RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8984
(72 letters)
>gnl|CDD|173623 cd00180, PKc, Catalytic domain of Protein Kinases. Protein
Kinases (PKs), catalytic (c) domain. PKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine or tyrosine residues on protein
substrates. The PK family is part of a larger
superfamily that includes the catalytic domains of RIO
kinases, aminoglycoside phosphotransferase, choline
kinase, phosphoinositide 3-kinase (PI3K), and
actin-fragmin kinase. PKs make up a large family of
serine/threonine kinases, protein tyrosine kinases
(PTKs), and dual-specificity PKs that phosphorylate
both serine/threonine and tyrosine residues of target
proteins. Majority of protein phosphorylation, about
95%, occurs on serine residues while only 1% occurs on
tyrosine residues. Protein phosphorylation is a
mechanism by which a wide variety of cellular proteins,
such as enzymes and membrane channels, are reversibly
regulated in response to certain stimuli. PKs often
function as components of signal transduction pathways
in which one kinase activates a second kinase, which in
turn, may act on other kinases; this sequential action
transmits a signal from the cell surface to target
proteins, which results in cellular responses. The PK
family is one of the largest known protein families
with more than 100 homologous yeast enzymes and 550
human proteins. A fraction of PK family members are
pseudokinases that lack crucial residues for catalytic
activity. The mutiplicity of kinases allows for
specific regulation according to substrate, tissue
distribution, and cellular localization. PKs regulate
many cellular processes including proliferation,
division, differentiation, motility, survival,
metabolism, cell-cycle progression, cytoskeletal
rearrangement, immunity, and neuronal functions. Many
kinases are implicated in the development of various
human diseases including different types of cancer.
Length = 215
Score = 36.8 bits (86), Expect = 2e-04
Identities = 14/56 (25%), Positives = 28/56 (50%), Gaps = 3/56 (5%)
Query: 1 MDTEEGVEVVWNEVQFSERKNFKAQEEKIQQVFENLTQLEHPNIVKFHRYWTDTHN 56
D + G +V ++ + + E++ + E L +L HPNIVK + + D ++
Sbjct: 13 RDKKTGKKVAIKIIKKEDSSSLL---EELLREIEILKKLNHPNIVKLYGVFEDENH 65
>gnl|CDD|173755 cd08215, STKc_Nek, Catalytic domain of the Protein
Serine/Threonine Kinase, Never In Mitosis gene
A-related kinase. Serine/Threonine Kinases (STKs),
Never In Mitosis gene A (NIMA)-related kinase (Nek)
family, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
Nek 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 Nek family is composed
of 11 different mammalian members (Nek1-11) with
similarity to the catalytic domain of Aspergillus
nidulans NIMA kinase, the founding member of the Nek
family which was identified in a screen for cell cycle
mutants that were prevented from entering mitosis. Neks
contain a conserved N-terminal catalytic domain and a
more divergent C-terminal regulatory region of various
sizes and structures. They are involved in the
regulation of downstream processes following the
activation of Cdc2, and many of their functions are
cell cycle-related. They play critical roles in
microtubule dynamics during ciliogenesis and mitosis.
Length = 258
Score = 33.2 bits (77), Expect = 0.004
Identities = 14/47 (29%), Positives = 26/47 (55%), Gaps = 2/47 (4%)
Query: 2 DTEEGVEVVWNEVQFSERKNFKAQEEKIQQVFENLTQLEHPNIVKFH 48
+G V E+ S + K +E+ + +V + L +L HPNI+K++
Sbjct: 21 RKSDGKLYVLKEIDLSNM-SEKEREDALNEV-KILKKLNHPNIIKYY 65
>gnl|CDD|173663 cd05572, STKc_cGK_PKG, Catalytic domain of the Protein
Serine/Threonine Kinase, cGMP-dependent protein kinase.
Serine/Threonine Kinases (STKs), cGMP-dependent
protein kinase (cGK or PKG) subfamily, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The cGK 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. Mammals have two cGK
isoforms from different genes, cGKI and cGKII. cGKI
exists as two splice variants, cGKI-alpha and
cGKI-beta. cGK consists of an N-terminal regulatory
domain containing a dimerization and an autoinhibitory
pseudosubstrate region, two cGMP-binding domains, and a
C-terminal catalytic domain. Binding of cGMP to both
binding sites releases the inhibition of the catalytic
center by the pseudosubstrate region, allowing
autophosphorylation and activation of the kinase. cGKI
is a soluble protein expressed in all smooth muscles,
platelets, cerebellum, and kidney. It is also expressed
at lower concentrations in other tissues. cGKII is a
membrane-bound protein that is most abundantly
expressed in the intestine. It is also present in the
brain nuclei, adrenal cortex, kidney, lung, and
prostate. cGKI is involved in the regulation of smooth
muscle tone, smooth cell proliferation, and platelet
activation. cGKII plays a role in the regulation of
secretion, such as renin secretion by the kidney and
aldosterone secretion by the adrenal. It also regulates
bone growth and the circadian rhythm.
Length = 262
Score = 32.2 bits (74), Expect = 0.011
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 25 QEEKIQQVFENLTQLEHPNIVKFHRYWTDT 54
Q+E I E L + HP IVK +R + D
Sbjct: 36 QQEHIFSEKEILEECNHPFIVKLYRTFKDK 65
>gnl|CDD|173769 cd08229, STKc_Nek7, Catalytic domain of the Protein
Serine/Threonine Kinase, Never In Mitosis gene
A-related kinase 7. Serine/Threonine Kinases (STKs),
Never In Mitosis gene A (NIMA)-related kinase 7 (Nek7)
subfamily, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
Nek7 subfamily is one of a family of 11 different Neks
(Nek1-11) that are involved in cell cycle control. The
Nek 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. Nek7 is required for mitotic
spindle formation and cytokinesis. It is enriched in
the centrosome and is critical for microtubule
nucleation. Nek7 is activated by Nek9 during mitosis,
and may regulate the p70 ribosomal S6 kinase.
