RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5063
(681 letters)
>gnl|CDD|219530 pfam07714, Pkinase_Tyr, Protein tyrosine kinase.
Length = 258
Score = 127 bits (322), Expect = 5e-33
Identities = 55/162 (33%), Positives = 78/162 (48%), Gaps = 34/162 (20%)
Query: 482 LVRGPLLGQGFFGQVYRVTHRETGE-------VMVLKELYRVDEEAEKNFLKESKQGLIY 534
L G LG+G FG+VY+ T + GE V LKE EE + FL+E
Sbjct: 1 LELGKKLGEGAFGEVYKGTLKGDGEGTETKVAVKTLKEGA--SEEEREEFLEE------- 51
Query: 535 LIDLGSHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQ 594
++++ L H N++R +GV + L +VTEY+ GG L + L+
Sbjct: 52 ------------------ASIMKKLSHPNIVRLLGVCTQGEPLYIVTEYMPGGDLLDFLR 93
Query: 595 DPGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
G+ L + A IA GM YL S N +HRDL ++NCLV
Sbjct: 94 KHGEKLTLKDLLQMALQIAKGMEYLESKNFVHRDLAARNCLV 135
>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 = 121 bits (307), Expect = 2e-31
Identities = 47/168 (27%), Positives = 77/168 (45%), Gaps = 29/168 (17%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKN-FLKESKQGLIYLIDLGSHGLINN 546
LG+G FG VY ++TG+ + +K + + D + L+E
Sbjct: 1 LGEGGFGTVYLARDKKTGKKVAIKIIKKEDSSSLLEELLRE------------------- 41
Query: 547 LHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRV 606
+ +L+ L+H N+++ GV + L LV EY GG+LK+LL++ L + +
Sbjct: 42 ------IEILKKLNHPNIVKLYGVFEDENHLYLVMEYCEGGSLKDLLKENEGKLSEDEIL 95
Query: 607 NFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVGSGF---DFHLGQIY 651
I G+ YLHS +IHRDL +N L+ DF L ++
Sbjct: 96 RILLQILEGLEYLHSNGIIHRDLKPENILLDSDNGKVKLADFGLSKLL 143
>gnl|CDD|197581 smart00219, TyrKc, Tyrosine kinase, catalytic domain.
Phosphotransferases. Tyrosine-specific kinase subfamily.
Length = 257
Score = 120 bits (304), Expect = 1e-30
Identities = 51/156 (32%), Positives = 74/156 (47%), Gaps = 34/156 (21%)
Query: 488 LGQGFFGQVYR---VTHRETGEVMV----LKELYRVDEEAEKNFLKESKQGLIYLIDLGS 540
LG+G FG+VY+ +V V LKE E+ + FL+E++
Sbjct: 7 LGEGAFGEVYKGKLKGKGGKKKVEVAVKTLKE--DASEQQIEEFLREAR----------- 53
Query: 541 HGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPL 600
++R L H NV++ +GV ++ L +V EY+ GG L L+ L
Sbjct: 54 --------------IMRKLDHPNVVKLLGVCTEEEPLYIVMEYMEGGDLLSYLRKNRPKL 99
Query: 601 PWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
++FA IA GM YL S N IHRDL ++NCLV
Sbjct: 100 SLSDLLSFALQIARGMEYLESKNFIHRDLAARNCLV 135
>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 = 117 bits (295), Expect = 2e-29
Identities = 54/159 (33%), Positives = 80/159 (50%), Gaps = 35/159 (22%)
Query: 488 LGQGFFGQVYRVTHRETG---EVMV----LKELYRVDEEAEKNFLKESKQGLIYLIDLGS 540
LG+G FG+VY+ T + G EV V LKE E+ + FL+E++
Sbjct: 7 LGEGAFGEVYKGTLKGKGDGKEVEVAVKTLKE--DASEQQIEEFLREAR----------- 53
Query: 541 HGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDP-GQP 599
++R L H N+++ +GV ++ L +V EY+ GG L + L+ +
Sbjct: 54 --------------IMRKLDHPNIVKLLGVCTEEEPLMIVMEYMPGGDLLDYLRKNRPKE 99
Query: 600 LPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
L ++FA IA GM YL S N IHRDL ++NCLV E
Sbjct: 100 LSLSDLLSFALQIARGMEYLESKNFIHRDLAARNCLVGE 138
>gnl|CDD|188751 cd09365, LIM2_LIMK, The second LIM domain of LIMK (LIM domain
Kinase ). The second LIM domain of LIMK (LIM domain
Kinase ): LIMK protein family is comprised of two
members LIMK1 and LIMK2. LIMK contains two LIM domains,
a PDZ domain and a kinase domain. LIMK is involved in
the regulation of actin polymerization and microtubule
disassembly. LIMK influences architecture of the actin
cytoskeleton by regulating the activity of the cofilin
family proteins cofilin1, cofilin2, and destrin. The
mechanism of the activation is to phosphorylates cofilin
on serine 3 and inactivates its actin-severing activity,
and altering the rate of actin depolymerization. LIMKs
can function in both cytoplasm and nucleus and are
expressed in all tissues. Both LIMK1 and LIMK2 can act
in the nucleus to suppress Rac/Cdc42-dependent cyclin D1
expression. However, LIMK1 and LIMk2 have different
cellular locations. While LIMK1 localizes mainly at
focal adhesions, LIMK2 is found in cytoplasmic punctae,
suggesting that they may have different cellular
functions. The LIM domains of LIMK have been shown to
play an important role in regulating kinase activity and
likely also contribute to LIMK function by acting as
sites of protein-to-protein interactions. All LIM
domains are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to support
the assembly of multimeric protein complexes.
Length = 54
Score = 103 bits (259), Expect = 4e-27
Identities = 39/54 (72%), Positives = 45/54 (83%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYCGLCY 124
C C Q+++GPVMV GDHKFHPECF C+SC IGDG+SYALVERS LYCG+CY
Sbjct: 1 CHGCSQIITGPVMVAGDHKFHPECFSCSSCKAFIGDGDSYALVERSKLYCGVCY 54
Score = 29.6 bits (67), Expect = 0.53
Identities = 12/35 (34%), Positives = 17/35 (48%), Gaps = 1/35 (2%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVML 46
C GC I V A ++H +CF CS+C +
Sbjct: 1 CHGCSQIITGPVMV-AGDHKFHPECFSCSSCKAFI 34
>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 = 109 bits (276), Expect = 6e-27
Identities = 54/165 (32%), Positives = 77/165 (46%), Gaps = 41/165 (24%)
Query: 488 LGQGFFGQVYR--VTHRETGEVMV----LKELYRVDEEAEKNFLKESKQGLIYLIDLGSH 541
LG+G FG+VY+ + ++ V LKE EE K+FLKE++
Sbjct: 3 LGEGAFGEVYKGKLKGKDGKTTEVAVKTLKEDA--SEEERKDFLKEAR------------ 48
Query: 542 GLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQ------- 594
V++ L H NV+R +GV ++ L LV EY+ GG L + L+
Sbjct: 49 -------------VMKKLGHPNVVRLLGVCTEEEPLYLVLEYMEGGDLLDYLRKSRPVFP 95
Query: 595 -DPGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
L ++FA IA GM YL S +HRDL ++NCLV E
Sbjct: 96 SPEKSTLSLKDLLSFAIQIAKGMEYLASKKFVHRDLAARNCLVGE 140
>gnl|CDD|214567 smart00220, S_TKc, Serine/Threonine protein kinases, catalytic
domain. Phosphotransferases. Serine or
threonine-specific kinase subfamily.
Length = 254
Score = 108 bits (272), Expect = 2e-26
Identities = 43/151 (28%), Positives = 73/151 (48%), Gaps = 27/151 (17%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKEL-YRVDEEAEKNFLKESKQGLIYLIDLGSHGLIN 545
LG+G FG+VY ++TG+++ +K + + ++ + L+E
Sbjct: 6 KLGEGSFGKVYLARDKKTGKLVAIKVIKKKKIKKDRERILRE------------------ 47
Query: 546 NLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQR 605
+ +L+ L H N++R V + KL LV EY GG L +LL+ G L +
Sbjct: 48 -------IKILKKLKHPNIVRLYDVFEDEDKLYLVMEYCEGGDLFDLLKKRG-RLSEDEA 99
Query: 606 VNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
+ R I + + YLHS ++HRDL +N L+
Sbjct: 100 RFYLRQILSALEYLHSKGIVHRDLKPENILL 130
>gnl|CDD|215690 pfam00069, Pkinase, Protein kinase domain.
Length = 260
Score = 107 bits (269), Expect = 6e-26
Identities = 49/159 (30%), Positives = 71/159 (44%), Gaps = 24/159 (15%)
Query: 482 LVRGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSH 541
LG G FG VY+ H+ TG+++ +K L + E+++K+
Sbjct: 1 YELLRKLGSGSFGTVYKAKHKGTGKIVAVKILKKRSEKSKKDQTA--------------- 45
Query: 542 GLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLP 601
++ +LR L H N++R I L LV EY GG L + L G PL
Sbjct: 46 --------RREIRILRRLSHPNIVRLIDAFEDKDHLYLVMEYCEGGDLFDYL-SRGGPLS 96
Query: 602 WGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
+ A I G+ YLHS +IHRDL +N L+ E G
Sbjct: 97 EDEAKKIALQILRGLEYLHSNGIIHRDLKPENILLDENG 135
>gnl|CDD|188750 cd09364, LIM1_LIMK, The first LIM domain of LIMK (LIM domain
Kinase ). The first LIM domain of LIMK (LIM domain
Kinase ): LIMK protein family is comprised of two
members LIMK1 and LIMK2. LIMK contains two LIM domains,
a PDZ domain and a kinase domain. LIMK is involved in
the regulation of actin polymerization and microtubule
disassembly. LIMK influences architecture of the actin
cytoskeleton by regulating the activity of the cofilin
family proteins cofilin1, cofilin2, and destrin. The
mechanism of the activation is to phosphorylates
cofilin on serine 3 and inactivates its actin-severing
activity, and altering the rate of actin
depolymerisation. LIMKs can function in both cytoplasm
and nucleus and are expressed in all tissues. Both
LIMK1 and LIMK2 can act in the nucleus to suppress
Rac/Cdc42-dependent cyclin D1 expression. However,
LIMK1 and LIMk2 have different cellular locations.
While LIMK1 localizes mainly at focal adhesions, LIMK2
is found in cytoplasmic punctae, suggesting that they
may have different cellular functions. The LIM domains
of LIMK have been shown to play an important role in
regulating kinase activity and likely also contribute
to LIMK function by acting as sites of
protein-to-protein interactions. All LIM domains are
50-60 amino acids in size and share two characteristic
zinc finger motifs. The two zinc fingers contain eight
conserved residues, mostly cysteines and histidines,
which coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 53
Score = 94.1 bits (234), Expect = 1e-23
Identities = 33/52 (63%), Positives = 41/52 (78%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWYFEKDGLLFCKEDY 63
CAGC I++ +YVQAL+Q+WH DCFRCS C L NWYFEKDG L+C++DY
Sbjct: 1 CAGCRGKILDSQYVQALNQDWHCDCFRCSVCSDSLSNWYFEKDGKLYCRKDY 52
>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 = 98.4 bits (246), Expect = 6e-23
Identities = 41/154 (26%), Positives = 76/154 (49%), Gaps = 25/154 (16%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+G+G FG+VY+ H+ TG+ + +K + +E ++ + E
Sbjct: 8 IGKGGFGEVYKARHKRTGKEVAIKVIKLESKEKKEKIINE-------------------- 47
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
+ +L+ H N++++ G K +L +V E+ +GG+LK+LL+ Q L Q
Sbjct: 48 -----IQILKKCKHPNIVKYYGSYLKKDELWIVMEFCSGGSLKDLLKSTNQTLTESQIAY 102
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLVREVGS 641
+++ G+ YLHS +IHRD+ + N L+ G
Sbjct: 103 VCKELLKGLEYLHSNGIIHRDIKAANILLTSDGE 136
>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 = 97.2 bits (243), Expect = 2e-22
Identities = 52/162 (32%), Positives = 79/162 (48%), Gaps = 26/162 (16%)
Query: 481 DLVRGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGS 540
+ RG LLG+G FG VY ++TGE+M +K + E + +E +
Sbjct: 1 EWTRGELLGRGSFGSVYLALDKDTGELMAVKSV-----ELSGDSEEELEA---------- 45
Query: 541 HGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRK--LNLVTEYIAGGTLKELLQDPGQ 598
L ++ +L SL H N++R+ G + K LN+ EY++GG+L LL+ G
Sbjct: 46 ------LE--REIRILSSLQHPNIVRYYGSERDEEKNTLNIFLEYVSGGSLSSLLKKFG- 96
Query: 599 PLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
LP + R I G+ YLHS ++HRD+ N LV G
Sbjct: 97 KLPEPVIRKYTRQILEGLAYLHSNGIVHRDIKGANILVDSDG 138
>gnl|CDD|188849 cd09465, LIM2_LIMK2, The second LIM domain of LIMK2 (LIM domain
Kinase 2). The second LIM domain of LIMK2 (LIM domain
Kinase 2): LIMK2 is a member of the LIMK protein family,
which comprises LIMK1 and LIMK2. LIMK contains two LIM
domains, a PDZ domain, and a kinase domain. LIMK is
involved in the regulation of actin polymerization and
microtubule disassembly. LIMK influences architecture of
the actin cytoskeleton by regulating the activity of the
cofilin family proteins cofilin1, cofilin2, and destrin.
The mechanism of the activation is to phosphorylates
cofilin on serine 3 and inactivates its actin-severing
activity, altering the rate of actin depolymerisation.
LIMK activity is activated by phosphorylation of a
threonine residue within the activation loop of the
kinase by p21-activated kinases 1 and 4 and by Rho
kinase. LIMKs can function in both cytoplasm and
nucleus. Both LIMK1 and LIMK2 can act in the nucleus to
suppress Rac/Cdc42-dependent cyclin D1 expression. LIMK2
is expressed in all tissues. While LIMK1 localizes
mainly at focal adhesions, LIMK2 is found in cytoplasmic
punctae, suggesting that they may have different
cellular functions. The activity of LIM kinase 2 to
regulate cofilin phosphorylation is inhibited by the
direct binding of Par-3. LIMK2 activation promotes cell
cycle progression. The phenotype of Limk2 knockout mice
shows a defect in spermatogenesis. The LIM domains have
been shown to play an important role in regulating
kinase activity and likely also contribute to LIMK
function by acting as sites of protein-to-protein
interactions. All LIM domains are 50-60 amino acids in
size and share two characteristic zinc finger motifs.
The two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately bond
to two zinc atoms. LIM domains function as adaptors or
scaffolds to support the assembly of multimeric protein
complexes.
Length = 59
Score = 89.6 bits (222), Expect = 4e-22
Identities = 32/59 (54%), Positives = 43/59 (72%)
Query: 66 KYGEACQNCGQMMSGPVMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYCGLCY 124
K+GE C C +M+GP MV G++K+HPECF C SC I DG++YALV+ + LYCG C+
Sbjct: 1 KFGELCHGCSLLMTGPAMVAGEYKYHPECFACMSCKVIIEDGDTYALVQHTTLYCGKCH 59
>gnl|CDD|188846 cd09462, LIM1_LIMK1, The first LIM domain of LIMK1 (LIM domain
Kinase 1). The first LIM domain of LIMK1 (LIM domain
Kinase 1): LIMK1 belongs to the LIMK protein family,
which comprises LIMK1 and LIMK2. LIMK contains two LIM
domains, a PDZ domain, and a kinase domain. LIMK is
involved in the regulation of actin polymerization and
microtubule disassembly. LIMK influences architecture
of the actin cytoskeleton by regulating the activity of
the cofilin family proteins cofilin1, cofilin2, and
destrin. The mechanism of the activation is to
phosphorylates cofilin on serine 3 and inactivates its
actin-severing activity, and altering the rate of actin
depolymerization. LIMKs can function in both cytoplasm
and nucleus. Both LIMK1 and LIMK2 can act in the
nucleus to suppress Rac/Cdc42-dependent cyclin D1
expression. LIMK1 is expressed in all tissues and is
localized to focal adhesions in the cell. LIMK1 can
form homodimers upon binding of HSP90 and is activated
by Rho effector Rho kinase and MAPKAPK2. LIMK1 is
important for normal central nervous system
development, and its deletion has been implicated in
the development of the human genetic disorder Williams
syndrome. Moreover, LIMK1 up-regulates the promoter
activity of urokinase type plasminogen activator and
induces its mRNA and protein expression in breast
cancer cells. The LIM domains have been shown to play
an important role in regulating kinase activity and
likely also contribute to LIMK function by acting as
sites of protein-to-protein interactions. All LIM
domains are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein complexes.
Length = 74
Score = 84.6 bits (209), Expect = 4e-20
Identities = 31/63 (49%), Positives = 42/63 (66%)
Query: 1 MEDSETPEILTCAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWYFEKDGLLFCK 60
M + E + CA C +I + +Y+QAL+ +WH DCFRC C L +WY+EKDG LFCK
Sbjct: 11 MGEEEGNVLPVCASCGQSIYDGQYLQALNSDWHADCFRCCECGASLSHWYYEKDGRLFCK 70
Query: 61 EDY 63
+DY
Sbjct: 71 KDY 73
>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 = 88.3 bits (220), Expect = 2e-19
Identities = 43/152 (28%), Positives = 73/152 (48%), Gaps = 30/152 (19%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKE--LYRVDEEAEKNFLKESKQGLIYLIDLGSHGLI 544
+G+G FG+VY V + G++ VLKE L + E+ ++ L E
Sbjct: 7 QIGKGSFGKVYLVRRKSDGKLYVLKEIDLSNMSEKEREDALNE----------------- 49
Query: 545 NNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQD---PGQPLP 601
V +L+ L+H N+I++ + KL +V EY GG L + ++ G+P P
Sbjct: 50 --------VKILKKLNHPNIIKYYESFEEKGKLCIVMEYADGGDLSQKIKKQKKEGKPFP 101
Query: 602 WGQRVNFARDIAAGMTYLHSMNLIHRDLNSQN 633
Q +++ + + YLHS ++HRD+ QN
Sbjct: 102 EEQILDWFVQLCLALKYLHSRKILHRDIKPQN 133
>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 = 86.4 bits (214), Expect = 8e-19
Identities = 45/154 (29%), Positives = 72/154 (46%), Gaps = 29/154 (18%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAE--KNFLKESKQGLIYLIDLGSHGLI 544
+G+G FG VY+ + EV V + R + + FL+E++
Sbjct: 2 KIGKGNFGDVYKGVLKGNTEVAV--KTCRSTLPPDLKRKFLQEAE--------------- 44
Query: 545 NNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQ 604
+L+ H N+++ IGV + + + +V E + GG+L L+ L +
Sbjct: 45 ----------ILKQYDHPNIVKLIGVCVQKQPIYIVMELVPGGSLLTFLRKKKNRLTVKK 94
Query: 605 RVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
+ + D AAGM YL S N IHRDL ++NCLV E
Sbjct: 95 LLQMSLDAAAGMEYLESKNCIHRDLAARNCLVGE 128
>gnl|CDD|173732 cd06628, STKc_MAPKKK_Byr2_like, Catalytic domain of fungal
Byr2-like MAP Kinase Kinase Kinases. Serine/threonine
kinases (STKs), mitogen-activated protein kinase (MAPK)
kinase kinase (MAPKKK) subfamily, fungal Byr2-like
proteins, 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. Members of this group include the MAPKKKs
Schizosaccharomyces pombe Byr2, Saccharomyces cerevisiae
and Cryptococcus neoformans Ste11, and related proteins.
They contain an N-terminal SAM (sterile alpha-motif)
domain, which mediates protein-protein interaction, and
a C-terminal catalytic domain. 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 Byr2 is regulated by Ras1. It responds to
pheromone signaling and controls mating through the MAPK
pathway. Budding yeast Ste11 functions in MAPK cascades
that regulate mating, high osmolarity glycerol, and
filamentous growth responses.
Length = 267
Score = 86.0 bits (213), Expect = 1e-18
Identities = 47/160 (29%), Positives = 78/160 (48%), Gaps = 21/160 (13%)
Query: 483 VRGPLLGQGFFGQVYRVTHRETGEVMVLK--ELYRVDEEAEKNFLKESKQGLIYLIDLGS 540
++G L+G G FG VY + +GE+M +K EL V ++ K+ ++ +
Sbjct: 3 IKGALIGSGSFGSVYLGMNASSGELMAVKQVELPSVSASSKDR-----KRSMLDALA--- 54
Query: 541 HGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPL 600
++A+L+ L H N+++++G LN+ EY+ GG++ LL + G
Sbjct: 55 ----------REIALLKELQHENIVQYLGSSLDADHLNIFLEYVPGGSVAALLNNYGA-F 103
Query: 601 PWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
NF R I G+ YLH+ +IHRD+ N LV G
Sbjct: 104 EETLVRNFVRQILKGLNYLHNRGIIHRDIKGANILVDNKG 143
>gnl|CDD|132954 cd06623, PKc_MAPKK_plant_like, Catalytic domain of Plant
dual-specificity MAP kinase kinases and similar
proteins. Protein kinases (PKs), MAP kinase kinase
(MAPKK) subfamily, Plant MAPKKs and similar proteins,
catalytic (c) domain. PKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine or
tyrosine residues on protein substrates. The MAPKK
subfamily is part of a larger superfamily that includes
the catalytic domains of other protein serine/threonine
kinases, protein tyrosine kinases, RIO kinases,
aminoglycoside phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. The mitogen-activated protein
(MAP) kinase signaling pathways are important mediators
of cellular responses to extracellular signals. The
pathways involve a triple kinase core cascade comprising
of the MAP kinase (MAPK), which is phosphorylated and
activated by a MAPK kinase (MAPKK or MKK), which itself
is phosphorylated and activated by a MAPK kinase kinase
(MAPKKK or MKKK). Members of this group include MAPKKs
from plants, kinetoplastids, alveolates, and mycetozoa.
The MAPKK, LmxPK4, from Leishmania mexicana, is
important in differentiation and virulence.
Dictyostelium discoideum MEK1 is required for proper
chemotaxis. MEK1 null mutants display severe defects in
cell polarization and directional movement. Plants
contain multiple MAPKKs like other eukaryotes. The
Arabidopsis genome encodes for 10 MAPKKs while poplar
and rice contain 13 MAPKKs each. The functions of these
proteins have not been fully elucidated. There is
evidence to suggest that MAPK cascades are involved in
plant stress responses. In Arabidopsis, MKK3 plays a
role in pathogen signaling, MKK2 is involved in cold and
salt stress signaling, MKK4/MKK5 participates in innate
immunity, and MKK7 regulates basal and systemic acquired
resistance.
Length = 264
Score = 84.2 bits (209), Expect = 4e-18
Identities = 52/160 (32%), Positives = 81/160 (50%), Gaps = 30/160 (18%)
Query: 480 SDLVRGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLG 539
SDL R +LGQG G VY+V H+ TG++ LK+++ +E + KQ
Sbjct: 1 SDLERVKVLGQGSSGVVYKVRHKPTGKIYALKKIHVDGDEEFR------KQ--------- 45
Query: 540 SHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQP 599
L+ L LRS V++ G YK+ ++++V EY+ GG+L +LL+ G
Sbjct: 46 ---LLRELK------TLRSCESPYVVKCYGAFYKEGEISIVLEYMDGGSLADLLKKVG-- 94
Query: 600 LPWGQRV--NFARDIAAGMTYLHSM-NLIHRDLNSQNCLV 636
+ V AR I G+ YLH+ ++IHRD+ N L+
Sbjct: 95 -KIPEPVLAYIARQILKGLDYLHTKRHIIHRDIKPSNLLI 133
>gnl|CDD|173628 cd05038, PTKc_Jak_rpt2, Catalytic (repeat 2) domain of the Protein
Tyrosine Kinases, Janus kinases. Protein Tyrosine
Kinase (PTK) family; Janus kinase (Jak) subfamily;
catalytic (c) domain (repeat 2). The Jak subfamily is
composed of Jak1, Jak2, Jak3, TYK2, 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.
Jak subfamily proteins are cytoplasmic (or nonreceptor)
tyr kinases containing an N-terminal FERM domain,
followed by a Src homology 2 (SH2) domain, a
pseudokinase domain, and a C-terminal tyr kinase
catalytic domain. Most Jaks are expressed in a wide
variety of tissues, except for Jak3, which is expressed
only in hematopoietic cells. Jaks are crucial for
cytokine receptor signaling. They are activated by
autophosphorylation upon cytokine-induced receptor
aggregation, and subsequently trigger downstream
signaling events such as the phosphorylation of signal
transducers and activators of transcription (STATs).
Jaks are also involved in regulating the surface
expression of some cytokine receptors. The Jak-STAT
pathway is involved in many biological processes
including hematopoiesis, immunoregulation, host defense,
fertility, lactation, growth, and embryogenesis.
Length = 284
Score = 84.4 bits (209), Expect = 5e-18
Identities = 45/155 (29%), Positives = 72/155 (46%), Gaps = 30/155 (19%)
Query: 488 LGQGFFGQVYRVTHR----ETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGL 543
LG+G FG+V + TGE + +K L EE ++ +
Sbjct: 12 LGEGHFGKVELCRYDPLGDNTGEQVAVKSLNHSGEEQHRSDFER---------------- 55
Query: 544 INNLHCFSQVAVLRSLHHHNVIRFIGVLYKD--RKLNLVTEYIAGGTLKELLQDPGQPLP 601
++ +LR+L H N++++ GV K R L L+ EY+ G+L++ LQ +
Sbjct: 56 --------EIEILRTLDHENIVKYKGVCEKPGGRSLRLIMEYLPSGSLRDYLQRHRDQIN 107
Query: 602 WGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
+ + F+ I GM YL S IHRDL ++N LV
Sbjct: 108 LKRLLLFSSQICKGMDYLGSQRYIHRDLAARNILV 142
>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 = 84.0 bits (208), Expect = 5e-18
Identities = 42/153 (27%), Positives = 69/153 (45%), Gaps = 21/153 (13%)
Query: 484 RGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGL 543
+G LLG G FG VY + + G+ +KE+ D+
Sbjct: 4 KGELLGSGSFGSVYEGLNLDDGDFFAVKEVSLADDGQT------------------GQEA 45
Query: 544 INNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWG 603
+ L ++A+L L H N+++++G ++ L + E + GG+L +LL+ G P
Sbjct: 46 VKQLE--QEIALLSKLQHPNIVQYLGTEREEDNLYIFLELVPGGSLAKLLKKYG-SFPEP 102
Query: 604 QRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
+ R I G+ YLH N +HRD+ N LV
Sbjct: 103 VIRLYTRQILLGLEYLHDRNTVHRDIKGANILV 135
>gnl|CDD|133171 cd05039, PTKc_Csk_like, Catalytic domain of C-terminal Src
kinase-like Protein Tyrosine Kinases. Protein Tyrosine
Kinase (PTK) family; C-terminal Src kinase (Csk)
subfamily; catalytic (c) domain. The Csk subfamily is
composed of Csk, Chk, 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. Csk
subfamily kinases are cytoplasmic (or nonreceptor) tyr
kinases containing the Src homology domains, SH3 and
SH2, N-terminal to the catalytic tyr kinase domain. They
negatively regulate the activity of Src kinases that are
anchored to the plasma membrane. To inhibit Src kinases,
Csk and Chk are translocated to the membrane via binding
to specific transmembrane proteins, G-proteins, or
adaptor proteins near the membrane. Csk catalyzes the
tyr phosphorylation of the regulatory C-terminal tail of
Src kinases, resulting in their inactivation. Chk
inhibit Src kinases using a noncatalytic mechanism by
simply binding to them. As negative regulators of Src
kinases, Csk and Chk play important roles in cell
proliferation, survival, and differentiation, and
consequently, in cancer development and progression.
Length = 256
Score = 82.8 bits (205), Expect = 1e-17
Identities = 52/172 (30%), Positives = 82/172 (47%), Gaps = 31/172 (18%)
Query: 481 DLVRGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGS 540
+L G +G+G FG V +R G+ + +K L A+ FL E+
Sbjct: 7 ELKLGATIGKGEFGDVMLGDYR--GQKVAVKCLKDDSTAAQA-FLAEAS----------- 52
Query: 541 HGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPG-QP 599
V+ +L H N+++ +GV+ + L +VTEY+A G+L + L+ G
Sbjct: 53 --------------VMTTLRHPNLVQLLGVVLQGNPLYIVTEYMAKGSLVDYLRSRGRAV 98
Query: 600 LPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE--VGSGFDFHLGQ 649
+ Q++ FA D+ GM YL N +HRDL ++N LV E V DF L +
Sbjct: 99 ITLAQQLGFALDVCEGMEYLEEKNFVHRDLAARNVLVSEDLVAKVSDFGLAK 150
>gnl|CDD|173626 cd05034, PTKc_Src_like, Catalytic domain of Src kinase-like Protein
Tyrosine Kinases. Protein Tyrosine Kinase (PTK) family;
Src kinase subfamily; catalytic (c) domain. Src
subfamily members include Src, Lck, Hck, Blk, Lyn, Fgr,
Fyn, Yrk, and Yes. 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.
Src (or c-Src) proteins are cytoplasmic (or
non-receptor) tyr kinases which are anchored to the
plasma membrane. They contain an N-terminal SH4 domain
with a myristoylation site, followed by SH3 and SH2
domains, a tyr kinase domain, and a regulatory
C-terminal region containing a conserved tyr. They are
activated by autophosphorylation at the tyr kinase
domain, but are negatively regulated by phosphorylation
at the C-terminal tyr by Csk (C-terminal Src Kinase).
Src proteins are involved in signaling pathways that
regulate cytokine and growth factor responses,
cytoskeleton dynamics, cell proliferation, survival, and
differentiation. They were identified as the first
proto-oncogene products, and they regulate cell
adhesion, invasion, and motility in cancer cells and
tumor vasculature, contributing to cancer progression
and metastasis. Src kinases are overexpressed in a
variety of human cancers, making them attractive targets
for therapy. They are also implicated in acute
inflammatory responses and osteoclast function. Src,
Fyn, Yes, and Yrk are widely expressed, while Blk, Lck,
Hck, Fgr, and Lyn show a limited expression pattern.
Length = 261
Score = 82.0 bits (203), Expect = 2e-17
Identities = 49/154 (31%), Positives = 74/154 (48%), Gaps = 32/154 (20%)
Query: 488 LGQGFFGQVYRVTHRETGEVMV--LKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLIN 545
LG G FG+V+ T T +V V LK + EA FL+E+
Sbjct: 14 LGAGQFGEVWMGTWNGTTKVAVKTLKP-GTMSPEA---FLQEA----------------- 52
Query: 546 NLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDP-GQPLPWGQ 604
+++ L H +++ V ++ + +VTEY++ G+L + L+ G+ L Q
Sbjct: 53 --------QIMKKLRHDKLVQLYAVCSEEEPIYIVTEYMSKGSLLDFLKSGEGKKLRLPQ 104
Query: 605 RVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
V+ A IA GM YL S N IHRDL ++N LV E
Sbjct: 105 LVDMAAQIAEGMAYLESRNYIHRDLAARNILVGE 138
>gnl|CDD|188848 cd09464, LIM2_LIMK1, The second LIM domain of LIMK1 (LIM domain
Kinase 1). The second LIM domain of LIMK1 (LIM domain
Kinase 1): LIMK1 belongs to the LIMK protein family,
which comprises LIMK1 and LIMK2. LIMK contains two LIM
domains, a PDZ domain, and a kinase domain. LIMK is
involved in the regulation of actin polymerization and
microtubule disassembly. LIMK influences architecture of
the actin cytoskeleton by regulating the activity of the
cofilin family proteins cofilin1, cofilin2, and destrin.
The mechanism of the activation is to phosphorylates
cofilin on serine 3 and inactivates its actin-severing
activity, and altering the rate of actin
depolymerization. LIMKs can function in both cytoplasm
and nucleus. Both LIMK1 and LIMK2 can act in the nucleus
to suppress Rac/Cdc42-dependent cyclin D1 expression.
LIMK1 is expressed in all tissues and is localized to
focal adhesions in the cell. LIMK1 can form homodimers
upon binding of HSP90 and is activated by Rho effector
Rho kinase and MAPKAPK2. LIMK1 is important for normal
central nervous system development, and its deletion has
been implicated in the development of the human genetic
disorder Williams syndrome. Moreover, LIMK1 up-regulates
the promoter activity of urokinase type plasminogen
activator and induces its mRNA and protein expression in
breast cancer cells. The LIM domains have been shown to
play an important role in regulating kinase activity and
likely also contribute to LIMK function by acting as
sites of protein-to-protein interactions. All LIM
domains are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to support
the assembly of multimeric protein complexes.
Length = 55
Score = 75.7 bits (186), Expect = 3e-17
Identities = 31/55 (56%), Positives = 38/55 (69%), Gaps = 1/55 (1%)
Query: 71 CQNCGQMMS-GPVMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYCGLCY 124
C C + ++ G VMV G+ K+HPECF C C IGDG++YALVE S LYCG CY
Sbjct: 1 CHGCSETITTGLVMVAGEQKYHPECFSCLRCGAFIGDGDTYALVEHSKLYCGHCY 55
>gnl|CDD|133165 cd05033, PTKc_EphR, Catalytic domain of Ephrin Receptor Protein
Tyrosine Kinases. Protein Tyrosine Kinase (PTK) family;
Ephrin Receptor (EphR) subfamily; catalytic (c) domain.
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. EphRs
comprise the largest subfamily of receptor tyr kinases
(RTKs). They can be classified into two classes (EphA
and EphB), according to their extracellular sequences,
which largely correspond to binding preferences for
either GPI-anchored ephrin-A ligands or transmembrane
ephrin-B ligands. Vertebrates have ten EphA and six EhpB
receptors, which display promiscuous ligand interactions
within each class. EphRs contain an ephrin binding
domain and two fibronectin repeats extracellularly, a
transmembrane segment, and a cytoplasmic tyr kinase
domain. Binding of the ephrin ligand to EphR requires
cell-cell contact since both are anchored to the plasma
membrane. This allows ephrin/EphR dimers to form,
leading to the activation of the intracellular tyr
kinase domain. The resulting downstream signals occur
bidirectionally in both EphR-expressing cells (forward
signaling) and ephrin-expressing cells (reverse
signaling). The main effect of ephrin/EphR interaction
is cell-cell repulsion or adhesion. Ephrin/EphR
signaling is important in neural development and
plasticity, cell morphogenesis and proliferation,
cell-fate determination, embryonic development, tissue
patterning, and angiogenesis.
Length = 266
Score = 81.2 bits (201), Expect = 4e-17
Identities = 45/155 (29%), Positives = 70/155 (45%), Gaps = 33/155 (21%)
Query: 488 LGQGFFGQVYRVTHRETGE------VMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSH 541
+G G FG+V R + G+ + LK ++ +FL E+
Sbjct: 12 IGGGEFGEVCRGRLKLPGKKEIDVAIKTLKAGS--SDKQRLDFLTEAS------------ 57
Query: 542 GLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLP 601
++ H N+IR GV+ K R + ++TEY+ G+L + L++
Sbjct: 58 -------------IMGQFDHPNIIRLEGVVTKSRPVMIITEYMENGSLDKFLRENDGKFT 104
Query: 602 WGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
GQ V R IA+GM YL MN +HRDL ++N LV
Sbjct: 105 VGQLVGMLRGIASGMKYLSEMNYVHRDLAARNILV 139
>gnl|CDD|173728 cd06614, STKc_PAK, Catalytic domain of the Protein Serine/Threonine
Kinase, p21-activated kinase. Serine/threonine kinases
(STKs), p21-activated kinase (PAK) subfamily, catalytic
(c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The PAK 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. PAKs are Rho
family GTPase-regulated kinases that serve as important
mediators in the function of Cdc42 (cell division cycle
42) and Rac. PAKs are implicated in the regulation of
many cellular processes including growth factor
receptor-mediated proliferation, cell polarity, cell
motility, cell death and survival, and actin
cytoskeleton organization. PAK deregulation is
associated with tumor development. PAKs from higher
eukaryotes are classified into two groups (I and II),
according to their biochemical and structural features.
Group I PAKs contain a PBD (p21-binding domain)
overlapping with an AID (autoinhibitory domain), a
C-terminal catalytic domain, SH3 binding sites and a
non-classical SH3 binding site for PIX (PAK-interacting
exchange factor). Group II PAKs contain a PBD and a
catalytic domain, but lack other motifs found in group I
PAKs. Since group II PAKs do not contain an obvious AID,
they may be regulated differently from group I PAKs.
Group I PAKs interact with the SH3 containing proteins
Nck, Grb2 and PIX; no such binding has been demonstrated
for group II PAKs.
Length = 286
Score = 80.7 bits (200), Expect = 9e-17
Identities = 36/149 (24%), Positives = 72/149 (48%), Gaps = 26/149 (17%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+G+G G+VY+ T R TG+ + +K++ R+ ++ ++ + E
Sbjct: 27 IGEGASGEVYKATDRATGKEVAIKKM-RLRKQNKELIINE-------------------- 65
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
+ +++ H N++ + +L +V EY+ GG+L +++ + Q
Sbjct: 66 -----ILIMKDCKHPNIVDYYDSYLVGDELWVVMEYMDGGSLTDIITQNFVRMNEPQIAY 120
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
R++ G+ YLHS N+IHRD+ S N L+
Sbjct: 121 VCREVLQGLEYLHSQNVIHRDIKSDNILL 149
>gnl|CDD|223589 COG0515, SPS1, Serine/threonine protein kinase [General function
prediction only / Signal transduction mechanisms /
Transcription / DNA replication, recombination, and
repair].
Length = 384
Score = 82.1 bits (201), Expect = 1e-16
Identities = 43/158 (27%), Positives = 72/158 (45%), Gaps = 28/158 (17%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
LG+G FG+VY R+ + VL + + + FL+E +
Sbjct: 7 KLGEGSFGEVYLARDRKLVALKVLAKKLESKSKEVERFLREIQ----------------- 49
Query: 547 LHCFSQVAVLRSLHHH-NVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQ--PLPWG 603
+L SL+H N+++ + L LV EY+ GG+L++LL+ G+ PL
Sbjct: 50 --------ILASLNHPPNIVKLYDFFQDEGSLYLVMEYVDGGSLEDLLKKIGRKGPLSES 101
Query: 604 QRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVGS 641
+ + I + + YLHS +IHRD+ +N L+ G
Sbjct: 102 EALFILAQILSALEYLHSKGIIHRDIKPENILLDRDGR 139
>gnl|CDD|133216 cd05085, PTKc_Fer, Catalytic domain of the Protein Tyrosine Kinase,
Fer. Protein Tyrosine Kinase (PTK) family; Fer kinase;
catalytic (c) domain. 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. Fer kinase is a member
of the Fes subfamily of proteins which 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. Fer kinase is expressed in a wide
variety of tissues, and is found to reside in both the
cytoplasm and the nucleus. It plays important roles in
neuronal polarization and neurite development,
cytoskeletal reorganization, cell migration, growth
factor signaling, and the regulation of cell-cell
interactions mediated by adherens junctions and focal
adhesions. Fer kinase also regulates cell cycle
progression in malignant cells.
Length = 250
Score = 78.9 bits (194), Expect = 2e-16
Identities = 49/152 (32%), Positives = 73/152 (48%), Gaps = 25/152 (16%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
LLG+G FG+V++ T ++ V V + +E + FL E++
Sbjct: 2 LLGKGNFGEVFKGTLKDKTPVAVKTCKEDLPQELKIKFLSEAR----------------- 44
Query: 547 LHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRV 606
+L+ H N+++ IGV + + + +V E + GG L+ L Q V
Sbjct: 45 --------ILKQYDHPNIVKLIGVCTQRQPIYIVMELVPGGDFLSFLRKKKDELKTKQLV 96
Query: 607 NFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
FA D AAGM YL S N IHRDL ++NCLV E
Sbjct: 97 KFALDAAAGMAYLESKNCIHRDLAARNCLVGE 128
>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 = 78.8 bits (195), Expect = 3e-16
Identities = 46/159 (28%), Positives = 80/159 (50%), Gaps = 28/159 (17%)
Query: 485 GPLLGQGFFGQVYRVTHRETGEVMVLK--ELYRVDEEAEKNFLKESKQGLIYLIDLGSHG 542
G L+G+G FG VY+ + ETG+ + +K L ++ EEA K+ ++E IDL
Sbjct: 5 GDLIGRGAFGVVYKGLNLETGDFVAIKQISLEKIKEEALKSIMQE--------IDL---- 52
Query: 543 LINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPW 602
L++L H N++++IG + L ++ EY G+L+++++ G P P
Sbjct: 53 -------------LKNLKHPNIVKYIGSIETSDSLYIILEYAENGSLRQIIKKFG-PFPE 98
Query: 603 GQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVGS 641
+ + G+ YLH +IHRD+ + N L + G
Sbjct: 99 SLVAVYVYQVLQGLAYLHEQGVIHRDIKAANILTTKDGV 137
>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 = 79.1 bits (196), Expect = 3e-16
Identities = 45/152 (29%), Positives = 74/152 (48%), Gaps = 30/152 (19%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAE---KNFLKESKQGLIYLIDLGSHGLI 544
LG+G +G VY+ ++TGE++ LK++ R+D E E L+E
Sbjct: 7 LGEGTYGVVYKARDKKTGEIVALKKI-RLDNEEEGIPSTALRE----------------- 48
Query: 545 NNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQ 604
+++L+ L H N+++ + V++ +RKL LV EY LK+ L PL
Sbjct: 49 --------ISLLKELKHPNIVKLLDVIHTERKLYLVFEYCDM-DLKKYLDKRPGPLSPNL 99
Query: 605 RVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
+ + G+ Y HS ++HRDL QN L+
Sbjct: 100 IKSIMYQLLRGLAYCHSHRILHRDLKPQNILI 131
>gnl|CDD|132960 cd06629, STKc_MAPKKK_Bck1_like, Catalytic domain of fungal
Bck1-like MAP Kinase Kinase Kinases. Serine/threonine
kinases (STKs), mitogen-activated protein kinase (MAPK)
kinase kinase (MAPKKK) subfamily, fungal Bck1-like
proteins, 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. Members of this group include the MAPKKKs
Saccharomyces cerevisiae Bck1 and Schizosaccharomyces
pombe Mkh1, 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. Budding
yeast Bck1 is part of the cell integrity MAPK pathway,
which is activated by stresses and aggressions to the
cell wall. The MAPKKK Bck1, MAPKKs Mkk1 and Mkk2, and
the MAPK Slt2 make up the cascade that is important in
the maintenance of cell wall homeostasis. Fission yeast
Mkh1 is involved in MAPK cascades regulating cell
morphology, cell wall integrity, salt resistance, and
filamentous growth in response to stress.
Length = 272
Score = 77.9 bits (192), Expect = 7e-16
Identities = 41/154 (26%), Positives = 79/154 (51%), Gaps = 16/154 (10%)
Query: 483 VRGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHG 542
V+G L+G+G +G+VY + TGE+M +K++ A ++ ++ ++ +
Sbjct: 4 VKGELIGKGTYGRVYLALNVTTGEMMAVKQVELPATIAGRH--DSRQKDMVKALR----- 56
Query: 543 LINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPW 602
S++ L+ L H N+++++G + L++ EY+ GG++ L+ G+
Sbjct: 57 --------SEIETLKDLDHLNIVQYLGFETTEEYLSIFLEYVPGGSIGSCLRTYGRFEEQ 108
Query: 603 GQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
R F + G+ YLHS ++HRDL + N LV
Sbjct: 109 LVR-FFTEQVLEGLAYLHSKGILHRDLKADNLLV 141
>gnl|CDD|132943 cd06612, STKc_MST1_2, Catalytic domain of the Protein
Serine/Threonine Kinases, Mammalian Ste20-like protein
kinase 1 and 2. Serine/threonine kinases (STKs),
mammalian Ste20-like protein kinase 1 (MST1) and MST2
subfamily, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
MST1/2 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 MST1, MST2, and
related proteins including Drosophila Hippo and
Dictyostelium discoideum Krs1 (kinase responsive to
stress 1). MST1/2 and Hippo are involved in a conserved
pathway that governs cell contact inhibition, organ size
control, and tumor development. MST1 activates the
mitogen-activated protein kinases (MAPKs) p38 and c-Jun
N-terminal kinase (JNK) through MKK7 (a MAPK kinase) and
MEKK1 (a MAPK kinase kinase) by acting as a MAPK kinase
kinase kinase (MAPKKKK). Activation of JNK by MST1 leads
to caspase activation and apoptosis. MST1 has also been
implicated in cell proliferation and differentiation.
Krs1 may regulate cell growth arrest and apoptosis in
response to cellular stress.
Length = 256
Score = 77.3 bits (191), Expect = 1e-15
Identities = 39/154 (25%), Positives = 72/154 (46%), Gaps = 27/154 (17%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
LG+G +G VY+ H+ETG+V+ +K + V+E+ + +KE I +
Sbjct: 10 KLGEGSYGSVYKAIHKETGQVVAIKVV-PVEEDLQ-EIIKE--------ISI-------- 51
Query: 547 LHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRV 606
L+ ++++ G +K+ L +V EY G++ ++++ + L +
Sbjct: 52 ---------LKQCDSPYIVKYYGSYFKNTDLWIVMEYCGAGSVSDIMKITNKTLTEEEIA 102
Query: 607 NFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
G+ YLHS IHRD+ + N L+ E G
Sbjct: 103 AILYQTLKGLEYLHSNKKIHRDIKAGNILLNEEG 136
>gnl|CDD|133248 cd05148, PTKc_Srm_Brk, Catalytic domain of the Protein Tyrosine
Kinases, Srm and Brk. Protein Tyrosine Kinase (PTK)
family; Src-related kinase lacking C-terminal regulatory
tyrosine and N-terminal myristylation sites (Srm) and
breast tumor kinase (Brk, also called protein tyrosine
kinase 6); catalytic (c) domains. 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. Srm and
Brk are a member of the Src subfamily of proteins, which
are cytoplasmic (or non-receptor) tyr kinases. Src
kinases in general contain an N-terminal SH4 domain with
a myristoylation site, followed by SH3 and SH2 domains,
a tyr kinase domain, and a regulatory C-terminal region
containing a conserved tyr; they are activated by
autophosphorylation at the tyr kinase domain, but are
negatively regulated by phosphorylation at the
C-terminal tyr by Csk (C-terminal Src Kinase). Srm and
Brk however, lack the N-terminal myristylation sites.
Src proteins are involved in signaling pathways that
regulate cytokine and growth factor responses,
cytoskeleton dynamics, cell proliferation, survival, and
differentiation. Brk has been found to be overexpressed
in a majority of breast tumors.
Length = 261
Score = 77.1 bits (190), Expect = 1e-15
Identities = 45/152 (29%), Positives = 67/152 (44%), Gaps = 27/152 (17%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
LG G+FG+V+ + V + K L D +++F KE
Sbjct: 14 LGSGYFGEVWEGLWKNRVRVAI-KILKSDDLLKQQDFQKE-------------------- 52
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDP-GQPLPWGQRV 606
V L+ L H ++I V + ++TE + G+L L+ P GQ LP +
Sbjct: 53 -----VQALKRLRHKHLISLFAVCSVGEPVYIITELMEKGSLLAFLRSPEGQVLPVASLI 107
Query: 607 NFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
+ A +A GM YL N IHRDL ++N LV E
Sbjct: 108 DMACQVAEGMAYLEEQNSIHRDLAARNILVGE 139
>gnl|CDD|173633 cd05052, PTKc_Abl, Catalytic domain of the Protein Tyrosine Kinase,
Abelson kinase. Protein Tyrosine Kinase (PTK) family;
Abelson (Abl) kinase; catalytic (c) domain. 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. Abl (or
c-Abl) is a ubiquitously-expressed cytoplasmic (or
nonreceptor) tyr kinase that contains SH3, SH2, and tyr
kinase domains in its N-terminal region, as well as
nuclear localization motifs, a putative DNA-binding
domain, and F- and G-actin binding domains in its
C-terminal tail. It also contains a short autoinhibitory
cap region in its N-terminus. Abl is normally inactive
and requires phosphorylation and myristoylation for
activation. Abl function depends on its subcellular
localization. In the cytoplasm, Abl plays a role in cell
proliferation and survival. In response to DNA damage or
oxidative stress, Abl is transported to the nucleus
where it induces apoptosis. In chronic myelogenous
leukemia (CML) patients, an aberrant translocation
results in the replacement of the first exon of Abl with
the BCR (breakpoint cluster region) gene. The resulting
BCR-Abl fusion protein is constitutively active and
associates into tetramers, resulting in a hyperactive
kinase sending a continuous signal. This leads to
uncontrolled proliferation, morphological transformation
and anti-apoptotic effects. BCR-Abl is the target of
selective inhibitors, such as imatinib (Gleevec), used
in the treatment of CML. Abl2, also known as ARG
(Abelson-related gene), is thought to play a cooperative
role with Abl in the proper development of the nervous
system. The Tel-ARG fusion protein, resulting from
reciprocal translocation between chromosomes 1 and 12,
is associated with acute myeloid leukemia (AML). The TEL
gene is a frequent fusion partner of other tyr kinase
oncogenes, including Tel/Abl, Tel/PDGFRbeta, and
Tel/Jak2, found in patients with leukemia and
myeloproliferative disorders.
Length = 263
Score = 76.8 bits (189), Expect = 1e-15
Identities = 42/160 (26%), Positives = 75/160 (46%), Gaps = 27/160 (16%)
Query: 480 SDLVRGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLG 539
+D+ LG G +G+VY ++ + +K L + D + FLKE+
Sbjct: 6 TDITMKHKLGGGQYGEVYEGVWKKYSLTVAVKTL-KEDTMEVEEFLKEA----------- 53
Query: 540 SHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPG-Q 598
AV++ + H N+++ +GV ++ ++TE++ G L + L++ Q
Sbjct: 54 --------------AVMKEIKHPNLVQLLGVCTREPPFYIITEFMTYGNLLDYLRECNRQ 99
Query: 599 PLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
+ + A I++ M YL N IHRDL ++NCLV E
Sbjct: 100 EVNAVVLLYMATQISSAMEYLEKKNFIHRDLAARNCLVGE 139
>gnl|CDD|188847 cd09463, LIM1_LIMK2, The first LIM domain of LIMK2 (LIM domain
Kinase 2). The first LIM domain of LIMK2 (LIM domain
Kinase 2): LIMK2 is a member of the LIMK protein
family, which comprises LIMK1 and LIMK2. LIMK contains
two LIM domains, a PDZ domain, and a kinase domain.
LIMK is involved in the regulation of actin
polymerization and microtubule disassembly. LIMK
influences architecture of the actin cytoskeleton by
regulating the activity of the cofilin family proteins
cofilin1, cofilin2, and destrin. The mechanism of the
activation is to phosphorylates cofilin on serine 3 and
inactivates its actin-severing activity, altering the
rate of actin depolymerization. LIMK activity is
activated by phosphorylation of a threonine residue
within the activation loop of the kinase by
p21-activated kinases 1 and 4 and by Rho kinase. LIMKs
can function in both cytoplasm and nucleus. Both LIMK1
and LIMK2 can act in the nucleus to suppress
Rac/Cdc42-dependent cyclin D1 expression. LIMK2 is
expressed in all tissues. While LIMK1 localizes mainly
at focal adhesions, LIMK2 is found in cytoplasmic
punctae, suggesting that they may have different
cellular functions. The activity of LIM kinase 2 to
regulate cofilin phosphorylation is inhibited by the
direct binding of Par-3. LIMK2 activation promotes cell
cycle progression. The phenotype of Limk2 knockout mice
shows a defect in spermatogenesis. The LIM domains have
been shown to play an important role in regulating
kinase activity and likely also contribute to LIMK
function by acting as sites of protein-to-protein
interactions. All LIM domains are 50-60 amino acids in
size and share two characteristic zinc finger motifs.
The two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately
bond to two zinc atoms. LIM domains function as
adaptors or scaffolds to support the assembly of
multimeric protein complexes.
Length = 53
Score = 69.9 bits (171), Expect = 3e-15
Identities = 22/52 (42%), Positives = 32/52 (61%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWYFEKDGLLFCKEDY 63
C GC I + + + + + WH CF+CS C +L NWY+EKDG L+C + Y
Sbjct: 1 CTGCGGRIQDSFHYRVVQEAWHNSCFQCSVCQDLLTNWYYEKDGKLYCHKHY 52
>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 = 76.6 bits (189), Expect = 3e-15
Identities = 42/159 (26%), Positives = 70/159 (44%), Gaps = 28/159 (17%)
Query: 485 GPLLGQGFFGQVYRVTHRETGEVMVLKELY--RVDEEAEKNFLKESKQGLIYLIDLGSHG 542
+G+G G V++ RETGE + LK++ R++ L+E K
Sbjct: 5 LGRIGEGAHGIVFKAKDRETGETVALKKVALRRLEGGIPNQALREIK------------- 51
Query: 543 LINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPW 602
L++ H V++ + V LV EY+ L E+L+D +PLP
Sbjct: 52 ------------ALQACQHPYVVKLLDVFPHGSGFVLVMEYM-PSDLSEVLRDEERPLPE 98
Query: 603 GQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVGS 641
Q ++ R + G+ Y+H+ ++HRDL N L+ G
Sbjct: 99 AQVKSYMRMLLKGVAYMHANGIMHRDLKPANLLISADGV 137
>gnl|CDD|132942 cd06611, STKc_SLK_like, Catalytic domain of Ste20-like kinase-like
Protein Serine/Threonine Kinases. Serine/threonine
kinases (STKs), Ste20-like kinase (SLK)-like subfamily,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The SLK-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 the subfamily include SLK, STK10
(also called LOK for lymphocyte-oriented kinase), SmSLK
(Schistosoma mansoni SLK), and related proteins. SLK
promotes apoptosis through apoptosis signal-regulating
kinase 1 (ASK1) and the mitogen-activated protein kinase
(MAPK) p38. It also plays a role in mediating actin
reorganization. STK10 is responsible in regulating the
CD28 responsive element in T cells, as well as leukocyte
function associated antigen (LFA-1)-mediated lymphocyte
adhesion. SmSLK is capable of activating the MAPK Jun
N-terminal kinase (JNK) pathway in human embryonic
kidney (HEK) cells as well as in Xenopus oocytes. It may
participate in regulating MAPK cascades during
host-parasite interactions.
Length = 280
Score = 76.3 bits (188), Expect = 3e-15
Identities = 51/194 (26%), Positives = 80/194 (41%), Gaps = 42/194 (21%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
LG G FG+VY+ H+ETG K + EE ++F+ E ID
Sbjct: 13 LGDGAFGKVYKAQHKETGLFAAAKIIQIESEEELEDFMVE--------ID---------- 54
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
+L H N++ + + KL ++ E+ GG L ++ + + L Q
Sbjct: 55 -------ILSECKHPNIVGLYEAYFYENKLWILIEFCDGGALDSIMLELERGLTEPQIRY 107
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLVREVGSGFDFHLGQIYLIYVPYTLFILSAKTK 667
R + + +LHS +IHRDL + N L+ G V F +SAK K
Sbjct: 108 VCRQMLEALNFLHSHKVIHRDLKAGNILLTLDGD-------------VKLADFGVSAKNK 154
Query: 668 KTYYPNILKKASFI 681
T + K+ +FI
Sbjct: 155 ST----LQKRDTFI 164
>gnl|CDD|133212 cd05081, PTKc_Jak2_Jak3_rpt2, Catalytic (repeat 2) domain of the
Protein Tyrosine Kinases, Janus kinases 2 and 3.
Protein Tyrosine Kinase (PTK) family; Janus kinase 2
(Jak2) and Jak3; catalytic (c) domain (repeat 2). 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. Jak2 and
Jak3 are members of the Janus kinase (Jak) subfamily of
proteins, which are cytoplasmic (or nonreceptor) tyr
kinases containing an N-terminal FERM domain, followed
by a Src homology 2 (SH2) domain, a pseudokinase domain,
and a C-terminal catalytic tyr kinase domain. Jaks are
crucial for cytokine receptor signaling. They are
activated by autophosphorylation upon cytokine-induced
receptor aggregation, and subsequently trigger
downstream signaling events such as the phosphorylation
of signal transducers and activators of transcription
(STATs). Jak2 is widely expressed in many tissues while
Jak3 is expressed only in hematopoietic cells. Jak2 is
essential for the signaling of hormone-like cytokines
such as growth hormone, erythropoietin, thrombopoietin,
and prolactin, as well as some IFNs and cytokines that
signal through the IL-3 and gp130 receptors. Jak3 binds
the shared receptor subunit common gamma chain and thus,
is essential in the signaling of cytokines that use it
such as IL-2, IL-4, IL-7, IL-9, IL-15, and IL-21.
Disruption of Jak2 in mice results in an embryonic
lethal phenotype with multiple defects including
erythropoietic and cardiac abnormalities. It is the only
Jak gene that results in a lethal phenotype when
disrupted in mice. A mutation in the pseudokinase domain
of Jak2, V617F, is present in many myeloproliferative
diseases, including almost all patients with
polycythemia vera, and 50% of patients with essential
thrombocytosis and myelofibrosis. Jak3 is important in
lymphoid development and myeloid cell differentiation.
Inactivating mutations in Jak3 have been reported in
humans with severe combined immunodeficiency (SCID).
Length = 284
Score = 76.3 bits (188), Expect = 3e-15
Identities = 49/156 (31%), Positives = 74/156 (47%), Gaps = 31/156 (19%)
Query: 487 LLGQGFFGQV----YRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHG 542
LG+G FG V Y TGEV+ +K+L E ++F +E
Sbjct: 11 QLGKGNFGSVELCRYDPLQDNTGEVVAVKKLQHSTAEHLRDFERE--------------- 55
Query: 543 LINNLHCFSQVAVLRSLHHHNVIRFIGVLYK--DRKLNLVTEYIAGGTLKELLQDPGQPL 600
+ +L+SL H N++++ GV Y R L LV EY+ G+L++ LQ + L
Sbjct: 56 ----------IEILKSLQHDNIVKYKGVCYSAGRRNLRLVMEYLPYGSLRDYLQKHRERL 105
Query: 601 PWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
+ + +A I GM YL S +HRDL ++N LV
Sbjct: 106 DHRKLLLYASQICKGMEYLGSKRYVHRDLATRNILV 141
>gnl|CDD|133194 cd05063, PTKc_EphR_A2, Catalytic domain of the Protein Tyrosine
Kinase, Ephrin Receptor A2. Protein Tyrosine Kinase
(PTK) family; Ephrin Receptor (EphR) subfamily; EphA2
receptor; catalytic (c) domain. 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. EphRs
comprise the largest subfamily of receptor tyr kinases
(RTKs). In general, class EphA receptors bind
GPI-anchored ephrin-A ligands. There are ten vertebrate
EphA receptors (EphA1-10), which display promiscuous
interactions with six ephrin-A ligands. EphRs contain an
ephrin binding domain and two fibronectin repeats
extracellularly, a transmembrane segment, and a
cytoplasmic tyr kinase domain. Binding of the ephrin
ligand to EphR requires cell-cell contact since both are
anchored to the plasma membrane. The resulting
downstream signals occur bidirectionally in both
EphR-expressing cells (forward signaling) and
ephrin-expressing cells (reverse signaling). Ephrin/EphR
interaction mainly results in cell-cell repulsion or
adhesion, making it important in neural development and
plasticity, cell morphogenesis, cell-fate determination,
embryonic development, tissue patterning, and
angiogenesis. The EphA2 receptor is overexpressed in
tumor cells and tumor blood vessels in a variety of
cancers including breast, prostate, lung, and colon. As
a result, it is an attractive target for drug design
since its inhibition could affect several aspects of
tumor progression.
Length = 268
Score = 76.2 bits (187), Expect = 3e-15
Identities = 52/163 (31%), Positives = 77/163 (47%), Gaps = 33/163 (20%)
Query: 480 SDLVRGPLLGQGFFGQVYRVTHRETG--EVMV----LKELYRVDEEAEKNFLKESKQGLI 533
S + + ++G G FG+V+R + G EV V LK Y E+ ++FL E+
Sbjct: 5 SHITKQKVIGAGEFGEVFRGILKMPGRKEVAVAIKTLKPGY--TEKQRQDFLSEA----- 57
Query: 534 YLIDLGSHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELL 593
+++ HHN+IR GV+ K + ++TEY+ G L + L
Sbjct: 58 --------------------SIMGQFSHHNIIRLEGVVTKFKPAMIITEYMENGALDKYL 97
Query: 594 QDPGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
+D Q V R IAAGM YL MN +HRDL ++N LV
Sbjct: 98 RDHDGEFSSYQLVGMLRGIAAGMKYLSDMNYVHRDLAARNILV 140
>gnl|CDD|173771 cd08529, STKc_FA2-like, Catalytic domain of the Protein
Serine/Threonine Kinase, Chlamydomonas reinhardtii FA2
and similar domains. Serine/Threonine Kinases (STKs),
Chlamydomonas reinhardtii FA2-like subfamily, catalytic
(c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The Chlamydomonas
reinhardtii FA2-like subfamily belongs to the
(NIMA)-related kinase (Nek) family. The Nek family
includes seven different Chlamydomonas Neks (CNKs 1-6
and Fa2). This subfamily includes FA2 and CNK4. 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. Chlamydomonas reinhardtii FA2 was discovered
in a genetic screen for deflagellation-defective
mutants. It is essential for
basal-body/centriole-associated microtubule severing,
and plays a role in cell cycle progression. No cellular
function has yet been ascribed to CNK4.
Length = 256
Score = 74.9 bits (184), Expect = 7e-15
Identities = 42/147 (28%), Positives = 61/147 (41%), Gaps = 24/147 (16%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+G+G FG V++V + V +K+ IDL
Sbjct: 8 IGKGSFGVVFKVVRKADKRVYAMKQ-----------------------IDLSKMNRRERE 44
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQ-DPGQPLPWGQRV 606
+ VL L +IR+ KLN+V EY G L +LL+ G+PLP Q
Sbjct: 45 EAIDEARVLAKLDSSYIIRYYESFLDKGKLNIVMEYAENGDLHKLLKMQRGRPLPEDQVW 104
Query: 607 NFARDIAAGMTYLHSMNLIHRDLNSQN 633
F I G+ +LHS ++HRD+ S N
Sbjct: 105 RFFIQILLGLAHLHSKKILHRDIKSLN 131
>gnl|CDD|173725 cd06608, STKc_myosinIII_like, Catalytic domain of Class III
myosin-like Protein Serine/Threonine Kinases.
Serine/threonine kinases (STKs), Class III myosin-like
subfamily, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
class III myosin-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. Class III myosins are motor
proteins with an N-terminal kinase catalytic domain and
a C-terminal actin-binding motor domain. Class III
myosins are present in the photoreceptors of
invertebrates and vertebrates and in the auditory hair
cells of mammals. The kinase domain of myosin III can
phosphorylate several cytoskeletal proteins,
conventional myosin regulatory light chains, and can
autophosphorylate the C-terminal motor domain. Myosin
III may play an important role in maintaining the
structural integrity of photoreceptor cell microvilli.
It may also function as a cargo carrier during
light-dependent translocation, in photoreceptor cells,
of proteins such as transducin and arrestin. The
Drosophila class III myosin, called NinaC (Neither
inactivation nor afterpotential protein C), is critical
in normal adaptation and termination of photoresponse.
Vertebrates contain two isoforms of class III myosin,
IIIA and IIIB. This subfamily also includes mammalian
NIK-like embryo-specific kinase (NESK), Traf2- and
Nck-interacting kinase (TNIK), mitogen-activated protein
kinase (MAPK) kinase kinase kinase 4 (MAPKKKK4 or
MAP4K4) and MAPKKKK6 (or MAP4K6). MAP4Ks are involved in
some MAPK signaling pathways 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. MAPK signaling cascades are important in
mediating cellular responses to extracellular signals.
Length = 275
Score = 73.9 bits (182), Expect = 2e-14
Identities = 43/163 (26%), Positives = 75/163 (46%), Gaps = 34/163 (20%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
++G+G +G+VY+ H++TG+++ +K + + E+ E+ +E N
Sbjct: 13 VIGEGTYGKVYKARHKKTGQLVAIKIM-DIIEDEEEEIKEE----------------YNI 55
Query: 547 LHCFSQVAVLRSLHHHNVIRFIGVLYK------DRKLNLVTEYIAGGTLKEL---LQDPG 597
L +S +H N+ F G K D +L LV E GG++ +L L+ G
Sbjct: 56 LRKYS--------NHPNIATFYGAFIKKNPPGNDDQLWLVMELCGGGSVTDLVKGLRKKG 107
Query: 598 QPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
+ L R+ G+ YLH +IHRD+ QN L+ +
Sbjct: 108 KRLKEEWIAYILRETLRGLAYLHENKVIHRDIKGQNILLTKNA 150
>gnl|CDD|173671 cd05580, STKc_PKA, Catalytic domain of the Protein Serine/Threonine
Kinase, cAMP-dependent protein kinase. Serine/Threonine
Kinases (STKs), cAMP-dependent protein kinase (PKA)
subfamily, 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 (PI3K). This subfamily is composed of the
cAMP-dependent proteins kinases, PKA and PRKX. The
inactive PKA holoenzyme is a heterotetramer composed of
two phosphorylated and active catalytic (C) subunits
with a dimer of regulatory (R) subunits. Activation is
achieved through the binding of the important second
messenger cAMP to the R subunits, which leads to the
dissociation of PKA into the R dimer and two active C
subunits. PKA is present ubiquitously in cells and
interacts with many different downstream targets. It
plays a role in the regulation of diverse processes such
as growth, development, memory, metabolism, gene
expression, immunity, and lipolysis.
Length = 290
Score = 73.3 bits (181), Expect = 3e-14
Identities = 45/162 (27%), Positives = 74/162 (45%), Gaps = 25/162 (15%)
Query: 480 SDLVRGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLG 539
D LG G FG+V V H+ +G+ LK L K + + KQ ++
Sbjct: 1 DDFEFIKTLGTGSFGRVMLVRHKGSGKYYALKIL-------SKAKIVKLKQ-----VE-- 46
Query: 540 SHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQ- 598
H ++ +L+S+ H ++ G D L LV EY+ GG L L+ G+
Sbjct: 47 --------HVLNEKRILQSIRHPFLVNLYGSFQDDSNLYLVMEYVPGGELFSHLRKSGRF 98
Query: 599 PLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
P P + +A + + YLHS+++++RDL +N L+ G
Sbjct: 99 PEPVARF--YAAQVVLALEYLHSLDIVYRDLKPENLLLDSDG 138
>gnl|CDD|133179 cd05048, PTKc_Ror, Catalytic Domain of the Protein Tyrosine
Kinases, Receptor tyrosine kinase-like Orphan Receptors.
Protein Tyrosine Kinase (PTK) family; Receptor tyrosine
kinase-like Orphan Receptor (Ror) subfamily; catalytic
(c) domain. The Ror subfamily consists of Ror1, Ror2,
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. Ror proteins are orphan
receptor tyr kinases (RTKs) containing an extracellular
region with immunoglobulin-like, cysteine-rich, and
kringle domains, a transmembrane segment, and an
intracellular catalytic domain. Ror RTKs are unrelated
to the nuclear receptor subfamily called
retinoid-related orphan receptors (RORs). RTKs are
usually activated through ligand binding, which causes
dimerization and autophosphorylation of the
intracellular tyr kinase catalytic domain. Ror kinases
are expressed in many tissues during development. They
play important roles in bone and heart formation.
Mutations in human Ror2 result in two different bone
development genetic disorders, recessive Robinow
syndrome and brachydactyly type B. Drosophila Ror is
expressed only in the developing nervous system during
neurite outgrowth and neuronal differentiation,
suggesting a role for Drosophila Ror in neural
development. More recently, mouse Ror1 and Ror2 have
also been found to play an important role in regulating
neurite growth in central neurons. Ror1 and Ror2 are
believed to have some overlapping and redundant
functions.
Length = 283
Score = 72.9 bits (179), Expect = 5e-14
Identities = 54/167 (32%), Positives = 75/167 (44%), Gaps = 36/167 (21%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
LG+G FG+VY+ GE+ E A K LKE+ + +
Sbjct: 13 LGEGAFGKVYK------GELTGPNERLSATSVAIKT-LKENAEPKVQ------------- 52
Query: 548 HCFSQVAVLRS-LHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELL------QDPG--- 597
F Q A L S L H N++ +GV K++ ++ EY+A G L E L D G
Sbjct: 53 QEFRQEAELMSDLQHPNIVCLLGVCTKEQPTCMLFEYLAHGDLHEFLVRNSPHSDVGAES 112
Query: 598 ------QPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
L ++ A IAAGM YL S + +HRDL ++NCLV E
Sbjct: 113 GDETVKSSLDCSDFLHIAIQIAAGMEYLSSHHFVHRDLAARNCLVGE 159
>gnl|CDD|132956 cd06625, STKc_MEKK3_like, Catalytic domain of MAP/ERK kinase kinase
3-like Protein Serine/Threonine Kinases.
Serine/threonine kinases (STKs), MAP/ERK kinase kinase 3
(MEKK3)-like subfamily, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine/threonine residues on protein substrates.
The MEKK3-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
MEKK3, MEKK2, and related proteins, all containing an
N-terminal PB1 domain, which mediates oligomerization,
and a C-terminal catalytic domain. MEKK2 and MEKK3 are
mitogen-activated protein kinase (MAPK) kinase kinases
(MAPKKKs or MKKKs or MAP3Ks), proteins that
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.
MEKK2 and MEKK3 activate MEK5 (also called MKK5), which
activates extracellular signal-regulated kinase 5
(ERK5). The ERK5 cascade plays roles in promoting cell
proliferation, differentiation, neuronal survival, and
neuroprotection. MEKK3 plays an essential role in
embryonic angiogenesis and early heart development.
MEKK2 and MEKK3 can also activate the MAPKs, c-Jun
N-terminal kinase (JNK) and p38, through their
respective MAPKKs.
Length = 263
Score = 72.1 bits (177), Expect = 6e-14
Identities = 46/152 (30%), Positives = 76/152 (50%), Gaps = 21/152 (13%)
Query: 484 RGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGL 543
RG LLGQG FG+VY +TG + +K++ F +S +
Sbjct: 6 RGKLLGQGAFGRVYLCYDVDTGRELAVKQV---------PFDPDSP-------ETKKE-- 47
Query: 544 INNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWG 603
+N L C ++ +L++L H ++++ G L D L++ EY+ GG++K+ L+ G L
Sbjct: 48 VNALEC--EIQLLKNLQHERIVQYYGCLRDDETLSIFMEYMPGGSVKDQLKAYG-ALTET 104
Query: 604 QRVNFARDIAAGMTYLHSMNLIHRDLNSQNCL 635
+ R I G+ YLHS ++HRD+ N L
Sbjct: 105 VTRKYTRQILEGVEYLHSNMIVHRDIKGANIL 136
>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 = 71.9 bits (177), Expect = 7e-14
Identities = 39/153 (25%), Positives = 66/153 (43%), Gaps = 25/153 (16%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+G G +G VY+ TGE++ +K + + + +E
Sbjct: 11 IGSGTYGDVYKARDIATGELVAIKVIKLEPGDDFEIIQQE-------------------- 50
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
+++L+ H N++ + G + KL +V EY GG+L+++ Q PL Q
Sbjct: 51 -----ISMLKECRHPNIVAYFGSYLRRDKLWIVMEYCGGGSLQDIYQVTRGPLSELQIAY 105
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
R+ G+ YLH IHRD+ N L+ E G
Sbjct: 106 VCRETLKGLAYLHETGKIHRDIKGANILLTEDG 138
>gnl|CDD|173657 cd05113, PTKc_Btk_Bmx, Catalytic domain of the Protein Tyrosine
Kinases, Bruton's tyrosine kinase and Bone marrow kinase
on the X chromosome. Protein Tyrosine Kinase (PTK)
family; Bruton's tyrosine kinase (Btk) and Bone marrow
kinase on the X chromosome (Bmx); catalytic (c) domain.
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. Btk and
Bmx (also named Etk) are members of the Tec subfamily of
proteins, which are cytoplasmic (or nonreceptor) tyr
kinases with similarity to Src kinases in that they
contain Src homology protein interaction domains (SH3,
SH2) N-terminal to the catalytic tyr kinase domain.
Unlike Src kinases, most Tec subfamily members (except
Rlk) also contain an N-terminal pleckstrin homology (PH)
domain, which binds the products of PI3K and allows
membrane recruitment and activation. In addition, Btk
contains the Tec homology (TH) domain with proline-rich
and zinc-binding regions. Tec kinases are expressed
mainly by haematopoietic cells. Btk is expressed in
B-cells, and a variety of myeloid cells including mast
cells, platelets, neutrophils, and dendrictic cells. It
interacts with a variety of partners, from cytosolic
proteins to nuclear transcription factors, suggesting a
diversity of functions. Stimulation of a diverse array
of cell surface receptors, including antigen engagement
of the B-cell receptor (BCR), leads to PH-mediated
membrane translocation of Btk and subsequent
phosphorylation by Src kinase and activation. Btk plays
an important role in the life cycle of B-cells including
their development, differentiation, proliferation,
survival, and apoptosis. Mutations in Btk cause the
primary immunodeficiency disease, X-linked
agammaglobulinaemia (XLA) in humans. Bmx is primarily
expressed in bone marrow and the arterial endothelium,
and plays an important role in ischemia-induced
angiogenesis. It facilitates arterial growth, capillary
formation, vessel maturation, and bone marrow-derived
endothelial progenitor cell mobilization.
Length = 256
Score = 71.4 bits (175), Expect = 8e-14
Identities = 32/91 (35%), Positives = 50/91 (54%)
Query: 550 FSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVNFA 609
+ V+ L H +++ GV K R + +VTEY++ G L L++ G+ Q +
Sbjct: 47 IEEAKVMMKLSHEKLVQLYGVCTKQRPIYIVTEYMSNGCLLNYLREHGKRFQPSQLLEMC 106
Query: 610 RDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
+D+ GM YL S IHRDL ++NCLV + G
Sbjct: 107 KDVCEGMAYLESKQFIHRDLAARNCLVDDQG 137
>gnl|CDD|133199 cd05068, PTKc_Frk_like, Catalytic domain of Fyn-related kinase-like
Protein Tyrosine Kinases. Protein Tyrosine Kinase (PTK)
family; Human Fyn-related kinase (Frk) and similar
proteins; catalytic (c) domain. 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. Frk and
Srk are members of the Src subfamily of proteins, which
are cytoplasmic (or non-receptor) tyr kinases. Src
kinases contain an N-terminal SH4 domain with a
myristoylation site, followed by SH3 and SH2 domains, a
tyr kinase domain, and a regulatory C-terminal region
containing a conserved tyr. They are activated by
autophosphorylation at the tyr kinase domain, but are
negatively regulated by phosphorylation at the
C-terminal tyr by Csk (C-terminal Src Kinase). Src
proteins are involved in signaling pathways that
regulate cytokine and growth factor responses,
cytoskeleton dynamics, cell proliferation, survival, and
differentiation. Frk, also known as Rak, is specifically
expressed in liver, lung, kidney, intestine, mammary
glands, and the islets of Langerhans. Rodent homologs
were previously referred to as GTK (gastrointestinal tyr
kinase), BSK (beta-cell Src-like kinase), or IYK
(intestinal tyr kinase). Studies in mice reveal that Frk
is not essential for viability. It plays a role in the
signaling that leads to cytokine-induced beta-cell death
in Type I diabetes. It also regulates beta-cell number
during embryogenesis and early in life.
Length = 261
Score = 71.7 bits (176), Expect = 8e-14
Identities = 46/152 (30%), Positives = 70/152 (46%), Gaps = 28/152 (18%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
LG G FG+V+ T V V K L + K+FL E++
Sbjct: 14 LGAGQFGEVWEGLWNNTTPVAV-KTL-KPGTMDPKDFLAEAQ------------------ 53
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQ-DPGQPLPWGQRV 606
+++ L H +I+ V + + +VTE + G+L E LQ G+ L Q +
Sbjct: 54 -------IMKKLRHPKLIQLYAVCTLEEPIYIVTELMKYGSLLEYLQGGAGRALKLPQLI 106
Query: 607 NFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
+ A +A+GM YL + N IHRDL ++N LV E
Sbjct: 107 DMAAQVASGMAYLEAQNYIHRDLAARNVLVGE 138
>gnl|CDD|143344 cd07839, STKc_CDK5, Catalytic domain of the Serine/Threonine
Kinase, Cyclin-Dependent protein Kinase 5.
Serine/Threonine Kinases (STKs), Cyclin-Dependent
protein Kinase 5 (CDK5) subfamily, catalytic (c) domain.
STKs catalyze the transfer of the gamma-phosphoryl group
from ATP to serine/threonine residues on protein
substrates. The CDK5 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. CDK5
is unusual in that it is regulated by non-cyclin
proteins, p35 and p39. It is highly expressed in the
nervous system and is critical in normal neural
development and function. It plays a role in neuronal
migration and differentiation, and is also important in
synaptic plasticity and learning. CDK5 also participates
in protecting against cell death and promoting
angiogenesis. Impaired CDK5 activity is implicated in
Alzheimer's disease, amyotrophic lateral sclerosis,
Parkinson's disease, Huntington's disease and acute
neuronal injury.
Length = 284
Score = 72.1 bits (177), Expect = 9e-14
Identities = 49/170 (28%), Positives = 83/170 (48%), Gaps = 26/170 (15%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+G+G +G V++ +RET E++ LK + R+D++ E G+ ++
Sbjct: 8 IGEGTYGTVFKAKNRETHEIVALKRV-RLDDDDE--------------------GVPSS- 45
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
++ +L+ L H N++R VL+ D+KL LV EY K G P + +
Sbjct: 46 -ALREICLLKELKHKNIVRLYDVLHSDKKLTLVFEYCDQDLKKYFDSCNGDIDPEIVK-S 103
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLVREVGS--GFDFHLGQIYLIYV 655
F + G+ + HS N++HRDL QN L+ + G DF L + + I V
Sbjct: 104 FMFQLLKGLAFCHSHNVLHRDLKPQNLLINKNGELKLADFGLARAFGIPV 153
>gnl|CDD|173625 cd05032, PTKc_InsR_like, Catalytic domain of Insulin Receptor-like
Protein Tyrosine Kinases. Protein Tyrosine Kinase (PTK)
family; Insulin Receptor (InsR) subfamily; catalytic (c)
domain. 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). The InsR subfamily
is composed of InsR, Insulin-like Growth Factor-1
Receptor (IGF-1R), and similar proteins. PTKs catalyze
the transfer of the gamma-phosphoryl group from ATP to
tyrosine (tyr) residues in protein substrates. InsR and
IGF-1R are receptor tyr kinases (RTKs) composed of two
alphabeta heterodimers. Binding of the ligand (insulin,
IGF-1, or IGF-2) to the extracellular alpha subunit
activates the intracellular tyr kinase domain of the
transmembrane beta subunit. Receptor activation leads to
autophosphorylation, stimulating downstream kinase
activities, which initiate signaling cascades and
biological function. InsR and IGF-1R, which share 84%
sequence identity in their kinase domains, display
physiologically distinct yet overlapping functions in
cell growth, differentiation, and metabolism. InsR
activation leads primarily to metabolic effects while
IGF-1R activation stimulates mitogenic pathways. In
cells expressing both receptors, InsR/IGF-1R hybrids are
found together with classical receptors. Both receptors
can interact with common adaptor molecules such as IRS-1
and IRS-2.
Length = 277
Score = 71.6 bits (176), Expect = 1e-13
Identities = 44/179 (24%), Positives = 69/179 (38%), Gaps = 42/179 (23%)
Query: 476 IFRASDLVRGPLLGQGFFGQVYR------VTHRETGEVMVLKELYRVDEEAEK-NFLKES 528
+ LGQG FG VY V V + K + E+ FL E+
Sbjct: 2 ELPREKITLIRELGQGSFGMVYEGLAKGVVKGEPETRVAI-KTVNENASMRERIEFLNEA 60
Query: 529 KQGLIYLIDLGSHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGT 588
+V++ + H+V+R +GV+ + +V E +A G
Sbjct: 61 -------------------------SVMKEFNCHHVVRLLGVVSTGQPTLVVMELMAKGD 95
Query: 589 LKELLQ---------DPGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
LK L+ P + + A +IA GM YL + +HRDL ++NC+V E
Sbjct: 96 LKSYLRSRRPEAENNPGLGPPTLQKFIQMAAEIADGMAYLAAKKFVHRDLAARNCMVAE 154
>gnl|CDD|133172 cd05040, PTKc_Ack_like, Catalytic domain of the Protein Tyrosine
Kinase, Activated Cdc42-associated kinase. Protein
Tyrosine Kinase (PTK) family; Activated Cdc42-associated
kinase (Ack) subfamily; catalytic (c) domain. Ack
subfamily members include Ack1, thirty-eight-negative
kinase 1 (Tnk1), 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. Ack
subfamily members are cytoplasmic (or nonreceptor) tyr
kinases containing an N-terminal catalytic domain, an
SH3 domain, a Cdc42-binding CRIB domain, and a
proline-rich region. They are mainly expressed in brain
and skeletal tissues and are involved in the regulation
of cell adhesion and growth, receptor degradation, and
axonal guidance. Ack1 is also associated with
androgen-independent prostate cancer progression. Tnk1
regulates TNFalpha signaling and may play an important
role in cell death.
