RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1710
(77 letters)
>gnl|CDD|143354 cd07849, STKc_ERK1_2_like, Catalytic domain of Extracellular
signal-Regulated Kinase 1 and 2-like Serine/Threonine
Kinases. Serine/Threonine Kinases (STKs),
Extracellular signal-regulated kinases 1 and 2 (ERK1/2)
and Fus3 subfamily, catalytic (c) domain. STKs catalyze
the transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. This
ERK1/2-like subfamily is part of a larger superfamily
that includes the catalytic domains of other protein
STKs, protein tyrosine kinases, RIO kinases,
aminoglycoside phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. This subfamily is composed
of the mitogen-activated protein kinases (MAPKs) ERK1,
ERK2, baker's yeast Fus3, and similar proteins. MAPK
pathways are important mediators of cellular responses
to extracellular signals. ERK1/2 activation is
preferentially by mitogenic factors, differentiation
stimuli, and cytokines, through a kinase cascade
involving the MAPK kinases MEK1/2 and a MAPK kinase
kinase from the Raf family. ERK1/2 have numerous
substrates, many of which are nuclear and participate
in transcriptional regulation of many cellular
processes. They regulate cell growth, cell
proliferation, and cell cycle progression from G1 to S
phase. Although the distinct roles of ERK1 and ERK2
have not been fully determined, it is known that ERK2
can maintain most functions in the absence of ERK1, and
that the deletion of ERK2 is embryonically lethal. The
MAPK, Fus3, regulates yeast mating processes including
mating-specific gene expression, G1 arrest, mating
projection, and cell fusion.
Length = 336
Score = 53.1 bits (128), Expect = 4e-10
Identities = 19/23 (82%), Positives = 21/23 (91%)
Query: 23 FEVGPRYTNLAYIGEGAYGMVVS 45
F+VGPRY NL+YIGEGAYGMV S
Sbjct: 1 FDVGPRYQNLSYIGEGAYGMVCS 23
>gnl|CDD|173749 cd07855, STKc_ERK5, Catalytic domain of the Serine/Threonine
Kinase, Extracellular signal-Regulated Kinase 5.
Serine/Threonine Kinases (STKs), Extracellular
signal-Regulated Kinase 5 (ERK5) subfamily, catalytic
(c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The ERK5 subfamily is
part of a larger superfamily that includes the
catalytic domains of other protein STKs, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. MAPKs are important
mediators of cellular responses to extracellular
signals. ERK5, also called Big MAPK1 (BMK1) or MAPK7,
has a unique C-terminal extension, making it
approximately twice as big as other MAPKs. This
extension contains transcriptional activation
capability which is inhibited by the N-terminal half.
ERK5 is activated in response to growth factors and
stress by a cascade that leads to its phosphorylation
by the MAP2K MEK5, which in turn is regulated by the
MAP3Ks MEKK2 and MEKK3. Activated ERK5 phosphorylates
its targets including myocyte enhancer factor 2 (MEF2),
Sap1a, c-Myc, and RSK. It plays a role in EGF-induced
cell proliferation during the G1/S phase transition.
Studies on knockout mice revealed that ERK5 is
essential for cardiovascular development and plays an
important role in angiogenesis. It is also critical for
neural differentiation and survival. The ERK5 pathway
has been implicated in the pathogenesis of many
diseases including cancer, cardiac hypertrophy, and
atherosclerosis.
Length = 334
Score = 35.8 bits (83), Expect = 7e-04
Identities = 13/23 (56%), Positives = 16/23 (69%)
Query: 23 FEVGPRYTNLAYIGEGAYGMVVS 45
F+VG RY + IG GAYG+V S
Sbjct: 1 FDVGSRYKPIENIGSGAYGVVCS 23
>gnl|CDD|143356 cd07851, STKc_p38, Catalytic domain of the Serine/Threonine
Kinase, p38 Mitogen-Activated Protein Kinase.
Serine/Threonine Kinases (STKs), p38 subfamily,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The p38 subfamily is
part of a larger superfamily that includes the
catalytic domains of other protein STKs, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. p38 kinases are
mitogen-activated protein kinases (MAPKs), serving as
important mediators of cellular responses to
extracellular signals. They function in the regulation
of the cell cycle, cell development, cell
differentiation, senescence, tumorigenesis, apoptosis,
pain development and pain progression, and immune
responses. p38 kinases are activated by the MAPK
kinases MKK3 and MKK6, which in turn are activated by
upstream MAPK kinase kinases including TAK1, ASK1, and
MLK3, in response to cellular stresses or inflammatory
cytokines. p38 substrates include other protein kinases
and factors that regulate transcription, nuclear
export, mRNA stability and translation. p38 kinases are
drug targets for the inflammatory diseases psoriasis,
rheumatoid arthritis, and chronic pulmonary disease.
Vertebrates contain four isoforms of p38, named alpha,
beta, gamma, and delta, which show varying substrate
specificity and expression patterns. p38alpha and
p38beta are ubiquitously expressed, p38gamma is
predominantly found in skeletal muscle, and p38delta is
found in the heart, lung, testis, pancreas, and small
intestine.
Length = 343
Score = 35.0 bits (81), Expect = 0.001
Identities = 16/41 (39%), Positives = 22/41 (53%), Gaps = 8/41 (19%)
Query: 22 TFEVGPRYTNLAYIGEGAYGMVVS--------EAPMKKLLQ 54
+EV RY NL+ +G GAYG V S + +KKL +
Sbjct: 10 VWEVPDRYQNLSPVGSGAYGQVCSAFDTKTGRKVAIKKLSR 50
>gnl|CDD|143361 cd07856, STKc_Sty1_Hog1, Catalytic domain of the Serine/Threonine
Kinases, Fungal Mitogen-Activated Protein Kinases Sty1
and Hog1. Serine/Threonine Kinases (STKs), Fungal
Mitogen-Activated Protein Kinase (MAPK) Sty1/Hog1
subfamily, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
Sty1/Hog1 subfamily is part of a larger superfamily
that includes the catalytic domains of other protein
STKs, protein tyrosine kinases, RIO kinases,
aminoglycoside phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. This subfamily is composed
of the MAPKs Sty1 from Schizosaccharomyces pombe, Hog1
from Saccharomyces cerevisiae, and similar proteins.
MAPKs are important mediators of cellular responses to
extracellular signals. Sty1 and Hog1 are
stress-activated MAPKs that partipate in
transcriptional regulation in response to stress. Sty1
is activated in response to oxidative stress, osmotic
stress, and UV radiation. Sty1 is regulated by the
MAP2K Wis1, which is activated by the MAP3Ks Wis4 and
Win1, which receive signals of the stress condition
from membrane-spanning histidine kinases Mak1-3.