Length = 267
Score = 31.9 bits (72), Expect = 0.013
Identities = 15/44 (34%), Positives = 29/44 (65%), Gaps = 1/44 (2%)
Query: 5 EGVEVVWNEVQFSERKNFKAQEEKIQQVFENLTQLEHPNIVKFH 48
+GV V +VQ + + KA+ + I+++ + L QL HPN++K++
Sbjct: 26 DGVPVALKKVQIFDLMDAKARADCIKEI-DLLKQLNHPNVIKYY 68
>gnl|CDD|173761 cd08221, STKc_Nek9, Catalytic domain of the Protein
Serine/Threonine Kinase, Never In Mitosis gene
A-related kinase 9. Serine/Threonine Kinases (STKs),
Never In Mitosis gene A (NIMA)-related kinase 9 (Nek9)
subfamily, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
Nek9 subfamily is one of a family of 11 different Neks
(Nek1-11) that are involved in cell cycle control. The
Nek 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. Nek9, also called Nercc1, is
primarily a cytoplasmic protein but can also localize
in the nucleus. It is involved in modulating chromosome
alignment and splitting during mitosis. It interacts
with the gamma-tubulin ring complex and the Ran GTPase,
and is implicated in microtubule organization. Nek9
associates with FACT (FAcilitates Chromatin
Transcription) and modulates interphase progression. It
also interacts with Nek6, and Nek7, during mitosis,
resulting in their activation.
Length = 256
Score = 31.6 bits (72), Expect = 0.017
Identities = 18/54 (33%), Positives = 29/54 (53%), Gaps = 8/54 (14%)
Query: 3 TEEGVEVVWNEV---QFSERKNFKAQEEKIQQVFENLTQLEHPNIVKFHRYWTD 53
TE+ VVW EV + SE++ A E L+ L+HPNI+ ++ ++ D
Sbjct: 22 TEDDSLVVWKEVNLTRLSEKERRDALNE-----IVILSLLQHPNIIAYYNHFMD 70
>gnl|CDD|173731 cd06627, STKc_Cdc7_like, Catalytic domain of Cell division
control protein 7-like Protein Serine/Threonine
Kinases. Serine/threonine kinases (STKs), (Cdc7)-like
subfamily, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
Cdc7-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. Members of this subfamily
include Schizosaccharomyces pombe Cdc7, Saccharomyces
cerevisiae Cdc15, Arabidopsis thaliana
mitogen-activated protein kinase (MAPK) kinase kinase
(MAPKKK) epsilon, and related proteins. MAPKKKs
phosphorylate and activate MAPK kinases (MAPKKs or MKKs
or MAP2Ks), which in turn phosphorylate and activate
MAPKs during signaling cascades that are important in
mediating cellular responses to extracellular signals.
Fission yeast Cdc7 is essential for cell division by
playing a key role in the initiation of septum
formation and cytokinesis. Budding yeast Cdc15
functions to coordinate mitotic exit with cytokinesis.
Arabidopsis MAPKKK epsilon is required for pollen
development in the plasma membrane.
Length = 254
Score = 31.1 bits (71), Expect = 0.022
Identities = 13/34 (38%), Positives = 18/34 (52%)
Query: 15 QFSERKNFKAQEEKIQQVFENLTQLEHPNIVKFH 48
Q S K + + I Q + L L+HPNIVK+
Sbjct: 32 QISLEKIKEEALKSIMQEIDLLKNLKHPNIVKYI 65
>gnl|CDD|132957 cd06626, STKc_MEKK4, Catalytic domain of the Protein
Serine/Threonine Kinase, MAP/ERK kinase kinase 4.
Serine/threonine kinases (STKs), MAP/ERK kinase kinase
4 (MEKK4) subfamily, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group
from ATP to serine/threonine residues on protein
substrates. The MEKK4 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. MEKK4 is a
mitogen-activated protein kinase (MAPK) kinase kinase
(MAPKKK or MKKK or MAP3K), that phosphorylates and
activates MAPK kinases (MAPKKs or MKKs or MAP2Ks),
which in turn phosphorylate and activate MAPKs during
signaling cascades that are important in mediating
cellular responses to extracellular signals. MEKK4
activates the c-Jun N-terminal kinase (JNK) and p38
MAPK signaling pathways by directly activating their
respective MAPKKs, MKK4/MKK7 and MKK3/MKK6. JNK and p38
are collectively known as stress-activated MAPKs, as
they are activated in response to a variety of
environmental stresses and pro-inflammatory cytokines.
MEKK4 also plays roles in the re-polarization of the
actin cytoskeleton in response to osmotic stress, in
the proper closure of the neural tube, in
cardiovascular development, and in immune responses.
Length = 264
Score = 30.4 bits (69), Expect = 0.038
Identities = 10/34 (29%), Positives = 20/34 (58%), Gaps = 4/34 (11%)
Query: 15 QFSERKNFKAQEEKIQQVFENLTQLEHPNIVKFH 48
Q ++ K K +++ + L L+HPN+VK++
Sbjct: 36 QDNDPKTIKEIADEM----KVLELLKHPNLVKYY 65
>gnl|CDD|173764 cd08224, STKc_Nek6_Nek7, Catalytic domain of the Protein
Serine/Threonine Kinases, Never In Mitosis gene
A-related kinase 6 and 7. Serine/Threonine Kinases
(STKs), Never In Mitosis gene A (NIMA)-related kinase 6
(Nek6) and Nek7 subfamily, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group
from ATP to serine/threonine residues on protein
substrates. The Nek6/7 subfamily is part of a family of
11 different Neks (Nek1-11) that are involved in cell
cycle control. The Nek 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. Nek6 and Nek7
are the shortest Neks, consisting only of the catalytic
domain and a very short N-terminal extension. They show
distinct expression patterns and both appear to be
downstream substrates of Nek9. They are required for
mitotic spindle formation and cytokinesis. They may
also be regulators of the p70 ribosomal S6 kinase.
Length = 267
Score = 30.5 bits (69), Expect = 0.047
Identities = 14/47 (29%), Positives = 30/47 (63%), Gaps = 1/47 (2%)
Query: 1 MDTEEGVEVVWNEVQFSERKNFKAQEEKIQQVFENLTQLEHPNIVKF 47
+ +G V +VQ E + KA+++ ++++ + L QL+HPN++K+
Sbjct: 22 ICLLDGRVVALKKVQIFEMMDAKARQDCLKEI-DLLKQLDHPNVIKY 67
>gnl|CDD|173770 cd08528, STKc_Nek10, Catalytic domain of the Protein
Serine/Threonine Kinase, Never In Mitosis gene
A-related kinase 10. Serine/Threonine Kinases (STKs),
Never In Mitosis gene A (NIMA)-related kinase 10
(Nek10) subfamily, catalytic (c) domain. STKs catalyze
the transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
Nek10 subfamily is one of a family of 11 different Neks
(Nek1-11) that are involved in cell cycle control. The
Nek 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. No function has yet been
ascribed to Nek10. The gene encoding Nek10 is a
putative causative gene for breast cancer; it is
located within a breast cancer susceptibility loci on
chromosome 3p24.