Length = 257
Score = 70.5 bits (173), Expect = 2e-13
Identities = 35/101 (34%), Positives = 51/101 (50%), Gaps = 3/101 (2%)
Query: 538 LGSHGLINNLHCFSQ-VAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDP 596
L S L + + F + A++ SL H N+IR GV+ L +VTE G+L + L+
Sbjct: 31 LKSDKLSDIMDDFLKEAAIMHSLDHENLIRLYGVVL-THPLMMVTELAPLGSLLDRLRKD 89
Query: 597 GQP-LPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
++A IA GM YL S IHRDL ++N L+
Sbjct: 90 ALGHFLISTLCDYAVQIANGMRYLESKRFIHRDLAARNILL 130
>gnl|CDD|132940 cd06609, STKc_MST3_like, Catalytic domain of Mammalian Ste20-like
protein kinase 3-like Protein Serine/Threonine Kinases.
Serine/threonine kinases (STKs), mammalian Ste20-like
protein kinase 3 (MST3)-like subfamily, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The MST3-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 MST3, MST4,
STK25, Schizosaccharomyces pombe Nak1 and Sid1,
Saccharomyces cerevisiae sporulation-specific protein 1
(SPS1), and related proteins. Nak1 is required by
fission yeast for polarizing the tips of actin
cytoskeleton and is involved in cell growth, cell
separation, cell morphology and cell-cycle progression.
Sid1 is a component in the septation initiation network
(SIN) signaling pathway, and plays a role in
cytokinesis. SPS1 plays a role in regulating proteins
required for spore wall formation. MST4 plays a role in
mitogen-activated protein kinase (MAPK) signaling during
cytoskeletal rearrangement, morphogenesis, and
apoptosis. MST3 phosphorylates the STK NDR and may play
a role in cell cycle progression and cell morphology.
STK25 may play a role in the regulation of cell
migration and polarization.
Length = 274
Score = 71.1 bits (175), Expect = 2e-13
Identities = 43/155 (27%), Positives = 68/155 (43%), Gaps = 28/155 (18%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYRVD-EEAEKNFLKESKQGLIYLIDLGSHGLIN 545
+G+G FG+VY+ + T +V+ +K +D EEAE I I
Sbjct: 8 CIGKGSFGEVYKAIDKRTNQVVAIKV---IDLEEAEDE---------IEDIQQ------- 48
Query: 546 NLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQR 605
++ L + ++ G K KL ++ EY GG+ +LL+ PG L
Sbjct: 49 ------EIQFLSQCRSPYITKYYGSFLKGSKLWIIMEYCGGGSCLDLLK-PG-KLDETYI 100
Query: 606 VNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
R++ G+ YLH IHRD+ + N L+ E G
Sbjct: 101 AFILREVLLGLEYLHEEGKIHRDIKAANILLSEEG 135
>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 = 70.8 bits (174), Expect = 2e-13
Identities = 44/152 (28%), Positives = 71/152 (46%), Gaps = 24/152 (15%)
Query: 484 RGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGL 543
RG +G G FG+VY + +TGE+M +KE+ D +
Sbjct: 4 RGNKIGGGTFGKVYTAVNLDTGELMAVKEIRIQDND---------------------PKT 42
Query: 544 INNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWG 603
I + ++ VL L H N++++ GV K+ + EY +GGTL+ELL+ G+ L
Sbjct: 43 IKEIA--DEMKVLELLKHPNLVKYYGVEVHREKVYIFMEYCSGGTLEELLEH-GRILDEH 99
Query: 604 QRVNFARDIAAGMTYLHSMNLIHRDLNSQNCL 635
+ + G+ YLHS ++HRD+ N
Sbjct: 100 VIRVYTLQLLEGLAYLHSHGIVHRDIKPANIF 131
>gnl|CDD|173751 cd07860, STKc_CDK2_3, Catalytic domain of the Serine/Threonine
Kinases, Cyclin-Dependent protein Kinase 2 and 3.
Serine/Threonine Kinases (STKs), Cyclin-dependent
protein kinase 2 (CDK2) and CDK3 subfamily, catalytic
(c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The CDK2/3 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. 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. CDK2, together with CDK4,
also regulates embryonic cell proliferation. Despite
these important roles, mice deleted for the cdk2 gene
are viable and normal except for being sterile. This may
be due to compensation provided by CDK1 (also called
Cdc2), which can also bind cyclin E and drive the 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 = 284
Score = 71.0 bits (174), Expect = 2e-13
Identities = 40/154 (25%), Positives = 78/154 (50%), Gaps = 23/154 (14%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+G+G +G VY+ ++ TGEV+ LK++ R+D E E G+ +
Sbjct: 8 IGEGTYGVVYKARNKLTGEVVALKKI-RLDTETE--------------------GVPST- 45
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
++++L+ L+H N+++ + V++ + KL LV E++ K + P +P +
Sbjct: 46 -AIREISLLKELNHPNIVKLLDVIHTENKLYLVFEFLHQDLKKFMDASPLSGIPLPLIKS 104
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLVREVGS 641
+ + G+ + HS ++HRDL QN L+ G+
Sbjct: 105 YLFQLLQGLAFCHSHRVLHRDLKPQNLLINTEGA 138
>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 = 70.2 bits (173), Expect = 2e-13
Identities = 42/153 (27%), Positives = 69/153 (45%), Gaps = 33/153 (21%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
LG+G FG+V V ++TG++ +K L +K + + K+
Sbjct: 1 LGKGSFGKVLLVRKKDTGKLYAMKVL-------KKKKIIKRKE---------------VE 38
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYK----DRKLNLVTEYIAGGTLKELLQDPGQ-PLPW 602
H ++ +L ++H FI L+ + KL LV EY GG L L G+
Sbjct: 39 HTLTERNILSRINH----PFIVKLHYAFQTEEKLYLVLEYAPGGELFSHLSKEGRFSEER 94
Query: 603 GQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCL 635
+ +A +I + YLHS+ +I+RDL +N L
Sbjct: 95 ARF--YAAEIVLALEYLHSLGIIYRDLKPENIL 125
>gnl|CDD|133168 cd05036, PTKc_ALK_LTK, Catalytic domain of the Protein Tyrosine
Kinases, Anaplastic Lymphoma Kinase and Leukocyte
Tyrosine Kinase. Protein Tyrosine Kinase (PTK) family;
Anaplastic Lymphoma Kinase (ALK) and Leukocyte Tyrosine
(tyr) Kinase (LTK); catalytic (c) domain. 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 tyr
residues in protein substrates. ALK and LTK are orphan
receptor tyr kinases (RTKs) whose ligands are not yet
well-defined. RTKs contain an extracellular
ligand-binding domain, a transmembrane region, and an
intracellular tyr kinase domain. They are usually
activated through ligand binding, which causes
dimerization and autophosphorylation of the
intracellular tyr kinase catalytic domain. ALK appears
to play an important role in mammalian neural
development as well as visceral muscle differentiation
in Drosophila. ALK is aberrantly expressed as fusion
proteins, due to chromosomal translocations, in about
60% of anaplastic large cell lymphomas (ALCLs). ALK
fusion proteins are also found in rare cases of diffuse
large B cell lymphomas (DLBCLs). LTK is mainly expressed
in B lymphocytes and neuronal tissues. It is important
in cell proliferation and survival. Transgenic mice
expressing TLK display retarded growth and high
mortality rate. In addition, a polymorphism in mouse and
human LTK is implicated in the pathogenesis of systemic
lupus erythematosus.
Length = 277
Score = 70.9 bits (174), Expect = 2e-13
Identities = 49/173 (28%), Positives = 78/173 (45%), Gaps = 39/173 (22%)
Query: 482 LVRGPLLGQGFFGQVYR--VTHRETGEV---MVLKELYRV-DEEAEKNFLKESKQGLIYL 535
L+R LG G FG+VY R+ V + +K L E+ E +FL E+
Sbjct: 10 LLRA--LGHGAFGEVYEGLYRGRDGDAVELQVAVKTLPESCSEQDESDFLMEA------- 60
Query: 536 IDLGSHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQD 595
++ +H N++R IGV ++ ++ E +AGG LK L++
Sbjct: 61 ------------------LIMSKFNHQNIVRLIGVSFERLPRFILLELMAGGDLKSFLRE 102
Query: 596 ----PGQPLPWGQR--VNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVGSG 642
P +P + + ARD+A G YL + IHRD+ ++NCL+ G G
Sbjct: 103 NRPRPERPSSLTMKDLLFCARDVAKGCKYLEENHFIHRDIAARNCLLTCKGPG 155
>gnl|CDD|132982 cd06651, STKc_MEKK3, Catalytic domain of the Protein
Serine/Threonine Kinase, MAP/ERK kinase kinase 3.
Serine/threonine kinases (STKs), MAP/ERK kinase kinase 3
(MEKK3) subfamily, catalytic (c) domain. STKs catalyze
the transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
MEKK3 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. MEKK3 is a mitogen-activated protein kinase
(MAPK) kinase kinase (MAPKKK or MKKK or MAP3K), that
phosphorylates and activates the MAPK kinase MEK5 (or
MKK5), which in turn phosphorylates and activates
extracellular signal-regulated kinase 5 (ERK5). The ERK5
cascade plays roles in promoting cell proliferation,
differentiation, neuronal survival, and neuroprotection.
MEKK3 plays an essential role in embryonic angiogenesis
and early heart development. In addition, MEKK3 is
involved in interleukin-1 receptor and Toll-like
receptor 4 signaling. It is also a specific regulator of
the proinflammatory cytokines IL-6 and GM-CSF in some
immune cells. MEKK3 also regulates calcineurin, which
plays a critical role in T cell activation, apoptosis,
skeletal myocyte differentiation, and cardiac
hypertrophy.
Length = 266
Score = 70.5 bits (172), Expect = 2e-13
Identities = 48/160 (30%), Positives = 82/160 (51%), Gaps = 23/160 (14%)
Query: 484 RGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGL 543
RG LLGQG FG+VY +TG + K++ + D E+ + SK+
Sbjct: 6 RGKLLGQGAFGRVYLCYDVDTGRELAAKQV-QFDPESPET----SKE------------- 47
Query: 544 INNLHCFSQVAVLRSLHHHNVIRFIGVL--YKDRKLNLVTEYIAGGTLKELLQDPGQPLP 601
++ L C ++ +L++L H ++++ G L ++ L + EY+ GG++K+ L+ G L
Sbjct: 48 VSALEC--EIQLLKNLQHERIVQYYGCLRDRAEKTLTIFMEYMPGGSVKDQLKAYGA-LT 104
Query: 602 WGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVGS 641
+ R I GM+YLHS ++HRD+ N L G+
Sbjct: 105 ESVTRKYTRQILEGMSYLHSNMIVHRDIKGANILRDSAGN 144
>gnl|CDD|173634 cd05053, PTKc_FGFR, Catalytic domain of the Protein Tyrosine
Kinases, Fibroblast Growth Factor Receptors. Protein
Tyrosine Kinase (PTK) family; Fibroblast Growth Factor
Receptor (FGFR) subfamily; catalytic (c) domain. The
FGFR subfamily consists of FGFR1, FGFR2, FGFR3, FGFR4,
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. FGFR subfamily members
are receptor tyr kinases (RTKs) containing an
extracellular ligand-binding region with three
immunoglobulin-like domains, a transmembrane segment,
and an intracellular catalytic domain. The binding of
FGFRs to their ligands, the FGFs, and to heparin/heparan
sulfate (HS) results in the formation of a ternary
complex, which leads to receptor dimerization and
activation, and intracellular signaling. There are at
least 23 FGFs and four types of FGFRs. The binding of
FGFs to FGFRs is promiscuous, in that a receptor may be
activated by several ligands and a ligand may bind to
more that one type of receptor. FGF/FGFR signaling is
important in the regulation of embryonic development,
homeostasis, and regenerative processes. Depending on
the cell type and stage, FGFR signaling produces diverse
cellular responses including proliferation, growth
arrest, differentiation, and apoptosis. Aberrant
signaling leads to many human diseases such as skeletal,
olfactory, and metabolic disorders, as well as cancer.
Length = 293
Score = 70.9 bits (174), Expect = 2e-13
Identities = 52/186 (27%), Positives = 77/186 (41%), Gaps = 51/186 (27%)
Query: 477 FRASDLVRGPLLGQGFFGQVYRVTHRE--------TGEVMVLKELYRVDEEAEKNFLKES 528
L G LG+G FGQV + T V +LK D+ EK+
Sbjct: 9 LPRDRLTLGKPLGEGAFGQVVKAEAVGLDNPNETSTVAVKMLK-----DDATEKD----- 58
Query: 529 KQGLIYLIDLGSHGLINNLHCFSQVAVLRSL-HHHNVIRFIGVLYKDRKLNLVTEYIAGG 587
L DL S++ +++ + H N+I +GV ++ L +V EY A G
Sbjct: 59 ------LSDL-----------VSEMEMMKMIGKHKNIINLLGVCTQEGPLYVVVEYAAHG 101
Query: 588 TLKELLQD---------------PGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQ 632
L++ L+ P + L V+FA +A GM +L S IHRDL ++
Sbjct: 102 NLRDFLRARRPPGEYASPDDPRPPEETLTQKDLVSFAYQVARGMEFLASKKCIHRDLAAR 161
Query: 633 NCLVRE 638
N LV E
Sbjct: 162 NVLVTE 167
>gnl|CDD|173632 cd05051, PTKc_DDR, Catalytic domain of the Protein Tyrosine
Kinases, Discoidin Domain Receptors. Protein Tyrosine
Kinase (PTK) family; Discoidin Domain Receptor (DDR)
subfamily; catalytic (c) domain. The DDR subfamily
consists of homologs of mammalian DDR1, DDR2, 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.
DDR subfamily members are receptor tyr kinases (RTKs)
containing an extracellular discoidin homology domain, a
transmembrane segment, an extended juxtamembrane region,
and an intracellular catalytic domain. The binding of
the ligand, collagen, to DDRs results in a slow but
sustained receptor activation. DDRs regulate cell
adhesion, proliferation, and extracellular matrix
remodeling. They have been linked to a variety of human
cancers including breast, colon, ovarian, brain, and
lung. There is no evidence showing that DDRs act as
transforming oncogenes. They are more likely to play a
role in the regulation of tumor growth and metastasis.
Length = 296
Score = 70.8 bits (174), Expect = 3e-13
Identities = 34/96 (35%), Positives = 50/96 (52%), Gaps = 10/96 (10%)
Query: 551 SQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQ-----DPG-----QPL 600
+V +L L N+ R +GV D L ++ EY+ G L + LQ G + L
Sbjct: 68 KEVKILSRLSDPNIARLLGVCTVDPPLCMIMEYMENGDLNQFLQKHVAETSGLACNSKSL 127
Query: 601 PWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
+ + A IA+GM YL S+N +HRDL ++NCLV
Sbjct: 128 SFSTLLYMATQIASGMRYLESLNFVHRDLATRNCLV 163
>gnl|CDD|132975 cd06644, STKc_STK10_LOK, Catalytic domain of the Protein
Serine/Threonine Kinase, STK10 or Lymphocyte-oriented
kinase. Serine/threonine kinases (STKs), STK10
subfamily, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
STK10 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. Other names for STK10 include
lymphocyte-oriented kinase (LOK) and Xenopus polo-like
kinase kinase 1 (xPlkk1). STK10 is highly expressed in
lymphocytes and is responsible in regulating leukocyte
function associated antigen (LFA-1)-mediated lymphocyte
adhesion. It plays a role in regulating the CD28
responsive element in T cells, and may also function as
a regulator of polo-like kinase 1 (Plk1), a protein
which is overexpressed in multiple tumor types.
Length = 292
Score = 70.4 bits (172), Expect = 3e-13
Identities = 51/194 (26%), Positives = 86/194 (44%), Gaps = 42/194 (21%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
LG G FG+VY+ ++ETG + K + EE ++++ E
Sbjct: 20 LGDGAFGKVYKAKNKETGALAAAKVIETKSEEELEDYMVE-------------------- 59
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
+ +L + +H +++ +G Y D KL ++ E+ GG + ++ + + L Q
Sbjct: 60 -----IEILATCNHPYIVKLLGAFYWDGKLWIMIEFCPGGAVDAIMLELDRGLTEPQIQV 114
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLVREVGSGFDFHLGQIYLIYVPYTLFILSAKTK 667
R + + YLHSM +IHRDL + N L+ G D L F +SAK
Sbjct: 115 ICRQMLEALQYLHSMKIIHRDLKAGNVLLTLDG---DIKLAD----------FGVSAKNV 161
Query: 668 KTYYPNILKKASFI 681
KT + ++ SFI
Sbjct: 162 KT----LQRRDSFI 171
>gnl|CDD|133180 cd05049, PTKc_Trk, Catalytic domain of the Protein Tyrosine
Kinases, Tropomyosin Related Kinases. Protein Tyrosine
Kinase (PTK) family; Tropomyosin Related Kinase (Trk)
subfamily; catalytic (c) domain. The Trk subfamily
consists of TrkA, TrkB, TrkC, 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. Trk
subfamily members are receptor tyr kinases (RTKs)
containing an extracellular region with arrays of
leucine-rich motifs flanked by two cysteine-rich
clusters followed by two immunoglobulin-like domains, a
transmembrane segment, and an intracellular catalytic
domain. Binding to their ligands, the nerve growth
factor (NGF) family of neutrotrophins, leads to Trk
receptor oligomerization and activation of the catalytic
domain. Trk receptors are mainly expressed in the
peripheral and central nervous systems. They play
important roles in cell fate determination, neuronal
survival and differentiation, as well as in the
regulation of synaptic plasticity. Altered expression of
Trk receptors is associated with many human diseases.
Length = 280
Score = 69.8 bits (171), Expect = 4e-13
Identities = 48/182 (26%), Positives = 72/182 (39%), Gaps = 48/182 (26%)
Query: 476 IFRASDLVRGPLLGQGFFGQVYRVT--HRETGE------VMVLKELYRVDEEAEKNFLKE 527
+ +V LG+G FG+V+ H E V LKE +A K+F +E
Sbjct: 1 HVQRDTIVLKRELGEGAFGKVFLGECYHLEPENDKELVAVKTLKET--ASNDARKDFERE 58
Query: 528 SKQGLIYLIDLGSHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGG 587
+L + H N+++F GV + +V EY+ G
Sbjct: 59 -------------------------AELLTNFQHENIVKFYGVCTEGDPPIMVFEYMEHG 93
Query: 588 TLKELLQDPG-------------QPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNC 634
L + L+ G L Q + A IA+GM YL S + +HRDL ++NC
Sbjct: 94 DLNKFLRSHGPDAAFLKSPDSPMGELTLSQLLQIAVQIASGMVYLASQHFVHRDLATRNC 153
Query: 635 LV 636
LV
Sbjct: 154 LV 155
>gnl|CDD|133214 cd05083, PTKc_Chk, Catalytic domain of the Protein Tyrosine Kinase,
Csk homologous kinase. Protein Tyrosine Kinase (PTK)
family; Csk homologous kinase (Chk); catalytic (c)
domain. 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. Csk
subfamily kinases are cytoplasmic (or nonreceptor) tyr
kinases containing the Src homology domains, SH3 and
SH2, N-terminal to the catalytic tyr kinase domain. They
negatively regulate the activity of Src kinases that are
anchored to the plasma membrane. Chk is also referred to
as megakaryocyte-associated tyrosine kinase (Matk). To
inhibit Src kinases, Chk is translocated to the membrane
via binding to specific transmembrane proteins,
G-proteins, or adaptor proteins near the membrane. Chk
inhibit Src kinases using a noncatalytic mechanism by
simply binding to them. As a negative regulator of Src
kinases, Chk may play important roles in cell
proliferation, survival, and differentiation, and
consequently, in cancer development and progression. Chk
is expressed in brain and hematopoietic cells. Studies
in mice reveal that Chk is not functionally redundant
with Csk and that it plays an important role as a
regulator of immune responses. Chk also plays a role in
neural differentiation in a manner independent of Src by
enhancing Mapk activation via Ras-mediated signaling.
Length = 254
Score = 69.2 bits (169), Expect = 4e-13
Identities = 54/174 (31%), Positives = 86/174 (49%), Gaps = 33/174 (18%)
Query: 480 SDLVRGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLG 539
L G ++G+G FG V + + TG+ + +K + + D A+ FL+E+
Sbjct: 6 QKLTLGEIIGEGEFGAVLQGEY--TGQKVAVKNI-KCDVTAQA-FLEET----------- 50
Query: 540 SHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQP 599
AV+ LHH N++R +GV+ + L +V E ++ G L L+ G+
Sbjct: 51 --------------AVMTKLHHKNLVRLLGVILHN-GLYIVMELMSKGNLVNFLRTRGRA 95
Query: 600 L-PWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE--VGSGFDFHLGQI 650
L Q + F+ D+A GM YL S L+HRDL ++N LV E V DF L ++
Sbjct: 96 LVSVIQLLQFSLDVAEGMEYLESKKLVHRDLAARNILVSEDGVAKVSDFGLARV 149
>gnl|CDD|133213 cd05082, PTKc_Csk, Catalytic domain of the Protein Tyrosine Kinase,
C-terminal Src kinase. Protein Tyrosine Kinase (PTK)
family; C-terminal Src kinase (Csk); catalytic (c)
domain. 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. The Csk
subfamily kinases are cytoplasmic (or nonreceptor) tyr
kinases containing the Src homology domains, SH3 and
SH2, N-terminal to the catalytic tyr kinase domain. They
negatively regulate the activity of Src kinases that are
anchored to the plasma membrane. To inhibit Src kinases,
Csk is translocated to the membrane via binding to
specific transmembrane proteins, G-proteins, or adaptor
proteins near the membrane. Csk catalyzes the tyr
phosphorylation of the regulatory C-terminal tail of Src
kinases, resulting in their inactivation. Csk is
expressed in a wide variety of tissues. As a negative
regulator of Src, Csk plays a role in cell
proliferation, survival, and differentiation, and
consequently, in cancer development and progression. In
addition, Csk also shows Src-independent functions. It
is a critical component in G-protein signaling, and
plays a role in cytoskeletal reorganization and cell
migration.
Length = 256
Score = 69.2 bits (169), Expect = 4e-13
Identities = 31/90 (34%), Positives = 57/90 (63%), Gaps = 2/90 (2%)
Query: 551 SQVAVLRSLHHHNVIRFIGVLYKDR-KLNLVTEYIAGGTLKELLQDPGQPLPWGQR-VNF 608
++ +V+ L H N+++ +GV+ +++ L +VTEY+A G+L + L+ G+ + G + F
Sbjct: 48 AEASVMTQLRHSNLVQLLGVIVEEKGGLYIVTEYMAKGSLVDYLRSRGRSVLGGDCLLKF 107
Query: 609 ARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
+ D+ M YL + N +HRDL ++N LV E
Sbjct: 108 SLDVCEAMEYLEANNFVHRDLAARNVLVSE 137
>gnl|CDD|173648 cd05092, PTKc_TrkA, Catalytic domain of the Protein Tyrosine
Kinase, Tropomyosin Related Kinase A. Protein Tyrosine
Kinase (PTK) family; Tropomyosin Related Kinase A
(TrkA); catalytic (c) domain. 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. TrkA is a member of the
Trk subfamily of proteins, which are receptor tyr
kinases (RTKs) containing an extracellular region with
arrays of leucine-rich motifs flanked by two
cysteine-rich clusters followed by two
immunoglobulin-like domains, a transmembrane segment,
and an intracellular catalytic domain. Binding of TrkA
to its ligand, nerve growth factor (NGF), results in
receptor oligomerization and activation of the catalytic
domain. TrkA is expressed mainly in neural-crest-derived
sensory and sympathetic neurons of the peripheral
nervous system, and in basal forebrain cholinergic
neurons of the central nervous system. It is critical
for neuronal growth, differentiation and survival.
Alternative TrkA splicing has been implicated as a
pivotal regulator of neuroblastoma (NB) behavior. Normal
TrkA expression is associated with better NB prognosis,
while the hypoxia-regulated TrkAIII splice variant
promotes NB pathogenesis and progression. Aberrant TrkA
expression has also been demonstrated in non-neural
tumors including prostate, breast, lung, and pancreatic
cancers.
Length = 280
Score = 69.6 bits (170), Expect = 6e-13
Identities = 49/177 (27%), Positives = 79/177 (44%), Gaps = 44/177 (24%)
Query: 481 DLVRGPLLGQGFFGQVY-----RVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYL 535
D+V LG+G FG+V+ + + ++ +K L E A ++F +E++
Sbjct: 6 DIVLKWELGEGAFGKVFLAECHNLLPEQDKMLVAVKALKEASESARQDFQREAE------ 59
Query: 536 IDLGSHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQD 595
+L L H +++RF GV + R L +V EY+ G L L+
Sbjct: 60 -------------------LLTVLQHQHIVRFYGVCTEGRPLLMVFEYMRHGDLNRFLRS 100
Query: 596 PGQ--------------PLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
G L GQ + A IA+GM YL S++ +HRDL ++NCLV +
Sbjct: 101 HGPDAKILAGGEDVAPGQLTLGQMLAIASQIASGMVYLASLHFVHRDLATRNCLVGQ 157
>gnl|CDD|173638 cd05065, PTKc_EphR_B, Catalytic domain of the Protein Tyrosine
Kinases, Class EphB Ephrin Receptors. Protein Tyrosine
Kinase (PTK) family; Ephrin Receptor (EphR) subfamily;
class EphB receptors; catalytic (c) domain. 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. EphRs
comprise the largest subfamily of receptor tyr kinases
(RTKs). Class EphB receptors bind to transmembrane
ephrin-B ligands. There are six vertebrate EhpB
receptors (EphB1-6), which display promiscuous
interactions with three ephrin-B ligands. One exception
is EphB2, which also interacts with ephrin A5. EphRs
contain an ephrin-binding domain and two fibronectin
repeats extracellularly, a transmembrane segment, and a
cytoplasmic tyr kinase domain. Binding of the ephrin
ligand to EphR requires cell-cell contact since both are
anchored to the plasma membrane. The resulting
downstream signals occur bidirectionally in both
EphR-expressing cells (forward signaling) and
ephrin-expressing cells (reverse signaling). Ephrin/EphR
interaction mainly results in cell-cell repulsion or
adhesion. EphBRs play important roles in synapse
formation and plasticity, spine morphogenesis, axon
guidance, and angiogenesis. In the intestinal
epithelium, EphBRs are Wnt signaling target genes that
control cell compartmentalization. They function as
suppressors of color cancer progression.
Length = 269
Score = 68.7 bits (168), Expect = 1e-12
Identities = 48/157 (30%), Positives = 72/157 (45%), Gaps = 35/157 (22%)
Query: 487 LLGQGFFGQVYRVTHRETGE------VMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGS 540
++G G FG+V R + G+ + LK Y E+ ++FL E+
Sbjct: 11 VIGAGEFGEVCRGRLKLPGKREIFVAIKTLKSGY--TEKQRRDFLSEA------------ 56
Query: 541 HGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELL-QDPGQP 599
+++ H N+I GV+ K R + ++TE++ G L L Q+ GQ
Sbjct: 57 -------------SIMGQFDHPNIIHLEGVVTKSRPVMIITEFMENGALDSFLRQNDGQ- 102
Query: 600 LPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
Q V R IAAGM YL MN +HRDL ++N LV
Sbjct: 103 FTVIQLVGMLRGIAAGMKYLSEMNYVHRDLAARNILV 139
>gnl|CDD|188711 cd08368, LIM, LIM is a small protein-protein interaction domain,
containing two zinc fingers. LIM domains are
identified in a diverse group of proteins with wide
variety of biological functions, including gene
expression regulation, cell fate determination,
cytoskeleton organization, tumor formation and
development. LIM domains function as adaptors or
scaffolds to support the assembly of multimeric protein
complexes. They perform their functions through
interactions with other protein partners. LIM domains
are 50-60 amino acids in size and share two
characteristic highly conserved zinc finger motifs. The
two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately
bond to two zinc atoms. The consensus sequence of LIM
domain has been defined as
C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,
21)-C-x(2,3)-[CHD] (where X denotes any amino acid).
Length = 53
Score = 62.7 bits (153), Expect = 1e-12
Identities = 22/53 (41%), Positives = 33/53 (62%), Gaps = 1/53 (1%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDN-WYFEKDGLLFCKEDY 63
CAGC I E ++AL ++WH +CF+CS C L ++EKDG +C++ Y
Sbjct: 1 CAGCGKPIEGRELLRALGKKWHPECFKCSVCGKPLGGDSFYEKDGKPYCEKCY 53
Score = 51.2 bits (123), Expect = 1e-08
Identities = 20/55 (36%), Positives = 30/55 (54%), Gaps = 3/55 (5%)
Query: 71 CQNCGQMMSG-PVMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYCGLCY 124
C CG+ + G ++ K+HPECFKC+ C +G G+S+ + YC CY
Sbjct: 1 CAGCGKPIEGRELLRALGKKWHPECFKCSVCGKPLG-GDSFYEKDGKP-YCEKCY 53
>gnl|CDD|173637 cd05059, PTKc_Tec_like, Catalytic domain of Tec-like Protein
Tyrosine Kinases. Protein Tyrosine Kinase (PTK) family;
Tyrosine kinase expressed in hepatocellular carcinoma
(Tec) subfamily; catalytic (c) domain. The Tec subfamily
is composed of Tec, Btk, Bmx (Etk), Itk (Tsk, Emt), Rlk
(Txk), 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. Tec kinases are
cytoplasmic (or nonreceptor) tyr kinases (nRTKs) with
similarity to Src kinases in that they contain Src
homology protein interaction domains (SH3, SH2)
N-terminal to the catalytic tyr kinase domain. Unlike
Src kinases, most Tec subfamily members (except Rlk)
also contain an N-terminal pleckstrin homology (PH)
domain, which binds the products of PI3K and allows
membrane recruitment and activation. In addition, some
members contain the Tec homology (TH) domain, which
contains proline-rich and zinc-binding regions. Tec
kinases form the second largest subfamily of nRTKs and
are expressed mainly by haematopoietic cells, although
Tec and Bmx are also found in endothelial cells. B-cells
express Btk and Tec, while T-cells express Itk, Txk, and
Tec. Collectively, Tec kinases are expressed in a
variety of myeloid cells such as mast cells, platelets,
macrophages, and dendritic cells. Each Tec kinase shows
a distinct cell-type pattern of expression. The function
of Tec kinases in lymphoid cells have been studied
extensively. They play important roles in the
development, differentiation, maturation, regulation,
survival, and function of B-cells and T-cells. Mutations
in Btk cause the severe B-cell immunodeficiency,
X-linked agammaglobulinaemia (XLA).
Length = 256
Score = 68.2 bits (167), Expect = 1e-12
Identities = 48/160 (30%), Positives = 73/160 (45%), Gaps = 27/160 (16%)
Query: 479 ASDLVRGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDL 538
S+L LG G FG V+ R G++ V ++ R +E +F++E+K
Sbjct: 3 PSELTFLKELGSGQFGVVHLGKWR--GKIDVAIKMIREGAMSEDDFIEEAK--------- 51
Query: 539 GSHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQ 598
V+ L H N+++ GV K R + +VTEY+A G L L++
Sbjct: 52 ----------------VMMKLSHPNLVQLYGVCTKQRPIFIVTEYMANGCLLNYLRERKG 95
Query: 599 PLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
L ++ D+ M YL S IHRDL ++NCLV E
Sbjct: 96 KLGTEWLLDMCSDVCEAMEYLESNGFIHRDLAARNCLVGE 135
>gnl|CDD|173644 cd05079, PTKc_Jak1_rpt2, Catalytic (repeat 2) domain of the Protein
Tyrosine Kinase, Janus kinase 1. Protein Tyrosine
Kinase (PTK) family; Janus kinase 1 (Jak1); catalytic
(c) domain (repeat 2). 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. Jak1 is a member of the
Janus kinase (Jak) subfamily of proteins, which are
cytoplasmic (or nonreceptor) tyr kinases containing an
N-terminal FERM domain, followed by a Src homology 2
(SH2) domain, a pseudokinase domain, and a C-terminal
tyr kinase domain. Jaks are crucial for cytokine
receptor signaling. They are activated by
autophosphorylation upon cytokine-induced receptor
aggregation, and subsequently trigger downstream
signaling events such as the phosphorylation of signal
transducers and activators of transcription (STATs).
Jak1 is widely expressed in many tissues. Many cytokines
are dependent on Jak1 for signaling, including those
that use the shared receptor subunits common gamma chain
(IL-2, IL-4, IL-7, IL-9, IL-15, IL-21) and gp130 (IL-6,
IL-11, oncostatin M, G-CSF, and IFNs, among others). The
many varied interactions of Jak1 and its ubiquitous
expression suggest many biological roles. Jak1 is
important in neurological development, as well as in
lymphoid development and function. It also plays a role
in the pathophysiology of cardiac hypertrophy and heart
failure. A mutation in the ATP-binding site of Jak1 was
identified in a human uterine leiomyosarcoma cell line,
resulting in defective cytokine induction and antigen
presentation, thus allowing the tumor to evade the
immune system.
Length = 284
Score = 68.8 bits (168), Expect = 1e-12
Identities = 47/155 (30%), Positives = 76/155 (49%), Gaps = 30/155 (19%)
Query: 488 LGQGFFGQV----YRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGL 543
LG+G FG+V Y TGE + +K L ES G+H
Sbjct: 12 LGEGHFGKVELCRYDPEGDNTGEQVAVKSLK-----------PESG---------GNH-- 49
Query: 544 INNLHCFSQVAVLRSLHHHNVIRFIGVLYKD--RKLNLVTEYIAGGTLKELLQDPGQPLP 601
I +L ++ +LR+L+H N++++ G+ +D + L+ E++ G+LKE L +
Sbjct: 50 IADLK--KEIEILRNLYHENIVKYKGICTEDGGNGIKLIMEFLPSGSLKEYLPRNKNKIN 107
Query: 602 WGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
Q++ +A I GM YL S +HRDL ++N LV
Sbjct: 108 LKQQLKYAVQICKGMDYLGSRQYVHRDLAARNVLV 142
>gnl|CDD|133192 cd05061, PTKc_InsR, Catalytic domain of the Protein Tyrosine
Kinase, Insulin Receptor. Protein Tyrosine Kinase (PTK)
family; Insulin Receptor (InsR); catalytic (c) domain.
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. InsR is a
receptor tyr kinase (RTK) that is composed of two
alphabeta heterodimers. Binding of the insulin ligand to
the extracellular alpha subunit activates the
intracellular tyr kinase domain of the transmembrane
beta subunit. Receptor activation leads to
autophosphorylation, stimulating downstream kinase
activities, which initiate signaling cascades and
biological function. InsR signaling plays an important
role in many cellular processes including glucose
homeostasis, glycogen synthesis, lipid and protein
metabolism, ion and amino acid transport, cell cycle and
proliferation, cell differentiation, gene transcription,
and nitric oxide synthesis. Insulin resistance, caused
by abnormalities in InsR signaling, has been described
in diabetes, hypertension, cardiovascular disease,
metabolic syndrome, heart failure, and female
infertility.
Length = 288
Score = 68.5 bits (167), Expect = 1e-12
Identities = 49/162 (30%), Positives = 78/162 (48%), Gaps = 32/162 (19%)
Query: 488 LGQGFFGQVYRVTHRE--TGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLIN 545
LGQG FG VY R+ GE + V+E A L+E + L
Sbjct: 14 LGQGSFGMVYEGNARDIIKGEAETRVAVKTVNESAS---LRERIEFL------------- 57
Query: 546 NLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQ--------DPG 597
++ +V++ H+V+R +GV+ K + +V E +A G LK L+ +PG
Sbjct: 58 -----NEASVMKGFTCHHVVRLLGVVSKGQPTLVVMELMAHGDLKSYLRSLRPEAENNPG 112
Query: 598 QPLP-WGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
+P P + + A +IA GM YL++ +HRDL ++NC+V
Sbjct: 113 RPPPTLQEMIQMAAEIADGMAYLNAKKFVHRDLAARNCMVAH 154
>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 = 68.5 bits (168), Expect = 1e-12
Identities = 43/157 (27%), Positives = 70/157 (44%), Gaps = 30/157 (19%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYRV--DEEAEKNFLKESKQGLIYLIDLGSHGLI 544
++G+G +G V + ++ TGE++ +K+ DE+ +K L+E
Sbjct: 8 VVGEGAYGVVLKCRNKATGEIVAIKKFKESEDDEDVKKTALRE----------------- 50
Query: 545 NNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDP-GQPLPWG 603
V VLR L H N++ + +L LV EY+ L+ L P G P
Sbjct: 51 --------VKVLRQLRHENIVNLKEAFRRKGRLYLVFEYVERTLLELLEASPGGLPPDAV 102
Query: 604 QRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
+ + + + Y HS N+IHRD+ +N LV E G
Sbjct: 103 RSYIW--QLLQAIAYCHSHNIIHRDIKPENILVSESG 137
>gnl|CDD|133211 cd05080, PTKc_Tyk2_rpt2, Catalytic (repeat 2) domain of the Protein
Tyrosine Kinase, Tyrosine kinase 2. Protein Tyrosine
Kinase (PTK) family; Tyrosine kinase 2 (Tyk2); catalytic
(c) domain (repeat 2). 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. Tyk2 is a member of the
Janus kinase (Jak) subfamily of proteins, which are
cytoplasmic (or nonreceptor) tyr kinases containing an
N-terminal FERM domain, followed by a Src homology 2
(SH2) domain, a pseudokinase domain, and a C-terminal
tyr kinase catalytic domain. Jaks are crucial for
cytokine receptor signaling. They are activated by
autophosphorylation upon cytokine-induced receptor
aggregation, and subsequently trigger downstream
signaling events such as the phosphorylation of signal
transducers and activators of transcription (STATs).
Tyk2 is widely expressed in many tissues. It is involved
in signaling via the cytokine receptors IFN-alphabeta,
IL-6, IL-10, IL-12, IL-13, and IL-23. It mediates cell
surface urokinase receptor (uPAR) signaling and plays a
role in modulating vascular smooth muscle cell (VSMC)
functional behavior in response to injury. Tyk2 is also
important in dendritic cell function and T helper (Th)1
cell differentiation. A homozygous mutation of Tyk2 was
found in a patient with hyper-IgE syndrome (HIES), a
primary immunodeficiency characterized by recurrent skin
abscesses, pneumonia, and elevated serum IgE. This
suggests that Tyk2 may play important roles in multiple
cytokine signaling involved in innate and adaptive
immunity.
Length = 283
Score = 68.0 bits (166), Expect = 2e-12
Identities = 46/156 (29%), Positives = 77/156 (49%), Gaps = 34/156 (21%)
Query: 488 LGQGFFGQV----YRVTHRETGEVMVLKELYR-VDEEAEKNFLKESKQGLIYLIDLGSHG 542
LG+G FG+V Y + TGE++ +K L R ++ + KE
Sbjct: 12 LGEGHFGKVSLYCYDPANDGTGEMVAVKTLKRECGQQNTSGWKKE--------------- 56
Query: 543 LINNLHCFSQVAVLRSLHHHNVIRFIGVLYK--DRKLNLVTEYIAGGTLKELLQDPGQPL 600
+ +L++L+H N++++ G + + L L+ EY+ G+L++ L P L
Sbjct: 57 ----------INILKTLYHENIVKYKGCCSEQGGKGLQLIMEYVPLGSLRDYL--PKHKL 104
Query: 601 PWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
Q + FA+ I GM YLHS + IHRDL ++N L+
Sbjct: 105 NLAQLLLFAQQICEGMAYLHSQHYIHRDLAARNVLL 140
>gnl|CDD|173723 cd06605, PKc_MAPKK, Catalytic domain of the dual-specificity
Protein Kinase, Mitogen-Activated Protein Kinase Kinase.
Protein kinases (PKs), MAP kinase kinase (MAPKK)
subfamily, catalytic (c) domain. PKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine or tyrosine residues on protein
substrates. The MAPKK subfamily is part of a larger
superfamily that includes the catalytic domains of other
protein serine/threonine kinases, protein tyrosine
kinases, RIO kinases, aminoglycoside phosphotransferase,
choline kinase, and phosphoinositide 3-kinase. The
mitogen-activated protein (MAP) kinase signaling
pathways are important mediators of cellular responses
to extracellular signals. The pathways involve a triple
kinase core cascade comprising the MAP kinase (MAPK),
which is phosphorylated and activated by a MAPK kinase
(MAPKK or MKK or MAP2K), which itself is phosphorylated
and activated by a MAPK kinase kinase (MAPKKK or MKKK or
MAP3K). MAPKKs are dual-specificity PKs that
phosphorylate their downstream targets, MAPKs, at
specific threonine and tyrosine residues. There are
three MAPK subfamilies: extracellular signal-regulated
kinase (ERK), c-Jun N-terminal kinase (JNK), and p38. In
mammalian cells, there are seven MAPKKs (named MKK1-7)
and 20 MAPKKKs. Each MAPK subfamily can be activated by
at least two cognate MAPKKs and by multiple MAPKKKs.
Length = 265
Score = 67.7 bits (166), Expect = 2e-12
Identities = 46/175 (26%), Positives = 74/175 (42%), Gaps = 35/175 (20%)
Query: 480 SDLVRGPLLGQGFFGQVYRVTHRETGEVMVLKELYR-VDEEAEKNFLKESKQGLIYLIDL 538
DL LG G G V +V HR TG++M +K + ++E +K L+E
Sbjct: 1 DDLEYLGELGAGNSGVVSKVLHRPTGKIMAVKTIRLEINEAIQKQILRELD--------- 51
Query: 539 GSHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQ 598
+L + ++ F G Y + +++ EY+ GG+L ++L++
Sbjct: 52 ----------------ILHKCNSPYIVGFYGAFYNNGDISICMEYMDGGSLDKILKEVQG 95
Query: 599 PLPWGQRVNFARDIAAGMTYLHS-MNLIHRDLNSQNCLVREVGSGFDFHLGQIYL 652
+P A + G+TYLH +IHRD+ N LV GQI L
Sbjct: 96 RIPERILGKIAVAVLKGLTYLHEKHKIIHRDVKPSNILVN--------SRGQIKL 142
>gnl|CDD|132983 cd06652, STKc_MEKK2, Catalytic domain of the Protein
Serine/Threonine Kinase, MAP/ERK kinase kinase 2.
Serine/threonine kinases (STKs), MAP/ERK kinase kinase 2
(MEKK2) subfamily, catalytic (c) domain. STKs catalyze
the transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
MEKK2 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. MEKK2 is a mitogen-activated protein kinase
(MAPK) kinase kinase (MAPKKK or MKKK or MAP3K), that
phosphorylates and activates the MAPK kinase MEK5 (or
MKK5), which in turn phosphorylates and activates
extracellular signal-regulated kinase 5 (ERK5). The ERK5
cascade plays roles in promoting cell proliferation,
differentiation, neuronal survival, and neuroprotection.
MEKK2 also activates ERK1/2, c-Jun N-terminal kinase
(JNK) and p38 through their respective MAPKKs MEK1/2,
JNK-activating kinase 2 (JNKK2), and MKK3/6. MEKK2 plays
roles in T cell receptor signaling, immune synapse
formation, cytokine gene expression, as well as in EGF
and FGF receptor signaling.
Length = 265
Score = 67.8 bits (165), Expect = 2e-12
Identities = 48/159 (30%), Positives = 81/159 (50%), Gaps = 23/159 (14%)
Query: 485 GPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLI 544
G LLGQG FG+VY +TG + +K++ E E SK+ +
Sbjct: 7 GKLLGQGAFGRVYLCYDADTGRELAVKQVQFDPESPET-----SKE-------------V 48
Query: 545 NNLHCFSQVAVLRSLHHHNVIRFIGVLY--KDRKLNLVTEYIAGGTLKELLQDPGQPLPW 602
N L C ++ +L++L H ++++ G L +R L++ E++ GG++K+ L+ G L
Sbjct: 49 NALEC--EIQLLKNLLHERIVQYYGCLRDPMERTLSIFMEHMPGGSIKDQLKSYGA-LTE 105
Query: 603 GQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVGS 641
+ R I G++YLHS ++HRD+ N L VG+
Sbjct: 106 NVTRKYTRQILEGVSYLHSNMIVHRDIKGANILRDSVGN 144
>gnl|CDD|173636 cd05057, PTKc_EGFR_like, Catalytic domain of Epidermal Growth
Factor Receptor-like Protein Tyrosine Kinases. Protein
Tyrosine Kinase (PTK) family; Epidermal Growth Factor
Receptor (EGFR) subfamily; catalytic (c) domain. EGFR
(HER, ErbB) subfamily members include EGFR (HER1,
ErbB1), HER2 (ErbB2), HER3 (ErbB3), HER4 (ErbB4), 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.
The EGFR proteins are receptor tyr kinases (RTKs)
containing an extracellular EGF-related ligand-binding
region, a transmembrane helix, and a cytoplasmic region
with a tyr kinase domain and a regulatory C-terminal
tail. Unlike other tyr kinases, phosphorylation of the
activation loop of EGFR proteins is not critical to
their activation. Instead, they are activated by
ligand-induced dimerization, resulting in the
phosphorylation of tyr residues in the C-terminal tail,
which serve as binding sites for downstream signaling
molecules. Collectively, they can recognize a variety of
ligands including EGF, TGFalpha, and neuregulins, among
others. All four subfamily members can form homo- or
heterodimers. HER3 contains an impaired kinase domain
and depends on its heterodimerization partner for
activation. EGFR subfamily members are involved in
signaling pathways leading to a broad range of cellular
responses including cell proliferation, differentiation,
migration, growth inhibition, and apoptosis. Gain of
function alterations, through their overexpression,
deletions, or point mutations in their kinase domains,
have been implicated in various cancers. These receptors
are targets of many small molecule inhibitors and
monoclonal antibodies used in cancer therapy.
Length = 279
Score = 67.8 bits (166), Expect = 2e-12
Identities = 44/171 (25%), Positives = 77/171 (45%), Gaps = 35/171 (20%)
Query: 474 SRIFRASDLVRGPLLGQGFFGQVYRVTHRETGE-------VMVLKELYRVDEEAEKNFLK 526
RI + ++L + +LG G FG VY+ GE + VL+E +A K L
Sbjct: 1 LRILKETELEKIKVLGSGAFGTVYKGVWIPEGEKVKIPVAIKVLRE--ETSPKANKEILD 58
Query: 527 ESKQGLIYLIDLGSHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAG 586
E+ V+ S+ H +V+R +G+ + + L+T+ +
Sbjct: 59 EAY-------------------------VMASVDHPHVVRLLGICLSSQ-VQLITQLMPL 92
Query: 587 GTLKELLQDPGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVR 637
G L + +++ + +N+ IA GM+YL L+HRDL ++N LV+
Sbjct: 93 GCLLDYVRNHKDNIGSQYLLNWCVQIAKGMSYLEEKRLVHRDLAARNVLVK 143
>gnl|CDD|173645 cd05084, PTKc_Fes, Catalytic domain of the Protein Tyrosine Kinase,
Fes. Protein Tyrosine Kinase (PTK) family; Fes (or Fps)
kinase subfamily; catalytic (c) domain. 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 kinase is expressed in myeloid, vascular
endothelial, epithelial, and neuronal cells. It plays
important roles in cell growth and differentiation,
angiogenesis, inflammation and immunity, and
cytoskeletal regulation. A recent study implicates Fes
kinase as a tumor suppressor in colorectal cancer.
Length = 252
Score = 67.3 bits (164), Expect = 2e-12
Identities = 31/84 (36%), Positives = 47/84 (55%)
Query: 555 VLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVNFARDIAA 614
+L+ H N++R IGV + + + +V E + GG L+ G L + + + AA
Sbjct: 46 ILKQYSHPNIVRLIGVCTQKQPIYIVMELVQGGDFLTFLRTEGPRLKVKELIQMVENAAA 105
Query: 615 GMTYLHSMNLIHRDLNSQNCLVRE 638
GM YL S + IHRDL ++NCLV E
Sbjct: 106 GMEYLESKHCIHRDLAARNCLVTE 129
>gnl|CDD|132984 cd06653, STKc_MEKK3_like_1, Catalytic domain of MAP/ERK kinase
kinase 3-like Protein Serine/Threonine Kinases.
Serine/threonine kinases (STKs), MAP/ERK kinase kinase 3
(MEKK3)-like subfamily, catalytic (c) domain,
functionally uncharacterized subgroup 1. STKs catalyze
the transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
MEKK3-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. The MEKK3-like subfamily is
composed of MEKK3, MEKK2, and related proteins, all
containing an N-terminal PB1 domain, which mediates
oligomerization, and a C-terminal catalytic domain.
MEKK2 and MEKK3 are mitogen-activated protein kinase
(MAPK) kinase kinases (MAPKKKs or MKKKs or MAP3Ks),
proteins that 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. MEKK2 and MEKK3 activate MEK5
(also called MKK5), which activates extracellular
signal-regulated kinase 5 (ERK5). The ERK5 cascade plays
roles in promoting cell proliferation, differentiation,
neuronal survival, and neuroprotection. MEKK3 plays an
essential role in embryonic angiogenesis and early heart
development. MEKK2 and MEKK3 can also activate the
MAPKs, c-Jun N-terminal kinase (JNK) and p38, through
their respective MAPKKs.
Length = 264
Score = 67.4 bits (164), Expect = 3e-12
Identities = 46/159 (28%), Positives = 85/159 (53%), Gaps = 23/159 (14%)
Query: 485 GPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLI 544
G LLG+G FG+VY +TG + +K++ D ++++ SK+ +
Sbjct: 7 GKLLGRGAFGEVYLCYDADTGRELAVKQV-PFDPDSQET----SKE-------------V 48
Query: 545 NNLHCFSQVAVLRSLHHHNVIRFIGVL--YKDRKLNLVTEYIAGGTLKELLQDPGQPLPW 602
N L C ++ +L++L H ++++ G L +++KL++ EY+ GG++K+ L+ G L
Sbjct: 49 NALEC--EIQLLKNLRHDRIVQYYGCLRDPEEKKLSIFVEYMPGGSIKDQLKAYGA-LTE 105
Query: 603 GQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVGS 641
+ R I G++YLHS ++HRD+ N L G+
Sbjct: 106 NVTRRYTRQILQGVSYLHSNMIVHRDIKGANILRDSAGN 144
>gnl|CDD|173649 cd05093, PTKc_TrkB, Catalytic domain of the Protein Tyrosine
Kinase, Tropomyosin Related Kinase B. Protein Tyrosine
Kinase (PTK) family; Tropomyosin Related Kinase B
(TrkB); catalytic (c) domain. 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. TrkB is a member of the
Trk subfamily of proteins, which are receptor tyr
kinases (RTKs) containing an extracellular region with
arrays of leucine-rich motifs flanked by two
cysteine-rich clusters followed by two
immunoglobulin-like domains, a transmembrane segment,
and an intracellular catalytic domain. Binding of TrkB
to its ligands, brain-derived neurotrophic factor (BDNF)
or neurotrophin 4 (NT4), results in receptor
oligomerization and activation of the catalytic domain.
TrkB is broadly expressed in the nervous system and in
some non-neural tissues. It plays important roles in
cell proliferation, differentiation, and survival.
BDNF/Trk signaling plays a key role in regulating
activity-dependent synaptic plasticity. TrkB also
contributes to protection against gp120-induced neuronal
cell death. TrkB overexpression is associated with poor
prognosis in neuroblastoma (NB) and other human cancers.
It acts as a suppressor of anoikis (detachment-induced
apoptosis) and contributes to tumor metastasis.
Length = 288
Score = 67.4 bits (164), Expect = 3e-12
Identities = 46/168 (27%), Positives = 77/168 (45%), Gaps = 42/168 (25%)
Query: 488 LGQGFFGQV-----YRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHG 542
LG+G FG+V Y + + ++ +K L + A K+F +E++
Sbjct: 13 LGEGAFGKVFLAECYNLCPEQDKILVAVKTLKDASDNARKDFHREAE------------- 59
Query: 543 LINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQ-------- 594
+L +L H ++++F GV + L +V EY+ G L + L+
Sbjct: 60 ------------LLTNLQHEHIVKFYGVCVEGDPLIMVFEYMKHGDLNKFLRAHGPDAVL 107
Query: 595 ----DPGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
+ L Q ++ A+ IAAGM YL S + +HRDL ++NCLV E
Sbjct: 108 MAEGNRPAELTQSQMLHIAQQIAAGMVYLASQHFVHRDLATRNCLVGE 155
>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 = 66.9 bits (164), Expect = 4e-12
Identities = 38/157 (24%), Positives = 63/157 (40%), Gaps = 35/157 (22%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKEL-YRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
+G+G FG V +V + G+++V KE+ Y E EK L
Sbjct: 8 IGKGSFGTVRKVRRKSDGKILVWKEIDYGNMTEKEKQQL--------------------- 46
Query: 547 LHCFSQVAVLRSLHHHNVIRFIG--VLYKDRKLNLVTEYIAGGTLKELLQ---DPGQPLP 601
S+V +LR L H N++R+ + ++ L +V EY GG L +L+Q + +
Sbjct: 47 ---VSEVNILRELKHPNIVRYYDRIIDRSNQTLYIVMEYCEGGDLAQLIQKCKKERKYIE 103
Query: 602 WGQRVNFARDIAAGMTYLH-----SMNLIHRDLNSQN 633
+ + H ++HRDL N
Sbjct: 104 EEFIWRILTQLLLALYECHNRSDPGNTVLHRDLKPAN 140
>gnl|CDD|173772 cd08530, STKc_CNK2-like, Catalytic domain of the Protein
Serine/Threonine Kinase, Chlamydomonas reinhardtii CNK2,
and similar domains. Serine/Threonine Kinases (STKs),
Chlamydomonas reinhardtii Never In Mitosis gene A
(NIMA)-related kinase 1 (CNK2)-like subfamily, catalytic
(c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The Chlamydomonas
reinhardtii CNK2-like subfamily belongs to the
(NIMA)-related kinase (Nek) family. The Nek family
includes seven different Chlamydomonas Neks (CNKs 1-6
and Fa2). This subfamily includes CNK1, and -2. 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. Chlamydomonas reinhardtii CNK2 has both
cilliary and cell cycle functions. It influences
flagellar length through promoting flagellar
disassembly, and it regulates cell size, through
influencing the size threshold at which cells commit to
mitosis.
Length = 256
Score = 66.7 bits (163), Expect = 4e-12
Identities = 38/165 (23%), Positives = 65/165 (39%), Gaps = 29/165 (17%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
LG+G +G VY+V + LKE +DLGS
Sbjct: 7 KLGKGSYGSVYKVKRLSDNQFYALKE-----------------------VDLGSMSQKER 43
Query: 547 LHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELL---QDPGQPLPWG 603
+++ +L S++H N+I + KL +V EY G L + + + + +P
Sbjct: 44 EDAVNEIRILASVNHPNIISYKEAFLDGNKLCIVMEYAPFGDLSKAISKRKKKRKLIPEQ 103
Query: 604 QRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVGSGFDFHLG 648
+ + G+ LH ++HRDL S N L+ + +G
Sbjct: 104 EIWRIFIQLLRGLQALHEQKILHRDLKSANILLV---ANDLVKIG 145
>gnl|CDD|132961 cd06630, STKc_MEKK1, Catalytic domain of the Protein
Serine/Threonine Kinase, MAP/ERK kinase kinase 1.
Serine/threonine kinases (STKs), MAP/ERK kinase kinase 1
(MEKK1) subfamily, catalytic (c) domain. STKs catalyze
the transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
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. MEKK1 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. MEKK1 activates the extracellular
signal-regulated kinase 1/2 (ERK1/2) and c-Jun
N-terminal kinase (JNK) pathways by activating their
respective MAPKKs, MEK1/2 and MKK4/MKK7, respectively.
MEKK1 is important in regulating cell survival and
apoptosis. MEKK1 also plays a role in cell migration,
tissue maintenance and homeostasis, and wound healing.
Length = 268
Score = 66.4 bits (162), Expect = 5e-12
Identities = 41/157 (26%), Positives = 73/157 (46%), Gaps = 20/157 (12%)
Query: 484 RGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGL 543
+G LG G F Y+ +TG +M +K++ V +N E ++ + L
Sbjct: 4 KGQQLGTGAFSSCYQARDVKTGTLMAVKQVTYV-----RNTSSEQEEVVEALRK------ 52
Query: 544 INNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWG 603
++ ++ L+H ++IR +G +D NL E++AGG++ LL G
Sbjct: 53 --------EIRLMARLNHPHIIRMLGATCEDSHFNLFVEWMAGGSVSHLLSKYG-AFKEA 103
Query: 604 QRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
+N+ + G++YLH +IHRD+ N L+ G
Sbjct: 104 VIINYTEQLLRGLSYLHENQIIHRDVKGANLLIDSTG 140
>gnl|CDD|177649 PLN00009, PLN00009, cyclin-dependent kinase A; Provisional.
Length = 294
Score = 66.4 bits (162), Expect = 7e-12
Identities = 40/159 (25%), Positives = 74/159 (46%), Gaps = 43/159 (27%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+G+G +G VY+ R T E + LK++ R+++E E G+ +
Sbjct: 10 IGEGTYGVVYKARDRVTNETIALKKI-RLEQEDE--------------------GVPST- 47
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
++++L+ + H N++R V++ +++L LV EY+ K + P +
Sbjct: 48 -AIREISLLKEMQHGNIVRLQDVVHSEKRLYLVFEYLDLDLKKHMDSSP----------D 96
Query: 608 FARD----------IAAGMTYLHSMNLIHRDLNSQNCLV 636
FA++ I G+ Y HS ++HRDL QN L+
Sbjct: 97 FAKNPRLIKTYLYQILRGIAYCHSHRVLHRDLKPQNLLI 135
>gnl|CDD|132972 cd06641, STKc_MST3, Catalytic domain of the Protein
Serine/Threonine Kinase, Mammalian Ste20-like protein
kinase 3. Serine/threonine kinases (STKs), mammalian
Ste20-like protein kinase 3 (MST3) subfamily, catalytic
(c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The MST3 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. MST3
phosphorylates the STK NDR and may play a role in cell
cycle progression and cell morphology. It may also
regulate paxillin and consequently, cell migration. MST3
is present in human placenta, where it plays an
essential role in the oxidative stress-induced apoptosis
of trophoblasts in normal spontaneous delivery.
Dysregulation of trophoblast apoptosis may result in
pregnancy complications such as preeclampsia and
intrauterine growth retardation.
Length = 277
Score = 66.3 bits (161), Expect = 7e-12
Identities = 45/153 (29%), Positives = 75/153 (49%), Gaps = 26/153 (16%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+G+G FG+V++ T +V+ +K +D E ++ +++ +Q
Sbjct: 12 IGKGSFGEVFKGIDNRTQKVVAIK---IIDLEEAEDEIEDIQQ----------------- 51
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
++ VL V ++ G KD KL ++ EY+ GG+ +LL+ PG PL Q
Sbjct: 52 ----EITVLSQCDSPYVTKYYGSYLKDTKLWIIMEYLGGGSALDLLE-PG-PLDETQIAT 105
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
R+I G+ YLHS IHRD+ + N L+ E G
Sbjct: 106 ILREILKGLDYLHSEKKIHRDIKAANVLLSEHG 138
>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 = 65.9 bits (161), Expect = 9e-12
Identities = 40/149 (26%), Positives = 69/149 (46%), Gaps = 24/149 (16%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+G+G +G V++ +RETG+++ A K F++ +I I L
Sbjct: 9 IGEGSYGVVFKCRNRETGQIV-----------AIKKFVESEDDPVIKKIAL--------- 48
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
++ +L+ L H N++ I V + RKL+LV EY L EL ++P + +P
Sbjct: 49 ---REIRMLKQLKHPNLVNLIEVFRRKRKLHLVFEYCDHTVLNELEKNP-RGVPEHLIKK 104
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
+ + H N IHRD+ +N L+
Sbjct: 105 IIWQTLQAVNFCHKHNCIHRDVKPENILI 133
>gnl|CDD|132962 cd06631, STKc_YSK4, Catalytic domain of the Protein
Serine/Threonine Kinase, Yeast Sps1/Ste20-related kinase
4. Serine/threonine kinases (STKs), yeast
Sps1/Ste20-related kinase 4 (YSK4) subfamily, catalytic
(c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The YSK4 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. YSK4 is a
putative MAPKKK, whose mammalian gene has been isolated.
MAPKKKs (MKKKs or MAP3Ks) 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.
Length = 265
Score = 65.7 bits (160), Expect = 9e-12
Identities = 42/160 (26%), Positives = 77/160 (48%), Gaps = 27/160 (16%)
Query: 484 RGPLLGQGFFGQVYRVTHRETGEVMVLK--ELYRVDEEA-EKNFLKESKQGLIYLIDLGS 540
+G +LG+G +G VY G+++ +K EL + A EK + K
Sbjct: 4 KGEVLGKGAYGTVY-CGLTNQGQLIAVKQVELDTSNVLAAEKEYEK-------------- 48
Query: 541 HGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPL 600
L +V +L+SL H N+++++G D +++ E++ GG++ +L G PL
Sbjct: 49 ------LQ--EEVDLLKSLKHVNIVQYLGTCLDDNTISIFMEFVPGGSISSILNRFG-PL 99
Query: 601 PWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
P + + I G+ YLH+ ++HRD+ N ++ G
Sbjct: 100 PEPVFCKYTKQILDGVAYLHNNCVVHRDIKGNNVMLMPNG 139
>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 = 65.9 bits (161), Expect = 1e-11
Identities = 45/179 (25%), Positives = 82/179 (45%), Gaps = 35/179 (19%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
L+G+G +G V + H+ETG+++ +K+ +++ +
Sbjct: 8 LVGEGSYGMVMKCKHKETGQIVAIKKFLESEDDKMVKKI--------------------- 46
Query: 547 LHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDP-GQPLPWGQR 605
++ +L+ L H N++ I V + ++L LV E++ L +L + P G ++
Sbjct: 47 --AMREIRMLKQLRHENLVNLIEVFRRKKRLYLVFEFVDHTVLDDLEKYPNGLDESRVRK 104
Query: 606 VNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVGS------GFDFHL---GQIYLIYV 655
F I G+ + HS N+IHRD+ +N LV + G GF L G++Y YV
Sbjct: 105 YLF--QILRGIEFCHSHNIIHRDIKPENILVSQSGVVKLCDFGFARTLAAPGEVYTDYV 161
>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 = 65.6 bits (161), Expect = 1e-11
Identities = 41/160 (25%), Positives = 72/160 (45%), Gaps = 44/160 (27%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+G+G +GQVY+ +++TGE++ LK++ R++ E K+G
Sbjct: 7 IGEGTYGQVYKARNKKTGELVALKKI-RMENE---------KEG---------------- 40
Query: 548 HCFSQVAV-----LRSLHHHNVIRFIGVLYKDRKLN--LVTEYI----AGGTLKELLQDP 596
F A+ L+ L H N++R ++ K + +V EY+ G LL P
Sbjct: 41 --FPITAIREIKLLQKLRHPNIVRLKEIVTSKGKGSIYMVFEYMDHDLTG-----LLDSP 93
Query: 597 GQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
Q + + + G+ YLHS ++HRD+ N L+
Sbjct: 94 EVKFTESQIKCYMKQLLEGLQYLHSNGILHRDIKGSNILI 133
>gnl|CDD|133201 cd05070, PTKc_Fyn_Yrk, Catalytic domain of the Protein Tyrosine
Kinases, Fyn and Yrk. Protein Tyrosine Kinase (PTK)
family; Fyn and Yrk kinases; catalytic (c) domain. 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. Fyn and
Yrk are members of the Src subfamily of proteins, which
are cytoplasmic (or non-receptor) tyr kinases. Src
kinases contain an N-terminal SH4 domain with a
myristoylation site, followed by SH3 and SH2 domains, a
tyr kinase domain, and a regulatory C-terminal region
containing a conserved tyr. They are activated by
autophosphorylation at the tyr kinase domain, but are
negatively regulated by phosphorylation at the
C-terminal tyr by Csk (C-terminal Src Kinase). Src
proteins are involved in signaling pathways that
regulate cytokine and growth factor responses,
cytoskeleton dynamics, cell proliferation, survival, and
differentiation. Fyn, together with Lck, plays a
critical role in T-cell signal transduction by
phosphorylating ITAM (immunoreceptor tyr activation
motif) sequences on T-cell receptors, ultimately leading
to the proliferation and differentiation of T-cells. In
addition, Fyn is involved in the myelination of neurons,
and is implicated in Alzheimer's and Parkinson's
diseases. Yrk has been detected only in chickens. It is
primarily found in neuronal and epithelial cells and in
macrophages. It may play a role in inflammation and in
response to injury.
Length = 260
Score = 65.0 bits (158), Expect = 1e-11
Identities = 43/150 (28%), Positives = 73/150 (48%), Gaps = 29/150 (19%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
LG G FG+V+ T +V V + + + ++FL+E++
Sbjct: 14 LGNGQFGEVWMGTWNGNTKVAV--KTLKPGTMSPESFLEEAQ------------------ 53
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQD-PGQPLPWGQRV 606
+++ L H +++ V+ + + +VTEY++ G+L + L+D G+ L V
Sbjct: 54 -------IMKKLRHDKLVQLYAVV-SEEPIYIVTEYMSKGSLLDFLKDGEGRALKLPNLV 105
Query: 607 NFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
+ A +AAGM Y+ MN IHRDL S N LV
Sbjct: 106 DMAAQVAAGMAYIERMNYIHRDLRSANILV 135
>gnl|CDD|173641 cd05072, PTKc_Lyn, Catalytic domain of the Protein Tyrosine Kinase,
Lyn. Protein Tyrosine Kinase (PTK) family; Lyn kinase;
catalytic (c) domain. 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. Lyn is a member of the
Src subfamily of proteins, which are cytoplasmic (or
non-receptor) tyr kinases. Src kinases contain an
N-terminal SH4 domain with a myristoylation site,
followed by SH3 and SH2 domains, a tyr kinase domain,
and a regulatory C-terminal region containing a
conserved tyr. They are activated by autophosphorylation
at the tyr kinase domain, but are negatively regulated
by phosphorylation at the C-terminal tyr by Csk
(C-terminal Src Kinase). Src proteins are involved in
signaling pathways that regulate cytokine and growth
factor responses, cytoskeleton dynamics, cell
proliferation, survival, and differentiation. Lyn is
expressed in B lymphocytes and myeloid cells. It
exhibits both positive and negative regulatory roles in
B cell receptor (BCR) signaling. Lyn, as well as Fyn and
Blk, promotes B cell activation by phosphorylating ITAMs
(immunoreceptor tyr activation motifs) in CD19 and in Ig
components of BCR. It negatively regulates signaling by
its unique ability to phosphorylate ITIMs
(immunoreceptor tyr inhibition motifs) in cell surface
receptors like CD22 and CD5. Lyn also plays an important
role in G-CSF receptor signaling by phosphorylating a
variety of adaptor molecules.
Length = 261
Score = 65.0 bits (158), Expect = 1e-11
Identities = 30/85 (35%), Positives = 52/85 (61%), Gaps = 1/85 (1%)
Query: 555 VLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQ-DPGQPLPWGQRVNFARDIA 613
++++L H ++R V+ K+ + ++TEY+A G+L + L+ D G + + ++F+ IA
Sbjct: 54 LMKTLQHDKLVRLYAVVTKEEPIYIITEYMAKGSLLDFLKSDEGGKVLLPKLIDFSAQIA 113
Query: 614 AGMTYLHSMNLIHRDLNSQNCLVRE 638
GM Y+ N IHRDL + N LV E
Sbjct: 114 EGMAYIERKNYIHRDLRAANVLVSE 138
>gnl|CDD|132973 cd06642, STKc_STK25-YSK1, Catalytic domain of the Protein
Serine/Threonine Kinase, STK25 or Yeast
Sps1/Ste20-related kinase 1. Serine/threonine kinases
(STKs), STK25 subfamily, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine/threonine residues on protein substrates.
The STK25 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. STK25 is also called Ste20/oxidant stress
response kinase 1 (SOK1) or yeast Sps1/Ste20-related
kinase 1 (YSK1). STK25 is localized in the Golgi
apparatus through its interaction with the Golgi matrix
protein GM130. It may play a role in the regulation of
cell migration and polarization. STK25 binds and
phosphorylates CCM3 (cerebral cavernous malformation 3),
also called PCD10 (programmed cell death 10), and may
play a role in apoptosis. Human STK25 is a candidate
gene responsible for pseudopseudohypoparathyroidism
(PPHP), a disease that shares features with the Albright
hereditary osteodystrophy (AHO) phenotype.
Length = 277
Score = 65.1 bits (158), Expect = 1e-11
Identities = 45/153 (29%), Positives = 73/153 (47%), Gaps = 26/153 (16%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+G+G FG+VY+ T EV+ +K +D E ++ +++ +Q
Sbjct: 12 IGKGSFGEVYKGIDNRTKEVVAIK---IIDLEEAEDEIEDIQQ----------------- 51
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
++ VL + R+ G K KL ++ EY+ GG+ +LL+ PG PL
Sbjct: 52 ----EITVLSQCDSPYITRYYGSYLKGTKLWIIMEYLGGGSALDLLK-PG-PLEETYIAT 105
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
R+I G+ YLHS IHRD+ + N L+ E G
Sbjct: 106 ILREILKGLDYLHSERKIHRDIKAANVLLSEQG 138
>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 = 64.9 bits (159), Expect = 2e-11
Identities = 41/158 (25%), Positives = 75/158 (47%), Gaps = 21/158 (13%)
Query: 483 VRGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHG 542
+G LG+G + VY+ +ETG ++ +K++ ++ E KE+K G+
Sbjct: 3 EKGKKLGEGTYAVVYKARDKETGRIVAIKKI-KLGER------KEAKDGI---------- 45
Query: 543 LINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPW 602
N ++ +L+ L H N+I + V +NLV E++ L+++++D L
Sbjct: 46 ---NFTALREIKLLQELKHPNIIGLLDVFGHKSNINLVFEFME-TDLEKVIKDKSIVLTP 101
Query: 603 GQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
++ G+ YLHS ++HRDL N L+ G
Sbjct: 102 ADIKSYMLMTLRGLEYLHSNWILHRDLKPNNLLIASDG 139
>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 = 64.6 bits (158), Expect = 2e-11
Identities = 39/152 (25%), Positives = 73/152 (48%), Gaps = 29/152 (19%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAE---KNFLKESKQGLIYLIDLGSHGLI 544
+G+G +G VY+ + TGE++ LK++ R++ E E ++E
Sbjct: 7 IGEGTYGVVYKARDKLTGEIVALKKI-RLETEDEGVPSTAIRE----------------- 48
Query: 545 NNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQ 604
+++L+ L+H N++R + V++ + KL LV E++ K + P L
Sbjct: 49 --------ISLLKELNHPNIVRLLDVVHSENKLYLVFEFLDLDLKKYMDSSPLTGLDPPL 100
Query: 605 RVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
++ + G+ Y HS ++HRDL QN L+
Sbjct: 101 IKSYLYQLLQGIAYCHSHRVLHRDLKPQNLLI 132
>gnl|CDD|133202 cd05071, PTKc_Src, Catalytic domain of the Protein Tyrosine Kinase,
Src. Protein Tyrosine Kinase (PTK) family; Src kinase;
catalytic (c) domain. 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. Src (or c-Src) is a
cytoplasmic (or non-receptor) tyr kinase, containing an
N-terminal SH4 domain with a myristoylation site,
followed by SH3 and SH2 domains, a tyr kinase domain,
and a regulatory C-terminal region with a conserved tyr.
It is activated by autophosphorylation at the tyr kinase
domain, and is negatively regulated by phosphorylation
at the C-terminal tyr by Csk (C-terminal Src Kinase).
c-Src is the vertebrate homolog of the oncogenic protein
(v-Src) from Rous sarcoma virus. Together with other Src
subfamily proteins, it is involved in signaling pathways
that regulate cytokine and growth factor responses,
cytoskeleton dynamics, cell proliferation, survival, and
differentiation. Src also play a role in regulating cell
adhesion, invasion, and motility in cancer cells and
tumor vasculature, contributing to cancer progression
and metastasis. Elevated levels of Src kinase activity
have been reported in a variety of human cancers.
Several inhibitors of Src have been developed as
anti-cancer drugs. Src is also implicated in acute
inflammatory responses and osteoclast function.
Length = 262
Score = 63.9 bits (155), Expect = 4e-11
Identities = 44/152 (28%), Positives = 75/152 (49%), Gaps = 29/152 (19%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
LGQG FG+V+ T T V + + + + + FL+E++
Sbjct: 14 LGQGCFGEVWMGTWNGTTRVAI--KTLKPGTMSPEAFLQEAQ------------------ 53
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQ-DPGQPLPWGQRV 606
V++ L H +++ V+ + + +VTEY++ G+L + L+ + G+ L Q V
Sbjct: 54 -------VMKKLRHEKLVQLYAVV-SEEPIYIVTEYMSKGSLLDFLKGEMGKYLRLPQLV 105
Query: 607 NFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
+ A IA+GM Y+ MN +HRDL + N LV E
Sbjct: 106 DMAAQIASGMAYVERMNYVHRDLRAANILVGE 137
>gnl|CDD|173672 cd05581, STKc_PDK1, Catalytic domain of the Protein
Serine/Threonine Kinase, Phosphoinositide-dependent
kinase 1. Serine/Threonine Kinases (STKs),
Phosphoinositide-dependent kinase 1 (PDK1) subfamily,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The PDK1 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 (PI3K). PDK1
carries an N-terminal catalytic domain and a C-terminal
pleckstrin homology (PH) domain that binds
phosphoinositides. It phosphorylates the activation loop
of AGC kinases that are regulated by PI3K such as PKB,
SGK, and PKC, among others, and is crucial for their
activation. Thus, it contributes in regulating many
processes including metabolism, growth, proliferation,
and survival. PDK1 also has the ability to
autophosphorylate and is constitutively active in
mammalian cells. PDK1 is essential for normal embryo
development and is important in regulating cell volume.
Length = 280
Score = 64.1 bits (157), Expect = 4e-11
Identities = 43/169 (25%), Positives = 66/169 (39%), Gaps = 39/169 (23%)
Query: 485 GPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFL-KESKQGLIYLIDLGSHGL 543
G ++G+G F V +ET + +K L +K L KE K + +
Sbjct: 6 GKIIGEGSFSTVVLAKEKETNKEYAIKIL-------DKRQLIKEKKVKYVKI-------- 50
Query: 544 INNLHCFSQVAVLRSLHHH-NVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPW 602
+ VL L+ H +I+ + L V EY G L + ++ G L
Sbjct: 51 --------EKEVLTRLNGHPGIIKLYYTFQDEENLYFVLEYAPNGELLQYIRKYGS-LD- 100
Query: 603 GQRVNFARDIAA----GMTYLHSMNLIHRDLNSQNCLVREVGSGFDFHL 647
R AA + YLHS +IHRDL +N L+ + D H+
Sbjct: 101 ---EKCTRFYAAEILLALEYLHSKGIIHRDLKPENILLDK-----DMHI 141
>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 = 64.0 bits (156), Expect = 4e-11
Identities = 43/171 (25%), Positives = 84/171 (49%), Gaps = 26/171 (15%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+G+G +G VY+ +++TG+++ +K++ R++ E E G+ +
Sbjct: 8 IGEGTYGVVYKGRNKKTGQIVAMKKI-RLESEEE--------------------GVPST- 45
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDP-GQPLPWGQRV 606
++++L+ L H N++ VL ++ +L L+ E+++ K L P GQ +
Sbjct: 46 -AIREISLLKELQHPNIVCLQDVLMQESRLYLIFEFLSMDLKKYLDSLPKGQYMDAELVK 104
Query: 607 NFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG--SGFDFHLGQIYLIYV 655
++ I G+ + HS ++HRDL QN L+ G DF L + + I V
Sbjct: 105 SYLYQILQGILFCHSRRVLHRDLKPQNLLIDNKGVIKLADFGLARAFGIPV 155
>gnl|CDD|173639 cd05066, PTKc_EphR_A, Catalytic domain of the Protein Tyrosine
Kinases, Class EphA Ephrin Receptors. Protein Tyrosine
Kinase (PTK) family; Ephrin Receptor (EphR) subfamily;
most class EphA receptors including EphA3, EphA4, EphA5,
and EphA7, but excluding EphA1, EphA2 and EphA10;
catalytic (c) domain. 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. EphRs comprise the
largest subfamily of receptor tyr kinases (RTKs). In
general, class EphA receptors bind GPI-anchored ephrin-A
ligands. There are ten vertebrate EphA receptors
(EphA1-10), which display promiscuous interactions with
six ephrin-A ligands. One exception is EphA4, which also
binds ephrins-B2/B3. EphRs contain an ephrin-binding
domain and two fibronectin repeats extracellularly, a
transmembrane segment, and a cytoplasmic tyr kinase
domain. Binding of the ephrin ligand to EphR requires
cell-cell contact since both are anchored to the plasma
membrane. The resulting downstream signals occur
bidirectionally in both EphR-expressing cells (forward
signaling) and ephrin-expressing cells (reverse
signaling). Ephrin/EphR interaction mainly results in
cell-cell repulsion or adhesion, making it important in
neural development and plasticity, cell morphogenesis,
cell-fate determination, embryonic development, tissue
patterning, and angiogenesis. EphARs and ephrin-A
ligands are expressed in multiple areas of the
developing brain, especially in the retina and tectum.
They are part of a system controlling retinotectal
mapping.
Length = 267
Score = 63.4 bits (154), Expect = 5e-11
Identities = 31/87 (35%), Positives = 47/87 (54%)
Query: 550 FSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVNFA 609
S+ +++ H N+I GV+ K + + +VTEY+ G+L L+ Q V
Sbjct: 53 LSEASIMGQFDHPNIIHLEGVVTKSKPVMIVTEYMENGSLDAFLRKHDGQFTVIQLVGML 112
Query: 610 RDIAAGMTYLHSMNLIHRDLNSQNCLV 636
R IA+GM YL M +HRDL ++N LV
Sbjct: 113 RGIASGMKYLSDMGYVHRDLAARNILV 139
>gnl|CDD|133167 cd05035, PTKc_Axl_like, Catalytic Domain of Axl-like Protein
Tyrosine Kinases. Protein Tyrosine Kinase (PTK) family;
Axl subfamily; catalytic (c) domain. 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). The Axl subfamily
consists of Axl, Tyro3 (or Sky), Mer (or Mertk), and
similar proteins. PTKs catalyze the transfer of the
gamma-phosphoryl group from ATP to tyrosine (tyr)
residues in protein substrates. Axl subfamily members
are receptor tyr kinases (RTKs) containing an
extracellular ligand-binding region with two
immunoglobulin-like domains followed by two fibronectin
type III repeats, a transmembrane segment, and an
intracellular catalytic domain. Binding to their
ligands, Gas6 and protein S, leads to receptor
dimerization, autophosphorylation, activation, and
intracellular signaling. Axl subfamily members are
implicated in a variety of cellular effects including
survival, proliferation, migration, and phagocytosis.
They are also associated with several types of cancer as
well as inflammatory, autoimmune, vascular, and kidney
diseases. Mer is named after its original reported
expression pattern (monocytes, epithelial, and
reproductive tissues). It is required for the ingestion
of apoptotic cells by phagocytes such as macrophages,
retinal pigment epithelial cells, and dendritic cells.
Mer is also important in maintaining immune homeostasis.
