoinositide 3-kinase (PI3K)-like family,
catalytic domain; The PI3K-like catalytic domain family
is part of a larger superfamily that includes the
catalytic domains of other kinases such as the typical
serine/threonine/tyrosine protein kinases (PKs),
aminoglycoside phosphotransferase, choline kinase, and
RIO kinases. Members of the family include PI3K,
phosphoinositide 4-kinase (PI4K), PI3K-related protein
kinases (PIKKs), and TRansformation/tRanscription
domain-Associated Protein (TRRAP). PI3Ks catalyze the
transfer of the gamma-phosphoryl group from ATP to the
3-hydroxyl of the inositol ring of
D-myo-phosphatidylinositol (PtdIns) or its derivatives,
while PI4K catalyze the phosphorylation of the
4-hydroxyl of PtdIns. PIKKs are protein kinases that
catalyze the phosphorylation of serine/threonine
residues, especially those that are followed by a
glutamine. PI3Ks play an important role in a variety of
fundamental cellular processes, including cell motility,
the Ras pathway, vesicle trafficking and secretion,
immune cell activation and apoptosis. PI4Ks produce
PtdIns(4)P, the major precursor to important signaling
phosphoinositides. PIKKs have diverse functions
including cell-cycle checkpoints, genome surveillance,
mRNA surveillance, and translation control.
Length = 219
Score = 34.1 bits (79), Expect = 0.004
Identities = 11/30 (36%), Positives = 18/30 (60%)
Query: 2 LFNTQCERAFKILREHGSLILSLFAMMIST 31
F + C +A ILR H L+L+L ++M+
Sbjct: 190 PFRSLCVKAMLILRRHAGLLLNLLSLMLRD 219
>gnl|CDD|227365 COG5032, TEL1, Phosphatidylinositol kinase and protein kinases of the
PI-3 kinase family [Signal transduction mechanisms / Cell
division and chromosome partitioning / Chromatin
structure and dynamics / DNA replication, recombination,
and repair / Intracellular trafficking and secretion].
Length = 2105
Score = 32.1 bits (73), Expect = 0.025
Identities = 16/69 (23%), Positives = 30/69 (43%), Gaps = 8/69 (11%)
Query: 2 LFNTQCERAFKILREHGSLILSLFAMMI------STGLPELS--SEKDVNYLRETLVLDL 53
F CE AF+ LR++ ++++ + + LP ++ + E L L
Sbjct: 2005 SFRELCETAFRALRKNADSLMNVLELFVRDPLIEWRRLPCFREIQNNEIVNVLERFRLKL 2064
Query: 54 TEEDAIKHF 62
+E+DA K
Sbjct: 2065 SEKDAEKFV 2073
>gnl|CDD|153429 cd08002, WGR_PARP3_like, WGR domain of poly(ADP-ribose)
polymerase 3 and similar proteins. The WGR domain is
found in a variety of eukaryotic poly(ADP-ribose)
polymerases (PARPs). It has been called WGR after the
most conserved central motif of the domain. The domain
typically occurs together with a catalytic PARP domain,
and is between 70 and 80 residues in length. It has
been proposed to function as a nucleic acid binding
domain. PARPs catalyze the NAD(+)-dependent synthesis
of ADP-ribose polymers and their addition to various
nuclear proteins. Higher eukaryotes contain several
PARPs and and there may be up to 17 human PARP-like
proteins, with three of them (PARP-1, PARP-2, and
PARP-3) containing a WGR domain. The synthesis of
poly-ADP-ribose requires multiple enzymatic activities
for initiation, trans-ADP-ribosylation, elongation,
branching, and release of the polymer from the enzyme.
This subfamily is composed of human PARP-3 and similar
proteins, including Arabidopsis thaliana PARP-2. PARP-3
displays a tissue-specific expression, with highest
amounts found in the nuclei of epithelial cells of
prostate ducts, salivary glands, liver, pancreas, and
in the neurons of terminal ganglia. Unlike PARP-1 and
PARP-2, PARP-3 activity is not induced by DNA strand
breaks. However, it co-localizes with Polycomb group
bodies and is part of complexes making up DNA-PKcs, DNA
ligases III and IV, Ku70, and Ku80. PARP-3 is a nuclear
protein that may be involved in transcriptional control
and responses to DNA damage.