Length = 269
Score = 30.2 bits (68), Expect = 0.049
Identities = 10/41 (24%), Positives = 23/41 (56%), Gaps = 4/41 (9%)
Query: 19 RKNFKAQEEKIQQVFENLT----QLEHPNIVKFHRYWTDTH 55
K+ + +++ I + +T QL HPNIV++++ + +
Sbjct: 42 GKDKRERDKSIGDIVSEVTIIKEQLRHPNIVRYYKTFLEND 82
>gnl|CDD|173757 cd08217, STKc_Nek2, Catalytic domain of the Protein
Serine/Threonine Kinase, Never In Mitosis gene
A-related kinase 2. Serine/Threonine Kinases (STKs),
Never In Mitosis gene A (NIMA)-related kinase 2 (Nek2)
subfamily, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
Nek2 subfamily is one of a family of 11 different Neks
(Nek1-11) that are involved in cell cycle control. The
Nek 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 Nek2 subfamily includes
Aspergillus nidulans NIMA kinase, the founding member
of the Nek family, which was identified in a screen for
cell cycle mutants prevented from entering mitosis.
NIMA is essential for mitotic entry and progression
through mitosis, and its degradation is essential for
mitotic exit. NIMA is involved in nuclear membrane
fission. Vertebrate Nek2 is a cell cycle-regulated STK,
localized in centrosomes and kinetochores, that
regulates centrosome splitting at the G2/M phase. It
also interacts with other mitotic kinases such as
Polo-like kinase 1 and may play a role in spindle
checkpoint. An increase in the expression of the human
NEK2 gene is strongly associated with the progression
of non-Hodgkin lymphoma.
Length = 265
Score = 29.9 bits (68), Expect = 0.065
Identities = 17/46 (36%), Positives = 26/46 (56%), Gaps = 6/46 (13%)
Query: 6 GVEVVWNEVQFSERKNFKAQEEKIQQVFE-N-LTQLEHPNIVKFHR 49
G +VW E+ + +EK Q V E N L +L+HPNIV+++
Sbjct: 25 GKILVWKEIDYGNMTE----KEKQQLVSEVNILRELKHPNIVRYYD 66
>gnl|CDD|173724 cd06606, STKc_MAPKKK, Catalytic domain of the Protein
Serine/Threonine Kinase, Mitogen-Activated Protein
Kinase Kinase Kinase. Serine/threonine kinases (STKs),
mitogen-activated protein kinase (MAPK) kinase kinase
(MAPKKK) subfamily, catalytic (c) domain. STKs catalyze
the transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
MAPKKK 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. MAPKKKs (MKKKs or MAP3Ks)
are also called MAP/ERK kinase kinases (MEKKs) in some
cases. They phosphorylate and activate MAPK kinases
(MAPKKs or MKKs or MAP2Ks), which in turn phosphorylate
and activate MAPKs during signaling cascades that are
important in mediating cellular responses to
extracellular signals. This subfamily is composed of
the Apoptosis Signal-regulating Kinases ASK1 (or
MAPKKK5) and ASK2 (or MAPKKK6), MEKK1, MEKK2, MEKK3,
MEKK4, as well as plant and fungal MAPKKKs. Also
included in this subfamily are the cell division
control proteins Schizosaccharomyces pombe Cdc7 and
Saccharomyces cerevisiae Cdc15.
Length = 260
Score = 29.4 bits (67), Expect = 0.087
Identities = 14/58 (24%), Positives = 31/58 (53%), Gaps = 4/58 (6%)
Query: 1 MDTEEGVEVVWNEVQFSERKNFKAQEEKIQQVFENLTQLEHPNIVKFHRYWTDTHNDK 58
+D + G + V+ S + + + E +++ L+ L+HPNIV++ Y ++ +K
Sbjct: 20 LDKDTGELMAVKSVELSG--DSEEELEALEREIRILSSLQHPNIVRY--YGSERDEEK 73
>gnl|CDD|173763 cd08223, STKc_Nek4, Catalytic domain of the Protein
Serine/Threonine Kinase, Never In Mitosis gene
A-related kinase 4. Serine/Threonine Kinases (STKs),
Never In Mitosis gene A (NIMA)-related kinase 4 (Nek4)
subfamily, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
Nek4 subfamily is one of a family of 11 different Neks
(Nek1-11). The Nek 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. Neks are
involved in the regulation of downstream processes
following the activation of Cdc2, and many of their
functions are cell cycle-related. They play critical
roles in microtubule dynamics during ciliogenesis and
mitosis. Nek4 is highly abundant in the testis. Its
specific function is unknown.
Length = 257
Score = 29.2 bits (65), Expect = 0.11
Identities = 14/38 (36%), Positives = 23/38 (60%), Gaps = 4/38 (10%)
Query: 14 VQFSERKNFKAQEEKIQQVFENLTQLEHPNIVKFHRYW 51
++ + R+ KA E++ Q L+QL+HPNIV + W
Sbjct: 35 LRNASRRERKAAEQEAQL----LSQLKHPNIVAYRESW 68
>gnl|CDD|214567 smart00220, S_TKc, Serine/Threonine protein kinases, catalytic
domain. Phosphotransferases. Serine or
threonine-specific kinase subfamily.
Length = 254
Score = 29.0 bits (66), Expect = 0.11
Identities = 12/38 (31%), Positives = 21/38 (55%)
Query: 19 RKNFKAQEEKIQQVFENLTQLEHPNIVKFHRYWTDTHN 56
+K K E+I + + L +L+HPNIV+ + + D
Sbjct: 34 KKKIKKDRERILREIKILKKLKHPNIVRLYDVFEDEDK 71
>gnl|CDD|173768 cd08228, STKc_Nek6, Catalytic domain of the Protein
Serine/Threonine Kinase, Never In Mitosis gene
A-related kinase 6. Serine/Threonine Kinases (STKs),
Never In Mitosis gene A (NIMA)-related kinase 6 (Nek6)
subfamily, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
Nek6 subfamily is one of a family of 11 different Neks
(Nek1-11) that are involved in cell cycle control. The
Nek 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. Nek6 is required for the
transition from metaphase to anaphase. It also plays
important roles in mitotic spindle formation and
cytokinesis. Activated by Nek9 during mitosis, Nek6
phosphorylates Eg5, a kinesin that is important for
spindle bipolarity. Nek6 localizes to spindle
microtubules during metaphase and anaphase, and to the
midbody during cytokinesis.