Length = 273
Score = 63.7 bits (155), Expect = 5e-11
Identities = 44/173 (25%), Positives = 73/173 (42%), Gaps = 41/173 (23%)
Query: 482 LVRGPLLGQGFFGQVY--RVTHRETGEVMVLKELYRVDEEAEKN---FLKESKQGLIYLI 536
L G +LG+G FG V +++ + ++ V + ++D FL E+
Sbjct: 1 LKLGKILGEGEFGSVMEGQLSQDDGSQLKVAVKTMKLDIHTYSEIEEFLSEA-------- 52
Query: 537 DLGSHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLN------LVTEYIAGGTLK 590
A ++ H NV++ IGV ++ L ++ ++ G L
Sbjct: 53 -----------------ACMKDFDHPNVMKLIGVCFEASSLQKIPKPMVILPFMKHGDLH 95
Query: 591 ELL-----QDPGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
L + LP + F DIA GM YL + N IHRDL ++NC++RE
Sbjct: 96 SFLLYSRLGGLPEKLPLQTLLKFMVDIALGMEYLSNRNFIHRDLAARNCMLRE 148
>gnl|CDD|133228 cd05097, PTKc_DDR_like, Catalytic domain of Discoidin Domain
Receptor-like Protein Tyrosine Kinases. Protein
Tyrosine Kinase (PTK) family; Discoidin Domain Receptor
(DDR)-like proteins; catalytic (c) domain. 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. DDR-like
proteins are members of the DDR subfamily, which are
receptor tyr kinases (RTKs) containing an extracellular
discoidin homology domain, a transmembrane segment, an
extended juxtamembrane region, and an intracellular
catalytic domain. The binding of the ligand, collagen,
to DDRs results in a slow but sustained receptor
activation. DDRs regulate cell adhesion, proliferation,
and extracellular matrix remodeling. They have been
linked to a variety of human cancers including breast,
colon, ovarian, brain, and lung. There is no evidence
showing that DDRs act as transforming oncogenes. They
are more likely to play a role in the regulation of
tumor growth and metastasis.
Length = 295
Score = 63.8 bits (155), Expect = 5e-11
Identities = 50/175 (28%), Positives = 73/175 (41%), Gaps = 51/175 (29%)
Query: 488 LGQGFFGQVYRVTHRETGE-------------VMVLKELYRVD--EEAEKNFLKESKQGL 532
LG+G FG+V+ E V+V ++ R D + A +FLKE K
Sbjct: 13 LGEGQFGEVHLCEAEGLAEFLGEGAPEFDGQPVLVAVKMLRADVTKTARNDFLKEIK--- 69
Query: 533 IYLIDLGSHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKEL 592
++ L + N+IR +GV D L ++TEY+ G L +
Sbjct: 70 ----------------------IMSRLKNPNIIRLLGVCVSDDPLCMITEYMENGDLNQF 107
Query: 593 LQD--------PGQPLPWGQRVNF---ARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
L +P N A IA+GM YL S+N +HRDL ++NCLV
Sbjct: 108 LSQREIESTFTHANNIPSVSIANLLYMAVQIASGMKYLASLNFVHRDLATRNCLV 162
>gnl|CDD|132968 cd06637, STKc_TNIK, Catalytic domain of the Protein
Serine/Threonine Kinase, Traf2- and Nck-interacting
kinase. Serine/threonine kinases (STKs), Traf2- and
Nck-interacting kinase (TNIK) subfamily, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The TNIK 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 contain an N-terminal catalytic domain and a
C-terminal citron homology (CNH) regulatory domain,
similar to mitogen-activated protein kinase (MAPK),
kinase kinase kinase 4 (MAP4K4), and MAP4K6. MAP4Ks
participate in some MAPK signaling pathways by
activating a MAPK kinase kinase (MAPKKK or MAP3K or
MKKK). TNIK is an effector of Rap2, a small GTP-binding
protein from the Ras family. TNIK specifically activates
the c-Jun N-terminal kinase (JNK) pathway and plays a
role in regulating the actin cytoskeleton.
Length = 272
Score = 63.2 bits (153), Expect = 7e-11
Identities = 47/159 (29%), Positives = 74/159 (46%), Gaps = 32/159 (20%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
L+G G +GQVY+ H +TG++ +K + +E E E KQ IN
Sbjct: 13 LVGNGTYGQVYKGRHVKTGQLAAIKVMDVTGDEEE-----EIKQE------------INM 55
Query: 547 LHCFSQVAVLRSLHHHNVIRFIGVLYK------DRKLNLVTEYIAGGTLKELLQD-PGQP 599
L +S HH N+ + G K D +L LV E+ G++ +L+++ G
Sbjct: 56 LKKYS--------HHRNIATYYGAFIKKNPPGMDDQLWLVMEFCGAGSVTDLIKNTKGNT 107
Query: 600 LPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
L R+I G+++LH +IHRD+ QN L+ E
Sbjct: 108 LKEEWIAYICREILRGLSHLHQHKVIHRDIKGQNVLLTE 146
>gnl|CDD|132967 cd06636, STKc_MAP4K4_6, Catalytic domain of the Protein
Serine/Threonine Kinases, Mitogen-Activated Protein
Kinase Kinase Kinase Kinase 4 and 6. Serine/threonine
kinases (STKs), mitogen-activated protein kinase (MAPK)
kinase kinase kinase 4 (MAPKKKK4 or MAP4K4) and MAPKKKK6
(or MAP4K6) subfamily, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine/threonine residues on protein substrates.
The MAP4K4/MAP4K6 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
contain an N-terminal catalytic domain and a C-terminal
citron homology (CNH) regulatory domain. MAP4Ks (or
MAPKKKKs) are involved in 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. MAP4K4 is also called Nck Interacting kinase
(NIK). It facilitates the activation of the MAPKs,
extracellular signal-regulated kinase (ERK) 1, ERK2, and
c-Jun N-terminal kinase (JNK), by phosphorylating and
activating MEKK1. MAP4K4 plays a role in tumor necrosis
factor (TNF) alpha-induced insulin resistance. MAP4K4
silencing in skeletal muscle cells from type II diabetic
patients restores insulin-mediated glucose uptake.
MAP4K4, through JNK, also plays a broad role in cell
motility, which impacts inflammation, homeostasis, as
well as the invasion and spread of cancer. MAP4K4 is
found to be highly expressed in most tumor cell lines
relative to normal tissue. MAP4K6 (also called MINK for
Misshapen/NIKs-related kinase) is activated after Ras
induction and mediates activation of p38 MAPK. MAP4K6
plays a role in cell cycle arrest, cytoskeleton
organization, cell adhesion, and cell motility.
Length = 282
Score = 63.1 bits (153), Expect = 9e-11
Identities = 45/159 (28%), Positives = 74/159 (46%), Gaps = 32/159 (20%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
++G G +GQVY+ H +TG++ +K + V E+ E+ E IN
Sbjct: 23 VVGNGTYGQVYKGRHVKTGQLAAIK-VMDVTEDEEEEIKLE----------------INM 65
Query: 547 LHCFSQVAVLRSLHHHNVIRFIGVLYK------DRKLNLVTEYIAGGTLKELLQD-PGQP 599
L +S HH N+ + G K D +L LV E+ G++ +L+++ G
Sbjct: 66 LKKYS--------HHRNIATYYGAFIKKSPPGHDDQLWLVMEFCGAGSVTDLVKNTKGNA 117
Query: 600 LPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
L R+I G+ +LH+ +IHRD+ QN L+ E
Sbjct: 118 LKEDWIAYICREILRGLAHLHAHKVIHRDIKGQNVLLTE 156
>gnl|CDD|133227 cd05096, PTKc_DDR1, Catalytic domain of the Protein Tyrosine
Kinase, Discoidin Domain Receptor 1. Protein Tyrosine
Kinase (PTK) family; mammalian Discoidin Domain Receptor
1 (DDR1) and homologs; catalytic (c) domain. 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. DDR1 is a
member of the DDR subfamily, which are receptor tyr
kinases (RTKs) containing an extracellular discoidin
homology domain, a transmembrane segment, an extended
juxtamembrane region, and an intracellular catalytic
domain. The binding of the ligand, collagen, to DDRs
results in a slow but sustained receptor activation.
DDR1 binds to all collagens tested to date (types I-IV).
It is widely expressed in many tissues. It is abundant
in the brain and is also found in keratinocytes, colonic
mucosa epithelium, lung epithelium, thyroid follicles,
and the islets of Langerhans. During embryonic
development, it is found in the developing
neuroectoderm. DDR1 is a key regulator of cell
morphogenesis, differentiation and proliferation. It is
important in the development of the mammary gland, the
vasculator and the kidney. DDR1 is also found in human
leukocytes, where it facilitates cell adhesion,
migration, maturation, and cytokine production.
Length = 304
Score = 63.0 bits (153), Expect = 1e-10
Identities = 36/105 (34%), Positives = 53/105 (50%), Gaps = 18/105 (17%)
Query: 552 QVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQ---------------DP 596
+V +L L N+IR +GV + L ++TEY+ G L + L P
Sbjct: 69 EVKILSRLKDPNIIRLLGVCVDEDPLCMITEYMENGDLNQFLSSHHLDDKEENGNDAVPP 128
Query: 597 GQPLP---WGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
LP + ++ A IA+GM YL S+N +HRDL ++NCLV E
Sbjct: 129 AHCLPAISYSSLLHVALQIASGMKYLSSLNFVHRDLATRNCLVGE 173
>gnl|CDD|133187 cd05056, PTKc_FAK, Catalytic domain of the Protein Tyrosine Kinase,
Focal Adhesion Kinase. Protein Tyrosine Kinase (PTK)
family; Focal Adhesion Kinase (FAK); catalytic (c)
domain. 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. FAK is a
cytoplasmic (or nonreceptor) tyr kinase that contains an
autophosphorylation site and a FERM domain at the
N-terminus, a central tyr kinase domain, proline-rich
regions, and a C-terminal FAT (focal adhesion targeting)
domain. FAK activity is dependent on integrin-mediated
cell adhesion, which facilitates N-terminal
autophosphorylation. Full activation is achieved by the
phosphorylation of its two adjacent A-loop tyrosines.
FAK is important in mediating signaling initiated at
sites of cell adhesions and at growth factor receptors.
Through diverse molecular interactions, FAK functions as
a biosensor or integrator to control cell motility. It
is a key regulator of cell survival, proliferation,
migration and invasion, and thus plays an important role
in the development and progression of cancer. Src binds
to autophosphorylated FAK forming the FAK-Src dual
kinase complex, which is activated in a wide variety of
tumor cells and generates signals promoting growth and
metastasis. FAK is being developed as a target for
cancer therapy.
Length = 270
Score = 62.4 bits (152), Expect = 1e-10
Identities = 35/161 (21%), Positives = 65/161 (40%), Gaps = 30/161 (18%)
Query: 480 SDLVRGPLLGQGFFGQVYR-VTHRETGEVM-VLKELYRVDEEAEK--NFLKESKQGLIYL 535
D+ G +G+G FG VY+ V E + V + + FL+E+
Sbjct: 6 EDITLGRCIGEGQFGDVYQGVYMSPENEKIAVAVKTCKNCTSPSVREKFLQEA------- 58
Query: 536 IDLGSHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQD 595
++R H ++++ IGV+ + + +V E G L+ LQ
Sbjct: 59 ------------------YIMRQFDHPHIVKLIGVI-TENPVWIVMELAPLGELRSYLQV 99
Query: 596 PGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
L + ++ ++ + YL S +HRD+ ++N LV
Sbjct: 100 NKYSLDLASLILYSYQLSTALAYLESKRFVHRDIAARNVLV 140
>gnl|CDD|133230 cd05099, PTKc_FGFR4, Catalytic domain of the Protein Tyrosine
Kinase, Fibroblast Growth Factor Receptor 4. Protein
Tyrosine Kinase (PTK) family; Fibroblast Growth Factor
Receptor 4 (FGFR4); catalytic (c) domain. 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. FGFR4 is
part of the FGFR subfamily, which are receptor tyr
kinases (RTKs) containing an extracellular
ligand-binding region with three immunoglobulin-like
domains, a transmembrane segment, and an intracellular
catalytic domain. The binding of FGFRs to their ligands,
the FGFs, results in receptor dimerization and
activation, and intracellular signaling. The binding of
FGFs to FGFRs is promiscuous, in that a receptor may be
activated by several ligands and a ligand may bind to
more that one type of receptor. Unlike other FGFRs,
there is only one splice form of FGFR4. It binds FGF1,
FGF2, FGF6, FGF19, and FGF23. FGF19 is a selective
ligand for FGFR4. Although disruption of FGFR4 in mice
causes no obvious phenotype, in vivo inhibition of FGFR4
in cultured skeletal muscle cells resulted in an arrest
of muscle progenitor differentiation. FGF6 and FGFR4 are
uniquely expressed in myofibers and satellite cells.
FGF6/FGFR4 signaling appears to play a key role in the
regulation of muscle regeneration. A polymorphism in
FGFR4 is found in head and neck squamous cell carcinoma.
Length = 314
Score = 63.1 bits (153), Expect = 1e-10
Identities = 51/178 (28%), Positives = 79/178 (44%), Gaps = 33/178 (18%)
Query: 477 FRASDLVRGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLI 536
F LV G LG+G FGQV R E Y +D+ + + L
Sbjct: 9 FPRDRLVLGKPLGEGCFGQVVRA------------EAYGIDKSRPD---QTVTVAVKMLK 53
Query: 537 DLGSHGLINNLHCFSQVAVLRSL-HHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQD 595
D + + +L S++ +++ + H N+I +GV ++ L ++ EY A G L+E L+
Sbjct: 54 DNATDKDLADL--ISEMELMKLIGKHKNIINLLGVCTQEGPLYVIVEYAAKGNLREFLRA 111
Query: 596 ---------------PGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
P + L + V+ A +A GM YL S IHRDL ++N LV E
Sbjct: 112 RRPPGPDYTFDITKVPEEQLSFKDLVSCAYQVARGMEYLESRRCIHRDLAARNVLVTE 169
>gnl|CDD|173651 cd05095, PTKc_DDR2, Catalytic domain of the Protein Tyrosine
Kinase, Discoidin Domain Receptor 2. Protein Tyrosine
Kinase (PTK) family; mammalian Discoidin Domain Receptor
2 (DDR2) and homologs; catalytic (c) domain. 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. DDR2 is a
member of the DDR subfamily, which are receptor tyr
kinases (RTKs) containing an extracellular discoidin
homology domain, a transmembrane segment, an extended
juxtamembrane region, and an intracellular catalytic
domain. The binding of the ligand, collagen, to DDRs
results in a slow but sustained receptor activation.
DDR2 binds mostly to fibrillar collagens. More recently,
it has been reported to also bind collagen X. DDR2 is
widely expressed in many tissues with the highest levels
found in skeletal muscle, skin, kidney and lung. It is
important in cell proliferation and development. Mice,
with a deletion of DDR2, suffer from dwarfism and
delayed healing of epidermal wounds. DDR2 also
contributes to collagen (type I) regulation by
inhibiting fibrillogenesis and altering the morphology
of collagen fibers. It is also expressed in immature
dendritic cells (DCs), where it plays a role in DC
activation and function.
Length = 296
Score = 62.6 bits (152), Expect = 1e-10
Identities = 29/95 (30%), Positives = 48/95 (50%), Gaps = 10/95 (10%)
Query: 552 QVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELL---QDPGQP-------LP 601
++ ++ L N+IR + V L ++TEY+ G L + L + +
Sbjct: 69 EIKIMSRLKDPNIIRLLAVCITSDPLCMITEYMENGDLNQFLSRHEPQEAAEKADVVTIS 128
Query: 602 WGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
+ + A IA+GM YL S+N +HRDL ++NCLV
Sbjct: 129 YSTLIFMATQIASGMKYLSSLNFVHRDLATRNCLV 163
>gnl|CDD|173631 cd05045, PTKc_RET, Catalytic domain of the Protein Tyrosine Kinase,
REarranged during Transfection protein. Protein
Tyrosine Kinase (PTK) family; RET (REarranged during
Transfection) protein; catalytic (c) domain. 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. RET is a
receptor tyr kinase (RTK) containing an extracellular
region with four cadherin-like repeats, a
calcium-binding site, and a cysteine-rich domain, a
transmembrane segment, and an intracellular catalytic
domain. It is part of a multisubunit complex that binds
glial-derived neurotropic factor (GDNF) family ligands
(GFLs) including GDNF, neurturin, artemin, and
persephin. GFLs bind RET along with four GPI-anchored
coreceptors, bringing two RET molecules together,
leading to autophosphorylation, activation, and
intracellular signaling. RET is essential for the
development of the sympathetic, parasympathetic and
enteric nervous systems, and the kidney. RET disruption
by germline mutations causes diseases in humans
including congenital aganglionosis of the
gastrointestinal tract (Hirschsprung's disease) and
three related inherited cancers: multiple endocrine
neoplasia type 2A (MEN2A), MEN2B, and familial medullary
thyroid carcinoma (FMTC).
Length = 290
Score = 62.7 bits (152), Expect = 1e-10
Identities = 51/181 (28%), Positives = 77/181 (42%), Gaps = 42/181 (23%)
Query: 481 DLVRGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGS 540
+LV G LG+G FG+V + T LK A K + + L DL
Sbjct: 1 NLVLGKTLGEGEFGKVVKATAFR------LKGRAGYTTVAVKMLKENASS--SELRDL-- 50
Query: 541 HGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQD----- 595
S+ +L+ ++H +VI+ G +D L L+ EY G+L+ L++
Sbjct: 51 ---------LSEFNLLKQVNHPHVIKLYGACSQDGPLLLIVEYAKYGSLRSFLRESRKVG 101
Query: 596 -----------------PG-QPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVR 637
P + L G ++FA I+ GM YL M L+HRDL ++N LV
Sbjct: 102 PSYLGSDGNRNSSYLDNPDERALTMGDLISFAWQISRGMQYLAEMKLVHRDLAARNVLVA 161
Query: 638 E 638
E
Sbjct: 162 E 162
>gnl|CDD|132964 cd06633, STKc_TAO3, Catalytic domain of the Protein
Serine/Threonine Kinase, Thousand-and-one amino acids 3.
Serine/threonine kinases (STKs), thousand-and-one amino
acids 3 (TAO3) subfamily, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine/threonine residues on protein substrates.
The TAO 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. TAO proteins possess mitogen-activated protein
kinase (MAPK) kinase kinase (MAPKKK or MAP3K or MKKK)
activity. MAPK signaling cascades are important in
mediating cellular responses to extracellular signals.
TAO3 is also known as JIK (JNK inhibitory kinase) or KFC
(kinase from chicken). It specifically activates c-Jun
N-terminal kinase (JNK), presumably by phosphorylating
and activating MKK4/MKK7. In Saccharomyces cerevisiae,
TAO3 is a component of the RAM (regulation of Ace2p
activity and cellular morphogenesis) signaling pathway.
TAO3 is upregulated in retinal ganglion cells after
axotomy, and may play a role in apoptosis.
Length = 313
Score = 62.7 bits (152), Expect = 1e-10
Identities = 47/156 (30%), Positives = 69/156 (44%), Gaps = 29/156 (18%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKEL-YRVDEEAEK--NFLKESKQGLIYLIDLGSHGLI 544
+G G FG VY T+ T EV+ +K++ Y + EK + +KE
Sbjct: 29 IGHGSFGAVYFATNSHTNEVVAVKKMSYSGKQTNEKWQDIIKE----------------- 71
Query: 545 NNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQ 604
V L+ L H N I + G K+ LV EY G + +LL+ +PL +
Sbjct: 72 --------VKFLQQLKHPNTIEYKGCYLKEHTAWLVMEYCLG-SASDLLEVHKKPLQEVE 122
Query: 605 RVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
G+ YLHS N+IHRD+ + N L+ E G
Sbjct: 123 IAAITHGALQGLAYLHSHNMIHRDIKAGNILLTEPG 158
>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 = 62.3 bits (152), Expect = 1e-10
Identities = 39/155 (25%), Positives = 71/155 (45%), Gaps = 28/155 (18%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEA--EKNFLKESKQGLIYLIDLGSHGLIN 545
+G+G +G VY+ + TGE++ +K++ E K L+E K
Sbjct: 7 IGEGTYGVVYKARDKLTGEIVAIKKIKLRFESEGIPKTALREIK---------------- 50
Query: 546 NLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQR 605
+L+ L+H N+I+ + V L LV E++ L +L++D + LP
Sbjct: 51 ---------LLKELNHPNIIKLLDVFRHKGDLYLVFEFMDT-DLYKLIKDRQRGLPESLI 100
Query: 606 VNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
++ + G+ + HS ++HRDL +N L+ G
Sbjct: 101 KSYLYQLLQGLAFCHSHGILHRDLKPENLLINTEG 135
>gnl|CDD|133178 cd05046, PTK_CCK4, Pseudokinase domain of the Protein Tyrosine
Kinase, Colon Carcinoma Kinase 4. Protein Tyrosine
Kinase (PTK) family; Colon Carcinoma Kinase 4 (CCK4);
pseudokinase domain. The PTKc (catalytic domain) family,
to which this subfamily belongs, 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. CCK4,
also called protein tyrosine kinase 7 (PTK7), is an
orphan receptor tyr kinase (RTK) containing an
extracellular region with seven immunoglobulin domains,
a transmembrane segment, and an intracellular inactive
pseudokinase domain. Studies in mice reveal that CCK4 is
essential for neural development. Mouse embryos
containing a truncated CCK4 die perinatally and display
craniorachischisis, a severe form of neural tube defect.
The mechanism of action of the CCK4 pseudokinase is
still unknown. Other pseudokinases such as HER3 rely on
the activity of partner RTKs.
Length = 275
Score = 62.1 bits (151), Expect = 1e-10
Identities = 49/174 (28%), Positives = 76/174 (43%), Gaps = 37/174 (21%)
Query: 476 IFRASDLVRGPLLGQGFFGQVY----RVTHRETGEVMVL-KELYRVDEEAEKNFLKESKQ 530
F S+L LG+G FG+V+ + E GE +VL K L + +E N E ++
Sbjct: 1 AFPRSNLQEITTLGRGEFGEVFLAKAKGIEEEGGETLVLVKALQKTKDE---NLQSEFRR 57
Query: 531 GLIYLIDLGSHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLK 590
++ + R L H NV+R +G+ + ++ EY G LK
Sbjct: 58 ---------------------ELDMFRKLSHKNVVRLLGLCREAEPHYMILEYTDLGDLK 96
Query: 591 ELLQ--------DPGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
+ L+ PL Q+V IA GM +L + +HRDL ++NCLV
Sbjct: 97 QFLRATKSKDEKLKPPPLSTKQKVALCTQIALGMDHLSNARFVHRDLAARNCLV 150
>gnl|CDD|173760 cd08220, STKc_Nek8, Catalytic domain of the Protein
Serine/Threonine Kinase, Never In Mitosis gene A-related
kinase 8. Serine/Threonine Kinases (STKs), Never In
Mitosis gene A (NIMA)-related kinase 8 (Nek8) subfamily,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The Nek8 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. Nek8 contains an
N-terminal kinase catalytic domain and a C-terminal RCC1
(regulator of chromosome condensation) domain. A double
point mutation in Nek8 causes cystic kidney disease in
mice that genetically resembles human autosomal
recessive polycystic kidney disease (ARPKD). Nek8 is
also associated with a rare form of juvenile renal
cystic disease, nephronophthisis type 9. It has been
suggested that a defect in the ciliary localization of
Nek8 contributes to the development of cysts manifested
by these diseases.
Length = 256
Score = 61.8 bits (150), Expect = 2e-10
Identities = 28/87 (32%), Positives = 47/87 (54%), Gaps = 1/87 (1%)
Query: 551 SQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQP-LPWGQRVNFA 609
++ VL+ L H N+I + +D+ L +V EY GGTL E +Q L ++F
Sbjct: 48 NECQVLKLLSHPNIIEYYENFLEDKALMIVMEYAPGGTLAEYIQKRCNSLLDEDTILHFF 107
Query: 610 RDIAAGMTYLHSMNLIHRDLNSQNCLV 636
I + ++H+ ++HRDL +QN L+
Sbjct: 108 VQILLALHHVHTKLILHRDLKTQNILL 134
>gnl|CDD|215036 PLN00034, PLN00034, mitogen-activated protein kinase kinase;
Provisional.
Length = 353
Score = 62.5 bits (152), Expect = 2e-10
Identities = 39/164 (23%), Positives = 72/164 (43%), Gaps = 43/164 (26%)
Query: 480 SDLVRGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLG 539
S+L R +G G G VY+V HR TG + LK +Y E+ + +
Sbjct: 74 SELERVNRIGSGAGGTVYKVIHRPTGRLYALKVIYGNHEDTVRRQICR------------ 121
Query: 540 SHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQP 599
++ +LR ++H NV++ + + ++ ++ E++ GG+L+
Sbjct: 122 ------------EIEILRDVNHPNVVKCHDMFDHNGEIQVLLEFMDGGSLE--------- 160
Query: 600 LPWGQRVN-------FARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
G + AR I +G+ YLH +++HRD+ N L+
Sbjct: 161 ---GTHIADEQFLADVARQILSGIAYLHRRHIVHRDIKPSNLLI 201
>gnl|CDD|133181 cd05050, PTKc_Musk, Catalytic domain of the Protein Tyrosine
Kinase, Muscle-specific kinase. Protein Tyrosine Kinase
(PTK) family; Muscle-specific kinase (Musk); catalytic
(c) domain. 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.
Musk is a receptor tyr kinase (RTK) containing an
extracellular region with four immunoglobulin-like
domains and a cysteine-rich cluster, a transmembrane
segment, and an intracellular catalytic domain. Musk is
expressed and concentrated in the postsynaptic membrane
in skeletal muscle. It is essential for the
establishment of the neuromuscular junction (NMJ), a
peripheral synapse that conveys signals from motor
neurons to muscle cells. Agrin, a large proteoglycan
released from motor neurons, stimulates Musk
autophosphorylation and activation, leading to the
clustering of acetylcholine receptors (AChRs). To date,
there is no evidence to suggest that agrin binds
directly to Musk. Mutations in AChR, Musk and other
partners are responsible for diseases of the NMJ, such
as the autoimmune syndrome myasthenia gravis.
Length = 288
Score = 61.8 bits (150), Expect = 2e-10
Identities = 32/110 (29%), Positives = 52/110 (47%), Gaps = 21/110 (19%)
Query: 550 FSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQD-------------- 595
+ A++ H N+++ +GV + + L+ EY+A G L E L+
Sbjct: 56 QREAALMAEFDHPNIVKLLGVCAVGKPMCLLFEYMAYGDLNEFLRHRSPRAQCSLSHSTS 115
Query: 596 -----PGQPLPWG--QRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
PLP +++ A+ +AAGM YL +HRDL ++NCLV E
Sbjct: 116 SARKCGLNPLPLSCTEQLCIAKQVAAGMAYLSERKFVHRDLATRNCLVGE 165
>gnl|CDD|173630 cd05044, PTKc_c-ros, Catalytic domain of the Protein Tyrosine
Kinase, C-ros. Protein Tyrosine Kinases (PTK) family;
C-ros and Drosophila Sevenless proteins; catalytic (c)
domain. 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. The
proto-oncogene c-ros encodes an orphan receptor tyr
kinase (RTK) with an unknown ligand. RTKs contain an
extracellular ligand-binding domain, a transmembrane
region, 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. C-ros is
expressed in embryonic cells of the kidney, intestine
and lung, but disappears soon after birth. It persists
only in the adult epididymis. Male mice bearing inactive
mutations of c-ros lack the initial segment of the
epididymis and are infertile. The Drosophila protein,
Sevenless, is required for the specification of the R7
photoreceptor cell during eye development.
Length = 269
Score = 61.4 bits (149), Expect = 2e-10
Identities = 47/168 (27%), Positives = 76/168 (45%), Gaps = 40/168 (23%)
Query: 487 LLGQGFFGQVYRVTHRE-----TGEVMV-LKELYR--VDEEAEKNFLKESKQGLIYLIDL 538
LG G FG+VY T + +G + V +K L + D+E +K FLKE+
Sbjct: 2 FLGSGAFGEVYEGTATDILGPGSGPIRVAVKTLRKGATDQE-KKEFLKEA---------- 50
Query: 539 GSHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQD--- 595
++ + +H N+++ +GV + ++ E + GG L L+D
Sbjct: 51 ---------------HLMSNFNHPNIVKLLGVCLLNEPQYIIMELMEGGDLLSYLRDARV 95
Query: 596 ---PGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
L + ++ D+A G YL M+ IHRDL ++NCLV E G
Sbjct: 96 ERFGPPLLTLKELLDICLDVAKGCVYLEQMHFIHRDLAARNCLVSEKG 143
>gnl|CDD|173650 cd05094, PTKc_TrkC, Catalytic domain of the Protein Tyrosine
Kinase, Tropomyosin Related Kinase C. Protein Tyrosine
Kinase (PTK) family; Tropomyosin Related Kinase C
(TrkC); catalytic (c) domain. 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. TrkC is a member of the
Trk subfamily of proteins, which are receptor tyr
kinases (RTKs) containing an extracellular region with
arrays of leucine-rich motifs flanked by two
cysteine-rich clusters followed by two
immunoglobulin-like domains, a transmembrane segment,
and an intracellular catalytic domain. Binding of TrkC
to its ligand, neurotrophin 3 (NT3), results in receptor
oligomerization and activation of the catalytic domain.
TrkC is broadly expressed in the nervous system and in
some non-neural tissues including the developing heart.
NT3/TrkC signaling plays an important role in the
innervation of the cardiac conducting system and the
development of smooth muscle cells. Mice deficient with
NT3 and TrkC have multiple heart defects. NT3/TrkC
signaling is also critical for the development and
maintenance of enteric neurons that are important for
the control of gut peristalsis.
Length = 291
Score = 61.6 bits (149), Expect = 3e-10
Identities = 49/176 (27%), Positives = 79/176 (44%), Gaps = 45/176 (25%)
Query: 481 DLVRGPLLGQGFFGQV-----YRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYL 535
D+V LG+G FG+V Y ++ + ++ +K L A K+F +E++
Sbjct: 6 DIVLKRELGEGAFGKVFLAECYNLSPTKDKMLVAVKALKDPTLAARKDFQREAE------ 59
Query: 536 IDLGSHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQD 595
+L +L H ++++F GV L +V EY+ G L + L+
Sbjct: 60 -------------------LLTNLQHEHIVKFYGVCGDGDPLIMVFEYMKHGDLNKFLRA 100
Query: 596 ---------PGQP------LPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
GQP L Q ++ A IA+GM YL S + +HRDL ++NCLV
Sbjct: 101 HGPDAMILVDGQPRQAKGELGLSQMLHIASQIASGMVYLASQHFVHRDLATRNCLV 156
>gnl|CDD|215907 pfam00412, LIM, LIM domain. This family represents two copies of
the LIM structural domain.
Length = 58
Score = 55.8 bits (135), Expect = 3e-10
Identities = 27/58 (46%), Positives = 35/58 (60%), Gaps = 2/58 (3%)
Query: 12 CAGCLNNIVEDEYVQ-ALSQEWHTDCFRCSACDVMLDNW-YFEKDGLLFCKEDYNGKY 67
CAGC I + E V+ AL + WH +CFRC+ C L +FEKDG L+CK DY +
Sbjct: 1 CAGCGKPIYDRELVRRALGKVWHPECFRCAVCGKPLGPGDFFEKDGKLYCKHDYFKLF 58
Score = 44.6 bits (106), Expect = 3e-06
Identities = 17/60 (28%), Positives = 26/60 (43%), Gaps = 4/60 (6%)
Query: 71 CQNCGQMMSGP--VMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYCGLCYKRQM 128
C CG+ + V +HPECF+C C +G G+ + + LYC Y +
Sbjct: 1 CAGCGKPIYDRELVRRALGKVWHPECFRCAVCGKPLGPGDFFEKDGK--LYCKHDYFKLF 58
>gnl|CDD|188715 cd09329, LIM3_abLIM, The third LIM domain of actin binding LIM
(abLIM) proteins. The third LIM domain of actin
binding LIM (abLIM) proteins: Three homologous members
of the abLIM protein family have been identified;
abLIM-1, abLIM-2 and abLIM-3. The N-terminal of abLIM
consists of four tandem repeats of LIM domains and the
C-terminal of acting binding LIM protein is a villin
headpiece domain, which has strong actin binding
activity. The abLIM-1, which is expressed in retina,
brain, and muscle tissue, has been indicated to
function as a tumor suppressor. AbLIM-2 and -3, mainly
expressed in muscle and neuronal tissue, bind to
F-actin strongly. They may serve as a scaffold for
signaling modules of the actin cytoskeleton and thereby
modulate transcription. It has shown that LIM domains
of abLIMs interact with STARS (striated muscle
activator of Rho signaling), which directly binds actin
and stimulates serum-response factor (SRF)-dependent
transcription. All LIM domains are 50-60 amino acids in
size and share two characteristic highly conserved zinc
finger motifs. The two zinc fingers contain eight
conserved residues, mostly cysteines and histidines,
which coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 52
Score = 55.4 bits (134), Expect = 3e-10
Identities = 21/52 (40%), Positives = 29/52 (55%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWYFEKDGLLFCKEDY 63
CAGC I + + AL ++WH CF+C C +L Y KDG +C+ DY
Sbjct: 1 CAGCGQEIKNGQALLALDKQWHVWCFKCKECGKVLTGEYMGKDGKPYCERDY 52
Score = 33.8 bits (78), Expect = 0.018
Identities = 12/33 (36%), Positives = 18/33 (54%), Gaps = 1/33 (3%)
Query: 71 CQNCGQMM-SGPVMVVGDHKFHPECFKCTSCSC 102
C CGQ + +G ++ D ++H CFKC C
Sbjct: 1 CAGCGQEIKNGQALLALDKQWHVWCFKCKECGK 33
>gnl|CDD|132952 cd06621, PKc_MAPKK_Pek1_like, Catalytic domain of fungal Pek1-like
dual-specificity MAP kinase kinases. Protein kinases
(PKs), MAP kinase kinase(MAPKK) subfamily, fungal
Pek1-like proteins, catalytic (c) domain. PKs catalyze
the transfer of the gamma-phosphoryl group from ATP to
serine/threonine or tyrosine residues on protein
substrates. The MAPKK subfamily is part of a larger
superfamily that includes the catalytic domains of other
protein serine/threonine kinases, protein tyrosine
kinases, RIO kinases, aminoglycoside phosphotransferase,
choline kinase, and phosphoinositide 3-kinase. The
mitogen-activated protein (MAP) kinase signaling
pathways are important mediators of cellular responses
to extracellular signals. The pathways involve a triple
kinase core cascade comprising of the MAP kinase (MAPK),
which is phosphorylated and activated by a MAPK kinase
(MAPKK or MKK), which itself is phosphorylated and
activated by a MAPK kinase kinase (MAPKKK or MKKK).
Members of this group include the MAPKKs Pek1/Skh1 from
Schizosaccharomyces pombe and MKK2 from Saccharomyces
cerevisiae, and related proteins. Both fission yeast
Pek1 and baker's yeast MKK2 are components of the cell
integrity MAPK pathway. In fission yeast, Pek1
phosphorylates and activates the MAPK Pmk1/Spm1 and is
regulated by the MAPKKK Mkh1. In baker's yeast, the
pathway involves the MAPK Slt2, the MAPKKs MKK1 and
MKK2, and the MAPKKK Bck1. The cell integrity MAPK
cascade is activated by multiple stress conditions, and
is essential in cell wall construction, morphogenesis,
cytokinesis, and ion homeostasis.
Length = 287
Score = 60.9 bits (148), Expect = 4e-10
Identities = 36/162 (22%), Positives = 66/162 (40%), Gaps = 37/162 (22%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKE-LYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
LG+G G V + + TG + LK + + +K L+E
Sbjct: 9 LGEGAGGSVTKCRLKNTGMIFALKTITTDPNPDLQKQILRE------------------- 49
Query: 547 LHCFSQVAVLRSLHHHNVIRFIGVLY--KDRKLNLVTEYIAGGTL----KELLQDPGQPL 600
+ + +S ++++ G + + EY GG+L K++ + G+
Sbjct: 50 ------LEINKSCKSPYIVKYYGAFLDESSSSIGIAMEYCEGGSLDSIYKKVKKRGGRI- 102
Query: 601 PWGQRV--NFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
G++V A + G++YLHS +IHRD+ N L+ G
Sbjct: 103 --GEKVLGKIAESVLKGLSYLHSRKIIHRDIKPSNILLTRKG 142
>gnl|CDD|173640 cd05067, PTKc_Lck_Blk, Catalytic domain of the Protein Tyrosine
Kinases, Lymphocyte-specific kinase and Blk. Protein
Tyrosine Kinase (PTK) family; Lck and Blk kinases;
catalytic (c) domain. 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. Lck (lymphocyte-specific
kinase) and Blk are members of the Src subfamily of
proteins, which are cytoplasmic (or non-receptor) tyr
kinases. Src kinases contain an N-terminal SH4 domain
with a myristoylation site, followed by SH3 and SH2
domains, a tyr kinase domain, and a regulatory
C-terminal region containing a conserved tyr. They are
activated by autophosphorylation at the tyr kinase
domain, but are negatively regulated by phosphorylation
at the C-terminal tyr by Csk (C-terminal Src Kinase).
Src proteins are involved in signaling pathways that
regulate cytokine and growth factor responses,
cytoskeleton dynamics, cell proliferation, survival, and
differentiation. Lck is expressed in T-cells and natural
killer (NK) cells. It plays a critical role in T-cell
maturation, activation, and T-cell receptor (TCR)
signaling. Lck phosphorylates ITAM (immunoreceptor tyr
activation motif) sequences on several subunits of TCRs,
leading to the activation of different second messenger
cascades. Phosphorylated ITAMs serve as binding sites
for other signaling factor such as Syk and ZAP-70,
leading to their activation and propagation of
downstream events. In addition, Lck regulates
drug-induced apoptosis by interfering with the
mitochondrial death pathway. The apototic role of Lck is
independent of its primary function in T-cell signaling.
Blk is expressed specifically in B-cells. It is involved
in pre-BCR (B-cell receptor) signaling.
Length = 260
Score = 60.6 bits (147), Expect = 4e-10
Identities = 44/154 (28%), Positives = 72/154 (46%), Gaps = 33/154 (21%)
Query: 488 LGQGFFGQVYRVTHRETGEVMV--LKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLIN 545
LG G FG+V+ + +V + LK+ + EA FL E+
Sbjct: 14 LGAGQFGEVWMGYYNGHTKVAIKSLKQ-GSMSPEA---FLAEA----------------- 52
Query: 546 NLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDP-GQPLPWGQ 604
NL ++ L H ++R V+ ++ + ++TEY+ G+L + L+ P G L +
Sbjct: 53 NL--------MKQLQHPRLVRLYAVVTQE-PIYIITEYMENGSLVDFLKTPEGIKLTINK 103
Query: 605 RVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
++ A IA GM ++ N IHRDL + N LV E
Sbjct: 104 LIDMAAQIAEGMAFIERKNYIHRDLRAANILVSE 137
>gnl|CDD|133193 cd05062, PTKc_IGF-1R, Catalytic domain of the Protein Tyrosine
Kinase, Insulin-like Growth Factor-1 Receptor. Protein
Tyrosine Kinase (PTK) family; Insulin-like Growth
Factor-1 Receptor (IGF-1R); catalytic (c) domain. 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. IGF-1R is
a receptor tyr kinases (RTK) that is composed of two
alphabeta heterodimers. Binding of the ligand (IGF-1 or
IGF-2) to the extracellular alpha subunit activates the
intracellular tyr kinase domain of the transmembrane
beta subunit. Receptor activation leads to
autophosphorylation, which stimulates downstream kinase
activities and biological function. IGF-1R signaling is
important in the differentiation, growth, and survival
of normal cells. In cancer cells, where it is frequently
overexpressed, IGF-1R is implicated in proliferation,
the suppression of apoptosis, invasion, and metastasis.
IGF-1R is being developed as a therapeutic target in
cancer treatment.
Length = 277
Score = 60.4 bits (146), Expect = 5e-10
Identities = 40/161 (24%), Positives = 75/161 (46%), Gaps = 30/161 (18%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLG-SHGLINN 546
LGQG FG VY E K +K+ + + + + + +
Sbjct: 14 LGQGSFGMVY--------------------EGIAKGVVKDEPETRVAIKTVNEAASMRER 53
Query: 547 LHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQ--------DPGQ 598
+ ++ +V++ + H+V+R +GV+ + + ++ E + G LK L+ +P Q
Sbjct: 54 IEFLNEASVMKEFNCHHVVRLLGVVSQGQPTLVIMELMTRGDLKSYLRSLRPEMENNPVQ 113
Query: 599 -PLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
P + + A +IA GM YL++ +HRDL ++NC+V E
Sbjct: 114 APPSLKKMIQMAGEIADGMAYLNANKFVHRDLAARNCMVAE 154
>gnl|CDD|143341 cd07836, STKc_Pho85, Catalytic domain of the Serine/Threonine
Kinase, Fungal Cyclin-Dependent protein Kinase Pho85.
Serine/Threonine Kinases (STKs), Pho85 subfamily,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The Pho85 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. Pho85 is a
multifunctional Cyclin-Dependent protein Kinase (CDK) in
yeast. 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. Pho85 is regulated
by 10 different cyclins (Pcls) and plays a role in G1
progression, cell polarity, phosphate and glycogen
metabolism, gene expression, and in signaling changes in
the environment. It is not essential for yeast viability
and is the functional homolog of mammalian CDK5, which
plays a role in central nervous system development.
Length = 284
Score = 60.2 bits (146), Expect = 7e-10
Identities = 45/172 (26%), Positives = 78/172 (45%), Gaps = 29/172 (16%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
LG+G + VY+ +R TGE++ LKE++ EE +
Sbjct: 8 LGEGTYATVYKGRNRTTGEIVALKEIHLDAEEGTPS------------------------ 43
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQ--PLPWGQR 605
++++++ L H N++R V++ + KL LV EY+ LK+ + G L
Sbjct: 44 TAIREISLMKELKHENIVRLHDVIHTENKLMLVFEYMD-KDLKKYMDTHGVRGALDPNTV 102
Query: 606 VNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG--SGFDFHLGQIYLIYV 655
+F + G+ + H ++HRDL QN L+ + G DF L + + I V
Sbjct: 103 KSFTYQLLKGIAFCHENRVLHRDLKPQNLLINKRGELKLADFGLARAFGIPV 154
>gnl|CDD|132974 cd06643, STKc_SLK, Catalytic domain of the Protein Serine/Threonine
Kinase, Ste20-like kinase. Serine/threonine kinases
(STKs), Ste20-like kinase (SLK) subfamily, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The SLK 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. SLK promotes
apoptosis through apoptosis signal-regulating kinase 1
(ASK1) and the mitogen-activated protein kinase (MAPK)
p38. It acts as a MAPK kinase kinase (MAPKKK) by
phosphorylating ASK1, resulting in the phosphorylation
of p38. SLK also plays a role in mediating actin
reorganization. It is part of a microtubule-associated
complex that is targeted at adhesion sites, and is
required in focal adhesion turnover and in regulating
cell migration.
Length = 282
Score = 59.6 bits (144), Expect = 1e-09
Identities = 49/194 (25%), Positives = 82/194 (42%), Gaps = 42/194 (21%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
LG G FG+VY+ ++ETG + K + EE ++++ E
Sbjct: 13 LGDGAFGKVYKAQNKETGVLAAAKVIDTKSEEELEDYMVE-------------------- 52
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
+ +L S H N+++ + Y + L ++ E+ AGG + ++ + +PL Q
Sbjct: 53 -----IDILASCDHPNIVKLLDAFYYENNLWILIEFCAGGAVDAVMLELERPLTEPQIRV 107
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLVREVGSGFDFHLGQIYLIYVPYTLFILSAKTK 667
+ + YLH +IHRDL + N L G D L F +SAK
Sbjct: 108 VCKQTLEALNYLHENKIIHRDLKAGNILFTLDG---DIKLAD----------FGVSAKNT 154
Query: 668 KTYYPNILKKASFI 681
+T I ++ SFI
Sbjct: 155 RT----IQRRDSFI 164
>gnl|CDD|173735 cd07831, STKc_MOK, Catalytic domain of the Serine/Threonine Kinase,
MAPK/MAK/MRK Overlapping Kinase. Serine/Threonine
Kinases (STKs), MAPK/MAK/MRK Overlapping Kinase (MOK)
subfamily, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The MOK
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. MOK, also called Renal tumor antigen 1
(RAGE-1), is widely expressed and is enriched in testis,
kidney, lung, and brain. It is expressed in
approximately 50% of renal cell carcinomas (RCC) and is
a potential target for immunotherapy. MOK is stabilized
by its association with the HSP90 molecular chaperone.
It is induced by the transcription factor Cdx2 and may
be involved in regulating intestinal epithelial
development and differentiation.
Length = 282
Score = 59.2 bits (144), Expect = 1e-09
Identities = 51/181 (28%), Positives = 85/181 (46%), Gaps = 35/181 (19%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+G+G F +V + R+TG+ +K + K K +Q +NNL
Sbjct: 7 IGEGTFSEVLKAQSRKTGKYYAIKCM--------KKHFKSLEQ-------------VNNL 45
Query: 548 HCFSQVAVLRSLHHH-NVIRFIGVLYKDRK---LNLVTEYIAGGTLKELLQDPGQPLPWG 603
++ LR L H N++R I VL+ DRK L LV E + L EL++ +PLP
Sbjct: 46 ---REIQALRRLSPHPNILRLIEVLF-DRKTGRLALVFE-LMDMNLYELIKGRKRPLPEK 100
Query: 604 QRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVR-EVGSGFDFHLGQIYLIYV--PYTLF 660
+ ++ + + ++H + HRD+ +N L++ ++ DF G IY PYT +
Sbjct: 101 RVKSYMYQLLKSLDHMHRNGIFHRDIKPENILIKDDILKLADF--GSCRGIYSKPPYTEY 158
Query: 661 I 661
I
Sbjct: 159 I 159
>gnl|CDD|133175 cd05043, PTK_Ryk, Pseudokinase domain of Ryk (Receptor related to
tyrosine kinase). Protein Tyrosine Kinase (PTK) family;
Receptor related to tyrosine kinase (Ryk); pseudokinase
domain. The PTKc (catalytic domain) family to which this
subfamily belongs, 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. Ryk is a
receptor tyr kinase (RTK) containing an extracellular
region with two leucine-rich motifs, a transmembrane
segment, and an intracellular inactive pseudokinase
domain. The extracellular region of Ryk shows homology
to the N-terminal domain of Wnt inhibitory factor-1
(WIF) and serves as the ligand (Wnt) binding domain of
Ryk. Ryk is expressed in many different tissues both
during development and in adults, suggesting a
widespread function. It acts as a chemorepulsive axon
guidance receptor of Wnt glycoproteins and is
responsible for the establishment of axon tracts during
the development of the central nervous system. In
addition, studies in mice reveal that Ryk is essential
in skeletal, craniofacial, and cardiac development.
Thus, it appears Ryk is involved in signal transduction
despite its lack of kinase activity. Ryk may function as
an accessory protein that modulates the signals coming
from catalytically active partner RTKs such as the Eph
receptors.
Length = 280
Score = 59.4 bits (144), Expect = 1e-09
Identities = 44/164 (26%), Positives = 69/164 (42%), Gaps = 30/164 (18%)
Query: 485 GPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLI 544
LL +G FG+++ + E +EE F+K K H
Sbjct: 11 SDLLQEGTFGRIFYGILID--------EKPGKEEEV---FVKTVKD----------HASE 49
Query: 545 NNLHCFSQVA-VLRSLHHHNVIRFIGVLYKDRKLNLVTE-YIAGGTLKELLQDP------ 596
+ Q + +L L H N++ + V +D + V Y+ G LK LQ
Sbjct: 50 IQVTLLLQESCLLYGLSHQNILPILHVCIEDGEPPFVLYPYMNWGNLKLFLQQCRLGEAN 109
Query: 597 -GQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREV 639
Q L Q V+ A IA GM+YLH +IH+D+ ++NC++ E
Sbjct: 110 NPQALSTQQLVHMAIQIACGMSYLHKRGVIHKDIAARNCVIDEE 153
>gnl|CDD|132991 cd06917, STKc_NAK1_like, Catalytic domain of Fungal Nak1-like
Protein Serine/Threonine Kinases. Serine/threonine
kinases (STKs), Nak1 subfamily, catalytic (c) domain.
STKs catalyze the transfer of the gamma-phosphoryl group
from ATP to serine/threonine residues on protein
substrates. The Nak1 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
Schizosaccharomyces pombe Nak1, Saccharomyces cerevisiae
Kic1p (kinase that interacts with Cdc31p) and related
proteins. Nak1 (also known as N-rich kinase 1), is
required by fission yeast for polarizing the tips of
actin cytoskeleton and is involved in cell growth, cell
separation, cell morphology and cell-cycle progression.
Kic1p is required by budding yeast for cell integrity
and morphogenesis. Kic1p interacts with Cdc31p, the
yeast homologue of centrin, and phosphorylates
substrates in a Cdc31p-dependent manner.
Length = 277
Score = 59.0 bits (143), Expect = 1e-09
Identities = 39/158 (24%), Positives = 69/158 (43%), Gaps = 31/158 (19%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKEL-YRVDEEAEKNFLKESKQGLIYLIDLGSHGLIN 545
L+G+G +G VYR H TG V+ LK + ++ + +E
Sbjct: 8 LIGRGAYGAVYRGKHVPTGRVVALKIINLDTPDDDVSDIQRE------------------ 49
Query: 546 NLHCFSQVAVLRSLHHH---NVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPW 602
VA+L L N+ ++ G K +L ++ EY GG+++ L++ P+
Sbjct: 50 -------VALLSQLRQSQPPNITKYYGSYLKGPRLWIIMEYAEGGSVRTLMK--AGPIAE 100
Query: 603 GQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
R++ + Y+H + +IHRD+ + N LV G
Sbjct: 101 KYISVIIREVLVALKYIHKVGVIHRDIKAANILVTNTG 138
>gnl|CDD|133243 cd05112, PTKc_Itk, Catalytic domain of the Protein Tyrosine Kinase,
Interleukin-2-inducible T-cell Kinase. Protein Tyrosine
Kinase (PTK) family; Interleukin-2 (IL-2)-inducible
T-cell kinase (Itk); catalytic (c) domain. 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. Itk (also
known as Tsk or Emt) is a member of the Tec subfamily of
proteins, which are cytoplasmic (or nonreceptor) tyr
kinases with similarity to Src kinases in that they
contain Src homology protein interaction domains (SH3,
SH2) N-terminal to the catalytic tyr kinase domain.
Unlike Src kinases, most Tec subfamily members (except
Rlk) also contain an N-terminal pleckstrin homology (PH)
domain, which binds the products of PI3K and allows
membrane recruitment and activation. In addition, Itk
contains the Tec homology (TH) domain containing one
proline-rich region and a zinc-binding region. Tec
kinases are expressed mainly by haematopoietic cells.
Itk is expressed in T-cells and mast cells, and is
important in their development and differentiation. Of
the three Tec kinases expressed in T-cells, Itk plays
the predominant role in T-cell receptor (TCR) signaling.
It is activated by phosphorylation upon TCR crosslinking
and is involved in the pathway resulting in
phospholipase C-gamma1 activation and actin
polymerization. It also plays a role in the downstream
signaling of the T-cell costimulatory receptor CD28, the
T-cell surface receptor CD2, and the chemokine receptor
CXCR4. In addition, Itk is crucial for the development
of T-helper(Th)2 effector responses.
Length = 256
Score = 58.8 bits (142), Expect = 1e-09
Identities = 41/159 (25%), Positives = 69/159 (43%), Gaps = 27/159 (16%)
Query: 480 SDLVRGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLG 539
S+L +G G FG V+ E +V + + R +E++F++E++
Sbjct: 4 SELTLVQEIGSGQFGLVWLGYWLEKRKVAI--KTIREGAMSEEDFIEEAQ---------- 51
Query: 540 SHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQP 599
V+ L H +++ GV + + LV E++ G L + L+
Sbjct: 52 ---------------VMMKLSHPKLVQLYGVCTERSPICLVFEFMEHGCLSDYLRAQRGK 96
Query: 600 LPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
+ D+ GM YL S N+IHRDL ++NCLV E
Sbjct: 97 FSQETLLGMCLDVCEGMAYLESSNVIHRDLAARNCLVGE 135
>gnl|CDD|188755 cd09369, LIM1_Lhx2_Lhx9, The first LIM domain of Lhx2 and Lhx9
family. The first LIM domain of Lhx2 and Lhx9 family:
Lhx2 and Lhx9 are highly homologous LHX regulatory
proteins. They belong to the LHX protein family, which
features two tandem N-terminal LIM domains and a
C-terminal DNA binding homeodomain. Members of LHX
family are found in the nucleus and act as
transcription factors or cofactors. LHX proteins are
critical for the development of specialized cells in
multiple tissue types, including the nervous system,
skeletal muscle, the heart, the kidneys, and endocrine
organs, such as the pituitary gland and the pancreas.
Although Lhx2 and Lhx9 are highly homologous, they
seems to play regulatory roles in different organs. In
animals, Lhx2 plays important roles in eye, cerebral
cortex, limb, the olfactory organs, and erythrocyte
development. Lhx2 gene knockout mice exhibit impaired
patterning of the cortical hem and the telencephalon of
the developing brain, and a lack of development in
olfactory structures. Lhx9 is expressed in several
regions of the developing mouse brain , the spinal
cord, the pancreas, in limb mesenchyme, and in the
urogenital region. Lhx9 plays critical roles in gonad
development. Homozygous mice lacking functional Lhx9
alleles exhibit numerous urogenital defects, such as
gonadal agenesis, infertility, and undetectable levels
of testosterone and estradiol coupled with high FSH
levels. Lhx9 null mice are phenotypically female, even
those that are genotypically male. As in other LIM
domains, this domain family is 50-60 amino acids in
size and shares two characteristic zinc finger motifs.
The two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately
bond to two zinc atoms. LIM domains function as
adaptors or scaffolds to support the assembly of
multimeric protein.
Length = 54
Score = 53.5 bits (129), Expect = 2e-09
Identities = 22/54 (40%), Positives = 33/54 (61%), Gaps = 2/54 (3%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWY--FEKDGLLFCKEDY 63
CAGC I + Y+ A+ ++WH C +C C + LD+ F +DG ++CKEDY
Sbjct: 1 CAGCGEKIQDRFYLLAVDRQWHASCLKCCECRLPLDSELSCFSRDGNIYCKEDY 54
>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 = 58.6 bits (142), Expect = 2e-09
Identities = 41/173 (23%), Positives = 76/173 (43%), Gaps = 35/173 (20%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELY---RVDEEAEKNFLKESKQGLIYLIDLGSHGLI 544
+G+G F VY+ G V+ LK++ +D +A ++ LKE IDL
Sbjct: 10 IGKGQFSVVYKAICLLDGRVVALKKVQIFEMMDAKARQDCLKE--------IDL------ 55
Query: 545 NNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELL---QDPGQPLP 601
L+ L H NVI+++ ++ +LN+V E G L ++ + + +P
Sbjct: 56 -----------LKQLDHPNVIKYLASFIENNELNIVLELADAGDLSRMIKHFKKQKRLIP 104
Query: 602 WGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVGS---GFDFHLGQIY 651
+ + + + ++HS ++HRD+ N + G G D LG+ +
Sbjct: 105 ERTIWKYFVQLCSALEHMHSKRIMHRDIKPANVFITATGVVKLG-DLGLGRFF 156
>gnl|CDD|133204 cd05073, PTKc_Hck, Catalytic domain of the Protein Tyrosine Kinase,
Hematopoietic cell kinase. Protein Tyrosine Kinase
(PTK) family; Hematopoietic cell kinase (Hck); catalytic
(c) domain. 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.
Hck is a member of the Src subfamily of proteins, which
are cytoplasmic (or non-receptor) tyr kinases. Src
kinases contain an N-terminal SH4 domain with a
myristoylation site, followed by SH3 and SH2 domains, a
tyr kinase domain, and a regulatory C-terminal region
containing a conserved tyr. They are activated by
autophosphorylation at the tyr kinase domain, but are
negatively regulated by phosphorylation at the
C-terminal tyr by Csk (C-terminal Src Kinase). Src
proteins are involved in signaling pathways that
regulate cytokine and growth factor responses,
cytoskeleton dynamics, cell proliferation, survival, and
differentiation. Hck is present in myeloid and lymphoid
cells that play a role in the development of cancer. It
may be important in the oncogenic signaling of the
protein Tel-Abl, which induces a chronic myelogenous
leukemia (CML)-like disease. Hck also acts as a negative
regulator of granulocyte colony-stimulating factor
(G-CSF)-induced proliferation of granulocytic
precursors, suggesting a possible role in the
development of acute myeloid leukemia (AML). In
addition, Hck is essential in regulating the
degranulation of polymorphonuclear leukocytes (PMNs).
Genetic polymorphisms affect the expression level of
Hck, which affects PMN mediator release and influences
the development of chronic obstructive pulmonary disease
(COPD).
Length = 260
Score = 58.5 bits (141), Expect = 2e-09
Identities = 44/166 (26%), Positives = 79/166 (47%), Gaps = 31/166 (18%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
LG G FG+V+ T+ + +V V + + + + FL E+
Sbjct: 14 LGAGQFGEVWMATYNKHTKVAV--KTMKPGSMSVEAFLAEAN------------------ 53
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQ-DPGQPLPWGQRV 606
V+++L H +++ V+ K+ + ++TE++A G+L + L+ D G P + +
Sbjct: 54 -------VMKTLQHDKLVKLHAVVTKE-PIYIITEFMAKGSLLDFLKSDEGSKQPLPKLI 105
Query: 607 NFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE--VGSGFDFHLGQI 650
+F+ IA GM ++ N IHRDL + N LV V DF L ++
Sbjct: 106 DFSAQIAEGMAFIEQRNYIHRDLRAANILVSASLVCKIADFGLARV 151
>gnl|CDD|173734 cd07830, STKc_MAK_like, Catalytic domain of Male germ
cell-Associated Kinase-like Serine/Threonine Kinases.
Serine/Threonine Kinases (STKs), Male germ
cell-Associated Kinase (MAK)-like subfamily, catalytic
(c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The MAK-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 human MAK and
MAK-related kinase (MRK), Saccharomyces cerevisiae
Ime2p, Schizosaccharomyces pombe Mei4-dependent protein
3 (Mde3) and Pit1, Caenorhabditis elegans dyf-5,
Arabidopsis thaliana MHK, and similar proteins. These
proteins play important roles during meiosis. MAK is
highly expressed in testicular cells specifically in the
meiotic phase, but is not essential for spermatogenesis
and fertility. It functions as a coactivator of the
androgen receptor in prostate cells. MRK, also called
Intestinal Cell Kinase (ICK), is expressed ubiquitously,
with highest expression in the ovary and uterus. A
missense mutation in MRK causes
endocrine-cerebro-osteodysplasia (ECO), suggesting that
this protein plays an important role in the development
of many organs. MAK and MRK may be involved in
regulating cell cycle and cell fate. Ime2p is a
meiosis-specific kinase that is important during meiotic
initiation and during the later stages of meiosis. Mde3
functions downstream of the transcription factor Mei-4
which is essential for meiotic prophase I.
Length = 283
Score = 58.7 bits (143), Expect = 2e-09
Identities = 40/154 (25%), Positives = 64/154 (41%), Gaps = 33/154 (21%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLK----ELYRVDEEAEKNFLKESKQGLIYLIDLGSHGL 543
LG G FG VY ++ETGE++ +K + Y +E L+E K
Sbjct: 7 LGDGTFGSVYLARNKETGELVAIKKMKKKFYSWEECMN---LREVK-------------- 49
Query: 544 INNLHCFSQVAVLRSLHHH-NVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPW 602
LR L+ H N+++ V ++ +L V EY+ G + + G+P
Sbjct: 50 -----------SLRKLNEHPNIVKLKEVFRENDELYFVFEYMEGNLYQLMKDRKGKPFSE 98
Query: 603 GQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
+ I G+ ++H HRDL +N LV
Sbjct: 99 SVIRSIIYQILQGLAHIHKHGFFHRDLKPENLLV 132
>gnl|CDD|132970 cd06639, STKc_myosinIIIB, Catalytic domain of the Protein
Serine/Threonine Kinase, Class IIIB myosin.
Serine/threonine kinases (STKs), class IIIB myosin
subfamily, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
class III myosin 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. Class III myosins are motor
proteins containing an N-terminal kinase catalytic
domain and a C-terminal actin-binding domain. Class III
myosins may play an important role in maintaining the
structural integrity of photoreceptor cell microvilli.
They may also function as cargo carriers during
light-dependent translocation, in photoreceptor cells,
of proteins such as transducin and arrestin. Class IIIB
myosin is expressed highly in retina. It is also present
in the brain and testis. The human class IIIB myosin
gene maps to a region that overlaps the locus for
Bardet-Biedl syndrome, which is characterized by
dysmorphic extremities, retinal dystrophy, obesity, male
hypogenitalism, and renal abnormalities.
Length = 291
Score = 58.5 bits (141), Expect = 3e-09
Identities = 49/168 (29%), Positives = 78/168 (46%), Gaps = 47/168 (27%)
Query: 488 LGQGFFGQVYRVTHRETGE---VMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLI 544
+G+G +G+VY+VT+++ G V +L + VDEE E +
Sbjct: 30 IGKGTYGKVYKVTNKKDGSLAAVKILDPISDVDEEIEAEY-------------------- 69
Query: 545 NNLHCFSQVAVLRSLHHH-NVIRFIGVLYKDRKLN-----LVTEYIAGGTLKELLQDPGQ 598
+L+SL +H NV++F G+ YK KL LV E GG++ EL++
Sbjct: 70 ---------NILQSLPNHPNVVKFYGMFYKADKLVGGQLWLVLELCNGGSVTELVKGL-- 118
Query: 599 PLPWGQRVNFA------RDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
L GQR++ A G+ +LH+ +IHRD+ N L+ G
Sbjct: 119 -LICGQRLDEAMISYILYGALLGLQHLHNNRIIHRDVKGNNILLTTEG 165
>gnl|CDD|132971 cd06640, STKc_MST4, Catalytic domain of the Protein
Serine/Threonine Kinase, Mammalian Ste20-like protein
kinase 4. Serine/threonine kinases (STKs), mammalian
Ste20-like protein kinase 4 (MST4) subfamily, catalytic
(c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The MST4 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. MST4 is sometimes
referred to as MASK (MST3 and SOK1-related kinase). It
plays a role in mitogen-activated protein kinase (MAPK)
signaling during cytoskeletal rearrangement,
morphogenesis, and apoptosis. It influences cell growth
and transformation by modulating the extracellular
signal-regulated kinase (ERK) pathway. MST4 may also
play a role in tumor formation and progression. It
localizes in the Golgi apparatus by interacting with the
Golgi matrix protein GM130 and may play a role in cell
migration.
Length = 277
Score = 58.5 bits (141), Expect = 3e-09
Identities = 40/153 (26%), Positives = 71/153 (46%), Gaps = 26/153 (16%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+G+G FG+V++ T +V+ +K +D E ++ +++ +Q
Sbjct: 12 IGKGSFGEVFKGIDNRTQQVVAIKI---IDLEEAEDEIEDIQQ----------------- 51
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
++ VL V ++ G K KL ++ EY+ GG+ +LL+ P Q
Sbjct: 52 ----EITVLSQCDSPYVTKYYGSYLKGTKLWIIMEYLGGGSALDLLR--AGPFDEFQIAT 105
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
++I G+ YLHS IHRD+ + N L+ E G
Sbjct: 106 MLKEILKGLDYLHSEKKIHRDIKAANVLLSEQG 138
>gnl|CDD|133189 cd05058, PTKc_Met_Ron, Catalytic domain of the Protein Tyrosine
Kinases, Met and Ron. Protein Tyrosine Kinase (PTK)
family; Met and Ron; catalytic (c) domain. 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. Met and
Ron are receptor tyr kinases (RTKs) composed of an
alpha-beta heterodimer. The extracellular alpha chain is
disulfide linked to the beta chain, which contains an
extracellular ligand-binding region with a sema domain,
a PSI domain and four IPT repeats, a transmembrane
segment, and an intracellular catalytic domain. Binding
to their ligands leads to receptor dimerization,
autophosphorylation, activation, and intracellular
signaling. Met binds to the ligand, hepatocyte growth
factor/scatter factor (HGF/SF), and is also called the
HGF receptor. HGF/Met signaling plays a role in growth,
transformation, cell motility, invasion, metastasis,
angiogenesis, wound healing, and tissue regeneration.
Aberrant expression of Met through mutations or gene
amplification is associated with many human cancers
including hereditary papillary renal and gastric
carcinomas. The ligand for Ron is macrophage stimulating
protein (MSP). Ron signaling is important in regulating
cell motility, adhesion, proliferation, and apoptosis.
Aberrant Ron expression is implicated in tumorigenesis
and metastasis.
Length = 262
Score = 57.9 bits (140), Expect = 3e-09
Identities = 41/157 (26%), Positives = 67/157 (42%), Gaps = 30/157 (19%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMV---LKELYRV-DEEAEKNFLKESKQGLIYLIDLGSHG 542
++G+G FG VY T ++ + +K L R+ D E + FLKE G
Sbjct: 2 VIGKGHFGCVYHGTLIDSDGQKIHCAVKSLNRITDLEEVEQFLKE--------------G 47
Query: 543 LINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVT-EYIAGGTLKELLQDPGQPLP 601
+I ++ H NV+ +G+ LV Y+ G L+ ++
Sbjct: 48 II-----------MKDFSHPNVLSLLGICLPSEGSPLVVLPYMKHGDLRNFIRSETHNPT 96
Query: 602 WGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
+ F +A GM YL S +HRDL ++NC++ E
Sbjct: 97 VKDLIGFGLQVAKGMEYLASKKFVHRDLAARNCMLDE 133
>gnl|CDD|133229 cd05098, PTKc_FGFR1, Catalytic domain of the Protein Tyrosine
Kinase, Fibroblast Growth Factor Receptor 1. Protein
Tyrosine Kinase (PTK) family; Fibroblast Growth Factor
Receptor 1 (FGFR1); catalytic (c) domain. 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. FGFR1 is
part of the FGFR subfamily, which are receptor tyr
kinases (RTKs) containing an extracellular
ligand-binding region with three immunoglobulin-like
domains, a transmembrane segment, and an intracellular
catalytic domain. The binding of FGFRs to their ligands,
the FGFs, results in receptor dimerization and
activation, and intracellular signaling. The binding of
FGFs to FGFRs is promiscuous, in that a receptor may be
activated by several ligands and a ligand may bind to
more that one type of receptor. Alternative splicing of
FGFR1 transcripts produces a variety of isoforms, which
are differentially expressed in cells. FGFR1 binds the
ligands, FGF1 and FGF2, with high affinity and has also
been reported to bind FGF4, FGF6, and FGF9. FGFR1
signaling is critical in the control of cell migration
during embryo development. It promotes cell
proliferation in fibroblasts. Nuclear FGFR1 plays a role
in the regulation of transcription. Mutations,
insertions or deletions of FGFR1 have been identified in
patients with Kallman's syndrome (KS), an inherited
disorder characterized by hypogonadotropic hypogonadism
and loss of olfaction. Aberrant FGFR1 expression has
been found in some human cancers including 8P11
myeloproliferative syndrome (EMS), breast cancer, and
pancreatic adenocarcinoma.
Length = 307
Score = 58.1 bits (140), Expect = 4e-09
Identities = 49/173 (28%), Positives = 80/173 (46%), Gaps = 33/173 (19%)
Query: 482 LVRGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSH 541
LV G LG+G FGQV V+ E +D+E + +K + L +
Sbjct: 20 LVLGKPLGEGCFGQV------------VMAEAIGLDKEKPN---RVTKVAVKMLKSDATE 64
Query: 542 GLINNLHCFSQVAVLRSL-HHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQ------ 594
+++L S++ +++ + H N+I +G +D L ++ EY + G L+E L+
Sbjct: 65 KDLSDL--ISEMEMMKMIGKHKNIINLLGACTQDGPLYVIVEYASKGNLREYLRARRPPG 122
Query: 595 ---------DPGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
P + L + V+ A +A GM YL S IHRDL ++N LV E
Sbjct: 123 MEYCYNPTQVPEEQLSFKDLVSCAYQVARGMEYLASKKCIHRDLAARNVLVTE 175
>gnl|CDD|173658 cd05114, PTKc_Tec_Rlk, Catalytic domain of the Protein Tyrosine
Kinases, Tyrosine kinase expressed in hepatocellular
carcinoma and Resting lymphocyte kinase. Protein
Tyrosine Kinase (PTK) family; Tyrosine kinase expressed
in hepatocellular carcinoma (Tec) and Resting lymphocyte
kinase (Rlk); catalytic (c) domain. 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. Tec and
Rlk (also named Txk) are members of the Tec subfamily of
proteins, which are cytoplasmic (or nonreceptor) tyr
kinases with similarity to Src kinases in that they
contain Src homology protein interaction domains (SH3,
SH2) N-terminal to the catalytic tyr kinase domain.
Unlike Src kinases, most Tec subfamily members (except
Rlk) also contain an N-terminal pleckstrin homology (PH)
domain, which binds the products of PI3K and allows
membrane recruitment and activation. Instead of PH, Rlk
contains an N-terminal cysteine-rich region. In addition
to PH, Tec also contains the Tec homology (TH) domain
with proline-rich and zinc-binding regions. Tec kinases
are expressed mainly by haematopoietic cells. Tec is
more widely-expressed than other Tec subfamily kinases.
It is found in endothelial cells, both B- and T-cells,
and a variety of myeloid cells including mast cells,
erythroid cells, platelets, macrophages and neutrophils.
Rlk is expressed in T-cells and mast cell lines. Tec and
Rlk are both key components of T-cell receptor (TCR)
signaling. They are important in TCR-stimulated
proliferation, IL-2 production and phopholipase C-gamma1
activation.
Length = 256
Score = 57.6 bits (139), Expect = 4e-09
Identities = 36/134 (26%), Positives = 61/134 (45%), Gaps = 13/134 (9%)
Query: 520 AEKNFLKESKQGLIYLIDLG-------------SHGLINNLHCFSQVAVLRSLHHHNVIR 566
+E F+KE G ++ LG + G ++ + V+ L H +++
Sbjct: 4 SELTFMKELGSGQFGVVHLGKWRAQIKVAIKAINEGAMSEEDFIEEAKVMMKLSHPKLVQ 63
Query: 567 FIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVNFARDIAAGMTYLHSMNLIH 626
GV + + L +VTE++ G L L+ L ++ +D+ GM YL + IH
Sbjct: 64 LYGVCTQQKPLYIVTEFMENGCLLNYLRQRQGKLSKDMLLSMCQDVCEGMEYLERNSFIH 123
Query: 627 RDLNSQNCLVREVG 640
RDL ++NCLV G
Sbjct: 124 RDLAARNCLVSSTG 137
>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 = 57.5 bits (139), Expect = 4e-09
Identities = 36/149 (24%), Positives = 63/149 (42%), Gaps = 28/149 (18%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKE--LYRVDEEAEKNFLKESKQGLIYLIDLGSHGLIN 545
LG+G FG+ E ++V KE L R+ E+ ++ L E
Sbjct: 8 LGKGAFGEATLYRRTEDDSLVVWKEVNLTRLSEKERRDALNE------------------ 49
Query: 546 NLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKE-LLQDPGQPLPWGQ 604
+ +L L H N+I + D L + EY GGTL + +++ GQ
Sbjct: 50 -------IVILSLLQHPNIIAYYNHFMDDNTLLIEMEYANGGTLYDKIVRQKGQLFEEEM 102
Query: 605 RVNFARDIAAGMTYLHSMNLIHRDLNSQN 633
+ + I + ++Y+H ++HRD+ + N
Sbjct: 103 VLWYLFQIVSAVSYIHKAGILHRDIKTLN 131
>gnl|CDD|133232 cd05101, PTKc_FGFR2, Catalytic domain of the Protein Tyrosine
Kinase, Fibroblast Growth Factor Receptor 2. Protein
Tyrosine Kinase (PTK) family; Fibroblast Growth Factor
Receptor 2 (FGFR2); catalytic (c) domain. 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. FGFR2 is
part of the FGFR subfamily, which are receptor tyr
kinases (RTKs) containing an extracellular
ligand-binding region with three immunoglobulin-like
domains, a transmembrane segment, and an intracellular
catalytic domain. The binding of FGFRs to their ligands,
the FGFs, results in receptor dimerization and
activation, and intracellular signaling. The binding of
FGFs to FGFRs is promiscuous, in that a receptor may be
activated by several ligands and a ligand may bind to
more that one type of receptor. There are many splice
variants of FGFR2 which show differential expression and
binding to FGF ligands. Disruption of either FGFR2 or
FGFR2b is lethal in mice, due to defects in the placenta
or severe impairment of tissue development including
lung, limb, and thyroid, respectively. Disruption of
FGFR2c in mice results in defective bone and skull
development. Genetic alterations of FGFR2 are associated
with many human skeletal disorders including Apert
syndrome, Crouzon syndrome, Jackson-Weiss syndrome, and
Pfeiffer syndrome.
Length = 304
Score = 58.1 bits (140), Expect = 4e-09
Identities = 47/178 (26%), Positives = 80/178 (44%), Gaps = 33/178 (18%)
Query: 477 FRASDLVRGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLI 536
F L G LG+G FGQV V+ E +D++ K + + + L
Sbjct: 12 FSRDKLTLGKPLGEGCFGQV------------VMAEALGIDKDKPKEAVTVAVK---MLK 56
Query: 537 DLGSHGLINNLHCFSQVAVLRSL-HHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQD 595
D + +++L S++ +++ + H N+I +G +D L ++ EY + G L+E L+
Sbjct: 57 DDATEKDLSDL--VSEMEMMKMIGKHKNIINLLGACTQDGPLYVIVEYASKGNLREYLRA 114
Query: 596 ---------------PGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
P + + + V+ +A GM YL S IHRDL ++N LV E
Sbjct: 115 RRPPGMEYSYDIARVPDEQMTFKDLVSCTYQVARGMEYLASQKCIHRDLAARNVLVTE 172
>gnl|CDD|133200 cd05069, PTKc_Yes, Catalytic domain of the Protein Tyrosine Kinase,
Yes. Protein Tyrosine Kinase (PTK) family; Yes kinase;
catalytic (c) domain. 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. Yes (or c-Yes) is a
member of the Src subfamily of proteins, which are
cytoplasmic (or non-receptor) tyr kinases. Src kinases
contain an N-terminal SH4 domain with a myristoylation
site, followed by SH3 and SH2 domains, a tyr kinase
domain, and a regulatory C-terminal region containing a
conserved tyr. They are activated by autophosphorylation
at the tyr kinase domain, but are negatively regulated
by phosphorylation at the C-terminal tyr by Csk
(C-terminal Src Kinase). Src proteins are involved in
signaling pathways that regulate cytokine and growth
factor responses, cytoskeleton dynamics, cell
proliferation, survival, and differentiation. c-Yes
kinase is the cellular homolog of the oncogenic protein
(v-Yes) encoded by the Yamaguchi 73 and Esh sarcoma
viruses. It displays functional overlap with other Src
subfamily members, particularly Src. It also shows some
unique functions such as binding to occludins,
transmembrane proteins that regulate extracellular
interactions in tight junctions. Yes also associates
with a number of proteins in different cell types that
Src does not interact with, like JAK2 and gp130 in
pre-adipocytes, and Pyk2 in treated pulmonary vein
endothelial cells. Although the biological function of
Yes remains unclear, it appears to have a role in
regulating cell-cell interactions and vesicle
trafficking in polarized cells.
Length = 260
Score = 57.4 bits (138), Expect = 4e-09
Identities = 42/152 (27%), Positives = 72/152 (47%), Gaps = 29/152 (19%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
LGQG FG+V+ T T +V + + + + FL+E++
Sbjct: 14 LGQGCFGEVWMGTWNGTTKVAI--KTLKPGTMMPEAFLQEAQ------------------ 53
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQD-PGQPLPWGQRV 606
+++ L H ++ V+ + + +VTE++ G+L + L++ G+ L Q V
Sbjct: 54 -------IMKKLRHDKLVPLYAVV-SEEPIYIVTEFMGKGSLLDFLKEGDGKYLKLPQLV 105
Query: 607 NFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
+ A IA GM Y+ MN IHRDL + N LV +
Sbjct: 106 DMAAQIADGMAYIERMNYIHRDLRAANILVGD 137
>gnl|CDD|173655 cd05110, PTKc_HER4, Catalytic domain of the Protein Tyrosine
Kinase, HER4. Protein Tyrosine Kinase (PTK) family;
HER4 (ErbB4); catalytic (c) domain. 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. HER4 is a
member of the EGFR (HER, ErbB) subfamily of proteins,
which are receptor tyr kinases (RTKs) containing an
extracellular EGF-related ligand-binding region, a
transmembrane helix, and a cytoplasmic region with a tyr
kinase domain and a regulatory C-terminal tail. Unlike
other tyr kinases, phosphorylation of the activation
loop of EGFR proteins is not critical to their
activation. Instead, they are activated by
ligand-induced dimerization, leading to the
phosphorylation of tyr residues in the C-terminal tail,
which serve as binding sites for downstream signaling
molecules. Ligands that bind HER4 fall into two groups,
the neuregulins (or heregulins) and some EGFR (HER1)
ligands including betacellulin, HBEGF, and epiregulin.
All four neuregulins (NRG1-4) interact with HER4. Upon
ligand binding, HER4 forms homo- or heterodimers with
other HER proteins. HER4 is essential in embryonic
development. It is implicated in mammary gland, cardiac,
and neural development. As a postsynaptic receptor of
NRG1, HER4 plays an important role in synaptic
plasticity and maturation. The impairment of NRG1/HER4
signaling may contribute to schizophrenia.
Length = 303
Score = 58.2 bits (140), Expect = 5e-09
Identities = 41/163 (25%), Positives = 73/163 (44%), Gaps = 21/163 (12%)
Query: 475 RIFRASDLVRGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIY 534
RI + ++L R +LG G FG VY+ GE + + ++ E
Sbjct: 2 RILKETELKRVKVLGSGAFGTVYKGIWVPEGETVKIPVAIKILNE--------------- 46
Query: 535 LIDLGSHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQ 594
+ G N+ + ++ S+ H +++R +GV + LVT+ + G L + +
Sbjct: 47 -----TTGPKANVEFMDEALIMASMDHPHLVRLLGVCLSP-TIQLVTQLMPHGCLLDYVH 100
Query: 595 DPGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVR 637
+ + +N+ IA GM YL L+HRDL ++N LV+
Sbjct: 101 EHKDNIGSQLLLNWCVQIAKGMMYLEERRLVHRDLAARNVLVK 143
>gnl|CDD|133219 cd05088, PTKc_Tie2, Catalytic domain of the Protein Tyrosine
Kinase, Tie2. Protein Tyrosine Kinase (PTK) family;
Tie2; catalytic (c) domain. 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. Tie2 is a receptor tyr
kinase (RTK) containing an extracellular region, a
transmembrane segment, and an intracellular catalytic
domain. The extracellular region contains an
immunoglobulin (Ig)-like domain, three epidermal growth
factor (EGF)-like domains, a second Ig-like domain, and
three fibronectin type III repeats. Tie2 is expressed
mainly in endothelial cells and hematopoietic stem
cells. It is also found in a subset of tumor-associated
monocytes and eosinophils. The angiopoietins (Ang-1 to
Ang-4) serve as ligands for Tie2. The binding of Ang-1
to Tie2 leads to receptor autophosphorylation and
activation, promoting cell migration and survival. In
contrast, Ang-2 binding to Tie2 does not result in the
same response, suggesting that Ang-2 may function as an
antagonist. Tie2 signaling plays key regulatory roles in
vascular integrity and quiescence, and in inflammation.
Length = 303
Score = 58.1 bits (140), Expect = 5e-09
Identities = 57/197 (28%), Positives = 82/197 (41%), Gaps = 38/197 (19%)
Query: 480 SDLVRGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLG 539
+D+ ++G+G FGQV + ++ G M + R+ E A K+ ++ L L LG
Sbjct: 7 NDIKFQDVIGEGNFGQVLKARIKKDGLRMD-AAIKRMKEYASKDDHRDFAGELEVLCKLG 65
Query: 540 SHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQ----- 594
HH N+I +G L L EY G L + L+
Sbjct: 66 --------------------HHPNIINLLGACEHRGYLYLAIEYAPHGNLLDFLRKSRVL 105
Query: 595 --DPG--------QPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE--VGSG 642
DP L Q ++FA D+A GM YL IHRDL ++N LV E V
Sbjct: 106 ETDPAFAIANSTASTLSSQQLLHFAADVARGMDYLSQKQFIHRDLAARNILVGENYVAKI 165
Query: 643 FDFHLGQIYLIYVPYTL 659
DF L + +YV T+
Sbjct: 166 ADFGLSRGQEVYVKKTM 182
>gnl|CDD|173642 cd05075, PTKc_Axl, Catalytic domain of the Protein Tyrosine Kinase,
Axl. Protein Tyrosine Kinase (PTK) family; Axl;
catalytic (c) domain. 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. Axl is a member of the
Axl subfamily, which is composed of receptor tyr kinases
(RTKs) containing an extracellular ligand-binding region
with two immunoglobulin-like domains followed by two
fibronectin type III repeats, a transmembrane segment,
and an intracellular catalytic domain. Binding to their
ligands, Gas6 and protein S, leads to receptor
dimerization, autophosphorylation, activation, and
intracellular signaling. Axl is widely expressed in a
variety of organs and cells including epithelial,
mesenchymal, hematopoietic, as well as non-transformed
cells. Axl signaling is important in many cellular
functions such as survival, anti-apoptosis,
proliferation, migration, and adhesion. Axl was
originally isolated from patients with chronic
myelogenous leukemia and a chronic myeloproliferative
disorder. Axl is overexpressed in many human cancers
including colon, squamous cell, thyroid, breast, and
lung carcinomas.