Activated Sty1 stabilizes the Atf1 transcription factor
and induces transcription of Atf1-dependent genes of
the core environmetal stress response (CESR). Hog1 is
the key element in the high osmolarity glycerol (HOG)
pathway and is activated upon hyperosmotic stress.
Activated Hog1 accumulates in the nucleus and regulates
stress-induced transcription. The HOG pathway is
mediated by two transmembrane osmosensors, Sln1 and
Sho1.
Length = 328
Score = 33.6 bits (77), Expect = 0.004
Identities = 12/28 (42%), Positives = 18/28 (64%)
Query: 18 VRGQTFEVGPRYTNLAYIGEGAYGMVVS 45
+ G FE+ RY +L +G GA+G+V S
Sbjct: 1 IFGTVFEITNRYVDLQPVGMGAFGLVCS 28
>gnl|CDD|173737 cd07834, STKc_MAPK, Catalytic domain of the Serine/Threonine
Kinase, Mitogen-Activated Protein Kinase.
Serine/Threonine Kinases (STKs), Mitogen-Activated
Protein Kinase (MAPK) subfamily, catalytic (c) domain.
STKs catalyze the transfer of the gamma-phosphoryl
group from ATP to serine/threonine residues on protein
substrates. The MAPK subfamily is part of a larger
superfamily that includes the catalytic domains of
other protein STKs, protein tyrosine kinases, RIO
kinases, aminoglycoside phosphotransferase, choline
kinase, and phosphoinositide 3-kinase. MAPKs serve as
important mediators of cellular responses to
extracellular signals. They control critical cellular
functions including differentiation, proliferation,
migration, and apoptosis. They are also implicated in
the pathogenesis of many diseases including multiple
types of cancer, stroke, diabetes, and chronic
inflammation. Typical MAPK pathways involve a triple
kinase core cascade comprising of the MAPK, which is
phosphorylated and activated by a MAPK kinase (MAP2K or
MKK), which itself is phosphorylated and activated by a
MAPK kinase kinase (MAP3K or MKKK). Each cascade is
activated either by a small GTP-binding protein or by
an adaptor protein, which transmits the signal either
directly to a MAP3K to start the triple kinase core
cascade or indirectly through a mediator kinase, a
MAP4K. There are three main typical MAPK subfamilies:
Extracellular signal-Regulated Kinase (ERK), c-Jun
N-terminal Kinase (JNK), and p38. Some MAPKs are
atypical in that they are not regulated by MAP2Ks.
These include MAPK4, MAPK6, NLK, and ERK7.
Length = 330
Score = 33.3 bits (77), Expect = 0.005
Identities = 11/18 (61%), Positives = 12/18 (66%)
Query: 28 RYTNLAYIGEGAYGMVVS 45
RY L IG GAYG+V S
Sbjct: 1 RYELLKPIGSGAYGVVCS 18
>gnl|CDD|173746 cd07850, STKc_JNK, Catalytic domain of the Serine/Threonine
Kinase, c-Jun N-terminal Kinase. Serine/Threonine
Kinases (STKs), c-Jun N-terminal kinase (JNK)
subfamily, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
JNK subfamily is part of a larger superfamily that
includes the catalytic domains of other protein STKs,
protein tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. JNKs are mitogen-activated
protein kinases (MAPKs) that are involved in many
stress-activated responses including those during
inflammation, neurodegeneration, apoptosis, and
persistent pain sensitization, among others. They are
also essential regulators of physiological and
pathological processes and are involved in the
pathogenesis of several diseases such as diabetes,
atherosclerosis, stroke, Parkinson's and Alzheimer's.
Vetebrates harbor three different JNK genes (Jnk1,
Jnk2, and Jnk3) that are alternatively spliced to
produce at least 10 isoforms. JNKs are specifically
activated by the MAPK kinases MKK4 and MKK7, which are
in turn activated by upstream MAPK kinase kinases as a
result of different stimuli including stresses such as
ultraviolet (UV) irradiation, hyperosmolarity, heat
shock, or cytokines. JNKs activate a large number of
different substrates based on specific stimulus, cell
type, and cellular condition, and may be implicated in
seemingly contradictory functions.
Length = 353
Score = 33.1 bits (76), Expect = 0.005
Identities = 13/24 (54%), Positives = 15/24 (62%)
Query: 22 TFEVGPRYTNLAYIGEGAYGMVVS 45
TF V RY NL IG GA G+V +
Sbjct: 11 TFTVLKRYQNLKPIGSGAQGIVCA 34
>gnl|CDD|143333 cd05118, STKc_CMGC, Catalytic domain of CMGC family
Serine/Threonine Kinases. Serine/Threonine Kinases
(STKs), CMGC family, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group
from ATP to serine/threonine residues on protein
substrates. The CMGC family is part of a larger
superfamily that includes the catalytic domains of
other protein STKs, protein tyrosine kinases, RIO
kinases, aminoglycoside phosphotransferase, choline
kinase, and phosphoinositide 3-kinase. The CMGC family
consists of Cyclin-Dependent protein Kinases (CDKs),
Mitogen-activated protein kinases (MAPKs) such as
Extracellular signal-regulated kinase (ERKs), c-Jun
N-terminal kinases (JNKs), and p38, and similar
proteins. CDKs belong to a large subfamily of STKs that
are regulated by their cognate cyclins. Together, they
are involved in the control of cell-cycle progression,
transcription, and neuronal function. MAPKs serve as
important mediators of cellular responses to
extracellular signals. They control critical cellular
functions including differentiation, proliferation,
migration, and apoptosis. They are also implicated in
the pathogenesis of many diseases including multiple
types of cancer, stroke, diabetes, and chronic
inflammation.