Length = 100
Score = 29.7 bits (67), Expect = 0.070
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 55 EEDAIKHFRSKFGEALANSWKTSLNWASH 83
E AIK F KF + N+W+ N+ H
Sbjct: 61 LEGAIKDFEKKFKDKTKNNWEDRENFVPH 89
>gnl|CDD|214814 smart00773, WGR, Proposed nucleic acid binding domain. This
domain is named after its most conserved central motif.
It is found in a variety of polyA polymerases as well
as in molybdate metabolism regulators (e.g. in E.coli)
and other proteins of unknown function. The domain is
found in isolation in some proteins and is between 70
and 80 residues in length. It is proposed that it may
be a nucleic acid binding domain.
Length = 84
Score = 28.0 bits (63), Expect = 0.27
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 54 TEEDAIKHFRSKFGEALANSWK 75
+ EDAIK F F E N ++
Sbjct: 57 SLEDAIKEFEKLFKEKTKNGYE 78
>gnl|CDD|184899 PRK14906, PRK14906, DNA-directed RNA polymerase subunit beta'/alpha
domain fusion protein; Provisional.
Length = 1460
Score = 28.7 bits (64), Expect = 0.38
Identities = 14/34 (41%), Positives = 20/34 (58%)
Query: 25 FAMMISTGLPELSSEKDVNYLRETLVLDLTEEDA 58
FA I T + + + E+D + LR+ L DL E DA
Sbjct: 133 FASYIITSVDKEAREEDADDLRDELAADLEELDA 166
>gnl|CDD|217070 pfam02500, DNA_pack_N, Probable DNA packing protein, N-terminus.
This family includes proteins that are probably involved
in DNA packing in herpesvirus. This domain is normally
found at the N-terminus of the protein.
Length = 278
Score = 28.4 bits (64), Expect = 0.44
Identities = 11/46 (23%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 20 LILSLFAMMISTGLPELSSEKDVNYLRETLVLDLTEEDAIKHFRSK 65
+++ F + S LPE + E+ +YL+ + + ++HF+ K
Sbjct: 139 ILMHTFYFLASIKLPEHA-ERVFDYLKVVFDIPEFSDAVLQHFKQK 183
>gnl|CDD|218579 pfam05406, WGR, WGR domain. This domain is found in a variety of
polyA polymerases as well as the E. coli molybdate
metabolism regulator and other proteins of unknown
function. I have called this domain WGR after the most
conserved central motif of the domain. The domain is
found in isolation in proteins such as Rhizobium
radiobacter ych and is between 70 and 80 residues in
length. I propose that this may be a nucleic acid
binding domain.
Length = 83
Score = 26.5 bits (59), Expect = 0.84
Identities = 7/21 (33%), Positives = 10/21 (47%)
Query: 54 TEEDAIKHFRSKFGEALANSW 74
+ E+AIK F F E +
Sbjct: 56 SLEEAIKEFEKLFAEKTKKGY 76
>gnl|CDD|163708 cd08152, y4iL_like, Catalase-like heme-binding proteins similar to
the uncharacterized y4iL. Catalase is a ubiquitous
enzyme found in both prokaryotes and eukaryotes involved
in the protection of cells from the toxic effects of
peroxides. It catalyses the conversion of hydrogen
peroxide to water and molecular oxygen. Several other
related protein families share the catalase fold and
bind to heme, but do not necessarily have catalase
activity. This family contains uncharacterized proteins
similar to Rhizobium sp. NGR234 y4iL, of mostly
bacterial origin.
Length = 305
Score = 26.8 bits (60), Expect = 1.3
Identities = 13/30 (43%), Positives = 14/30 (46%)
Query: 34 PELSSEKDVNYLRETLVLDLTEEDAIKHFR 63
EL D + LRE L L E DA FR
Sbjct: 190 KELDLTDDPDALREALADFLAENDAEFEFR 219
>gnl|CDD|212011 cd11621, HR1_PKC-like_1_fungi, First Protein kinase C-related
kinase homology region 1 (HR1) Rho-binding domain of
fungal Protein Kinase C-like proteins. This subfamily
is composed of fungal PKC-like proteins including Pkc1p
from Saccharomyces cerevisiae, and Pck1p and Pck2p from
Schizosaccharomyces pombe. The yeast PKC-like proteins
play a critical role in regulating cell wall
biosynthesis and maintaining cell wall integrity. They
contain two HR1 domains, C2 and C1 domains, and a
kinase domain. This model characterizes the first HR1
domain. HR1 domains are anti-parallel coiled-coil (ACC)
domains that bind small GTPases from the Rho family.