Length = 272
Score = 57.3 bits (138), Expect = 6e-09
Identities = 33/100 (33%), Positives = 49/100 (49%), Gaps = 11/100 (11%)
Query: 550 FSQVAVLRSLHHHNVIRFIGVLYKDRKLN------LVTEYIAGGTLKELL-----QDPGQ 598
S+ ++ H NV+R IGV + + ++ ++ G L L D Q
Sbjct: 48 LSEAVCMKEFDHPNVMRLIGVCLQTVESEGYPSPVVILPFMKHGDLHSFLLYSRLGDCPQ 107
Query: 599 PLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
LP V F DIA+GM YL S + IHRDL ++NC++ E
Sbjct: 108 YLPTQMLVKFMTDIASGMEYLSSKSFIHRDLAARNCMLNE 147
>gnl|CDD|132978 cd06647, STKc_PAK_I, Catalytic domain of the Protein
Serine/Threonine Kinase, Group I p21-activated kinase.
Serine/threonine kinases (STKs), p21-activated kinase
(PAK) subfamily, Group I, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine/threonine residues on protein substrates.
The PAK 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. PAKs are Rho family GTPase-regulated kinases
that serve as important mediators in the function of
Cdc42 (cell division cycle 42) and Rac. PAKs are
implicated in the regulation of many cellular processes
including growth factor receptor-mediated proliferation,
cell polarity, cell motility, cell death and survival,
and actin cytoskeleton organization. PAKs from higher
eukaryotes are classified into two groups (I and II),
according to their biochemical and structural features.
Group I PAKs, also called conventional PAKs, include
PAK1, PAK2, and PAK3. Group I PAKs contain a PBD
(p21-binding domain) overlapping with an AID
(autoinhibitory domain), a C-terminal catalytic domain,
SH3 binding sites and a non-classical SH3 binding site
for PIX (PAK-interacting exchange factor). They interact
with the SH3 domain containing proteins Nck, Grb2 and
PIX. Binding of group I PAKs to activated GTPases leads
to conformational changes that destabilize the AID,
allowing autophosphorylation and full activation of the
kinase domain. Known group I PAK substrates include
MLCK, Bad, Raf, MEK1, LIMK, Merlin, Vimentin, Myc,
Stat5a, and Aurora A, among others.
Length = 293
Score = 57.6 bits (139), Expect = 6e-09
Identities = 42/154 (27%), Positives = 73/154 (47%), Gaps = 27/154 (17%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+GQG G VY TG+ + +K++ N ++ K+ LI IN
Sbjct: 27 IGQGASGTVYTAIDVATGQEVAIKQM---------NLQQQPKKELI----------IN-- 65
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
++ V+R H N++ ++ +L +V EY+AGG+L +++ + + GQ
Sbjct: 66 ----EILVMRENKHPNIVNYLDSYLVGDELWVVMEYLAGGSLTDVVTE--TCMDEGQIAA 119
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLVREVGS 641
R+ + +LHS +IHRD+ S N L+ GS
Sbjct: 120 VCRECLQALEFLHSNQVIHRDIKSDNILLGMDGS 153
>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 = 57.2 bits (139), Expect = 6e-09
Identities = 39/165 (23%), Positives = 65/165 (39%), Gaps = 47/165 (28%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYR---VDEEAEKNFLKESKQGLIYLIDLGSHGLI 544
LG G FG+V V + LK + + V+ ++
Sbjct: 1 LGVGGFGRVELVKVKSKNRTFALKCVKKRHIVETGQQE---------------------- 38
Query: 545 NNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRK-LNLVTEYIAGGTLKELLQDPGQPLPWG 603
H FS+ +L +H +++ +KD+K + ++ EY GG L +L+D
Sbjct: 39 ---HIFSEKEILEECNHPFIVKLYRT-FKDKKYIYMLMEYCLGGELWTILRD-------- 86
Query: 604 QRVNFARDIA----AGMT----YLHSMNLIHRDLNSQNCLVREVG 640
R F A A + YLH+ +I+RDL +N L+ G
Sbjct: 87 -RGLFDEYTARFYIACVVLAFEYLHNRGIIYRDLKPENLLLDSNG 130
>gnl|CDD|173700 cd05609, STKc_MAST, Catalytic domain of the Protein
Serine/Threonine Kinase, Microtubule-associated
serine/threonine kinase. Serine/Threonine Kinases
(STKs), Microtubule-associated serine/threonine (MAST)
kinase subfamily, MAST, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine/threonine residues on protein substrates.
The MAST kinase 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. MAST kinases contain an
N-terminal domain of unknown function, a central
catalytic domain, and a C-terminal PDZ domain that
mediates protein-protein interactions. There are four
mammalian MAST kinases, named MAST1-MAST4. MAST1 is also
referred to as syntrophin-associated STK (SAST), while
MAST2 is also called MAST205. MAST kinases are
cytoskeletal associated kinases of unknown function that
are also expressed at neuromuscular junctions and
postsynaptic densities. MAST1, MAST2, and MAST3 bind and
phosphorylate the tumor suppressor PTEN, and may
contribute to the regulation and stabilization of PTEN.
MAST2 is involved in the regulation of the Fc-gamma
receptor of the innate immune response in macrophages,
and may also be involved in the regulation of the Na+/H+
exchanger NHE3.
Length = 305
Score = 57.5 bits (139), Expect = 7e-09
Identities = 51/171 (29%), Positives = 76/171 (44%), Gaps = 29/171 (16%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
L+ G +G VY V H+ET + +K K +KQ LI L N
Sbjct: 8 LISNGAYGAVYLVRHKETRQRFAMK--------------KINKQNLI---------LRNQ 44
Query: 547 LH-CFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQ- 604
+ F + +L + V+ R L +V EY+ GG LL++ G LP
Sbjct: 45 IQQVFVERDILTFAENPFVVSMFCSFETKRHLCMVMEYVEGGDCATLLKNIG-ALPVDMA 103
Query: 605 RVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG--SGFDFHLGQIYLI 653
R+ FA + A + YLH+ ++HRDL N L+ +G DF L +I L+
Sbjct: 104 RMYFAETVLA-LEYLHNYGIVHRDLKPDNLLITSMGHIKLTDFGLSKIGLM 153
>gnl|CDD|214528 smart00132, LIM, Zinc-binding domain present in Lin-11, Isl-1,
Mec-3. Zinc-binding domain family. Some LIM domains
bind protein partners via tyrosine-containing motifs.
LIM domains are found in many key regulators of
developmental pathways.
Length = 54
Score = 51.6 bits (124), Expect = 8e-09
Identities = 23/53 (43%), Positives = 32/53 (60%), Gaps = 2/53 (3%)
Query: 12 CAGCLNNIVEDE-YVQALSQEWHTDCFRCSACDVMLDN-WYFEKDGLLFCKED 62
CAGC I E ++AL + WH +CF+C+ C L +FEKDG L+CK+
Sbjct: 2 CAGCGKPIYGTERVLRALGKVWHPECFKCATCGKPLSGDTFFEKDGKLYCKDC 54
Score = 42.8 bits (101), Expect = 1e-05
Identities = 17/55 (30%), Positives = 28/55 (50%), Gaps = 4/55 (7%)
Query: 71 CQNCGQMMSG--PVMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYCGLC 123
C CG+ + G V+ +HPECFKC +C + G+++ + + YC C
Sbjct: 2 CAGCGKPIYGTERVLRALGKVWHPECFKCATCGKPLS-GDTFFEKDGKL-YCKDC 54
>gnl|CDD|143371 cd07866, STKc_BUR1, Catalytic domain of the Serine/Threonine
Kinase, Fungal Cyclin-Dependent protein Kinase Bypass
UAS Requirement 1 and similar proteins.
Serine/Threonine Kinases (STKs), Bypass UAS Requirement
1 (BUR1) subfamily, catalytic (c) domain. STKs catalyze
the transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
BUR1 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. BUR1, also called
SGV1, is a yeast Cyclin-Dependent protein Kinase (CDK)
that is functionally equivalent to mammalian CDK9. It
associates with the cyclin BUR2. BUR genes were
orginally identified in a genetic screen as factors
involved in general transcription. The BUR1/BUR2 complex
phosphorylates the C-terminal domain of RNA polymerase
II. In addition, this complex regulates histone
modification by phosporylating Rad6 and mediating the
association of the Paf1 complex with chromatin.
Length = 311
Score = 57.3 bits (139), Expect = 8e-09
Identities = 45/174 (25%), Positives = 74/174 (42%), Gaps = 34/174 (19%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
LG+G FG+VY+ +TG V+ LK++ + K G +
Sbjct: 16 LGEGTFGEVYKARQIKTGRVVALKKI----------LMHNEKDGF-------------PI 52
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLY-----KDRKLN---LVTEYIAGGTLKELLQDPGQP 599
++ +L+ L H NV+ I + RK +VT Y+ L LL++P
Sbjct: 53 TALREIKILKKLKHPNVVPLIDMAVERPDKSKRKRGSVYMVTPYMDH-DLSGLLENPSVK 111
Query: 600 LPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG--SGFDFHLGQIY 651
L Q + + G+ YLH +++HRD+ + N L+ G DF L + Y
Sbjct: 112 LTESQIKCYMLQLLEGINYLHENHILHRDIKAANILIDNQGILKIADFGLARPY 165
>gnl|CDD|132976 cd06645, STKc_MAP4K3, Catalytic domain of the Protein
Serine/Threonine Kinase, Mitogen-activated protein
kinase kinase kinase kinase 3. Serine/threonine kinases
(STKs), mitogen-activated protein kinase (MAPK) kinase
kinase kinase 3 (MAPKKKK3 or MAP4K3) subfamily,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The MAP4K3 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 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. MAP4K3 plays a role in the
nutrient-responsive pathway of mTOR (mammalian target of
rapamycin) signaling. MAP4K3 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. mTOR regulates ribosome
biogenesis and protein translation, and is frequently
deregulated in cancer.
Length = 267
Score = 56.6 bits (136), Expect = 9e-09
Identities = 44/194 (22%), Positives = 84/194 (43%), Gaps = 43/194 (22%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+G G +G VY+ + TGE+ +K + +++ + +++
Sbjct: 17 IGSGTYGDVYKARNVNTGELAAIK-VIKLEPGEDFAVVQQ-------------------- 55
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
++ +++ H N++ + G + KL + E+ GG+L+++ G PL Q
Sbjct: 56 ----EIIMMKDCKHSNIVAYFGSYLRRDKLWICMEFCGGGSLQDIYHVTG-PLSESQIAY 110
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLVREVGSGFDFHLGQIYLIYVPYTLFILSAKTK 667
+R+ G+ YLHS +HRD+ N L+ + G +V F +SA+
Sbjct: 111 VSRETLQGLYYLHSKGKMHRDIKGANILLTDNG-------------HVKLADFGVSAQIT 157
Query: 668 KTYYPNILKKASFI 681
T I K+ SFI
Sbjct: 158 AT----IAKRKSFI 167
>gnl|CDD|133205 cd05074, PTKc_Tyro3, Catalytic domain of the Protein Tyrosine
Kinase, Tyro3. Protein Tyrosine Kinase (PTK) family;
Tyro3; catalytic (c) domain. 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. Tyro3 (or Sky) is a
member of the Axl subfamily, which is composed of
receptor tyr kinases (RTKs) containing an extracellular
ligand-binding region with two immunoglobulin-like
domains followed by two fibronectin type III repeats, a
transmembrane segment, and an intracellular catalytic
domain. Binding to their ligands, Gas6 and protein S,
leads to receptor dimerization, autophosphorylation,
activation, and intracellular signaling. Tyro3 is
predominantly expressed in the central nervous system
and the brain, and functions as a neurotrophic factor.
It is also expressed in osteoclasts and has a role in
bone resorption.
Length = 273
Score = 56.5 bits (136), Expect = 1e-08
Identities = 49/166 (29%), Positives = 72/166 (43%), Gaps = 33/166 (19%)
Query: 485 GPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLI 544
G +LG+G FG V RE +L D +K +K K + D+
Sbjct: 4 GRMLGKGEFGSV-----REA-------QLKSEDGSFQKVAVKMLKADIFSSSDIE----- 46
Query: 545 NNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLN------LVTEYIAGGTLKELL----- 593
+ A ++ H NVI+ IGV + R ++ ++ G L L
Sbjct: 47 ---EFLREAACMKEFDHPNVIKLIGVSLRSRAKGRLPIPMVILPFMKHGDLHTFLLMSRI 103
Query: 594 -QDPGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
++P LP V F DIA+GM YL S N IHRDL ++NC++ E
Sbjct: 104 GEEPFT-LPLQTLVRFMIDIASGMEYLSSKNFIHRDLAARNCMLNE 148
>gnl|CDD|143377 cd07872, STKc_PCTAIRE2, Catalytic domain of the Serine/Threonine
Kinase, PCTAIRE-2 kinase. Serine/Threonine Kinases
(STKs), PCTAIRE-2 subfamily, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine/threonine residues on protein substrates.
The PCTAIRE-2 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. PCTAIRE-2 shares sequence
similarity with Cyclin-Dependent Kinases (CDKs), which
belong to a large family of STKs that are regulated by
their cognate cyclins. Together, CDKs and cyclins are
involved in the control of cell-cycle progression,
transcription, and neuronal function. PCTAIRE-2 is
specifically expressed in neurons in the central nervous
system, mainly in terminally differentiated neurons. It
associates with Trap (Tudor repeat associator with
PCTAIRE-2) and could play a role in regulating
mitochondrial function in neurons.
Length = 309
Score = 56.9 bits (137), Expect = 1e-08
Identities = 39/153 (25%), Positives = 65/153 (42%), Gaps = 25/153 (16%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
LG+G + V++ + T ++ LKE+ EE
Sbjct: 14 LGEGTYATVFKGRSKLTENLVALKEIRLEHEEGAP------------------------C 49
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
+V++L+ L H N++ +++ D+ L LV EY+ LK+ + D G +
Sbjct: 50 TAIREVSLLKDLKHANIVTLHDIVHTDKSLTLVFEYL-DKDLKQYMDDCGNIMSMHNVKI 108
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
F I G+ Y H ++HRDL QN L+ E G
Sbjct: 109 FLYQILRGLAYCHRRKVLHRDLKPQNLLINERG 141
>gnl|CDD|173652 cd05100, PTKc_FGFR3, Catalytic domain of the Protein Tyrosine
Kinase, Fibroblast Growth Factor Receptor 3. Protein
Tyrosine Kinase (PTK) family; Fibroblast Growth Factor
Receptor 3 (FGFR3); catalytic (c) domain. 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. FGFR3 is
part of the FGFR subfamily, which are receptor tyr
kinases (RTKs) containing an extracellular
ligand-binding region with three immunoglobulin-like
domains, a transmembrane segment, and an intracellular
catalytic domain. The binding of FGFRs to their ligands,
the FGFs, results in receptor dimerization and
activation, and intracellular signaling. The binding of
FGFs to FGFRs is promiscuous, in that a receptor may be
activated by several ligands and a ligand may bind to
more that one type of receptor. Many FGFR3 splice
variants have been reported with the IIIb and IIIc
isoforms being the predominant forms. FGFR3 IIIc is the
isoform expressed in chondrocytes, the cells affected in
dwarfism, while IIIb is expressed in epithelial cells.
FGFR3 ligands include FGF1, FGF2, FGF4, FGF8, FGF9, and
FGF23. It is a negative regulator of long bone growth.
In the cochlear duct and in the lens, FGFR3 is involved
in differentiation while it appears to have a role in
cell proliferation in epithelial cells. Germline
mutations in FGFR3 are associated with skeletal
disorders including several forms of dwarfism. Some
missense mutations are associated with multiple myeloma
and carcinomas of the bladder and cervix. Overexpression
of FGFR3 is found in thyroid carcinoma.
Length = 334
Score = 57.0 bits (137), Expect = 1e-08
Identities = 48/178 (26%), Positives = 79/178 (44%), Gaps = 33/178 (18%)
Query: 477 FRASDLVRGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLI 536
+ L G LG+G FGQV V+ E +D++ K + L
Sbjct: 9 LSRTRLTLGKPLGEGCFGQV------------VMAEAIGIDKDKPN---KPVTVAVKMLK 53
Query: 537 DLGSHGLINNLHCFSQVAVLRSL-HHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQD 595
D + +++L S++ +++ + H N+I +G +D L ++ EY + G L+E L+
Sbjct: 54 DDATDKDLSDL--VSEMEMMKMIGKHKNIINLLGACTQDGPLYVLVEYASKGNLREYLRA 111
Query: 596 ---------------PGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
P + L + V+ A +A GM YL S IHRDL ++N LV E
Sbjct: 112 RRPPGMDYSFDTCKLPEEQLTFKDLVSCAYQVARGMEYLASQKCIHRDLAARNVLVTE 169
>gnl|CDD|133195 cd05064, PTKc_EphR_A10, Catalytic domain of the Protein Tyrosine
Kinase, Ephrin Receptor A10. Protein Tyrosine Kinase
(PTK) family; Ephrin Receptor (EphR) subfamily; EphA10
receptor; catalytic (c) domain. 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. EphRs
comprise the largest subfamily of receptor tyr kinases
(RTKs). In general, class EphA receptors bind
GPI-anchored ephrin-A ligands. There are ten vertebrate
EphA receptors (EphA1-10), which display promiscuous
interactions with six ephrin-A ligands. EphRs contain an
ephrin binding domain and two fibronectin repeats
extracellularly, a transmembrane segment, and a
cytoplasmic tyr kinase domain. Binding of the ephrin
ligand to EphR requires cell-cell contact since both are
anchored to the plasma membrane. The resulting
downstream signals occur bidirectionally in both
EphR-expressing cells (forward signaling) and
ephrin-expressing cells (reverse signaling). EphA10,
which contains an inactive tyr kinase domain, may
function to attenuate signals of co-clustered active
receptors. EphA10 is mainly expressed in the testis.
Ephrin/EphR interaction results in cell-cell repulsion
or adhesion, making it important in neural development
and plasticity, cell morphogenesis, cell-fate
determination, embryonic development, tissue patterning,
and angiogenesis.
Length = 266
Score = 56.1 bits (135), Expect = 2e-08
Identities = 27/89 (30%), Positives = 44/89 (49%), Gaps = 1/89 (1%)
Query: 549 CF-SQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
F ++ L H N++R GV+ + + +VTEY++ G L L+ L GQ +
Sbjct: 52 GFLAEALTLGQFDHSNIVRLEGVITRGNTMMIVTEYMSNGALDSFLRKHEGQLVAGQLMG 111
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
+A+GM YL M +H+ L + LV
Sbjct: 112 MLPGLASGMKYLSEMGYVHKGLAAHKVLV 140
>gnl|CDD|132938 cd06607, STKc_TAO, Catalytic domain of the Protein Serine/Threonine
Kinase, Thousand-and-one amino acids proteins.
Serine/threonine kinases (STKs), thousand-and-one amino
acids (TAO) subfamily, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine/threonine residues on protein substrates.
The TAO 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. TAO proteins possess mitogen-activated protein
kinase (MAPK) kinase kinase (MAPKKK or MAP3K or MKKK)
activity. They activate the MAPKs, p38 and c-Jun
N-terminal kinase (JNK), by phosphorylating and
activating the respective MAP/ERK kinases (MEKs, also
known as MKKs or MAPKKs), MEK3/MEK6 and MKK4/MKK7. MAPK
signaling cascades are important in mediating cellular
responses to extracellular signals. Vertebrates contain
three TAO subfamily members, named TAO1, TAO2, and TAO3.
Length = 307
Score = 56.4 bits (136), Expect = 2e-08
Identities = 46/159 (28%), Positives = 67/159 (42%), Gaps = 35/159 (22%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKEL-YRVDEEAEK--NFLKESKQGLIYLIDLGSHGLI 544
+G G FG VY T EV+ +K++ Y + EK + +KE
Sbjct: 23 IGHGSFGAVYFARDVRTNEVVAIKKMSYSGKQSNEKWQDIIKE----------------- 65
Query: 545 NNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQ 604
V L+ L H N I + G ++ LV EY G + ++L+ +PL Q
Sbjct: 66 --------VRFLQQLRHPNTIEYKGCYLREHTAWLVMEYCLG-SASDILEVHKKPL---Q 113
Query: 605 RVNFA---RDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
V A G+ YLHS IHRD+ + N L+ E G
Sbjct: 114 EVEIAAICHGALQGLAYLHSHERIHRDIKAGNILLTEPG 152
>gnl|CDD|133220 cd05089, PTKc_Tie1, Catalytic domain of the Protein Tyrosine
Kinase, Tie1. Protein Tyrosine Kinase (PTK) family;
Tie1; catalytic (c) domain. 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. Tie1 is a receptor tyr
kinase (RTK) containing an extracellular region, a
transmembrane segment, and an intracellular catalytic
domain. The extracellular region contains an
immunoglobulin (Ig)-like domain, three epidermal growth
factor (EGF)-like domains, a second Ig-like domain, and
three fibronectin type III repeats. Tie receptors are
specifically expressed in endothelial cells and
hematopoietic stem cells. No specific ligand has been
identified for Tie1, although the angiopoietin, Ang-1,
binds to Tie1 through integrins at high concentrations.
In vivo studies of Tie1 show that it is critical in
vascular development.
Length = 297
Score = 56.2 bits (135), Expect = 2e-08
Identities = 57/195 (29%), Positives = 77/195 (39%), Gaps = 48/195 (24%)
Query: 487 LLGQGFFGQVYRVTHRETGEVM-----VLKELYRVDEEAEKNFLKESKQGLIYLIDLGSH 541
++G+G FGQV R ++ G M +LKE E ++F E L L LG
Sbjct: 9 VIGEGNFGQVIRAMIKKDGLKMNAAIKMLKEF--ASENDHRDFAGE----LEVLCKLG-- 60
Query: 542 GLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQ------- 594
HH N+I +G L + EY G L + L+
Sbjct: 61 ------------------HHPNIINLLGACENRGYLYIAIEYAPYGNLLDFLRKSRVLET 102
Query: 595 DPG--------QPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE--VGSGFD 644
DP L Q + FA D+A GM YL IHRDL ++N LV E D
Sbjct: 103 DPAFAKEHGTASTLTSQQLLQFASDVATGMQYLSEKQFIHRDLAARNVLVGENLASKIAD 162
Query: 645 FHLGQIYLIYVPYTL 659
F L + +YV T+
Sbjct: 163 FGLSRGEEVYVKKTM 177
>gnl|CDD|173665 cd05574, STKc_phototropin_like, Catalytic domain of
Phototropin-like Protein Serine/Threonine Kinases.
Serine/Threonine Kinases (STKs), Phototropin-like
subfamily, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
phototropin-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. Included in this subfamily
are plant phototropins and predominantly uncharacterized
fungal STKs whose catalytic domains resemble the
phototropin kinase domain. One protein from Neurospora
crassa is called nrc-2. Phototropins are blue-light
receptors that control responses such as phototropism,
stromatal opening, and chloroplast movement in order to
optimize the photosynthetic efficiency of plants. They
are light-activated STKs that contain an N-terminal
photosensory domain and a C-terminal catalytic domain.
The N-terminal domain contains two LOV (Light, Oxygen or
Voltage) domains that binds FMN. Photoexcitation of the
LOV domains results in autophosphorylation at multiple
sites and activation of the catalytic domain. Neurospora
crassa nrc-2 plays a role in growth and development by
controlling entry into the conidiation program.
Length = 316
Score = 56.1 bits (136), Expect = 2e-08
Identities = 49/168 (29%), Positives = 77/168 (45%), Gaps = 37/168 (22%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
LLG+G G+V+ V + TG++ LK L + E ++N +K
Sbjct: 8 LLGKGDVGRVFLVRLKGTGKLFALKVLDK-KEMIKRNKVK-------------------- 46
Query: 547 LHCFSQVAVLRSLHHHNVIRFIGVLY----KDRKLNLVTEYIAGGTLKELLQ-DPGQPLP 601
++ +L +L H F+ LY + L LV +Y GG L LLQ PG+ L
Sbjct: 47 -RVLTEQEILATLDH----PFLPTLYASFQTETYLCLVMDYCPGGELFRLLQRQPGKCLS 101
Query: 602 WGQRVNF-ARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG----SGFD 644
+ F A ++ + YLH + +++RDL +N L+ E G S FD
Sbjct: 102 -EEVARFYAAEVLLALEYLHLLGIVYRDLKPENILLHESGHIMLSDFD 148
>gnl|CDD|132966 cd06635, STKc_TAO1, Catalytic domain of the Protein
Serine/Threonine Kinase, Thousand-and-one amino acids 1.
Serine/threonine kinases (STKs), thousand-and-one amino
acids 1 (TAO1) subfamily, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine/threonine residues on protein substrates.
The TAO 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. TAO proteins possess mitogen-activated protein
kinase (MAPK) kinase kinase (MAPKKK or MAP3K or MKKK)
activity. MAPK signaling cascades are important in
mediating cellular responses to extracellular signals.
TAO1 is sometimes referred to as prostate-derived
sterile 20-like kinase 2 (PSK2). TAO1 activates the p38
MAPK through direct interaction with and activation of
MEK3. TAO1 is highly expressed in the brain and may play
a role in neuronal apoptosis. TAO1 interacts with the
checkpoint proteins BubR1 and Mad2, and plays an
important role in regulating mitotic progression, which
is required for both chromosome congression and
checkpoint-induced anaphase delay. TAO1 may play a role
in protecting genomic stability.
Length = 317
Score = 56.3 bits (135), Expect = 2e-08
Identities = 42/153 (27%), Positives = 67/153 (43%), Gaps = 23/153 (15%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+G G FG VY T EV+ +K++ +++ E Q +I
Sbjct: 33 IGHGSFGAVYFARDVRTNEVVAIKKMSYSGKQS-----NEKWQDII-------------- 73
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
+V L+ + H N I + G ++ LV EY G + +LL+ +PL +
Sbjct: 74 ---KEVKFLQRIKHPNSIEYKGCYLREHTAWLVMEYCLG-SASDLLEVHKKPLQEVEIAA 129
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
G+ YLHS N+IHRD+ + N L+ E G
Sbjct: 130 ITHGALQGLAYLHSHNMIHRDIKAGNILLTEPG 162
>gnl|CDD|188722 cd09336, LIM1_Paxillin_like, The first LIM domain of the paxillin
like protein family. The first LIM domain of the
paxillin like protein family: This family consists of
paxillin, leupaxin, Hic-5 (ARA55), and other related
proteins. There are four LIM domains in the C-terminal
of the proteins and leucine-rich LD-motifs in the
N-terminal region. Members of this family are adaptor
proteins to recruit key components of
signal-transduction machinery to specific sub-cellular
locations. Paxillin is found at the interface between
the plasma membrane and the actin cytoskeleton.
Paxillin serves as a platform for the recruitment of
numerous regulatory and structural proteins that
together control the dynamic changes in cell adhesion,
cytoskeletal reorganization and gene expression that
are necessary for cell migration and survival. Leupaxin
is a cytoskeleton adaptor protein, which is
preferentially expressed in hematopoietic cells. It
associates with focal adhesion kinases PYK2 and
pp125FAK and identified to be a component of the
osteoclast pososomal signaling complex. Hic-5 controls
cell proliferation, migration and senescence by
functioning as coactivator for steroid receptors such
as androgen receptor, glucocorticoid receptor and
progesterone receptor. LIM domains are 50-60 amino
acids in size and share two characteristic zinc finger
motifs. The two zinc fingers contain eight conserved
residues, mostly cysteines and histidines, which
coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 53
Score = 50.4 bits (121), Expect = 2e-08
Identities = 21/54 (38%), Positives = 31/54 (57%), Gaps = 2/54 (3%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVML-DNWYFEKDGLLFCKEDYN 64
CA C IV + V AL + WH + F C+ C L +FE+DG +C++DY+
Sbjct: 1 CAACKKPIV-GQVVTALGKTWHPEHFVCAECKTELGTKNFFERDGQPYCEKDYH 53
Score = 30.4 bits (69), Expect = 0.29
Identities = 14/47 (29%), Positives = 20/47 (42%), Gaps = 7/47 (14%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSCSCCIG-------DGESY 110
C C + + G V+ +HPE F C C +G DG+ Y
Sbjct: 1 CAACKKPIVGQVVTALGKTWHPEHFVCAECKTELGTKNFFERDGQPY 47
>gnl|CDD|188772 cd09386, LIM1_LMO4, The first LIM domain of LMO4 (LIM domain only
protein 4). The first LIM domain of LMO4 (LIM domain
only protein 4): LMO4 is a nuclear protein that plays
important roles in transcriptional regulation and
development. LMO4 is involved in various functions in
tumorigenesis and cellular differentiation. LMO4
proteins regulate gene expression by interacting with a
wide variety of transcription factors and cofactors to
form large transcription complexes. It can interact
with Smad proteins, and associate with the promoter of
the PAI-1 (plasminogen activator inhibitor-1) gene in a
TGFbeta (transforming growth factor beta)-dependent
manner. LMO4 can also form a complex with transcription
regulator CREB (cAMP response element-binding protein)
and interact with CLIM1 and CLIM2. In breast tissue,
LMO4 interacts with multiple proteins, including the
cofactor CtIP [CtBP (C-terminal binding
protein)-interacting protein], the breast and ovarian
tumor suppressor BRCA1 (breast-cancer susceptibility
gene 1) and the LIM-domain-binding protein LDB1.
Functionally, LMO4 is shown to repress BRCA1-mediated
transcription activation, thus invoking a potential
role for LMO4 as a negative regulator of BRCA1 in
sporadic breast cancer. LMO4 also forms complex to
both ERa (oestrogen receptor alpha), MTA1 (metastasis
tumor antigen 1), and HDACs (histone deacetylases),
implying that LMO4 is also a component of the MTA1
corepressor complex. Over-expressed LMO4 represses ERa
transactivation functions in an HDAC-dependent manner,
and contributes to the process of breast cancer
progression by allowing the development of Era-negative
phenotypes. All LIM domains are 50-60 amino acids in
size and share two characteristic zinc finger motifs.
The two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately
bond to two zinc atoms. LIM domains function as
adaptors or scaffolds to support the assembly of
multimeric protein complexes.
Length = 55
Score = 50.5 bits (121), Expect = 2e-08
Identities = 21/55 (38%), Positives = 28/55 (50%), Gaps = 3/55 (5%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNW---YFEKDGLLFCKEDY 63
CAGC IV+ + AL + WH C +CS C L + K G++ CK DY
Sbjct: 1 CAGCGGKIVDRFLLHALDRYWHNGCLKCSCCQAQLGEIGSSCYTKGGMILCKNDY 55
>gnl|CDD|132965 cd06634, STKc_TAO2, Catalytic domain of the Protein
Serine/Threonine Kinase, Thousand-and-one amino acids 2.
Serine/threonine kinases (STKs), thousand-and-one amino
acids 2 (TAO2) subfamily, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine/threonine residues on protein substrates.
The TAO 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. TAO proteins possess mitogen-activated protein
kinase (MAPK) kinase kinase (MAPKKK or MAP3K or MKKK)
activity. MAPK signaling cascades are important in
mediating cellular responses to extracellular signals.
Human TAO2 is also known as prostate-derived Ste20-like
kinase (PSK) and was identified in a screen for
overexpressed RNAs in prostate cancer. TAO2 activates
both p38 and c-Jun N-terminal kinase (JNK), by
phosphorylating and activating the respective MAP/ERK
kinases (MEKs, also known as MKKs or MAPKKs), MEK3/MEK6
and MKK4/MKK7. TAO2 contains a long C-terminal extension
with autoinhibitory segments. It is activated by the
release of this inhibition and the phosphorylation of
its activation loop serine. TAO2 functions as a
regulator of actin cytoskeletal and microtubule
organization. In addition, it regulates the transforming
growth factor-activated kinase 1 (TAK1), which is a
MAPKKK that plays an essential role in the signaling
pathways of tumor necrosis factor (TNF), interleukin 1
(IL-1), and Toll-like receptor (TLR).
Length = 308
Score = 56.2 bits (135), Expect = 2e-08
Identities = 42/153 (27%), Positives = 67/153 (43%), Gaps = 23/153 (15%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+G G FG VY EV+ +K++ +++ E Q +I
Sbjct: 23 IGHGSFGAVYFARDVRNSEVVAIKKMSYSGKQS-----NEKWQDII-------------- 63
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
+V L+ L H N I++ G ++ LV EY G + +LL+ +PL +
Sbjct: 64 ---KEVRFLQKLRHPNTIQYRGCYLREHTAWLVMEYCLG-SASDLLEVHKKPLQEVEIAA 119
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
G+ YLHS N+IHRD+ + N L+ E G
Sbjct: 120 VTHGALQGLAYLHSHNMIHRDVKAGNILLSEPG 152
>gnl|CDD|132977 cd06646, STKc_MAP4K5, Catalytic domain of the Protein
Serine/Threonine Kinase, Mitogen-activated protein
kinase kinase kinase kinase 5. Serine/threonine kinases
(STKs), mitogen-activated protein kinase (MAPK) kinase
kinase kinase 5 (MAPKKKK5 or MAP4K5) subfamily,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The MAP4K5 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 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. MAP4K5, also called germinal
center kinase-related enzyme (GCKR), has been shown to
activate the MAPK c-Jun N-terminal kinase (JNK). MAP4K5
also facilitates Wnt signaling in B cells, and may
therefore be implicated in the control of cell fate,
proliferation, and polarity.
Length = 267
Score = 55.8 bits (134), Expect = 2e-08
Identities = 50/194 (25%), Positives = 79/194 (40%), Gaps = 43/194 (22%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+G G +G VY+ + TGE+ +K +I L LI
Sbjct: 17 VGSGTYGDVYKARNLHTGELAAVK--------------------IIKLEPGDDFSLIQQ- 55
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
++ +++ H N++ + G KL + EY GG+L+++ G PL Q
Sbjct: 56 ----EIFMVKECKHCNIVAYFGSYLSREKLWICMEYCGGGSLQDIYHVTG-PLSELQIAY 110
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLVREVGSGFDFHLGQIYLIYVPYTLFILSAKTK 667
R+ G+ YLHS +HRD+ N L+ + G D L F ++AK
Sbjct: 111 VCRETLQGLAYLHSKGKMHRDIKGANILLTDNG---DVKLAD----------FGVAAKIT 157
Query: 668 KTYYPNILKKASFI 681
T I K+ SFI
Sbjct: 158 AT----IAKRKSFI 167
>gnl|CDD|188850 cd09466, LIM1_Lhx3a, The first LIM domain of Lhx3a. The first
LIM domain of Lhx3a: Lhx3a is a member of LHX protein
family, which features two tandem N-terminal LIM
domains and a C-terminal DNA binding homeodomain.
Members of LHX family are found in the nucleus and act
as transcription factors or cofactors. LHX proteins are
critical for the development of specialized cells in
multiple tissue types, including the nervous system,
skeletal muscle, the heart, the kidneys, and endocrine
organs, such as the pituitary gland and the pancreas.
Lhx3a is one of the two isoforms of Lhx3. The Lhx3 gene
is expressed in the ventral spinal cord, the pons, the
medulla oblongata, and the pineal gland of the
developing nervous system during mouse embryogenesis,
and transcripts are found in the emergent pituitary
gland. Lhx3 functions in concert with other
transcription factors to specify interneuron and motor
neuron fates during development. Lhx3 proteins have
been demonstrated to directly bind to the promoters of
several pituitary hormone gene promoters. The Lhx3 gene
encodes two isoforms, LHX3a and LHX3b that differ in
their amino-terminal sequences, where Lhx3a has longer
N-terminal. They show differential activation of
pituitary hormone genes and distinct DNA binding
properties. In human, Lhx3a trans-activated the
alpha-glycoprotein subunit promoter and genes
containing a high-affinity Lhx3 binding site more
effectively than the hLhx3b isoform. In addition,
hLhx3a induce transcription of the TSHbeta-subunit gene
by acting on pituitary POU domain factor, Pit-1, while
hLhx3b does not. As in other LIM domains, this domain
family is 50-60 amino acids in size and shares two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein.
Length = 56
Score = 50.5 bits (121), Expect = 2e-08
Identities = 18/55 (32%), Positives = 30/55 (54%)
Query: 9 ILTCAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWYFEKDGLLFCKEDY 63
I CAGC + I + ++ + WH+ C +C C L + F + G ++CKED+
Sbjct: 1 IPKCAGCDHPIFDRFILKVQDKPWHSKCLKCVDCQAQLTDKCFSRGGQVYCKEDF 55
>gnl|CDD|188853 cd09469, LIM1_Lhx2, The first LIM domain of Lhx2. The first LIM
domain of Lhx2: Lhx2 belongs to the LHX protein family,
which features two tandem N-terminal LIM domains and a
C-terminal DNA binding homeodomain. Members of LHX
family are found in the nucleus and act as
transcription factors or cofactors. LHX proteins are
critical for the development of specialized cells in
multiple tissue types, including the nervous system,
skeletal muscle, the heart, the kidneys, and endocrine
organs, such as the pituitary gland and the pancreas.
In animals, Lhx2 plays important roles in eye, cerebral
cortex, limb, the olfactory organs, and erythrocyte
development. Lhx2 gene knockout mice exhibit impaired
patterning of the cortical hem and the telencephalon of
the developing brain, and a lack of development in
olfactory structures. The Lhx2 protein has been shown
to bind to the mouse M71 olfactory receptor promoter.
Similar to other LIM domains, this domain family is
50-60 amino acids in size and share two characteristic
zinc finger motifs. The two zinc fingers contain eight
conserved residues, mostly cysteines and histidines,
which coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein.
Length = 64
Score = 50.8 bits (121), Expect = 3e-08
Identities = 22/54 (40%), Positives = 33/54 (61%), Gaps = 2/54 (3%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWY--FEKDGLLFCKEDY 63
CAGC I + Y+ A+ ++WH C +C C + L++ F KDG ++CKEDY
Sbjct: 11 CAGCGGKISDRYYLLAVDKQWHMRCLKCCECKLNLESELTCFSKDGSIYCKEDY 64
>gnl|CDD|188854 cd09470, LIM1_Lhx9, The first LIM domain of Lhx9. The first LIM
domain of Lhx9: Lhx9 belongs to the LHX protein family,
which features two tandem N-terminal LIM domains and a
C-terminal DNA binding homeodomain. Members of LHX
family are found in the nucleus and act as
transcription factors or cofactors. LHX proteins are
critical for the development of specialized cells in
multiple tissue types, including the nervous system,
skeletal muscle, the heart, the kidneys, and endocrine
organs, such as the pituitary gland and the pancreas.
Lhx9 is highly homologous to Lhx2. It is expressed in
several regions of the developing mouse brain, the
spinal cord, the pancreas, in limb mesenchyme, and in
the urogenital region. Lhx9 plays critical roles in
gonad development. Homozygous mice lacking functional
Lhx9 alleles exhibit numerous urogenital defects, such
as gonadal agenesis, infertility, and undetectable
levels of testosterone and estradiol coupled with high
FSH levels. Lhx9 null mice have reduced levels of the
Sf1 nuclear receptor that is required for
gonadogenesis, and recent studies have shown that Lhx9
is able to activate the Sf1/FtzF1 gene. Lhx9 null mice
are phenotypically female, even those that are
genotypically male. As in other LIM domains, this
domain family is 50-60 amino acids in size and shares
two characteristic zinc finger motifs. The two zinc
fingers contain eight conserved residues, mostly
cysteines and histidines, which coordinately bond to
two zinc atoms. LIM domains function as adaptors or
scaffolds to support the assembly of multimeric
protein.
Length = 54
Score = 50.1 bits (119), Expect = 3e-08
Identities = 22/54 (40%), Positives = 33/54 (61%), Gaps = 2/54 (3%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWY--FEKDGLLFCKEDY 63
CAGC I + Y+ A+ ++WH C +C C + L++ F KDG ++CKEDY
Sbjct: 1 CAGCGGKISDRYYLLAVDKQWHLRCLKCCECKLALESELTCFAKDGSIYCKEDY 54
>gnl|CDD|143378 cd07873, STKc_PCTAIRE1, Catalytic domain of the Serine/Threonine
Kinase, PCTAIRE-1 kinase. Serine/Threonine Kinases
(STKs), PCTAIRE-1 subfamily, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine/threonine residues on protein substrates.
The PCTAIRE-1 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. PCTAIRE-1 shares sequence
similarity with Cyclin-Dependent Kinases (CDKs), which
belong to a large family of STKs that are regulated by
their cognate cyclins. Together, CDKs and cyclins are
involved in the control of cell-cycle progression,
transcription, and neuronal function. PCTAIRE-1 is
expressed ubiquitously and is localized in the
cytoplasm. Its kinase activity is cell cycle dependent
and peaks at the S and G2 phases. PCTAIRE-1 is highly
expressed in the brain and may play a role in regulating
neurite outgrowth. It can also associate with Trap
(Tudor repeat associator with PCTAIRE-2), a
physiological partner of PCTAIRE-2; with p11, a small
dimeric protein with similarity to S100; and with 14-3-3
proteins, mediators of phosphorylation-dependent
interactions in many different proteins.
Length = 301
Score = 55.4 bits (133), Expect = 4e-08
Identities = 39/153 (25%), Positives = 65/153 (42%), Gaps = 25/153 (16%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
LG+G + VY+ + T ++ LKE+ EE
Sbjct: 14 LGEGTYATVYKGRSKLTDNLVALKEIRLEHEEGAP------------------------C 49
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
+V++L+ L H N++ +++ ++ L LV EY+ LK+ L D G +
Sbjct: 50 TAIREVSLLKDLKHANIVTLHDIIHTEKSLTLVFEYL-DKDLKQYLDDCGNSINMHNVKL 108
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
F + G+ Y H ++HRDL QN L+ E G
Sbjct: 109 FLFQLLRGLNYCHRRKVLHRDLKPQNLLINERG 141
>gnl|CDD|173656 cd05111, PTK_HER3, Pseudokinase domain of the Protein Tyrosine
Kinase, HER3. Protein Tyrosine Kinase (PTK) family;
HER3 (ErbB3); pseudokinase domain. The PTKc (catalytic
domain) family to which this subfamily belongs, 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. HER3 is a
member of the EGFR (HER, ErbB) subfamily of proteins,
which are receptor tyr kinases (RTKs) containing an
extracellular EGF-related ligand-binding region, a
transmembrane helix, and a cytoplasmic region with a tyr
kinase domain and a regulatory C-terminal tail. Unlike
other tyr kinases, phosphorylation of the activation
loop of EGFR proteins is not critical to their
activation. Instead, they are activated by
ligand-induced dimerization, leading to the
phosphorylation of tyr residues in the C-terminal tail,
which serve as binding sites for downstream signaling
molecules. HER3 binds the neuregulin ligands, NRG1 and
NRG2. HER3 contains an impaired tyr kinase domain and
relies on its heterodimerization partners for activity
following ligand binding. The HER2-HER3 heterodimer
constitutes a high affinity co-receptor capable of
potent mitogenic signaling. HER3 participates in a
signaling pathway involved in the proliferation,
survival, adhesion, and motility of tumor cells.
Length = 279
Score = 55.0 bits (132), Expect = 4e-08
Identities = 38/164 (23%), Positives = 75/164 (45%), Gaps = 21/164 (12%)
Query: 474 SRIFRASDLVRGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLI 533
+RI + ++L + LLG G FG V++ G+ + + + ++ + +Q
Sbjct: 1 ARILKETELRKLKLLGSGVFGTVHKGIWIPEGDSIKIPVAIKTIQD------RSGRQTFQ 54
Query: 534 YLIDLGSHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELL 593
+ D H + + SL H ++R +G+ L LVT+ G+L + +
Sbjct: 55 EITD----------HMLA----MGSLDHAYIVRLLGIC-PGASLQLVTQLSPLGSLLDHV 99
Query: 594 QDPGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVR 637
+ L + +N+ IA GM YL ++HR+L ++N L++
Sbjct: 100 RQHRDSLDPQRLLNWCVQIAKGMYYLEEHRMVHRNLAARNILLK 143
>gnl|CDD|143376 cd07871, STKc_PCTAIRE3, Catalytic domain of the Serine/Threonine
Kinase, PCTAIRE-3 kinase. Serine/Threonine Kinases
(STKs), PCTAIRE-3 subfamily, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine/threonine residues on protein substrates.
The PCTAIRE-3 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. PCTAIRE-3 shares sequence
similarity with Cyclin-Dependent Kinases (CDKs), which
belong to a large family of STKs that are regulated by
their cognate cyclins. Together, CDKs and cyclins are
involved in the control of cell-cycle progression,
transcription, and neuronal function. PCTAIRE-3 shows a
restricted pattern of expression and is present in
brain, kidney, and intestine. It is elevated in
Alzheimer's disease (AD) and has been shown to associate
with paired helical filaments (PHFs) and stimulate Tau
phosphorylation. As AD progresses, phosphorylated Tau
aggregates and forms PHFs, which leads to the formation
of neurofibrillary tangles (NFTs). In human glioma
cells, PCTAIRE-3 induces cell cycle arrest and cell
death.
Length = 288
Score = 55.0 bits (132), Expect = 4e-08
Identities = 38/153 (24%), Positives = 67/153 (43%), Gaps = 25/153 (16%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
LG+G + V++ + T ++ LKE+ EE
Sbjct: 13 LGEGTYATVFKGRSKLTENLVALKEIRLEHEEGAP------------------------C 48
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
+V++L++L H N++ +++ +R L LV EY+ LK+ L + G +
Sbjct: 49 TAIREVSLLKNLKHANIVTLHDIIHTERCLTLVFEYL-DSDLKQYLDNCGNLMSMHNVKI 107
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
F + G++Y H ++HRDL QN L+ E G
Sbjct: 108 FMFQLLRGLSYCHKRKILHRDLKPQNLLINEKG 140
>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 = 54.8 bits (132), Expect = 4e-08
Identities = 42/166 (25%), Positives = 72/166 (43%), Gaps = 33/166 (19%)
Query: 480 SDLVRGPLLGQGFFGQVYRVTHRETGE-----VMVLKELYRVDEEAEKNFLKESKQGLIY 534
DL R +G G FG+V+ V R + VM + E+ R+ +E
Sbjct: 1 DDLERIKTVGTGTFGRVHLVRDRISEHYYALKVMAIPEVIRLKQEQ-------------- 46
Query: 535 LIDLGSHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQ 594
H ++ VL+ + H +IR + R L ++ EY+ GG L L+
Sbjct: 47 -------------HVHNEKRVLKEVSHPFIIRLFWTEHDQRFLYMLMEYVPGGELFSYLR 93
Query: 595 DPGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
+ G+ + +A +I + YLHS +++RDL +N L+ + G
Sbjct: 94 NSGR-FSNSTGLFYASEIVCALEYLHSKEIVYRDLKPENILLDKEG 138
>gnl|CDD|238492 cd00992, PDZ_signaling, PDZ domain found in a variety of Eumetazoan
signaling molecules, often in tandem arrangements. May
be responsible for specific protein-protein
interactions, as most PDZ domains bind C-terminal
polypeptides, and binding to internal (non-C-terminal)
polypeptides and even to lipids has been demonstrated.
In this subfamily of PDZ domains an N-terminal
beta-strand forms the peptide-binding groove base, a
circular permutation with respect to PDZ domains found
in proteases.
Length = 82
Score = 50.3 bits (121), Expect = 5e-08
Identities = 17/39 (43%), Positives = 23/39 (58%)
Query: 288 ADLMSLHLGDRILEVNGTPVRDKPLQEVECLIRNTTDTV 326
A+ L +GDRILEVNG V +E L++N+ D V
Sbjct: 39 AERGGLRVGDRILEVNGVSVEGLTHEEAVELLKNSGDEV 77
>gnl|CDD|173669 cd05578, STKc_Yank1, Catalytic domain of the Protein
Serine/Threonine Kinase, Yank1. Serine/Threonine
Kinases (STKs), Yank1 or STK32A subfamily, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The Yank1 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
contains uncharacterized STKs with similarity to the
human protein designated Yank1 or STK32A.
Length = 258
Score = 54.2 bits (131), Expect = 6e-08
Identities = 41/166 (24%), Positives = 69/166 (41%), Gaps = 51/166 (30%)
Query: 489 GQGFFGQVYRVTHRETGEVMVLKELYRVD---EEAEKNFLKESK--QGLIYLIDLGSHGL 543
G+G FG+V V R+T ++ +K + + + + +N L E + Q L +H
Sbjct: 9 GKGAFGKVCIVQKRDTKKMFAMKYMNKQKCVEKGSVRNVLNERRILQEL-------NHPF 61
Query: 544 INNLHCFSQVAVLRSLHHHNVIRFIGVLYKDR-KLNLVTEYIAGGTLKELLQDPGQPLPW 602
+ NL +S ++D + LV + + GG L+ L
Sbjct: 62 LVNLW-YS--------------------FQDEENMYLVVDLLLGGDLRYHLS-------- 92
Query: 603 GQRVNFARD--------IAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
Q+V F+ + I + YLHS +IHRD+ N L+ E G
Sbjct: 93 -QKVKFSEEQVKFWICEIVLALEYLHSKGIIHRDIKPDNILLDEQG 137
>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 = 54.2 bits (131), Expect = 7e-08
Identities = 50/185 (27%), Positives = 79/185 (42%), Gaps = 39/185 (21%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGL-IN 545
+G+G +G VY+ TG + LK++ + L G+ ++
Sbjct: 6 EIGEGAYGTVYKARDLNTGRFVALKKV---------------------RVPLSEEGIPLS 44
Query: 546 NLHCFSQVAVLRSL---HHHNVIRFIGVLYKDR-----KLNLVTEYIAG--GTLKELLQD 595
L ++A+L+ L H N++R + V + R KL LV E++ T
Sbjct: 45 TLR---EIALLKQLESFEHPNIVRLLDVCHGPRTDRELKLTLVFEHVDQDLATYLSKCPK 101
Query: 596 PGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVGSG--FDFHLGQIYLI 653
PG LP + R + G+ +LHS ++HRDL QN LV G DF L +IY
Sbjct: 102 PG--LPPETIKDLMRQLLRGVDFLHSHRIVHRDLKPQNILVTSDGQVKIADFGLARIYSF 159
Query: 654 YVPYT 658
+ T
Sbjct: 160 EMALT 164
>gnl|CDD|143367 cd07862, STKc_CDK6, Catalytic domain of the Serine/Threonine
Kinase, Cyclin-Dependent protein Kinase 6.
Serine/Threonine Kinases (STKs), Cyclin-dependent
protein kinase 6 (CDK6) subfamily, catalytic (c) domain.
STKs catalyze the transfer of the gamma-phosphoryl group
from ATP to serine/threonine residues on protein
substrates. The CDK6 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. CDK6
is regulated by D-type cyclins and INK4 inhibitors. It
is active towards the retinoblastoma (pRb) protein,
implicating it to function in regulating the early G1
phase of the cell cycle. It is expressed ubiquitously
and is localized in the cytoplasm. It is also present in
the ruffling edge of spreading fibroblasts and may play
a role in cell spreading. It binds to the p21 inhibitor
without any effect on its own activity and it is
overexpressed in squamous cell carcinomas and
neuroblastomas. CDK6 has also been shown to inhibit cell
differentiation in many cell types.
Length = 290
Score = 54.2 bits (130), Expect = 8e-08
Identities = 53/203 (26%), Positives = 84/203 (41%), Gaps = 35/203 (17%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+G+G +G+V++ + G V + RV E G+ L
Sbjct: 9 IGEGAYGKVFKARDLKNGGRFVALKRVRVQTGEE--------------------GM--PL 46
Query: 548 HCFSQVAVLRSLH---HHNVIRFIGVLYKDR-----KLNLVTEYIAGGTLKELLQDPGQP 599
+VAVLR L H NV+R V R KL LV E++ L + P
Sbjct: 47 STIREVAVLRHLETFEHPNVVRLFDVCTVSRTDRETKLTLVFEHVDQDLTTYLDKVPEPG 106
Query: 600 LPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVGS--GFDFHLGQIYLIYVPY 657
+P + + G+ +LHS ++HRDL QN LV G DF L +IY +
Sbjct: 107 VPTETIKDMMFQLLRGLDFLHSHRVVHRDLKPQNILVTSSGQIKLADFGLARIYSFQMAL 166
Query: 658 TLFILSAKTKKTYYPNILKKASF 680
T +++ + P +L ++S+
Sbjct: 167 TSVVVTLWYRA---PEVLLQSSY 186
>gnl|CDD|133221 cd05090, PTKc_Ror1, Catalytic domain of the Protein Tyrosine
Kinase, Receptor tyrosine kinase-like Orphan Receptor 1.
Protein Tyrosine Kinase (PTK) family; Receptor tyrosine
kinase-like Orphan Receptor 1 (Ror1); catalytic (c)
domain. 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. Ror
proteins are orphan receptor tyr kinases (RTKs)
containing an extracellular region with
immunoglobulin-like, cysteine-rich, and kringle domains,
a transmembrane segment, and an intracellular catalytic
domain. Ror RTKs are unrelated to the nuclear receptor
subfamily called retinoid-related orphan receptors
(RORs). RTKs are usually activated through ligand
binding, which causes dimerization and
autophosphorylation of the intracellular tyr kinase
catalytic domain. Ror kinases are expressed in many
tissues during development. Avian Ror1 was found to be
involved in late limb development. Studies in mice
reveal that Ror1 is important in the regulation of
neurite growth in central neurons, as well as in
respiratory development. Loss of Ror1 also enhances the
heart and skeletal abnormalities found in Ror2-deficient
mice.
Length = 283
Score = 53.9 bits (129), Expect = 8e-08
Identities = 31/103 (30%), Positives = 53/103 (51%), Gaps = 16/103 (15%)
Query: 552 QVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELL------QDPG-------- 597
+ +++ LHH N++ +GV+ +++ + ++ EY+ G L E L D G
Sbjct: 57 EASLMAELHHPNIVCLLGVVTQEQPVCMLFEYLNQGDLHEFLIMRSPHSDVGCSSDEDGT 116
Query: 598 --QPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
L G ++ A IAAGM YL S +H+DL ++N L+ E
Sbjct: 117 VKSSLDHGDFLHIAIQIAAGMEYLSSHFFVHKDLAARNILIGE 159
>gnl|CDD|132969 cd06638, STKc_myosinIIIA, Catalytic domain of the Protein
Serine/Threonine Kinase, Class IIIA myosin.
Serine/threonine kinases (STKs), class IIIA myosin
subfamily, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
class III myosin 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. Class III myosins are motor
proteins containing an N-terminal kinase catalytic
domain and a C-terminal actin-binding domain. Class III
myosins may play an important role in maintaining the
structural integrity of photoreceptor cell microvilli.
In photoreceptor cells, they may also function as cargo
carriers during light-dependent translocation of
proteins such as transducin and arrestin. Class IIIA
myosin is highly expressed in retina and in inner ear
hair cells. It is localized to the distal ends of
actin-bundled structures. Mutations in human myosin IIIA
are responsible for progressive nonsyndromic hearing
loss. Human myosin IIIA possesses ATPase and kinase
activities, and the ability to move actin filaments in a
motility assay. It may function as a cellular
transporter capable of moving along actin bundles in
sensory cells.
Length = 286
Score = 53.9 bits (129), Expect = 1e-07
Identities = 41/168 (24%), Positives = 73/168 (43%), Gaps = 47/168 (27%)
Query: 488 LGQGFFGQVYRVTHRETGE---VMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLI 544
+G+G +G+V++V +++ G V +L ++ +DEE E +
Sbjct: 26 IGKGTYGKVFKVLNKKNGSKAAVKILDPIHDIDEEIEAEY-------------------- 65
Query: 545 NNLHCFSQVAVLRSLHHH-NVIRFIGVLYKDRKLN-----LVTEYIAGGTLKELLQDPGQ 598
+L++L H NV++F G+ YK N LV E GG++ +L++
Sbjct: 66 ---------NILKALSDHPNVVKFYGMYYKKDVKNGDQLWLVLELCNGGSVTDLVKGF-- 114
Query: 599 PLPWGQRVN------FARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
L G+R+ + G+ +LH IHRD+ N L+ G
Sbjct: 115 -LKRGERMEEPIIAYILHEALMGLQHLHVNKTIHRDVKGNNILLTTEG 161
>gnl|CDD|132986 cd06655, STKc_PAK2, Catalytic domain of the Protein
Serine/Threonine Kinase, p21-activated kinase 2.
Serine/threonine kinases (STKs), p21-activated kinase
(PAK) 2, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The PAK
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. PAKs are Rho family GTPase-regulated kinases
that serve as important mediators in the function of
Cdc42 (cell division cycle 42) and Rac. PAKs from higher
eukaryotes are classified into two groups (I and II),
according to their biochemical and structural features.
PAK2 belongs to group I. Group I PAKs contain a PBD
(p21-binding domain) overlapping with an AID
(autoinhibitory domain), a C-terminal catalytic domain,
SH3 binding sites and a non-classical SH3 binding site
for PIX (PAK-interacting exchange factor). PAK2 plays a
role in pro-apoptotic signaling. It is cleaved and
activated by caspases leading to morphological changes
during apoptosis. PAK2 is also activated in response to
a variety of stresses including DNA damage,
hyperosmolarity, serum starvation, and contact
inhibition, and may play a role in coordinating the
stress response. PAK2 also contributes to cancer cell
invasion through a mechanism distinct from that of PAK1.
Length = 296
Score = 54.0 bits (129), Expect = 1e-07
Identities = 38/154 (24%), Positives = 72/154 (46%), Gaps = 27/154 (17%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+GQG G V+ TG+ + +K++ N K+ K+ LI
Sbjct: 27 IGQGASGTVFTAIDVATGQEVAIKQI---------NLQKQPKKELI-------------- 63
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
+++ V++ L + N++ F+ +L +V EY+AGG+L +++ + + Q
Sbjct: 64 --INEILVMKELKNPNIVNFLDSFLVGDELFVVMEYLAGGSLTDVVTE--TCMDEAQIAA 119
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLVREVGS 641
R+ + +LH+ +IHRD+ S N L+ GS
Sbjct: 120 VCRECLQALEFLHANQVIHRDIKSDNVLLGMDGS 153
>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 = 54.1 bits (131), Expect = 1e-07
Identities = 41/155 (26%), Positives = 65/155 (41%), Gaps = 30/155 (19%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
+G G +G V + TG + +K++ V ++ LI+
Sbjct: 7 PIGSGAYGVVCSAVDKRTGRKVAIKKISNVFDD-----------------------LIDA 43
Query: 547 LHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLN-----LVTEYIAGGTLKELLQDPGQPLP 601
++ +LR L H N+I + +L + +VTE L ++++ P QPL
Sbjct: 44 KRILREIKLLRHLRHENIIGLLDILRPPSPEDFNDVYIVTEL-METDLHKVIKSP-QPLT 101
Query: 602 WGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
F I G+ YLHS N+IHRDL N LV
Sbjct: 102 DDHIQYFLYQILRGLKYLHSANVIHRDLKPSNILV 136
>gnl|CDD|188852 cd09468, LIM1_Lhx4, The first LIM domain of Lhx4. The first LIM
domain of Lhx4. Lhx4 belongs to the LHX protein family,
which features two tandem N-terminal LIM domains and a
C-terminal DNA binding homeodomain. Members of LHX
family are found in the nucleus and act as
transcription factors or cofactors. LHX proteins are
critical for the development of specialized cells in
multiple tissue types, including the nervous system,
skeletal muscle, the heart, the kidneys, and endocrine
organs, such as the pituitary gland and the pancreas.
LHX4 plays essential roles in pituitary gland and
nervous system development. In mice, the lhx4 gene is
expressed in the developing hindbrain, cerebral cortex,
pituitary gland, and spinal cord. LHX4 shows
significant sequence similarity to LHX3, particularly
to isoforms Lhx3a. In gene regulation experiments, the
LHX4 protein exhibits regulation roles towards
pituitary genes, acting on their promoters/enhancers.
As in other LIM domains, this domain family is 50-60
amino acids in size and shares two characteristic zinc
finger motifs. The two zinc fingers contain eight
conserved residues, mostly cysteines and histidines,
which coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein.
Length = 52
Score = 48.4 bits (115), Expect = 1e-07
Identities = 18/52 (34%), Positives = 32/52 (61%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWYFEKDGLLFCKEDY 63
CAGC +I++ ++ L + WH+ C +C+ C + L F + G ++CKED+
Sbjct: 1 CAGCNQHILDKFILKVLDRHWHSSCLKCADCQMQLAERCFSRAGNVYCKEDF 52
>gnl|CDD|132987 cd06656, STKc_PAK3, Catalytic domain of the Protein
Serine/Threonine Kinase, p21-activated kinase 3.
Serine/threonine kinases (STKs), p21-activated kinase
(PAK) 3, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The PAK
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. PAKs are Rho family GTPase-regulated kinases
that serve as important mediators in the function of
Cdc42 (cell division cycle 42) and Rac. PAKs from higher
eukaryotes are classified into two groups (I and II),
according to their biochemical and structural features.
PAK3 belongs to group I. Group I PAKs contain a PBD
(p21-binding domain) overlapping with an AID
(autoinhibitory domain), a C-terminal catalytic domain,
SH3 binding sites and a non-classical SH3 binding site
for PIX (PAK-interacting exchange factor). PAK3 is
highly expressed in the brain. It is implicated in
neuronal plasticity, synapse formation, dendritic spine
morphogenesis, cell cycle progression, neuronal
migration, and apoptosis. Inactivating mutations in the
PAK3 gene cause X-linked non-syndromic mental
retardation, the severity of which depends on the site
of the mutation.
Length = 297
Score = 53.6 bits (128), Expect = 1e-07
Identities = 39/154 (25%), Positives = 72/154 (46%), Gaps = 27/154 (17%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+GQG G VY TG+ + +K++ N ++ K+ LI
Sbjct: 27 IGQGASGTVYTAIDIATGQEVAIKQM---------NLQQQPKKELI-------------- 63
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
+++ V+R + N++ ++ +L +V EY+AGG+L +++ + + GQ
Sbjct: 64 --INEILVMRENKNPNIVNYLDSYLVGDELWVVMEYLAGGSLTDVVTE--TCMDEGQIAA 119
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLVREVGS 641
R+ + +LHS +IHRD+ S N L+ GS
Sbjct: 120 VCRECLQALDFLHSNQVIHRDIKSDNILLGMDGS 153
>gnl|CDD|140289 PTZ00263, PTZ00263, protein kinase A catalytic subunit;
Provisional.
Length = 329
Score = 53.7 bits (129), Expect = 1e-07
Identities = 42/172 (24%), Positives = 71/172 (41%), Gaps = 39/172 (22%)
Query: 477 FRASDLVRGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLI 536
++ SD G LG G FG+V H+ TGE +K L +K + + KQ +
Sbjct: 15 WKLSDFEMGETLGTGSFGRVRIAKHKGTGEYYAIKCL-------KKREILKMKQ-----V 62
Query: 537 DLGSHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDP 596
H + ++L L H ++ + + ++ + E++ GG L L+
Sbjct: 63 Q----------HVAQEKSILMELSHPFIVNMMCSFQDENRVYFLLEFVVGGELFTHLRKA 112
Query: 597 GQPLPWGQRVNFARDIAA--------GMTYLHSMNLIHRDLNSQNCLVREVG 640
G+ F D+A YLHS ++I+RDL +N L+ G
Sbjct: 113 GR---------FPNDVAKFYHAELVLAFEYLHSKDIIYRDLKPENLLLDNKG 155
>gnl|CDD|143374 cd07869, STKc_PFTAIRE1, Catalytic domain of the Serine/Threonine
Kinase, PFTAIRE-1 kinase. Serine/Threonine Kinases
(STKs), PFTAIRE-1 subfamily, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine/threonine residues on protein substrates.
The PFTAIRE-1 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. PFTAIRE-1 shares sequence
similarity with Cyclin-Dependent Kinases (CDKs), which
belong to a large family of STKs that are regulated by
their cognate cyclins. Together, CDKs and cyclins are
involved in the control of cell-cycle progression,
transcription, and neuronal function. PFTAIRE-1 is
widely expressed except in the spleen and thymus. It is
highly expressed in the brain, heart, pancreas, testis,
and ovary, and is localized in the cytoplasm. It is
regulated by cyclin D3 and is inhibited by the p21 cell
cycle inhibitor. It has also been shown to interact with
the membrane-associated cyclin Y, which recruits the
protein to the plasma membrane.
Length = 303
Score = 53.5 bits (128), Expect = 1e-07
Identities = 36/153 (23%), Positives = 68/153 (44%), Gaps = 25/153 (16%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
LG+G + VY+ + G+++ LK + R+ EE F
Sbjct: 13 LGEGSYATVYKGKSKVNGKLVALK-VIRLQEEEGTPFT---------------------- 49
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
+ ++L+ L H N++ +++ L LV EY+ + + + PG P ++
Sbjct: 50 -AIREASLLKGLKHANIVLLHDIIHTKETLTLVFEYVHTDLCQYMDKHPGGLHPENVKL- 107
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
F + G++Y+H ++HRDL QN L+ + G
Sbjct: 108 FLFQLLRGLSYIHQRYILHRDLKPQNLLISDTG 140
>gnl|CDD|188851 cd09467, LIM1_Lhx3b, The first LIM domain of Lhx3b. The first
LIM domain of Lhx3b. Lhx3b is a member of LHX protein
family, which features two tandem N-terminal LIM
domains and a C-terminal DNA binding homeodomain.
Members of LHX family are found in the nucleus and act
as transcription factors or cofactors. LHX proteins are
critical for the development of specialized cells in
multiple tissue types, including the nervous system,
skeletal muscle, the heart, the kidneys, and endocrine
organs, such as the pituitary gland and the pancreas.
Lhx3b is one of the two isoforms of Lhx3. The Lhx3 gene
is expressed in the ventral spinal cord, the pons, the
medulla oblongata, and the pineal gland of the
developing nervous system during mouse embryogenesis,
and transcripts are found in the emergent pituitary
gland. Lhx3 functions in concert with other
transcription factors to specify interneuron and motor
neuron fates during development. Lhx3 proteins have
been demonstrated to directly bind to the promoters of
several pituitary hormone gene promoters. The Lhx3 gene
encodes two isoforms, LHX3a and LHX3b that differ in
their amino-terminal sequences, where Lhx3a has longer
N-terminal. They show differential activation of
pituitary hormone genes and distinct DNA binding
properties. In human, Lhx3a trans-activated the
alpha-glycoprotein subunit promoter and genes
containing a high-affinity Lhx3 binding site more
effectively than the hLhx3b isoform. In addition,
hLhx3a induce transcription of the TSHbeta-subunit gene
by acting on pituitary POU domain factor, Pit-1, while
hLhx3b does not. As in other LIM domains, this domain
family is 50-60 amino acids in size and shares two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein.
Length = 55
Score = 48.4 bits (115), Expect = 1e-07
Identities = 19/55 (34%), Positives = 31/55 (56%)
Query: 9 ILTCAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWYFEKDGLLFCKEDY 63
I CAGC +IV+ ++ L + WH+ C +CS C L F + ++CK+D+
Sbjct: 1 IPLCAGCNQHIVDRFILKVLDRHWHSKCLKCSDCQTQLAEKCFSRGDSVYCKDDF 55
>gnl|CDD|173730 cd06624, STKc_ASK, Catalytic domain of the Protein Serine/Threonine
Kinase, Apoptosis signal-regulating kinase.
Serine/threonine kinases (STKs), Apoptosis
signal-regulating kinase (ASK) subfamily, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The ASK 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. Subfamily members
are mitogen-activated protein kinase (MAPK) kinase
kinases (MAPKKKs or MKKKs or MAP3Ks) and include ASK1,
ASK2, and MAPKKK15. 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. ASK1 (also called
MAPKKK5) functions in the c-Jun N-terminal kinase (JNK)
and p38 MAPK signaling pathways by directly activating
their respective MAPKKs, MKK4/MKK7 and MKK3/MKK6. It
plays important roles in cytokine and stress responses,
as well as in reactive oxygen species (ROS)-mediated
cellular responses. ASK1 is implicated in various
diseases mediated by oxidative stress including
inschemic heart disease, hypertension, vessel injury,
brain ischemia, Fanconi anemia, asthma, and pulmonary
edema, among others. ASK2 (also called MAPKKK6)
functions only in a heteromeric complex with ASK1, and
can activate ASK1 by direct phosphorylation. The
function of MAPKKK15 is still unknown.
Length = 268
Score = 53.3 bits (128), Expect = 1e-07
Identities = 39/152 (25%), Positives = 65/152 (42%), Gaps = 27/152 (17%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
+LG+G +G VY T + +KE+ D + +E I L S+
Sbjct: 15 VLGKGTYGIVYAARDLSTQVRIAIKEIPERDSRYVQPLHEE--------IALHSY----- 61
Query: 547 LHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWG-QR 605
L H N+++++G ++ + E + GG+L LL+ PL Q
Sbjct: 62 ------------LKHRNIVQYLGSDSENGFFKIFMEQVPGGSLSALLRSKWGPLKDNEQT 109
Query: 606 VNF-ARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
+ F + I G+ YLH ++HRD+ N LV
Sbjct: 110 IIFYTKQILEGLKYLHDNQIVHRDIKGDNVLV 141
>gnl|CDD|88330 cd05047, PTKc_Tie, Catalytic domain of Tie Protein Tyrosine
Kinases. Protein Tyrosine Kinase (PTK) family; Tie
subfamily; catalytic (c) domain. The Tie subfamily
consists of Tie1 and Tie2. 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. Tie proteins are
receptor tyr kinases (RTKs) containing an extracellular
region, a transmembrane segment, and an intracellular
catalytic domain. The extracellular region contains an
immunoglobulin (Ig)-like domain, three epidermal growth
factor (EGF)-like domains, a second Ig-like domain, and
three fibronectin type III repeats. Tie receptors are
specifically expressed in endothelial cells and
hematopoietic stem cells. The angiopoietins (Ang-1 to
Ang-4) serve as ligands for Tie2, while no specific
ligand has been identified for Tie1. The binding of
Ang-1 to Tie2 leads to receptor autophosphorylation and
activation, promoting cell migration and survival. In
contrast, Ang-2 binding to Tie2 does not result in the
same response, suggesting that Ang-2 may function as an
antagonist. In vivo studies of Tie1 show that it is
critical in vascular development.
Length = 270
Score = 53.2 bits (127), Expect = 1e-07
Identities = 56/190 (29%), Positives = 79/190 (41%), Gaps = 38/190 (20%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
++G+G FGQV + ++ G M + R+ E A K+ ++ L L LG
Sbjct: 2 VIGEGNFGQVLKARIKKDGLRMD-AAIKRMKEYASKDDHRDFAGELEVLCKLG------- 53
Query: 547 LHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQ-------DPG-- 597
HH N+I +G L L EY G L + L+ DP
Sbjct: 54 -------------HHPNIINLLGACEHRGYLYLAIEYAPHGNLLDFLRKSRVLETDPAFA 100
Query: 598 ------QPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE--VGSGFDFHLGQ 649
L Q ++FA D+A GM YL IHRDL ++N LV E V DF L +
Sbjct: 101 IANSTASTLSSQQLLHFAADVARGMDYLSQKQFIHRDLAARNILVGENYVAKIADFGLSR 160
Query: 650 IYLIYVPYTL 659
+YV T+
Sbjct: 161 GQEVYVKKTM 170
>gnl|CDD|188754 cd09368, LIM1_Lhx3_Lhx4, The first LIM domain of Lhx3 and Lhx4
family. The first LIM domain of Lhx3-Lhx4 family: Lhx3
and Lhx4 belong to the LHX protein family, which
features two tandem N-terminal LIM domains and a
C-terminal DNA binding homeodomain. Members of LHX
family are found in the nucleus and act as
transcription factors or cofactors. LHX proteins are
critical for the development of specialized cells in
multiple tissue types, including the nervous system,
skeletal muscle, the heart, the kidneys, and endocrine
organs, such as the pituitary gland and the pancreas.
The LHX3 and LHX4 LIM-homeodomain transcription factors
play essential roles in pituitary gland and nervous
system development. Although LHX3 and LHX4 share marked
sequence homology, the genes have different expression
patterns. They play overlapping, but distinct functions
during the establishment of the specialized cells of
the mammalian pituitary gland and the nervous system.
Lhx3 proteins have been demonstrated the ability to
directly bind to the promoters/enhancers of several
pituitary hormone gene promoters to cause increased
transcription. Lhx3a and Lhx3b, whose mRNAs have
distinct temporal expression profiles during
development, are two isoforms of Lhx3. LHX4 plays
essential roles in pituitary gland and nervous system
development. In mice, the lhx4 gene is expressed in the
developing hindbrain, cerebral cortex, pituitary gland,
and spinal cord. LHX4 shows significant sequence
similarity to LHX3, particularly to isoforms Lhx3a. In
gene regulation experiments, the LHX4 protein exhibits
regulation roles towards pituitary genes, acting on
their promoters/enhancers. As in other LIM domains,
this domain family is 50-60 amino acids in size and
shares two characteristic zinc finger motifs. The two
zinc fingers contain eight conserved residues, mostly
cysteines and histidines, which coordinately bond to
two zinc atoms. LIM domains function as adaptors or
scaffolds to support the assembly of multimeric
protein.
Length = 52
Score = 48.2 bits (115), Expect = 1e-07
Identities = 16/52 (30%), Positives = 31/52 (59%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWYFEKDGLLFCKEDY 63
C GC +I++ ++ L + WH C +C+ C L + F ++G ++CK+D+
Sbjct: 1 CGGCQEHILDRFILKVLDRTWHAKCLKCNDCGAQLTDKCFARNGHVYCKDDF 52
>gnl|CDD|132985 cd06654, STKc_PAK1, Catalytic domain of the Protein
Serine/Threonine Kinase, p21-activated kinase 1.
Serine/threonine kinases (STKs), p21-activated kinase
(PAK) 1, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The PAK
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. PAKs are Rho family GTPase-regulated kinases
that serve as important mediators in the function of
Cdc42 (cell division cycle 42) and Rac. PAKs from higher
eukaryotes are classified into two groups (I and II),
according to their biochemical and structural features.
PAK1 belongs to group I. Group I PAKs contain a PBD
(p21-binding domain) overlapping with an AID
(autoinhibitory domain), a C-terminal catalytic domain,
SH3 binding sites and a non-classical SH3 binding site
for PIX (PAK-interacting exchange factor). PAK1 is
important in the regulation of many cellular processes
including cytoskeletal dynamics, cell motility, growth,
and proliferation. Although PAK1 has been regarded
mainly as a cytosolic protein, recent reports indicate
that PAK1 also exists in significant amounts in the
nucleus, where it is involved in transcription
modulation and in cell cycle regulatory events. PAK1 is
also involved in transformation and tumorigenesis. Its
overexpression, hyperactivation and increased nuclear
accumulation is correlated to breast cancer invasiveness
and progression. Nuclear accumulation is also linked to
tamoxifen resistance in breast cancer cells.
Length = 296
Score = 53.2 bits (127), Expect = 1e-07
Identities = 38/154 (24%), Positives = 72/154 (46%), Gaps = 27/154 (17%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+GQG G VY TG+ + ++++ N ++ K+ LI
Sbjct: 28 IGQGASGTVYTAMDVATGQEVAIRQM---------NLQQQPKKELI-------------- 64
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
+++ V+R + N++ ++ +L +V EY+AGG+L +++ + + GQ
Sbjct: 65 --INEILVMRENKNPNIVNYLDSYLVGDELWVVMEYLAGGSLTDVVTE--TCMDEGQIAA 120
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLVREVGS 641
R+ + +LHS +IHRD+ S N L+ GS
Sbjct: 121 VCRECLQALEFLHSNQVIHRDIKSDNILLGMDGS 154
>gnl|CDD|188753 cd09367, LIM1_Lhx1_Lhx5, The first LIM domain of Lhx1 (also known
as Lim1) and Lhx5. The first LIM domain of Lhx1 (also
known as Lim1) and Lhx5. Lhx1 and Lhx5 are closely
related members of LHX protein family, which features
two tandem N-terminal LIM domains and a C-terminal DNA
binding homeodomain. Members of LHX family are found in
the nucleus and act as transcription factors or
cofactors. LHX proteins are critical for the
development of specialized cells in multiple tissue
types, including the nervous system, skeletal muscle,
the heart, the kidneys, and endocrine organs, such as
the pituitary gland and the pancreas. Lhx1 is required
for regulating the vertebrate head organizer, the
nervous system, and female reproductive tract
development. During embryogenesis in the mouse, Lhx1 is
expressed early in mesodermal tissue, then later during
urogenital, kidney, liver, and nervous system
development. In the adult, expression is restricted to
the kidney and brain. A mouse embryos with Lhx1 gene
knockout cannot grow normal anterior head structures,
kidneys, and gonads, but with normally developed trunk
and tail morphology. In the developing nervous system,
Lhx1 is required to direct the trajectories of motor
axons in the limb. Lhx1 null female mice lack the
oviducts and uterus. Lhx5 protein may play
complementary or overlapping roles with Lhx1. The
expression of Lhx5 in the anterior portion of the mouse
neural tube suggests a role in patterning of the
forebrain. All LIM domains are 50-60 amino acids in
size and share two characteristic zinc finger motifs.
The two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately
bond to two zinc atoms. LIM domains function as
adaptors or scaffolds to support the assembly of
multimeric protein complexes.
Length = 52
Score = 47.8 bits (114), Expect = 2e-07
Identities = 17/52 (32%), Positives = 27/52 (51%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWYFEKDGLLFCKEDY 63
CAGC I++ + L + WH C +C C L F ++G L+C+ D+
Sbjct: 1 CAGCDRPILDKFLLNVLDRAWHAKCVQCCDCKCPLTEKCFSREGKLYCRNDF 52
>gnl|CDD|173712 cd05622, STKc_ROCK1, Catalytic domain of the Protein
Serine/Threonine Kinase, Rho-associated coiled-coil
containing protein kinase 1. Serine/Threonine Kinases
(STKs), ROCK subfamily, ROCK1 (or ROK-beta) isoform,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The ROCK 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. ROCK contains an
N-terminal extension, a catalytic kinase domain, and a
C-terminal extension, which contains a coiled-coil
region encompassing a Rho-binding domain (RBD) and a
pleckstrin homology (PH) domain. ROCK is auto-inhibited
by the RBD and PH domain interacting with the catalytic
domain, and is activated via interaction with Rho
GTPases. ROCK1 is preferentially expressed in the liver,
lung, spleen, testes, and kidney. It mediates signaling
from Rho to the actin cytoskeleton. It is implicated in
the development of cardiac fibrosis, cardiomyocyte
apoptosis, and hyperglycemia. Mice deficient with ROCK1
display eyelids open at birth (EOB) and omphalocele
phenotypes due to the disorganization of actin filaments
in the eyelids and the umbilical ring.
Length = 371
Score = 53.5 bits (128), Expect = 2e-07
Identities = 38/163 (23%), Positives = 69/163 (42%), Gaps = 24/163 (14%)
Query: 478 RASDLVRGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLID 537
+A D ++G+G FG+V V H+ T +V +K L + + +K S +
Sbjct: 41 KAEDYEVVKVIGRGAFGEVQLVRHKSTRKVYAMKLLSKFE------MIKRSDSAFFW--- 91
Query: 538 LGSHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPG 597
+ ++ + V++ DR L +V EY+ GG L L+ +
Sbjct: 92 -------------EERDIMAFANSPWVVQLFYAFQDDRYLYMVMEYMPGGDLVNLMSNYD 138
Query: 598 QPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
P W + + ++ + +HSM IHRD+ N L+ + G
Sbjct: 139 VPEKWARF--YTAEVVLALDAIHSMGFIHRDVKPDNMLLDKSG 179
>gnl|CDD|188724 cd09338, LIM3_Paxillin_like, The third LIM domain of the paxillin
like protein family. The third LIM domain of the
paxillin like protein family: This family consists of
paxillin, leupaxin, Hic-5 (ARA55), and other related
proteins. There are four LIM domains in the C-terminal
of the proteins and leucine-rich LD-motifs in the
N-terminal region. Members of this family are adaptor
proteins to recruit key components of
signal-transduction machinery to specific sub-cellular
locations. Paxillin is found at the interface between
the plasma membrane and the actin cytoskeleton.