Length = 283
Score = 33.1 bits (76), Expect = 0.006
Identities = 9/15 (60%), Positives = 10/15 (66%)
Query: 29 YTNLAYIGEGAYGMV 43
Y L IGEG YG+V
Sbjct: 1 YQKLGKIGEGTYGVV 15
>gnl|CDD|143363 cd07858, STKc_TEY_MAPK_plant, Catalytic domain of the
Serine/Threonine Kinases, TEY Mitogen-Activated Protein
Kinases from Plants. Serine/Threonine Kinases (STKs),
Plant TEY Mitogen-Activated Protein Kinase (MAPK)
subfamily, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
TEY MAPK subfamily is part of a larger superfamily that
includes the catalytic domains of other protein STKs,
protein tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. MAPKs are important
mediators of cellular responses to extracellular
signals. In plants, MAPKs are associated with
physiological, developmental, hormonal, and stress
responses. Some plants show numerous gene duplications
of MAPKs. Arabidopsis thaliana harbors at least 20
MAPKs, named AtMPK1-20. There are two subtypes of plant
MAPKs based on the conserved phosphorylation motif
present in the activation loop, TEY and TDY. This
subfamily represents the TEY subtype and is further
subdivided into three groups (A, B, and C). Group A is
represented by AtMPK3, AtMPK6, Nicotiana tabacum BTF4
(NtNTF4), among others. They are mostly involved in
environmental and hormonal responses. AtMPK3 and
AtMPK6 are also key regulators for stomatal development
and patterning. Group B is represented by AtMPK4,
AtMPK13, and NtNTF6, among others. They may be involved
in both cell division and environmental stress
response. AtMPK4 also participates in regulating innate
immunity. Group C is represented by AtMPK1, AtMPK2,
NtNTF3, Oryza sativa MAPK4 (OsMAPK4), among others.
They may also be involved in stress responses. AtMPK1
and AtMPK2 are activated following mechanical injury
and in the presence of stress chemicals such as
jasmonic acid, hydrogen peroxide and abscisic acid.
OsMAPK4 is also called OsMSRMK3 for Multiple
Stress-Responsive MAPK3.
Length = 337
Score = 30.8 bits (70), Expect = 0.034
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 23 FEVGPRYTNLAYIGEGAYGMVVS 45
FEV +Y + IG GAYG+V S
Sbjct: 1 FEVDTKYVPIKPIGRGAYGIVCS 23
>gnl|CDD|173743 cd07846, STKc_CDKL2_3, Catalytic domain of the Serine/Threonine
Kinases, Cyclin-Dependent protein Kinase Like 2 and 3.
Serine/Threonine Kinases (STKs), Cyclin-dependent
protein kinase like 2 (CDKL2) and CDKL3 subfamily,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The CDKL2 and CDKL3
subfamily is part of a larger superfamily that includes
the catalytic domains of other protein STKs, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. CDKs belong to a large
family of STKs that are regulated by their cognate
cyclins. Together, they are involved in the control of
cell-cycle progression, transcription, and neuronal
function. CDKL2, also called p56 KKIAMRE, is expressed
in testis, kidney, lung, and brain. It functions mainly
in mature neurons and plays an important role in
learning and memory. Inactivation of CDKL3, also called
NKIAMRE (NKIATRE in rat), by translocation is
associated with mild mental retardation. It has been
reported that CDKL3 is lost in leukemic cells having a
chromosome arm 5q deletion, and may contribute to the
transformed phenotype.
Length = 286
Score = 30.4 bits (69), Expect = 0.043
Identities = 10/17 (58%), Positives = 14/17 (82%)
Query: 28 RYTNLAYIGEGAYGMVV 44
+Y NL +GEG+YGMV+
Sbjct: 2 KYENLGLVGEGSYGMVM 18
>gnl|CDD|143338 cd07833, STKc_CDKL, Catalytic domain of Cyclin-Dependent protein
Kinase Like Serine/Threonine Kinases. Serine/Threonine
Kinases (STKs), Cyclin-dependent protein kinase like
(CDKL) subfamily, catalytic (c) domain. STKs catalyze
the transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
CDKL subfamily is part of a larger superfamily that
includes the catalytic domains of other protein STKs,
protein tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. CDKs belong to a large
family of STKs that are regulated by their cognate
cyclins. Together, they are involved in the control of
cell-cycle progression, transcription, and neuronal
function. This subfamily is composed of CDKL1-5 and
similar proteins. Some CDKLs, like CDKL1 and CDKL3, may
be implicated in transformation and others, like CDKL3
and CDKL5, are associated with mental retardation when
impaired. CDKL2 plays a role in learning and memory.
Length = 288
Score = 30.4 bits (69), Expect = 0.047
Identities = 9/17 (52%), Positives = 13/17 (76%)
Query: 28 RYTNLAYIGEGAYGMVV 44
+Y L +GEGAYG+V+
Sbjct: 2 KYEVLGVVGEGAYGVVL 18
>gnl|CDD|143382 cd07877, STKc_p38alpha_MAPK14, Catalytic domain of the
Serine/Threonine Kinase, p38alpha Mitogen-Activated
Protein Kinase. Serine/Threonine Kinases (STKs),
p38alpha subfamily, catalytic (c) domain. STKs catalyze
the transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
p38alpha subfamily is part of a larger superfamily that
includes the catalytic domains of other protein STKs,
protein tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. p38 kinases are
mitogen-activated protein kinases (MAPKs), serving as
important mediators of cellular responses to
extracellular signals. They are activated by the MAPK
kinases MKK3 and MKK6, which in turn are activated by
upstream MAPK kinase kinases including TAK1, ASK1, and
MLK3, in response to cellular stresses or inflammatory
cytokines. Vertebrates contain four isoforms of p38,
named alpha, beta, gamma, and delta. p38alpha, also
called MAPK14, is expressed in most tissues and is the
major isoform involved in the immune and inflammatory
response. It is the central p38 MAPK involved in
myogenesis. It plays a role in regulating cell cycle
check-point transition and promoting cell
differentiation. p38alpha also regulates cell
proliferation and death through crosstalk with the JNK
pathway. Its substrates include MAPK activated protein
kinase 2 (MK2), MK5, and the transcription factors ATF2
and Mitf.
Length = 345
Score = 30.0 bits (67), Expect = 0.073
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 23 FEVGPRYTNLAYIGEGAYGMVVS 45
+EV RY NL+ +G GAYG V +
Sbjct: 13 WEVPERYQNLSPVGSGAYGSVCA 35
>gnl|CDD|143383 cd07878, STKc_p38beta_MAPK11, Catalytic domain of the
Serine/Threonine Kinase, p38beta Mitogen-Activated
Protein Kinase. Serine/Threonine Kinases (STKs),
p38beta subfamily, catalytic (c) domain. STKs catalyze
the transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
p38beta subfamily is part of a larger superfamily that
includes the catalytic domains of other protein STKs,
protein tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. p38 kinases are
mitogen-activated protein kinases (MAPKs), serving as
important mediators of cellular responses to
extracellular signals. They are activated by the MAPK
kinases MKK3 and MKK6, which in turn are activated by
upstream MAPK kinase kinases including TAK1, ASK1, and
MLK3, in response to cellular stresses or inflammatory
cytokines. Vertebrates contain four isoforms of p38,
named alpha, beta, gamma, and delta. p38beta, also
called MAPK11, is widely expressed in tissues and shows
more similarity with p38alpha than with the other
isoforms. Both are sensitive to pyridinylimidazoles and
share some common substrates such as MAPK activated
protein kinase 2 (MK2) and the transcription factors
ATF2, c-Fos and, ELK-1. p38beta is involved in
regulating the activation of the cyclooxygenase-2
promoter and the expression of TGFbeta-induced
alpha-smooth muscle cell actin.