Length = 267
Score = 28.8 bits (64), Expect = 0.15
Identities = 13/39 (33%), Positives = 26/39 (66%), Gaps = 1/39 (2%)
Query: 9 VVWNEVQFSERKNFKAQEEKIQQVFENLTQLEHPNIVKF 47
V +VQ E + KA+++ ++++ + L QL HPN++K+
Sbjct: 30 VALKKVQIFEMMDAKARQDCVKEI-DLLKQLNHPNVIKY 67
>gnl|CDD|173758 cd08218, STKc_Nek1, Catalytic domain of the Protein
Serine/Threonine Kinase, Never In Mitosis gene
A-related kinase 1. Serine/Threonine Kinases (STKs),
Never In Mitosis gene A (NIMA)-related kinase 1 (Nek1)
subfamily, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
Nek1 subfamily is one of a family of 11 different Neks
(Nek1-11) that are involved in cell cycle control. The
Nek 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. Nek1 is associated with
centrosomes throughout the cell cycle. It is involved
in the formation of primary cilium and in the
maintenance of centrosomes. It cycles through the
nucleus and may be capable of relaying signals between
the cilium and the nucleus. Nek1 is implicated in the
development of polycystic kidney disease, which is
characterized by benign polycystic tumors formed by
abnormal overgrowth of renal epithelial cells. It
appears also to be involved in DNA damage response, and
may be important for both correct DNA damage checkpoint
activation and DNA repair.
Length = 256
Score = 28.6 bits (64), Expect = 0.16
Identities = 15/46 (32%), Positives = 27/46 (58%), Gaps = 2/46 (4%)
Query: 2 DTEEGVEVVWNEVQFSERKNFKAQEEKIQQVFENLTQLEHPNIVKF 47
E+G + V E+ S+ K +EE ++V L+ ++HPNIV++
Sbjct: 21 SKEDGKQYVIKEINISKMSP-KEREESRKEV-AVLSNMKHPNIVQY 64
>gnl|CDD|173659 cd05122, PKc_STE, Catalytic domain of STE family Protein Kinases.
Protein Kinases (PKs), STE family, catalytic (c)
domain. PKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine or
tyrosine residues on protein substrates. The STE family
is part of a larger superfamily that includes the
catalytic domains of other protein serine/threonine
kinases (STKs), protein tyrosine kinases (PTKs), RIO
kinases, aminoglycoside phosphotransferase, choline
kinase, and phosphoinositide 3-kinase (PI3K). This
family is composed of STKs, and some dual-specificity
PKs that phosphorylate both threonine and tyrosine
residues of target proteins. Most members are kinases
involved in mitogen-activated protein kinase (MAPK)
signaling cascades, acting as MAPK kinases (MAPKKs),
MAPK kinase kinases (MAPKKKs), or MAPK kinase kinase
kinases (MAP4Ks). The MAPK signaling pathways are
important mediators of cellular responses to
extracellular signals. The pathways involve a triple
kinase core cascade comprising of the MAPK, which is
phosphorylated and activated by a MAPKK, which itself
is phosphorylated and activated by a MAPKKK. Each MAPK
cascade is activated either by a small GTP-binding
protein or by an adaptor protein, which transmits the
signal either directly to a MAPKKK to start the triple
kinase core cascade or indirectly through a mediator
kinase, a MAP4K. Other STE family members include
p21-activated kinases (PAKs) and class III myosins,
among others. PAKs are Rho family GTPase-regulated
kinases that serve as important mediators in the
function of Cdc42 (cell division cycle 42) and Rac.
Class III myosins are motor proteins containing an
N-terminal kinase catalytic domain and a C-terminal
actin-binding domain, which can phosphorylate several
cytoskeletal proteins, conventional myosin regulatory
light chains, as well as autophosphorylate the
C-terminal motor domain. They play an important role in
maintaining the structural integrity of photoreceptor
cell microvilli.
Length = 253
Score = 28.3 bits (64), Expect = 0.25
Identities = 11/28 (39%), Positives = 18/28 (64%)
Query: 21 NFKAQEEKIQQVFENLTQLEHPNIVKFH 48
K ++EKI + L + +HPNIVK++
Sbjct: 36 ESKEKKEKIINEIQILKKCKHPNIVKYY 63
>gnl|CDD|215690 pfam00069, Pkinase, Protein kinase domain.
Length = 260
Score = 28.0 bits (63), Expect = 0.27
Identities = 12/47 (25%), Positives = 23/47 (48%), Gaps = 6/47 (12%)
Query: 7 VEVVWNEVQFSERKNFKAQEEKIQQVFENLTQLEHPNIVKFHRYWTD 53
V+++ + S++ +E +I L +L HPNIV+ + D
Sbjct: 29 VKILKKRSEKSKKDQTARREIRI------LRRLSHPNIVRLIDAFED 69
>gnl|CDD|233925 TIGR02553, SipD_IpaD_SspD, type III effector protein
IpaD/SipD/SspD. These proteins are found within type
III secretion operons and have been shown to be secreted
by that system.
Length = 313
Score = 27.3 bits (60), Expect = 0.52
Identities = 13/34 (38%), Positives = 20/34 (58%), Gaps = 1/34 (2%)
Query: 6 GVEVVWNEVQFSE-RKNFKAQEEKIQQVFENLTQ 38
G E+ W+ ++ + FKAQEE I+ + LTQ
Sbjct: 247 GTELEWDNAKYQAWQSGFKAQEENIKNTLQTLTQ 280
>gnl|CDD|222896 PHA02592, 52, DNA topisomerase II medium subunit; Provisional.