The HR1 domains of Pck1p and Pck2p interact with
GTP-bound Rho1p and Rho2p.
Length = 72
Score = 25.8 bits (57), Expect = 1.8
Identities = 18/47 (38%), Positives = 22/47 (46%), Gaps = 10/47 (21%)
Query: 12 KILREHGSLILSLFAMMISTGLPEL---------SSEKDVNYLRETL 49
KI RE SLI AM ST PE+ S +++YL E L
Sbjct: 13 KIERER-SLIQGAKAMKKSTKNPEVIQRLNSNIRESRSNIDYLEERL 58
>gnl|CDD|179431 PRK02491, PRK02491, putative deoxyribonucleotide triphosphate
pyrophosphatase/unknown domain fusion protein; Reviewed.
Length = 328
Score = 26.7 bits (59), Expect = 1.8
Identities = 14/73 (19%), Positives = 32/73 (43%), Gaps = 6/73 (8%)
Query: 2 LFNTQCERAFKILREHGSLILSLFAMMISTGLPELSS------EKDVNYLRETLVLDLTE 55
+ N + +R K+ + G+++L+ +++ LP+ +T+++
Sbjct: 77 MINQETQRNLKVTQHAGAILLTENDKLLAVHLPKEGVSTADFFGTSKQGFGDTILIATRN 136
Query: 56 EDAIKHFRSKFGE 68
E K FR FG+
Sbjct: 137 EGKTKEFRKLFGK 149
>gnl|CDD|119429 cd05169, PIKKc_TOR, TOR (Target of rapamycin), catalytic domain;
The TOR catalytic domain subfamily is part of a larger
superfamily that includes the catalytic domains of other
kinases such as the typical serine/threonine/tyrosine
protein kinases (PKs), aminoglycoside
phosphotransferase, choline kinase, and RIO kinases. TOR
is a member of the phosphoinositide 3-kinase-related
protein kinase (PIKK) subfamily. PIKKs have intrinsic
serine/threonine kinase activity and are distinguished
from other PKs by their unique catalytic domain, similar
to that of lipid PI3K, and their large molecular weight
(240-470 kDa). TOR contains a rapamycin binding domain,
a catalytic domain, and a FATC (FRAP, ATM and TRRAP,
C-terminal) domain at the C-terminus. It is also called
FRAP (FK506 binding protein 12-rapamycin associated
protein). TOR is a central component of the eukaryotic
growth regulatory network. It controls the expression of
many genes transcribed by all three RNA polymerases. It
associates with other proteins to form two distinct
complexes, TORC1 and TORC2. TORC1 is involved in diverse
growth-related functions including protein synthesis,
nutrient use and transport, autophagy and stress
responses. TORC2 is involved in organizing cytoskeletal
structures.
Length = 280
Score = 26.3 bits (59), Expect = 1.9
Identities = 7/23 (30%), Positives = 13/23 (56%)
Query: 2 LFNTQCERAFKILREHGSLILSL 24
F T CE +LRE+ ++++
Sbjct: 244 TFRTTCEDVMNVLRENKESLMAV 266
>gnl|CDD|213300 cd05934, FACL_DitJ_like, Uncharacterized subfamily of fatty acid
CoA ligase (FACL). Fatty acyl-CoA ligases catalyze the
ATP-dependent activation of fatty acids in a two-step
reaction. The carboxylate substrate first reacts with
ATP to form an acyl-adenylate intermediate, which then
reacts with CoA to produce an acyl-CoA ester. This is a
required step before free fatty acids can participate in
most catabolic and anabolic reactions. Members of this
family include DitJ from Pseudomonas and similar
proteins.
Length = 421
Score = 26.4 bits (59), Expect = 2.0
Identities = 15/69 (21%), Positives = 27/69 (39%), Gaps = 4/69 (5%)
Query: 8 ERAFKILREHGSLILSLFAMMIST--GLPELSSEKDVNYLRETLVLDLTEEDAIKHFRSK 65
R + +R+HG+ + +L M + P ++D + LR L F +
Sbjct: 160 SRFWDQVRKHGATVFNLLGAMAAILMKQPPSPDDRD-HPLRFVFGAPLPAAIW-PAFEER 217
Query: 66 FGEALANSW 74
FG L +
Sbjct: 218 FGVKLVEGY 226
>gnl|CDD|235830 PRK06558, PRK06558, V-type ATP synthase subunit K; Validated.