Paxillin serves as a platform for the recruitment of
numerous regulatory and structural proteins that
together control the dynamic changes in cell adhesion,
cytoskeletal reorganization and gene expression that
are necessary for cell migration and survival. Leupaxin
is a cytoskeleton adaptor protein, which is
preferentially expressed in hematopoietic cells. It
associates with focal adhesion kinases PYK2 and
pp125FAK and identified to be a component of the
osteoclast pososomal signaling complex. Hic-5 controls
cell proliferation, migration and senescence by
functioning as coactivator for steroid receptors such
as androgen receptor, glucocorticoid receptor and
progesterone receptor. LIM domains are 50-60 amino
acids in size and share two characteristic zinc finger
motifs. The two zinc fingers contain eight conserved
residues, mostly cysteines and histidines, which
coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 53
Score = 47.7 bits (114), Expect = 2e-07
Identities = 21/53 (39%), Positives = 30/53 (56%), Gaps = 2/53 (3%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNW-YFEKDGLLFCKEDY 63
C GC I+E Y+ AL+ +WH +CF C C N +FE +GL +C+ Y
Sbjct: 1 CGGCNKPILE-NYISALNTQWHPECFVCRECHKPFINGSFFEHEGLPYCETHY 52
Score = 31.5 bits (72), Expect = 0.11
Identities = 10/38 (26%), Positives = 17/38 (44%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSCSCCIGDGE 108
C C + + + + ++HPECF C C +G
Sbjct: 1 CGGCNKPILENYISALNTQWHPECFVCRECHKPFINGS 38
>gnl|CDD|173670 cd05579, STKc_MAST_like, Catalytic domain of Microtubule-associated
serine/threonine kinase-like proteins. Serine/Threonine
Kinases (STKs), Microtubule-associated serine/threonine
(MAST) kinase subfamily, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine/threonine residues on protein substrates.
The MAST kinase 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. The MAST kinase subfamily
includes MAST kinases, MAST-like (MASTL) kinases, and
fungal kinases with similarity to Saccharomyces
cerevisiae Rim15 and Schizosaccharomyces pombe cek1.
MAST kinases contain an N-terminal domain of unknown
function, a central catalytic domain, and a C-terminal
PDZ domain that mediates protein-protein interactions.
MASTL kinases carry only a catalytic domain which
contains a long insert relative to other kinases. The
fungal kinases in this subfamily harbor other domains in
addition to a central catalytic domain, which also
contains an insert relative to MAST kinases like MASTL.
Rim15 contains a C-terminal signal receiver (REC) domain
while cek1 contains an N-terminal PAS domain. MAST
kinases are cytoskeletal associated kinases of unknown
function that are also expressed at neuromuscular
junctions and postsynaptic densities. The fungal
proteins Rim15 and cek1 are involved in the regulation
of meiosis and mitosis, respectively.
Length = 265
Score = 52.3 bits (126), Expect = 3e-07
Identities = 34/149 (22%), Positives = 62/149 (41%), Gaps = 23/149 (15%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+ +G +G+V+ + TG++ +K + K D+ ++ +
Sbjct: 1 ISKGAYGRVFLAKKKSTGDIYAIKVI--------------KKA------DMIRKNQVDQV 40
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
++ +L V++ + L LV EY+ GG L LL++ G L
Sbjct: 41 --LTERDILSQAQSPYVVKLYYSFQGKKNLYLVMEYLPGGDLASLLENVGS-LDEDVARI 97
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
+ +I + YLHS +IHRDL N L+
Sbjct: 98 YIAEIVLALEYLHSNGIIHRDLKPDNILI 126
>gnl|CDD|173687 cd05596, STKc_ROCK, Catalytic domain of the Protein
Serine/Threonine Kinase, Rho-associated coiled-coil
containing protein kinase. Serine/Threonine Kinases
(STKs), Rho-associated coiled-coil containing protein
kinase (ROCK) subfamily, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine/threonine residues on protein substrates.
The ROCK 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. ROCK is also referred to as Rho-associated
kinase or simply as Rho kinase. It contains an
N-terminal extension, a catalytic kinase domain, and a
long C-terminal extension, which contains a coiled-coil
region encompassing a Rho-binding domain (RBD) and a
pleckstrin homology (PH) domain. ROCK is auto-inhibited
by the RBD and PH domain interacting with the catalytic
domain. It is activated via interaction with Rho GTPases
and is involved in many cellular functions including
contraction, adhesion, migration, motility,
proliferation, and apoptosis. The ROCK subfamily
consists of two isoforms, ROCK1 and ROCK2, which may be
functionally redundant in some systems, but exhibit
different tissue distributions. Both isoforms are
ubiquitously expressed in most tissues, but ROCK2 is
more prominent in brain and skeletal muscle while ROCK1
is more pronounced in the liver, testes, and kidney.
Studies in knockout mice result in different phenotypes,
suggesting that the two isoforms do not compensate for
each other during embryonic development.
Length = 370
Score = 52.5 bits (126), Expect = 3e-07
Identities = 43/176 (24%), Positives = 77/176 (43%), Gaps = 35/176 (19%)
Query: 470 EASKSRIFRASDLVRGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVD--EEAEKNFLKE 527
+ +K R+ +A D ++G+G FG+V V H+ + +V +K L + + + ++ F E
Sbjct: 34 KITKLRM-KAEDFDVIKVIGRGAFGEVQLVRHKSSKQVYAMKLLSKFEMIKRSDSAFFWE 92
Query: 528 SKQGLIYLIDLGSHG---LINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYI 584
+ D+ +H I LH Q D+ L +V EY+
Sbjct: 93 ER-------DIMAHANSEWIVQLHYAFQ--------------------DDKYLYMVMEYM 125
Query: 585 AGGTLKELLQDPGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
GG L L+ + P W + + ++ + +HSM IHRD+ N L+ + G
Sbjct: 126 PGGDLVNLMSNYDIPEKWARF--YTAEVVLALDAIHSMGFIHRDVKPDNMLLDKSG 179
>gnl|CDD|133191 cd05060, PTKc_Syk_like, Catalytic domain of Spleen Tyrosine
Kinase-like Protein Tyrosine Kinases. Protein Tyrosine
Kinase (PTK) family; Spleen Tyrosine Kinase (Syk)
subfamily; catalytic (c) domain. The Syk subfamily is
composed of Syk, ZAP-70, Shark, 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. Syk
subfamily kinases are cytoplasmic (or nonreceptor) tyr
kinases containing two Src homology 2 (SH2) domains
N-terminal to the catalytic tyr kinase domain. They are
involved in the signaling downstream of activated
receptors (including B-cell, T-cell, and Fc receptors)
that contain ITAMs (immunoreceptor tyr activation
motifs), leading to processes such as cell
proliferation, differentiation, survival, adhesion,
migration, and phagocytosis. Syk is important in B-cell
receptor (BCR) signaling, while Zap-70 is primarily
expressed in T-cells and NK cells, and is a crucial
component in T-cell receptor (TCR) signaling. Syk also
plays a central role in Fc receptor-mediated
phagocytosis in the adaptive immune system. Shark is
exclusively expressed in ectodermally derived epithelia,
and is localized preferentially to the apical surface of
the epithelial cells, it may play a role in a signaling
pathway for epithelial cell polarity.
Length = 257
Score = 51.6 bits (124), Expect = 4e-07
Identities = 43/153 (28%), Positives = 63/153 (41%), Gaps = 31/153 (20%)
Query: 488 LGQGFFGQVYRVTHRETGEVMV---LKELYRVDEEA-EKNFLKESKQGLIYLIDLGSHGL 543
LG G FG V + + V +K L + A +K FL+E+
Sbjct: 3 LGHGNFGSVVKGVYLMKSGKEVEVAVKTLKQEHIAAGKKEFLREAS-------------- 48
Query: 544 INNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWG 603
V+ L H ++R IGV K L LV E G L + L+ + +P
Sbjct: 49 -----------VMAQLDHPCIVRLIGVC-KGEPLMLVMELAPLGPLLKYLKKRRE-IPVS 95
Query: 604 QRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
A +A GM YL S + +HRDL ++N L+
Sbjct: 96 DLKELAHQVAMGMAYLESKHFVHRDLAARNVLL 128
>gnl|CDD|143342 cd07837, STKc_CdkB_plant, Catalytic domain of the Serine/Threonine
Kinase, Plant B-type Cyclin-Dependent protein Kinase.
Serine/Threonine Kinases (STKs), Plant B-type
Cyclin-Dependent protein Kinase (CdkB) subfamily,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The CdkB 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. The plant-specific B-type CDKs are expressed
from the late S to the M phase of the cell cycle. They
are characterized by the cyclin binding motif
PPT[A/T]LRE. They play a role in controlling mitosis and
integrating developmental pathways, such as stomata and
leaf development. CdkB has been shown to associate with
both cyclin B, which controls G2/M transition, and
cyclin D, which acts as a mediator in linking
extracellular signals to the cell cycle.
Length = 295
Score = 52.1 bits (125), Expect = 4e-07
Identities = 49/187 (26%), Positives = 84/187 (44%), Gaps = 42/187 (22%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKE-LYRVDEEA-EKNFLKESKQGLIYLIDLGSHGLIN 545
+G+G +G+VY+ + TG+++ LK+ +DEE L+E
Sbjct: 9 IGEGTYGKVYKARDKNTGKLVALKKTRLEMDEEGIPPTALRE------------------ 50
Query: 546 NLHCFSQVAVLRSLHHHN-VIRFIGVLYKDRK-----LNLVTEYIAGGTLKELL----QD 595
+++L+ L ++R + V + + K L LV EY+ LK+ + +
Sbjct: 51 -------ISLLQMLSESIYIVRLLDVEHVEEKNGKPSLYLVFEYLDS-DLKKFMDSNGRG 102
Query: 596 PGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVGSGF---DFHLGQIYL 652
PG+PLP +F + G+ + H ++HRDL QN LV + D LG+ +
Sbjct: 103 PGRPLPAKTIKSFMYQLLKGVAHCHKHGVMHRDLKPQNLLVDKQKGLLKIADLGLGRAFS 162
Query: 653 IYV-PYT 658
I V YT
Sbjct: 163 IPVKSYT 169
>gnl|CDD|173666 cd05575, STKc_SGK, Catalytic domain of the Protein Serine/Threonine
Kinase, Serum- and Glucocorticoid-induced Kinase.
Serine/Threonine Kinases (STKs), Serum- and
Glucocorticoid-induced Kinase (SGK) subfamily, catalytic
(c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The SGK 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. There are three
isoforms of SGK, named SGK1, SGK2, and SGK3 (also called
cytokine-independent survival kinase CISK). SGKs are
activated by insulin and growth factors via
phosphoinositide 3-kinase and PDK1. They activate ion
channels, ion carriers, and the Na-K-ATPase, as well as
regulate the activity of enzymes and transcription
factors. SGKs play important roles in transport, hormone
release, neuroexcitability, cell proliferation, and
apoptosis.
Length = 323
Score = 52.1 bits (125), Expect = 4e-07
Identities = 46/154 (29%), Positives = 72/154 (46%), Gaps = 24/154 (15%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+G+G FG+V H+ G+ +K L + K LK+ +Q I + L+ N+
Sbjct: 3 IGKGSFGKVLLAKHKADGKFYAVKVLQK------KAILKKKEQKHIMA---ERNVLLKNV 53
Query: 548 -HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRV 606
H F L LH+ KL V +Y+ GG L LQ + P +
Sbjct: 54 KHPF-----LVGLHYS--------FQTADKLYFVLDYVNGGELFFHLQRE-RSFPEPRAR 99
Query: 607 NFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
+A +IA+ + YLHS+N+I+RDL +N L+ G
Sbjct: 100 FYAAEIASALGYLHSLNIIYRDLKPENILLDSQG 133
>gnl|CDD|173742 cd07845, STKc_CDK10, Catalytic domain of the Serine/Threonine
Kinase, Cyclin-Dependent protein Kinase 10.
Serine/Threonine Kinases (STKs), Cyclin-dependent
protein Kinase 10 (CDK10) subfamily, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The CDK10 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. CDK10, also called PISSLRE, is essential for
cell growth and proliferation, and acts through the G2/M
phase of the cell cycle. CDK10 has also been identified
as an important factor in endocrine therapy resistance
in breast cancer. CDK10 silencing increases the
transcription of c-RAF and the activation of the p42/p44
MAPK pathway, which leads to antiestrogen resistance.
Patients who express low levels of CDK10 relapse early
on tamoxifen.
Length = 309
Score = 52.0 bits (125), Expect = 4e-07
Identities = 47/176 (26%), Positives = 74/176 (42%), Gaps = 29/176 (16%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+G+G +G VYR +GE++ LK++ R+D E + G+ +
Sbjct: 15 IGEGTYGIVYRARDTTSGEIVALKKV-RMDNE---------RDGI-------------PI 51
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDR--KLNLVTEYIAGGTLKELLQDPGQPLPWGQR 605
++ +L +L H N++ V+ + LV EY L LL + P Q
Sbjct: 52 SSLREITLLLNLRHPNIVELKEVVVGKHLDSIFLVMEYCEQ-DLASLLDNMPTPFSESQV 110
Query: 606 VNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG--SGFDFHLGQIY-LIYVPYT 658
+ G+ YLH +IHRDL N L+ + G DF L + Y L P T
Sbjct: 111 KCLMLQLLRGLQYLHENFIIHRDLKVSNLLLTDKGCLKIADFGLARTYGLPAKPMT 166
>gnl|CDD|143375 cd07870, STKc_PFTAIRE2, Catalytic domain of the Serine/Threonine
Kinase, PFTAIRE-2 kinase. Serine/Threonine Kinases
(STKs), PFTAIRE-2 subfamily, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine/threonine residues on protein substrates.
The PFTAIRE-2 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. PFTAIRE-2 shares sequence
similarity with Cyclin-Dependent Kinases (CDKs), which
belong to a large family of STKs that are regulated by
their cognate cyclins. Together, CDKs and cyclins are
involved in the control of cell-cycle progression,
transcription, and neuronal function. PFTAIRE-2 is also
referred to as ALS2CR7 (amyotrophic lateral sclerosis 2
(juvenile) chromosome region candidate 7). It may be
associated with amyotrophic lateral sclerosis 2 (ALS2),
an autosomal recessive form of juvenile ALS. The
function of PFTAIRE-2 is not yet known.
Length = 291
Score = 51.9 bits (124), Expect = 4e-07
Identities = 37/153 (24%), Positives = 69/153 (45%), Gaps = 25/153 (16%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
LG+G + VY+ R G+++ LK + EE G+ +
Sbjct: 13 LGEGSYATVYKGISRINGQLVALKVISMKTEE-----------GVPFT------------ 49
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
+ ++L+ L H N++ +++ L V EY+ + ++Q PG P+ R+
Sbjct: 50 -AIREASLLKGLKHANIVLLHDIIHTKETLTFVFEYMHTDLAQYMIQHPGGLHPYNVRL- 107
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
F + G+ Y+H +++HRDL QN L+ +G
Sbjct: 108 FMFQLLRGLAYIHGQHILHRDLKPQNLLISYLG 140
>gnl|CDD|173711 cd05621, STKc_ROCK2, Catalytic domain of the Protein
Serine/Threonine Kinase, Rho-associated coiled-coil
containing protein kinase 2. Serine/Threonine Kinases
(STKs), ROCK subfamily, ROCK2 (or ROK-alpha) isoform,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The ROCK 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. ROCK contains an
N-terminal extension, a catalytic kinase domain, and a
C-terminal extension, which contains a coiled-coil
region encompassing a Rho-binding domain (RBD) and a
pleckstrin homology (PH) domain. ROCK is auto-inhibited
by the RBD and PH domain interacting with the catalytic
domain, and is activated via interaction with Rho
GTPases. ROCK2 was the first identified target of
activated RhoA, and was found to play a role in stress
fiber and focal adhesion formation. It is prominently
expressed in the brain, heart, and skeletal muscles. It
is implicated in vascular and neurological disorders,
such as hypertension and vasospasm of the coronary and
cerebral arteries. ROCK2 is also activated by caspase-2
cleavage, resulting in thrombin-induced microparticle
generation in response to cell activation. Mice
deficient in ROCK2 show intrauterine growth retardation
and embryonic lethality because of placental
dysfunction.
Length = 370
Score = 52.3 bits (125), Expect = 4e-07
Identities = 39/162 (24%), Positives = 73/162 (45%), Gaps = 30/162 (18%)
Query: 481 DLVRGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVD--EEAEKNFLKESKQGLIYLIDL 538
D+V+ ++G+G FG+V V H+ + +V +K L + + + ++ F E + ++
Sbjct: 46 DVVK--VIGRGAFGEVQLVRHKSSQKVYAMKLLSKFEMIKRSDSAFFWEERD----IMAF 99
Query: 539 GSHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQ 598
+ + L C Q D+ L +V EY+ GG L L+ +
Sbjct: 100 ANSPWVVQLFCAFQ--------------------DDKYLYMVMEYMPGGDLVNLMSNYDV 139
Query: 599 PLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
P W + + ++ + +HSM LIHRD+ N L+ + G
Sbjct: 140 PEKWAKF--YTAEVVLALDAIHSMGLIHRDVKPDNMLLDKHG 179
>gnl|CDD|188774 cd09388, LIM1_LMO1_LMO3, The first LIM domain of LMO1 and LMO3
(LIM domain only protein 1 and 3). The first LIM
domain of LMO1 and LMO3 (LIM domain only protein 1 and
3): LMO1 and LMO3 are highly homologous and belong to
the LMO protein family. LMO1 and LMO3 are nuclear
protein that plays important roles in transcriptional
regulation and development. As LIM domains lack
intrinsic DNA-binding activity, nuclear LMOs are
involved in transcriptional regulation by forming
complexes with other transcription factors or
cofactors. For example, LMO1 interacts with the the
bHLH domain of bHLH transcription factor, TAL1 (T-cell
acute leukemia1)/SCL (stem cell leukemia) . LMO1
inhibits the expression of TAL1/SCL target genes. LMO3
facilitates p53 binding to its response elements, which
suggests that LMO3 acts as a co-repressor of p53,
suppressing p53-dependent transcriptional regulation.
In addition, LMO3 interacts with neuronal transcription
factor, HEN2, and acts as an oncogene in neuroblastoma.
Another binding partner of LMO3 is calcium- and
integrin-binding protein CIB, which binds via the
second LIM domain (LIM2) of LMO3. One role of the
CIB/LMO3 complex is to inhibit cell proliferation.
Although LMO1 and LMO3 are highly homologous proteins,
they play different roles in the regulation of the
pituitary glycoprotein hormone alpha-subunit (alpha
GSU) gene. Alpha GSU promoter activity was markedly
repressed by LMO1 but activated by LMO3. All LIM
domains are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein complexes.
Length = 55
Score = 46.8 bits (111), Expect = 5e-07
Identities = 21/55 (38%), Positives = 30/55 (54%), Gaps = 3/55 (5%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVML---DNWYFEKDGLLFCKEDY 63
CAGC I + ++AL Q WH DC +C+ CD L + + K L+ C+ DY
Sbjct: 1 CAGCNRKIKDRYLLKALDQYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDY 55
Score = 26.4 bits (58), Expect = 7.7
Identities = 12/51 (23%), Positives = 24/51 (47%), Gaps = 1/51 (1%)
Query: 71 CQNCGQMMSGPVMVVG-DHKFHPECFKCTSCSCCIGDGESYALVERSILYC 120
C C + + ++ D +H +C KC C C +G+ S + +++ C
Sbjct: 1 CAGCNRKIKDRYLLKALDQYWHEDCLKCACCDCRLGEVGSTLYTKANLILC 51
>gnl|CDD|173765 cd08225, STKc_Nek5, Catalytic domain of the Protein
Serine/Threonine Kinase, Never In Mitosis gene A-related
kinase 5. Serine/Threonine Kinases (STKs), Never In
Mitosis gene A (NIMA)-related kinase 5 (Nek5) subfamily,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The Nek5 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. The specific function of Nek5
is unknown.
Length = 257
Score = 51.1 bits (122), Expect = 6e-07
Identities = 37/154 (24%), Positives = 69/154 (44%), Gaps = 24/154 (15%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+G+G FG++Y + E V+KE +D KE+ +
Sbjct: 8 IGEGSFGKIYLAKAKSDSEHCVIKE---IDLTKMPVKEKEASK----------------- 47
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTL-KELLQDPGQPLPWGQRV 606
+V +L + H N++ F ++ +L +V EY GG L K + + G Q +
Sbjct: 48 ---KEVILLAKMKHPNIVTFFASFQENGRLFIVMEYCDGGDLMKRINRQRGVLFSEDQIL 104
Query: 607 NFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
++ I+ G+ ++H ++HRD+ SQN + + G
Sbjct: 105 SWFVQISLGLKHIHDRKILHRDIKSQNIFLSKNG 138
>gnl|CDD|143368 cd07863, STKc_CDK4, Catalytic domain of the Serine/Threonine
Kinase, Cyclin-Dependent protein Kinase 4.
Serine/Threonine Kinases (STKs), Cyclin-dependent
protein kinase 4 (CDK4) subfamily, catalytic (c) domain.
STKs catalyze the transfer of the gamma-phosphoryl group
from ATP to serine/threonine residues on protein
substrates. The CDK4 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
partners with all three D-type cyclins (D1, D2, and D3)
and is also regulated by INK4 inhibitors. It is active
towards the retinoblastoma (pRb) protein and plays a
role in regulating the early G1 phase of the cell cycle.
It is expressed ubiquitously and is localized in the
nucleus. CDK4 also shows kinase activity towards Smad3,
a signal transducer of transforming growth factor
(TGF)-beta signaling which modulates transcription and
plays a role in cell proliferation and apoptosis. CDK4
is inhibited by the p21 inhibitor and is specifically
mutated in human melanoma.
Length = 288
Score = 51.1 bits (122), Expect = 7e-07
Identities = 47/174 (27%), Positives = 74/174 (42%), Gaps = 33/174 (18%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+G G +G VY+ +G + LK + RV + ++ GL L
Sbjct: 8 IGVGAYGTVYKARDPHSGHFVALKSV-RV---------QTNEDGL-------------PL 44
Query: 548 HCFSQVAVLRSLH---HHNVIRFIGVLYKDR-----KLNLVTEYIAGGTLKELLQDPGQP 599
+VA+L+ L H N++R + V R K+ LV E++ L + P
Sbjct: 45 STVREVALLKRLEAFDHPNIVRLMDVCATSRTDRETKVTLVFEHVDQDLRTYLDKVPPPG 104
Query: 600 LPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVGSG--FDFHLGQIY 651
LP + R G+ +LH+ ++HRDL +N LV G DF L +IY
Sbjct: 105 LPAETIKDLMRQFLRGLDFLHANCIVHRDLKPENILVTSGGQVKLADFGLARIY 158
>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 = 50.7 bits (121), Expect = 7e-07
Identities = 43/154 (27%), Positives = 67/154 (43%), Gaps = 37/154 (24%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKEL-YRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
+G+G +G+V V HR G+ V+K+L R E+ ++ Q
Sbjct: 8 VGKGSYGEVSLVRHRTDGKQYVIKKLNLRNASRRERKAAEQEAQ---------------- 51
Query: 547 LHCFSQVAVLRSLHHHNVIRFIGVLYK------DRKLNLVTEYIAGGTL-KELLQDPGQP 599
+L L H N+ V Y+ D L +V + GG L +L + G+
Sbjct: 52 --------LLSQLKHPNI-----VAYRESWEGEDGLLYIVMGFCEGGDLYHKLKEQKGKL 98
Query: 600 LPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQN 633
LP Q V + IA + YLH +++HRDL +QN
Sbjct: 99 LPENQVVEWFVQIAMALQYLHEKHILHRDLKTQN 132
>gnl|CDD|132979 cd06648, STKc_PAK_II, Catalytic domain of the Protein
Serine/Threonine Kinase, Group II p21-activated kinase.
Serine/threonine kinases (STKs), p21-activated kinase
(PAK) subfamily, Group II, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine/threonine residues on protein substrates.
The PAK 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. PAKs are Rho family GTPase-regulated kinases
that serve as important mediators in the function of
Cdc42 (cell division cycle 42) and Rac. PAKs from higher
eukaryotes are classified into two groups (I and II),
according to their biochemical and structural features.
Group II PAKs, also called non-conventional PAKs,
include PAK4, PAK5, and PAK6. Group II PAKs contain PBD
(p21-binding domain) and catalytic domains, but lack
other motifs found in group I PAKs, such as an AID
(autoinhibitory domain) and SH3 binding sites. Since
group II PAKs do not contain an obvious AID, they may be
regulated differently from group I PAKs. While group I
PAKs interact with the SH3 containing proteins Nck, Grb2
and PIX, no such binding has been demonstrated for group
II PAKs. Some known substrates of group II PAKs are also
substrates of group I PAKs such as Raf, BAD, LIMK and
GEFH1. Unique group II substrates include MARK/Par-1 and
PDZ-RhoGEF. Group II PAKs play important roles in
filopodia formation, neuron extension, cytoskeletal
organization, and cell survival.
Length = 285
Score = 50.9 bits (122), Expect = 8e-07
Identities = 24/105 (22%), Positives = 47/105 (44%), Gaps = 16/105 (15%)
Query: 550 FSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKEL-----LQDPGQPLPWGQ 604
F++V ++R H N++ +L +V E++ GG L ++ + + Q
Sbjct: 64 FNEVVIMRDYQHPNIVEMYSSYLVGDELWVVMEFLEGGALTDIVTHTRMNEE-------Q 116
Query: 605 RVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG----SGFDF 645
+ +++LH+ +IHRD+ S + L+ G S F F
Sbjct: 117 IATVCLAVLKALSFLHAQGVIHRDIKSDSILLTSDGRVKLSDFGF 161
>gnl|CDD|173753 cd07864, STKc_CDK12, Catalytic domain of the Serine/Threonine
Kinase, Cyclin-Dependent protein Kinase 12.
Serine/Threonine Kinases (STKs), Cyclin-Dependent
protein Kinase 12 (CDK12) subfamily, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The CDK12 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. CDK12 is also called Cdc2-related protein
kinase 7 (CRK7) or Cdc2-related kinase
arginine/serine-rich (CrkRS). It is a unique CDK that
contains an arginine/serine-rich (RS) domain, which is
predominantly found in splicing factors. CDK12 is widely
expressed in tissues. It interacts with cyclins L1 and
L2, and plays roles in regulating transcription and
alternative splicing.
Length = 302
Score = 50.9 bits (122), Expect = 8e-07
Identities = 45/176 (25%), Positives = 78/176 (44%), Gaps = 36/176 (20%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+G+G +GQVY+ ++TGE++ LK++ R+D E K+G +
Sbjct: 15 IGEGTYGQVYKARDKDTGELVALKKV-RLDNE---------KEGF-------------PI 51
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVL--------YKDRKLN--LVTEYIAGGTLKELLQDPG 597
++ +LR L+H N++ ++ +K K LV EY+ L LL+
Sbjct: 52 TAIREIKILRQLNHRNIVNLKEIVTDKQDALDFKKDKGAFYLVFEYM-DHDLMGLLESGL 110
Query: 598 QPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVGSG--FDFHLGQIY 651
+F + + G+ Y H N +HRD+ N L+ G DF L ++Y
Sbjct: 111 VHFSEDHIKSFMKQLLEGLNYCHKKNFLHRDIKCSNILLNNKGQIKLADFGLARLY 166
>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 = 50.8 bits (121), Expect = 9e-07
Identities = 35/156 (22%), Positives = 68/156 (43%), Gaps = 25/156 (16%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+G+G F +VYR T G + LK++ D L+D +
Sbjct: 10 IGRGQFSEVYRATCLLDGVPVALKKVQIFD-----------------LMDAKARA----- 47
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELL---QDPGQPLPWGQ 604
C ++ +L+ L+H NVI++ +D +LN+V E G L ++ + + +P
Sbjct: 48 DCIKEIDLLKQLNHPNVIKYYASFIEDNELNIVLELADAGDLSRMIKHFKKQKRLIPEKT 107
Query: 605 RVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
+ + + + ++HS ++HRD+ N + G
Sbjct: 108 VWKYFVQLCSALEHMHSRRVMHRDIKPANVFITATG 143
>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 = 50.2 bits (120), Expect = 9e-07
Identities = 38/161 (23%), Positives = 72/161 (44%), Gaps = 36/161 (22%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKEL------YRVDEEAEKNFLKESKQGLIYLIDLGSH 541
+G+G FG+ V +E G+ V+KE+ + EE+ K
Sbjct: 8 IGEGSFGKAILVKSKEDGKQYVIKEINISKMSPKEREESRK------------------- 48
Query: 542 GLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTL-KELLQDPGQPL 600
+VAVL ++ H N++++ ++ L +V +Y GG L K++ G
Sbjct: 49 ----------EVAVLSNMKHPNIVQYQESFEENGNLYIVMDYCEGGDLYKKINAQRGVLF 98
Query: 601 PWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVGS 641
P Q +++ I + ++H ++HRD+ SQN + + G+
Sbjct: 99 PEDQILDWFVQICLALKHVHDRKILHRDIKSQNIFLTKDGT 139
>gnl|CDD|173741 cd07843, STKc_CDC2L1, Catalytic domain of the Serine/Threonine
Kinase, Cell Division Cycle 2-like 1. Serine/Threonine
Kinases (STKs), Cell Division Cycle 2-like 1 (CDC2L1)
subfamily, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
CDC2L1 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. CDC2L1, also
called PITSLRE, exists in different isoforms which are
named using the alias CDK11(p). The CDC2L1 gene produces
two protein products, CDK11(p110) and CDK11(p58). CDC2L1
is also represented by the caspase-processed CDK11(p46).
CDK11(p110), the major isoform, associates with cyclin L
and is expressed throughout the cell cycle. It is
involved in RNA processing and the regulation of
transcription. CDK11(p58) associates with cyclin D3 and
is expressed during the G2/M phase of the cell cycle. It
plays roles in spindle morphogenesis, centrosome
maturation, sister chromatid cohesion, and the
completion of mitosis. CDK11(p46) is formed from the
larger isoforms by caspases during TNFalpha- and
Fas-induced apoptosis. It functions as a downstream
effector kinase in apoptotic signaling pathways and
interacts with eukaryotic initiation factor 3f (eIF3f),
p21-activated kinase (PAK1), and Ran-binding protein
(RanBPM).
Length = 293
Score = 50.7 bits (122), Expect = 1e-06
Identities = 41/153 (26%), Positives = 72/153 (47%), Gaps = 34/153 (22%)
Query: 490 QGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNF----LKESKQGLIYLIDLGSHGLIN 545
+G +G VYR ++TGE++ LK+L ++++E E F L+E IN
Sbjct: 15 EGTYGVVYRARDKKTGEIVALKKL-KMEKEKE-GFPITSLRE----------------IN 56
Query: 546 NLHCFSQVAVLRSLHHHNV--IRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWG 603
+L L H N+ ++ + V K+ +V EY+ LK L++ QP
Sbjct: 57 ---------ILLKLQHPNIVTVKEVVVGSNLDKIYMVMEYVEH-DLKSLMETMKQPFLQS 106
Query: 604 QRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
+ + +G+ +LH ++HRDL + N L+
Sbjct: 107 EVKCLMLQLLSGVAHLHDNWILHRDLKTSNLLL 139
>gnl|CDD|188782 cd09396, LIM_DA1, The Lim domain of DA1. The Lim domain of DA1:
DA1 contains one copy of LIM domain and a domain of
unknown function. DA1 is predicted as an ubiquitin
receptor, which sets final seed and organ size by
restricting the period of cell proliferation. The LIM
domain is 50-60 amino acids in size and shares two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein.
Length = 53
Score = 45.7 bits (109), Expect = 1e-06
Identities = 15/32 (46%), Positives = 19/32 (59%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACD 43
CAGC + I ++ AL WH +CFRC AC
Sbjct: 1 CAGCKSEIGHGRFLSALGAVWHPECFRCHACR 32
Score = 32.2 bits (74), Expect = 0.072
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 90 FHPECFKCTSCSCCIGDGE 108
+HPECF+C +C I + E
Sbjct: 21 WHPECFRCHACRKPIAEHE 39
>gnl|CDD|173754 cd07865, STKc_CDK9, Catalytic domain of the Serine/Threonine
Kinase, Cyclin-Dependent protein Kinase 9.
Serine/Threonine Kinases (STKs), Cyclin-Dependent
protein Kinase 9 (CDK9) subfamily, catalytic (c) domain.
STKs catalyze the transfer of the gamma-phosphoryl group
from ATP to serine/threonine residues on protein
substrates. The CDK9 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. CDK9
together with a cyclin partner (cyclin T1, T2a, T2b, or
K) is the main component of distinct positive
transcription elongation factors (P-TEFb), which
function as Ser2 C-terminal domain kinases of RNA
polymerase II. P-TEFb participates in multiple steps of
gene expression including transcription elongation, mRNA
synthesis, processing, export, and translation. It also
plays a role in mediating cytokine induced transcription
networks such as IL6-induced STAT3 signaling. In
addition, the CDK9/cyclin T2a complex promotes muscle
differentiation and enhances the function of some
myogenic regulatory factors.
Length = 310
Score = 50.5 bits (121), Expect = 1e-06
Identities = 38/162 (23%), Positives = 70/162 (43%), Gaps = 34/162 (20%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGL-INN 546
+GQG FG+V++ H++T +++ LK++ ++ E E G I
Sbjct: 20 IGQGTFGEVFKARHKKTKQIVALKKV-LMENEKE--------------------GFPITA 58
Query: 547 LHCFSQVAVLRSLHHHNVIRFIGVLY-KDRKLN-------LVTEYIAGGTLKELLQDPGQ 598
L ++ +L+ L H NV+ I + K N LV E+ L LL +
Sbjct: 59 LR---EIKILQLLKHENVVNLIEICRTKATPYNRYKGSFYLVFEFCEH-DLAGLLSNKNV 114
Query: 599 PLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
+ + + G+ Y+H ++HRD+ + N L+ + G
Sbjct: 115 KFTLSEIKKVMKMLLNGLYYIHRNKILHRDMKAANILITKDG 156
>gnl|CDD|132953 cd06622, PKc_MAPKK_PBS2_like, Catalytic domain of fungal PBS2-like
dual-specificity MAP kinase kinases. Protein kinases
(PKs), MAP kinase kinase (MAPKK) subfamily, fungal
PBS2-like proteins, catalytic (c) domain. PKs catalyze
the transfer of the gamma-phosphoryl group from ATP to
serine/threonine or tyrosine residues on protein
substrates. The MAPKK subfamily is part of a larger
superfamily that includes the catalytic domains of other
protein serine/threonine kinases, protein tyrosine
kinases, RIO kinases, aminoglycoside phosphotransferase,
choline kinase, and phosphoinositide 3-kinase. The
mitogen-activated protein (MAP) kinase signaling
pathways are important mediators of cellular responses
to extracellular signals. The pathways involve a triple
kinase core cascade comprising of the MAP kinase (MAPK),
which is phosphorylated and activated by a MAPK kinase
(MAPKK or MKK), which itself is phosphorylated and
activated by a MAPK kinase kinase (MAPKKK or MKKK).
Members of this group include the MAPKKs Polymyxin B
resistance protein 2 (PBS2) from Saccharomyces
cerevisiae, Wis1 from Schizosaccharomyces pombe, and
related proteins. PBS2 and Wis1 are components of
stress-activated MAPK cascades in budding and fission
yeast, respectively. PBS2 is the specific activator of
the MAPK Hog1, which plays a central role in the
response of budding yeast to stress including exposure
to arsenite and hyperosmotic environments. Wis1
phosphorylates and activates the MAPK Sty1 (also called
Spc1 or Phh1), which stimulates a transcriptional
response to a wide range of cellular insults through the
bZip transcription factors Atf1, Pcr1, and Pap1.
Length = 286
Score = 50.2 bits (120), Expect = 1e-06
Identities = 46/162 (28%), Positives = 74/162 (45%), Gaps = 39/162 (24%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
LG+G +G VY+V HR TG M +KE+ R++ L ESK
Sbjct: 9 LGKGNYGSVYKVLHRPTGVTMAMKEI-RLE-------LDESK------------------ 42
Query: 548 HCFSQVAV-LRSLHHHN---VIRFIGVLYKDRKLNLVTEYIAGGTLKEL----LQDPGQP 599
F+Q+ + L LH ++ F G + + + + EY+ G+L +L + G P
Sbjct: 43 --FNQIIMELDILHKAVSPYIVDFYGAFFIEGAVYMCMEYMDAGSLDKLYAGGVATEGIP 100
Query: 600 LPWGQRVNFARDIAAGMTYL-HSMNLIHRDLNSQNCLVREVG 640
+R+ +A + G+ +L N+IHRD+ N LV G
Sbjct: 101 EDVLRRITYA--VVKGLKFLKEEHNIIHRDVKPTNVLVNGNG 140
>gnl|CDD|188757 cd09371, LIM1_Lmx1b, The first LIM domain of Lmx1b. The first
LIM domain of Lmx1b: Lmx1b belongs to the LHX protein
family, which features two tandem N-terminal LIM
domains and a C-terminal DNA binding homeodomain.
Members of LHX family are found in the nucleus and act
as transcription factors or cofactors. LHX proteins are
critical for the development of specialized cells in
multiple tissue types, including the nervous system,
skeletal muscle, the heart, the kidneys, and endocrine
organs, such as the pituitary gland and the pancreas.
In mouse, Lmx1b functions in the developing limbs and
eyes, the kidneys, the brain, and in cranial
mesenchyme. The disruption of Lmx1b gene results kidney
and limb defects. In the brain, Lmx1b is important for
generation of mesencephalic dopamine neurons and the
differentiation of serotonergic neurons. In the mouse
eye, Lmx1b regulates anterior segment (cornea, iris,
ciliary body, trabecular meshwork, and lens)
development. As in other LIM domains, this domain
family is 50-60 amino acids in size and shares two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein.
Length = 53
Score = 45.4 bits (108), Expect = 1e-06
Identities = 18/52 (34%), Positives = 28/52 (53%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWYFEKDGLLFCKEDY 63
CAGC I + ++ + WH +C +CS C L + +D L+CK+DY
Sbjct: 1 CAGCQRPISDRYLLRVNERSWHEECLQCSVCQQPLTTSCYFRDRKLYCKQDY 52
Score = 30.8 bits (70), Expect = 0.20
Identities = 9/33 (27%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 71 CQNCGQMMSGP-VMVVGDHKFHPECFKCTSCSC 102
C C + +S ++ V + +H EC +C+ C
Sbjct: 1 CAGCQRPISDRYLLRVNERSWHEECLQCSVCQQ 33
>gnl|CDD|188758 cd09372, LIM2_FBLP-1, The second LIM domain of the filamin-binding
LIM protein-1 (FBLP-1). The second LIM domain of the
filamin-binding LIM protein-1 (FBLP-1): Fblp-1 contains
a proline-rich domain near its N terminus and two LIM
domains at its C terminus. FBLP-1 mRNA was detected in a
variety of tissues and cells including platelets and
endothelial cells. FBLP-1 binds to Filamins. The
association between filamin B and FBLP-1 may play an
unknown role in cytoskeletal function, cell adhesion,
and cell motility. As in other LIM domains, this domain
family is 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to support
the assembly of multimeric protein.
Length = 53
Score = 45.1 bits (107), Expect = 2e-06
Identities = 17/50 (34%), Positives = 29/50 (58%), Gaps = 1/50 (2%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYC 120
C C +++ ++ +HP CF C +C IGD ES+A+ E++ +YC
Sbjct: 1 CAKCQGVITEHIIRALGKGYHPPCFTCVTCGRRIGD-ESFAVDEQNEVYC 49
Score = 34.3 bits (79), Expect = 0.011
Identities = 15/54 (27%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWYFEKD--GLLFCKEDY 63
CA C ++ + ++AL + +H CF C C + + F D ++C +DY
Sbjct: 1 CAKC-QGVITEHIIRALGKGYHPPCFTCVTCGRRIGDESFAVDEQNEVYCLDDY 53
>gnl|CDD|173702 cd05611, STKc_Rim15_like, Catalytic domain of fungal Rim15-like
Protein Serine/Threonine Kinases. Serine/Threonine
Kinases (STKs), Microtubule-associated serine/threonine
(MAST) kinase subfamily, fungal Rim15-like kinases,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The MAST kinase
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 Saccharomyces
cerevisiae Rim15, Schizosaccharomyces pombe cek1, and
similar fungal proteins. They contain a central
catalytic domain, which contains an insert relative to
MAST kinases. In addition, Rim15 contains a C-terminal
signal receiver (REC) domain while cek1 contains an
N-terminal PAS domain. Rim15 (or Rim15p) functions as a
regulator of meiosis. It acts as a downstream effector
of PKA and regulates entry into stationary phase (G0).
Thus, it plays a crucial role in regulating yeast
proliferation, differentiation, and aging. Cek1 may
facilitate progression of mitotic anaphase.
Length = 260
Score = 49.8 bits (119), Expect = 2e-06
Identities = 43/171 (25%), Positives = 66/171 (38%), Gaps = 34/171 (19%)
Query: 490 QGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNLHC 549
+G FG VY R TG+ +K L + D A+ + N+
Sbjct: 6 KGAFGSVYLAKKRSTGDYFAIKVLKKSDMIAKNQ--------------------VTNVK- 44
Query: 550 FSQVAVLRSLHHHNVIRFIGVLY-----KDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQ 604
A + ++ LY KD L LV EY+ GG L++ G LP
Sbjct: 45 ----AERAIMMIQGESPYVAKLYYSFQSKDY-LYLVMEYLNGGDCASLIKTLG-GLPEDW 98
Query: 605 RVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG--SGFDFHLGQIYLI 653
+ ++ G+ LH +IHRD+ +N L+ + G DF L + L
Sbjct: 99 AKQYIAEVVLGVEDLHQRGIIHRDIKPENLLIDQTGHLKLTDFGLSRNGLE 149
>gnl|CDD|234389 TIGR03903, TOMM_kin_cyc, TOMM system kinase/cyclase fusion protein.
This model represents proteins of 1350 in length, in
multiple species of Burkholderia, in Acidovorax avenae
subsp. citrulli AAC00-1 and Delftia acidovorans SPH-1,
and in multiple copies in Sorangium cellulosum, in
genomic neighborhoods that include a
cyclodehydratase/docking scaffold fusion protein
(TIGR03882) and a member of the thiazole/oxazole
modified metabolite (TOMM) precursor family TIGR03795.
It has a kinase domain in the N-terminal 300 amino
acids, followed by a cyclase homology domain, followed
by regions without named domain definitions. It is a
probable bacteriocin-like metabolite biosynthesis
protein [Cellular processes, Toxin production and
resistance].
Length = 1266
Score = 51.0 bits (122), Expect = 2e-06
Identities = 30/104 (28%), Positives = 48/104 (46%), Gaps = 9/104 (8%)
Query: 552 QVAVLRSLHHHNVIRFI--GVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVNFA 609
+ A+ L+H N++ + G L V EY+ G TL+E+L G LP G+
Sbjct: 28 ETALCARLYHPNIVALLDSGEAPPGL-LFAVFEYVPGRTLREVLAADG-ALPAGETGRLM 85
Query: 610 RDIAAGMTYLHSMNLIHRDLNSQNCLVREVGSG-----FDFHLG 648
+ + H+ ++HRDL QN +V + G DF +G
Sbjct: 86 LQVLDALACAHNQGIVHRDLKPQNIMVSQTGVRPHAKVLDFGIG 129
>gnl|CDD|173647 cd05091, PTKc_Ror2, Catalytic domain of the Protein Tyrosine
Kinase, Receptor tyrosine kinase-like Orphan Receptor 2.
Protein Tyrosine Kinase (PTK) family; Receptor tyrosine
kinase-like Orphan Receptor 2 (Ror2); catalytic (c)
domain. 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. Ror
proteins are orphan receptor tyr kinases (RTKs)
containing an extracellular region with
immunoglobulin-like, cysteine-rich, and kringle domains,
a transmembrane segment, and an intracellular catalytic
domain. Ror RTKs are unrelated to the nuclear receptor
subfamily called retinoid-related orphan receptors
(RORs). RTKs are usually activated through ligand
binding, which causes dimerization and
autophosphorylation of the intracellular tyr kinase
catalytic domain. Ror2 plays important roles in skeletal
and heart formation. Ror2-deficient mice show widespread
bone abnormalities, ventricular defects in the heart,
and respiratory dysfunction. Mutations in human Ror2
result in two different bone development genetic
disorders, recessive Robinow syndrome and brachydactyly
type B. Ror2 is also implicated in neural development.
Length = 283
Score = 49.3 bits (117), Expect = 3e-06
Identities = 32/103 (31%), Positives = 52/103 (50%), Gaps = 16/103 (15%)
Query: 550 FSQVAVLRS-LHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELL------QDPGQ---- 598
F A++RS L H N++ +GV+ K++ L+++ Y + L E L D G
Sbjct: 55 FKHEAMMRSRLQHPNIVCLLGVVTKEQPLSMIFSYCSHSDLHEFLVMRSPHSDVGSTDDD 114
Query: 599 -----PLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
L V+ IAAGM +L S +++H+DL ++N LV
Sbjct: 115 KTVKSTLEPADFVHIVTQIAAGMEFLSSHHVVHKDLATRNVLV 157
>gnl|CDD|132981 cd06650, PKc_MEK1, Catalytic domain of the dual-specificity Protein
Kinase, MAP/ERK Kinase 1. Protein kinases (PKs),
MAP/ERK kinase (MEK) 1 subfamily, catalytic (c) domain.
PKs catalyze the transfer of the gamma-phosphoryl group
from ATP to serine/threonine or tyrosine residues on
protein substrates. The MEK subfamily is part of a
larger superfamily that includes the catalytic domains
of other protein serine/threonine kinases, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and phosphoinositide
3-kinase. The mitogen-activated protein (MAP) kinase
signaling pathways are important mediators of cellular
responses to extracellular signals. The pathways involve
a triple kinase core cascade comprising the MAP kinase
(MAPK), which is phosphorylated and activated by a MAPK
kinase (MAPKK or MKK), which itself is phosphorylated
and activated by a MAPK kinase kinase (MAPKKK or MKKK).
MEK1 is a dual-specificity PK that phosphorylates and
activates the downstream targets, extracellular
signal-regulated kinase (ERK) 1 and ERK2, on specific
threonine and tyrosine residues. The ERK cascade starts
with extracellular signals including growth factors,
hormones, and neurotransmitters, which act through
receptors and ion channels to initiate intracellular
signaling that leads to the activation at the MAPKKK
(Raf-1 or MOS) level, which leads to the transmission of
signals to MEK1, and finally to ERK1/2. The ERK cascade
plays an important role in cell proliferation,
differentiation, oncogenic transformation, and cell
cycle control, as well as in apoptosis and cell survival
under certain conditions. Gain-of-function mutations in
genes encoding ERK cascade proteins, including MEK1,
cause cardiofaciocutaneous (CFC) syndrome, a condition
leading to multiple congenital anomalies and mental
retardation in patients. MEK1 also plays a role in cell
cycle control.
Length = 333
Score = 49.6 bits (118), Expect = 3e-06
Identities = 41/155 (26%), Positives = 71/155 (45%), Gaps = 28/155 (18%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
LG G G V++V+H+ +G +M K LI L I N
Sbjct: 13 LGAGNGGVVFKVSHKPSGLIMARK-----------------------LIHLEIKPAIRN- 48
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQ-PLPWGQRV 606
++ VL + ++ F G Y D ++++ E++ GG+L ++L+ G+ P +V
Sbjct: 49 QIIRELQVLHECNSPYIVGFYGAFYSDGEISICMEHMDGGSLDQVLKKAGRIPEQILGKV 108
Query: 607 NFARDIAAGMTYLHSMN-LIHRDLNSQNCLVREVG 640
+ A + G+TYL + ++HRD+ N LV G
Sbjct: 109 SIA--VIKGLTYLREKHKIMHRDVKPSNILVNSRG 141
>gnl|CDD|173745 cd07848, STKc_CDKL5, Catalytic domain of the Serine/Threonine
Kinase, Cyclin-Dependent protein Kinase Like 5.
Serine/Threonine Kinases (STKs), Cyclin-dependent
protein kinase like 5 (CDKL5) subfamily, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The CDKL5 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. Mutations in the gene encoding CDKL5,
previously called STK9, are associated with early onset
epilepsy and severe mental retardation [X-linked
infantile spasm syndrome (ISSX) or West syndrome]. In
addition, CDKL5 mutations also sometimes cause a
phenotype similar to Rett syndrome (RTT), a progressive
neurodevelopmental disorder. These pathogenic mutations
are located in the N-terminal portion of the protein
within the kinase domain.
Length = 287
Score = 49.2 bits (117), Expect = 3e-06
Identities = 37/150 (24%), Positives = 71/150 (47%), Gaps = 24/150 (16%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
++G+G +G V + H+ET E++ +K+ ++ EE E+ +KE+
Sbjct: 8 VVGEGAYGVVLKCRHKETKEIVAIKK-FKDSEENEE--VKETT----------------- 47
Query: 547 LHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRV 606
++ +LR+L N++ + KL LV EY+ L+ L + P P R
Sbjct: 48 ---LRELKMLRTLKQENIVELKEAFRRRGKLYLVFEYVEKNMLELLEEMPNGVPPEKVRS 104
Query: 607 NFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
+ I A + + H +++HRD+ +N L+
Sbjct: 105 YIYQLIKA-IHWCHKNDIVHRDIKPENLLI 133
>gnl|CDD|188716 cd09330, LIM4_abLIM, The fourth LIM domain of actin binding LIM
(abLIM) proteins. The fourth LIM domain of actin
binding LIM (abLIM) proteins: Three homologous members
of the abLIM protein family have been identified;
abLIM-1, abLIM-2 and abLIM-3. The N-terminal of abLIM
consists of four tandem repeats of LIM domains and the
C-terminal of acting binding LIM protein is a villin
headpiece domain, which has strong actin binding
activity. The abLIM-1, which is expressed in retina,
brain, and muscle tissue, has been indicated to function
as a tumor suppressor. AbLIM-2 and -3, mainly expressed
in muscle and neuronal tissue, bind to F-actin strongly.
They may serve as a scaffold for signaling modules of
the actin cytoskeleton and thereby modulate
transcription. It has shown that LIM domains of abLIMs
interact with STARS (striated muscle activator of Rho
signaling), which directly binds actin and stimulates
serum-response factor (SRF)-dependent transcription. All
LIM domains are 50-60 amino acids in size and share two
characteristic highly conserved zinc finger motifs. The
two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately bond
to two zinc atoms. LIM domains function as adaptors or
scaffolds to support the assembly of multimeric protein
complexes.
Length = 56
Score = 44.3 bits (105), Expect = 3e-06
Identities = 13/38 (34%), Positives = 22/38 (57%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSCSCCIGDGE 108
C+ C + ++G V+ G +HP C +C+ C G+GE
Sbjct: 1 CEACDKFITGKVLEAGGKHYHPTCARCSRCGQMFGEGE 38
>gnl|CDD|173664 cd05573, STKc_ROCK_NDR_like, Catalytic domain of ROCK- and NDR
kinase-like Protein Serine/Threonine Kinases.
Serine/Threonine Kinases (STKs), Rho-associated
coiled-coil containing protein kinase (ROCK) and Nuclear
Dbf2-Related (NDR)-like kinase subfamily, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The ROCK- and NDR-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 ROCK and
ROCK-like proteins such as DMPK, MRCK, and CRIK, as well
as NDR and NDR-like proteins such as LATS, CBK1 and
Sid2p. ROCK and CRIK are effectors of the small GTPase
Rho, while MRCK is an effector of the small GTPase
Cdc42. NDR and NDR-like kinases contain an N-terminal
regulatory (NTR) domain and an insert within the
catalytic domain that contains an auto-inhibitory
sequence. Proteins in this subfamily are involved in
regulating many cellular functions including
contraction, motility, division, proliferation,
apoptosis, morphogenesis, and cytokinesis.
Length = 350
Score = 49.2 bits (118), Expect = 4e-06
Identities = 38/174 (21%), Positives = 64/174 (36%), Gaps = 49/174 (28%)
Query: 480 SDLVRGPLLGQGFFGQVYRVTHRETGEVMVLK-----ELYRVDEEA----EKNFLKESKQ 530
D ++G+G FG+V+ V ++TG+V +K ++ + ++ A E++ L ++
Sbjct: 1 DDFEVIKVIGRGAFGEVWLVRDKDTGQVYAMKVLRKSDMIKRNQIAHVRAERDILADADS 60
Query: 531 GLIYLIDLGSHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLK 590
I L+ Q + L LV EY+ GG L
Sbjct: 61 PWI-----------VKLYYSFQ--------------------DEEHLYLVMEYMPGGDLM 89
Query: 591 ELLQDPGQPLPWGQRVNFARDIAAGMT----YLHSMNLIHRDLNSQNCLVREVG 640
LL AR A + +H + IHRD+ N L+ G
Sbjct: 90 NLLIRKDV-----FPEETARFYIAELVLALDSVHKLGFIHRDIKPDNILIDADG 138
>gnl|CDD|173694 cd05603, STKc_SGK2, Catalytic domain of the Protein
Serine/Threonine Kinase, Serum- and
Glucocorticoid-induced Kinase 2. Serine/Threonine
Kinases (STKs), Serum- and Glucocorticoid-induced Kinase
(SGK) subfamily, SGK2 isoform, catalytic (c) domain.
STKs catalyze the transfer of the gamma-phosphoryl group
from ATP to serine/threonine residues on protein
substrates. The SGK 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. There are three isoforms of
SGK, named SGK1, SGK2, and SGK3. SGK2 shows a more
restricted distribution that SGK1 and is most abundantly
expressed in epithelial tissues including kidney, liver,
pancreas, and the choroid plexus of the brain. In vitro
cellular assays show that SGK2 can stimulate the
activity of ion channels, the glutamate transporter
EEAT4, and the glutamate receptors, GluR6 and GLUR1.
Length = 321
Score = 49.2 bits (117), Expect = 4e-06
Identities = 41/150 (27%), Positives = 69/150 (46%), Gaps = 22/150 (14%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
++G+G FG+V + G +K L + K LK+ +Q N+
Sbjct: 2 VIGKGSFGKVLLAKRKSDGSFYAVKVLQK------KTILKKKEQ--------------NH 41
Query: 547 LHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRV 606
+ V +L++L H ++ KL V +Y+ GG L LQ L R
Sbjct: 42 IMAERNV-LLKNLKHPFLVGLHYSFQTAEKLYFVLDYVNGGELFFHLQRERCFLEPRARF 100
Query: 607 NFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
+A ++A+ + YLHS+N+I+RDL +N L+
Sbjct: 101 -YAAEVASAIGYLHSLNIIYRDLKPENILL 129
>gnl|CDD|143349 cd07844, STKc_PCTAIRE_like, Catalytic domain of PCTAIRE-like
Serine/Threonine Kinases. Serine/Threonine Kinases
(STKs), PCTAIRE-like subfamily, catalytic (c) domain.
STKs catalyze the transfer of the gamma-phosphoryl group
from ATP to serine/threonine residues on protein
substrates. The PCTAIRE-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 share sequence similarity with
Cyclin-Dependent Kinases (CDKs), which belong to a large
family of STKs that are regulated by their cognate
cyclins. Together, CDKs and cyclins are involved in the
control of cell-cycle progression, transcription, and
neuronal function. The association of PCTAIRE-like
proteins with cyclins has not been widely studied,
although PFTAIRE-1 has been shown to function as a CDK
which is regulated by cyclin D3 as well as the
membrane-associated cyclin Y. PCTAIRE-like proteins show
unusual expression patterns with high levels in
post-mitotic tissues, suggesting that they may be
involved in regulating post-mitotic cellular events.
Length = 291
Score = 48.9 bits (117), Expect = 4e-06
Identities = 40/153 (26%), Positives = 68/153 (44%), Gaps = 25/153 (16%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
LG+G + VY+ + TG+++ LKE+ R++ E F
Sbjct: 13 LGEGSYATVYKGRSKLTGQLVALKEI-RLEHEEGAPFT---------------------- 49
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
+ ++L+ L H N++ +++ + L LV EY+ LK+ + D G L
Sbjct: 50 -AIREASLLKDLKHANIVTLHDIIHTKKTLTLVFEYLDT-DLKQYMDDCGGGLSMHNVRL 107
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
F + G+ Y H ++HRDL QN L+ E G
Sbjct: 108 FLFQLLRGLAYCHQRRVLHRDLKPQNLLISERG 140
>gnl|CDD|188793 cd09409, LIM3_Paxillin, The third LIM domain of paxillin. The
third LIM domain of paxillin: Paxillin is an adaptor
protein, which recruits key components of the
signal-transduction machinery to specific sub-cellular
locations to respond to environmental changes rapidly.
The C-terminal region of paxillin contains four LIM
domains which target paxillin to focal adhesions,
presumably through a direct association with the
cytoplasmic tail of beta-integrin. The N-terminal of
paxillin is leucine-rich LD-motifs. Paxillin is found
at the interface between the plasma membrane and the
actin cytoskeleton. The binding partners of paxillin
are diverse and include protein tyrosine kinases, such
as Src and FAK, structural proteins, such as vinculin
and actopaxin, and regulators of actin organization.
Paxillin recruits these proteins to their function
sites to control the dynamic changes in cell adhesion,
cytoskeletal reorganization and gene expression. LIM
domains are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein complexes.
Length = 53
Score = 43.7 bits (103), Expect = 5e-06
Identities = 21/54 (38%), Positives = 30/54 (55%), Gaps = 2/54 (3%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNW-YFEKDGLLFCKEDYN 64
C GC I+E+ Y+ AL+ WH +CF C C N +FE DG +C+ Y+
Sbjct: 1 CGGCARAILEN-YISALNTLWHPECFVCRECFTPFVNGSFFEHDGQPYCEAHYH 53
>gnl|CDD|240233 PTZ00024, PTZ00024, cyclin-dependent protein kinase; Provisional.
Length = 335
Score = 48.6 bits (116), Expect = 6e-06
Identities = 32/161 (19%), Positives = 68/161 (42%), Gaps = 29/161 (18%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
LG+G +G+V + TG+++ +K +V N + + +Q +G G+ +
Sbjct: 17 LGEGTYGKVEKAYDTLTGKIVAIK---KVKIIEISNDVTKDRQ------LVGMCGI--HF 65
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
++ ++ + H N++ + V + +NLV + +A LK+++ ++
Sbjct: 66 TTLRELKIMNEIKHENIMGLVDVYVEGDFINLVMDIMA-SDLKKVVDR---------KIR 115
Query: 608 FA--------RDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
I G+ LH +HRDL+ N + G
Sbjct: 116 LTESQVKCILLQILNGLNVLHKWYFMHRDLSPANIFINSKG 156
>gnl|CDD|173726 cd06610, STKc_OSR1_SPAK, Catalytic domain of the Protein
Serine/Threonine Kinases, Oxidative stress response
kinase and Ste20-related proline alanine-rich kinase.
Serine/threonine kinases (STKs), oxidative stress
response kinase (OSR1) and Ste20-related proline
alanine-rich kinase (SPAK) subfamily, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The OSR1 and SPAK
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. SPAK is also referred to as STK39 or PASK
(proline-alanine-rich STE20-related kinase). OSR1 and
SPAK regulate the activity of cation-chloride
cotransporters through direct interaction and
phosphorylation. They are also implicated in
cytoskeletal rearrangement, cell differentiation,
transformation and proliferation. OSR1 and SPAK contain
a conserved C-terminal (CCT) domain, which recognizes a
unique motif ([RK]FX[VI]) present in their activating
kinases (WNK1/WNK4) and their substrates.
Length = 267
Score = 48.1 bits (115), Expect = 6e-06
Identities = 27/92 (29%), Positives = 48/92 (52%), Gaps = 2/92 (2%)
Query: 552 QVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQD--PGQPLPWGQRVNFA 609
+V + +H NV+++ +L LV Y++GG+L ++++ P L
Sbjct: 49 EVQAMSQCNHPNVVKYYTSFVVGDELWLVMPYLSGGSLLDIMKSSYPRGGLDEAIIATVL 108
Query: 610 RDIAAGMTYLHSMNLIHRDLNSQNCLVREVGS 641
+++ G+ YLHS IHRD+ + N L+ E GS
Sbjct: 109 KEVLKGLEYLHSNGQIHRDIKAGNILLGEDGS 140
>gnl|CDD|173654 cd05108, PTKc_EGFR, Catalytic domain of the Protein Tyrosine
Kinase, Epidermal Growth Factor Receptor. Protein
Tyrosine Kinase (PTK) family; Epidermal Growth Factor
Receptor (EGFR); catalytic (c) domain. 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. EGFR
(HER1, ErbB1) is a member of the EGFR (HER, ErbB)
subfamily of proteins, which are receptor tyr kinases
(RTKs) containing an extracellular EGF-related
ligand-binding region, a transmembrane helix, and a
cytoplasmic region with a tyr kinase domain and a
regulatory C-terminal tail. Unlike other tyr kinases,
phosphorylation of the activation loop of EGFR proteins
is not critical to their activation. Instead, they are
activated by ligand-induced dimerization, leading to the
phosphorylation of tyr residues in the C-terminal tail,
which serve as binding sites for downstream signaling
molecules. Ligands for EGFR include EGF, heparin binding
EGF-like growth factor (HBEGF), epiregulin,
amphiregulin, TGFalpha, and betacellulin. Upon ligand
binding, EGFR can form homo- or heterodimers with other
EGFR subfamily members. The EGFR signaling pathway is
one of the most important pathways regulating cell
proliferation, differentiation, survival, and growth.
Overexpression and mutation in the kinase domain of EGFR
have been implicated in the development and progression
of a variety of cancers. A number of monoclonal
antibodies and small molecule inhibitors have been
developed that target EGFR, including the antibodies
Cetuximab and Panitumumab, which are used in combination
with other therapies for the treatment of colorectal
cancer and non-small cell lung carcinoma (NSCLC). The
small molecule inhibitors Gefitinib (Iressa) and
Erlotinib (Tarceva), already used for NSCLC, are
undergoing clinical trials for other types of cancer
including gastrointestinal, breast, head and neck, and
bladder.
Length = 316
Score = 48.5 bits (115), Expect = 6e-06
Identities = 40/163 (24%), Positives = 73/163 (44%), Gaps = 21/163 (12%)
Query: 475 RIFRASDLVRGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIY 534
RI + ++ + +LG G FG VY+ GE + + + EA K +K+ L
Sbjct: 2 RILKETEFKKIKVLGSGAFGTVYKGLWIPEGEKVKIPVAIKELREATSP--KANKEIL-- 57
Query: 535 LIDLGSHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQ 594
+ V+ S+ + +V R +G+ + L+T+ + G L + ++
Sbjct: 58 ----------------DEAYVMASVDNPHVCRLLGICLTS-TVQLITQLMPFGCLLDYVR 100
Query: 595 DPGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVR 637
+ + +N+ IA GM YL L+HRDL ++N LV+
Sbjct: 101 EHKDNIGSQYLLNWCVQIAKGMNYLEERRLVHRDLAARNVLVK 143
>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 = 48.4 bits (116), Expect = 7e-06
Identities = 30/106 (28%), Positives = 45/106 (42%), Gaps = 37/106 (34%)
Query: 552 QVAVLRSLHHHNVIRFIGVL--YKDRKLNLVTEY-------------------IAGGTLK 590
++A+LR L H NV+ + V + D+ + L+ +Y I +K
Sbjct: 52 EIALLRELKHENVVSLVEVFLEHADKSVYLLFDYAEHDLWQIIKFHRQAKRVSIPPSMVK 111
Query: 591 ELLQDPGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
LL W Q +N G+ YLHS ++HRDL N LV
Sbjct: 112 SLL--------W-QILN-------GVHYLHSNWVLHRDLKPANILV 141
>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 = 48.0 bits (114), Expect = 7e-06
Identities = 35/153 (22%), Positives = 61/153 (39%), Gaps = 23/153 (15%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
LG+G FG VY V + + E LKE I +G +
Sbjct: 8 LGKGSFGTVYLVKDK------------KAVAEERLKVLKE--------IPVGELNPNETV 47
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQD---PGQPLPWGQ 604
+ +L L H +++F + ++TEY G L L++ G+ L Q
Sbjct: 48 QANQEAQLLSKLDHPAIVKFHASFLERDAFCIITEYCEGRDLDCKLEELKHTGKTLSENQ 107
Query: 605 RVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVR 637
+ + G+ Y+H ++HRDL ++N ++
Sbjct: 108 VCEWFIQLLLGVHYMHQRRILHRDLKAKNIFLK 140
>gnl|CDD|188726 cd09340, LIM1_Testin_like, The first LIM domain of Testin-like
family. The first LIM domain of Testin_like family:
This family includes testin, prickle, dyxin and
LIMPETin. Structurally, testin and prickle proteins
contain three LIM domains at C-terminal; LIMPETin has
six LIM domains; and dyxin presents only two LIM
domains. However, all members of the family contain a
PET protein-protein interaction domain. Testin is a
cytoskeleton associated focal adhesion protein that
localizes along actin stress fibers, at
cell-cell-contact areas, and at focal adhesion plaques.
Testin interacts with a variety of cytoskeletal
proteins, including zyxin, mena, VASP, talin, and actin
and it is involved in cell motility and adhesion
events. Prickles have been implicated in roles of
regulating tissue polarity or planar cell polarity
(PCP). Dyxin involves in lung and heart development by
interaction with GATA6 and blocking GATA6 activated
target genes. LIMPETin might be the recombinant product
of genes coding testin and four and half LIM proteins
and its function is not well understood. As in other
LIM domains, this domain family is 50-60 amino acids in
size and shares two characteristic zinc finger motifs.
The two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately
bond to two zinc atoms. LIM domains function as
adaptors or scaffolds to support the assembly of
multimeric protein complexes.
Length = 58
Score = 43.4 bits (103), Expect = 7e-06
Identities = 20/58 (34%), Positives = 24/58 (41%), Gaps = 6/58 (10%)
Query: 12 CAGCLNNIVEDEY-VQAL----SQEWHTDCFRCSACDVML-DNWYFEKDGLLFCKEDY 63
C C I E V A WH CF C C+ +L D YF DG ++C Y
Sbjct: 1 CEKCKEPINPGEVAVFAERAGEDACWHPGCFVCETCNELLVDLIYFYHDGKIYCGRHY 58
Score = 33.3 bits (77), Expect = 0.030
Identities = 11/37 (29%), Positives = 19/37 (51%), Gaps = 6/37 (16%)
Query: 71 CQNCGQMMS-GPVMVVGDHK-----FHPECFKCTSCS 101
C+ C + ++ G V V + +HP CF C +C+
Sbjct: 1 CEKCKEPINPGEVAVFAERAGEDACWHPGCFVCETCN 37
>gnl|CDD|188764 cd09378, LIM2_Lmx1a_Lmx1b, The second LIM domain of Lmx1a and
Lmx1b. The second LIM domain of Lmx1a and Lmx1b: Lmx1a
and Lmx1b belong to the LHX protein family, which
features two tandem N-terminal LIM domains and a
C-terminal DNA binding homeodomain. Members of LHX
family are found in the nucleus and act as
transcription factors or cofactors. LHX proteins are
critical for the development of specialized cells in
multiple tissue types, including the nervous system,
skeletal muscle, the heart, the kidneys, and endocrine
organs such as the pituitary gland and the pancreas.
Mouse Lmx1a is expressed in multiple tissues, including
the roof plate of the neural tube, the developing
brain, the otic vesicles, the notochord, and the
pancreas. In mouse, mutations in Lmx1a result in
failure of the roof plate to develop. Lmx1a may act
upstream of other roof plate markers such as MafB,
Gdf7, Bmp6, and Bmp7. Further characterization of these
mice reveals numerous defects including disorganized
cerebellum, hippocampus, and cortex; altered
pigmentation; female sterility, skeletal defects, and
behavioral abnormalities. In the mouse, Lmx1b
functions in the developing limbs and eyes, the
kidneys, the brain, and in cranial mesenchyme. The
disruption of Lmx1b gene results kidney and limb
defects. In the brain, Lmx1b is important for
generation of mesencephalic dopamine neurons and the
differentiation of serotonergic neurons. In the mouse
eye, Lmx1b regulates anterior segment (cornea, iris,
ciliary body, trabecular meshwork, and lens)
development. As in other LIM domains, this domain
family is 50-60 amino acids in size and shares two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein.
Length = 55
Score = 43.2 bits (102), Expect = 7e-06
Identities = 22/55 (40%), Positives = 29/55 (52%), Gaps = 3/55 (5%)
Query: 12 CAGCLNNIVEDEYV-QALSQEWHTDCFRCSACDVMLD--NWYFEKDGLLFCKEDY 63
C+GCL I E V +AL +H CF C C+ L + + K+G L CK DY
Sbjct: 1 CSGCLEKIAPSELVMRALENVYHLRCFCCCVCERQLQKGDEFVLKEGQLLCKSDY 55
>gnl|CDD|173668 cd05577, STKc_GRK, Catalytic domain of the Protein Serine/Threonine
Kinase, G protein-coupled Receptor Kinase.
Serine/Threonine Kinases (STKs), G protein-coupled
Receptor Kinase (GRK) subfamily, catalytic (c) domain.
STKs catalyze the transfer of the gamma-phosphoryl group
from ATP to serine/threonine residues on protein
substrates. The GRK 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. GRKs phosphorylate and
regulate G protein-coupled receptors (GPCRs), the
largest superfamily of cell surface receptors, which
regulate some part of nearly all physiological
functions. Phosphorylated GPCRs bind to arrestins, which
prevents further G protein signaling despite the
presence of activating ligand. GRKs contain a central
catalytic domain, flanked by N- and C-terminal
extensions. The N-terminus contains an RGS (regulator of
G protein signaling) homology (RH) domain and several
motifs. The C-terminus diverges among different groups
of GRKs. There are seven types of GRKs, named GRK1 to
GRK7. They are subdivided into three main groups: visual
(GRK1/7); beta-adrenergic receptor kinases (GRK2/3); and
GRK4-like (GRK4/5/6). Expression of GRK2/3/5/6 is
widespread while GRK1/4/7 show a limited tissue
distribution. The substrate spectrum of the widely
expressed GRKs partially overlaps. GRKs play important
roles in the cardiovascular, immune, respiratory,
skeletal, and nervous systems.
Length = 277
Score = 47.9 bits (114), Expect = 8e-06
Identities = 39/154 (25%), Positives = 71/154 (46%), Gaps = 23/154 (14%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
LG+G FG+V + TG++ K+L +K LK+ ++G + L ++ +
Sbjct: 1 LGKGGFGEVCACQVKATGKMYACKKL-------DKKRLKK-RKG--EQMALNEKKILEKV 50
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQP-LPWGQRV 606
V++ + KD L LV + GG LK + + G+P P + +
Sbjct: 51 SSRFIVSLAYAFET-----------KD-DLCLVMTLMNGGDLKYHIYNVGEPGFPEARAI 98
Query: 607 NFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
+A I G+ +LH +++RDL +N L+ + G
Sbjct: 99 FYAAQIICGLEHLHQRRIVYRDLKPENVLLDDHG 132
>gnl|CDD|188748 cd09362, LIM2_Enigma_like, The second LIM domain of Enigma-like
family. The second LIM domain of Enigma-like family:
The Enigma LIM domain family is comprised of three
members: Enigma, ENH, and Cypher (mouse)/ZASP (human).
These subfamily members contain a single PDZ domain at
the N-terminus and three LIM domains at the C-terminus.
Enigma was initially characterized in humans and is
expressed in multiple tissues, such as skeletal muscle,
heart, bone and brain. The third LIM domain
specifically interacts with the insulin receptor and
the second LIM domain interacts with the receptor
tyrosine kinase Ret and the adaptor protein APS. Thus
Enigma is implicated in signal transduction processes,
such as mitogenic activity, insulin related actin
organization, and glucose metabolism. The second
member, ENH protein, was first identified in rat brain.
It has been shown that ENH interacts with protein
kinase D1 (PKD1) via its LIM domains and forms a
complex with PKD1 and the alpha1C subunit of cardiac
L-type voltage-gated calcium channel in rat neonatal
cardiomyocytes. The N-terminal PDZ domain interacts
with alpha-actinin at the Z-line. ZASP/Cypher is
required for maintenance of Z-line structure during
muscle contraction, but not required for Z-line
assembly. In heart, Cypher/ZASP plays a structural role
through its interaction with cytoskeletal Z-line
proteins. In addition, there is increasing evidence
that Cypher/ZASP also performs signaling functions.
Studies reveal that Cypher/ZASP interacts with and
directs PKC to the Z-line, where PKC phosphorylates
downstream signaling targets. LIM domains are 50-60
amino acids in size and share two characteristic zinc
finger motifs. The two zinc fingers contain eight
conserved residues, mostly cysteines and histidines,
which coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 52
Score = 43.2 bits (102), Expect = 8e-06
Identities = 22/53 (41%), Positives = 30/53 (56%), Gaps = 2/53 (3%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWYFE-KDGLLFCKEDY 63
CA C I+ E + AL Q WH CF C+AC + N F +DG +C++DY
Sbjct: 1 CARCHKKIL-GEVMHALKQTWHVSCFVCAACKQPIGNSLFHMEDGEPYCEKDY 52
Score = 27.4 bits (61), Expect = 2.8
Identities = 16/47 (34%), Positives = 20/47 (42%), Gaps = 7/47 (14%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSCSCCIG-------DGESY 110
C C + + G VM +H CF C +C IG DGE Y
Sbjct: 1 CARCHKKILGEVMHALKQTWHVSCFVCAACKQPIGNSLFHMEDGEPY 47
>gnl|CDD|214570 smart00228, PDZ, Domain present in PSD-95, Dlg, and ZO-1/2. Also
called DHR (Dlg homologous region) or GLGF (relatively
well conserved tetrapeptide in these domains). Some PDZs
have been shown to bind C-terminal polypeptides; others
appear to bind internal (non-C-terminal) polypeptides.
Different PDZs possess different binding specificities.
Length = 85
Score = 44.3 bits (105), Expect = 8e-06
Identities = 15/39 (38%), Positives = 18/39 (46%)
Query: 288 ADLMSLHLGDRILEVNGTPVRDKPLQEVECLIRNTTDTV 326
A L +GD ILEVNGT V E L++ V
Sbjct: 39 AAKAGLRVGDVILEVNGTSVEGLTHLEAVDLLKKAGGKV 77
>gnl|CDD|188780 cd09394, LIM1_Rga, The first LIM domain of Rga GTPase-Activating
Proteins. The first LIM domain of Rga
GTPase-Activating Proteins: The members of this family
contain two tandem repeats of LIM domains and a
Rho-type GTPase activating protein (RhoGap) domain. Rga
activates GTPases during polarized morphogenesis. In
yeast, a known regulating target of Rga is CDC42p, a
small GTPase. The LIM domain is 50-60 amino acids in
size and shares two characteristic zinc finger motifs.
The two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately
bond to two zinc atoms. LIM domains function as
adaptors or scaffolds to support the assembly of
multimeric protein.
Length = 55
Score = 43.1 bits (102), Expect = 1e-05
Identities = 13/36 (36%), Positives = 16/36 (44%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLD 47
C GC +I E + WH CF+C CD L
Sbjct: 1 CVGCKESITEGHAYELGGDRWHIHCFKCYKCDKKLS 36
Score = 30.8 bits (70), Expect = 0.22
Identities = 10/32 (31%), Positives = 15/32 (46%), Gaps = 1/32 (3%)
Query: 71 CQNCGQMM-SGPVMVVGDHKFHPECFKCTSCS 101
C C + + G +G ++H CFKC C
Sbjct: 1 CVGCKESITEGHAYELGGDRWHIHCFKCYKCD 32
>gnl|CDD|188752 cd09366, LIM1_Isl, The first LIM domain of Isl, a member of LHX
protein family. The first LIM domain of Isl: Isl is a
member of LHX protein family, which features two tandem
N-terminal LIM domains and a C-terminal DNA binding
homeodomain. Isl1 and Isl2 are the two conserved
members of this family. Proteins in this group are
found in the nucleus and act as transcription factors
or cofactors. LHX proteins are critical for the
development of specialized cells in multiple tissue
types, including the nervous system, skeletal muscle,
the heart, the kidneys, and endocrine organs, such as
the pituitary gland and the pancreas. Isl-1 is one of
the LHX proteins isolated originally by virtue of its
ability to bind DNA sequences from the 5'-flanking
region of the rat insulin gene in pancreatic
insulin-producing cells. Mice deficient in Isl-1 fail
to form the dorsal exocrine pancreas and islet cells
fail to differentiate. On the other hand, Isl-1 takes
part in the pituitary development by activating the
gonadotropin-releasing hormone receptor gene together
with LHX3 and steroidogenic factor 1. Mouse Is l2 is
expressed in the retinal ganglion cells and the
developing spinal cord where it plays a role in motor
neuron development. Same as Isl1, Isl2 may also be able
to bind to the insulin gene enhancer to promote gene
activation. All LIM domains are 50-60 amino acids in
size and share two characteristic zinc finger motifs.
The two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately
bond to two zinc atoms. LIM domains function as
adaptors or scaffolds to support the assembly of
multimeric protein complexes.
Length = 55
Score = 42.7 bits (101), Expect = 1e-05
Identities = 21/56 (37%), Positives = 29/56 (51%), Gaps = 5/56 (8%)
Query: 12 CAGCLNNIVEDEYVQALSQ--EWHTDCFRCSACDVMLDN--WYFEKDGLLFCKEDY 63
C GC I D+Y+ ++ EWH C +C+ C LD F +DG +CK DY
Sbjct: 1 CVGCGGKI-HDQYILRVAPDLEWHAACLKCAECGQYLDETCTCFVRDGKTYCKRDY 55
Score = 30.4 bits (69), Expect = 0.31
Identities = 14/56 (25%), Positives = 21/56 (37%), Gaps = 3/56 (5%)
Query: 71 CQNCGQMMSGPVM--VVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYCGLCY 124
C CG + + V D ++H C KC C + + + V YC Y
Sbjct: 1 CVGCGGKIHDQYILRVAPDLEWHAACLKCAECGQYLDETCT-CFVRDGKTYCKRDY 55
>gnl|CDD|188790 cd09406, LIM1_Leupaxin, The first LIM domain of Leupaxin. The
first LIM domain of Leupaxin: Leupaxin is a
cytoskeleton adaptor protein, which is preferentially
expressed in hematopoietic cells. Leupaxin belongs to
the paxillin focal adhesion protein family. Same as
other members of the family, it has four leucine-rich
LD-motifs in the N-terminus and four LIM domains in the
C-terminus. It may function in cell type-specific
signaling by associating with interaction partners
PYK2, FAK, PEP and p95PKL. When expressed in human
leukocytic cells, leupaxin significantly suppressed
integrin-mediated cell adhesion to fibronectin and the
tyrosine phosphorylation of paxillin. These findings
indicate that leupaxin may negatively regulate the
functions of paxillin during integrin signaling. LIM
domains are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein complexes.
Length = 55
Score = 42.9 bits (101), Expect = 1e-05
Identities = 21/54 (38%), Positives = 30/54 (55%), Gaps = 2/54 (3%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNW-YFEKDGLLFCKEDYN 64
CA C I + V AL Q WH + F C C L + +FE++G +C+EDY+
Sbjct: 3 CASCQKPIA-GQVVTALGQTWHPEHFVCCQCGKELGSRPFFERNGQAYCEEDYH 55
Score = 29.1 bits (65), Expect = 0.98
Identities = 11/35 (31%), Positives = 18/35 (51%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSCSCCIG 105
C +C + ++G V+ +HPE F C C +G
Sbjct: 3 CASCQKPIAGQVVTALGQTWHPEHFVCCQCGKELG 37
>gnl|CDD|133186 cd05055, PTKc_PDGFR, Catalytic domain of the Protein Tyrosine
Kinases, Platelet Derived Growth Factor Receptors.
Protein Tyrosine Kinase (PTK) family; Platelet Derived
Growth Factor Receptor (PDGFR) subfamily; catalytic (c)
domain. The PDGFR subfamily consists of PDGFR alpha,
PDGFR beta, KIT, CSF-1R, the mammalian FLT3, 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.
PDGFR subfamily members are receptor tyr kinases (RTKs)
containing an extracellular ligand-binding region with
five immunoglobulin-like domains, a transmembrane
segment, and an intracellular catalytic domain. PDGFR
kinase domains are autoinhibited by their juxtamembrane
regions containing tyr residues. The binding to their
ligands leads to receptor dimerization, trans
phosphorylation and activation, and intracellular
signaling. PDGFR subfamily receptors are important in
the development of a variety of cells. PDGFRs are
expressed in a many cells including fibroblasts,
neurons, endometrial cells, mammary epithelial cells,
and vascular smooth muscle cells. PDGFR signaling is
critical in normal embryonic development, angiogenesis,
and wound healing. PDGFRs transduce mitogenic signals
for connective tissue cells and are important for cell
shape and motility. Kit is important in the development
of melanocytes, germ cells, mast cells, hematopoietic
stem cells, the interstitial cells of Cajal, and the
pacemaker cells of the GI tract. CSF-1R signaling is
critical in the regulation of macrophages and
osteoclasts. Mammalian FLT3 plays an important role in
the survival, proliferation, and differentiation of stem
cells.