Length = 439
Score = 27.3 bits (61), Expect = 0.62
Identities = 12/44 (27%), Positives = 17/44 (38%), Gaps = 7/44 (15%)
Query: 13 EVQFSERKNFKAQEEKIQQVFENLTQLEHPNIV------KFHRY 50
+V +N +A EKI + F L + NI K Y
Sbjct: 271 KVTLKREENEEATHEKIMKDF-GLIERVSQNITVINENGKLKVY 313
>gnl|CDD|173762 cd08222, STKc_Nek11, Catalytic domain of the Protein
Serine/Threonine Kinase, Never In Mitosis gene
A-related kinase 11. Serine/Threonine Kinases (STKs),
Never In Mitosis gene A (NIMA)-related kinase 11
(Nek11) subfamily, catalytic (c) domain. STKs catalyze
the transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
Nek11 subfamily is one of a family of 11 different Neks
(Nek1-11) that are involved in cell cycle control. The
Nek 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. Nek11 is involved, through
direct phosphorylation, in regulating the degradation
of Cdc25A (Cell Division Cycle 25 homolog A), which
plays a role in cell cycle progression and in
activating cyclin dependent kinases. Nek11 is activated
by CHK1 (CHeckpoint Kinase 1) and may be involved in
the G2/M checkpoint. Nek11 may also play a role in the
S-phase checkpoint as well as in DNA replication and
genotoxic stress responses.
Length = 260
Score = 26.8 bits (59), Expect = 0.78
Identities = 9/13 (69%), Positives = 12/13 (92%)
Query: 36 LTQLEHPNIVKFH 48
L++L+HP IVKFH
Sbjct: 56 LSKLDHPAIVKFH 68
>gnl|CDD|219530 pfam07714, Pkinase_Tyr, Protein tyrosine kinase.
Length = 258
Score = 26.7 bits (60), Expect = 0.83
Identities = 6/15 (40%), Positives = 9/15 (60%)
Query: 34 ENLTQLEHPNIVKFH 48
+ +L HPNIV+
Sbjct: 53 SIMKKLSHPNIVRLL 67
>gnl|CDD|197581 smart00219, TyrKc, Tyrosine kinase, catalytic domain.
Phosphotransferases. Tyrosine-specific kinase
subfamily.
Length = 257
Score = 26.7 bits (60), Expect = 0.85
Identities = 8/24 (33%), Positives = 14/24 (58%)
Query: 25 QEEKIQQVFENLTQLEHPNIVKFH 48
Q E+ + + +L+HPN+VK
Sbjct: 44 QIEEFLREARIMRKLDHPNVVKLL 67
>gnl|CDD|214568 smart00221, STYKc, Protein kinase; unclassified specificity.
Phosphotransferases. The specificity of this class of
kinases can not be predicted. Possible dual-specificity
Ser/Thr/Tyr kinase.
Length = 258
Score = 26.4 bits (59), Expect = 1.0
Identities = 10/37 (27%), Positives = 18/37 (48%), Gaps = 7/37 (18%)
Query: 12 NEVQFSERKNFKAQEEKIQQVFENLTQLEHPNIVKFH 48
+ + + F +E +I + +L+HPNIVK
Sbjct: 38 EDASEQQIEEFL-REARI------MRKLDHPNIVKLL 67
>gnl|CDD|221489 pfam12252, SidE, Dot/Icm substrate protein. This family of proteins
is found in bacteria. Proteins in this family are
typically between 397 and 1543 amino acids in length.
This family is the SidE protein in the Dot/Icm pathway of
Legionella pneumophila bacteria. There is little
literature describing the family.
Length = 1443
Score = 26.0 bits (57), Expect = 1.7
Identities = 12/23 (52%), Positives = 17/23 (73%)
Query: 18 ERKNFKAQEEKIQQVFENLTQLE 40
+ K F+ QE++IQQ FE L +LE
Sbjct: 1273 KPKTFEMQEKEIQQNFELLAKLE 1295
>gnl|CDD|173629 cd05041, PTKc_Fes_like, Catalytic domain of Fes-like Protein
Tyrosine Kinases. Protein Tyrosine Kinase (PTK)
family; Fes subfamily; catalytic (c) domain. Fes
subfamily members include Fes (or Fps), Fer, and
similar proteins. The PTKc family is part of a larger
superfamily that includes the catalytic domains of
other kinases such as protein serine/threonine kinases,
RIO kinases, and phosphoinositide 3-kinase (PI3K). PTKs
catalyze the transfer of the gamma-phosphoryl group
from ATP to tyrosine (tyr) residues in protein
substrates. Fes subfamily proteins are cytoplasmic (or
nonreceptor) tyr kinases containing an N-terminal
region with FCH (Fes/Fer/CIP4 homology) and coiled-coil
domains, followed by a SH2 domain, and a C-terminal
catalytic domain. The genes for Fes (feline sarcoma)
and Fps (Fujinami poultry sarcoma) were first isolated
from tumor-causing retroviruses. The viral oncogenes
encode chimeric Fes proteins consisting of Gag
sequences at the N-termini, resulting in unregulated
tyr kinase activity. Fes and Fer kinases play roles in
haematopoiesis, inflammation and immunity, growth
factor signaling, cytoskeletal regulation, cell
migration and adhesion, and the regulation of cell-cell
interactions. Fes and Fer show redundancy in their
biological functions.
Length = 251
Score = 25.9 bits (57), Expect = 1.9
Identities = 11/25 (44%), Positives = 13/25 (52%)
Query: 22 FKAQEEKIQQVFENLTQLEHPNIVK 46
+ K Q E L Q +HPNIVK
Sbjct: 32 PPDLKRKFLQEAEILKQYDHPNIVK 56
>gnl|CDD|173727 cd06613, STKc_MAP4K3_like, Catalytic domain of Mitogen-activated
protein kinase kinase kinase kinase-like Protein
Serine/Threonine Kinases. Serine/threonine kinases
(STKs), mitogen-activated protein kinase (MAPK) kinase
kinase kinase 3 (MAPKKKK3 or MAP4K3)-like subfamily,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The MAP4K3-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 includes
MAP4K3, MAP4K1, MAP4K2, MAP4K5, and related proteins.