Length = 159
Score = 26.1 bits (58), Expect = 2.5
Identities = 16/59 (27%), Positives = 23/59 (38%), Gaps = 6/59 (10%)
Query: 12 KILREHGSLILSLFAMMISTGLPELSSEKDVNYLRETLVLDLTEEDAIKHFRSKFGEAL 70
++G + ++ GL + S K V E LTEE KFG+AL
Sbjct: 6 NFFTQNGGAFFAALGAALAVGLSGIGSAKGVGKAGEAAAGLLTEEP------EKFGKAL 58
>gnl|CDD|235716 PRK06149, PRK06149, hypothetical protein; Provisional.
Length = 972
Score = 26.1 bits (58), Expect = 2.5
Identities = 17/73 (23%), Positives = 28/73 (38%), Gaps = 24/73 (32%)
Query: 8 ERAFKILREHGSLILSLFAMMISTGLPELSSEKDVNYLRET----LVLDLTEED------ 57
+A +IL EH L S L EL S++D N+ ++ VL +
Sbjct: 20 AQAERILAEHYGL---------SGTLTELGSQQDRNFRVDSDGGRFVLKICHAAYAAVEL 70
Query: 58 -----AIKHFRSK 65
A++H +
Sbjct: 71 EAQHAALRHLAER 83
>gnl|CDD|223428 COG0351, ThiD, Hydroxymethylpyrimidine/phosphomethylpyrimidine
kinase [Coenzyme metabolism].
Length = 263
Score = 26.0 bits (58), Expect = 2.6
Identities = 14/51 (27%), Positives = 26/51 (50%), Gaps = 1/51 (1%)
Query: 1 MLFNTQ-CERAFKILREHGSLILSLFAMMISTGLPELSSEKDVNYLRETLV 50
ML + + E + L+++G + L +M++ L E+ V LRE L+
Sbjct: 80 MLGSAEIIEVVAEKLKKYGIGPVVLDPVMVAKSGDPLLDEEAVEALREELL 130
>gnl|CDD|215550 PLN03049, PLN03049, pyridoxine (pyridoxamine) 5'-phosphate oxidase;
Provisional.
Length = 462
Score = 26.0 bits (57), Expect = 3.0
Identities = 11/48 (22%), Positives = 20/48 (41%), Gaps = 2/48 (4%)
Query: 26 AMMISTGLPEL--SSEKDVNYLRETLVLDLTEEDAIKHFRSKFGEALA 71
+M + G + NY+ L+ + D I F+ F +A+A
Sbjct: 236 SMCVRIGKTPSVDIAALRENYVGPELLEEQVNADPIDQFKEWFDDAVA 283
>gnl|CDD|181324 PRK08251, PRK08251, short chain dehydrogenase; Provisional.
Length = 248
Score = 25.7 bits (57), Expect = 3.2
Identities = 16/33 (48%), Positives = 19/33 (57%), Gaps = 7/33 (21%)
Query: 6 QCERAFKILREHGS----LILSLFAMMISTGLP 34
QCE A +I RE GS LI S+ A+ GLP
Sbjct: 119 QCEAAMEIFREQGSGHLVLISSVSAV---RGLP 148
>gnl|CDD|222629 pfam14257, DUF4349, Domain of unknown function (DUF4349). This
family of proteins is found in bacteria and archaea.
Proteins in this family are typically between 282 and
353 amino acids in length. There is a single completely
conserved residue D that may be functionally important.
Length = 262
Score = 25.6 bits (57), Expect = 3.8
Identities = 15/48 (31%), Positives = 22/48 (45%), Gaps = 9/48 (18%)
Query: 37 SSEKDVNYLRE-----TLVLDLTEEDAIK----HFRSKFGEALANSWK 75
S E + YL + T+ + L E +A+ F S FG+AL W
Sbjct: 180 SLEAQLRYLDDRVAYSTITVTLYEPEALTPAEPGFGSGFGDALREGWD 227
>gnl|CDD|184699 PRK14478, PRK14478, nitrogenase molybdenum-cofactor biosynthesis
protein NifE; Provisional.