Length = 302
Score = 47.5 bits (113), Expect = 1e-05
Identities = 41/172 (23%), Positives = 70/172 (40%), Gaps = 37/172 (21%)
Query: 477 FRASDLVRGPLLGQGFFGQVYRVTHRETGE--------VMVLKELYRVDEEAEKNFLKES 528
F ++L G LG G FG+V T + V +LK E
Sbjct: 32 FPRNNLSFGKTLGAGAFGKVVEATAYGLSKSDAVMKVAVKMLKPTAHSSE---------- 81
Query: 529 KQGLIYLIDLGSHGLINNLHCFSQVAVLRSL-HHHNVIRFIGVLYKDRKLNLVTEYIAGG 587
++ L+ S++ ++ L +H N++ +G + ++TEY G
Sbjct: 82 REALM-----------------SELKIMSHLGNHENIVNLLGACTIGGPILVITEYCCYG 124
Query: 588 TLKELLQDPGQP-LPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
L L+ + L ++F+ +A GM +L S N IHRDL ++N L+
Sbjct: 125 DLLNFLRRKRESFLTLEDLLSFSYQVAKGMAFLASKNCIHRDLAARNVLLTH 176
>gnl|CDD|188723 cd09337, LIM2_Paxillin_like, The second LIM domain of the
paxillin like protein family. The second LIM domain of
the paxillin like protein family: This family consists
of paxillin, leupaxin, Hic-5 (ARA55), and other related
proteins. There are four LIM domains in the C-terminal
of the proteins and leucine-rich LD-motifs in the
N-terminal region. Members of this family are adaptor
proteins to recruit key components of
signal-transduction machinery to specific sub-cellular
locations. Paxillin is found at the interface between
the plasma membrane and the actin cytoskeleton.
Paxillin serves as a platform for the recruitment of
numerous regulatory and structural proteins that
together control the dynamic changes in cell adhesion,
cytoskeletal reorganization and gene expression that
are necessary for cell migration and survival. Leupaxin
is a cytoskeleton adaptor protein, which is
preferentially expressed in hematopoietic cells. It
associates with focal adhesion kinases PYK2 and
pp125FAK and identified to be a component of the
osteoclast pososomal signaling complex. Hic-5 controls
cell proliferation, migration and senescence by
functioning as coactivator for steroid receptors such
as androgen receptor, glucocorticoid receptor and
progesterone receptor. LIM domains are 50-60 amino
acids in size and share two characteristic zinc finger
motifs. The two zinc fingers contain eight conserved
residues, mostly cysteines and histidines, which
coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 52
Score = 42.4 bits (100), Expect = 1e-05
Identities = 22/53 (41%), Positives = 30/53 (56%), Gaps = 2/53 (3%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVML-DNWYFEKDGLLFCKEDY 63
CA C N + D+ V AL + WH + F C+ C D + EKDG +C+EDY
Sbjct: 1 CAYC-NGPILDKCVTALDKTWHPEHFFCAQCGKPFGDEGFHEKDGKPYCREDY 52
Score = 27.0 bits (60), Expect = 4.8
Identities = 11/36 (30%), Positives = 14/36 (38%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSCSCCIGD 106
C C + + D +HPE F C C GD
Sbjct: 1 CAYCNGPILDKCVTALDKTWHPEHFFCAQCGKPFGD 36
>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 = 47.3 bits (113), Expect = 1e-05
Identities = 39/162 (24%), Positives = 61/162 (37%), Gaps = 42/162 (25%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+G G +GQV +TG + +K+L R + A K +
Sbjct: 23 VGSGAYGQVCSAFDTKTGRKVAIKKLSRPFQSAI--HAKRT------------------- 61
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLN------LVTEYIA---GGTLK-ELLQDPG 597
+ ++ +L+ + H NVI + V L LVT + +K + L D
Sbjct: 62 --YRELRLLKHMDHENVIGLLDVFTPASSLEDFQDVYLVTHLMGADLNNIVKCQKLSD-- 117
Query: 598 QPLPWGQRVNF-ARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
+ F I G+ Y+HS +IHRDL N V E
Sbjct: 118 ------DHIQFLVYQILRGLKYIHSAGIIHRDLKPSNIAVNE 153
>gnl|CDD|173661 cd05570, STKc_PKC, Catalytic domain of the Protein Serine/Threonine
Kinase, Protein Kinase C. Serine/Threonine Kinases
(STKs), Protein Kinase C (PKC) subfamily, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The PKC 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. PKCs are
classified into three groups (classical, atypical, and
novel) depending on their mode of activation and the
structural characteristics of their regulatory domain.
PKCs undergo three phosphorylations in order to take
mature forms. In addition, classical PKCs depend on
calcium, DAG (1,2-diacylglycerol), and in most cases,
phosphatidylserine (PS) for activation. Novel PKCs are
calcium-independent, but require DAG and PS for
activity, while atypical PKCs only require PS. PKCs
phosphorylate and modify the activities of a wide
variety of cellular proteins including receptors,
enzymes, cytoskeletal proteins, transcription factors,
and other kinases. They play a central role in signal
transduction pathways that regulate cell migration and
polarity, proliferation, differentiation, and apoptosis.
Also included in this subfamily are the PKC-like
proteins, called PKNs.
Length = 318
Score = 47.4 bits (113), Expect = 1e-05
Identities = 40/152 (26%), Positives = 64/152 (42%), Gaps = 28/152 (18%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYR---VDEEAEKNFLKESKQGLIYLIDLGSHGL 543
+LG+G FG+V + T E+ +K L + + ++ + + E + L G H
Sbjct: 2 VLGKGSFGKVLLAELKGTDELYAVKVLKKDVILQDDDVECTMTEKR----VLALAGKHPF 57
Query: 544 INNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWG 603
+ LH Q KDR L V EY+ GG L +Q G+
Sbjct: 58 LTQLHSCFQT-------------------KDR-LFFVMEYVNGGDLMFHIQRSGR-FDEP 96
Query: 604 QRVNFARDIAAGMTYLHSMNLIHRDLNSQNCL 635
+ +A +I G+ +LH +I+RDL N L
Sbjct: 97 RARFYAAEIVLGLQFLHERGIIYRDLKLDNVL 128
>gnl|CDD|188747 cd09361, LIM1_Enigma_like, The first LIM domain of Enigma-like
family. The first LIM domain of Enigma-like family:
The Enigma LIM domain family is comprised of three
members: Enigma, ENH, and Cypher (mouse)/ZASP (human).
These subfamily members contain a single PDZ domain at
the N-terminus and three LIM domains at the C-terminus.
Enigma was initially characterized in humans and is
expressed in multiple tissues, such as skeletal muscle,
heart, bone, and brain. The third LIM domain
specifically interacts with the insulin receptor and
the second LIM domain interacts with the receptor
tyrosine kinase Ret and the adaptor protein APS. Thus
Enigma is implicated in signal transduction processes,
such as mitogenic activity, insulin related actin
organization, and glucose metabolism. The second
member, ENH protein, was first identified in rat brain.
It has been shown that ENH interacts with protein
kinase D1 (PKD1) via its LIM domains and forms a
complex with PKD1 and the alpha1C subunit of cardiac
L-type voltage-gated calcium channel in rat neonatal
cardiomyocytes. The N-terminal PDZ domain interacts
with alpha-actinin at the Z-line. ZASP/Cypher is
required for maintenance of Z-line structure during
muscle contraction, but not required for Z-line
assembly. In heart, Cypher/ZASP plays a structural role
through its interaction with cytoskeletal Z-line
proteins. In addition, there is increasing evidence
that Cypher/ZASP also performs signaling functions.
Studies reveal that Cypher/ZASP interacts with and
directs PKC to the Z-line, where PKC phosphorylates
downstream signaling targets. LIM domains are 50-60
amino acids in size and share two characteristic zinc
finger motifs. The two zinc fingers contain eight
conserved residues, mostly cysteines and histidines,
which coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 52
Score = 42.3 bits (100), Expect = 1e-05
Identities = 18/53 (33%), Positives = 29/53 (54%), Gaps = 2/53 (3%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVML-DNWYFEKDGLLFCKEDY 63
CA C N ++ ++ AL + WH + F CS C L + + E+ G L+C+ Y
Sbjct: 1 CAHC-NQVIRGPFLVALGRSWHPEEFTCSHCHCSLAEIGFVEEKGSLYCELCY 52
Score = 40.8 bits (96), Expect = 6e-05
Identities = 21/55 (38%), Positives = 30/55 (54%), Gaps = 4/55 (7%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSCSCCIGDGESYALV-ERSILYCGLCY 124
C +C Q++ GP +V +HPE F C+ C C + + V E+ LYC LCY
Sbjct: 1 CAHCNQVIRGPFLVALGRSWHPEEFTCSHCHCSLAEI---GFVEEKGSLYCELCY 52
>gnl|CDD|188756 cd09370, LIM1_Lmx1a, The first LIM domain of Lmx1a. The first
LIM domain of Lmx1a: Lmx1a belongs to the LHX protein
family, which features two tandem N-terminal LIM
domains and a C-terminal DNA binding homeodomain.
Members of LHX family are found in the nucleus and act
as transcription factors or cofactors. LHX proteins are
critical for the development of specialized cells in
multiple tissue types, including the nervous system,
skeletal muscle, the heart, the kidneys, and endocrine
organs, such as the pituitary gland and the pancreas.
Mouse Lmx1a is expressed in multiple tissues, including
the roof plate of the neural tube, the developing
brain, the otic vesicles, the notochord, and the
pancreas. Human Lmx1a can be found in pancreas,
skeletal muscle, adipose tissue, developing brain,
mammary glands, and pituitary. The functions of Lmx1a
in the developing nervous system were revealed by
studies of mutant mouse. In mouse, mutations in Lmx1a
result in failure of the roof plate to develop. Lmx1a
may act upstream of other roof plate markers such as
MafB, Gdf7, Bmp 6, and Bmp7. Further characterization
of these mice reveals numerous defects including
disorganized cerebellum, hippocampus, and cortex;
altered pigmentation; female sterility; skeletal
defects; and behavioral abnormalities. Within
pancreatic cells, the Lmx1a protein interacts
synergistically with the bHLH transcription factor E47
to activate the insulin gene enhancer/promoter. As in
other LIM domains, this domain family is 50-60 amino
acids in size and shares two characteristic zinc finger
motifs. The two zinc fingers contain eight conserved
residues, mostly cysteines and histidines, which
coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein.
Length = 52
Score = 42.4 bits (100), Expect = 2e-05
Identities = 19/53 (35%), Positives = 32/53 (60%), Gaps = 2/53 (3%)
Query: 12 CAGCLNNIVEDEYVQALSQE-WHTDCFRCSACDVMLDNWYFEKDGLLFCKEDY 63
C GC N +++D ++ ++ WH C +C++C L+ F +D L+CKEDY
Sbjct: 1 CEGC-NRVIQDRFLLRVNDSLWHERCLQCASCKEPLETTCFYRDKKLYCKEDY 52
>gnl|CDD|188749 cd09363, LIM3_Enigma_like, The third LIM domain of Enigma-like
family. The third LIM domain of Enigma-like family:
The Enigma LIM domain family is comprised of three
members: Enigma, ENH, and Cypher (mouse)/ZASP (human).
These subfamily members contain a single PDZ domain at
the N-terminus and three LIM domains at the C-terminus.
Enigma was initially characterized in humans and is
expressed in multiple tissues, such as skeletal muscle,
heart, bone, and brain. The third LIM domain
specifically interacts with the insulin receptor and
the second LIM domain interacts with the receptor
tyrosine kinase Ret and the adaptor protein APS. Thus
Enigma is implicated in signal transduction processes,
such as mitogenic activity, insulin related actin
organization, and glucose metabolism. The second
member, ENH protein, was first identified in rat brain.
It has been shown that ENH interacts with protein
kinase D1 (PKD1) via its LIM domains and forms a
complex with PKD1 and the alpha1C subunit of cardiac
L-type voltage-gated calcium channel in rat neonatal
cardiomyocytes. The N-terminal PDZ domain interacts
with alpha-actinin at the Z-line. ZASP/Cypher is
required for maintenance of Z-line structure during
muscle contraction, but not required for Z-line
assembly. In heart, Cypher/ZASP plays a structural role
through its interaction with cytoskeletal Z-line
proteins. In addition, there is increasing evidence
that Cypher/ZASP also performs signaling functions.
Studies reveal that Cypher/ZASP interacts with and
directs PKC to the Z-line, where PKC phosphorylates
downstream signaling targets. LIM domains are 50-60
amino acids in size and share two characteristic zinc
finger motifs. The two zinc fingers contain eight
conserved residues, mostly cysteines and histidines,
which coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 54
Score = 42.4 bits (100), Expect = 2e-05
Identities = 18/51 (35%), Positives = 25/51 (49%), Gaps = 2/51 (3%)
Query: 12 CAGCLNNI-VEDEYVQALSQEWHTDCFRCSACDVMLDNW-YFEKDGLLFCK 60
C GC I D +++AL WH CF C+ C V L+ ++ K CK
Sbjct: 1 CHGCDFPIEAGDRFLEALGHTWHDTCFVCAVCHVNLEGQTFYSKKDKPLCK 51
>gnl|CDD|188760 cd09374, LIM2_Isl, The second LIM domain of Isl, a member of LHX
protein family. The second LIM domain of Isl: Isl is a
member of LHX protein family, which features two tandem
N-terminal LIM domains and a C-terminal DNA binding
homeodomain. Isl1 and Isl2 are the two conserved
members of this family. Proteins in this group are
found in the nucleus and act as transcription factors
or cofactors. LHX proteins are critical for the
development of specialized cells in multiple tissue
types, including the nervous system, skeletal muscle,
the heart, the kidneys, and endocrine organs, such as
the pituitary gland and the pancreas. Isl-1 is one of
the LHX proteins isolated originally by virtue of its
ability to bind DNA sequences from the 5'-flanking
region of the rat insulin gene in pancreatic
insulin-producing cells. Mice deficient in Isl-1 fail
to form the dorsal exocrine pancreas and islet cells
fail to differentiate. On the other hand, Isl-1 takes
part in the pituitary development by activating the
gonadotropin-releasing hormone receptor gene together
with LHX3 and steroidogenic factor 1. Mouse Isl2 is
expressed in the retinal ganglion cells and the
developing spinal cord where it plays a role in motor
neuron development. Same as Isl1, Isl2 may also be able
to bind to the insulin gene enhancer to promote gene
activation. All LIM domains are 50-60 amino acids in
size and share two characteristic zinc finger motifs.
The two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately
bond to two zinc atoms. LIM domains function as
adaptors or scaffolds to support the assembly of
multimeric protein complexes.
Length = 55
Score = 42.4 bits (100), Expect = 2e-05
Identities = 22/56 (39%), Positives = 34/56 (60%), Gaps = 5/56 (8%)
Query: 12 CAGCLNNIVEDEYV-QALSQEWHTDCFRCSACDVML---DNWYFEKDGLLFCKEDY 63
CA C + ++++V +A ++ +H +CFRCSAC L D + DG LFCK D+
Sbjct: 1 CAKCQQSFSKNDFVMRARTKIYHIECFRCSACSRQLIPGDEFALRDDG-LFCKADH 55
Score = 37.0 bits (86), Expect = 0.001
Identities = 18/53 (33%), Positives = 27/53 (50%), Gaps = 3/53 (5%)
Query: 71 CQNCGQMMSGP--VMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYCG 121
C C Q S VM +H ECF+C++CS + G+ +AL + L+C
Sbjct: 1 CAKCQQSFSKNDFVMRARTKIYHIECFRCSACSRQLIPGDEFALRDDG-LFCK 52
>gnl|CDD|173691 cd05600, STKc_Sid2p_Dbf2p, Catalytic domain of Fungal Sid2p- and
Dbf2p-like Protein Serine/Threonine Kinases.
Serine/Threonine Kinases (STKs), ROCK- and NDR-like
subfamily, fungal Sid2p- and Dbf2p-like proteins,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The Sid2p- and
Dbf2p-like group 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 group contains fungal kinases including
Schizosaccharomyces pombe Sid2p and Saccharomyces
cerevisiae Dbf2p. Group members show similarity to NDR
kinases in that they contain an N-terminal regulatory
(NTR) domain and an insert within the catalytic domain
that contains an auto-inhibitory sequence. Sid2p plays a
crucial role in the septum initiation network (SIN) and
in the initiation of cytokinesis. Dbf2p is important in
regulating the mitotic exit network (MEN) and in
cytokinesis.
Length = 333
Score = 47.0 bits (112), Expect = 2e-05
Identities = 40/157 (25%), Positives = 68/157 (43%), Gaps = 31/157 (19%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+GQG +GQV+ ++TGE++ LK + K+ L++ ++ H L
Sbjct: 9 VGQGGYGQVFLAKKKDTGEIVALKRM---------------KKSLLFKLNEVRHVL---- 49
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
++ +L + +++ + D L L EY+ GG + LL + G +
Sbjct: 50 ---TERDILTTTKSEWLVKLLYAFQDDEYLYLAMEYVPGGDFRTLLNNLGV-----LSED 101
Query: 608 FARDIAAGM----TYLHSMNLIHRDLNSQNCLVREVG 640
AR A M LH + IHRDL +N L+ G
Sbjct: 102 HARFYMAEMFEAVDALHELGYIHRDLKPENFLIDASG 138
>gnl|CDD|188778 cd09392, LIM2_Lrg1p_like, The second LIM domain of Lrg1p, a LIM
and RhoGap domain containing protein. The second LIM
domain of Lrg1p, a LIM and RhoGap domain containing
protein: The members of this family contain three
tandem repeats of LIM domains and a Rho-type GTPase
activating protein (RhoGap) domain. Lrg1p is a Rho1
GTPase-activating protein required for efficient cell
fusion in yeast. Lrg1p-GAP domain strongly and
specifically stimulates the GTPase activity of Rho1p, a
regulator of beta (1-3)-glucan synthase in vitro. The
LIM domain is 50-60 amino acids in size and shares two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein.
Length = 53
Score = 42.3 bits (100), Expect = 2e-05
Identities = 15/54 (27%), Positives = 28/54 (51%), Gaps = 3/54 (5%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVML--DNWYFEKDGLLFCKEDY 63
C C + Y+ AL +++H + F CS C + ++ Y+E +G ++C Y
Sbjct: 1 CFKC-GGALRGSYITALGRKYHVEHFTCSVCPTVFGPNDSYYEHEGKIYCHYHY 53
Score = 40.4 bits (95), Expect = 7e-05
Identities = 17/50 (34%), Positives = 22/50 (44%), Gaps = 1/50 (2%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYC 120
C CG + G + K+H E F C+ C G +SY E I YC
Sbjct: 1 CFKCGGALRGSYITALGRKYHVEHFTCSVCPTVFGPNDSYYEHEGKI-YC 49
>gnl|CDD|173693 cd05602, STKc_SGK1, Catalytic domain of the Protein
Serine/Threonine Kinase, Serum- and
Glucocorticoid-induced Kinase 1. Serine/Threonine
Kinases (STKs), Serum- and Glucocorticoid-induced Kinase
(SGK) subfamily, SGK1 isoform, catalytic (c) domain.
STKs catalyze the transfer of the gamma-phosphoryl group
from ATP to serine/threonine residues on protein
substrates. The SGK 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. There are three isoforms of
SGK, named SGK1, SGK2, and SGK3. SGK1 is ubiquitously
expressed and is under transcriptional control of
numerous stimuli including cell stress (cell shrinkage),
serum, hormones (gluco- and mineralocorticoids),
gonadotropins, growth factors, interleukin-6, and other
cytokines. It plays roles in sodium retention and
potassium elimination in the kidney, nutrient transport,
salt sensitivity, memory consolidation, and cardiac
repolarization. A common SGK1 variant is associated with
increased blood pressure and body weight. SGK1 may also
contribute to tumor growth, neurodegeneration, fibrosing
disease, and ischemia.
Length = 325
Score = 46.9 bits (111), Expect = 2e-05
Identities = 42/155 (27%), Positives = 70/155 (45%), Gaps = 24/155 (15%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
++G+G FG+V H+ ++ Y V +K LK+ ++
Sbjct: 2 VIGKGSFGKVLLARHKAE------EKFYAVKVLQKKAILKKKEEK--------------- 40
Query: 547 LHCFSQVAVL-RSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQR 605
H S+ VL +++ H ++ KL V +YI GG L LQ L R
Sbjct: 41 -HIMSERNVLLKNVKHPFLVGLHFSFQTADKLYFVLDYINGGELFYHLQRERCFLEPRAR 99
Query: 606 VNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
+A +IA+ + YLHS+N+++RDL +N L+ G
Sbjct: 100 F-YAAEIASALGYLHSLNIVYRDLKPENILLDSQG 133
>gnl|CDD|173646 cd05087, PTKc_Aatyk1_Aatyk3, Catalytic domain of the Protein
Tyrosine Kinases, Apoptosis-associated tyrosine kinases
1 and 3. Protein Tyrosine Kinase (PTK) family;
Apoptosis-associated tyrosine kinase 1 (Aatyk1) and
Aatyk3; catalytic (c) domain. 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. Aatyk1 and Aatyk3 are
members of the Aatyk subfamily of proteins. Aatyk3 is a
receptor kinase containing a transmembrane segment and a
long C-terminal cytoplasmic tail with a catalytic
domain. Aatyk1 has a similar domain arrangement but
without the transmembrane segment and is thus, a
cytoplasmic (or nonreceptor) kinase. The expression of
Aatyk1 (also referred simply as Aatyk) is upregulated
during growth arrest and apoptosis in myeloid cells.
Aatyk1 has been implicated in neural differentiation,
and is a regulator of the Na-K-2Cl cotransporter, a
membrane protein involved in cell proliferation and
survival, epithelial transport, and blood pressure
control. The function of Aatyk3 is still unknown.
Length = 269
Score = 46.5 bits (110), Expect = 2e-05
Identities = 32/103 (31%), Positives = 49/103 (47%), Gaps = 8/103 (7%)
Query: 540 SHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQ----- 594
S + + + RSL H N+++ +G + LV E+ G LK L+
Sbjct: 33 SASVQEQMKFLEEAQPYRSLQHSNLLQCLGQCTEVTPYLLVMEFCPLGDLKGYLRSCRKA 92
Query: 595 DPGQPLPWG-QRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
+ P P QR+ A +IA G+ +LH N IH DL +NCL+
Sbjct: 93 ELMTPDPTTLQRM--ACEIALGLLHLHKNNFIHSDLALRNCLL 133
>gnl|CDD|133240 cd05109, PTKc_HER2, Catalytic domain of the Protein Tyrosine
Kinase, HER2. Protein Tyrosine Kinase (PTK) family;
HER2 (ErbB2, HER2/neu); catalytic (c) domain. 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. HER2 is a
member of the EGFR (HER, ErbB) subfamily of proteins,
which are receptor tyr kinases (RTKs) containing an
extracellular EGF-related ligand-binding region, a
transmembrane helix, and a cytoplasmic region with a tyr
kinase domain and a regulatory C-terminal tail. Unlike
other tyr kinases, phosphorylation of the activation
loop of EGFR proteins is not critical to their
activation. Instead, they are activated by
ligand-induced dimerization, leading to the
phosphorylation of tyr residues in the C-terminal tail,
which serve as binding sites for downstream signaling
molecules. HER2 does not bind to any known EGFR
subfamily ligands, but contributes to the kinase
activity of all possible heterodimers. It acts as the
preferred partner with other ligand-bound EGFR proteins
and functions as a signal amplifier, with the HER2-HER3
heterodimer being the most potent pair in mitogenic
signaling. HER2 plays an important role in cell
development, proliferation, survival and motility.
Overexpression of HER2 results in its activation and
downstream signaling, even in the absence of ligand.
HER2 overexpression, mainly due to gene amplification,
has been shown in a variety of human cancers. Its role
in breast cancer is especially well-documented. HER2 is
up-regulated in about 25% of breast tumors and is
associated with increases in tumor aggressiveness,
recurrence and mortality. HER2 is a target for
monoclonal antibodies and small molecule inhibitors,
which are being developed as treatments for cancer. The
first humanized antibody approved for clinical use is
Trastuzumab (Herceptin), which is being used in
combination with other therapies to improve the survival
rates of patients with HER2-overexpressing breast
cancer.
Length = 279
Score = 46.5 bits (110), Expect = 2e-05
Identities = 43/170 (25%), Positives = 73/170 (42%), Gaps = 35/170 (20%)
Query: 475 RIFRASDLVRGPLLGQGFFGQVYRVTHRETGE-------VMVLKELYRVDEEAEKNFLKE 527
RI + ++L + +LG G FG VY+ GE + VL+E +A K L E
Sbjct: 2 RILKETELKKVKVLGSGAFGTVYKGIWIPDGENVKIPVAIKVLRE--NTSPKANKEILDE 59
Query: 528 SKQGLIYLIDLGSHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGG 587
+ V+ + V R +G+ + LVT+ + G
Sbjct: 60 A-------------------------YVMAGVGSPYVCRLLGICLTS-TVQLVTQLMPYG 93
Query: 588 TLKELLQDPGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVR 637
L + +++ + +N+ IA GM+YL + L+HRDL ++N LV+
Sbjct: 94 CLLDYVRENKDRIGSQDLLNWCVQIAKGMSYLEEVRLVHRDLAARNVLVK 143
>gnl|CDD|132951 cd06620, PKc_MAPKK_Byr1_like, Catalytic domain of fungal Byr1-like
dual-specificity MAP kinase kinases. Protein kinases
(PKs), MAP kinase kinase (MAPKK) subfamily, fungal
Byr1-like proteins, catalytic (c) domain. PKs catalyze
the transfer of the gamma-phosphoryl group from ATP to
serine/threonine or tyrosine residues on protein
substrates. The MAPKK subfamily is part of a larger
superfamily that includes the catalytic domains of other
protein serine/threonine kinases, protein tyrosine
kinases, RIO kinases, aminoglycoside phosphotransferase,
choline kinase, and phosphoinositide 3-kinase. The
mitogen-activated protein (MAP) kinase signaling
pathways are important mediators of cellular responses
to extracellular signals. The pathways involve a triple
kinase core cascade comprising of the MAP kinase (MAPK),
which is phosphorylated and activated by a MAPK kinase
(MAPKK or MKK), which itself is phosphorylated and
activated by a MAPK kinase kinase (MAPKKK or MKKK).
Members of this group include the MAPKKs Byr1 from
Schizosaccharomyces pombe, FUZ7 from Ustilago maydis,
and related proteins. Byr1 phosphorylates its downstream
target, the MAPK Spk1, and is regulated by the MAPKKK
Byr2. The Spk1 cascade is pheromone-responsive and is
essential for sporulation and sexual differentiation in
fission yeast. FUZ7 phosphorylates and activates its
target, the MAPK Crk1, which is required in mating and
virulence in U. maydis.
Length = 284
Score = 46.3 bits (110), Expect = 3e-05
Identities = 40/168 (23%), Positives = 66/168 (39%), Gaps = 34/168 (20%)
Query: 478 RASDLVRGPLLGQGFFGQVYRVTHRETGEVMVLKELY-RVDEEAEKNFLKESKQGLIYLI 536
R DL LG G G V +V H TG VM K ++ K L+E
Sbjct: 3 RNEDLETISDLGAGNGGSVSKVKHIPTGTVMAKKVVHIGAKSSVRKQILRE--------- 53
Query: 537 DLGSHGLINNLHCFSQVAVLRSLHHHN---VIRFIGVLYKDRKLNLVTEYIAGGTLKELL 593
L+ +H ++ F G + + + E++ G+L +
Sbjct: 54 -------------------LQIMHECRSPYIVSFYGAFLNENNICMCMEFMDCGSLDRIY 94
Query: 594 QDPGQPLPWGQRVNFARDIAAGMTYLHSMN-LIHRDLNSQNCLVREVG 640
+ G P+P A + G+TYL++++ ++HRD+ N LV G
Sbjct: 95 KKGG-PIPVEILGKIAVAVVEGLTYLYNVHRIMHRDIKPSNILVNSRG 141
>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 = 46.4 bits (110), Expect = 3e-05
Identities = 27/92 (29%), Positives = 43/92 (46%), Gaps = 4/92 (4%)
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRK-LNLVTEYIAGGTLKELLQDPGQPLPWGQRV 606
+ ++ +L+ L H N+I + + + VTE + G L LL +PL
Sbjct: 55 RTYRELKLLKHLRHENIISLSDIFISPLEDIYFVTE-LLGTDLHRLLT--SRPLEKQFIQ 111
Query: 607 NFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
F I G+ Y+HS ++HRDL N L+ E
Sbjct: 112 YFLYQILRGLKYVHSAGVVHRDLKPSNILINE 143
>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 = 46.2 bits (109), Expect = 3e-05
Identities = 37/159 (23%), Positives = 73/159 (45%), Gaps = 31/159 (19%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELY---RVDEEAEKNFLKESKQGLIYLIDLGSHGLI 544
+G+G F +VYR T + + LK++ +D +A ++ +KE IDL
Sbjct: 10 IGRGQFSEVYRATCLLDRKPVALKKVQIFEMMDAKARQDCVKE--------IDL------ 55
Query: 545 NNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELL---QDPGQPLP 601
L+ L+H NVI+++ +D +LN+V E G L +++ + + +P
Sbjct: 56 -----------LKQLNHPNVIKYLDSFIEDNELNIVLELADAGDLSQMIKYFKKQKRLIP 104
Query: 602 WGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
+ + + + ++HS ++HRD+ N + G
Sbjct: 105 ERTVWKYFVQLCSAVEHMHSRRVMHRDIKPANVFITATG 143
>gnl|CDD|188762 cd09376, LIM2_Lhx3_Lhx4, The second LIM domain of Lhx3-Lhx4
family. The second LIM domain of Lhx3-Lhx4 family:
Lhx3 and Lhx4 belong to the LHX protein family, which
features two tandem N-terminal LIM domains and a
C-terminal DNA binding homeodomain. Members of LHX
family are found in the nucleus and act as
transcription factors or cofactors. LHX proteins are
critical for the development of specialized cells in
multiple tissue types, including the nervous system,
skeletal muscle, the heart, the kidneys, and endocrine
organs, such as the pituitary gland and the pancreas.
The LHX3 and LHX4 LIM-homeodomain transcription factors
play essential roles in pituitary gland and nervous
system development. Although LHX3 and LHX4 share marked
sequence homology, the genes have different expression
patterns. They play overlapping, but distinct functions
during the establishment of the specialized cells of
the mammalian pituitary gland and the nervous system.
Lhx3 proteins have been demonstrated the ability to
directly bind to the promoters/enhancers of several
pituitary hormone gene promoters to cause increased
transcription.Lhx3a and Lhx3b, whose mRNAs have
distinct temporal expression profiles during
development, are two isoforms of Lhx3. LHX4 plays
essential roles in pituitary gland and nervous system
development. In mice, the lhx4 gene is expressed in the
developing hindbrain, cerebral cortex, pituitary gland,
and spinal cord. LHX4 shows significant sequence
similarity to LHX3, particularly to isoforms Lhx3a. In
gene regulation experiments, the LHX4 protein exhibits
regulation roles towards pituitary genes, acting on
their promoters/enhancers. As in other LIM domains,
this domain family is 50-60 amino acids in size and
shares two characteristic zinc finger motifs. The two
zinc fingers contain eight conserved residues, mostly
cysteines and histidines, which coordinately bond to
two zinc atoms. LIM domains function as adaptors or
scaffolds to support the assembly of multimeric
protein.
Length = 56
Score = 41.6 bits (98), Expect = 3e-05
Identities = 21/56 (37%), Positives = 28/56 (50%), Gaps = 4/56 (7%)
Query: 12 CAGCLNNIVEDEYVQ-ALSQEWHTDCFRCSACDVML---DNWYFEKDGLLFCKEDY 63
CAGC I + V+ A +H +CF C C L D +Y +D L CK+DY
Sbjct: 1 CAGCDEGIPPTQVVRRAQDNVYHLECFACFMCKRQLETGDEFYLMEDDRLVCKKDY 56
Score = 35.0 bits (81), Expect = 0.008
Identities = 17/53 (32%), Positives = 25/53 (47%), Gaps = 4/53 (7%)
Query: 71 CQNCGQMMSGPVMVV---GDHKFHPECFKCTSCSCCIGDGESYALVERSILYC 120
C C + + P VV D+ +H ECF C C + G+ + L+E L C
Sbjct: 1 CAGCDEGIP-PTQVVRRAQDNVYHLECFACFMCKRQLETGDEFYLMEDDRLVC 52
>gnl|CDD|173706 cd05615, STKc_cPKC_alpha, Catalytic domain of the Protein
Serine/Threonine Kinase, Classical Protein Kinase C
alpha. Serine/Threonine Kinases (STKs), Classical
Protein Kinase C (cPKC) subfamily, alpha isoform,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The cPKC 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. PKCs are
classified into three groups (classical, atypical, and
novel) depending on their mode of activation and the
structural characteristics of their regulatory domain.
PKCs undergo three phosphorylations in order to take
mature forms. In addition, cPKCs depend on calcium, DAG
(1,2-diacylglycerol), and in most cases,
phosphatidylserine (PS) for activation. There are four
cPKC isoforms, named alpha, betaI, betaII, and gamma.
PKC-alpha is expressed in many tissues and is associated
with cell proliferation, apoptosis, and cell motility.
It plays a role in the signaling of the growth factors
PDGF, VEGF, EGF, and FGF. Abnormal levels of PKC-alpha
have been detected in many transformed cell lines and
several human tumors. In addition, PKC-alpha is required
for HER2 dependent breast cancer invasion.
Length = 323
Score = 46.1 bits (109), Expect = 3e-05
Identities = 42/159 (26%), Positives = 67/159 (42%), Gaps = 32/159 (20%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYR----VDEEAEKNFLKESKQGLIYLIDLGSHG 542
+LG+G FG+V + T E+ +K L + D++ E +++ L
Sbjct: 7 VLGKGSFGKVMLAERKGTDELYAIKILKKDVVIQDDDVECTMVEKR-----VLALQDKPP 61
Query: 543 LINNLH-CFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLP 601
+ LH CF V DR L V EY+ GG L +Q G+
Sbjct: 62 FLTQLHSCFQTV--------------------DR-LYFVMEYVNGGDLMYHIQQVGK-FK 99
Query: 602 WGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
Q V +A +I+ G+ +LH +I+RDL N ++ G
Sbjct: 100 EPQAVFYAAEISVGLFFLHRRGIIYRDLKLDNVMLDSEG 138
>gnl|CDD|188713 cd09327, LIM1_abLIM, The first LIM domain of actin binding LIM
(abLIM) proteins. The first LIM domain of actin binding
LIM (abLIM) proteins: Three homologous members of the
abLIM protein family have been identified; abLIM-1,
abLIM-2 and abLIM-3. The N-terminal of abLIM consists of
four tandem repeats of LIM domains and the C-terminal of
acting binding LIM protein is a villin headpiece domain,
which has strong actin binding activity. The abLIM-1,
which is expressed in retina, brain, and muscle tissue,
has been indicated to function as a tumor suppressor.
AbLIM-2 and -3, mainly expressed in muscle and neuronal
tissue, bind to F-actin strongly. They may serve as a
scaffold for signaling modules of the actin cytoskeleton
and thereby modulate transcription. It has shown that
LIM domains of abLIMs interact with STARS (striated
muscle activator of Rho signaling), which directly binds
actin and stimulates serum-response factor
(SRF)-dependent transcription. All LIM domains are 50-60
amino acids in size and share two characteristic highly
conserved zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to support
the assembly of multimeric protein complexes.
Length = 52
Score = 41.1 bits (97), Expect = 4e-05
Identities = 17/50 (34%), Positives = 23/50 (46%), Gaps = 2/50 (4%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYC 120
C CG+ G V+ V D FH +CF C C C + + V+ YC
Sbjct: 1 CYKCGKKCKGEVLRVQDKYFHIKCFTCKVCGCDL--AQGGFFVKEGEYYC 48
Score = 34.9 bits (81), Expect = 0.007
Identities = 13/42 (30%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 23 EYVQALSQEWHTDCFRCSACDVMLDN-WYFEKDGLLFCKEDY 63
E ++ + +H CF C C L +F K+G +C +DY
Sbjct: 11 EVLRVQDKYFHIKCFTCKVCGCDLAQGGFFVKEGEYYCTDDY 52
>gnl|CDD|188785 cd09401, LIM_TLP_like, The LIM domains of thymus LIM protein
(TLP). The LIM domain of thymus LIM protein (TLP) like
proteins: This family includes the LIM domains of TLP
and CRIP (Cysteine-Rich Intestinal Protein). TLP is the
distant member of the CRP family of proteins. TLP has
two isomers (TLP-A and TLP-B) and sharing approximately
30% with each of the three other CRPs. Like CRP1, CRP2
and CRP3/MLP, TLP has two LIM domains, connected by a
flexible linker region. Unlike the CRPs, TLP lacks the
nuclear targeting signal (K/R-K/R-Y-G-P-K) and is
localized solely in the cytoplasm. TLP is specifically
expressed in the thymus in a subset of cortical
epithelial cells. TLP has a role in development of
normal thymus and in controlling the development and
differentiation of thymic epithelial cells. CRIP is a
short LIM protein with only one LIM domain. CRIP gene
is developmentally regulated and can be induced by
glucocorticoid hormones during the first three
postnatal weeks. The domain shows close sequence
homology to LIM domain of thymus LIM protein. However,
unlike the TLP proteins which have two LIM domains, the
members of this family have only one LIM domain. LIM
domains are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein complexes.
Length = 53
Score = 41.2 bits (97), Expect = 4e-05
Identities = 15/53 (28%), Positives = 23/53 (43%), Gaps = 1/53 (1%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVML-DNWYFEKDGLLFCKEDY 63
C C + E +L ++WH C RC C L + E +G +C + Y
Sbjct: 1 CPKCGKPVYFAEKKTSLGRDWHKPCLRCEKCKKTLTPGQHSEHEGKPYCNKCY 53
Score = 28.5 bits (64), Expect = 1.4
Identities = 9/34 (26%), Positives = 13/34 (38%), Gaps = 2/34 (5%)
Query: 91 HPECFKCTSCSCCIGDGESYALVERSILYCGLCY 124
H C +C C + G ++ YC CY
Sbjct: 22 HKPCLRCEKCKKTLTPG-QHS-EHEGKPYCNKCY 53
>gnl|CDD|132989 cd06658, STKc_PAK5, Catalytic domain of the Protein
Serine/Threonine Kinase, p21-activated kinase 5.
Serine/threonine kinases (STKs), p21-activated kinase
(PAK) 5, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The PAK
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. PAKs are Rho family GTPase-regulated kinases
that serve as important mediators in the function of
Cdc42 (cell division cycle 42) and Rac. PAKs from higher
eukaryotes are classified into two groups (I and II),
according to their biochemical and structural features.
PAK5 belongs to group II. Group II PAKs contain a PBD
(p21-binding domain) and a C-terminal catalytic domain,
but do not harbor an AID (autoinhibitory domain) or SH3
binding sites. PAK5 is mainly expressed in the brain. It
is not required for viability, but together with PAK6,
it is required for normal levels of locomotion and
activity, and for learning and memory. PAK5 cooperates
with Inca (induced in neural crest by AP2) in the
regulation of cell adhesion and cytoskeletal
organization in the embryo and in neural crest cells
during craniofacial development. PAK5 may also play a
role in controlling the signaling of Raf-1, an effector
of Ras, at the mitochondria.
Length = 292
Score = 45.8 bits (108), Expect = 4e-05
Identities = 34/153 (22%), Positives = 68/153 (44%), Gaps = 27/153 (17%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+G+G G V T + TG+ + +K++ + K+ ++ L+
Sbjct: 30 IGEGSTGIVCIATEKHTGKQVAVKKM---------DLRKQQRRELL-------------- 66
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
F++V ++R HH NV+ +L +V E++ GG L +++ + Q
Sbjct: 67 --FNEVVIMRDYHHENVVDMYNSYLVGDELWVVMEFLEGGALTDIVTH--TRMNEEQIAT 122
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
+ ++YLH+ +IHRD+ S + L+ G
Sbjct: 123 VCLSVLRALSYLHNQGVIHRDIKSDSILLTSDG 155
>gnl|CDD|173502 PTZ00266, PTZ00266, NIMA-related protein kinase; Provisional.
Length = 1021
Score = 46.7 bits (110), Expect = 4e-05
Identities = 42/170 (24%), Positives = 71/170 (41%), Gaps = 41/170 (24%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKEL-YRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
+G G FG+V+ V H+ T E K + YR +E EK+ L
Sbjct: 21 IGNGRFGEVFLVKHKRTQEFFCWKAISYRGLKEREKSQL--------------------- 59
Query: 547 LHCFSQVAVLRSLHHHNVIRFIGVLYK--DRKLNLVTEYIAGGTLKELLQDPGQPLPWGQ 604
+V V+R L H N++R+I ++KL ++ E+ G L +Q + +
Sbjct: 60 ---VIEVNVMRELKHKNIVRYIDRFLNKANQKLYILMEFCDAGDLSRNIQKCYKMFGKIE 116
Query: 605 R---VNFARDIAAGMTYLHSMN-------LIHRDLNSQNCL----VREVG 640
V+ R + + Y H++ ++HRDL QN +R +G
Sbjct: 117 EHAIVDITRQLLHALAYCHNLKDGPNGERVLHRDLKPQNIFLSTGIRHIG 166
>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 = 45.6 bits (108), Expect = 4e-05
Identities = 39/158 (24%), Positives = 71/158 (44%), Gaps = 21/158 (13%)
Query: 487 LLGQGFFGQVYRVTHRETGE-VMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLIN 545
LG G FG VY+V + G+ ++ LKE+ V A +E + + ++
Sbjct: 7 HLGSGAFGCVYKVRKKNNGQNLLALKEIN-VHNPAFGKDKRERDKSIGDIV--------- 56
Query: 546 NLHCFSQVAVLR-SLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKEL---LQDPGQPLP 601
S+V +++ L H N++R+ ++ +L +V + I G L E L++ Q
Sbjct: 57 -----SEVTIIKEQLRHPNIVRYYKTFLENDRLYIVMDLIEGAPLGEHFNSLKEKKQRFT 111
Query: 602 WGQRVNFARDIAAGMTYLH-SMNLIHRDLNSQNCLVRE 638
+ N + + YLH ++HRDL N ++ E
Sbjct: 112 EERIWNIFVQMVLALRYLHKEKRIVHRDLTPNNIMLGE 149
>gnl|CDD|188841 cd09457, LIM2_ENH, The second LIM domain of the Enigma Homolog
(ENH) family. The second LIM domain of the Enigma
Homolog (ENH) family: ENH was initially identified in
rat brain. Same as enigma, it contains three LIM
domains at the C-terminus and a PDZ domain at
N-terminus. ENH is implicated in signal transduction
processes involving protein kinases. It has also been
shown that ENH interacts with protein kinase D1 (PKD1)
via its LIM domains and forms a complex with PKD1 and
the alpha1C subunit of cardiac L-type voltage-gated
calcium channel in rat neonatal cardiomyocytes. The
N-terminal PDZ domain interacts with alpha-actinin at
the Z-line. ENH is expressed in multiple tissues, such
as skeletal muscle, heart, bone, and brain. LIM domains
are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein complexes.
Length = 52
Score = 41.2 bits (96), Expect = 5e-05
Identities = 21/53 (39%), Positives = 27/53 (50%), Gaps = 2/53 (3%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWYFE-KDGLLFCKEDY 63
C C I+ E + AL Q WH CF C AC + N F +DG +C+ DY
Sbjct: 1 CGRCQRKIL-GEVINALKQTWHVSCFVCVACHNPIRNNVFHLEDGEPYCETDY 52
>gnl|CDD|173643 cd05077, PTK_Jak1_rpt1, Pseudokinase (repeat 1) domain of the
Protein Tyrosine Kinase, Janus kinase 1. Protein
Tyrosine Kinase (PTK) family; Janus kinase 1 (Jak1);
pseudokinase domain (repeat 1). The PTKc (catalytic
domain) family to which this subfamily belongs, 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. Jak1 is a
member of the Janus kinase (Jak) subfamily of proteins,
which are cytoplasmic (or nonreceptor) tyr kinases
containing an N-terminal FERM domain, followed by a Src
homology 2 (SH2) domain, a pseudokinase domain, and a
C-terminal tyr kinase domain. The pseudokinase domain
shows similarity to tyr kinases but lacks crucial
residues for catalytic activity and ATP binding. It
modulates the kinase activity of the C-terminal
catalytic domain. Jaks are crucial for cytokine receptor
signaling. They are activated by autophosphorylation
upon cytokine-induced receptor aggregation, and
subsequently trigger downstream signaling events such as
the phosphorylation of signal transducers and activators
of transcription (STATs). Jak1 is widely expressed in
many tissues. Many cytokines are dependent on Jak1 for
signaling, including those that use the shared receptor
subunits common gamma chain (IL-2, IL-4, IL-7, IL-9,
IL-15, IL-21) and gp130 (IL-6, IL-11, oncostatin M,
G-CSF, and IFNs, among others). The many varied
interactions of Jak1 and its ubiquitous expression
suggest many biological roles. Jak1 is important in
neurological development, as well as in lymphoid
development and function. It also plays a role in the
pathophysiology of cardiac hypertrophy and heart
failure. A mutation in the ATP-binding site of Jak1 was
identified in a human uterine leiomyosarcoma cell line,
resulting in defective cytokine induction and antigen
presentation, thus allowing the tumor to evade the
immune system.
Length = 262
Score = 45.3 bits (107), Expect = 5e-05
Identities = 35/155 (22%), Positives = 70/155 (45%), Gaps = 17/155 (10%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
LG+G Q+Y G + Y+ D+E + K+ + L L +L
Sbjct: 3 LGRGTRTQIY------AGILN-----YKDDDEDDGY--SYEKEIKVILKVLDPSHRDISL 49
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPL--PWGQR 605
F +++R + H +++ GV +D + +V E++ G L + L PW +
Sbjct: 50 AFFETASMMRQVSHKHIVLLYGVCVRDVENIMVEEFVEFGPLDLFMHRKSDVLTTPW--K 107
Query: 606 VNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
A+ +A+ ++YL +L+H ++ ++N L+ G
Sbjct: 108 FKVAKQLASALSYLEDKDLVHGNVCTKNILLAREG 142
>gnl|CDD|132946 cd06615, PKc_MEK, Catalytic domain of the dual-specificity Protein
Kinase, MAP/ERK Kinase. Protein kinases (PKs), MAP/ERK
kinase (MEK) subfamily, catalytic (c) domain. PKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine/threonine or tyrosine residues on protein
substrates. The MEK subfamily is part of a larger
superfamily that includes the catalytic domains of other
protein serine/threonine kinases, protein tyrosine
kinases, RIO kinases, aminoglycoside phosphotransferase,
choline kinase, and phosphoinositide 3-kinase. The
mitogen-activated protein (MAP) kinase signaling
pathways are important mediators of cellular responses
to extracellular signals. The pathways involve a triple
kinase core cascade comprising the MAP kinase (MAPK),
which is phosphorylated and activated by a MAPK kinase
(MAPKK or MKK), which itself is phosphorylated and
activated by a MAPK kinase kinase (MAPKKK or MKKK). MEK1
and MEK2 are dual-specificity PKs that phosphorylate and
activate the downstream targets, ERK(extracellular
signal-regulated kinase) 1 and ERK2, on specific
threonine and tyrosine residues. The ERK cascade starts
with extracellular signals including growth factors,
hormones, and neurotransmitters, which act through
receptors and ion channels to initiate intracellular
signaling that leads to the activation at the MAPKKK
(Raf-1 or MOS) level, which leads to the transmission of
signals to MEK1/2, and finally to ERK1/2. The ERK
cascade plays an important role in cell proliferation,
differentiation, oncogenic transformation, and cell
cycle control, as well as in apoptosis and cell survival
under certain conditions. This cascade has also been
implicated in synaptic plasticity, migration,
morphological determination, and stress response
immunological reactions. Gain-of-function mutations in
genes encoding ERK cascade proteins, including MEK1/2,
cause cardiofaciocutaneous (CFC) syndrome, a condition
leading to multiple congenital anomalies and mental
retardation in patients.
Length = 308
Score = 45.5 bits (108), Expect = 5e-05
Identities = 40/161 (24%), Positives = 70/161 (43%), Gaps = 40/161 (24%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELY-RVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
LG G G V +V HR +G +M K ++ + ++E
Sbjct: 9 LGAGNGGVVTKVLHRPSGLIMARKLIHLEIKPAIRNQIIRE------------------- 49
Query: 547 LHCFSQVAVLRSLHHHN---VIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQ-PLPW 602
L+ LH N ++ F G Y D ++++ E++ GG+L ++L+ G+ P
Sbjct: 50 ---------LKVLHECNSPYIVGFYGAFYSDGEISICMEHMDGGSLDQVLKKAGRIPENI 100
Query: 603 GQRVNFARDIAAGMTYL---HSMNLIHRDLNSQNCLVREVG 640
+++ A + G+TYL H ++HRD+ N LV G
Sbjct: 101 LGKISIA--VLRGLTYLREKHK--IMHRDVKPSNILVNSRG 137
>gnl|CDD|188871 cd09840, LIM2_CRP2, The second LIM domain of Cysteine Rich
Protein 2 (CRP2). The second LIM domain of Cysteine
Rich Protein 2 (CRP2): Cysteine-rich proteins (CRPs)
are characterized by the presence of two LIM domains
linked to short glycine-rich repeats (GRRs). The CRP
family members include CRP1, CRP2, CRP3/MLP and
TLPCRP1, CRP2 and CRP3 share a conserved nuclear
targeting signal (K/R-K/R-Y-G-P-K), which supports the
fact that these proteins function not only in the
cytoplasm but also in the nucleus. CRPs control
regulatory pathways during cellular differentiation,
and involve in complex transcription circuits, and the
organization as well as the arrangement of the
myofibrillar/cytoskeletal network.CRP3 also called
Muscle LIM Protein (MLP), which is a striated
muscle-specific factor that enhances myogenic
differentiation. The second LIM domain of CRP3/MLP
interacts with cytoskeletal protein beta-spectrin.
CRP3/MLP also interacts with the basic helix-loop-helix
myogenic transcription factors MyoD, myogenin, and MRF4
thereby increasing their affinity for specific DNA
regulatory elements. LIM domains are 50-60 amino acids
in size and share two characteristic zinc finger
motifs. The two zinc fingers contain eight conserved
residues, mostly cysteines and histidines, which
coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 54
Score = 40.9 bits (95), Expect = 6e-05
Identities = 17/53 (32%), Positives = 30/53 (56%), Gaps = 1/53 (1%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWYF-EKDGLLFCKEDY 63
C+ C +++ E + + WH +CFRC+ C L++ EK+G ++CK Y
Sbjct: 1 CSRCGDSVYAAEKIMGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCY 53
Score = 30.5 bits (68), Expect = 0.31
Identities = 18/56 (32%), Positives = 26/56 (46%), Gaps = 5/56 (8%)
Query: 71 CQNCGQMMSGPVMVVGDHK-FHPECFKCTSCSCCIGDGESYALVERS-ILYCGLCY 124
C CG + ++G K +H CF+C C + ES L E+ +YC CY
Sbjct: 1 CSRCGDSVYAAEKIMGAGKPWHKNCFRCAKCGKSL---ESTTLTEKEGEIYCKGCY 53
>gnl|CDD|188761 cd09375, LIM2_Lhx1_Lhx5, The second LIM domain of Lhx1 (also
known as Lim1) and Lhx5. The second LIM domain of Lhx1
(also known as Lim1) and Lhx5. Lhx1 and Lhx5 are
closely related members of LHX protein family, which
features two tandem N-terminal LIM domains and a
C-terminal DNA binding homeodomain. Members of LHX
family are found in the nucleus and act as
transcription factors or cofactors. LHX proteins are
critical for the development of specialized cells in
multiple tissue types, including the nervous system,
skeletal muscle, the heart, the kidneys, and endocrine
organs, such as the pituitary gland and the pancreas.
Lhx1 is required for regulating the vertebrate head
organizer, the nervous system, and female reproductive
tract development. During embryogenesis in the mouse,
Lhx1 is expressed early in mesodermal tissue, then
later during urogenital, kidney, liver, and nervous
system development. In the adult, expression is
restricted to the kidney and brain. A mouse embryos
with Lhx1 gene knockout cannot grow normal anterior
head structures, kidneys, and gonads, but with normally
developed trunk and tail morphology. In the developing
nervous system, Lhx1 is required to direct the
trajectories of motor axons in the limb. Lhx1 null
female mice lack the oviducts and uterus. Lhx5 protein
may play complementary or overlapping roles with Lhx1.
The expression of Lhx5 in the anterior portion of the
mouse neural tube suggests a role in patterning of the
forebrain. All LIM domains are 50-60 amino acids in
size and share two characteristic zinc finger motifs.
The two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately
bond to two zinc atoms. LIM domains function as
adaptors or scaffolds to support the assembly of
multimeric protein complexes.
Length = 56
Score = 40.4 bits (95), Expect = 7e-05
Identities = 19/56 (33%), Positives = 27/56 (48%), Gaps = 4/56 (7%)
Query: 12 CAGCLNNIVEDEYV-QALSQEWHTDCFRCSACDVML---DNWYFEKDGLLFCKEDY 63
CAGC I ++ V +A + +H +CF C C L + Y + CKEDY
Sbjct: 1 CAGCDQGISPNDLVRRARDKVFHLNCFTCMVCRKQLSTGEELYILDENKFICKEDY 56
Score = 28.9 bits (65), Expect = 1.1
Identities = 16/56 (28%), Positives = 23/56 (41%), Gaps = 2/56 (3%)
Query: 71 CQNCGQMMSGPVMV--VGDHKFHPECFKCTSCSCCIGDGESYALVERSILYCGLCY 124
C C Q +S +V D FH CF C C + GE +++ + C Y
Sbjct: 1 CAGCDQGISPNDLVRRARDKVFHLNCFTCMVCRKQLSTGEELYILDENKFICKEDY 56
>gnl|CDD|133246 cd05115, PTKc_Zap-70, Catalytic domain of the Protein Tyrosine
Kinase, Zeta-chain-associated protein of 70kDa. Protein
Tyrosine Kinase (PTK) family; Zeta-chain-associated
protein of 70kDa (Zap-70); catalytic (c) domain. 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. Zap-70 is
a member of the Syk subfamily of kinases, which are
cytoplasmic (or nonreceptor) tyr kinases containing two
Src homology 2 (SH2) domains N-terminal to the catalytic
tyr kinase domain. Zap-70 is primarily expressed in
T-cells and NK cells, and is a crucial component in
T-cell receptor (TCR) signaling. Zap-70 binds the
phosphorylated ITAM (immunoreceptor tyr activation
motif) sequences of the activated TCR zeta-chain through
its SH2 domains, leading to its phosphorylation and
activation. It then phosphorylates target proteins,
which propagate the signals to downstream pathways.
Zap-70 is hardly detected in normal peripheral B-cells,
but is present in some B-cell malignancies. It is used
as a diagnostic marker for chronic lymphocytic leukemia
(CLL) as it is associated with the more aggressive
subtype of the disease.
Length = 257
Score = 44.6 bits (105), Expect = 8e-05
Identities = 25/82 (30%), Positives = 40/82 (48%), Gaps = 1/82 (1%)
Query: 555 VLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVNFARDIAA 614
++ L + ++R IGV + L LV E +GG L + L + V ++
Sbjct: 48 IMHQLDNPYIVRMIGVC-EAEALMLVMEMASGGPLNKFLSGKKDEITVSNVVELMHQVSM 106
Query: 615 GMTYLHSMNLIHRDLNSQNCLV 636
GM YL N +HRDL ++N L+
Sbjct: 107 GMKYLEGKNFVHRDLAARNVLL 128
>gnl|CDD|132950 cd06619, PKc_MKK5, Catalytic domain of the dual-specificity Protein
Kinase, MAP kinase kinase 5. Protein kinases (PKs), MAP
kinase kinase 5 (MKK5) subfamily, catalytic (c) domain.
PKs catalyze the transfer of the gamma-phosphoryl group
from ATP to serine/threonine or tyrosine residues on
protein substrates. The MKK5 subfamily is part of a
larger superfamily that includes the catalytic domains
of other protein serine/threonine kinases, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and phosphoinositide
3-kinase. The mitogen-activated protein (MAP) kinase
signaling pathways are important mediators of cellular
responses to extracellular signals. The pathways involve
a triple kinase core cascade comprising of the MAP
kinase (MAPK), which is phosphorylated and activated by
a MAPK kinase (MAPKK or MKK), which itself is
phosphorylated and activated by a MAPK kinase kinase
(MAPKKK or MKKK). MKK5, also referred to as MEK5, is a
dual-specificity PK that phosphorylates its downstream
target, extracellular signal-regulated kinase 5 (ERK5),
on specific threonine and tyrosine residues. MKK5 is
activated by MEKK2 and MEKK3 in response to mitogenic
and stress stimuli. The ERK5 cascade promotes cell
proliferation, differentiation, neuronal survival, and
neuroprotection. This cascade plays an essential role in
heart development. Mice deficient in either ERK5 or MKK5
die around embryonic day 10 due to cardiovascular
defects including underdevelopment of the myocardium. In
addition, MKK5 is associated with metastasis and
unfavorable prognosis in prostate cancer.
Length = 279
Score = 44.5 bits (105), Expect = 9e-05
Identities = 37/154 (24%), Positives = 66/154 (42%), Gaps = 31/154 (20%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKEL-YRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
LG G G VY+ H T ++ +K + + E +K +
Sbjct: 9 LGHGNGGTVYKAYHLLTRRILAVKVIPLDITVELQKQIM--------------------- 47
Query: 547 LHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRV 606
S++ +L +I F G + + ++++ TE++ GG+L + P L R+
Sbjct: 48 ----SELEILYKCDSPYIIGFYGAFFVENRISICTEFMDGGSLDVYRKIPEHVL---GRI 100
Query: 607 NFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
A + G+TYL S+ ++HRD+ N LV G
Sbjct: 101 AVA--VVKGLTYLWSLKILHRDVKPSNMLVNTRG 132
>gnl|CDD|188720 cd09334, LIM4_PINCH, The fourth LIM domain of protein PINCH. The
fourth LIM domain of protein PINCH: PINCH plays a
pivotal role in the assembly of focal adhesions (FAs),
regulating diverse functions in cell adhesion, growth,
and differentiation through LIM-mediated
protein-protein interactions. PINCH comprises an array
of five LIM domains that interact with integrin-linked
kinase (ILK), Nck2 (also called Nckbeta or Grb4) and
other interaction partners. These interactions are
essential for triggering the FA assembly and for
relaying diverse mechanical and biochemical signals
between Cell-extracellular matrix and the actin
cytoskeleton. The PINCH LIM4 domain recognizes the
third SH3 domain of another adaptor protein, Nck2. This
step is an important component of integrin signaling
event. LIM domains are 50-60 amino acids in size and
share two characteristic zinc finger motifs. The two
zinc fingers contain eight conserved residues, mostly
cysteines and histidines, which coordinately bond to
two zinc atoms. LIM domains function as adaptors or
scaffolds to support the assem bly of multimeric
protein complexes.
Length = 54
Score = 40.4 bits (95), Expect = 9e-05
Identities = 19/54 (35%), Positives = 28/54 (51%), Gaps = 2/54 (3%)
Query: 11 TCAGCLNNIVEDEYVQALSQEWHTDCFRCSACDV-MLDNWYFEKDGLLFCKEDY 63
C C I E V AL + WH + F C+ C+ L + ++EK GL +C+ Y
Sbjct: 2 ICGACRRPI-EGRVVTALGKHWHVEHFVCAKCEKPFLGHRHYEKKGLAYCETHY 54
Score = 28.9 bits (65), Expect = 1.2
Identities = 9/30 (30%), Positives = 13/30 (43%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSC 100
C C + + G V+ +H E F C C
Sbjct: 3 CGACRRPIEGRVVTALGKHWHVEHFVCAKC 32
>gnl|CDD|188840 cd09456, LIM2_Enigma, The second LIM domain of Enigma. The
second LIM domain of Enigma: Enigma was initially
characterized in humans as a protein containing three
LIM domains at the C-terminus and a PDZ domain at
N-terminus. The third LIM domain specifically
interacts with the insulin receptor and the second LIM
domain interacts with the receptor tyrosine kinase Ret
and the adaptor protein APS. Thus Enigma is implicated
in signal transduction processes, such as mitogenic
activity, insulin related actin organization, and
glucose metabolism. Enigma is expressed in multiple
tissues, such as skeletal muscle, heart, bone and
brain. LIM domains are 50-60 amino acids in size and
share two characteristic zinc finger motifs. The two
zinc fingers contain eight conserved residues, mostly
cysteines and histidines, which coordinately bond to
two zinc atoms. LIM domains function as adaptors or
scaffolds to support the assembly of multimeric protein
complexes.
Length = 52
Score = 40.4 bits (94), Expect = 9e-05
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 2/53 (3%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNW-YFEKDGLLFCKEDY 63
CA C + E + AL WH CF C+AC + N ++ ++G +C+ DY
Sbjct: 1 CAKC-KKKITGEIMHALKMTWHVHCFTCAACKTPIRNRAFYMEEGAPYCERDY 52
Score = 27.7 bits (61), Expect = 2.4
Identities = 14/50 (28%), Positives = 22/50 (44%), Gaps = 2/50 (4%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYC 120
C C + ++G +M +H CF C +C I + Y +E YC
Sbjct: 1 CAKCKKKITGEIMHALKMTWHVHCFTCAACKTPIRNRAFY--MEEGAPYC 48
>gnl|CDD|188794 cd09410, LIM3_Leupaxin, The third LIM domain of Leupaxin. The
third LIM domain of Leupaxin: Leupaxin is a
cytoskeleton adaptor protein, which is preferentially
expressed in hematopoietic cells. Leupaxin belongs to
the paxillin focal adhesion protein family. Same as
other members of the family, it has four leucine-rich
LD-motifs in the N-terminus and four LIM domains in the
C-terminus. It may function in cell type-specific
signaling by associating with interaction partners
PYK2, FAK, PEP and p95PKL. When expressed in human
leukocytic cells, leupaxin significantly suppressed
integrin-mediated cell adhesion to fibronectin and the
tyrosine phosphorylation of paxillin. These findings
indicate that leupaxin may negatively regulate the
functions of paxillin during integrin signaling. LIM
domains are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein complexes.
Length = 53
Score = 40.2 bits (94), Expect = 1e-04
Identities = 20/54 (37%), Positives = 29/54 (53%), Gaps = 2/54 (3%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSAC-DVMLDNWYFEKDGLLFCKEDYN 64
C+GC V++ Y+ A + WH +CF CS C D +FE DG C+ Y+
Sbjct: 1 CSGC-GRPVKENYLSAANGVWHPECFVCSDCLKPFTDGSFFELDGRPLCELHYH 53
Score = 30.9 bits (70), Expect = 0.18
Identities = 17/54 (31%), Positives = 24/54 (44%), Gaps = 2/54 (3%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYCGLCY 124
C CG+ + + + +HPECF C+ C DG + L R C L Y
Sbjct: 1 CSGCGRPVKENYLSAANGVWHPECFVCSDCLKPFTDGSFFELDGRP--LCELHY 52
>gnl|CDD|188836 cd09452, LIM1_Enigma, The first LIM domain of Enigma. The first
LIM domain of Enigma: Enigma was initially
characterized in humans as a protein containing three
LIM domains at the C-terminus and a PDZ domain at
N-terminus. The third LIM domain specifically
interacts with the insulin receptor and the second LIM
domain interacts with the receptor tyrosine kinase Ret
and the adaptor protein APS. Thus Enigma is implicated
in signal transduction processes such as mitogenic
activity, insulin related actin organization, and
glucose metabolism. Enigma is expressed in multiple
tissues, such as skeletal muscle, heart, bone and
brain. LIM domains are 50-60 amino acids in size and
share two characteristic zinc finger motifs. The two
zinc fingers contain eight conserved residues, mostly
cysteines and histidines, which coordinately bond to
two zinc atoms. LIM domains function as adaptors or
scaffolds to support the assembly of multimeric protein
complexes.
Length = 52
Score = 39.8 bits (93), Expect = 1e-04
Identities = 21/53 (39%), Positives = 31/53 (58%), Gaps = 2/53 (3%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDN-WYFEKDGLLFCKEDY 63
CA C N I+ Y+ AL + +H + F CS C +LD +FE+ G +FC + Y
Sbjct: 1 CAQC-NKIIRGRYLVALGRSYHPEEFTCSQCKKVLDEGGFFEEKGSIFCPKCY 52
Score = 35.9 bits (83), Expect = 0.003
Identities = 15/54 (27%), Positives = 27/54 (50%), Gaps = 2/54 (3%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYCGLCY 124
C C +++ G +V +HPE F C+ C + +G + E+ ++C CY
Sbjct: 1 CAQCNKIIRGRYLVALGRSYHPEEFTCSQCKKVLDEGGFFE--EKGSIFCPKCY 52
>gnl|CDD|188837 cd09453, LIM1_ENH, The first LIM domain of the Enigma Homolog (ENH)
family. The first LIM domain of the Enigma Homolog
(ENH) family: ENH was initially identified in rat brain.
Same as enigma, it contains three LIM domains at the
C-terminus and a PDZ domain at N-terminus. ENH is
implicated in signal transduction processes involving
protein kinases. It has also been shown that ENH
interacts with protein kinase D1 (PKD1) via its LIM
domains and forms a complex with PKD1 and the alpha1C
subunit of cardiac L-type voltage-gated calcium channel
in rat neonatal cardiomyocytes. The N-terminal PDZ
domain interacts with alpha-actinin at the Z-line. ENH
is expressed in multiple tissues, such as skeletal
muscle, heart, bone, and brain. LIM domains are 50-60
amino acids in size and share two characteristic zinc
finger motifs. The two zinc fingers contain eight
conserved residues, mostly cysteines and histidines,
which coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 52
Score = 39.6 bits (92), Expect = 1e-04
Identities = 18/54 (33%), Positives = 26/54 (48%), Gaps = 2/54 (3%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYCGLCY 124
C C Q++ GP +V +HPE F C C + + E+ LYC +CY
Sbjct: 1 CATCNQVIRGPFLVALGKSWHPEEFNCAHCKSSM--AYIGFVEEKGALYCEICY 52
Score = 33.5 bits (76), Expect = 0.020
Identities = 17/53 (32%), Positives = 28/53 (52%), Gaps = 2/53 (3%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSAC-DVMLDNWYFEKDGLLFCKEDY 63
CA C N ++ ++ AL + WH + F C+ C M + E+ G L+C+ Y
Sbjct: 1 CATC-NQVIRGPFLVALGKSWHPEEFNCAHCKSSMAYIGFVEEKGALYCEICY 52
>gnl|CDD|177557 PHA03209, PHA03209, serine/threonine kinase US3; Provisional.
Length = 357
Score = 44.1 bits (104), Expect = 1e-04
Identities = 24/87 (27%), Positives = 44/87 (50%), Gaps = 1/87 (1%)
Query: 555 VLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVNFARDIAA 614
+L++++H +VIR L +V + + L L +PLP Q + + I
Sbjct: 110 LLQNVNHPSVIRMKDTLVSGAITCMVLPHYSS-DLYTYLTKRSRPLPIDQALIIEKQILE 168
Query: 615 GMTYLHSMNLIHRDLNSQNCLVREVGS 641
G+ YLH+ +IHRD+ ++N + +V
Sbjct: 169 GLRYLHAQRIIHRDVKTENIFINDVDQ 195
>gnl|CDD|188727 cd09341, LIM2_Testin_like, The second LIM domain of Testin-like
family. The second LIM domain of Testin-like family:
This family includes testin, prickle, dyxin and
LIMPETin. Structurally, testin and prickle proteins
contain three LIM domains at C-terminal; LIMPETin has
six LIM domains; and dyxin presents only two LIM
domains. However, all members of the family contain a
PET protein-protein interaction domain. Testin is a
cytoskeleton associated focal adhesion protein that
localizes along actin stress fibers, at
cell-cell-contact areas, and at focal adhesion plaques.
Testin interacts with a variety of cytoskeletal
proteins, including zyxin, mena, VASP, talin, and actin
and it is involved in cell motility and adhesion
events. Prickles have been implicated in roles of
regulating tissue polarity or planar cell polarity
(PCP). Dyxin involves in lung and heart development by
interaction with GATA6 and blocking GATA6 activated
target genes. LIMPETin might be the recombinant product
of genes coding testin and four and half LIM proteins
and its function is not well understood. As in other
LIM domains, this domain family is 50-60 amino acids in
size and shares two characteristic zinc finger motifs.
The two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately
bond to two zinc atoms. LIM domains function as
adaptors or scaffolds to support the assembly of
multimeric protein complexes.
Length = 56
Score = 39.5 bits (93), Expect = 1e-04
Identities = 15/35 (42%), Positives = 16/35 (45%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVML 46
CA C I EY QA + WH F C CD L
Sbjct: 3 CAACDELIFSGEYTQAEGKNWHLKHFCCFQCDEPL 37
>gnl|CDD|173698 cd05607, STKc_GRK7, Catalytic domain of the Protein
Serine/Threonine Kinase, G protein-coupled Receptor
Kinase 7. Serine/Threonine Kinases (STKs), G
protein-coupled Receptor Kinase (GRK) subfamily, GRK7
isoform, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The GRK
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. GRKs phosphorylate and regulate G
protein-coupled receptors (GPCRs), the largest
superfamily of cell surface receptors, which regulate
some part of nearly all physiological functions.
Phosphorylated GPCRs bind to arrestins, which prevents
further G protein signaling despite the presence of
activating ligand. There are seven types of GRKs, named
GRK1 to GRK7. GRK7, also called iodopsin kinase, belongs
to the visual group of GRKs. It is primarily found in
the retina and plays a role in the regulation of opsin
light receptors. GRK7 is located in retinal cone outer
segments and plays an important role in regulating
photoresponse of the cones.
Length = 277
Score = 43.8 bits (103), Expect = 2e-04
Identities = 38/155 (24%), Positives = 72/155 (46%), Gaps = 23/155 (14%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
LG+G FG+V V + TG++ K+L +K LK+ + L++ +N+
Sbjct: 1 LGKGGFGEVCAVQVKNTGKMYACKKL-------DKKRLKKKSGEKMALLEKEILEKVNSP 53
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQ-PLPWGQRV 606
+ S H L LV + GG LK + + G+ L + +
Sbjct: 54 FIVNLAYAFESKTH---------------LCLVMSLMNGGDLKYHIYNVGERGLEMERVI 98
Query: 607 NFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVGS 641
+++ I G+ +LHSM++++RD+ +N L+ + G+
Sbjct: 99 HYSAQITCGILHLHSMDIVYRDMKPENVLLDDQGN 133
>gnl|CDD|133174 cd05042, PTKc_Aatyk, Catalytic domain of the Protein Tyrosine
Kinases, Apoptosis-associated tyrosine kinases. Protein
Tyrosine Kinase (PTK) family; Apoptosis-associated
tyrosine kinase (Aatyk) subfamily; catalytic (c) domain.
The Aatyk subfamily is also referred to as the lemur
tyrosine kinase (Lmtk) subfamily. It consists of Aatyk1
(Lmtk1), Aatyk2 (Lmtk2, Brek), Aatyk3 (Lmtk3), 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.
Aatyk proteins are mostly receptor tyr kinases (RTKs)
containing a transmembrane segment and a long C-terminal
cytoplasmic tail with a catalytic domain. Aatyk1 does
not contain a transmembrane segment and is a cytoplasmic
(or nonreceptor) kinase. Aatyk proteins are classified
as tyr kinases based on overall sequence similarity and
the phylogenetic tree. However, analysis of catalytic
residues suggests that Aatyk proteins may be
multispecific kinases, functioning also as
serine/threonine kinases. They are involved in neural
differentiation, nerve growth factor (NGF) signaling,
apoptosis, and spermatogenesis.
Length = 269
Score = 43.3 bits (102), Expect = 2e-04
Identities = 38/159 (23%), Positives = 62/159 (38%), Gaps = 38/159 (23%)
Query: 488 LGQGFFGQV-----YRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHG 542
+G G+FG+V +R + V L+ DE+ FL+E
Sbjct: 3 IGNGWFGKVLLGEAHRGMSKARVVVKELRASATPDEQLL--FLQE--------------- 45
Query: 543 LINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQD-----PG 597
V R L+H NV++ +G + LV E+ G LK L+
Sbjct: 46 ----------VQPYRELNHPNVLQCLGQCIESIPYLLVLEFCPLGDLKNYLRSNRGMVAQ 95
Query: 598 QPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
+ A ++A+G+ +LH + IH DL +NC +
Sbjct: 96 MAQKDVLQ-RMACEVASGLLWLHQADFIHSDLALRNCQL 133
>gnl|CDD|238080 cd00136, PDZ, PDZ domain, also called DHR (Dlg homologous region)
or GLGF (after a conserved sequence motif). Many PDZ
domains bind C-terminal polypeptides, though binding to
internal (non-C-terminal) polypeptides and even to
lipids has been demonstrated. Heterodimerization through
PDZ-PDZ domain interactions adds to the domain's
versatility, and PDZ domain-mediated interactions may be
modulated dynamically through target phosphorylation.
Some PDZ domains play a role in scaffolding
supramolecular complexes. PDZ domains are found in
diverse signaling proteins in bacteria, archebacteria,
and eurkayotes. This CD contains two distinct structural
subgroups with either a N- or C-terminal beta-strand
forming the peptide-binding groove base. The circular
permutation placing the strand on the N-terminus appears
to be found in Eumetazoa only, while the C-terminal
variant is found in all three kingdoms of life, and
seems to co-occur with protease domains. PDZ domains
have been named after PSD95(post synaptic density
protein), DlgA (Drosophila disc large tumor suppressor),
and ZO1, a mammalian tight junction protein.
Length = 70
Score = 39.6 bits (93), Expect = 2e-04
Identities = 19/60 (31%), Positives = 27/60 (45%), Gaps = 5/60 (8%)
Query: 273 TGMTNNP----SVPRLDPRADLMSLHLGDRILEVNGTPVRDKPLQEVECLIRNTTDTVLQ 328
G T SV P A+ L GD IL VNGT V++ L++V L++ +
Sbjct: 8 RGGTEGGVVVLSVEPGSP-AERAGLQAGDVILAVNGTDVKNLTLEDVAELLKKEVGEKVT 66
>gnl|CDD|173616 PTZ00426, PTZ00426, cAMP-dependent protein kinase catalytic
subunit; Provisional.
Length = 340
Score = 43.8 bits (103), Expect = 2e-04
Identities = 26/93 (27%), Positives = 44/93 (47%), Gaps = 1/93 (1%)
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
H FS+ +L ++H + G + L LV E++ GG L+ + P
Sbjct: 77 HVFSERKILNYINHPFCVNLYGSFKDESYLYLVLEFVIGGEFFTFLRR-NKRFPNDVGCF 135
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
+A I YL S+N+++RDL +N L+ + G
Sbjct: 136 YAAQIVLIFEYLQSLNIVYRDLKPENLLLDKDG 168
>gnl|CDD|173680 cd05589, STKc_PKN, Catalytic domain of the Protein Serine/Threonine
Kinase, Protein Kinase N. Serine/Threonine Kinases
(STKs), Protein Kinase N (PKN) subfamily, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The PKN 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. PKN has a
C-terminal catalytic domain that is highly homologous to
PKCs. Its unique N-terminal regulatory region contains
antiparallel coiled-coil (ACC) domains. In mammals,
there are three PKN isoforms from different genes
(designated PKN-alpha, beta, and gamma), which show
different enzymatic properties, tissue distribution, and
varied functions. PKN can be activated by the small
GTPase Rho, and by fatty acids such as arachidonic and
linoleic acids. It is involved in many biological
processes including cytokeletal regulation, cell
adhesion, vesicle transport, glucose transport,
regulation of meiotic maturation and embryonic cell
cycles, signaling to the nucleus, and tumorigenesis.
Length = 324
Score = 43.5 bits (103), Expect = 2e-04
Identities = 41/153 (26%), Positives = 64/153 (41%), Gaps = 31/153 (20%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVD----EEAEKNFLKESKQGLIYLI-DLGSHG 542
LG+G FG+V +++TGE+ +K L + D +E E L K+ I+ + H
Sbjct: 7 LGRGHFGKVLLAEYKKTGELYAIKALKKGDIIARDEVES--LMCEKR--IFETANSERHP 62
Query: 543 LINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPW 602
+ NL Q + + F V EY AGG L + P
Sbjct: 63 FLVNLFACFQTE--------DHVCF------------VMEYAAGGDLMMHIHTDVFSEP- 101
Query: 603 GQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCL 635
+ V +A + G+ YLH +++RDL N L
Sbjct: 102 -RAVFYAACVVLGLQYLHENKIVYRDLKLDNLL 133
>gnl|CDD|188787 cd09403, LIM2_CRP, The second LIM domain of Cysteine Rich Protein
(CRP). The second LIM domain of Cysteine Rich Protein
(CRP): Cysteine-rich proteins (CRPs) are characterized
by the presence of two LIM domains linked to a short
glycine-rich repeats (GRRs). The CRP family members
include CRP1, CRP2, CRP3/MLP. CRP1, CRP2 and CRP3 share
a conserved nuclear targeting signal (K/R-K/R-Y-G-P-K),
which supports the fact that these proteins function
not only in the cytoplasm but also in the nucleus. CRPs
control regulatory pathways during cellular
differentiation, and involve in complex transcription
control, and the organization as well as the
arrangement of the myofibrillar/cytoskeletal network.
It is evident that CRP1, CRP2, and CRP3/MLP are
involved in promoting protein assembly along the
actin-based cytoskeleton. Although members of the CRP
family share common binding partners, they are also
capable of recognizing different and specific targets.
LIM domains are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residu es, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein complexes.
Length = 54
Score = 39.1 bits (91), Expect = 2e-04
Identities = 17/53 (32%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWYF-EKDGLLFCKEDY 63
C C ++ E + + WH +CFRC+ C L++ +KDG ++CK Y
Sbjct: 1 CPRCGKSVYAAEKIIGAGKPWHKNCFRCAKCGKSLESTTLADKDGEIYCKGCY 53
Score = 30.2 bits (68), Expect = 0.35
Identities = 18/57 (31%), Positives = 27/57 (47%), Gaps = 7/57 (12%)
Query: 71 CQNCGQMMSGPVMVVGDHK-FHPECFKCTSCSCCIGDG-ESYALVERS-ILYCGLCY 124
C CG+ + ++G K +H CF+C C G ES L ++ +YC CY
Sbjct: 1 CPRCGKSVYAAEKIIGAGKPWHKNCFRCAKC----GKSLESTTLADKDGEIYCKGCY 53
>gnl|CDD|188770 cd09384, LIM1_LMO2, The first LIM domain of LMO2 (LIM domain only
protein 2). The first LIM domain of LMO2 (LIM domain
only protein 2): LMO2 is a nuclear protein that plays
important roles in transcriptional regulation and
development. The two tandem LIM domains of LMO2 support
the assembly of a crucial cell-regulatory complex by
interacting with both the TAL1-E47 and GATA1
transcription factors to form a DNA-binding complex
that is capable of transcriptional activation. LMOs
have also been shown to be involved in oncogenesis.
LMO1 and LMO2 are activated in T-cell acute
lymphoblastic leukemia by distinct chromosomal
translocations. LMO2 was also shown to be involved in
erythropoiesis and is required for the hematopoiesis in
the adult animals. All LIM domains are 50-60 amino
acids in size and share two characteristic zinc finger
motifs. The two zinc fingers contain eight conserved
residues, mostly cysteines and histidines, which
coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 56
Score = 39.4 bits (92), Expect = 2e-04
Identities = 19/55 (34%), Positives = 26/55 (47%), Gaps = 3/55 (5%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVML---DNWYFEKDGLLFCKEDY 63
C GC NI + +++A+ Q WH DC C C L + K G C+ DY
Sbjct: 1 CGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDY 55
>gnl|CDD|173692 cd05601, STKc_CRIK, Catalytic domain of the Protein
Serine/Threonine Kinase, Citron Rho-interacting kinase.
Serine/Threonine Kinases (STKs), Citron Rho-interacting
kinase (CRIK) subfamily, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine/threonine residues on protein substrates.