Length = 343
Score = 29.6 bits (66), Expect = 0.10
Identities = 18/35 (51%), Positives = 21/35 (60%), Gaps = 1/35 (2%)
Query: 23 FEVGPRYTNLAYIGEGAYGMVVSEAPMKKLLQKGA 57
+EV RY NL +G GAYG V S A +L QK A
Sbjct: 11 WEVPERYQNLTPVGSGAYGSVCS-AYDTRLRQKVA 44
>gnl|CDD|143384 cd07879, STKc_p38delta_MAPK13, Catalytic domain of the
Serine/Threonine Kinase, p38delta Mitogen-Activated
Protein Kinase. Serine/Threonine Kinases (STKs),
p38delta subfamily, catalytic (c) domain. STKs catalyze
the transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
p38delta subfamily is part of a larger superfamily that
includes the catalytic domains of other protein STKs,
protein tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. p38 kinases are
mitogen-activated protein kinases (MAPKs), serving as
important mediators of cellular responses to
extracellular signals. They are activated by the MAPK
kinases MKK3 and MKK6, which in turn are activated by
upstream MAPK kinase kinases including TAK1, ASK1, and
MLK3, in response to cellular stresses or inflammatory
cytokines. Vertebrates contain four isoforms of p38,
named alpha, beta, gamma, and delta. p38delta, also
called MAPK13, is found in skeletal muscle, heart,
lung, testis, pancreas, and small intestine. It
regulates microtubule function by phosphorylating Tau.
It activates the c-jun promoter and plays a role in G2
cell cycle arrest. It also controls the degration of
c-Myb, which is associated with myeloid leukemia and
poor prognosis in colorectal cancer. p38delta is the
main isoform involved in regulating the differentiation
and apoptosis of keratinocytes.
Length = 342
Score = 29.5 bits (66), Expect = 0.11
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 23 FEVGPRYTNLAYIGEGAYGMVVS 45
+E+ RYT+L +G GAYG V S
Sbjct: 11 WELPERYTSLKQVGSGAYGSVCS 33
>gnl|CDD|173744 cd07847, STKc_CDKL1_4, Catalytic domain of the Serine/Threonine
Kinases, Cyclin-Dependent protein Kinase Like 1 and 4.
Serine/Threonine Kinases (STKs), Cyclin-dependent
protein kinase like 1 (CDKL1) and CDKL4 subfamily,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The CDKL1 and CDKL4
subfamily is part of a larger superfamily that includes
the catalytic domains of other protein STKs, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. CDKs belong to a large
family of STKs that are regulated by their cognate
cyclins. Together, they are involved in the control of
cell-cycle progression, transcription, and neuronal
function. CDKL1, also called p42 KKIALRE, is a glial
protein that is upregulated in gliosis. It is present
in neuroblastoma and A431 human carcinoma cells, and
may be implicated in neoplastic transformation. The
function of CDKL4 is unknown.
Length = 286
Score = 28.5 bits (64), Expect = 0.26
Identities = 9/16 (56%), Positives = 13/16 (81%)
Query: 28 RYTNLAYIGEGAYGMV 43
+Y L+ IGEG+YG+V
Sbjct: 2 KYEKLSKIGEGSYGVV 17
>gnl|CDD|143385 cd07880, STKc_p38gamma_MAPK12, Catalytic domain of the
Serine/Threonine Kinase, p38gamma Mitogen-Activated
Protein Kinase. Serine/Threonine Kinases (STKs),
p38gamma subfamily, catalytic (c) domain. STKs catalyze
the transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
p38gamma subfamily is part of a larger superfamily that
includes the catalytic domains of other protein STKs,
protein tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. p38 kinases are
mitogen-activated protein kinases (MAPKs), serving as
important mediators of cellular responses to
extracellular signals. They are activated by the MAPK
kinases MKK3 and MKK6, which in turn are activated by
upstream MAPK kinase kinases including TAK1, ASK1, and
MLK3, in response to cellular stresses or inflammatory
cytokines. Vertebrates contain four isoforms of p38,
named alpha, beta, gamma, and delta. p38gamma, also
called MAPK12, is predominantly expressed in skeletal
muscle. Unlike p38alpha and p38beta, p38gamma is
insensitive to pyridinylimidazoles. It displays an
antagonizing function compared to p38alpha. p38gamma
inhibits, while p38alpha stimulates, c-Jun
phosphorylation and AP-1 mediated transcription.
p38gamma also plays a role in the signaling between Ras
and the estrogen receptor and has been implicated to
increase cell invasion and breast cancer progression.
In Xenopus, p38gamma is critical in the meiotic
maturation of oocytes.
Length = 343
Score = 28.0 bits (62), Expect = 0.41
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 23 FEVGPRYTNLAYIGEGAYGMVVS 45
+EV RY +L +G GAYG V S
Sbjct: 11 WEVPDRYRDLKQVGSGAYGTVCS 33
>gnl|CDD|143380 cd07875, STKc_JNK1, Catalytic domain of the Serine/Threonine
Kinase, c-Jun N-terminal Kinase 1. Serine/Threonine
Kinases (STKs), c-Jun N-terminal kinase 1 (JNK1)
subfamily, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
JNK1 subfamily is part of a larger superfamily that
includes the catalytic domains of other protein STKs,
protein tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. JNKs are mitogen-activated
protein kinases (MAPKs) that are involved in many
stress-activated responses including those during
inflammation, neurodegeneration, apoptosis, and
persistent pain sensitization, among others. Vetebrates
harbor three different JNK genes (Jnk1, Jnk2, and
Jnk3). JNK1, like JNK2, is expressed in every cell and
tissue type. Initially it was thought that JNK1 and
JNK2 were functionally redundant as mice deficient in
either genes (Jnk1 or Jnk2) could survive but
disruption of both genes resulted in lethality.
However, recent studies have shown that JNK1 and JNK2
perform distinct functions through specific binding
partners and substrates. JNK1 specifically binds with
JAMP (JNK1-associated membrane protein), which
regulates the duration of JNK1 activity in response to
stimuli. Specific JNK1 substrates include Itch and
SG10, which are implicated in Th2 responses and airway
inflammation, and microtubule dynamics and axodendritic
length, respectively. Mice deficient in Jnk1 are
protected against arthritis, obesity, type 2 diabetes,
cardiac cell death, and non-alcoholic liver disease,
suggesting that JNK1 may play roles in the pathogenesis
of these diseases.