Length = 475
Score = 25.8 bits (57), Expect = 3.9
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 24 LFAMMISTGLPELSSEKDVNYLRE 47
L +I T PE ++ D+N L E
Sbjct: 176 LLDHVIGTVEPEDTTPYDINILGE 199
>gnl|CDD|153428 cd08001, WGR_PARP1_like, WGR domain of poly(ADP-ribose)
polymerase 1 and similar proteins. The WGR domain is
found in a variety of eukaryotic poly(ADP-ribose)
polymerases (PARPs). It has been called WGR after the
most conserved central motif of the domain. The domain
typically occurs together with a catalytic PARP domain,
and is between 70 and 80 residues in length. It has
been proposed to function as a nucleic acid binding
domain. PARPs catalyze the NAD(+)-dependent synthesis
of ADP-ribose polymers and their addition to various
nuclear proteins. Higher eukaryotes contain several
PARPs and and there may be up to 17 human PARP-like
proteins, with three of them (PARP-1, PARP-2, and
PARP-3) containing a WGR domain. The synthesis of
poly-ADP-ribose requires multiple enzymatic activities
for initiation, trans-ADP-ribosylation, elongation,
branching, and release of the polymer from the enzyme.
This subfamily is composed of vertebrate PARP-1 and
similar proteins, including Arabidopsis thaliana PARP-1
and PARP-3. PARP-1 is the best-studied among the PARPs.
It is a widely expressed nuclear chromatin-associated
enzyme that possesses auto-mono-ADP-ribosylation
(initiation), elongation, and branching activities.
PARP-1 is implicated in DNA damage and cell death
pathways and is important in maintaining genomic
stability and regulating cell proliferation,
differentiation, neuronal function, inflammation, and
aging.
Length = 104
Score = 24.9 bits (55), Expect = 5.3
Identities = 6/26 (23%), Positives = 11/26 (42%)
Query: 54 TEEDAIKHFRSKFGEALANSWKTSLN 79
+ E+A F + E N ++ N
Sbjct: 64 SLEEAKMAFEELYEEKTGNDFENRKN 89
>gnl|CDD|213672 TIGR01990, bPGM, beta-phosphoglucomutase. This model represents
the beta-phosphoglucomutase enzyme which catalyzes the
interconverison of beta-D-glucose-1-phosphate and
beta-D-glucose-6-phosphate. The 6-phosphate is capable
of non-enzymatic anomerization (alpha <-> beta) while
the 1-phosphate is not. A separate enzyme is responsible
for the isomerization of the alpha anomers.
Beta-D-glucose-1-phosphate results from the
phosphorylysis of maltose (2.4.1.8), trehalose
(2.4.1.64) or trehalose-6-phosphate (2.4.1.216).
Alternatively, these reactions can be run in the
synthetic direction to create the disaccharides. All
sequenced genomes which contain a member of this family
also appear to contain at least one putative maltose or
trehalose phosphorylase. Three species, Lactococcus,
Enterococcus and Neisseria appear to contain a pair of
paralogous beta-PGM's. Beta-phosphoglucomutase is a
member of the haloacid dehalogenase superfamily of
hydrolase enzymes. These enzymes are characterized by a
series of three catalytic motifs positioned within an
alpha-beta (Rossman) fold. beta-PGM contains an inserted
alpha helical domain in between the first and second
conserved motifs and thus is a member of subfamily IA of
the superfamily. The third catalytic motif comes in
three variants, the third of which, containing a
conserved DD or ED, is the only one found here as well
as in several other related enzymes (TIGR01509). The
enzyme from L. lactis has been extensively characterized
including a remarkable crystal structure which traps the
pentacoordinate transition state [Energy metabolism,
Biosynthesis and degradation of polysaccharides].
Length = 185
Score = 25.0 bits (55), Expect = 5.6
Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 2/50 (4%)
Query: 35 ELSSEKDVNYLRETLVLDLTEEDAIKHFRSKFGEALANSWKTSLNWASHN 84
EL+ K+ Y+ L+ +LT D + +S + N+ K +L AS N
Sbjct: 67 ELAERKNDYYVE--LLKELTPADVLPGIKSLLADLKKNNIKIALASASKN 114
>gnl|CDD|233336 TIGR01272, gluP, glucose/galactose transporter. This model
describes the glucose/galactose transporter in bacteria.
This belongs to the larger facilitator superfamily.
Disruption of the loci leads to the total loss of
glucose or galactose uptake in E.coli. Putative
transporters in other bacterial species were isolated by
functional complementation, which restored it functional
activity [Transport and binding proteins, Carbohydrates,
organic alcohols, and acids].