The CRIK 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. CRIK is also called citron kinase. It contains
a catalytic domain, a central coiled-coil domain, and a
C-terminal region containing a Rho-binding domain (RBD),
a zinc finger, and a pleckstrin homology (PH) domain, in
addition to other motifs. CRIK, an effector of the small
GTPase Rho, plays an important function during
cytokinesis and affects its contractile process.
CRIK-deficient mice show severe ataxia and epilepsy as a
result of abnormal cytokinesis and massive apoptosis in
neuronal precursors. A Down syndrome critical region
protein TTC3 interacts with CRIK and inhibits
CRIK-dependent neuronal differentiation and neurite
extension.
Length = 330
Score = 43.7 bits (103), Expect = 2e-04
Identities = 35/157 (22%), Positives = 65/157 (41%), Gaps = 28/157 (17%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYR--VDEEAEKNFLKESKQGLIYLIDLGSHGLI 544
L+G+G FG+V V + TG++ +K + + + + +F +E + ++ + + I
Sbjct: 8 LVGRGHFGEVQVVREKATGDIYAMKVMKKSVLLAQETVSFFEEERD----ILSISNSPWI 63
Query: 545 NNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRK-LNLVTEYIAGGTLKELLQDPGQPLPWG 603
L Q A ++D+ L LV EY GG L LL
Sbjct: 64 PQL----QYA-----------------FQDKDNLYLVMEYQPGGDLLSLLNRYEDQFDED 102
Query: 604 QRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
+ ++ + +H M +HRD+ +N L+ G
Sbjct: 103 MAQFYLAELVLAIHSVHQMGYVHRDIKPENVLIDRTG 139
>gnl|CDD|188845 cd09461, LIM3_Enigma_like_1, The third LIM domain of an Enigma
subfamily with unknown function. The third LIM domain
of an Enigma subfamily with unknown function: The
Enigma LIM domain family is comprised of three
characterized members: Enigma, ENH, and Cypher
(mouse)/ZASP (human). These subfamily members contain a
single PDZ domain at the N-terminus and three LIM
domains at the C-terminus. They serve as adaptor
proteins, where the PDZ domain tethers the protein to
the cytoskeleton and the LIM domains, recruit signaling
proteins to implement corresponding functions. The
members of the enigma family have been implicated in
regulating or organizing cytoskeletal structure, as
well as involving multiple signaling pathways. LIM
domains are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein complexes.
Length = 54
Score = 39.5 bits (92), Expect = 2e-04
Identities = 19/51 (37%), Positives = 29/51 (56%), Gaps = 2/51 (3%)
Query: 12 CAGCLNNI-VEDEYVQALSQEWHTDCFRCSACDVMLDNW-YFEKDGLLFCK 60
C C I D +V+AL+ +H+ CF C+ C+V L+ ++ K G FCK
Sbjct: 1 CVSCGFPIEAGDRWVEALNNNYHSQCFNCTRCNVNLEGQSFYAKGGRPFCK 51
Score = 27.5 bits (61), Expect = 3.0
Identities = 8/24 (33%), Positives = 17/24 (70%), Gaps = 1/24 (4%)
Query: 87 DHKFHPECFKCTSCSCCIGDGESY 110
++ +H +CF CT C+ + +G+S+
Sbjct: 19 NNNYHSQCFNCTRCNVNL-EGQSF 41
>gnl|CDD|188866 cd09482, LIM2_CRP3, The second LIM domain of Cysteine Rich
Protein 3 (CRP3/MLP). The second LIM domain of
Cysteine Rich Protein 3 (CRP3/MLP): Cysteine-rich
proteins (CRPs) are characterized by the presence of
two LIM domains linked to short glycine-rich repeats
(GRRs). The CRP family members include CRP1, CRP2,
CRP3/MLP and TLPCRP1, CRP2 and CRP3 share a conserved
nuclear targeting signal (K/R-K/R-Y-G-P-K), which
supports the fact that these proteins function not only
in the cytoplasm but also in the nucleus. CRPs control
regulatory pathways during cellular differentiation,
and involve in complex transcription circuits, and the
organization as well as the arrangement of the
myofibrillar/cytoskeletal network.CRP3 also called
Muscle LIM Protein (MLP), which is a striated
muscle-specific factor that enhances myogenic
differentiation. The second LIM domain of CRP3/MLP
interacts with cytoskeletal protein beta-spectrin.
CRP3/MLP also interacts with the basic helix-loop-helix
myogenic transcription factors MyoD, myogenin, and MRF4
thereby increasing their affinity for specific DNA
regulatory elements. LIM domains are 50-60 amino acids
in size and share two characteristic zinc finger
motifs. The two zinc fingers contain eight conserved
residues, mostly cysteines and histidines, which
coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 54
Score = 39.2 bits (91), Expect = 2e-04
Identities = 19/53 (35%), Positives = 27/53 (50%), Gaps = 1/53 (1%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWYF-EKDGLLFCKEDY 63
C C ++ E V + WH CFRC+ C L++ +KDG L+CK Y
Sbjct: 1 CPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTTVTDKDGELYCKVCY 53
Score = 28.1 bits (62), Expect = 2.2
Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 5/56 (8%)
Query: 71 CQNCGQMMSGPVMVVGDHK-FHPECFKCTSCSCCIGDGESYALVERS-ILYCGLCY 124
C CG+ + V+G K +H CF+C C + ES + ++ LYC +CY
Sbjct: 1 CPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSL---ESTTVTDKDGELYCKVCY 53
>gnl|CDD|188759 cd09373, LIM1_AWH, The first LIM domain of Arrowhead (AWH). The
first LIM domain of Arrowhead (AWH): Arrowhead belongs
to the LHX protein family, which features two tandem
N-terminal LIM domains and a C-terminal DNA binding
homeodomain. Members of LHX family are found in the
nucleus and act as transcription factors or cofactors.
LHX proteins are critical for the development of
specialized cells in multiple tissue types, including
the nervous system, skeletal muscle, the heart, the
kidneys, and endocrine organs, such as the pituitary
gland and the pancreas. During embryogenesis of
Drosophila, Arrowhead is expressed in each abdominal
segment and in the labial segment. Late in embryonic
development, expression of arrowhead is refined to the
abdominal histoblasts and salivary gland imaginal ring
cells themselves. The Arrowhead gene required for
establishment of a subset of imaginal tissues: the
abdominal histoblasts and the salivary gland imaginal
rings. As in other LIM domains, this domain family is
50-60 amino acids in size and shares two characteristic
zinc finger motifs. The two zinc fingers contain eight
conserved residues, mostly cysteines and histidines,
which coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein.
Length = 54
Score = 39.3 bits (92), Expect = 2e-04
Identities = 17/54 (31%), Positives = 25/54 (46%), Gaps = 2/54 (3%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWY--FEKDGLLFCKEDY 63
C GC I + ++ + WH C RC C L+ F +D ++CK DY
Sbjct: 1 CTGCGEPITDRFLLKVSGRSWHVSCLRCCVCQTPLERQPSCFTRDRQIYCKADY 54
Score = 27.7 bits (62), Expect = 2.9
Identities = 13/51 (25%), Positives = 22/51 (43%), Gaps = 2/51 (3%)
Query: 71 CQNCGQMMSGPVMV-VGDHKFHPECFKCTSCSCCIGDGESYALVERSILYC 120
C CG+ ++ ++ V +H C +C C + S +R I YC
Sbjct: 1 CTGCGEPITDRFLLKVSGRSWHVSCLRCCVCQTPLERQPSCFTRDRQI-YC 50
>gnl|CDD|173688 cd05597, STKc_DMPK_like, Catalytic domain of Myotonic Dystrophy
protein kinase-like Protein Serine/Threonine Kinases.
Serine/Threonine Kinases (STKs), Myotonic Dystrophy
protein kinase (DMPK)-like subfamily, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The DMPK-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. The DMPK-like subfamily is composed of DMPK
and DMPK-related cell division control protein 42
(Cdc42) binding kinase (MRCK). Three isoforms of MRCK
are known, named alpha, beta and gamma. The DMPK gene is
implicated in myotonic dystrophy 1 (DM1), an inherited
multisystemic disorder with symptoms that include muscle
hyperexcitability, progressive muscle weakness and
wasting, cataract development, testicular atrophy, and
cardiac conduction defects. The genetic basis for DM1 is
the mutational expansion of a CTG repeat in the 3'-UTR
of DMPK. DMPK is expressed in skeletal and cardiac
muscles, and in central nervous tissues. The functional
role of DMPK is not fully understood. It may play a role
in the signal transduction and homeostasis of calcium.
MRCK is activated via interaction with the small GTPase
Cdc42. MRCK/Cdc42 signaling mediates myosin-dependent
cell motility. MRCKgamma is expressed in heart and
skeletal muscles, unlike MRCKalpha and MRCKbeta, which
are expressed ubiquitously.
Length = 331
Score = 43.6 bits (103), Expect = 2e-04
Identities = 38/152 (25%), Positives = 62/152 (40%), Gaps = 26/152 (17%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYRVD--EEAEKNFLKESKQGLIYLIDLGSHGLI 544
++G+G FG+V V + TG+V +K L + + + AE +E + L+ G I
Sbjct: 8 VIGRGAFGEVAVVKMKNTGQVYAMKILNKWEMLKRAETACFREERDVLVN----GDRRWI 63
Query: 545 NNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQ 604
NLH Q + L LV +Y GG L LL LP
Sbjct: 64 TNLHYAFQ--------------------DENNLYLVMDYYVGGDLLTLLSKFEDRLPEDM 103
Query: 605 RVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
+ ++ + +H + +HRD+ N L+
Sbjct: 104 ARFYLAEMVLAIDSVHQLGYVHRDIKPDNVLL 135
>gnl|CDD|237847 PRK14879, PRK14879, serine/threonine protein kinase; Provisional.
Length = 211
Score = 42.6 bits (101), Expect = 2e-04
Identities = 24/75 (32%), Positives = 35/75 (46%), Gaps = 14/75 (18%)
Query: 579 LVTEYIAGGTLKELLQDPGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
+V EYI G LK+L+ G +R+I + LHS +IH DL + N ++
Sbjct: 76 IVMEYIEGEPLKDLINSNGMEELE-----LSREIGRLVGKLHSAGIIHGDLTTSNMILSG 130
Query: 639 VGSGFDFHLGQIYLI 653
G+IYLI
Sbjct: 131 ---------GKIYLI 136
>gnl|CDD|201332 pfam00595, PDZ, PDZ domain (Also known as DHR or GLGF). PDZ
domains are found in diverse signaling proteins.
Length = 80
Score = 39.9 bits (94), Expect = 2e-04
Identities = 11/42 (26%), Positives = 18/42 (42%)
Query: 285 DPRADLMSLHLGDRILEVNGTPVRDKPLQEVECLIRNTTDTV 326
A+ L GDRIL +NG + + E ++ + V
Sbjct: 34 GGAAEAGGLQEGDRILSINGQDLENLSHDEAVLALKGSGGEV 75
>gnl|CDD|215061 PLN00113, PLN00113, leucine-rich repeat receptor-like protein
kinase; Provisional.
Length = 968
Score = 44.1 bits (104), Expect = 2e-04
Identities = 31/108 (28%), Positives = 55/108 (50%), Gaps = 12/108 (11%)
Query: 521 EKNFLKESKQGLIYLIDLGSHGL------INNLHCF--SQVAVLRSLHHHNVIRFIGVLY 572
E+N + K+G Y +G+ IN+++ S++A + L H N+++ IG+
Sbjct: 694 EENVISRGKKGASYKGKSIKNGMQFVVKEINDVNSIPSSEIADMGKLQHPNIVKLIGLCR 753
Query: 573 KDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVNFARDIAAGMTYLH 620
++ L+ EYI G L E+L++ L W +R A IA + +LH
Sbjct: 754 SEKGAYLIHEYIEGKNLSEVLRN----LSWERRRKIAIGIAKALRFLH 797
>gnl|CDD|132990 cd06659, STKc_PAK6, Catalytic domain of the Protein
Serine/Threonine Kinase, p21-activated kinase 6.
Serine/threonine kinases (STKs), p21-activated kinase
(PAK) 6, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The PAK
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. PAKs are Rho family GTPase-regulated kinases
that serve as important mediators in the function of
Cdc42 (cell division cycle 42) and Rac. PAKs from higher
eukaryotes are classified into two groups (I and II),
according to their biochemical and structural features.
PAK6 belongs to group II. Group II PAKs contain a PBD
(p21-binding domain) and a C-terminal catalytic domain,
but do not harbor an AID (autoinhibitory domain) or SH3
binding sites. PAK6 may play a role in stress responses
through its activation by the mitogen-activated protein
kinase (MAPK) p38 and MAPK kinase 6 (MKK6) pathway. PAK6
is highly expressed in the brain. It is not required for
viability, but together with PAK5, it is required for
normal levels of locomotion and activity, and for
learning and memory. Increased expression of PAK6 is
found in primary and metastatic prostate cancer. PAK6
may play a role in the regulation of motility.
Length = 297
Score = 43.5 bits (102), Expect = 2e-04
Identities = 23/87 (26%), Positives = 42/87 (48%), Gaps = 2/87 (2%)
Query: 550 FSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVNFA 609
F++V ++R H NV+ +L ++ E++ GG L +++ L Q
Sbjct: 66 FNEVVIMRDYQHQNVVEMYKSYLVGEELWVLMEFLQGGALTDIVSQ--TRLNEEQIATVC 123
Query: 610 RDIAAGMTYLHSMNLIHRDLNSQNCLV 636
+ + YLHS +IHRD+ S + L+
Sbjct: 124 ESVLQALCYLHSQGVIHRDIKSDSILL 150
>gnl|CDD|173759 cd08219, STKc_Nek3, Catalytic domain of the Protein
Serine/Threonine Kinase, Never In Mitosis gene A-related
kinase 3. Serine/Threonine Kinases (STKs), Never In
Mitosis gene A (NIMA)-related kinase 3 (Nek3) subfamily,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The Nek3 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. Nek3 is primarily
localized in the cytoplasm and shows no cell
cycle-dependent changes in its activity. It is present
in the axons of neurons and affects morphogenesis and
polarity through its regulation of microtubule
acetylation. Nek3 modulates the signaling of the
prolactin receptor through its activation of Vav2 and
contributes to prolactin-mediated motility of breast
cancer cells.
Length = 255
Score = 43.0 bits (101), Expect = 2e-04
Identities = 33/156 (21%), Positives = 65/156 (41%), Gaps = 27/156 (17%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKEL-YRVDEEAEKNFLKESKQGLIYLIDLGSHGLIN 545
++G+G FG+ V H + + +KE+ A ++ KE+
Sbjct: 7 VVGEGSFGRALLVQHVNSDQKYAMKEIRLPKSSSAVEDSRKEA----------------- 49
Query: 546 NLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDP-GQPLPWGQ 604
+L + H N++ F D L +V EY GG L + ++ G+ P
Sbjct: 50 --------VLLAKMKHPNIVAFKESFEADGHLYIVMEYCDGGDLMQKIKLQRGKLFPEDT 101
Query: 605 RVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
+ + + G+ ++H ++HRD+ S+N + + G
Sbjct: 102 ILQWFVQMCLGVQHIHEKRVLHRDIKSKNIFLTQNG 137
>gnl|CDD|132980 cd06649, PKc_MEK2, Catalytic domain of the dual-specificity Protein
Kinase, MAP/ERK Kinase 2. Protein kinases (PKs),
MAP/ERK Kinase (MEK) 2 subfamily, catalytic (c) domain.
PKs catalyze the transfer of the gamma-phosphoryl group
from ATP to serine/threonine or tyrosine residues on
protein substrates. The MEK subfamily is part of a
larger superfamily that includes the catalytic domains
of other protein serine/threonine kinases, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and phosphoinositide
3-kinase. The mitogen-activated protein (MAP) kinase
signaling pathways are important mediators of cellular
responses to extracellular signals. The pathways involve
a triple kinase core cascade comprising the MAP kinase
(MAPK), which is phosphorylated and activated by a MAPK
kinase (MAPKK or MKK), which itself is phosphorylated
and activated by a MAPK kinase kinase (MAPKKK or MKKK).
MEK2 is a dual-specificity PK that phosphorylates and
activates the downstream targets, extracellular
signal-regulated kinase (ERK) 1 and ERK2, on specific
threonine and tyrosine residues. The ERK cascade starts
with extracellular signals including growth factors,
hormones, and neurotransmitters, which act through
receptors and ion channels to initiate intracellular
signaling that leads to the activation at the MAPKKK
(Raf-1 or MOS) level, which leads to the transmission of
signals to MEK2, and finally to ERK1/2. The ERK cascade
plays an important role in cell proliferation,
differentiation, oncogenic transformation, and cell
cycle control, as well as in apoptosis and cell survival
under certain conditions. Gain-of-function mutations in
genes encoding ERK cascade proteins, including MEK2,
cause cardiofaciocutaneous (CFC) syndrome, a condition
leading to multiple congenital anomalies and mental
retardation in patients.
Length = 331
Score = 43.5 bits (102), Expect = 3e-04
Identities = 39/155 (25%), Positives = 68/155 (43%), Gaps = 28/155 (18%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
LG G G V +V H+ +G +M K LI L I N
Sbjct: 13 LGAGNGGVVTKVQHKPSGLIMARK-----------------------LIHLEIKPAIRN- 48
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQ-PLPWGQRV 606
++ VL + ++ F G Y D ++++ E++ GG+L ++L++ + P +V
Sbjct: 49 QIIRELQVLHECNSPYIVGFYGAFYSDGEISICMEHMDGGSLDQVLKEAKRIPEEILGKV 108
Query: 607 NFARDIAAGMTYLHSMN-LIHRDLNSQNCLVREVG 640
+ A + G+ YL + ++HRD+ N LV G
Sbjct: 109 SIA--VLRGLAYLREKHQIMHRDVKPSNILVNSRG 141
>gnl|CDD|173721 cd05632, STKc_GRK5, Catalytic domain of the Protein
Serine/Threonine Kinase, G protein-coupled Receptor
Kinase 5. Serine/Threonine Kinases (STKs), G
protein-coupled Receptor Kinase (GRK) subfamily, GRK5
isoform, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The GRK
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. GRKs phosphorylate and regulate G
protein-coupled receptors (GPCRs), the largest
superfamily of cell surface receptors which regulate
some part of nearly all physiological functions.
Phosphorylated GPCRs bind to arrestins, which prevents
further G protein signaling despite the presence of
activating ligand. There are seven types of GRKs, named
GRK1 to GRK7. GRK5 is widely expressed in many tissues.
It associates with the membrane though an N-terminal
PIP2 binding domain and also binds phospholipids via its
C-terminus. GRK5 deficiency is associated with early
Alzheimer's disease in humans and mouse models. GRK5
also plays a crucial role in the pathogenesis of
sporadic Parkinson's disease. It participates in the
regulation and desensitization of PDGFRbeta, a receptor
tyrosine kinase involved in a variety of downstream
cellular effects including cell growth, chemotaxis,
apoptosis, and angiogenesis. GRK5 also regulates
Toll-like receptor 4, which is involved in innate and
adaptive immunity.
Length = 285
Score = 43.0 bits (101), Expect = 3e-04
Identities = 42/155 (27%), Positives = 66/155 (42%), Gaps = 23/155 (14%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
+LG+G FG+V R TG++ K L EK +K+ K G +N
Sbjct: 7 VLGKGGFGEVCACQVRATGKMYACKRL-------EKKRIKKRK---------GESMALN- 49
Query: 547 LHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRV 606
+ +L ++ V+ L LV + GG LK + + G P +R
Sbjct: 50 -----EKQILEKVNSQFVVNLAYAYETKDALCLVLTIMNGGDLKFHIYNMGNPGFEEERA 104
Query: 607 NF-ARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
F A +I G+ LH N ++RDL +N L+ + G
Sbjct: 105 LFYAAEILCGLEDLHRENTVYRDLKPENILLDDYG 139
>gnl|CDD|188721 cd09335, LIM5_PINCH, The fifth LIM domain of protein PINCH. The
fifth LIM domain of protein PINCH: PINCH plays pivotal
roles in the assembly of focal adhesions (FAs),
regulating diverse functions in cell adhesion, growth,
and differentiation through LIM-mediated
protein-protein interactions. PINCH comprises an array
of five LIM domains that interact with integrin-linked
kinase (ILK), Nck2 (also called Nckbeta or Grb4) and
other interaction partners. These interactions are
essential for triggering the FA assembly and for
relaying diverse mechanical and biochemical signals
between Cell-extracellular matrix and the actin
cytoskeleton. LIM domains are 50-60 amino acids in size
and share two characteristic zinc finger motifs. The
two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately
bond to two zinc atoms. LIM domains function as
adaptors or scaffolds to support the assembly of
multimeric protein complexes.
Length = 54
Score = 38.9 bits (91), Expect = 3e-04
Identities = 20/54 (37%), Positives = 30/54 (55%), Gaps = 3/54 (5%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACD--VMLDNWYFEKDGLLFCKEDY 63
C C N ++E + V AL++ W D F CS CD + L + ++E D CK+ Y
Sbjct: 1 CYHC-NQVIEGDVVSALNKTWCVDHFSCSFCDTKLTLKSKFYEFDMKPVCKKCY 53
>gnl|CDD|133217 cd05086, PTKc_Aatyk2, Catalytic domain of the Protein Tyrosine
Kinase, Apoptosis-associated tyrosine kinase 2. Protein
Tyrosine Kinase (PTK) family; Apoptosis-associated
tyrosine kinase 2 (Aatyk2); catalytic (c) domain. 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. Aatyk2 is
a member of the Aatyk subfamily of proteins, which are
receptor kinases containing a transmembrane segment and
a long C-terminal cytoplasmic tail with a catalytic
domain. Aatyk2 is also called lemur tyrosine kinase 2
(Lmtk2) or brain-enriched kinase (Brek). It is expressed
at high levels in early postnatal brain, and has been
shown to play a role in nerve growth factor (NGF)
signaling. Studies with knockout mice reveal that Aatyk2
is essential for late stage spermatogenesis. Although it
is classified as a tyr kinase based on sequence
similarity and the phylogenetic tree, Aatyk2 has been
characterized as a serine/threonine kinase.
Length = 268
Score = 42.6 bits (100), Expect = 3e-04
Identities = 40/152 (26%), Positives = 61/152 (40%), Gaps = 25/152 (16%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+G G+FG+V +L E+Y D + +KE K +
Sbjct: 3 IGNGWFGKV------------LLSEIY-TDTGVARVVVKELK---------ANASSKEQN 40
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
Q R L H N+++ +G + LV EY G LK L Q +
Sbjct: 41 EFLQQGDPYRILQHPNILQCLGQCVEAIPYLLVFEYCELGDLKSYLSQEQWHRRNSQLLL 100
Query: 608 FAR---DIAAGMTYLHSMNLIHRDLNSQNCLV 636
R +IAAG+T++H N +H DL +NC +
Sbjct: 101 LQRMACEIAAGVTHMHKHNFLHSDLALRNCFL 132
>gnl|CDD|173678 cd05587, STKc_cPKC, Catalytic domain of the Protein
Serine/Threonine Kinase, Classical Protein Kinase C.
Serine/Threonine Kinases (STKs), Classical (or
Conventional) Protein Kinase C (cPKC) subfamily,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The cPKC 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 (PI3K). PKCs are
classified into three groups (classical, atypical, and
novel) depending on their mode of activation and the
structural characteristics of their regulatory domain.
PKCs undergo three phosphorylations in order to take
mature forms. In addition, cPKCs depend on calcium, DAG
(1,2-diacylglycerol), and in most cases,
phosphatidylserine (PS) for activation. cPKCs contain a
calcium-binding C2 region in their regulatory domain.
There are four cPKC isoforms, named alpha, betaI,
betaII, and gamma. cPKCs are potent kinases for
histones, myelin basic protein, and protamine. PKC-gamma
is mainly expressed in neuronal tissues. It plays a role
in protection from ischemia.
Length = 324
Score = 42.8 bits (101), Expect = 4e-04
Identities = 43/159 (27%), Positives = 68/159 (42%), Gaps = 32/159 (20%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYR----VDEEAEKNFLKESKQGLIYLIDLGSHG 542
+LG+G FG+V + T E+ +K L + D++ E +++ L G
Sbjct: 7 VLGKGSFGKVMLAERKGTDELYAIKILKKDVIIQDDDVECTMVEKRVLAL-----PGKPP 61
Query: 543 LINNLH-CFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLP 601
+ LH CF + DR L V EY+ GG L +Q G+
Sbjct: 62 FLTQLHSCFQTM--------------------DR-LYFVMEYVNGGDLMYHIQQVGK-FK 99
Query: 602 WGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
V +A +IA G+ +LHS +I+RDL N ++ G
Sbjct: 100 EPHAVFYAAEIAIGLFFLHSKGIIYRDLKLDNVMLDAEG 138
>gnl|CDD|188792 cd09408, LIM2_Leupaxin, The second LIM domain of Leupaxin. The
second LIM domain of Leupaxin: Leupaxin is a
cytoskeleton adaptor protein, which is preferentially
expressed in hematopoietic cells. Leupaxin belongs to
the paxillin focal adhesion protein family. Same as
other members of the family, it has four leucine-rich
LD-motifs in the N-terminus and four LIM domains in the
C-terminus. It may function in cell type-specific
signaling by associating with interaction partners
PYK2, FAK, PEP and p95PKL. When expressed in human
leukocytic cells, leupaxin significantly suppressed
integrin-mediated cell adhesion to fibronectin and the
tyrosine phosphorylation of paxillin. These findings
indicate that leupaxin may negatively regulate the
functions of paxillin during integrin signaling. LIM
domains are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein complexes.
Length = 52
Score = 38.3 bits (89), Expect = 5e-04
Identities = 18/53 (33%), Positives = 29/53 (54%), Gaps = 2/53 (3%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSAC-DVMLDNWYFEKDGLLFCKEDY 63
CA C I+ + A+ Q WH + F CS C ++ D + E+DG +C+ D+
Sbjct: 1 CAYCAGPIL-QNVLTAMDQTWHPEHFFCSHCGELFGDEGFLERDGKPYCRRDF 52
>gnl|CDD|173707 cd05616, STKc_cPKC_beta, Catalytic domain of the Protein
Serine/Threonine Kinase, Classical Protein Kinase C
beta. Serine/Threonine Kinases (STKs), Classical
Protein Kinase C (cPKC) subfamily, beta isoforms,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The cPKC 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. PKCs are
classified into three groups (classical, atypical, and
novel) depending on their mode of activation and the
structural characteristics of their regulatory domain.
PKCs undergo three phosphorylations in order to take
mature forms. In addition, cPKCs depend on calcium, DAG
(1,2-diacylglycerol), and in most cases,
phosphatidylserine (PS) for activation. There are four
cPKC isoforms, named alpha, betaI, betaII, and gamma.
The PKC beta isoforms (I and II), generated by
alternative splicing of a single gene, are
preferentially activated by hyperglycemia-induced DAG in
retinal tissues. This is implicated in diabetic
microangiopathy such as ischemia, neovascularization,
and abnormal vasodilator function. PKC-beta also plays
an important role in VEGF signaling. In addition,
glucose regulates proliferation in retinal endothelial
cells via PKC-betaI. PKC-beta is also being explored as
a therapeutic target in cancer. It contributes to tumor
formation and is involved in the tumor host mechanisms
of inflammation and angiogenesis.
Length = 323
Score = 42.3 bits (99), Expect = 5e-04
Identities = 43/159 (27%), Positives = 68/159 (42%), Gaps = 32/159 (20%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYR----VDEEAEKNFLKESKQGLIYLIDLGSHG 542
+LG+G FG+V + T E+ +K L + D++ E +++ L G
Sbjct: 7 VLGKGSFGKVMLAERKGTDELYAIKILKKDVVIQDDDVECTMVEKRVLALS-----GKPP 61
Query: 543 LINNLH-CFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLP 601
+ LH CF + DR L V EY+ GG L +Q G+
Sbjct: 62 FLTQLHSCFQTM--------------------DR-LYFVMEYVNGGDLMYQIQQVGR-FK 99
Query: 602 WGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
V +A +IA G+ +LHS +I+RDL N ++ G
Sbjct: 100 EPHAVFYAAEIAIGLFFLHSKGIIYRDLKLDNVMLDSEG 138
>gnl|CDD|132988 cd06657, STKc_PAK4, Catalytic domain of the Protein
Serine/Threonine Kinase, p21-activated kinase 4.
Serine/threonine kinases (STKs), p21-activated kinase
(PAK) 4, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The PAK
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. PAKs are Rho family GTPase-regulated kinases
that serve as important mediators in the function of
Cdc42 (cell division cycle 42) and Rac. PAKs from higher
eukaryotes are classified into two groups (I and II),
according to their biochemical and structural features.
PAK4 belongs to group II. Group II PAKs contain a PBD
(p21-binding domain) and a C-terminal catalytic domain,
but do not harbor an AID (autoinhibitory domain) or SH3
binding sites. PAK4 regulates cell morphology and
cytoskeletal organization. It is essential for embryonic
viability and proper neural development. Mice lacking
PAK4 die due to defects in the fetal heart. In addition,
their spinal cord motor neurons showed failure to
differentiate and migrate. PAK4 also plays a role in
cell survival and tumorigenesis. It is overexpressed in
many primary tumors including colon, esophageal, and
mammary tumors. PAK4 has also been implicated in viral
and bacterial infection pathways.
Length = 292
Score = 42.3 bits (99), Expect = 5e-04
Identities = 31/153 (20%), Positives = 67/153 (43%), Gaps = 27/153 (17%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+G+G G V T + +G+++ +K++ + K+ ++ L+
Sbjct: 28 IGEGSTGIVCIATVKSSGKLVAVKKM---------DLRKQQRRELL-------------- 64
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
F++V ++R H NV+ +L +V E++ GG L +++ + Q
Sbjct: 65 --FNEVVIMRDYQHENVVEMYNSYLVGDELWVVMEFLEGGALTDIVTH--TRMNEEQIAA 120
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
+ ++ LH+ +IHRD+ S + L+ G
Sbjct: 121 VCLAVLKALSVLHAQGVIHRDIKSDSILLTHDG 153
>gnl|CDD|188791 cd09407, LIM2_Paxillin, The second LIM domain of paxillin. The
second LIM domain of paxillin: Paxillin is an adaptor
protein, which recruits key components of the
signal-transduction machinery to specific sub-cellular
locations to respond to environmental changes rapidly.
The C-terminal region of paxillin contains four LIM
domains which target paxillin to focal adhesions,
presumably through a direct association with the
cytoplasmic tail of beta-integrin. The N-terminal of
paxillin is leucine-rich LD-motifs. Paxillin is found
at the interface between the plasma membrane and the
actin cytoskeleton. The binding partners of paxillin
are diverse and include protein tyrosine kinases, such
as Src and FAK, structural proteins, such as vinculin
and actopaxin, and regulators of actin organization.
Paxillin recruits these proteins to their function
sites to control the dynamic changes in cell adhesion,
cytoskeletal reorganization and gene expression. LIM
domains are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein complexes.
Length = 52
Score = 38.0 bits (88), Expect = 5e-04
Identities = 19/53 (35%), Positives = 28/53 (52%), Gaps = 2/53 (3%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLD-NWYFEKDGLLFCKEDY 63
C C N + D+ V AL + WH + F C+ C + EKDG +C++DY
Sbjct: 1 CYYC-NGPILDKVVTALDRTWHPEHFFCAQCGAFFGPEGFHEKDGKAYCRKDY 52
>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 = 42.5 bits (100), Expect = 5e-04
Identities = 32/123 (26%), Positives = 52/123 (42%), Gaps = 26/123 (21%)
Query: 548 HCFSQVAVLRSLHHHNVIRF--------------IGVLYKDRKLNLVTEYIAGGTLKELL 593
H ++ ++R L H N+++ +G L + + +V EY+ L
Sbjct: 48 HALREIKIIRRLDHDNIVKVYEVLGPSGSDLTEDVGSLTELNSVYIVQEYMETDLANVLE 107
Query: 594 QDPGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNC------LVREVGSGFDFHL 647
Q PL F + G+ Y+HS N++HRDL N LV ++G DF L
Sbjct: 108 Q---GPLSEEHARLFMYQLLRGLKYIHSANVLHRDLKPANVFINTEDLVLKIG---DFGL 161
Query: 648 GQI 650
+I
Sbjct: 162 ARI 164
>gnl|CDD|188746 cd09360, LIM_ALP_like, The LIM domain of ALP (actinin-associated
LIM protein) family. This family represents the LIM
domain of ALP (actinin-associated LIM protein) family.
Four proteins: ALP, CLP36, RIL, and Mystique have been
classified into the ALP subfamily of LIM domain
proteins. Each member of the subfamily contains an
N-terminal PDZ domain and a C-terminal LIM domain.
Functionally, these proteins bind to alpha-actinin
through their PDZ domains and bind or other signaling
molecules through their LIM domains. ALP proteins have
been implicated in cardiac and skeletal muscle
structure, function and disease, platelet, and
epithelial cell motility. LIM domains are 50-60 amino
acids in size and share two characteristic zinc finger
motifs. The two zinc fingers contain eight conserved
residues, mostly cysteines and histidines, which
coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 52
Score = 38.1 bits (89), Expect = 5e-04
Identities = 13/30 (43%), Positives = 15/30 (50%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSC 100
C CG + G V+ D HPECF C C
Sbjct: 1 CDKCGNGIVGVVVKARDKNRHPECFVCADC 30
Score = 27.0 bits (60), Expect = 4.2
Identities = 18/49 (36%), Positives = 25/49 (51%), Gaps = 2/49 (4%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDN-WYFEKDGLLFC 59
C C N IV V+A + H +CF C+ C + L N YF + L+C
Sbjct: 1 CDKCGNGIV-GVVVKARDKNRHPECFVCADCGLNLKNKGYFFIEDELYC 48
>gnl|CDD|188800 cd09416, LIM2_Testin, The second LIM domain of Testin. The
second LIM domain of Testin: Testin contains three
C-terminal LIM domains and a PET protein-protein
interaction domain at the N-terminal. Testin is a
cytoskeleton associated focal adhesion protein that
localizes along actin stress fibers, at
cell-cell-contact areas, and at focal adhesion plaques.
Testin interacts with a variety of cytoskeletal
proteins, including zyxin, mena, VASP, talin, and actin
and it is involved in cell motility and adhesion
events. Knockout mice experiments reveal that tumor
repressor function of testin. LIM domains are 50-60
amino acids in size and share two characteristic zinc
finger motifs. The two zinc fingers contain eight
conserved residues, mostly cysteines and histidines,
which coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 56
Score = 38.3 bits (89), Expect = 6e-04
Identities = 17/35 (48%), Positives = 20/35 (57%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVML 46
CAGC I +EY QA +Q WH F C CD +L
Sbjct: 3 CAGCDELIFSNEYTQAENQNWHLKHFCCFDCDNIL 37
>gnl|CDD|173695 cd05604, STKc_SGK3, Catalytic domain of the Protein
Serine/Threonine Kinase, Serum- and
Glucocorticoid-induced Kinase 3. Serine/Threonine
Kinases (STKs), Serum- and Glucocorticoid-induced Kinase
(SGK) subfamily, SGK3 isoform, catalytic (c) domain.
STKs catalyze the transfer of the gamma-phosphoryl group
from ATP to serine/threonine residues on protein
substrates. The SGK 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. There are three isoforms of
SGK, named SGK1, SGK2, and SGK3 (also called
cytokine-independent survival kinase CISK). SGK3 is
expressed in most tissues and is most abundant in the
embryo and adult heart and spleen. It was originally
discovered in a screen for antiapoptotic genes. It
phosphorylates and inhibits the proapoptotic proteins,
Bad and FKHRL1. SGK3 also regulates many transporters,
ion channels, and receptors. It plays a critical role in
hair follicle morphogenesis and hair cycling.
Length = 325
Score = 42.3 bits (99), Expect = 6e-04
Identities = 38/157 (24%), Positives = 69/157 (43%), Gaps = 28/157 (17%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYR---VDEEAEKNFLKESKQGLIYLIDLGSHGL 543
++G+G FG+V + G+ +K L + ++ + +K+ + E L+ H
Sbjct: 2 VIGKGSFGKVLLAKRKLDGKCYAVKVLQKKIVLNRKEQKHIMAERN----VLLKNVKHPF 57
Query: 544 INNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWG 603
+ LH Q KL V +++ GG L LQ + P
Sbjct: 58 LVGLHYSFQTT--------------------EKLYFVLDFVNGGELFFHLQRE-RSFPEP 96
Query: 604 QRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
+ +A +IA+ + YLHS+N+++RDL +N L+ G
Sbjct: 97 RARFYAAEIASALGYLHSINIVYRDLKPENILLDSQG 133
>gnl|CDD|133209 cd05078, PTK_Jak2_Jak3_rpt1, Pseudokinase (repeat 1) domain of the
Protein Tyrosine Kinases, Janus kinases 2 and 3.
Protein Tyrosine Kinase (PTK) family; Janus kinase 2
(Jak2) and Jak3; pseudokinase domain (repeat 1). The
PTKc (catalytic domain) family to which this subfamily
belongs, 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. Jak2 and
Jak3 are members of the Janus kinase (Jak) subfamily of
proteins, which are cytoplasmic (or nonreceptor) tyr
kinases containing an N-terminal FERM domain, followed
by a Src homology 2 (SH2) domain, a pseudokinase domain,
and a C-terminal tyr kinase domain. The pseudokinase
domain shows similarity to tyr kinases but lacks crucial
residues for catalytic activity and ATP binding. It
modulates the kinase activity of the C-terminal
catalytic domain. Jaks are crucial for cytokine receptor
signaling. They are activated by autophosphorylation
upon cytokine-induced receptor aggregation, and
subsequently trigger downstream signaling events such as
the phosphorylation of signal transducers and activators
of transcription (STATs). Jak2 is widely expressed in
many tissues while Jak3 is expressed only in
hematopoietic cells. Jak2 is essential for the signaling
of hormone-like cytokines such as growth hormone,
erythropoietin, thrombopoietin, and prolactin, as well
as some IFNs and cytokines that signal through the IL-3
and gp130 receptors. Jak3 binds the shared receptor
subunit common gamma chain and thus, is essential in the
signaling of cytokines that use it such as IL-2, IL-4,
IL-7, IL-9, IL-15, and IL-21. Disruption of Jak2 in mice
results in an embryonic lethal phenotype with multiple
defects including erythropoietic and cardiac
abnormalities. It is the only Jak gene that results in a
lethal phenotype when disrupted in mice. A mutation in
the pseudokinase domain of Jak2, V617F, is present in
many myeloproliferative diseases, including almost all
patients with polycythemia vera, and 50% of patients
with essential thrombocytosis and myelofibrosis. Jak3 is
important in lymphoid development and myeloid cell
differentiation. Inactivating mutations in Jak3 have
been reported in humans with severe combined
immunodeficiency (SCID).
Length = 258
Score = 41.8 bits (98), Expect = 6e-04
Identities = 34/155 (21%), Positives = 69/155 (44%), Gaps = 25/155 (16%)
Query: 488 LGQGFFGQVYRVTHRETG---EVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLI 544
LGQG F ++++ RE G E+ + L +V +++ +N+ ES
Sbjct: 3 LGQGTFTKIFKGIRREVGDYGELHKTEVLLKVLDKSHRNY-SES---------------- 45
Query: 545 NNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQ 604
F +++ L H +++ GV + +V EY+ G+L L+ +
Sbjct: 46 ----FFEAASMMSQLSHKHLVLNYGVCVCGDESIMVQEYVKFGSLDTYLKKNKNLINISW 101
Query: 605 RVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV-RE 638
++ A+ +A + +L L H ++ ++N L+ RE
Sbjct: 102 KLEVAKQLAWALHFLEDKGLTHGNVCAKNVLLIRE 136
>gnl|CDD|173710 cd05620, STKc_nPKC_delta, Catalytic domain of the Protein
Serine/Threonine Kinase, Novel Protein Kinase C delta.
Serine/Threonine Kinases (STKs), Novel Protein Kinase C
(nPKC), delta isoform, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine/threonine residues on protein substrates.
The nPKC 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. PKCs are classified into three groups
(classical, atypical, and novel) depending on their mode
of activation and the structural characteristics of
their regulatory domain. nPKCs are calcium-independent,
but require DAG (1,2-diacylglycerol) and
phosphatidylserine (PS) for activity. There are four
nPKC isoforms, delta, epsilon, eta, and theta. PKC-delta
plays a role in cell cycle regulation and programmed
cell death in many cell types. It slows down cell
proliferation, inducing cell cycle arrest and enhancing
cell differentiation. PKC-delta is also involved in the
regulation of transcription as well as immune and
inflammatory responses. It plays a central role in the
genotoxic stress response that leads to DNA
damaged-induced apoptosis.
Length = 316
Score = 41.9 bits (98), Expect = 7e-04
Identities = 38/158 (24%), Positives = 69/158 (43%), Gaps = 30/158 (18%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYR----VDEEAEKNFLKESKQGLIYLIDLGSHG 542
+LG+G FG+V + GE +K L + +D++ E +++ L + +
Sbjct: 2 VLGKGSFGKVLLAELKGKGEYFAVKALKKDVVLIDDDVECTMVEKRVLALAW-----ENP 56
Query: 543 LINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPW 602
+ +L+C Q K+ L V E++ GG L +QD G+
Sbjct: 57 FLTHLYCTFQT-------------------KEH-LFFVMEFLNGGDLMFHIQDKGR-FDL 95
Query: 603 GQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
+ +A +I G+ +LHS +I+RDL N ++ G
Sbjct: 96 YRATFYAAEIVCGLQFLHSKGIIYRDLKLDNVMLDRDG 133
>gnl|CDD|173627 cd05037, PTK_Jak_rpt1, Pseudokinase (repeat 1) domain of the
Protein Tyrosine Kinases, Janus kinases. Protein
Tyrosine Kinase (PTK) family; Janus kinase (Jak)
subfamily; pseudokinase domain (repeat1). The Jak
subfamily is composed of Jak1, Jak2, Jak3, TYK2, and
similar proteins. The PTKc (catalytic domain) family to
which this subfamily belongs, 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.
Jak subfamily proteins are cytoplasmic (or nonreceptor)
tyr kinases containing an N-terminal FERM domain,
followed by a Src homology 2 (SH2) domain, a
pseudokinase domain, and a C-terminal catalytic tyr
kinase domain. The pseudokinase domain shows similarity
to tyr kinases but lacks crucial residues for catalytic
activity and ATP binding. It modulates the kinase
activity of the C-terminal catalytic domain. Most Jaks
are expressed in a wide variety of tissues, except for
Jak3, which is expressed only in hematopoietic cells.
Jaks are crucial for cytokine receptor signaling. They
are activated by autophosphorylation upon
cytokine-induced receptor aggregation, and subsequently
trigger downstream signaling events such as the
phosphorylation of signal transducers and activators of
transcription (STATs). Jaks are also involved in
regulating the surface expression of some cytokine
receptors. The Jak-STAT pathway is involved in many
biological processes including hematopoiesis,
immunoregulation, host defense, fertility, lactation,
growth, and embryogenesis.
Length = 259
Score = 41.3 bits (97), Expect = 8e-04
Identities = 33/149 (22%), Positives = 64/149 (42%), Gaps = 17/149 (11%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
LGQG F +Y+ R + ++ + L LGS ++L
Sbjct: 3 LGQGTFTNIYKGVLRVQSD--------------LDIVGP-GQEVSVVLKVLGS-DHRDSL 46
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
F +++ L H ++++ GV +D + +V EY+ G L L + +++
Sbjct: 47 AFFETASLMSQLSHKHLVKLYGVCVRDENI-MVEEYVKFGPLDVFLHREKNNVSLHWKLD 105
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
A+ +A+ + YL L+H ++ +N LV
Sbjct: 106 VAKQLASALHYLEDKKLVHGNVCGKNILV 134
>gnl|CDD|173677 cd05586, STKc_Sck1_like, Catalytic domain of Suppressor of loss of
cAMP-dependent protein kinase-like Protein
Serine/Threonine Kinases. Serine/Threonine Kinases
(STKs), Fission yeast Suppressor of loss of
cAMP-dependent protein kinase (Sck1)-like subfamily,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The Sck1-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 fungal proteins
with similarity to the Schizosaccharomyces pombe STK
Sck1. Sck1 plays a role in trehalase activation
triggered by glucose and a nitrogen source. Trehalase
catalyzes the cleavage of the disaccharide trehalose to
glucose. Trehalose, as a carbohydrate reserve and stress
metabolite, plays an important role in the response of
yeast to environmental changes.
Length = 330
Score = 41.8 bits (98), Expect = 8e-04
Identities = 38/157 (24%), Positives = 69/157 (43%), Gaps = 28/157 (17%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+G+G FGQVY+V ++T + +K L SK+ ++ ++
Sbjct: 1 IGKGTFGQVYQVRKKDTRRIYAMKVL--------------SKKEIVAKKEVA-------- 38
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYK---DRKLNLVTEYIAGGTLKELLQDPGQPLPWGQ 604
H + +L +G+ + D L LVT+Y++GG L LQ G+
Sbjct: 39 HTIGERNILVRTLLDESPFIVGLKFSFQTDSDLYLVTDYMSGGELFWHLQKEGR-FS-ED 96
Query: 605 RVNF-ARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
R F ++ + +LH ++++RDL +N L+ G
Sbjct: 97 RAKFYIAELVLALEHLHKYDIVYRDLKPENILLDATG 133
>gnl|CDD|188857 cd09473, LIM2_Lhx4, The second LIM domain of Lhx4. The second
LIM domain of Lhx4. Lhx4 belongs to the LHX protein
family, which features two tandem N-terminal LIM
domains and a C-terminal DNA binding homeodomain.
Members of LHX family are found in the nucleus and act
as transcription factors or cofactors. LHX proteins are
critical for the development of specialized cells in
multiple tissue types, including the nervous system,
skeletal muscle, the heart, the kidneys, and endocrine
organs, such as the pituitary gland and the pancreas.
LHX4 plays essential roles in pituitary gland and
nervous system development. In mice, the lhx4 gene is
expressed in the developing hindbrain, cerebral cortex,
pituitary gland, and spinal cord. LHX4 shows
significant sequence similarity to LHX3, particularly
to isoforms Lhx3a. In gene regulation experiments, the
LHX4 protein exhibits regulation roles towards
pituitary genes, acting on their promoters/enhancers.
As in other LIM domains, this domain family is 50-60
amino acids in size and shares two characteristic zinc
finger motifs. The two zinc fingers contain eight
conserved residues, mostly cysteines and histidines,
which coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein.
Length = 56
Score = 37.7 bits (87), Expect = 9e-04
Identities = 21/56 (37%), Positives = 26/56 (46%), Gaps = 4/56 (7%)
Query: 12 CAGCLNNIVEDEYV-QALSQEWHTDCFRCSACDVML---DNWYFEKDGLLFCKEDY 63
C C I + V +A +H CF C C L D +Y +DG L CKEDY
Sbjct: 1 CTACQQGIPPTQVVRKAQDFVYHLHCFACIICSRQLATGDEFYLMEDGRLVCKEDY 56
Score = 29.6 bits (66), Expect = 0.62
Identities = 18/53 (33%), Positives = 24/53 (45%), Gaps = 4/53 (7%)
Query: 71 CQNCGQMMSGPVMVV---GDHKFHPECFKCTSCSCCIGDGESYALVERSILYC 120
C C Q + P VV D +H CF C CS + G+ + L+E L C
Sbjct: 1 CTACQQGIP-PTQVVRKAQDFVYHLHCFACIICSRQLATGDEFYLMEDGRLVC 52
>gnl|CDD|188798 cd09414, LIM1_LIMPETin, The first LIM domain of protein LIMPETin.
The first LIM domain of protein LIMPETin: LIMPETin
contains 6 LIM domains at the C-terminal and an
N-terminal PET domain. Four of the six LIM domains are
highly homologous to the four and half LIM domain
protein family and two of them show sequence similarity
to the LIM domains of the Testin family. Thus, LIMPETin
may be the recombinant product of genes coding testin
and FHL proteins. In Schistosoma mansoni, where
LIMPETin was first identified, LIMPETin is down
regulated in sexually mature adult Schistosoma females
compared to sexually immature adult females and adult
male. Its differential expression indicates that it is
a transcription regulator. LIM domains are 50-60 amino
acids in size and share two characteristic zinc finger
motifs. The two zinc fingers contain eight conserved
residues, mostly cysteines and histidines, which
coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 58
Score = 37.4 bits (87), Expect = 0.001
Identities = 18/58 (31%), Positives = 25/58 (43%), Gaps = 6/58 (10%)
Query: 12 CAGCLNNIVEDEYVQALSQE-----WHTDCFRCSACDVML-DNWYFEKDGLLFCKEDY 63
C GC + E + WH CFRCS C+ +L D Y D ++C+ Y
Sbjct: 1 CGGCSEPLKYGELAVTAPKFGESLLWHPACFRCSTCEELLVDLTYCVHDDQIYCERHY 58
Score = 29.3 bits (66), Expect = 0.82
Identities = 11/36 (30%), Positives = 17/36 (47%), Gaps = 6/36 (16%)
Query: 71 CQNCGQMMSGPVMVVGDHKF------HPECFKCTSC 100
C C + + + V KF HP CF+C++C
Sbjct: 1 CGGCSEPLKYGELAVTAPKFGESLLWHPACFRCSTC 36
>gnl|CDD|238488 cd00988, PDZ_CTP_protease, PDZ domain of C-terminal processing-,
tail-specific-, and tricorn proteases, which function in
posttranslational protein processing, maturation, and
disassembly or degradation, in Bacteria, Archaea, and
plant chloroplasts. May be responsible for substrate
recognition and/or binding, as most PDZ domains bind
C-terminal polypeptides, and binding to internal
(non-C-terminal) polypeptides and even to lipids has
been demonstrated. In this subfamily of
protease-associated PDZ domains a C-terminal beta-strand
forms the peptide-binding groove base, a circular
permutation with respect to PDZ domains found in
Eumetazoan signaling proteins.
Length = 85
Score = 38.0 bits (89), Expect = 0.001
Identities = 12/38 (31%), Positives = 19/38 (50%)
Query: 288 ADLMSLHLGDRILEVNGTPVRDKPLQEVECLIRNTTDT 325
A + GD I+ ++G PV L++V L+R T
Sbjct: 26 AAKAGIKAGDIIVAIDGEPVDGLSLEDVVKLLRGKAGT 63
>gnl|CDD|173709 cd05619, STKc_nPKC_theta, Catalytic domain of the Protein
Serine/Threonine Kinase, Novel Protein Kinase C theta.
Serine/Threonine Kinases (STKs), Novel Protein Kinase C
(nPKC), theta isoform, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine/threonine residues on protein substrates.
The nPKC 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. PKCs are classified into three groups
(classical, atypical, and novel) depending on their mode
of activation and the structural characteristics of
their regulatory domain. nPKCs are calcium-independent,
but require DAG (1,2-diacylglycerol) and
phosphatidylserine (PS) for activity. There are four
nPKC isoforms, delta, epsilon, eta, and theta. PKC-theta
is selectively expressed in T-cells and plays an
important and non-redundant role in several aspects of
T-cell biology. Although T-cells also express other PKC
isoforms, PKC-theta is unique in that upon antigen
stimulation, it is translocated to the plasma membrane
at the immunological synapse, where it mediates signals
essential for T-cell activation. It is essential for
TCR-induced proliferation, cytokine production, T-cell
survival, and the differentiation and effector function
of T-helper (Th) cells, particularly Th2 and Th17.
PKC-theta is being developed as a therapeutic target for
Th2-mediated allergic inflammation and Th17-mediated
autoimmune diseases.
Length = 316
Score = 41.1 bits (96), Expect = 0.001
Identities = 40/160 (25%), Positives = 68/160 (42%), Gaps = 34/160 (21%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYR----VDEEAEKNFLKESKQGLIYLIDLGSHG 542
+LG+G FG+V+ + T + +K L + +D++ E +++ L + H
Sbjct: 2 MLGKGSFGKVFLAELKGTNQFFAIKALKKDVVLMDDDVECTMVEKRVLSLAW-----EHP 56
Query: 543 LINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQ-PLP 601
+ +L+C Q L V EY+ GG L +Q + LP
Sbjct: 57 FLTHLYCTFQT--------------------KENLFFVMEYLNGGDLMFHIQSCHKFDLP 96
Query: 602 WGQRVNF-ARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
R F A +I G+ +LHS +++RDL N L+ G
Sbjct: 97 ---RATFYAAEIICGLQFLHSKGIVYRDLKLDNILLDTDG 133
>gnl|CDD|188808 cd09424, LIM2_FHL1, The second LIM domain of Four and a half LIM
domains protein 1 (FHL1). The second LIM domain of
Four and a half LIM domains protein 1 (FHL1): FHL1 is
heavily expressed in skeletal and cardiac muscles. It
plays important roles in muscle growth,
differentiation, and sarcomere assembly by acting as a
modulator of transcription factors. Defects in FHL1
gene are responsible for a number of Muscular
dystrophy-like muscle disorders. It has been detected
that FHL1 binds to Myosin-binding protein C, regulating
myosin filament formation and sarcomere assembly. LIM
domains are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein complexes.
Length = 58
Score = 37.0 bits (86), Expect = 0.001
Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 2/58 (3%)
Query: 12 CAGCLNNIVE-DEYVQALSQEWHTDCFRCSAC-DVMLDNWYFEKDGLLFCKEDYNGKY 67
C GC +I+ D+ V+ WH DCF CS C + +F K +C + K+
Sbjct: 1 CKGCYKDILAGDQNVEYKGNVWHKDCFTCSNCKQPIGTKSFFPKGEDFYCVPCHEKKF 58
Score = 29.3 bits (66), Expect = 0.70
Identities = 11/35 (31%), Positives = 18/35 (51%), Gaps = 2/35 (5%)
Query: 90 FHPECFKCTSCSCCIGDGESYALVERSILYCGLCY 124
+H +CF C++C IG S+ + YC C+
Sbjct: 22 WHKDCFTCSNCKQPIGTK-SF-FPKGEDFYCVPCH 54
>gnl|CDD|133207 cd05076, PTK_Tyk2_rpt1, Pseudokinase (repeat 1) domain of the
Protein Tyrosine Kinase, Tyrosine kinase 2. Protein
Tyrosine Kinase (PTK) family; Tyrosine kinase 2 (Tyk2);
pseudokinase domain (repeat 1). The PTKc (catalytic
domain) family to which this subfamily belongs, 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. Tyk2 is a
member of the Janus kinase (Jak) subfamily of proteins,
which are cytoplasmic (or nonreceptor) tyr kinases
containing an N-terminal FERM domain, followed by a Src
homology 2 (SH2) domain, a pseudokinase domain, and a
C-terminal tyr kinase domain. The pseudokinase domain
shows similarity to tyr kinases but lacks crucial
residues for catalytic activity and ATP binding. It
modulates the kinase activity of the C-terminal
catalytic domain. Jaks are crucial for cytokine receptor
signaling. They are activated by autophosphorylation
upon cytokine-induced receptor aggregation, and
subsequently trigger downstream signaling events such as
the phosphorylation of signal transducers and activators
of transcription (STATs). Tyk2 is widely expressed in
many tissues. It is involved in signaling via the
cytokine receptors IFN-alphabeta, IL-6, IL-10, IL-12,
IL-13, and IL-23. It mediates cell surface urokinase
receptor (uPAR) signaling and plays a role in modulating
vascular smooth muscle cell (VSMC) functional behavior
in response to injury. Tyk2 is also important in
dendritic cell function and T helper (Th)1 cell
differentiation. A homozygous mutation of Tyk2 was found
in a patient with hyper-IgE syndrome (HIES), a primary
immunodeficiency characterized by recurrent skin
abscesses, pneumonia, and elevated serum IgE. This
suggests that Tyk2 may play important roles in multiple
cytokine signaling involved in innate and adaptive
immunity.
Length = 274
Score = 41.0 bits (96), Expect = 0.001
Identities = 24/92 (26%), Positives = 48/92 (52%), Gaps = 1/92 (1%)
Query: 550 FSQVAVLRSLHHHNVIRFI-GVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVNF 608
F + A L S H + F+ GV + + +V E++ G L L+ +P ++
Sbjct: 63 FFETASLMSQVSHIHLAFVHGVCVRGSENIMVEEFVEHGPLDVCLRKEKGRVPVAWKITV 122
Query: 609 ARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
A+ +A+ ++YL NL+H ++ ++N L+ +G
Sbjct: 123 AQQLASALSYLEDKNLVHGNVCAKNILLARLG 154
>gnl|CDD|188718 cd09332, LIM2_PINCH, The second LIM domain of protein PINCH. The
second LIM domain of protein PINCH: PINCH plays a
pivotal role in the assembly of focal adhesions (FAs),
regulating diverse functions in cell adhesion, growth,
and differentiation through LIM-mediated protein-protein
interactions. PINCH comprises an array of five LIM
domains that interact with integrin-linked kinase (ILK),
Nck2 (also called Nckbeta or Grb4) and other interaction
partners. These interactions are essential for
triggering the FA assembly and for relaying diverse
mechanical and biochemical signals between
Cell-extracellular matrix and the actin cytoskeleton.
LIM domains are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to support
the assembly of multimeric protein complexes.
Length = 52
Score = 36.9 bits (86), Expect = 0.001
Identities = 12/36 (33%), Positives = 22/36 (61%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSCSCCIGD 106
C CG+ + G V+ ++ +HP+CF+C C+ + D
Sbjct: 1 CGKCGEFVIGRVIKAMNNNWHPDCFRCEICNKELAD 36
Score = 33.8 bits (78), Expect = 0.014
Identities = 13/35 (37%), Positives = 18/35 (51%), Gaps = 1/35 (2%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVML 46
C C V ++A++ WH DCFRC C+ L
Sbjct: 1 CGKC-GEFVIGRVIKAMNNNWHPDCFRCEICNKEL 34
>gnl|CDD|188789 cd09405, LIM1_Paxillin, The first LIM domain of paxillin. The
first LIM domain of paxillin: Paxillin is an adaptor
protein, which recruits key components of the
signal-transduction machinery to specific sub-cellular
locations to respond to environmental changes rapidly.
The C-terminal region of paxillin contains four LIM
domains which target paxillin to focal adhesions,
presumably through a direct association with the
cytoplasmic tail of beta-integrin. The N-terminal of
paxillin is leucine-rich LD-motifs. Paxillin is found
at the interface between the plasma membrane and the
actin cytoskeleton. The binding partners of paxillin
are diverse and include protein tyrosine kinases, such
as Src and FAK, structural proteins, such as vinculin
and actopaxin, and regulators of actin organization.
Paxillin recruits these proteins to their function
sites to control the dynamic changes in cell adhesion,
cytoskeletal reorganization and gene expression. LIM
domains are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight cons erved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein complexes.
Length = 54
Score = 36.9 bits (85), Expect = 0.001
Identities = 17/54 (31%), Positives = 30/54 (55%), Gaps = 2/54 (3%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSAC-DVMLDNWYFEKDGLLFCKEDYN 64
C C I + V A+ + WH + F C+ C + + +FE+DG +C++DY+
Sbjct: 2 CGACKKPIA-GQVVTAMGKTWHPEHFVCTHCQEEIGSRNFFERDGQPYCEKDYH 54
Score = 31.1 bits (70), Expect = 0.16
Identities = 16/47 (34%), Positives = 22/47 (46%), Gaps = 7/47 (14%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSCSCCIG-------DGESY 110
C C + ++G V+ +HPE F CT C IG DG+ Y
Sbjct: 2 CGACKKPIAGQVVTAMGKTWHPEHFVCTHCQEEIGSRNFFERDGQPY 48
>gnl|CDD|188773 cd09387, LIM2_LMO4, The second LIM domain of LMO4 (LIM domain only
protein 4). The second LIM domain of LMO4 (LIM domain
only protein 4): LMO4 is a nuclear protein that plays
important roles in transcriptional regulation and
development. LMO4 is involved in various functions in
tumorigenesis and cellular differentiation. LMO4
proteins regulate gene expression by interacting with a
wide variety of transcription factors and cofactors to
form large transcription complexes. It can interact with
Smad proteins, and associate with the promoter of the
PAI-1 (plasminogen activator inhibitor-1) gene in a
TGFbeta (transforming growth factor beta)-dependent
manner. LMO4 can also form a complex with transcription
regulator CREB (cAMP response element-binding protein)
and interact with CLIM1 and CLIM2. In breast tissue,
LMO4 interacts with multiple proteins, including the
cofactor CtIP [CtBP (C-terminal binding
protein)-interacting protein], the breast and ovarian
tumor suppressor BRCA1 (breast-cancer susceptibility
gene 1) and the LIM-domain-binding protein LDB1.
Functionally, LMO4 is shown to repress BRCA1-mediated
transcription activation, thus invoking a potential role
for LMO4 as a negative regulator of BRCA1 in sporadic
breast cancer. LMO4 also forms complex to both ERa
(oestrogen receptor alpha), MTA1 (metastasis tumor
antigen 1), and HDACs (histone deacetylases), implying
that LMO4 is also a component of the MTA1 corepressor
complex. Over-expressed LMO4 represses ERa
transactivation functions in an HDAC-dependent manner,
and contributes to the process of breast cancer
progression by allowing the development of Era-negative
phenotypes. All LIM domains are 50-60 amino acids in
size and share two characteristic zinc finger motifs.
The two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately bond
to two zinc atoms. LIM domains function as adaptors or
scaffolds to support the assembly of multimeric protein
complexes.
Length = 55
Score = 36.7 bits (85), Expect = 0.001
Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 2/50 (4%)
Query: 71 CQNCGQMM--SGPVMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSIL 118
C CGQ + S VM + +H +CF C++C + G+ + V S+
Sbjct: 1 CSACGQSIPASELVMRAQGNVYHLKCFTCSTCHNQLVPGDRFHYVNGSLF 50
Score = 33.6 bits (77), Expect = 0.023
Identities = 19/55 (34%), Positives = 28/55 (50%), Gaps = 5/55 (9%)
Query: 12 CAGCLNNIVEDEYV-QALSQEWHTDCFRCSACDVML---DNWYFEKDGLLFCKED 62
C+ C +I E V +A +H CF CS C L D +++ +G LFC+ D
Sbjct: 1 CSACGQSIPASELVMRAQGNVYHLKCFTCSTCHNQLVPGDRFHY-VNGSLFCEHD 54
>gnl|CDD|173729 cd06617, PKc_MKK3_6, Catalytic domain of the dual-specificity
Protein Kinases, MAP kinase kinases 3 and 6. Protein
kinases (PKs), MAP kinase kinase 3 (MKK3) and MKK6
subfamily, catalytic (c) domain. PKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine or tyrosine residues on protein
substrates. The MKK3 and MKK6 subfamily is part of a
larger superfamily that includes the catalytic domains
of other protein serine/threonine kinases, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and phosphoinositide
3-kinase. The mitogen-activated protein (MAP) kinase
signaling pathways are important mediators of cellular
responses to extracellular signals. The pathways involve
a triple kinase core cascade comprising the MAP kinase
(MAPK), which is phosphorylated and activated by a MAPK
kinase (MAPKK or MKK), which itself is phosphorylated
and activated by a MAPK kinase kinase (MAPKKK or MKKK).
MKK3 and MKK6 are dual-specificity PKs that
phosphorylate and activate their downstream target, p38
MAPK, on specific threonine and tyrosine residues.
MKK3/6 plays roles in the regulation of cell cycle
progression, cytokine- and stress-induced apoptosis,
oncogenic transformation, and adult tissue regeneration.
In addition, MKK6 plays a critical role in osteoclast
survival in inflammatory disease while MKK3 is
associated with tumor invasion, progression, and poor
patient survival in glioma.
Length = 283
Score = 40.5 bits (95), Expect = 0.002
Identities = 40/165 (24%), Positives = 70/165 (42%), Gaps = 30/165 (18%)
Query: 481 DLVRGPLLGQGFFGQVYRVTHRETGEVMVLKEL-YRVDEEAEKNFLKESKQGLIYLIDLG 539
DL LG+G +G V ++ H TG +M +K + V+ + +K L +DL
Sbjct: 2 DLEVIEELGRGAYGVVDKMRHVPTGTIMAVKRIRATVNSQEQKRLL----------MDLD 51
Query: 540 SHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQ---DP 596
+RS+ + F G L+++ + + E + +L + + D
Sbjct: 52 --------------ISMRSVDCPYTVTFYGALFREGDVWICME-VMDTSLDKFYKKVYDK 96
Query: 597 GQPLPWGQRVNFARDIAAGMTYLHS-MNLIHRDLNSQNCLVREVG 640
G +P A I + YLHS +++IHRD+ N L+ G
Sbjct: 97 GLTIPEDILGKIAVSIVKALEYLHSKLSVIHRDVKPSNVLINRNG 141
>gnl|CDD|133235 cd05104, PTKc_Kit, Catalytic domain of the Protein Tyrosine Kinase,
Kit. Protein Tyrosine Kinase (PTK) family; Kit (or
c-Kit); catalytic (c) domain. 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. Kit is a member of the
Platelet Derived Growth Factor Receptor (PDGFR)
subfamily of proteins, which are receptor tyr kinases
(RTKs) containing an extracellular ligand-binding region
with five immunoglobulin-like domains, a transmembrane
segment, and an intracellular catalytic domain. The
binding of Kit to its ligand, the stem-cell factor
(SCF), leads to receptor dimerization, trans
phosphorylation and activation, and intracellular
signaling. Kit is important in the development of
melanocytes, germ cells, mast cells, hematopoietic stem
cells, the interstitial cells of Cajal, and the
pacemaker cells of the GI tract. Kit signaling is
involved in major cellular functions including cell
survival, proliferation, differentiation, adhesion, and
chemotaxis. Mutations in Kit, which result in
constitutive ligand-independent activation, are found in
human cancers such as gastrointestinal stromal tumor
(GIST) and testicular germ cell tumor (TGCT). The
aberrant expression of Kit and/or SCF is associated with
other tumor types such as systemic mastocytosis and
cancers of the breast, neurons, lung, prostate, colon,
and rectum. Although the structure of the human Kit
catalytic domain is known, it is excluded from this
specific alignment model because it contains a deletion
in its sequence.
Length = 375
Score = 41.0 bits (96), Expect = 0.002
Identities = 20/62 (32%), Positives = 33/62 (53%)
Query: 575 RKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNC 634
R+ YI E+L++ L ++F+ +A GM++L S N IHRDL ++N
Sbjct: 186 RRSVRSGSYIDQDVTSEILEEDELALDTEDLLSFSYQVAKGMSFLASKNCIHRDLAARNI 245
Query: 635 LV 636
L+
Sbjct: 246 LL 247
>gnl|CDD|188844 cd09460, LIM3_ZASP_Cypher, The third LIM domain of ZASP/Cypher
family. The third LIM domain of ZASP/Cypher family:
ZASP was identified in human heart and skeletal muscle
and Cypher is a mice ortholog of ZASP. ZASP/Cyppher
contains three LIM domains at the C-terminus and a PDZ
domain at N-terminus. ZASP/Cypher is required for
maintenance of Z-line structure during muscle
contraction, but not required for Z-line assembly. In
heart, Cypher/ZASP plays a structural role through its
interaction with cytoskeletal Z-line proteins. In
addition, there is increasing evidence that Cypher/ZASP
also performs signaling functions. Studies reveal that
Cypher/ZASP interacts with and directs PKC to the
Z-line, where PKC phosphorylates downstream signaling
targets. LIM domains are 50-60 amino acids in size and
share two characteristic zinc finger motifs. The two
zinc fingers contain eight conserved residues, mostly
cysteines and histidines, which coordinately bond to
two zinc atoms. LIM domains function as adaptors or
scaffolds to support the assembly of multimeric protein
complexes.
Length = 55
Score = 36.6 bits (84), Expect = 0.002
Identities = 22/54 (40%), Positives = 32/54 (59%), Gaps = 6/54 (11%)
Query: 12 CAGCLNNIVE--DEYVQALSQEWHTDCFRCSACDVMLDN--WYFEKDGLLFCKE 61
C GC + VE D++++AL WH CF C+ C V L+ +Y +KD L CK+
Sbjct: 1 CHGC-DFPVEAGDKFIEALGHTWHDTCFICAVCHVNLEGQPFYSKKDKPL-CKK 52
>gnl|CDD|143373 cd07868, STKc_CDK8, Catalytic domain of the Serine/Threonine
Kinase, Cyclin-Dependent protein Kinase 8.
Serine/Threonine Kinases (STKs), Cyclin-Dependent
protein Kinase 8 (CDK8) subfamily, catalytic (c) domain.
STKs catalyze the transfer of the gamma-phosphoryl group
from ATP to serine/threonine residues on protein
substrates. The CDK8 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. CDK8
can act 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. CDK8 phosphorylates cyclin
H, a subunit of the general transcription factor TFIIH,
which results in the inhibition of TFIIH-dependent
phosphorylation of the C-terminal domain (CTD) of RNAP
II, facilitating the inhibition of transcription. It has
also been shown to promote transcription by a mechanism
that is likely to involve RNAP II phosphorylation. CDK8
also functions as a stimulus-specific positive
coregulator of p53 transcriptional responses.
Length = 317
Score = 40.8 bits (95), Expect = 0.002
Identities = 42/162 (25%), Positives = 70/162 (43%), Gaps = 36/162 (22%)
Query: 485 GPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLI 544
G +G+G +G VY+ R D + ++++ + +G G+
Sbjct: 6 GCKVGRGTYGHVYKAK--------------RKDGKDDRDYALKQIEGT---------GI- 41
Query: 545 NNLHCFSQVAVLRSLHHHNVIRFIGVL--YKDRKLNLVTEY--------IAGGTLKELLQ 594
++ ++A+LR L H NVI V + DRK+ L+ +Y I + +
Sbjct: 42 -SMSACREIALLRELKHPNVISLQKVFLSHADRKVWLLFDYAEHDLWHIIKFHRASKANK 100
Query: 595 DPGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
P Q LP G + I G+ YLH+ ++HRDL N LV
Sbjct: 101 KPVQ-LPRGMVKSLLYQILDGIHYLHANWVLHRDLKPANILV 141
>gnl|CDD|188739 cd09353, LIM2_Zyxin, The second LIM domain of Zyxin. The second
LIM domain of Zyxin: Zyxin exhibits three copies of the
LIM domain, an extensive proline-rich domain and a
nuclear export signal. Localized at sites of
cellsubstratum adhesion in fibroblasts, Zyxin interacts
with alpha-actinin, members of the cysteine-rich protein
(CRP) family, proteins that display Src homology 3 (SH3)
domains and Ena/VASP family members. Zyxin and its
partners have been implicated in the spatial control of
actin filament assembly as well as in pathways important
for cell differentiation. In addition to its functions
at focal adhesion plaques, recent work has shown that
zyxin moves from the sites of cell contacts to the
nucleus, where it directly participates in the
regulation of gene expression. As in other LIM domains,
this domain family is 50-60 amino acids in size and
shares two characteristic zinc finger motifs. The two
zinc fingers contain eight conserved residues, mostly
cysteines and histidines, which coordinately bond to two
zinc atoms. LIM domains function as adaptors o r
scaffolds to support the assembly of multimeric protein.
Length = 60
Score = 36.8 bits (85), Expect = 0.002
Identities = 17/60 (28%), Positives = 31/60 (51%), Gaps = 1/60 (1%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYCGLCYKRQMQP 130
C C Q ++ ++ +HP+CF C C C + +GES+ + + + +C Y R+ P
Sbjct: 1 CAVCDQKITDRMLKATGKSYHPQCFTCVVCKCPL-EGESFIVDQANQPHCVNDYHRRYAP 59
Score = 29.9 bits (67), Expect = 0.58
Identities = 17/58 (29%), Positives = 26/58 (44%), Gaps = 3/58 (5%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWYF--EKDGLLFCKEDYNGKY 67
CA C I D ++A + +H CF C C L+ F ++ C DY+ +Y
Sbjct: 1 CAVCDQKIT-DRMLKATGKSYHPQCFTCVVCKCPLEGESFIVDQANQPHCVNDYHRRY 57
>gnl|CDD|188714 cd09328, LIM2_abLIM, The second LIM domain on actin binding LIM
(abLIM) proteins. The second LIM domain of actin
binding LIM (abLIM) proteins: Three homologous members
of the abLIM protein family have been identified;
abLIM-1, abLIM-2 and abLIM-3. The N-terminal of abLIM
consists of four tandem repeats of LIM domains and the
C-terminal of acting binding LIM protein is a villin
headpiece domain, which has strong actin binding
activity. The abLIM-1, which is expressed in retina,
brain, and muscle tissue, has been indicated to function
as a tumor suppressor. AbLIM-2 and -3, mainly expressed
in muscle and neuronal tissue, bind to F-actin strongly.
They may serve as a scaffold for signaling modules of
the actin cytoskeleton and thereby modulate
transcription. It has shown that LIM domains of abLIMs
interact with STARS (striated muscle activator of Rho
signaling), which directly binds actin and stimulates
serum-response factor (SRF)-dependent transcription. All
LIM domains are 50-60 amino acids in size and share two
characteristic highly conserved zinc finger motifs. The
two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately bond
to two zinc atoms. LIM domains function as adaptors or
scaffolds to support the assembly of multimeric protein
complexes.
Length = 56
Score = 36.6 bits (85), Expect = 0.002
Identities = 11/33 (33%), Positives = 17/33 (51%)
Query: 68 GEACQNCGQMMSGPVMVVGDHKFHPECFKCTSC 100
G C +C + G V+ +HP+CF C+ C
Sbjct: 1 GTKCDSCQDFVEGEVVSALGKTYHPKCFVCSVC 33
Score = 36.6 bits (85), Expect = 0.002
Identities = 14/31 (45%), Positives = 17/31 (54%), Gaps = 1/31 (3%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSAC 42
C C + VE E V AL + +H CF CS C
Sbjct: 4 CDSC-QDFVEGEVVSALGKTYHPKCFVCSVC 33
>gnl|CDD|132949 cd06618, PKc_MKK7, Catalytic domain of the dual-specificity Protein
Kinase, MAP kinase kinase 7. Protein kinases (PKs), MAP
kinase kinase 7 (MKK7) subfamily, catalytic (c) domain.
PKs catalyze the transfer of the gamma-phosphoryl group
from ATP to serine/threonine or tyrosine residues on
protein substrates. The MKK7 subfamily is part of a
larger superfamily that includes the catalytic domains
of other protein serine/threonine kinases, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and phosphoinositide
3-kinase. The mitogen-activated protein (MAP) kinase
signaling pathways are important mediators of cellular
responses to extracellular signals. The pathways involve
a triple kinase core cascade comprising the MAP kinase
(MAPK), which is phosphorylated and activated by a MAPK
kinase (MAPKK or MKK), which itself is phosphorylated
and activated by a MAPK kinase kinase (MAPKKK or MKKK).
MKK7 is a dual-specificity PK that phosphorylates and
activates its downstream target, c-Jun N-terminal kinase
(JNK), on specific threonine and tyrosine residues.
Although MKK7 is capable of dual phosphorylation, it
prefers to phosphorylate the threonine residue of JNK.
Thus, optimal activation of JNK requires both MKK4 (not
included in this subfamily) and MKK7. MKK7 is primarily
activated by cytokines. MKK7 is essential for liver
formation during embryogenesis. It plays roles in G2/M
cell cycle arrest and cell growth. In addition, it is
involved in the control of programmed cell death, which
is crucial in oncogenesis, cancer chemoresistance, and
antagonism to TNFalpha-induced killing, through its
inhibition by Gadd45beta and the subsequent suppression
of the JNK cascade.
Length = 296
Score = 40.4 bits (95), Expect = 0.002
Identities = 43/169 (25%), Positives = 68/169 (40%), Gaps = 41/169 (24%)
Query: 481 DLVRGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGS 540
DL +G G GQVY++ ++TG VM +K++ R + E + L+DL
Sbjct: 16 DLENLGEIGSGTCGQVYKMRFKKTGHVMAVKQMRRTGNKEENKRI---------LMDL-- 64
Query: 541 HGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPL 600
V VL+S +++ G D + + E + L +LL+ P+
Sbjct: 65 -----------DV-VLKSHDCPYIVKCYGYFITDSDVFICME-LMSTCLDKLLKRIQGPI 111
Query: 601 PWGQRVNFARDIAAGMTY-----LHSM----NLIHRDLNSQNCLVREVG 640
P DI MT LH + +IHRD+ N L+ G
Sbjct: 112 P--------EDILGKMTVAIVKALHYLKEKHGVIHRDVKPSNILLDASG 152
>gnl|CDD|173673 cd05582, STKc_RSK_N, N-terminal catalytic domain of the Protein
Serine/Threonine Kinase, 90 kDa ribosomal protein S6
kinase. Serine/Threonine Kinases (STKs), 90 kDa
ribosomal protein S6 kinase (RSK) subfamily, N-terminal
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The RSK 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. RSKs contain an
N-terminal kinase domain (NTD) from the AGC family and a
C-terminal kinase domain (CTD) from the CAMK family.
They are activated by signaling inputs from
extracellular regulated kinase (ERK) and
phosphoinositide dependent kinase 1 (PDK1). ERK
phosphorylates and activates the CTD of RSK, serving as
a docking site for PDK1, which phosphorylates and
activates the NTD, which in turn phosphorylates all
known RSK substrates. RSKs act as downstream effectors
of mitogen-activated protein kinase (MAPK) and play key
roles in mitogen-activated cell growth, differentiation,
and survival. Mammals possess four RSK isoforms (RSK1-4)
from distinct genes. RSK proteins are also referred to
as MAP kinase-activated protein kinases (MAPKAPKs),
p90-RSKs, or p90S6Ks.
Length = 318
Score = 40.6 bits (95), Expect = 0.002
Identities = 42/173 (24%), Positives = 70/173 (40%), Gaps = 59/173 (34%)
Query: 487 LLGQGFFGQVY---RVTHRETGEVMVLKELY--------RVDEEAEKNFLKESKQGLIYL 535
+LGQG FG+V+ ++T + G++ +K L RV + E++ L E
Sbjct: 3 VLGQGSFGKVFLVRKITGPDAGQLYAMKVLKKATLKVRDRVRTKMERDILAEV------- 55
Query: 536 IDLGSHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQD 595
+H I LH Q + KL L+ +++ GG L L
Sbjct: 56 ----NHPFIVKLHYAFQT--------------------EGKLYLILDFLRGGDLFTRLS- 90
Query: 596 PGQPLPWGQRVNFARD--------IAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
+ V F + +A + +LHS+ +I+RDL +N L+ E G
Sbjct: 91 --------KEVMFTEEDVKFYLAELALALDHLHSLGIIYRDLKPENILLDEEG 135
>gnl|CDD|188741 cd09355, LIM2_Ajuba_like, The second LIM domain of Ajuba-like
proteins. The second LIM domain of Ajuba-like
proteins: Ajuba like LIM protein family includes three
highly homologous proteins Ajuba, Limd1, and WTIP.
Members of the family contain three tandem C-terminal
LIM domains and a proline-rich N-terminal region. This
family of proteins functions as scaffolds,
participating in the assembly of numerous protein
complexes. In the cytoplasm, Ajuba binds Grb2 to
modulate serum-stimulated ERK activation. Ajuba also
recruits the TNF receptor-associated factor 6 (TRAF6)
to p62 and activates PKCKappa activity. Ajuba interacts
with alpha-catenin and F-actin to contribute to the
formation or stabilization of adheren junctions by
linking adhesive receptors to the actin cytoskeleton.
Although Ajuba is a cytoplasmic protein, it can shuttle
into the nucleus. In nucleus, Ajuba functions as a
corepressor for the zinc finger-protein Snail. It binds
to the SNAG repression domain of Snail through its LIM
region. Arginine methyltransferase-5 (Prmt5), a
protein in the complex, is recruited to Snai l through
an interaction with Ajuba. This ternary complex
functions to repress E-cadherin, a Snail target gene.
In addition, Ajuba contains functional nuclear-receptor
interacting motifs and selectively interacts with
retinoic acid receptors (RARs) and rexinoid receptor
(RXRs) to negatively regulate retinoic acid signaling.
Wtip, the Wt1-interacting protein, was originally
identified as an interaction partner of the Wilms
tumour protein 1 (WT1). Wtip is involved in kidney and
neural crest development. Wtip interacts with the
receptor tyrosine kinase Ror2 and inhibits canonical
Wnt signaling. LIMD1 was reported to inhibit cell
growth and metastases. The inhibition may be mediated
through an interaction with the protein
barrier-to-autointegration (BAF), a component of
SWI/SNF chromatin-remodeling protein; or through the
interaction with retinoblastoma protein (pRB),
resulting in inhibition of E2F-mediated transcription,
and expression of the majority of genes with E2F1-
responsive elements. Recently, Limd1 was shown to
interact with the p62/sequestosome protein and
influence IL-1 and RANKL signaling by facilitating the
assembly of a p62/TRAF6/a-PKC multi-protein complex.