Vertebrate members contain an N-terminal catalytic
domain and a C-terminal citron homology (CNH)
regulatory domain, similar to MAP4K4/6. MAP4Ks are
involved in some MAPK signaling pathways that are
important in mediating cellular responses to
extracellular signals by activating a MAPK kinase
kinase (MAPKKK or MAP3K or MKKK). Each MAPK 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. MAP4K1, also called haematopoietic progenitor
kinase 1 (HPK1), is a hematopoietic-specific STK
involved in many cellular signaling cascades including
MAPK, antigen receptor, apoptosis, growth factor, and
cytokine signaling. It participates in the regulation
of T cell receptor signaling and T cell-mediated immune
responses. MAP4K2 was referred to as germinal center
(GC) kinase because of its preferred location in GC B
cells. MAP4K3 plays a role in the nutrient-responsive
pathway of mTOR (mammalian target of rapamycin)
signaling. It is required in the activation of S6
kinase by amino acids and for the phosphorylation of
the mTOR-regulated inhibitor of eukaryotic initiation
factor 4E. MAP4K5, also called germinal center
kinase-related enzyme (GCKR), has been shown to
activate the MAPK c-Jun N-terminal kinase (JNK).
Length = 262
Score = 25.7 bits (57), Expect = 2.2
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 27 EKIQQVFENLTQLEHPNIVKFH 48
E IQQ L + HPNIV +
Sbjct: 45 EIIQQEISMLKECRHPNIVAYF 66
>gnl|CDD|241512 cd13358, PH-GRAM_MTMR1, Myotubularian related 1 protein (MTMR1)
Pleckstrin Homology-Glucosyltransferases, Rab-like
GTPase activators and Myotubularins (PH-GRAM) domain.
MTMR1 is a member of the myotubularin protein
phosphatase gene family. MTMR1 binds to phosphoinositide
lipids through its PH-GRAM domain, and can hydrolyze
phosphatidylinositol(3)-phosphate and
phosphatidylinositol(3,5)-biphosphate in vitro. MTMR1
contain a N-terminal PH-GRAM domain, a Rac-induced
recruitment domain (RID) domain, an active PTP domain, a
SET-interaction domain, a coiled-coil region, and a
C-terminal PDZ domain. Myotubularin-related proteins are
a subfamily of protein tyrosine phosphatases (PTPs) that
dephosphorylate D3-phosphorylated inositol lipids.
Mutations in this family cause the human neuromuscular
disorders myotubular myopathy and type 4B
Charcot-Marie-Tooth syndrome. 6 of the 13 MTMRs (MTMRs
5, 9-13) contain naturally occurring substitutions of
residues required for catalysis by PTP family enzymes.
Although these proteins are predicted to be
enzymatically inactive, they are thought to function as
antagonists of endogenous phosphatase activity or
interaction modules. Most MTMRs contain a N-terminal
PH-GRAM domain, a Rac-induced recruitment domain (RID)
domain, a PTP domain (which may be active or inactive),
a SET-interaction domain, and a C-terminal coiled-coil
region. In addition some members contain DENN domain
N-terminal to the PH-GRAM domain and FYVE, PDZ, and PH
domains C-terminal to the coiled-coil region. The GRAM
domain, found in myotubularins, glucosyltransferases,
and other putative membrane-associated proteins, is part
of a larger motif with a pleckstrin homology (PH) domain
fold. The PH domain family possesses multiple functions
including the ability to bind phosphoinositides via its
beta1/beta2, beta3/beta4, and beta6/beta7 connecting
loops and to other proteins. However, no
phosphoinositide binding sites have been found for the
MTMRs to date.
Length = 153
Score = 25.5 bits (56), Expect = 2.4
Identities = 12/41 (29%), Positives = 25/41 (60%), Gaps = 1/41 (2%)
Query: 2 DTEEGVEVVWNEVQFSERKNFKAQEEKIQQVFENLTQLEHP 42
D G+E+V +++ + R +K +E+ ++FENL++ P
Sbjct: 83 DNSCGIEIVCKDMR-NPRFAYKQEEQSKLEIFENLSKHAFP 122
>gnl|CDD|223512 COG0435, ECM4, Predicted glutathione S-transferase
[Posttranslational modification, protein turnover,
chaperones].
Length = 324
Score = 25.4 bits (56), Expect = 2.7
Identities = 11/28 (39%), Positives = 18/28 (64%), Gaps = 2/28 (7%)
Query: 23 KAQEEKIQQVFENLTQLEHPNIVKFHRY 50
+A EE ++++FE L +LE I+ RY
Sbjct: 201 EAYEEAVKKLFEALDKLE--QILSERRY 226
>gnl|CDD|212529 cd10005, HDAC3, Histone deacetylase 3 (HDAC3). HDAC3 is a
Zn-dependent class I histone deacetylase that catalyzes
hydrolysis of N(6)-acetyl-lysine residue of a histone to
yield a deacetylated histone (EC 3.5.1.98). Histone
acetylation/deacetylation process is important for
mediation of transcriptional regulation of many genes.
In order to target specific chromatin regions, HDAC3 can
interact with DNA-binding proteins (transcriptional
factors) either directly or after forming complexes with
a number of other proteins, as observed for the
SMPT/N-CoR complex which recruits human HDAC3 to
specific chromatin loci and activates deacetylation.
Human HDAC3 is also involved in deacetylation of
non-histone substrates such as RelA, SPY and p53
factors. This protein can also down-regulate p53
function and subsequently modulate cell growth and
apoptosis. This gene is therefore regarded as a
potential tumor suppressor gene. HDAC3 plays a role in
various physiological processes, including subcellular
protein localization, cell cycle progression, cell
differentiation, apoptosis and survival. HDAC3 has been
found to be overexpressed in some tumors including
leukemia, lung carcinoma, colon cancer and maxillary
carcinoma. Thus, inhibitors precisely targeting HDAC3
(in some cases together with retinoic acid or
hyperthermia) could be a therapeutic drug option.
Length = 381
Score = 25.4 bits (56), Expect = 2.9
Identities = 13/32 (40%), Positives = 18/32 (56%), Gaps = 1/32 (3%)
Query: 18 ERKNFKAQEEKIQQ-VFENLTQLEHPNIVKFH 48
E +N K ++I+Q VFENL L H V+
Sbjct: 345 ENQNSKQYLDQIRQTVFENLKMLNHAPSVQMQ 376
>gnl|CDD|173703 cd05612, STKc_PRKX_like, Catalytic domain of PRKX-like Protein
Serine/Threonine Kinases. Serine/Threonine Kinases
(STKs), cAMP-dependent protein kinase (PKA) subfamily,
PRKX-like kinases, catalytic (c) subunit. STKs catalyze
the transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
PKA 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. Members of this group
include human PRKX (X chromosome-encoded protein
kinase), Drosophila DC2, and similar proteins. PRKX is
present in many tissues including fetal and adult
brain, kidney, and lung. The PRKX gene is located in
the Xp22.3 subregion and has a homolog called PRKY on
the Y chromosome. An abnormal interchange between PRKX
aand PRKY leads to the sex reversal disorder of XX
males and XY females. PRKX is implicated in
granulocyte/macrophage lineage differentiation, renal
cell epithelial migration, and tubular morphogenesis in
the developing kidney.