Length = 310
Score = 24.9 bits (54), Expect = 6.9
Identities = 12/47 (25%), Positives = 20/47 (42%), Gaps = 1/47 (2%)
Query: 20 LILSLFAMMISTGLPELSSEKDVNYLRETLVLDLTEEDAIKHFRSKF 66
L+L + + G + VN+L + L L E+ A HF +
Sbjct: 142 LVLGALGIFVYVGAEVSAGSFLVNFLSDPHALGLPEDQA-AHFTAYT 187
>gnl|CDD|181207 PRK08043, PRK08043, bifunctional acyl-[acyl carrier protein]
synthetase/2-acylglycerophosphoethanolamine
acyltransferase; Validated.
Length = 718
Score = 25.1 bits (55), Expect = 7.2
Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 10/50 (20%)
Query: 2 LFNTQCERAFKILREHGSLILSLFAMMISTGLPELSSEKDVNYLRETLVL 51
LF T E + RE L G+PEL+ +D+ YL++ +L
Sbjct: 658 LFTTDSE----LTRE------KLQQYAREHGVPELAVPRDIRYLKQLPLL 697
>gnl|CDD|117044 pfam08467, Luteo_P1-P2, Luteovirus RNA polymerase P1-P2/replicase.
This domain is found in RNA-dependent RNA polymerase
P1-P2 fusion/replicase proteins in plant Luteoviruses.
Length = 361
Score = 24.9 bits (54), Expect = 7.6
Identities = 12/44 (27%), Positives = 20/44 (45%)
Query: 35 ELSSEKDVNYLRETLVLDLTEEDAIKHFRSKFGEALANSWKTSL 78
+ EK +N ++ VL TE K + + GE+ W +L
Sbjct: 145 PVRVEKFINLVKAKEVLQATEVRIKKTYEEEIGESPFGCWFNTL 188
>gnl|CDD|223256 COG0178, UvrA, Excinuclease ATPase subunit [DNA replication,
recombination, and repair].
Length = 935
Score = 24.9 bits (55), Expect = 7.6
Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 11/30 (36%)
Query: 44 YLRETL-----------VLDLTEEDAIKHF 62
Y RETL VLD+T E+A++ F
Sbjct: 764 YNRETLEVKYKGKNIADVLDMTVEEALEFF 793
>gnl|CDD|213238 cd03271, ABC_UvrA_II, ATP-binding cassette domain II of the
excision repair protein UvrA. Nucleotide excision
repair in eubacteria is a process that repairs DNA
damage by the removal of a 12-13-mer oligonucleotide
containing the lesion. Recognition and cleavage of the
damaged DNA is a multistep ATP-dependent reaction that
requires the UvrA, UvrB, and UvrC proteins. Both UvrA
and UvrB are ATPases, with UvrA having two ATP binding
sites, which have the characteristic signature of the
family of ABC proteins and UvrB having one ATP binding
site that is structurally related to that of helicases.
Length = 261
Score = 24.5 bits (54), Expect = 8.3
Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 11/30 (36%)
Query: 44 YLRETL-----------VLDLTEEDAIKHF 62
Y RETL VLD+T E+A++ F
Sbjct: 111 YNRETLEVRYKGKSIADVLDMTVEEALEFF 140
>gnl|CDD|222534 pfam14090, HTH_39, Helix-turn-helix domain. This
helix-turn-helix domain is often found in phage
proteins and is likely to be DNA-binding.
Length = 70
Score = 23.8 bits (52), Expect = 8.5
Identities = 11/23 (47%), Positives = 13/23 (56%), Gaps = 1/23 (4%)
Query: 5 TQCERAFKILREHGSLILSLFAM 27
TQC R LR GS I +L A+
Sbjct: 1 TQCARILAALRRGGS-ITTLEAL 22
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
0.318 0.130 0.375
Gapped
Lambda K H
0.267 0.0741 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,447,439
Number of extensions: 354846
Number of successful extensions: 527
Number of sequences better than 10.0: 1
Number of HSP's gapped: 522
Number of HSP's successfully gapped: 54
Length of query: 90
Length of database: 10,937,602
Length adjustment: 58
Effective length of query: 32
Effective length of database: 8,365,070
Effective search space: 267682240
Effective search space used: 267682240
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (24.2 bits)