Length = 364
Score = 28.1 bits (62), Expect = 0.41
Identities = 13/24 (54%), Positives = 15/24 (62%)
Query: 22 TFEVGPRYTNLAYIGEGAYGMVVS 45
TF V RY NL IG GA G+V +
Sbjct: 19 TFTVLKRYQNLKPIGSGAQGIVCA 42
>gnl|CDD|143379 cd07874, STKc_JNK3, Catalytic domain of the Serine/Threonine
Kinase, c-Jun N-terminal Kinase 3. Serine/Threonine
Kinases (STKs), c-Jun N-terminal kinase 3 (JNK3)
subfamily, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
JNK3 subfamily is part of a larger superfamily that
includes the catalytic domains of other protein STKs,
protein tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. JNKs are mitogen-activated
protein kinases (MAPKs) that are involved in many
stress-activated responses including those during
inflammation, neurodegeneration, apoptosis, and
persistent pain sensitization, among others. Vetebrates
harbor three different JNK genes (Jnk1, Jnk2, and
Jnk3). JNK3 is expressed primarily in the brain, and to
a lesser extent in the heart and testis. Mice deficient
in Jnk3 are protected against kainic acid-induced
seizures, stroke, sciatic axotomy neural death, and
neuronal death due to NGF deprivation, oxidative
stress, or exposure to beta-amyloid peptide. This
suggests that JNK3 may play roles in the pathogenesis
of these diseases.
Length = 355
Score = 27.7 bits (61), Expect = 0.47
Identities = 14/28 (50%), Positives = 16/28 (57%)
Query: 18 VRGQTFEVGPRYTNLAYIGEGAYGMVVS 45
V TF V RY NL IG GA G+V +
Sbjct: 8 VGDSTFTVLKRYQNLKPIGSGAQGIVCA 35
>gnl|CDD|225929 COG3394, COG3394, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 257
Score = 27.4 bits (61), Expect = 0.70
Identities = 10/49 (20%), Positives = 13/49 (26%), Gaps = 4/49 (8%)
Query: 25 VGPRYTNLAYIGEGA----YGMVVSEAPMKKLLQKGAGTNEQLVLLYMW 69
G + + EG YG VSE L + M
Sbjct: 161 AGELPAGIRSLLEGFLAAFYGEGVSEELFLNHLFSALERLGDPSVEVMC 209
>gnl|CDD|173740 cd07842, STKc_CDK8_like, Catalytic domain of Cyclin-Dependent
protein Kinase 8-like Serine/Threonine Kinases.
Serine/Threonine Kinases (STKs), Cyclin-Dependent
protein Kinase 8 (CDK8)-like subfamily, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The CDK8-like subfamily
is part of a larger superfamily that includes the
catalytic domains of other protein STKs, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. CDKs belong to a large
family of STKs that are regulated by their cognate
cyclins. Together, they are involved in the control of
cell-cycle progression, transcription, and neuronal
function. This subfamily is composed of CDK8, CDC2L6,
and similar proteins. CDK8 functions as a negative or
positive regulator of transcription, depending on the
scenario. Together with its regulator, cyclin C, it
reversibly associates with the multi-subunit core
Mediator complex, a cofactor that is involved in
regulating RNA polymerase II (RNAP II)-dependent
transcription. CDC2L6 also associates with Mediator in
complexes lacking CDK8. In VP16-dependent
transcriptional activation, CDK8 and CDC2L6 exerts
opposing effects by positive and negative regulation,
respectively, in similar conditions.
Length = 316
Score = 27.2 bits (61), Expect = 0.72
Identities = 7/17 (41%), Positives = 8/17 (47%)
Query: 28 RYTNLAYIGEGAYGMVV 44
+Y IG G YG V
Sbjct: 1 KYEIEGCIGRGTYGRVY 17
>gnl|CDD|173739 cd07838, STKc_CDK4_6_like, Catalytic domain of Cyclin-Dependent
protein Kinase 4 and 6-like Serine/Threonine Kinases.
Serine/Threonine Kinases (STKs), Cyclin-dependent
protein kinase 4 (CDK4) and CDK6-like subfamily,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The CDK4/6-like
subfamily is part of a larger superfamily that includes
the catalytic domains of other protein STKs, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. CDKs belong to a large
family of STKs that are regulated by their cognate
cyclins. Together, they are involved in the control of
cell-cycle progression, transcription, and neuronal
function. CDK4 and CDK6 partner with D-type cyclins to
regulate the early G1 phase of the cell cycle. They are
the first kinase activated by mitogenic signals to
release cells from the G0 arrested state. CDK4 and CDK6
are both expressed ubiquitously, associate with all
three D cyclins (D1, D2 and D3), and phosphorylate the
retinoblastoma (pRb) protein. They are also regulated
by the INK4 family of inhibitors which associate with
either the CDK alone or the CDK/cyclin complex. CDK4
and CDK6 show differences in subcellular localization,
sensitivity to some inhibitors, timing in activation,
tumor selectivity, and possibly substrate profiles.
Although CDK4 and CDK6 seem to show some redundancy,
they also have discrete, nonoverlapping functions. CDK6
plays an important role in cell differentiation.
Length = 287
Score = 26.8 bits (60), Expect = 0.96
Identities = 11/15 (73%), Positives = 11/15 (73%)
Query: 29 YTNLAYIGEGAYGMV 43
Y LA IGEGAYG V
Sbjct: 1 YEELAEIGEGAYGTV 15
>gnl|CDD|143381 cd07876, STKc_JNK2, Catalytic domain of the Serine/Threonine
Kinase, c-Jun N-terminal Kinase 2. Serine/Threonine
Kinases (STKs), c-Jun N-terminal kinase 2 (JNK2)
subfamily, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
JNK2 subfamily is part of a larger superfamily that
includes the catalytic domains of other protein STKs,
protein tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. JNKs are mitogen-activated
protein kinases (MAPKs) that are involved in many
stress-activated responses including those during
inflammation, neurodegeneration, apoptosis, and
persistent pain sensitization, among others. Vetebrates
harbor three different JNK genes (Jnk1, Jnk2, and
Jnk3). JNK1, like JNK2, is expressed in every cell and
tissue type. Initially it was thought that JNK1 and
JNK2 were functionally redundant as mice deficient in
either genes (Jnk1 or Jnk2) could survive but
disruption of both genes resulted in lethality.