Length = 291
Score = 25.1 bits (55), Expect = 3.3
Identities = 12/43 (27%), Positives = 21/43 (48%), Gaps = 4/43 (9%)
Query: 25 QEEKIQQVFENLTQLEHPNIVKFHRYWTDTHNDKPRARFLGEY 67
QE+ + L ++ HP I++ +W T +D+ L EY
Sbjct: 44 QEQHVHNEKRVLKEVSHPFIIRL--FW--TEHDQRFLYMLMEY 82
>gnl|CDD|213988 cd07433, PHP_PolIIIA_DnaE1, Polymerase and Histidinol Phosphatase
domain of alpha-subunit of bacterial polymerase III
DnaE1. PolIIIAs that contain an N-terminal PHP domain
have been classified into four basic groups based on
genome composition, phylogenetic, and domain structural
analysis: polC, dnaE1, dnaE2, and dnaE3. The PHP (also
called histidinol phosphatase-2/HIS2) domain is
associated with several types of DNA polymerases, such
as PolIIIA and family X DNA polymerases, stand alone
histidinol phosphate phosphatases (HisPPases), and a
number of uncharacterized protein families. DNA
polymerase III holoenzyme is one of the five eubacterial
DNA polymerases that are responsible for the replication
of the DNA duplex. PolIIIA core enzyme catalyzes the
reaction for polymerizing both DNA strands. dnaE1 is the
longest compared to dnaE2 and dnaE3. A unique motif was
also identified in dnaE1 and dnaE3 genes.
Length = 277
Score = 25.1 bits (56), Expect = 3.7
Identities = 6/15 (40%), Positives = 12/15 (80%)
Query: 12 NEVQFSERKNFKAQE 26
N+V+F + ++F+A E
Sbjct: 196 NDVRFLKPEDFEAHE 210
>gnl|CDD|132963 cd06632, STKc_MEKK1_plant, Catalytic domain of the Protein
Serine/Threonine Kinase, Plant MAP/ERK kinase kinase 1.
Serine/threonine kinases (STKs), plant MAP/ERK kinase
kinase 1 (MEKK1)-like subfamily, catalytic (c) domain.
STKs catalyze the transfer of the gamma-phosphoryl
group from ATP to serine/threonine residues on protein
substrates. The plant MEKK1 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 plant mitogen-activated protein kinase
(MAPK) kinase kinases (MAPKKKs or MKKKs or MAP3Ks)
including Arabidopsis thaliana MEKK1 and MAPKKK3. MEKK1
is a MAPKKK that phosphorylates and activates MAPK
kinases (MAPKKs or MKKs or MAP2Ks), which in turn
phosphorylate and activate MAPKs during signaling
cascades that are important in mediating cellular
responses to extracellular signals. Arabidopsis
thaliana MEKK1 activates MPK4, a MAPK that regulates
systemic acquired resistance. MEKK1 also participates
in the regulation of temperature-sensitive and
tissue-specific cell death.
Length = 258
Score = 25.1 bits (55), Expect = 4.0
Identities = 7/12 (58%), Positives = 12/12 (100%)
Query: 36 LTQLEHPNIVKF 47
L++L+HPNIV++
Sbjct: 56 LSKLQHPNIVQY 67
>gnl|CDD|173624 cd00192, PTKc, Catalytic domain of Protein Tyrosine Kinases.
Protein Tyrosine Kinase (PTK) family, catalytic domain.
This PTKc family is part of a larger superfamily that
includes the catalytic domains of protein
serine/threonine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and
phosphoinositide 3-kinase (PI3K). PTKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
tyrosine (tyr) residues in protein substrates. They can
be classified into receptor and non-receptor tyr
kinases. PTKs play important roles in many cellular
processes including, lymphocyte activation, epithelium
growth and maintenance, metabolism control,
organogenesis regulation, survival, proliferation,
differentiation, migration, adhesion, motility, and
morphogenesis. Receptor tyr kinases (RTKs) are integral
membrane proteins which contain an extracellular
ligand-binding region, a transmembrane segment, and an
intracellular tyr kinase domain. RTKs are usually
activated through ligand binding, which causes
dimerization and autophosphorylation of the
intracellular tyr kinase catalytic domain, leading to
intracellular signaling. Some RTKs are orphan receptors
with no known ligands. Non-receptor (or cytoplasmic)
tyr kinases are distributed in different intracellular
compartments and are usually multi-domain proteins
containing a catalytic tyr kinase domain as well as
various regulatory domains such as SH3 and SH2. PTKs
are usually autoinhibited and require a mechanism for
activation. In many PTKs, the phosphorylation of tyr
residues in the activation loop is essential for
optimal activity. Aberrant expression of PTKs is
associated with many development abnormalities and
cancers.
Length = 262
Score = 24.8 bits (55), Expect = 4.4
Identities = 5/12 (41%), Positives = 9/12 (75%)
Query: 36 LTQLEHPNIVKF 47
+ +L HPN+V+
Sbjct: 50 MKKLGHPNVVRL 61
>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 = 24.5 bits (54), Expect = 4.6
Identities = 7/11 (63%), Positives = 8/11 (72%)
Query: 36 LTQLEHPNIVK 46
L EHPNIV+
Sbjct: 55 LESFEHPNIVR 65
>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 = 24.6 bits (54), Expect = 5.1
Identities = 11/34 (32%), Positives = 14/34 (41%), Gaps = 6/34 (17%)
Query: 20 KNFKAQEE------KIQQVFENLTQLEHPNIVKF 47
K FK E+ + + L QL H NIV
Sbjct: 32 KKFKESEDDEDVKKTALREVKVLRQLRHENIVNL 65
>gnl|CDD|217878 pfam04080, Per1, Per1-like. PER1 is required for
GPI-phospholipase A2 activity and is involved in lipid
remodelling of GPI-anchored proteins.
Length = 264
Score = 24.5 bits (54), Expect = 5.4
Identities = 11/36 (30%), Positives = 15/36 (41%), Gaps = 7/36 (19%)
Query: 30 QQVFENLTQLEHPNIVKFHRYWTDTHNDKPRARFLG 65
QQ+ + + IV+FH W P R LG
Sbjct: 23 QQIITDEREKRGEPIVQFHGKW-------PFKRVLG 51
>gnl|CDD|236648 PRK10078, PRK10078, ribose 1,5-bisphosphokinase; Provisional.
Length = 186
Score = 24.3 bits (53), Expect = 5.4
Identities = 7/17 (41%), Positives = 9/17 (52%)
Query: 36 LTQLEHPNIVKFHRYWT 52
L Q E ++ HRY T
Sbjct: 22 LRQREQTQLLVAHRYIT 38
>gnl|CDD|216598 pfam01602, Adaptin_N, Adaptin N terminal region. This family
consists of the N terminal region of various alpha, beta
and gamma subunits of the AP-1, AP-2 and AP-3 adaptor
protein complexes. The adaptor protein (AP) complexes
are involved in the formation of clathrin-coated pits
and vesicles. The N-terminal region of the various
adaptor proteins (APs) is constant by comparison to the
C-terminal which is variable within members of the AP-2
family; and it has been proposed that this constant
region interacts with another uniform component of the
coated vesicles.
Length = 522
Score = 24.5 bits (54), Expect = 6.0
Identities = 7/28 (25%), Positives = 13/28 (46%)
Query: 19 RKNFKAQEEKIQQVFENLTQLEHPNIVK 46
RK + +E ++ + E L +E P
Sbjct: 404 RKYPELREYILEHLCELLEDIESPEARA 431
>gnl|CDD|173660 cd05123, STKc_AGC, Catalytic domain of AGC family Protein
Serine/Threonine Kinases. Serine/Threonine Kinases
(STKs), AGC (Protein Kinases A, G and C) family,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The AGC 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 (PI3K). Members of this
family include cAMP-dependent Protein Kinase (PKA),
cGMP-dependent Protein Kinase (PKG), Protein Kinase C
(PKC), Protein Kinase B (PKB), G protein-coupled
Receptor Kinase (GRK), Serum- and
Glucocorticoid-induced Kinase (SGK), and 70 kDa
ribosomal Protein S6 Kinase (p70S6K or S6K), among
others. AGC kinases share an activation mechanism based
on the phosphorylation of up to three sites: the
activation loop (A-loop), the hydrophobic motif (HM)
and the turn motif. Phosphorylation at the A-loop is
required of most AGC kinases, which results in a
disorder-to-order transition of the A-loop. The ordered
conformation results in the access of substrates and
ATP to the active site. A subset of AGC kinases with
C-terminal extensions containing the HM also requires
phosphorylation at this site. Phosphorylation at the HM
allows the C-terminal extension to form an ordered
structure that packs into the hydrophobic pocket of the
catalytic domain, which then reconfigures the kinase
into an active bi-lobed state. In addition, growth
factor-activated AGC kinases such as PKB, p70S6K, RSK,
MSK, PKC, and SGK, require phosphorylation at the turn
motif (also called tail or zipper site), located
N-terminal to the HM at the C-terminal extension. AGC
kinases regulate many cellular processes including
division, growth, survival, metabolism, motility, and
differentiation. Many are implicated in the development
of various human diseases.
Length = 250
Score = 24.4 bits (54), Expect = 6.2
Identities = 7/21 (33%), Positives = 11/21 (52%)
Query: 36 LTQLEHPNIVKFHRYWTDTHN 56
L+++ HP IVK H +
Sbjct: 47 LSRINHPFIVKLHYAFQTEEK 67
>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 = 24.4 bits (54), Expect = 6.4
Identities = 8/13 (61%), Positives = 10/13 (76%)
Query: 36 LTQLEHPNIVKFH 48
L +L+HPNIVK
Sbjct: 52 LKELKHPNIVKLL 64
>gnl|CDD|214550 smart00194, PTPc, Protein tyrosine phosphatase, catalytic domain.
Length = 259
Score = 24.2 bits (53), Expect = 6.5
Identities = 8/26 (30%), Positives = 13/26 (50%), Gaps = 1/26 (3%)
Query: 26 EEKIQQVFENLTQLEHPNIVKFHRYW 51
E+K+ + LT+L K +YW
Sbjct: 91 EQKVTVIV-MLTELVEKGREKCAQYW 115
>gnl|CDD|234980 PRK01759, glnD, PII uridylyl-transferase; Provisional.
Length = 854
Score = 23.9 bits (52), Expect = 8.8
Identities = 10/33 (30%), Positives = 13/33 (39%)
Query: 12 NEVQFSERKNFKAQEEKIQQVFENLTQLEHPNI 44
N + F+ Q E I +F LTQ I
Sbjct: 329 NAICLRNPDCFEQQPESILDLFFYLTQYPQAEI 361
>gnl|CDD|226999 COG4652, COG4652, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 657
Score = 23.9 bits (52), Expect = 9.5
Identities = 4/20 (20%), Positives = 12/20 (60%)
Query: 20 KNFKAQEEKIQQVFENLTQL 39
+ ++Q+ +I++ FE+
Sbjct: 418 EKLRSQKSEIKKYFESDLSY 437
>gnl|CDD|217218 pfam02765, Telo_bind, Telomeric single stranded DNA binding
POT1/CDC13. This domain binds single stranded
telomeric DNA and adopts an OB fold. It includes the
proteins POT1 and CDC13 which have been shown to
regulate telomere length, replication and capping.
Length = 141
Score = 23.5 bits (51), Expect = 9.6
Identities = 9/30 (30%), Positives = 17/30 (56%), Gaps = 1/30 (3%)
Query: 33 FENLTQLEHP-NIVKFHRYWTDTHNDKPRA 61
FE+L ++ +I++ HR +N KP+
Sbjct: 63 FEDLPNVQSIGDIIRLHRVKVKLYNGKPQG 92
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
0.314 0.131 0.394
Gapped
Lambda K H
0.267 0.0807 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,594,652
Number of extensions: 259995
Number of successful extensions: 380
Number of sequences better than 10.0: 1
Number of HSP's gapped: 379
Number of HSP's successfully gapped: 55
Length of query: 72
Length of database: 10,937,602
Length adjustment: 42
Effective length of query: 30
Effective length of database: 9,074,734
Effective search space: 272242020
Effective search space used: 272242020
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 53 (24.0 bits)