However, recent studies have shown that JNK1 and JNK2
perform distinct functions through specific binding
partners and substrates. JNK2 is specifically
translocated to the mitochondria during dopaminergic
cell death. Specific substrates include the
microtubule-associated proteins DCX and Tau, as well as
TIF-IA which is involved in ribosomal RNA synthesis
regulation. Mice deficient in Jnk2 show protection
against arthritis, type 1 diabetes, atherosclerosis,
abdominal aortic aneurysm, cardiac cell death,
TNF-induced liver damage, and tumor growth, indicating
that JNK2 may play roles in the pathogenesis of these
diseases.
Length = 359
Score = 26.9 bits (59), Expect = 1.0
Identities = 13/28 (46%), Positives = 15/28 (53%)
Query: 18 VRGQTFEVGPRYTNLAYIGEGAYGMVVS 45
V TF V RY L IG GA G+V +
Sbjct: 12 VADSTFTVLKRYQQLKPIGSGAQGIVCA 39
>gnl|CDD|143346 cd07841, STKc_CDK7, Catalytic domain of the Serine/Threonine
Kinase, Cyclin-Dependent protein Kinase 7.
Serine/Threonine Kinases (STKs), Cyclin-Dependent
protein Kinase 7 (CDK7) subfamily, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The CDK7 subfamily is
part of a larger superfamily that includes the
catalytic domains of other protein STKs, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. CDKs belong to a large
family of STKs that are regulated by their cognate
cyclins. Together, they are involved in the control of
cell-cycle progression, transcription, and neuronal
function. CDK7 plays essential roles in the cell cycle
and in transcription. It associates with cyclin H and
MAT1 and acts as a CDK-Activating Kinase (CAK) by
phosphorylating and activating cell cycle CDKs
(CDK1/2/4/6). In the brain, it activates CDK5. CDK7 is
also a component of the general transcription factor
TFIIH, which phosphorylates the C-terminal domain (CTD)
of RNA polymerase II when it is bound with
unphosphorylated DNA, as present in the pre-initiation
complex. Following phosphorylation, the CTD dissociates
from the DNA which allows transcription initiation.
Length = 298
Score = 26.4 bits (59), Expect = 1.2
Identities = 7/16 (43%), Positives = 9/16 (56%)
Query: 28 RYTNLAYIGEGAYGMV 43
RY +GEG Y +V
Sbjct: 1 RYEKGKKLGEGTYAVV 16
>gnl|CDD|173747 cd07852, STKc_MAPK15, Catalytic domain of the Serine/Threonine
Kinase, Mitogen-Activated Protein Kinase 15.
Serine/Threonine Kinases (STKs), Mitogen-Activated
Protein Kinase 15 (MAPK15) subfamily, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The MAPK15 subfamily is
part of a larger superfamily that includes the
catalytic domains of other protein STKs, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. MAPKs are important
mediators of cellular responses to extracellular
signals. Human MAPK15 is also called Extracellular
signal Regulated Kinase 8 (ERK8) while the rat protein
is called ERK7. ERK7 and ERK8 display both similar and
different biochemical properties. They
autophosphorylate and activate themselves and do not
require upstream activating kinases. ERK7 is
constitutively active and is not affected by
extracellular stimuli whereas ERK8 shows low basal
activity and is activated by DNA-damaging agents. ERK7
and ERK8 also have different substrate profiles. Genome
analysis shows that they are orthologs with similar
gene structures. ERK7 and ERK 8 may be involved in the
signaling of some nuclear receptor transcription
factors. ERK7 regulates hormone-dependent degradation
of estrogen receptor alpha while ERK8 down-regulates
the transcriptional co-activation androgen and
glucocorticoid receptors.
Length = 337
Score = 26.4 bits (59), Expect = 1.4
Identities = 8/16 (50%), Positives = 12/16 (75%)
Query: 28 RYTNLAYIGEGAYGMV 43
+Y L +G+GAYG+V
Sbjct: 8 KYEILQKLGKGAYGIV 23
>gnl|CDD|143364 cd07859, STKc_TDY_MAPK_plant, Catalytic domain of the
Serine/Threonine Kinases, TDY Mitogen-Activated Protein
Kinases from Plants. Serine/Threonine Kinases (STKs),
Plant TDY Mitogen-Activated Protein Kinase (MAPK)
subfamily, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
TDY MAPK subfamily is part of a larger superfamily that
includes the catalytic domains of other protein STKs,
protein tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. MAPKs are important
mediators of cellular responses to extracellular
signals. In plants, MAPKs are associated with
physiological, developmental, hormonal, and stress
responses. Some plants show numerous gene duplications
of MAPKs. Arabidopsis thaliana harbors at least 20
MAPKs, named AtMPK1-20. Oryza sativa contains at least
17 MAPKs. There are two subtypes of plant MAPKs based
on the conserved phosphorylation motif present in the
activation loop, TEY and TDY. Arabidopsis thaliana
contains more TEY-type MAPKs than TDY-type, whereas the
reverse is true for Oryza sativa. This subfamily
represents the TDY subtype and is composed of Group D
plant MAPKs including Arabidopsis thaliana MPK18
(AtMPK18), Oryza sativa Blast- and Wound-induced MAPK1
(OsBWMK1), OsWJUMK1 (Wound- and JA-Uninducible MAPK1),
Zea mays MPK6, and the Medicago sativa TDY1 gene
product. OsBWMK1 enhances resistance to pathogenic
infections. It mediates stress-activated defense
responses by activating a transcription factor that
affects the expression of stress-related genes. AtMPK18
is involved in microtubule-related functions.
Length = 338
Score = 26.3 bits (58), Expect = 1.7
Identities = 9/18 (50%), Positives = 12/18 (66%)
Query: 28 RYTNLAYIGEGAYGMVVS 45
RY IG+G+YG+V S
Sbjct: 1 RYKIQEVIGKGSYGVVCS 18
>gnl|CDD|173733 cd07829, STKc_CDK_like, Catalytic domain of Cyclin-Dependent
protein Kinase-like Serine/Threonine Kinases.
Serine/Threonine Kinases (STKs), Cyclin-Dependent
protein Kinase (CDK)-like subfamily, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The CDK-like subfamily
is part of a larger superfamily that includes the
catalytic domains of other protein STKs, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. CDKs belong to a large
family of STKs that are regulated by their cognate
cyclins. Together, they are involved in the control of
cell-cycle progression, transcription, and neuronal
function. CDKs are partly regulated by their
subcellular localization, which defines substrate
phosphorylation and the resulting specific function.
CDK1, CDK2, CDK4, and CDK6 have well-defined functions
in the cell cycle, such as the regulation of the early
G1 phase by CDK4 or CDK6, the G1/S phase transition by
CDK2, or the entry of mitosis by CDK1. They also
exhibit overlapping cyclin specificity and functions in
certain conditions. Knockout mice with a single CDK
deleted remain viable with specific phenotypes, showing
that some CDKs can compensate for each other. For
example, CDK4 can compensate for the loss of CDK6,
however, double knockout mice with both CDK4 and CDK6
deleted die in utero. CDK8 and CDK9 are mainly involved
in transcription while CDK5 is implicated in neuronal
function. CDK7 plays essential roles in both the cell
cycle as a CDK-Activating Kinase (CAK) and in
transcription as a component of the general
transcription factor TFIIH.
Length = 282
Score = 25.9 bits (58), Expect = 1.8
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 29 YTNLAYIGEGAYGMV 43
Y L +GEG YG+V
Sbjct: 1 YEKLEKLGEGTYGVV 15
>gnl|CDD|143359 cd07854, STKc_MAPK4_6, Catalytic domain of the Serine/Threonine
Kinases, Mitogen-Activated Protein Kinases 4 and 6.
Serine/Threonine Kinases (STKs), Mitogen-Activated
Protein Kinase 4 (MAPK4) and MAPK6 subfamily, catalytic
(c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The MAPK4/6 subfamily
is part of a larger superfamily that includes the
catalytic domains of other protein STKs, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. MAPKs are important
mediators of cellular responses to extracellular
signals. MAPK4 is also called ERK4 or p63MAPK, while
MAPK6 is also called ERK3 or p97MAPK. MAPK4 and MAPK6
are atypical MAPKs that are not regulated by MAP2Ks.
MAPK6 is expressed ubiquitously with highest amounts in
brain and skeletal muscle. It may be involved in the
control of cell differentiation by negatively
regulating cell cycle progression in certain
conditions. It may also play a role in glucose-induced
insulin secretion. MAPK6 and MAPK4 cooperate to
regulate the activity of MAPK-activated protein kinase
5 (MK5), leading to its relocation to the cytoplasm and
exclusion from the nucleus. The MAPK6/MK5 and MAPK4/MK5
pathways may play critical roles in embryonic and
post-natal development.
Length = 342
Score = 25.5 bits (56), Expect = 3.0
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 23 FEVGPRYTNLAYIGEGAYGMVVS 45
F++G RY +L +G G+ G+V S
Sbjct: 1 FDLGSRYMDLRPLGCGSNGLVFS 23
>gnl|CDD|173736 cd07832, STKc_CCRK, Catalytic domain of the Serine/Threonine
Kinase, Cell Cycle-Related Kinase. Serine/Threonine
Kinases (STKs), Cell Cycle-Related Kinase (CCRK) p42
subfamily, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
CCRK subfamily is part of a larger superfamily that
includes the catalytic domains of other protein STKs,
protein tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. CCRK was previously called
p42. It is a Cyclin-Dependent Kinase (CDK)-Activating
Kinase (CAK) which is essential for the activation of
CDK2. It is indispensable for cell growth and has been
implicated in the progression of glioblastoma
multiforme. In the heart, a splice variant of CCRK with
a different C-terminal half is expressed, this variant
promotes cardiac cell growth and survival and is
significantly down-regulated during the development of
heart failure.
Length = 286
Score = 25.3 bits (56), Expect = 3.3
Identities = 10/18 (55%), Positives = 12/18 (66%)
Query: 28 RYTNLAYIGEGAYGMVVS 45
RY L IGEGA+G+V
Sbjct: 1 RYKILGRIGEGAHGIVFK 18
>gnl|CDD|233710 TIGR02074, PBP_1a_fam, penicillin-binding protein, 1A family.
Bacterial that synthesize a cell wall of peptidoglycan
(murein) generally have several transglycosylases and
transpeptidases for the task. This family consists of
bifunctional transglycosylase/transpeptidase
penicillin-binding proteins (PBP). In the
Proteobacteria, this family includes PBP 1A but not the
paralogous PBP 1B (TIGR02071). This family also includes
related proteins, often designated PBP 1A, from other
bacterial lineages [Cell envelope, Biosynthesis and
degradation of murein sacculus and peptidoglycan].
Length = 531
Score = 24.9 bits (55), Expect = 4.1
Identities = 8/15 (53%), Positives = 9/15 (60%)
Query: 28 RYTNLAYIGEGAYGM 42
Y N Y G GAYG+
Sbjct: 98 LYLNRIYFGNGAYGI 112
>gnl|CDD|211932 TIGR04209, sarcinarray, sarcinarray family protein. Members of
this protein family are exclusive to archaea, probably
all of which have S-layer surface protein arrays. All
member proteins have an N-terminal signal sequence. The
majority of known members belong to codirectional tandem
arrays in the genus Methanosarcina (nine in M. barkeri
str. Fusaro). Nearly all members have an additional 50
residues, (trimmed from the seed alignment for This
model), consisting of low-complexity sequence rich in
E,N,Q,T,S, and P, followed by a variant (PAF) form of
the PGF-CTERM putative archaeal surface glycoprotein
sorting signal. The coined name, sarcinarray family
protein, evokes the predicted archaeal surface layer
localization, the taxonomic bias of known members, and
the tandem organization of most members.
Length = 144
Score = 25.0 bits (55), Expect = 4.2
Identities = 10/46 (21%), Positives = 21/46 (45%), Gaps = 2/46 (4%)
Query: 29 YTNLAYIGEGAYGMVVSEAPMKKLLQKGAGTNEQLVLLYMWWISPT 74
L+ +G G++ ++ +PM + NE + W ++PT
Sbjct: 58 SVKLSELGGGSFEIISGPSPMNIYSSRILEKNETHT--FEWTVAPT 101
>gnl|CDD|173738 cd07835, STKc_CDK1_like, Catalytic domain of Cyclin-Dependent
protein Kinase 1-like Serine/Threonine Kinases.
Serine/Threonine Kinases (STKs), Cyclin-Dependent
protein Kinase 1 (CDK1)-like subfamily, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The CDK1 subfamily is
part of a larger superfamily that includes the
catalytic domains of other protein STKs, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. CDKs belong to a large
family of STKs that are regulated by their cognate
cyclins. Together, they are involved in the control of
cell-cycle progression, transcription, and neuronal
function. This subfamily is composed of CDK1 from
higher eukaryotes, plants, and yeasts, as well as CDK2
and CDK3. CDK1 is also called Cell division control
protein 2 (Cdc2) or p34 protein kinase, and is
regulated by cyclins A, B, and E. The CDK1/cyclin A
complex controls G2 phase entry and progression while
the CDK1/cyclin B complex is critical for G2 to M phase
transition. CDK2 is regulated by cyclin E or cyclin A.
Upon activation by cyclin E, it phosphorylates the
retinoblastoma (pRb) protein which activates E2F
mediated transcription and allows cells to move into S
phase. The CDK2/cyclin A complex plays a role in
regulating DNA replication. Studies in knockout mice
revealed that CDK1 can compensate for the loss of the
cdk2 gene as it can also bind cyclin E and drive G1 to
S phase transition. CDK3 is regulated by cyclin C and
it phosphorylates pRB specifically during the G0/G1
transition. This phosphorylation is required for cells
to exit G0 efficiently and enter the G1 phase.
Length = 283
Score = 25.0 bits (55), Expect = 4.6
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 29 YTNLAYIGEGAYGMV 43
Y + IGEG YG+V
Sbjct: 1 YQKVEKIGEGTYGVV 15
>gnl|CDD|173845 cd01156, IVD, Isovaleryl-CoA dehydrogenase. Isovaleryl-CoA
dehydrogenase (IVD) is an is an acyl-CoA dehydrogenase,
which catalyzes the third step in leucine catabolism,
the conversion of isovaleryl-CoA (3-methylbutyryl-CoA)
into 3-methylcrotonyl-CoA. IVD is a homotetramer and has
the greatest affinity for small branched chain
substrates.
Length = 376
Score = 24.7 bits (54), Expect = 5.3
Identities = 11/28 (39%), Positives = 17/28 (60%), Gaps = 3/28 (10%)
Query: 34 YIGEGAYGMVVSEAPMKKLLQKGAGTNE 61
YI + G ++ +A KL + GAGT+E
Sbjct: 340 YINDYPTGRLLRDA---KLYEIGAGTSE 364
>gnl|CDD|173752 cd07861, STKc_CDK1_euk, Catalytic domain of the Serine/Threonine
Kinase, Cyclin-Dependent protein Kinase 1 from higher
eukaryotes-like. Serine/Threonine Kinases (STKs),
Cyclin-Dependent protein Kinase 1 (CDK1) subfamily,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The CDK1 subfamily is
part of a larger superfamily that includes the
catalytic domains of other protein STKs, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. CDKs belong to a large
family of STKs that are regulated by their cognate
cyclins. Together, they are involved in the control of
cell-cycle progression, transcription, and neuronal
function. This subfamily is composed of CDK1 from
higher eukaryotes. CDK1 is also called Cell division
control protein 2 (Cdc2) or p34 protein kinase, and is
regulated by cyclins A, B, and E. The CDK1/cyclin A
complex controls G2 phase entry and progression.
CDK1/cyclin A2 has also been implicated as an important
regulator of S phase events. The CDK1/cyclin B complex
is critical for G2 to M phase transition. It induces
mitosis by activating nuclear enzymes that regulate
chromatin condensation, nuclear membrane degradation,
mitosis-specific microtubule and cytoskeletal
reorganization. CDK1 also associates with cyclin E and
plays a role in the entry into S phase. CDK1
transcription is stable throughout the cell cycle but
is modulated in some pathological conditions. It may
play a role in regulating apoptosis under these
conditions. In breast cancer cells, HER2 can mediate
apoptosis by inactivating CDK1. Activation of CDK1 may
contribute to HIV-1 induced apoptosis and neuronal
apoptosis in neurodegenerative diseases.
Length = 285
Score = 24.7 bits (54), Expect = 5.6
Identities = 9/15 (60%), Positives = 11/15 (73%)
Query: 29 YTNLAYIGEGAYGMV 43
YT + IGEG YG+V
Sbjct: 2 YTKIEKIGEGTYGVV 16
>gnl|CDD|143345 cd07840, STKc_CDK9_like, Catalytic domain of Cyclin-Dependent
protein Kinase 9-like Serine/Threonine Kinases.
Serine/Threonine Kinases (STKs), Cyclin-Dependent
protein Kinase 9 (CDK9)-like subfamily, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The CDK9-like subfamily
is part of a larger superfamily that includes the
catalytic domains of other protein STKs, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. CDKs belong to a large
family of STKs that are regulated by their cognate
cyclins. Together, they are involved in the control of
cell-cycle progression, transcription, and neuronal
function. This subfamily is composed of CDK9 and CDK12
from higher eukaryotes, yeast BUR1, C-type plant CDKs
(CdkC), and similar proteins. CDK9, BUR1, and CdkC are
functionally equivalent. They act as a kinase for the
C-terminal domain of RNA polymerase II and participate
in regulating mutliple steps of gene expression
including transcription elongation and RNA processing.
CDK9 and CdkC associate with T-type cyclins while BUR1
associates with the cyclin BUR2. CDK12 is a unique CDK
that contains an arginine/serine-rich (RS) domain,
which is predominantly found in splicing factors. CDK12
interacts with cyclins L1 and L2, and participates in
regulating transcription and alternative splicing.
Length = 287
Score = 24.4 bits (54), Expect = 7.4
Identities = 9/15 (60%), Positives = 10/15 (66%)
Query: 29 YTNLAYIGEGAYGMV 43
Y +A IGEG YG V
Sbjct: 1 YEKIAQIGEGTYGQV 15
>gnl|CDD|218697 pfam05694, SBP56, 56kDa selenium binding protein (SBP56). This
family consists of several eukaryotic selenium binding
proteins as well as three sequences from archaea. The
exact function of this protein is unknown although it is
thought that SBP56 participates in late stages of
intra-Golgi protein transport. The Lotus japonicus
homologue of SBP56, LjSBP is thought to have more than
one physiological role and can be implicated in
controlling the oxidation/reduction status of target
proteins, in vesicular Golgi transport.
Length = 461
Score = 24.5 bits (54), Expect = 7.5
Identities = 11/25 (44%), Positives = 14/25 (56%)
Query: 1 MSAEGGAGGTLAGNAELVRGQTFEV 25
+SA G A G G L+ +TFEV
Sbjct: 145 ISALGDADGNGPGGFLLLDHETFEV 169
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
0.315 0.133 0.397
Gapped
Lambda K H
0.267 0.0748 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,777,842
Number of extensions: 285672
Number of successful extensions: 232
Number of sequences better than 10.0: 1
Number of HSP's gapped: 232
Number of HSP's successfully gapped: 37
Length of query: 77
Length of database: 10,937,602
Length adjustment: 46
Effective length of query: 31
Effective length of database: 8,897,318
Effective search space: 275816858
Effective search space used: 275816858
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: 42 (22.0 bits)
S2: 53 (24.2 bits)