The Limd1-p62 interaction affects both NF-kappaB and
AP-1 activity in epithelial cells and osteoclasts.
Moreover, LIMD1 functions as tumor repressor to block
lung tumor cell line in vitro and in vivo. Recent
studies revealed that LIM proteins Wtip, LIMD1 and
Ajuba interact with components of RNA induced silencing
complexes (RISC) as well as eIF4E and the mRNA m7GTP
cap-protein complex and are required for
microRNA-mediated gene silencing. As in other LIM
domains, this domain family is 50-60 amino acids in
size and shares two characteristic zinc finger motifs.
The two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately
bond to two zinc atoms. LIM domains function as
adaptors or scaffolds to support the assembly of
multimeric protein.
Length = 53
Score = 36.2 bits (84), Expect = 0.002
Identities = 20/54 (37%), Positives = 31/54 (57%), Gaps = 3/54 (5%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWYF--EKDGLLFCKEDY 63
CA C + I+E +QAL + +H CFRC C+ LD F + + ++C +DY
Sbjct: 1 CAVCGHLIME-MILQALGKSYHPGCFRCCVCNECLDGVPFTVDVENNIYCVKDY 53
Score = 31.9 bits (73), Expect = 0.080
Identities = 14/50 (28%), Positives = 26/50 (52%), Gaps = 1/50 (2%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYC 120
C CG ++ ++ +HP CF+C C+ C+ DG + + + +YC
Sbjct: 1 CAVCGHLIMEMILQALGKSYHPGCFRCCVCNECL-DGVPFTVDVENNIYC 49
>gnl|CDD|173696 cd05605, STKc_GRK4_like, Catalytic domain of G protein-coupled
Receptor Kinase 4-like Protein Serine/Threonine Kinases.
Serine/Threonine Kinases (STKs), G protein-coupled
Receptor Kinase (GRK) subfamily, GRK4-like group,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The GRK 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. GRKs
phosphorylate and regulate G protein-coupled receptors
(GPCRs), the largest superfamily of cell surface
receptors which regulate some part of nearly all
physiological functions. Phosphorylated GPCRs bind to
arrestins, which prevents further G protein signaling
despite the presence of activating ligand. There are
seven types of GRKs, named GRK1 to GRK7. Members of the
GRK4-like group include GRK4, GRK5, GRK6, and similar
GRKs. GRKs in this group contain an N-terminal RGS
homology (RH) domain and a catalytic domain, but lack a
G protein betagamma-subunit binding domain. They are
localized to the plasma membrane through
post-translational lipid modification or direct binding
to PIP2.
Length = 285
Score = 40.2 bits (94), Expect = 0.002
Identities = 40/155 (25%), Positives = 67/155 (43%), Gaps = 23/155 (14%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
+LG+G FG+V R TG++ K+L EK +K+ K + L
Sbjct: 7 VLGKGGFGEVCACQVRATGKMYACKKL-------EKKRIKKRKGEAMAL----------- 48
Query: 547 LHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRV 606
++ +L ++ V+ L LV + GG LK + + G P +R
Sbjct: 49 ----NEKQILEKVNSRFVVSLAYAYETKDALCLVLTLMNGGDLKFHIYNMGNPGFDEERA 104
Query: 607 NF-ARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
F A +I G+ LH +++RDL +N L+ + G
Sbjct: 105 VFYAAEITCGLEDLHRERIVYRDLKPENILLDDYG 139
>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 = 40.3 bits (94), Expect = 0.002
Identities = 44/179 (24%), Positives = 76/179 (42%), Gaps = 34/179 (18%)
Query: 467 FRVEASKSRIFRASDLVRGPL-LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFL 525
+R E +K+ I+ D R +G G +G V R TG + +K+LYR + + F
Sbjct: 2 YRQEVNKT-IWEVPDRYRDLKQVGSGAYGTVCSALDRRTGAKVAIKKLYRPFQS--ELFA 58
Query: 526 KESKQGLIYLIDLGSHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEY-- 583
K + + ++ +L+ + H NVI + V D L+ ++
Sbjct: 59 KRA---------------------YRELRLLKHMKHENVIGLLDVFTPDLSLDRFHDFYL 97
Query: 584 ---IAGGTLKELLQDPGQPLPWGQRVNF-ARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
G L +L++ + L R+ F + G+ Y+H+ +IHRDL N V E
Sbjct: 98 VMPFMGTDLGKLMKH--EKLS-EDRIQFLVYQMLKGLKYIHAAGIIHRDLKPGNLAVNE 153
>gnl|CDD|188817 cd09433, LIM4_FHL2, The fourth LIM domain of Four and a half LIM
domains protein 2 (FHL2). The fourth LIM domain of
Four and a half LIM domains protein 2 (FHL2): FHL2 is
one of the best studied FHL proteins. FHL2 expression
is most abundant in the heart, and in brain, liver and
lung to a lesser extent. FHL2 participates in a wide
range of cellular processes, such as transcriptional
regulation, signal transduction, and cell survival by
binding to various protein partners. FHL2 has shown to
interact with more than 50 different proteins,
including receptors, structural proteins, transcription
factors and cofactors, signal transducers, splicing
factors, DNA replication and repair enzymes, and
metabolic enzymes. Although FHL2 is abundantly
expressed in heart, the fhl2 null mice are viable and
had no detectable abnormal cardiac phenotype. LIM
domains are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to s
upport the assembly of multimeric protein complexes.
Length = 58
Score = 36.5 bits (84), Expect = 0.002
Identities = 21/55 (38%), Positives = 28/55 (50%), Gaps = 6/55 (10%)
Query: 12 CAGCLNNIVE---DEYVQALSQEWHTDCFRCSACDVMLDNWYF--EKDGLLFCKE 61
CAGC N I +Y+ ++WH DCF C C + L F E+D +L C E
Sbjct: 1 CAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDIL-CPE 54
>gnl|CDD|188843 cd09459, LIM3_ENH, The third LIM domain of the Enigma Homolog
(ENH) family. The third LIM domain of the Enigma
Homolog (ENH) family: ENH was initially identified in
rat brain. Same as enigma, it contains three LIM
domains at the C-terminus and a PDZ domain at
N-terminus. ENH is implicated in signal transduction
processes involving protein kinases. It has also been
shown that ENH interacts with protein kinase D1 (PKD1)
via its LIM domains and forms a complex with PKD1 and
the alpha1C subunit of cardiac L-type voltage-gated
calcium channel in rat neonatal cardiomyocytes. The
N-terminal PDZ domain interacts with alpha-actinin at
the Z-line. ENH is expressed in multiple tissues, such
as skeletal muscle, heart, bone, and brain. LIM domains
are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein complexes.
Length = 55
Score = 36.1 bits (83), Expect = 0.003
Identities = 19/52 (36%), Positives = 25/52 (48%), Gaps = 2/52 (3%)
Query: 12 CAGCLNNI-VEDEYVQALSQEWHTDCFRCSACDVMLDNW-YFEKDGLLFCKE 61
C GC I D +++AL WH CF CS C L+ +F K CK+
Sbjct: 1 CHGCEFPIEAGDRFLEALGHTWHDTCFVCSVCCESLEGQTFFSKKDKPLCKK 52
>gnl|CDD|188797 cd09413, LIM1_Testin, The first LIM domain of Testin. The first
LIM domain of Testin: Testin contains three C-terminal
LIM domains and a PET protein-protein interaction
domain at the N-terminal. Testin is a cytoskeleton
associated focal adhesion protein that localizes along
actin stress fibers, at cell-cell-contact areas, and at
focal adhesion plaques. Testin interacts with a variety
of cytoskeletal proteins, including zyxin, mena, VASP,
talin, and actin and it is involved in cell motility
and adhesion events. Knockout mice experiments reveal
that tumor repressor function of Testin. LIM domains
are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein complexes.
Length = 58
Score = 36.3 bits (84), Expect = 0.003
Identities = 15/33 (45%), Positives = 21/33 (63%), Gaps = 1/33 (3%)
Query: 32 WHTDCFRCSAC-DVMLDNWYFEKDGLLFCKEDY 63
WH CF CS C ++++D YF K+G L+C Y
Sbjct: 26 WHPACFVCSTCGELLVDMIYFWKNGKLYCGRHY 58
>gnl|CDD|173333 PTZ00036, PTZ00036, glycogen synthase kinase; Provisional.
Length = 440
Score = 40.4 bits (94), Expect = 0.003
Identities = 40/189 (21%), Positives = 76/189 (40%), Gaps = 54/189 (28%)
Query: 458 DLSRTRSRSFRVEASKSRIFRASDLVRGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVD 517
D++R+ ++S+++ G ++G G FG VY +T E + +K++ +
Sbjct: 59 DINRSPNKSYKL---------------GNIIGNGSFGVVYEAICIDTSEKVAIKKV--LQ 101
Query: 518 EEAEKNFLKESKQGLIYLIDLGSHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLY----- 572
+ KN ++ ++++L+H N+I Y
Sbjct: 102 DPQYKN---------------------------RELLIMKNLNHINIIFLKDYYYTECFK 134
Query: 573 KDRK---LNLVTEYIAGGTLKEL--LQDPGQPLPWGQRVNFARDIAAGMTYLHSMNLIHR 627
K+ K LN+V E+I K + LP ++ + + Y+HS + HR
Sbjct: 135 KNEKNIFLNVVMEFIPQTVHKYMKHYARNNHALPLFLVKLYSYQLCRALAYIHSKFICHR 194
Query: 628 DLNSQNCLV 636
DL QN L+
Sbjct: 195 DLKPQNLLI 203
>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 = 39.9 bits (94), Expect = 0.003
Identities = 38/164 (23%), Positives = 67/164 (40%), Gaps = 53/164 (32%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELY---RVDEEAEKNFLKESKQGLIYLIDLGSHGLI 544
LG+G +G V++ R T EV+ LK+++ R +A++ F
Sbjct: 15 LGKGAYGIVWKAIDRRTKEVVALKKIFDAFRNATDAQRTF-------------------- 54
Query: 545 NNLHCFSQVAVLRSLHHH-NVIRFIGVLYK---DRKLNLVTEY--------IAGGTLKEL 592
++ L+ L H N+++ + V K D+ + LV EY I L+++
Sbjct: 55 ------REIMFLQELGDHPNIVKLLNV-IKAENDKDIYLVFEYMETDLHAVIRANILEDV 107
Query: 593 LQDPGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
+ + + Y+HS N+IHRDL N L+
Sbjct: 108 -----------HKRYIMYQLLKALKYIHSGNVIHRDLKPSNILL 140
>gnl|CDD|132947 cd06616, PKc_MKK4, Catalytic domain of the dual-specificity Protein
Kinase, MAP kinase kinase 4. Protein kinases (PKs), MAP
kinase kinase 4 (MKK4) subfamily, catalytic (c) domain.
PKs catalyze the transfer of the gamma-phosphoryl group
from ATP to serine/threonine or tyrosine residues on
protein substrates. The MKK4 subfamily is part of a
larger superfamily that includes the catalytic domains
of other protein serine/threonine kinases, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and phosphoinositide
3-kinase. The mitogen-activated protein (MAP) kinase
signaling pathways are important mediators of cellular
responses to extracellular signals. The pathways involve
a triple kinase core cascade comprising of the MAP
kinase (MAPK), which is phosphorylated and activated by
a MAPK kinase (MAPKK or MKK), which itself is
phosphorylated and activated by a MAPK kinase kinase
(MAPKKK or MKKK). MKK4 is a dual-specificity PK that
phosphorylates and activates the downstream targets,
c-Jun N-terminal kinase (JNK) and p38 MAPK, on specific
threonine and tyrosine residues. 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. Their
activation is associated with the induction of cell
death. Mice deficient in MKK4 die during embryogenesis
and display anemia, severe liver hemorrhage, and
abnormal hepatogenesis. MKK4 may also play roles in the
immune system and in cardiac hypertrophy. It plays a
major role in cancer as a tumor and metastasis
suppressor. Under certain conditions, MKK4 is
pro-oncogenic.
Length = 288
Score = 39.7 bits (93), Expect = 0.003
Identities = 18/52 (34%), Positives = 30/52 (57%), Gaps = 1/52 (1%)
Query: 477 FRASDLVRGPLLGQGFFGQVYRVTHRETGEVMVLKEL-YRVDEEAEKNFLKE 527
F A DL +G+G FG V ++ H+ +G +M +K + VDE+ +K L +
Sbjct: 1 FTAEDLKDLGEIGRGAFGTVNKMLHKPSGTIMAVKRIRSTVDEKEQKRLLMD 52
>gnl|CDD|173701 cd05610, STKc_MASTL, Catalytic domain of the Protein
Serine/Threonine Kinase, Microtubule-associated
serine/threonine-like kinase. Serine/Threonine Kinases
(STKs), Microtubule-associated serine/threonine (MAST)
kinase subfamily, MAST-like (MASTL) kinases, catalytic
(c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The MAST kinase
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. MAST kinases contain an N-terminal domain of
unknown function, a central catalytic domain, and a
C-terminal PDZ domain that mediates protein-protein
interactions. The MASTL kinases in this group carry only
a catalytic domain, which contains a long insertion
relative to MAST kinases. The human MASTL gene has also
been labelled FLJ14813. A missense mutation in FLJ14813
is associated with autosomal dominant thrombocytopenia.
To date, the function of MASTL is unknown.
Length = 669
Score = 40.2 bits (94), Expect = 0.003
Identities = 27/79 (34%), Positives = 39/79 (49%), Gaps = 9/79 (11%)
Query: 579 LVTEYIAGGTLKELLQDPG---QPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCL 635
LV EY+ GG +K LL G + + V + ++A + YLH +IHRDL N L
Sbjct: 81 LVMEYLIGGDVKSLLHIYGYFDEEMA----VKYISEVALALDYLHRHGIIHRDLKPDNML 136
Query: 636 VREVG--SGFDFHLGQIYL 652
+ G DF L ++ L
Sbjct: 137 ISNEGHIKLTDFGLSKVTL 155
>gnl|CDD|88519 cd05618, STKc_aPKC_iota, Catalytic domain of the Protein
Serine/Threonine Kinase, Atypical Protein Kinase C iota.
Serine/Threonine Kinases (STKs), Atypical Protein
Kinase C (aPKC) subfamily, iota isoform, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The aPKC 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. PKCs are
classified into three groups (classical, atypical, and
novel) depending on their mode of activation and the
structural characteristics of their regulatory domain.
aPKCs only require phosphatidylserine (PS) for
activation. There are two aPKC isoforms, zeta and iota.
PKC-iota is directly implicated in carcinogenesis. It is
critical to oncogenic signaling mediated by Ras and
Bcr-Abl. The PKC-iota gene is the target of
tumor-specific gene amplification in many human cancers,
and has been identified as a human oncogene. In addition
to its role in transformed growth, PKC-iota also
promotes invasion, chemoresistance, and tumor cell
survival. Expression profiling of PKC-iota is a
prognostic marker of poor clinical outcome in several
human cancers. PKC-iota also plays a role in
establishing cell polarity, and has critical embryonic
functions.
Length = 329
Score = 40.0 bits (93), Expect = 0.003
Identities = 33/156 (21%), Positives = 69/156 (44%), Gaps = 26/156 (16%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYR--VDEEAEKNFLKESKQGLIYLIDLGSHGLI 544
++G+G + +V V ++T + +K + + V+++ + ++++ K
Sbjct: 2 VIGRGSYAKVLLVRLKKTERIYAMKVVKKELVNDDEDIDWVQTEK--------------- 46
Query: 545 NNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQ 604
H F Q + +H ++ + +L V EY+ GG L +Q + LP
Sbjct: 47 ---HVFEQAS-----NHPFLVGLHSCFQTESRLFFVIEYVNGGDLMFHMQRQ-RKLPEEH 97
Query: 605 RVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
++ +I+ + YLH +I+RDL N L+ G
Sbjct: 98 ARFYSAEISLALNYLHERGIIYRDLKLDNVLLDSEG 133
>gnl|CDD|188712 cd09326, LIM_CRP_like, The LIM domains of Cysteine Rich Protein
(CRP) family. The LIM domains of Cysteine Rich Protein
(CRP) family: Cysteine-rich proteins (CRPs) are
characterized by the presence of two LIM domains linked
to a short glycine-rich repeats (GRRs). The known CRP
family members include CRP1, CRP2, and CRP3/MLP. CRP1,
CRP2 and CRP3 share a conserved nuclear targeting
signal (K/R-K/R-Y-G-P-K), which supports the fact that
these proteins function not only in the cytoplasm but
also in the nucleus. CRPs control regulatory pathways
during cellular differentiation, and involve in complex
transcription control, and the organization as well as
the arrangement of the myofibrillar/cytoskeletal
network. CRP1, CRP2, and CRP3/MLP are involved in
promoting protein assembly along the actin-based
cytoskeleton. All LIM domains are 50-60 amino acids in
size and share two characteristic zinc finger motifs.
The two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately
bond to two zinc atoms. LIM domains function as
adaptors or scaffolds to support the assembly of
multimeric protein complexes.
Length = 53
Score = 35.6 bits (83), Expect = 0.003
Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 23 EYVQALSQEWHTDCFRCSACDVMLDNWYF-EKDGLLFCK 60
E V A + WH CF C+ C+ LD+ E DG ++CK
Sbjct: 12 EEVIAAGKSWHKSCFTCAVCNKRLDSTTLAEHDGEIYCK 50
Score = 30.6 bits (70), Expect = 0.20
Identities = 12/49 (24%), Positives = 17/49 (34%), Gaps = 16/49 (32%)
Query: 83 MVVGDHKFHPECFKCTSC-------SCCIGDGESYALVERSILYCGLCY 124
++ +H CF C C + DGE +YC CY
Sbjct: 14 VIAAGKSWHKSCFTCAVCNKRLDSTTLAEHDGE---------IYCKSCY 53
>gnl|CDD|188779 cd09393, LIM3_Lrg1p_like, The third LIM domain of Lrg1p, a LIM
and RhoGap domain containing protein. The third LIM
domain of Lrg1p, a LIM and RhoGap domain containing
protein: The members of this family contain three
tandem repeats of LIM domains and a Rho-type GTPase
activating protein (RhoGap) domain. Lrg1p is a Rho1
GTPase-activating protein required for efficient cell
fusion in yeast. Lrg1p-GAP domain strongly and
specifically stimulates the GTPase activity of Rho1p, a
regulator of beta (1-3)-glucan synthase in vitro. The
LIM domain is 50-60 amino acids in size and shares two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein.
Length = 56
Score = 35.8 bits (83), Expect = 0.004
Identities = 18/55 (32%), Positives = 25/55 (45%), Gaps = 6/55 (10%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACD-----VMLDNWYFEKDGLLFCKE 61
CA C +I EDE ++ + WH CF CS C + D + KD + C
Sbjct: 1 CASCGKSI-EDECIKFEDKRWHLKCFTCSRCHREISSELSDAAFNNKDQRILCSN 54
Score = 26.9 bits (60), Expect = 5.1
Identities = 10/41 (24%), Positives = 18/41 (43%), Gaps = 4/41 (9%)
Query: 86 GDHKFHPECFKCTSCSCCIG---DGESYALVERSILYCGLC 123
D ++H +CF C+ C I ++ ++ I C C
Sbjct: 16 EDKRWHLKCFTCSRCHREISSELSDAAFNNKDQRI-LCSNC 55
>gnl|CDD|188738 cd09352, LIM1_Ajuba_like, The first LIM domain of Ajuba-like
proteins. The first LIM domain of Ajuba-like proteins:
Ajuba like LIM protein family includes three highly
homologous proteins Ajuba, Limd1, and WTIP. Members of
the family contain three tandem C-terminal LIM domains
and a proline-rich N-terminal region. This family of
proteins functions as scaffolds, participating in the
assembly of numerous protein complexes. In the
cytoplasm, Ajuba binds Grb2 to modulate
serum-stimulated ERK activation. Ajuba also recruits
the TNF receptor-associated factor 6 (TRAF6) to p62 and
activates PKCKappa activity. Ajuba interacts with
alpha-catenin and F-actin to contribute to the
formation or stabilization of adheren junctions by
linking adhesive receptors to the actin cytoskeleton.
Although Ajuba is a cytoplasmic protein, it can shuttle
into the nucleus. In nucleus, Ajuba functions as a
corepressor for the zinc finger-protein Snail. It binds
to the SNAG repression domain of Snail through its LIM
region. Arginine methyltransferase-5 (Prmt5), a
protein in the complex, is recruited to Snai l through
an interaction with Ajuba. This ternary complex
functions to repress E-cadherin, a Snail target gene.
In addition, Ajuba contains functional nuclear-receptor
interacting motifs and selectively interacts with
retinoic acid receptors (RARs) and rexinoid receptor
(RXRs) to negatively regulate retinoic acid signaling.
Wtip, the Wt1-interacting protein, was originally
identified as an interaction partner of the Wilms
tumour protein 1 (WT1). Wtip is involved in kidney and
neural crest development. Wtip interacts with the
receptor tyrosine kinase Ror2 and inhibits canonical
Wnt signaling. LIMD1 was reported to inhibit cell
growth and metastases. The inhibition may be mediated
through an interaction with the protein
barrier-to-autointegration (BAF), a component of
SWI/SNF chromatin-remodeling protein; or through the
interaction with retinoblastoma protein (pRB),
resulting in inhibition of E2F-mediated transcription,
and expression of the majority of genes with E2F1-
responsive elements. Recently, Limd1 was shown to
interact with the p62/sequestosome protein and
influence IL-1 and RANKL signaling by facilitating the
assembly of a p62/TRAF6/a-PKC multi-protein complex.
The Limd1-p62 interaction affects both NF-kappaB and
AP-1 activity in epithelial cells and osteoclasts.
Moreover, LIMD1 functions as tumor repressor to block
lung tumor cell line in vitro and in vivo. Recent
studies revealed that LIM proteins Wtip, LIMD1 and
Ajuba interact with components of RNA induced silencing
complexes (RISC) as well as eIF4E and the mRNA m7GTP
cap-protein complex and are required for
microRNA-mediated gene silencing. As in other LIM
domains, this domain family is 50-60 amino acids in
size and shares two characteristic zinc finger motifs.
The two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately
bond to two zinc atoms. LIM domains function as
adaptors or scaffolds to support the assembly of
multimeric protein.
Length = 54
Score = 35.9 bits (83), Expect = 0.004
Identities = 15/39 (38%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 26 QALSQEWHTDCFRCSACDVMLDNWYFEK-DGLLFCKEDY 63
QA+ +HT+CF C +C L F +G ++C+EDY
Sbjct: 16 QAMGNLYHTNCFTCCSCGRTLRGKAFYNVNGKVYCEEDY 54
>gnl|CDD|240159 cd05120, APH_ChoK_like, Aminoglycoside 3'-phosphotransferase (APH)
and Choline Kinase (ChoK) family. The APH/ChoK family is
part of a larger superfamily that includes the catalytic
domains of other kinases, such as the typical
serine/threonine/tyrosine protein kinases (PKs), RIO
kinases, actin-fragmin kinase (AFK), and
phosphoinositide 3-kinase (PI3K). The family is composed
of APH, ChoK, ethanolamine kinase (ETNK), macrolide
2'-phosphotransferase (MPH2'), an unusual homoserine
kinase, and uncharacterized proteins with similarity to
the N-terminal domain of acyl-CoA dehydrogenase 10
(ACAD10). The members of this family catalyze the
transfer of the gamma-phosphoryl group from ATP (or CTP)
to small molecule substrates such as aminoglycosides,
macrolides, choline, ethanolamine, and homoserine.
Phosphorylation of the antibiotics, aminoglycosides and
macrolides, leads to their inactivation and to bacterial
antibiotic resistance. Phosphorylation of choline,
ethanolamine, and homoserine serves as precursors to the
synthesis of important biological compounds, such as the
major phospholipids, phosphatidylcholine and
phosphatidylethanolamine and the amino acids, threonine,
methionine, and isoleucine.
Length = 155
Score = 38.2 bits (89), Expect = 0.004
Identities = 34/157 (21%), Positives = 56/157 (35%), Gaps = 42/157 (26%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
LL G +VY + E VLK E + +E
Sbjct: 5 LLKGGLTNRVYLLG--TKDEDYVLK--INPSREKGADRERE------------------- 41
Query: 547 LHCFSQVAVLRSLHHHNVI--RFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQ 604
VA+L+ L + + + D L+ E+I G TL E+ ++ +
Sbjct: 42 ------VAILQLLARKGLPVPKVLASGESDGWSYLLMEWIEGETLDEVSEE--------E 87
Query: 605 RVNFARDIAAGMTYLHSMN---LIHRDLNSQNCLVRE 638
+ + A +A + LH + L H DL+ N LV +
Sbjct: 88 KEDIAEQLAELLAKLHQLPLLVLCHGDLHPGNILVDD 124
>gnl|CDD|173684 cd05593, STKc_PKB_gamma, Catalytic domain of the Protein
Serine/Threonine Kinase, Protein Kinase B gamma.
Serine/Threonine Kinases (STKs), Protein Kinase B (PKB)
or Akt subfamily, gamma (or Akt3) isoform, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The PKB 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. There are three
PKB isoforms from different genes, PKB-alpha (or Akt1),
PKB-beta (or Akt2), and PKB-gamma (or Akt3). PKB
contains an N-terminal pleckstrin homology (PH) domain
and a C-terminal catalytic domain. PKB-gamma is
predominantly expressed in neuronal tissues. Mice
deficient in PKB-gamma show a reduction in brain weight
due to the decreases in cell size and cell number.
PKB-gamma has also been shown to be upregulated in
estrogen-deficient breast cancer cells,
androgen-independent prostate cancer cells, and primary
ovarian tumors. It acts as a key mediator in the genesis
of ovarian cancer.
Length = 328
Score = 39.7 bits (92), Expect = 0.004
Identities = 38/155 (24%), Positives = 66/155 (42%), Gaps = 25/155 (16%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
LLG+G FG+V V + +G+ +K L K+ +I D +H L
Sbjct: 2 LLGKGTFGKVILVREKASGKYYAMKIL---------------KKEVIIAKDEVAHTL--- 43
Query: 547 LHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRV 606
++ VL++ H + +L V EY+ GG L + + R
Sbjct: 44 ----TESRVLKNTRHPFLTSLKYSFQTKDRLCFVMEYVNGGEL--FFHLSRERVFSEDRT 97
Query: 607 NF-ARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
F +I + + YLHS +++RDL +N ++ + G
Sbjct: 98 RFYGAEIVSALDYLHSGKIVYRDLKLENLMLDKDG 132
>gnl|CDD|188725 cd09339, LIM4_Paxillin_like, The fourth LIM domain of the
Paxillin-like protein family. The fourth LIM domain of
the Paxillin like protein family: This family consists
of paxillin, leupaxin, Hic-5 (ARA55), and other related
proteins. There are four LIM domains in the C-terminal
of the proteins and leucine-rich LD-motifs in the
N-terminal region. Members of this family are adaptor
proteins to recruit key components of
signal-transduction machinery to specific sub-cellular
locations. Paxillin is found at the interface between
the plasma membrane and the actin cytoskeleton. Paxillin
serves as a platform for the recruitment of numerous
regulatory and structural proteins that together control
the dynamic changes in cell adhesion, cytoskeletal
reorganization and gene expression that are necessary
for cell migration and survival. Leupaxin is a
cytoskeleton adaptor protein, which is preferentially
expressed in hematopoietic cells. It associates with
focal adhesion kinases PYK2 and pp125FAK and identified
to be a component of the osteoclast pososomal signaling
complex. Hic-5 controls cell proliferation, migration
and senescence by functioning as coactivator for steroid
receptors such as androgen receptor, glucocorticoid
receptor and progesterone receptor. LIM domains are
50-60 amino acids in size and share two characteristic
zinc finger motifs. The two zinc fingers contain eight
conserved residues, mostly cysteines and histidines,
which coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 52
Score = 35.8 bits (83), Expect = 0.004
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSC 100
C CG+ ++G + KFHPE F C C
Sbjct: 1 CAGCGKPITGRCITAMGRKFHPEHFVCAFC 30
>gnl|CDD|188799 cd09415, LIM1_Prickle, The first LIM domain of Prickle. The
first LIM domain of Prickle: Prickle contains three
C-terminal LIM domains and a N-terminal PET domain.
Prickles have been implicated in roles of regulating
tissue polarity or planar cell polarity (PCP). PCP
establishment requires the conserved
Frizzled/Dishevelled PCP pathway. Prickle interacts
with Dishevelled, thereby modulating
Frizzled/Dishevelled activity and PCP signaling. Four
forms of prickles have been identified: prickle 1-4.
The best characterized is prickle 1 and prickle 2 which
are differentially expressed. While prickle 1 is
expressed in fetal heart and hematological
malignancies, prickle 2 is found in fetal brain, adult
cartilage, pancreatic islet, and some types of timorous
cells. Mutations in prickle 1 have been linked to
progressive myoclonus epilepsy. LIM domains are 50-60
amino acids in size and share two characteristic zinc
finger motifs. The two zinc fingers contain eight
conserved residues, mostly cysteines and histidines,
which coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 59
Score = 35.7 bits (83), Expect = 0.004
Identities = 14/29 (48%), Positives = 18/29 (62%), Gaps = 1/29 (3%)
Query: 32 WHTDCFRCSACDVML-DNWYFEKDGLLFC 59
WH CF CS C +L D YF +DG ++C
Sbjct: 26 WHPACFVCSTCKELLVDLIYFYQDGKVYC 54
Score = 31.8 bits (73), Expect = 0.085
Identities = 12/37 (32%), Positives = 19/37 (51%), Gaps = 6/37 (16%)
Query: 71 CQNCGQMMSGPVMVVGDHKF------HPECFKCTSCS 101
C+ CG+ +SG + V + HP CF C++C
Sbjct: 1 CEQCGEQISGGDIAVFASRAGPGACWHPACFVCSTCK 37
>gnl|CDD|188781 cd09395, LIM2_Rga, The second LIM domain of Rga GTPase-Activating
Proteins. The second LIM domain of Rga
GTPase-Activating Proteins: The members of this family
contain two tandem repeats of LIM domains and a Rho-type
GTPase activating protein (RhoGap) domain. Rga activates
GTPases during polarized morphogenesis. In yeast, a
known regulating target of Rga is CDC42p, a small
GTPase. The LIM domain is 50-60 amino acids in size and
shares two characteristic zinc finger motifs. The two
zinc fingers contain eight conserved residues, mostly
cysteines and histidines, which coordinately bond to two
zinc atoms. LIM domains function as adaptors or
scaffolds to support the assembly of multimeric protein.
Length = 53
Score = 35.5 bits (82), Expect = 0.004
Identities = 18/55 (32%), Positives = 30/55 (54%), Gaps = 3/55 (5%)
Query: 71 CQNCGQMMSG-PVMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYCGLCY 124
C+NCG+ + +++ D + +CF+C CS I D YA +R L+C C+
Sbjct: 1 CKNCGKKIDDTAILLSSDEAYCSDCFRCRRCSRDITD-LKYAKTKRG-LFCMSCH 53
Score = 34.0 bits (78), Expect = 0.017
Identities = 13/49 (26%), Positives = 22/49 (44%), Gaps = 1/49 (2%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWYFEKDGL-LFC 59
C C I + + + + + +DCFRC C + + + K LFC
Sbjct: 1 CKNCGKKIDDTAILLSSDEAYCSDCFRCRRCSRDITDLKYAKTKRGLFC 49
>gnl|CDD|88524 cd05623, STKc_MRCK_alpha, Catalytic domain of the Protein
Serine/Threonine Kinase, DMPK-related cell division
control protein 42 binding kinase alpha.
Serine/Threonine Kinases (STKs), DMPK-like subfamily,
DMPK-related cell division control protein 42 (Cdc42)
binding kinase (MRCK) alpha isoform, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The DMPK-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. MRCK is activated via interaction with the
small GTPase Cdc42. MRCK/Cdc42 signaling mediates
myosin-dependent cell motility. MRCKalpha is expressed
ubiquitously in many tissues. It plays a role in the
regulation of peripheral actin reorganization and
neurite outgrowth. It may also play a role in the
transferrin iron uptake pathway.
Length = 332
Score = 39.7 bits (92), Expect = 0.004
Identities = 35/152 (23%), Positives = 61/152 (40%), Gaps = 26/152 (17%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKEL--YRVDEEAEKNFLKESKQGLIYLIDLGSHGLI 544
++G+G FG+V V + +V +K L + + + AE +E + L+ G + I
Sbjct: 8 VIGRGAFGEVAVVKLKNADKVFAMKILNKWEMLKRAETACFREERDVLVN----GDNQWI 63
Query: 545 NNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQ 604
LH Q + L LV +Y GG L LL LP
Sbjct: 64 TTLHYAFQ--------------------DENNLYLVMDYYVGGDLLTLLSKFEDRLPEDM 103
Query: 605 RVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
+ ++ + +H ++ +HRD+ N L+
Sbjct: 104 ARFYLAEMVIAIDSVHQLHYVHRDIKPDNILM 135
>gnl|CDD|173756 cd08216, PK_STRAD, Pseudokinase domain of STE20-related kinase
adapter protein. Protein Kinase family, STE20-related
kinase adapter protein (STRAD) subfamily, pseudokinase
domain. The STRAD subfamily is part of a larger
superfamily that includes the catalytic domains of
serine/threonine kinases (STKs), protein tyrosine
kinases, RIO kinases, aminoglycoside phosphotransferase,
choline kinase, and phosphoinositide 3-kinase. The
pseudokinase domain shows similarity to protein kinases
but lacks crucial residues for catalytic activity. STRAD
forms a complex with the scaffolding protein MO25, and
the STK, LKB1, resulting in the activation of the
kinase. In the complex, LKB1 phosphorylates and
activates adenosine monophosphate-activated protein
kinases (AMPKs), which regulate cell energy metabolism
and cell polarity. LKB1 is a tumor suppressor linked to
the rare inherited disease, Peutz-Jeghers syndrome,
which is characterized by a predisposition to benign
polyps and hyperpigmentation of the buccal mucosa. There
are two forms of STRAD, alpha and beta, that complex
with LKB1 and MO25. The structure of STRAD-alpha is
available and shows that this protein binds ATP, has an
ordered activation loop, and adopts a closed
conformation typical of fully active protein kinases. It
does not possess activity due to nonconservative
substitutions of essential catalytic residues. ATP
binding enhances the affinity of STRAD for MO25. The
conformation of STRAD-alpha stabilized through ATP and
MO25 may be needed to activate LKB1.
Length = 314
Score = 39.3 bits (92), Expect = 0.004
Identities = 34/166 (20%), Positives = 70/166 (42%), Gaps = 34/166 (20%)
Query: 487 LLGQGFFGQ--VYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLI 544
L+G+ F V+ H+ T ++ +K+ +D ++++ L+
Sbjct: 5 LIGKCFEDLMIVHLAKHKPTNTLVAVKK-INLDSCSKEDLK-----------------LL 46
Query: 545 NNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQD---PGQPLP 601
++ R L H N++ ++ D +L +V+ +A G+ ++LL+ G LP
Sbjct: 47 -----QQEIITSRQLQHPNILPYVTSFIVDSELYVVSPLMAYGSCEDLLKTHFPEG--LP 99
Query: 602 WGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG----SGF 643
+D+ + Y+HS IHR + + + L+ G SG
Sbjct: 100 ELAIAFILKDVLNALDYIHSKGFIHRSVKASHILLSGDGKVVLSGL 145
>gnl|CDD|173750 cd07857, STKc_MPK1, Catalytic domain of the Serine/Threonine
Kinase, Fungal Mitogen-Activated Protein Kinase MPK1.
Serine/Threonine Kinases (STKs), Fungal
Mitogen-Activated Protein Kinase (MAPK) MPK1 subfamily,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The MPK1 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 MPK1 from Saccharomyces
cerevisiae, Pmk1 from Schizosaccharomyces pombe, and
similar proteins. MAPKs are important mediators of
cellular responses to extracellular signals. MPK1 (also
called Slt2) and Pmk1 (also called Spm1) are
stress-activated MAPKs that regulate the cell wall
integrity (CWI) pathway, and are therefore important in
the maintainance of cell shape, cell wall construction,
morphogenesis, and ion homeostasis. MPK1 is activated in
response to cell wall stress including heat stimulation,
osmotic shock, UV irradiation, and any agents that
interfere with cell wall biogenesis such as chitin
antagonists, caffeine, or zymolase. MPK1 is regulated by
the MAP2Ks Mkk1/2, which are regulated by the MAP3K
Bck1. Pmk1 is also activated by multiple stresses
including elevated temperatures, hyper- or hypotonic
stress, glucose deprivation, exposure to cell-wall
damaging compounds, and oxidative stress. It is
regulated by the MAP2K Pek1, which is regulated by the
MAP3K Mkh1.
Length = 332
Score = 39.3 bits (92), Expect = 0.004
Identities = 18/40 (45%), Positives = 23/40 (57%)
Query: 597 GQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
GQPL +F I G+ Y+HS N++HRDL N LV
Sbjct: 99 GQPLTDAHFQSFIYQILCGLKYIHSANVLHRDLKPGNLLV 138
>gnl|CDD|173719 cd05630, STKc_GRK6, Catalytic domain of the Protein
Serine/Threonine Kinase, G protein-coupled Receptor
Kinase 6. Serine/Threonine Kinases (STKs), G
protein-coupled Receptor Kinase (GRK) subfamily, GRK6
isoform, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The GRK
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. GRKs phosphorylate and regulate G
protein-coupled receptors (GPCRs), the largest
superfamily of cell surface receptors which regulate
some part of nearly all physiological functions.
Phosphorylated GPCRs bind to arrestins, which prevents
further G protein signaling despite the presence of
activating ligand. There are seven types of GRKs, named
GRK1 to GRK7. GRK6 is widely expressed in many tissues.
t is expressed as multiple splice variants with
different domain architectures. It is
post-translationally palmitoylated and localized in the
membrane. GRK6 plays important roles in the regulation
of dopamine, M3 muscarinic, opioid, and chemokine
receptor signaling. It also plays maladaptive roles in
addiction and Parkinson's disease. GRK6-deficient mice
exhibit altered dopamine receptor regulation, decreased
lymphocyte chemotaxis, and increased acute inflammation
and neutrophil chemotaxis.
Length = 285
Score = 39.2 bits (91), Expect = 0.005
Identities = 39/155 (25%), Positives = 67/155 (43%), Gaps = 23/155 (14%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
+LG+G FG+V R TG++ K+L EK +K+ K + L
Sbjct: 7 VLGKGGFGEVCACQVRATGKMYACKKL-------EKKRIKKRKGESMAL----------- 48
Query: 547 LHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQP-LPWGQR 605
++ +L ++ V+ L LV + GG LK + G+ G+
Sbjct: 49 ----NEKQILEKVNSRFVVSLAYAYETKDALCLVLTLMNGGDLKFHIYHMGEAGFEEGRA 104
Query: 606 VNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
V +A +I G+ LH +++RDL +N L+ + G
Sbjct: 105 VFYAAEICCGLEDLHQERIVYRDLKPENILLDDHG 139
>gnl|CDD|173662 cd05571, STKc_PKB, Catalytic domain of the Protein Serine/Threonine
Kinase, Protein Kinase B. Serine/Threonine Kinases
(STKs), Protein Kinase B (PKB) or Akt subfamily,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The PKB 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 (PI3K). There are
three PKB isoforms from different genes, PKB-alpha (or
Akt1), PKB-beta (or Akt2), and PKB-gamma (or Akt3). PKB
contains an N-terminal pleckstrin homology (PH) domain
and a C-terminal catalytic domain. It is activated
downstream of PI3K and plays important roles in diverse
cellular functions including cell survival, growth,
proliferation, angiogenesis, motility, and migration.
PKB also has a central role in a variety of human
cancers, having been implicated in tumor initiation,
progression, and metastasis.
Length = 323
Score = 39.4 bits (92), Expect = 0.005
Identities = 40/155 (25%), Positives = 65/155 (41%), Gaps = 25/155 (16%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
LLG+G FG+V V + TG+ +K L K+ +I D +H L +
Sbjct: 2 LLGKGTFGKVILVREKATGKYYAMKIL---------------KKEVIIAKDEVAHTLTES 46
Query: 547 LHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRV 606
VL++ H + +L V EY GG L L + R
Sbjct: 47 -------RVLQNTRHPFLTALKYSFQTHDRLCFVMEYANGGELFFHLSRER--VFSEDRA 97
Query: 607 NF-ARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
F +I + + YLHS ++++RDL +N ++ + G
Sbjct: 98 RFYGAEIVSALGYLHSCDVVYRDLKLENLMLDKDG 132
>gnl|CDD|188868 cd09484, LIM1_Prickle_2, The first LIM domain of Prickle 2. The
first LIM domain of Prickle 2: Prickle contains three
C-terminal LIM domains and a N-terminal PET domain.
Prickles have been implicated in roles of regulating
tissue polarity or planar cell polarity (PCP). PCP
establishment requires the conserved
Frizzled/Dishevelled PCP pathway. Prickle interacts
with Dishevelled, thereby modulating
Frizzled/Dishevelled activity and PCP signaling. Four
forms of prickles have been identified: prickle 1-4.
The best characterized is prickle 1 and prickle 2 which
are differentially expressed. While prickle 1 is
expressed in fetal heart and hematological
malignancies, prickle 2 is found in fetal brain, adult
cartilage, pancreatic islet, and some types of timorous
cells. Mutations in prickle 1 have been linked to
progressive myoclonus epilepsy. LIM domains are 50-60
amino acids in size and share two characteristic zinc
finger motifs. The two zinc fingers contain eight
conserved residues, mostly cysteines and histidines,
which coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 59
Score = 35.3 bits (81), Expect = 0.005
Identities = 14/29 (48%), Positives = 19/29 (65%), Gaps = 1/29 (3%)
Query: 32 WHTDCFRCSACDVML-DNWYFEKDGLLFC 59
WH CF CS C+ +L D YF +DG ++C
Sbjct: 26 WHPQCFVCSVCNELLVDLIYFYQDGKIYC 54
Score = 27.6 bits (61), Expect = 2.9
Identities = 11/37 (29%), Positives = 20/37 (54%), Gaps = 6/37 (16%)
Query: 71 CQNCGQMMSGPVMVVGDHK------FHPECFKCTSCS 101
C+ CG ++G + V + +HP+CF C+ C+
Sbjct: 1 CEQCGGQINGGDIAVFASRAGHGVCWHPQCFVCSVCN 37
>gnl|CDD|173699 cd05608, STKc_GRK1, Catalytic domain of the Protein
Serine/Threonine Kinase, G protein-coupled Receptor
Kinase 1. Serine/Threonine Kinases (STKs), G
protein-coupled Receptor Kinase (GRK) subfamily, GRK1
isoform, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The GRK
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. GRKs phosphorylate and regulate G
protein-coupled receptors (GPCRs), the largest
superfamily of cell surface receptors, which regulate
some part of nearly all physiological functions.
Phosphorylated GPCRs bind to arrestins, which prevents
further G protein signaling despite the presence of
activating ligand. There are seven types of GRKs, named
GRK1 to GRK7. GRK1, also called rhodopsin kinase,
belongs to the visual group of GRKs and is expressed in
retinal cells. It phosphorylates rhodopsin in rod cells,
which leads to termination of the phototransduction
cascade. Mutations in GRK1 are associated to a
recessively inherited form of stationary nightblindness
called Oguchi disease.
Length = 280
Score = 38.7 bits (90), Expect = 0.007
Identities = 40/158 (25%), Positives = 66/158 (41%), Gaps = 29/158 (18%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
LG+G FG+V R TG++ K+L K LK+ K G G +
Sbjct: 1 LGKGGFGEVSACQMRATGKLYACKKL-------NKKRLKKRK---------GYEGAM--- 41
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELL-----QDPGQPLPW 602
+ +L +H ++ L LV + GG L+ + ++PG P P
Sbjct: 42 ---VEKRILAKVHSRFIVSLAYAFQTKTDLCLVMTIMNGGDLRYHIYNVDEENPGFPEP- 97
Query: 603 GQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
+ + I +G+ +LH +I+RDL +N L+ G
Sbjct: 98 -RACFYTAQIISGLEHLHQRRIIYRDLKPENVLLDNDG 134
>gnl|CDD|188788 cd09404, LIM1_MLP84B_like, The LIM domain of Mlp84B and Mlp60A.
The LIM domain of Mlp84B and Mlp60A: Mlp84B and Mlp60A
belong to the CRP LIM domain protein family. The Mlp84B
protein contains five copies of the LIM domains, each
followed by a Glycin Rich Region (GRR). However, only
the first LIM domain of Mlp84B is in this family. Mlp60A
exhibits only one LIM domain linked to a glycin-rich
region. Mlp84B and Mlp60A are muscle specific proteins
and have been implicated in muscle differentiation.
While Mlp84B transcripts are enriched at the terminal
ends of muscle fibers, Mlp60A transcripts are found
throughout the muscle fibers. All LIM domains are 50-60
amino acids in size and share two characteristic zinc
finger motifs. The two zinc fingers contain eight
conserved residues, mostly cysteines and histidines,
which coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 54
Score = 35.2 bits (81), Expect = 0.007
Identities = 18/62 (29%), Positives = 26/62 (41%), Gaps = 17/62 (27%)
Query: 71 CQNCGQMMSGPV-MVVGDHKFHPECFKCTSC-------SCCIGDGESYALVERSILYCGL 122
C CG+ + + G +K+H CFKC C +C +GE LYC
Sbjct: 2 CPKCGKSVYAAEERLAGGYKWHKMCFKCGMCNKLLDSTNCAEHEGE---------LYCKQ 52
Query: 123 CY 124
C+
Sbjct: 53 CH 54
Score = 34.8 bits (80), Expect = 0.008
Identities = 17/50 (34%), Positives = 26/50 (52%), Gaps = 1/50 (2%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWYF-EKDGLLFCK 60
C C ++ E A +WH CF+C C+ +LD+ E +G L+CK
Sbjct: 2 CPKCGKSVYAAEERLAGGYKWHKMCFKCGMCNKLLDSTNCAEHEGELYCK 51
>gnl|CDD|143372 cd07867, STKc_CDC2L6, Catalytic domain of Serine/Threonine Kinase,
Cell Division Cycle 2-like 6. Serine/Threonine Kinases
(STKs), Cell Division Cycle 2-like 6 (CDC2L6) subfamily,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The CDC2L6 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. CDC2L6 is also called CDK8-like and was
previously referred to as CDK11. However, this is a
confusing nomenclature as CDC2L6 is distinct from
CDC2L1, which is represented by the two protein products
from its gene, called CDK11(p110) and CDK11(p58), as
well as the caspase-processed CDK11(p46). CDK11(p110),
CDK11(p58), and CDK11(p46)do not belong to this
subfamily. CDC2L6 is an associated protein of Mediator,
a multiprotein complex that provides a platform to
connect transcriptional and chromatin regulators and
cofactors, in order to activate and mediate RNA
polymerase II transcription. CDC2L6 is localized mainly
in the nucleus amd exerts an opposing effect to CDK8 in
VP16-dependent transcriptional activation by being a
negative regulator.
Length = 317
Score = 38.9 bits (90), Expect = 0.007
Identities = 43/162 (26%), Positives = 68/162 (41%), Gaps = 36/162 (22%)
Query: 485 GPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLI 544
G +G+G +G VY+ R D + EK + + +G G+
Sbjct: 6 GCKVGRGTYGHVYKAK--------------RKDGKDEKEYALKQIEGT---------GI- 41
Query: 545 NNLHCFSQVAVLRSLHHHNVIRFIGVL--YKDRKLNLVTEY--------IAGGTLKELLQ 594
++ ++A+LR L H NVI V + DRK+ L+ +Y I + +
Sbjct: 42 -SMSACREIALLRELKHPNVIALQKVFLSHSDRKVWLLFDYAEHDLWHIIKFHRASKANK 100
Query: 595 DPGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
P Q LP + I G+ YLH+ ++HRDL N LV
Sbjct: 101 KPMQ-LPRSMVKSLLYQILDGIHYLHANWVLHRDLKPANILV 141
>gnl|CDD|188835 cd09451, LIM_RIL, The LIM domain of RIL. The LIM domain of RIL:
RIL contains an N-terminal PDZ domain, a LIM domain, and
a short consensus C-terminal region. It is the smallest
molecule in the ALP LIM domain containing protein
family. RIL was identified in rat fibroblasts and in
human lymphocytes. The LIM domain interacts with the
AMPA glutamate receptor in dendritic spines. The
consensus C-terminus interacts with PTP-BL, a
submembranous protein tyrosine phosphatase and the PDZ
domain is responsible to interact with alpha-actinin
molecules. LIM domains are 50-60 amino acids in size and
share two characteristic zinc finger motifs. The two
zinc fingers contain eight conserved residues, mostly
cysteines and histidines, which coordinately bond to two
zinc atoms. LIM domains function as adaptors or
scaffolds to support the assembly of multimeric protein
complexes.
Length = 53
Score = 34.9 bits (80), Expect = 0.007
Identities = 16/50 (32%), Positives = 24/50 (48%), Gaps = 2/50 (4%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYC 120
C CG + G ++ D +HPECF C C + + + E+ LYC
Sbjct: 1 CTRCGNGIVGTIVKARDKLYHPECFMCDDCGLNLKQRGYFFIDEQ--LYC 48
Score = 30.7 bits (69), Expect = 0.20
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 2/50 (4%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDN-WYFEKDGLLFCK 60
C C N IV V+A + +H +CF C C + L YF D L+C+
Sbjct: 1 CTRCGNGIV-GTIVKARDKLYHPECFMCDDCGLNLKQRGYFFIDEQLYCE 49
>gnl|CDD|188861 cd09477, LIM2_TLP, The second LIM domain of thymus LIM protein
(TLP). The second LIM domain of thymus LIM protein
(TLP): TLP is the distant member of the CRP family of
proteins. TLP has two isomers (TLP-A and TLP-B) and
sharing approximately 30% with each of the three other
CRPs. Like CRP1, CRP2 and CRP3/MLP, TLP has two LIM
domains, connected by a flexible linker region. Unlike
the CRPs, TLP lacks the nuclear targeting signal
(K/R-K/R-Y-G-P-K) and is localized solely in the
cytoplasm. TLP is specifically expressed in the thymus
in a subset of cortical epithelial cells. TLP has a
role in development of normal thymus and in controlling
the development and differentiation of thymic
epithelial cells. LIM domains are 50-60 amino acids in
size and share two characteristic zinc finger motifs.
The two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately
bond to two zinc atoms. LIM domains function as
adaptors or scaffolds to support the assembly of
multimeric protein complexes.
Length = 54
Score = 35.0 bits (80), Expect = 0.007
Identities = 17/49 (34%), Positives = 22/49 (44%), Gaps = 1/49 (2%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLD-NWYFEKDGLLFC 59
C GC + E V +L + WH C RC C L + E DG +C
Sbjct: 1 CPGCGKPVYFAEKVMSLGRNWHRPCLRCQRCKKTLTAGGHAEHDGSPYC 49
>gnl|CDD|173679 cd05588, STKc_aPKC, Catalytic domain of the Protein
Serine/Threonine Kinase, Atypical Protein Kinase C.
Serine/Threonine Kinases (STKs), Atypical Protein Kinase
C (aPKC) subfamily, catalytic (c) domain. STKs catalyze
the transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
aPKC 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. PKCs are classified into three groups
(classical, atypical, and novel) depending on their mode
of activation and the structural characteristics of
their regulatory domain. aPKCs only require
phosphatidylserine (PS) for activation. They contain a
C2-like region, instead of a calcium-binding (C2) region
found in classical PKCs, in their regulatory domain.
There are two aPKC isoforms, zeta and iota. aPKCs are
involved in many cellular functions including
proliferation, migration, apoptosis, polarity
maintenance and cytoskeletal regulation. They also play
a critical role in the regulation of glucose metabolism
and in the pathogenesis of type 2 diabetes.
Length = 329
Score = 38.6 bits (90), Expect = 0.008
Identities = 35/160 (21%), Positives = 67/160 (41%), Gaps = 42/160 (26%)
Query: 487 LLGQGFFGQVYRVTHRETGEV----MVLKELYRVDE-----EAEKNFLKESKQGLIYLID 537
++G+G + +V V ++T + ++ KEL DE + EK+ + +
Sbjct: 2 VIGRGSYAKVLLVELKKTRRIYAMKVIKKELVNDDEDIDWVQTEKHVFETAS-------- 53
Query: 538 LGSHGLINNLH-CFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDP 596
+H + LH CF + +L V E+++GG L +Q
Sbjct: 54 --NHPFLVGLHSCFQTES---------------------RLFFVIEFVSGGDLMFHMQRQ 90
Query: 597 GQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
+ LP ++ +I+ + +LH +I+RDL N L+
Sbjct: 91 -RKLPEEHARFYSAEISLALNFLHERGIIYRDLKLDNVLL 129
>gnl|CDD|188855 cd09471, LIM2_Isl2, The second LIM domain of Isl2. The second LIM
domain of Isl2: Isl is a member of LHX protein family,
which features two tandem N-terminal LIM domains and a
C-terminal DNA binding homeodomain. LHX proteins are
critical for the development of specialized cells in
multiple tissue types, including the nervous system,
skeletal muscle, the heart, the kidneys, and endocrine
organs, such as the pituitary gland and the pancreas.
Isl proteins are found in the nucleus and act as
transcription factors or cofactors. Isl1 and Isl2 are
the two conserved members of this family. Mouse Isl2 is
expressed in the retinal ganglion cells and the
developing spinal cord where it plays a role in motor
neuron development. Isl2 may be able to bind to the
insulin gene enhancer to promote gene activation. All
LIM domains are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to support
the assembly of multimeric protein complexes.
Length = 55
Score = 34.5 bits (79), Expect = 0.009
Identities = 17/50 (34%), Positives = 24/50 (48%), Gaps = 2/50 (4%)
Query: 71 CQNCGQMMSGP--VMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSIL 118
C C S VM D +H ECF+C+ CS + G+ + L E +L
Sbjct: 1 CAQCRLGFSSSDLVMRARDSVYHIECFRCSVCSRQLLPGDEFCLREHELL 50
Score = 27.2 bits (60), Expect = 4.2
Identities = 17/55 (30%), Positives = 27/55 (49%), Gaps = 3/55 (5%)
Query: 12 CAGC-LNNIVEDEYVQALSQEWHTDCFRCSACDVML--DNWYFEKDGLLFCKEDY 63
CA C L D ++A +H +CFRCS C L + + ++ L C+ D+
Sbjct: 1 CAQCRLGFSSSDLVMRARDSVYHIECFRCSVCSRQLLPGDEFCLREHELLCRADH 55
>gnl|CDD|173683 cd05592, STKc_nPKC_theta_delta, Catalytic domain of the Protein
Serine/Threonine Kinases, Novel Protein Kinase C theta
and delta. Serine/Threonine Kinases (STKs), Novel
Protein Kinase C (nPKC), theta and delta-like isoforms,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The nPKC 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. PKCs are
classified into three groups (classical, atypical, and
novel) depending on their mode of activation and the
structural characteristics of their regulatory domain.
nPKCs are calcium-independent, but require DAG
(1,2-diacylglycerol) and phosphatidylserine (PS) for
activity. There are four nPKC isoforms, delta, epsilon,
eta, and theta. PKC-theta is selectively expressed in
T-cells and plays an important and non-redundant role in
several aspects of T-cell biology. PKC-delta plays a
role in cell cycle regulation and programmed cell death
in many cell types.
Length = 316
Score = 38.2 bits (89), Expect = 0.009
Identities = 38/154 (24%), Positives = 61/154 (39%), Gaps = 30/154 (19%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYR----VDEEAEKNFLKESKQGLIYLIDLGSHG 542
+LG+G FG+V + T E +K L + D++ E ++ L + H
Sbjct: 2 VLGKGSFGKVMLAELKGTNEFFAIKALKKDVVLEDDDVECTMVERRVLALAW-----EHP 56
Query: 543 LINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPW 602
+ +L C Q L V EY+ GG L +Q G+
Sbjct: 57 FLTHLFCTFQT--------------------KEHLFFVMEYLNGGDLMFHIQSSGRFDEA 96
Query: 603 GQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
R +A +I G+ +LH +I+RDL N L+
Sbjct: 97 RARF-YAAEIICGLQFLHKKGIIYRDLKLDNVLL 129
>gnl|CDD|133237 cd05106, PTKc_CSF-1R, Catalytic domain of the Protein Tyrosine
Kinase, Colony-Stimulating Factor-1 Receptor. Protein
Tyrosine Kinase (PTK) family; Colony-Stimulating
Factor-1 Receptor (CSF-1R); catalytic (c) domain. 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. CSF-1R,
also called c-Fms, is a member of the Platelet Derived
Growth Factor Receptor (PDGFR) subfamily of proteins,
which are receptor tyr kinases (RTKs) containing an
extracellular ligand-binding region with five
immunoglobulin-like domains, a transmembrane segment,
and an intracellular catalytic domain. The binding of
CSF-1R to its ligand, CSF-1, leads to receptor
dimerization, trans phosphorylation and activation, and
intracellular signaling. CSF-1R signaling is critical in
the regulation of macrophages and osteoclasts. It leads
to increases in gene transcription and protein
translation, and induces cytoskeletal remodeling. CSF-1R
signaling leads to a variety of cellular responses
including survival, proliferation, and differentiation
of target cells. It plays an important role in innate
immunity, tissue development and function, and the
pathogenesis of some diseases including atherosclerosis
and cancer. CSF-1R signaling is also implicated in
mammary gland development during pregnancy and
lactation. Aberrant CSF-1/CSF-1R expression correlates
with tumor cell invasiveness, poor clinical prognosis,
and bone metastasis in breast cancer. Although the
structure of the human CSF-1R catalytic domain is known,
it is excluded from this specific alignment model
because it contains a deletion in its sequence.
Length = 374
Score = 38.7 bits (90), Expect = 0.010
Identities = 16/52 (30%), Positives = 27/52 (51%)
Query: 585 AGGTLKELLQDPGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
+ + E + PL + F+ +A GM +L S N IHRD+ ++N L+
Sbjct: 194 SSDSKDEEDTEDSWPLDLDDLLRFSSQVAQGMDFLASKNCIHRDVAARNVLL 245
>gnl|CDD|188717 cd09331, LIM1_PINCH, The first LIM domain of protein PINCH. The
first LIM domain of paxillin: Paxillin is an adaptor
protein, which recruits key components of the
signal-transduction machinery to specific sub-cellular
locations to respond to environmental changes rapidly.
The C-terminal region of paxillin contains four LIM
domains which target paxillin to focal adhesions,
presumably through a direct association with the
cytoplasmic tail of beta-integrin. The N-terminal of
paxillin is leucine-rich LD-motifs. Paxillin is found
at the interface between the plasma membrane and the
actin cytoskeleton. The binding partners of paxillin
are diverse and include protein tyrosine kinases, such
as Src and FAK, structural proteins, such as vinculin
and actopaxin, and regulators of actin organization.
Paxillin recruits these proteins to their function
sites to control the dynamic changes in cell adhesion,
cytoskeletal reorganization and gene expression. LIM
domains are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein complexes.
Length = 59
Score = 34.6 bits (80), Expect = 0.010
Identities = 15/54 (27%), Positives = 25/54 (46%), Gaps = 2/54 (3%)
Query: 12 CAGCLNNIVEDE-YVQALSQEWHTDCFRCSAC-DVMLDNWYFEKDGLLFCKEDY 63
C C DE V + + +H CF C+ C D ++E +G +C+ D+
Sbjct: 1 CERCREGFEPDEKIVNSNGELYHEQCFVCAQCFQPFPDGLFYEFEGRKYCEHDF 54
>gnl|CDD|188801 cd09417, LIM2_LIMPETin_like, The second LIM domain of protein
LIMPETin and related proteins. The second LIM domain
of protein LIMPETin: LIMPETin contains 6 LIM domains at
the C-terminal and an N-terminal PET domain. Four of
the six LIM domains are highly homologous to the four
and half LIM domain protein family and two of them show
sequence similarity to the LIM domains of the testin
family. Thus, LIMPETin may be the recombinant product
of genes coding testin and FHL proteins. In
Schistosoma mansoni, where LIMPETin was first
identified, LIMPETin is down regulated in sexually
mature adult Schistosoma females compared to sexually
immature adult females and adult male. Its differential
expression indicates that it is a transcription
regulator. LIM domains are 50-60 amino acids in size
and share two characteristic zinc finger motifs. The
two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately
bond to two zinc atoms. LIM domains function as
adaptors or scaffolds to support the assembly of
multimeric protein complexes.
Length = 56
Score = 34.4 bits (79), Expect = 0.011
Identities = 11/33 (33%), Positives = 17/33 (51%)
Query: 11 TCAGCLNNIVEDEYVQALSQEWHTDCFRCSACD 43
C I EY +A++++WH+ F C CD
Sbjct: 2 RSVQCDELIFSGEYTKAMNKDWHSGHFCCWQCD 34
>gnl|CDD|188736 cd09350, LIM1_TRIP6, The first LIM domain of Thyroid
receptor-interacting protein 6 (TRIP6). The first LIM
domain of Thyroid receptor-interacting protein 6
(TRIP6): TRIP6 is a member of the zyxin LIM protein
family and contains three LIM zinc-binding domains at
the C-terminal. TRIP6 protein localizes to focal
adhesion sites and along actin stress fibers.
Recruitment of this protein to the plasma membrane
occurs in a lysophosphatidic acid (LPA)-dependent
manner. TRIP6 recruits a number of molecules involved
in actin assembly, cell motility, survival and
transcriptional control. The function of TRIP6 in cell
motility is regulated by Src-dependent phosphorylation
at a Tyr residue. The phosphorylation activates the
coupling to the Crk SH2 domain, which is required for
the function of TRIP6 in promoting lysophosphatidic
acid (LPA)-induced cell migration. TRIP6 can shuttle to
the nucleus to serve as a coactivator of AP-1 and
NF-kappaB transcriptional factors. Moreover, TRIP6 can
form a ternary complex with the NHERF2 PDZ protein and
LPA2 receptor to regulate LPA-induced activation of ERK
and AKT, rendering cells resistant to chemotherapy.
Recent evidence shows that TRIP6 antagonizes
Fas-Induced apoptosis by enhancing the antiapoptotic
effect of LPA in cells. As in other LIM domains, this
domain family is 50-60 amino acids in size and shares
two characteristic zinc finger motifs. The two zinc
fingers contain eight conserved residues, mostly
cysteines and histidines, which coordinately bond to
two zinc atoms. LIM domains function as adaptors or
scaffolds to support the assembly of multimeric
protein.
Length = 54
Score = 34.3 bits (79), Expect = 0.011
Identities = 16/54 (29%), Positives = 24/54 (44%), Gaps = 2/54 (3%)
Query: 12 CAGCLNNIVEDEY-VQALSQEWHTDCFRCSACDVMLDNWYFEK-DGLLFCKEDY 63
C C N+V + A+ Q +H DCF C C+ L F + +C+ Y
Sbjct: 1 CGRCGENVVGEGTGCTAMDQVFHVDCFTCMTCNGKLRGQPFYAVEKKAYCEPCY 54
Score = 33.5 bits (77), Expect = 0.019
Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 4/56 (7%)
Query: 71 CQNCGQ--MMSGPVMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYCGLCY 124
C CG+ + G D FH +CF C +C+ + YA+ +++ YC CY
Sbjct: 1 CGRCGENVVGEGTGCTAMDQVFHVDCFTCMTCNGKLRGQPFYAVEKKA--YCEPCY 54
>gnl|CDD|188842 cd09458, LIM3_Enigma, The third LIM domain of Enigma. The third
LIM domain of Enigma: Enigma was initially
characterized in humans as a protein containing three
LIM domains at the C-terminus and a PDZ domain at
N-terminus. The third LIM domain specifically
interacts with the insulin receptor and the second LIM
domain interacts with the receptor tyrosine kinase Ret
and the adaptor protein APS. Thus Enigma is implicated
in signal transduction processes such as mitogenic
activity, insulin related actin organization, and
glucose metabolism. Enigma is expressed in multiple
tissues, such as skeletal muscle, heart, bone, and
brain. LIM domains are 50-60 amino acids in size and
share two characteristic zinc finger motifs. The two
zinc fingers contain eight conserved residues, mostly
cysteines and histidines, which coordinately bond to
two zinc atoms. LIM domains function as adaptors or
scaffolds to support the assembly of multimeric protein
complexes.
Length = 55
Score = 34.6 bits (79), Expect = 0.011
Identities = 20/52 (38%), Positives = 28/52 (53%), Gaps = 4/52 (7%)
Query: 12 CAGCLNNI-VEDEYVQALSQEWHTDCFRCSACDVMLD--NWYFEKDGLLFCK 60
C GC I D +++AL WH CF C+ C + L+ +Y +KD L CK
Sbjct: 1 CHGCDFKIDAGDRFLEALGFSWHDTCFVCAICQINLEGKTFYSKKDKPL-CK 51
>gnl|CDD|133238 cd05107, PTKc_PDGFR_beta, Catalytic domain of the Protein Tyrosine
Kinase, Platelet Derived Growth Factor Receptor beta.
Protein Tyrosine Kinase (PTK) family; Platelet Derived
Growth Factor Receptor (PDGFR) beta; catalytic (c)
domain. 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. PDGFR
beta is a receptor tyr kinase (RTK) containing an
extracellular ligand-binding region with five
immunoglobulin-like domains, a transmembrane segment,
and an intracellular catalytic domain. The binding to
its ligands, the PDGFs, leads to receptor dimerization,
trans phosphorylation and activation, and intracellular
signaling. PDGFR beta forms homodimers or heterodimers
with PDGFR alpha, depending on the nature of the PDGF
ligand. PDGF-BB and PDGF-DD induce PDGFR beta
homodimerization. PDGFR signaling plays many roles in
normal embryonic development and adult physiology. PDGFR
beta signaling leads to a variety of cellular effects
including the stimulation of cell growth and chemotaxis,
as well as the inhibition of apoptosis and GAP
junctional communication. It is critical in normal
angiogenesis as it is involved in the recruitment of
pericytes and smooth muscle cells essential for vessel
stability. Aberrant PDGFR beta expression is associated
with some human cancers. The continuously-active fusion
proteins of PDGFR beta with COL1A1 and TEL are
associated with dermatofibrosarcoma protuberans (DFSP)
and a subset of chronic myelomonocytic leukemia (CMML),
respectively.
Length = 401
Score = 38.5 bits (89), Expect = 0.012
Identities = 18/53 (33%), Positives = 29/53 (54%)
Query: 586 GGTLKELLQDPGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
T ++ L + L + V F+ +A GM +L S N +HRDL ++N L+ E
Sbjct: 222 ERTRRDTLINESPALSYMDLVGFSYQVANGMEFLASKNCVHRDLAARNVLICE 274
>gnl|CDD|188745 cd09359, LIM_LASP_like, The LIM domain of LIM and SH3 Protein
(LASP)-like proteins. The LIM domain of LIM and SH3
Protein (LASP) like proteins: This family contains two
types of LIM containing proteins; LASP and N-RAP. LASP
family contains two highly homologous members, LASP-1
and LASP-2. LASP contains a LIM motif at its amino
terminus, a src homology 3 (SH3) domains at its
C-terminal part, and a nebulin-like region in the
middle. LASP-1 and -2 are highly conserved in their
LIM, nebulin-like, and SH3 domains, but differ
significantly at their linker regions. Both proteins
are ubiquitously expressed and involved in cytoskeletal
architecture, especially in the organization of focal
adhesions. LASP-1 and LASP-2, are important during
early embryo- and fetogenesis and are highly expressed
in the central nervous system of the adult. However,
only LASP-1 seems to participate significantly in
neuronal differentiation and plays an important
functional role in migration and proliferation of
certain cancer cells while the role of LASP-2 is more
structural. The expression of LASP-1 in breast tumors
is increased significantly. N-RAP is a muscle-specific
protein concentrated at myotendinous junctions in
skeletal muscle and intercalated disks in cardiac
muscle. LIM domain is found at the N-terminus of N-RAP
and the C-terminal of N-RAP contains a region with
multiple of nebulin repeats. N-RAP functions as a
scaffolding protein that organizes alpha-actinin and
actin into symmetrical I-Z-I structures in developing
myofibrils. Nebulin repeat is known as actin binding
domain. The N-RAP is hypothesized to form antiparallel
dimerization via its LIM domain. As in other LIM
domains, this domain family is 50-60 amino acids in
size and shares two characteristic zinc finger motifs.
The two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately
bond to two zinc atoms. LIM domains function as
adaptors or scaffolds to support the assembly of
multimeric protein.
Length = 53
Score = 34.2 bits (78), Expect = 0.012
Identities = 17/53 (32%), Positives = 22/53 (41%), Gaps = 1/53 (1%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLD-NWYFEKDGLLFCKEDY 63
CA C + E V L + WH CF C C + L+ N Y +C Y
Sbjct: 1 CARCGKIVYPTEKVNCLDKTWHKACFHCEVCKMTLNMNNYKGYQKKPYCNAHY 53
>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 = 38.1 bits (89), Expect = 0.012
Identities = 33/153 (21%), Positives = 59/153 (38%), Gaps = 28/153 (18%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+G+G +G V + ET E + +K++ + I+
Sbjct: 13 IGRGAYGIVCSAKNSETNEKVAIKKIANAFDN-----------------------RIDAK 49
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIA----GGTLKELLQDPGQPLPWG 603
++ +LR L H NVI ++ + YI L ++++ Q L
Sbjct: 50 RTLREIKLLRHLDHENVIAIKDIMPPPHREAFNDVYIVYELMDTDLHQIIRSS-QTLSDD 108
Query: 604 QRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
F + G+ Y+HS N++HRDL N L+
Sbjct: 109 HCQYFLYQLLRGLKYIHSANVLHRDLKPSNLLL 141
>gnl|CDD|188838 cd09454, LIM1_ZASP_Cypher, The first LIM domain of ZASP/Cypher
family. The first LIM domain of ZASP/Cypher family:
ZASP was identified in human heart and skeletal muscle
and Cypher is a mice ortholog of ZASP. ZASP/Cyppher
contains three LIM domains at the C-terminus and a PDZ
domain at N-terminus. ZASP/Cypher is required for
maintenance of Z-line structure during muscle
contraction, but not required for Z-line assembly. In
heart, Cypher/ZASP plays a structural role through its
interaction with cytoskeletal Z-line proteins. In
addition, there is increasing evidence that Cypher/ZASP
also performs signaling functions. Studies reveal that
Cypher/ZASP interacts with and directs PKC to the
Z-line, where PKC phosphorylates downstream signaling
targets. LIM domains are 50-60 amino acids in size and
share two characteristic zinc finger motifs. The two
zinc fingers contain eight conserved residues, mostly
cysteines and histidines, which coordinately bond to two
zinc atoms. LIM domains function as adaptors or
scaffolds to support the assembly of multimeric protein
complexes.
Length = 52
Score = 34.2 bits (78), Expect = 0.012
Identities = 17/54 (31%), Positives = 27/54 (50%), Gaps = 2/54 (3%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYCGLCY 124
C +C ++ GP +V +HPE F C C + D + E++ +YC CY
Sbjct: 1 CGHCNNIIRGPFLVALGRSWHPEEFTCHYCHTSLAD--VSFVEEQNNVYCENCY 52
Score = 30.7 bits (69), Expect = 0.21
Identities = 17/53 (32%), Positives = 27/53 (50%), Gaps = 2/53 (3%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVML-DNWYFEKDGLLFCKEDY 63
C C NNI+ ++ AL + WH + F C C L D + E+ ++C+ Y
Sbjct: 1 CGHC-NNIIRGPFLVALGRSWHPEEFTCHYCHTSLADVSFVEEQNNVYCENCY 52
>gnl|CDD|173704 cd05613, STKc_MSK1_N, N-terminal catalytic domain of the Protein
Serine/Threonine Kinase, Mitogen and stress-activated
kinase 1. Serine/Threonine Kinases (STKs), Mitogen and
stress-activated kinase (MSK) subfamily, MSK1,
N-terminal catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The MSK
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. MSKs contain an N-terminal kinase domain (NTD)
from the AGC family and a C-terminal kinase domain (CTD)
from the CAMK family, similar to 90 kDa ribosomal
protein S6 kinases (RSKs). MSKs are activated by two
major signaling cascades, the Ras-MAPK and p38 stress
kinase pathways, which trigger phosphorylation in the
activation loop (A-loop) of the CTD of MSK. The active
CTD phosphorylates the hydrophobic motif (HM) of NTD,
which facilitates the phosphorylation of the A-loop and
activates the NTD, which in turn phosphorylates
downstream targets. MSK1 plays a role in the regulation
of translational control and transcriptional activation.
It phosphorylates the transcription factors, CREB and
NFkappaB. It also phosphorylates the nucleosomal
proteins H3 and HMG-14. Increased phosphorylation of
MEK1 is associated with the development of cerebral
ischemic/hypoxic preconditioning.
Length = 290
Score = 37.7 bits (87), Expect = 0.014
Identities = 38/168 (22%), Positives = 69/168 (41%), Gaps = 46/168 (27%)
Query: 487 LLGQGFFGQVY---RVTHRETGEVMVLKELYR---VDEEAEKNFLKESKQGLIYLIDLGS 540
+LG G +G+V+ +V+ ++G++ +K L + V + + +Q L ++
Sbjct: 7 VLGTGAYGKVFLVRKVSGHDSGKLYAMKVLKKATIVQKAKTTEHTRTERQVLEHI----- 61
Query: 541 HGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPL 600
Q L +LH+ D KL+L+ +YI GG L L
Sbjct: 62 ----------RQSPFLVTLHY--------AFQTDTKLHLILDYINGGELFTHLS------ 97
Query: 601 PWGQRVNFAR--------DIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
QR F +I + +LH + +I+RD+ +N L+ G
Sbjct: 98 ---QRERFKEQEVQIYSGEIVLALEHLHKLGIIYRDIKLENILLDSNG 142
>gnl|CDD|140293 PTZ00267, PTZ00267, NIMA-related protein kinase; Provisional.
Length = 478
Score = 38.1 bits (88), Expect = 0.015
Identities = 27/94 (28%), Positives = 47/94 (50%), Gaps = 5/94 (5%)
Query: 551 SQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTL-KELLQDPGQPLPWGQR---V 606
S++ L + H +++ D KL L+ EY +GG L K++ Q + LP+ + +
Sbjct: 114 SELHCLAACDHFGIVKHFDDFKSDDKLLLIMEYGSGGDLNKQIKQRLKEHLPFQEYEVGL 173
Query: 607 NFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
F + I + +HS ++HRDL S N + G
Sbjct: 174 LFYQ-IVLALDEVHSRKMMHRDLKSANIFLMPTG 206
>gnl|CDD|188737 cd09351, LIM1_LPP, The first LIM domain of lipoma preferred
partner (LPP). The first LIM domain of lipoma
preferred partner (LPP): LPP is a member of the zyxin
LIM protein family and contains three LIM zinc-binding
domains at the C-terminal and proline-rich region at
the N-terminal. LPP initially identified as the most
frequent translocation partner of HMGA2 (High Mobility
Group A2) in a subgroup of benign tumors of adipose
tissue (lipomas). It was also shown to be rearranged in
a number of other soft tissues, as well as in a case of
acute monoblastic leukemia. In addition to its
involvement in tumors, LPP was inedited as a smooth
muscle restricted LIM protein that plays an important
role in SMC migration. LPP is localized at sites of
cell adhesion, cell-cell contacts and transiently in
the nucleus. In nucleus, it acts as a coactivator for
the ETS domain transcription factor PEA3. In addition
to PEA3, it interacts with alpha-actinin,vasodilator
stimulated phosphoprotein (VASP),Palladin, and Scrib.
The LIM domains are the main focal adhesion targeting
elements and that the proline- rich region, which
harbors binding sites for alpha-actinin and
vasodilator- stimulated phosphoprotein (VASP), has a
weak targeting capacity. As in other LIM domains, this
domain family is 50-60 amino acids in size and shares
two characteristic zinc finger motifs. The two zinc
fingers contain eight conserved residues, mostly
cysteines and histidines, which coordinately bond to
two zinc atoms. LIM domains function as adaptors or
scaffolds to support the assembly of multimeric
protein.
Length = 54
Score = 33.9 bits (78), Expect = 0.015
Identities = 17/54 (31%), Positives = 26/54 (48%), Gaps = 2/54 (3%)
Query: 12 CAGCLNNIV-EDEYVQALSQEWHTDCFRCSACDVMLDNW-YFEKDGLLFCKEDY 63
C C ++ E A+ Q +H CF C C + L ++ DG +C+EDY
Sbjct: 1 CVKCGEKVLGEGSGCTAMDQVYHISCFTCHQCQINLQGKPFYALDGKPYCEEDY 54
>gnl|CDD|188834 cd09450, LIM_ALP, This family represents the LIM domain of ALP,
actinin-associated LIM protein. This family represents
the LIM domain of ALP, actinin-associated LIM protein.
ALP contains an N-terminal PDZ domain, a C-terminal LIM
domain and an ALP-subfamily-specific 34-amino-acid motif
termed ALP-like motif (AM), which contains a putative
consensus protein kinase C (PKC) phosphorylation site
and two alpha-helices. ALP proteins are found in heart
and in skeletal muscle. ALP may act as a signaling
molecule which is regulated by PKC-dependent signaling.
ALP plays an essential role in the development of RV
(right ventricle) chamber. LIM domains are 50-60 amino
acids in size and share two characteristic zinc finger
motifs. The two zinc fingers contain eight conserved
residues, mostly cysteines and histidines, which
coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 53
Score = 33.7 bits (77), Expect = 0.017
Identities = 19/50 (38%), Positives = 25/50 (50%), Gaps = 2/50 (4%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYC 120
C CG + G V+ D HPECF C+ C+ + + Y VE LYC
Sbjct: 1 CDKCGSGIVGTVVKARDKYRHPECFVCSDCNLNLKQ-KGYFFVEGQ-LYC 48
Score = 31.0 bits (70), Expect = 0.17
Identities = 18/50 (36%), Positives = 27/50 (54%), Gaps = 2/50 (4%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVML-DNWYFEKDGLLFCK 60
C C + IV V+A + H +CF CS C++ L YF +G L+C+
Sbjct: 1 CDKCGSGIV-GTVVKARDKYRHPECFVCSDCNLNLKQKGYFFVEGQLYCE 49
>gnl|CDD|188872 cd09841, LIM1_Prickle_3, The first LIM domain of Prickle 3. The
first LIM domain of Prickle 3/LIM domain only 6 (LM06):
Prickle contains three C-terminal LIM domains and a
N-terminal PET domain. Prickles have been implicated
in roles of regulating tissue polarity or planar cell
polarity (PCP). PCP establishment requires the
conserved Frizzled/Dishevelled PCP pathway. Prickle
interacts with Dishevelled, thereby modulating
Frizzled/Dishevelled activity and PCP signaling. Four
forms of prickles have been identified: prickle 1-4.
The best characterized is prickle 1 and prickle 2 which
are differentially expressed. While prickle 1 is
expressed in fetal heart and hematological
malignancies, prickle 2 is found in fetal brain, adult
cartilage, pancreatic islet, and some types of timorous
cells. Mutations in prickle 1 have been linked to
progressive myoclonus epilepsy. LIM domains are 50-60
amino acids in size and share two characteristic zinc
finger motifs. The two zinc fingers contain eight
conserved residues, mostly cysteines and histidines,
which coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 59
Score = 34.1 bits (78), Expect = 0.018
Identities = 12/29 (41%), Positives = 22/29 (75%), Gaps = 1/29 (3%)
Query: 32 WHTDCFRCSAC-DVMLDNWYFEKDGLLFC 59
WH CF+C++C ++++D YF +DG ++C
Sbjct: 26 WHPQCFQCASCQELLVDLIYFYQDGKIYC 54
Score = 32.5 bits (74), Expect = 0.065
Identities = 13/37 (35%), Positives = 20/37 (54%), Gaps = 6/37 (16%)
Query: 71 CQNCGQMMSGPVMVVGDHK------FHPECFKCTSCS 101
CQ CG+ + G + V + +HP+CF+C SC
Sbjct: 1 CQQCGRQICGGDIAVFASRAGLGACWHPQCFQCASCQ 37
>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 = 37.7 bits (88), Expect = 0.018
Identities = 30/95 (31%), Positives = 45/95 (47%), Gaps = 10/95 (10%)
Query: 550 FSQVAVLRSLHHHNV--IRFI----GVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWG 603
++ +LR H N+ IR I G +KD + +V + + L ++ QPL
Sbjct: 52 LRELKILRHFKHDNIIAIRDILRPPGADFKD--VYVVMD-LMESDLHHIIHS-DQPLTEE 107
Query: 604 QRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
F + G+ Y+HS N+IHRDL N LV E
Sbjct: 108 HIRYFLYQLLRGLKYIHSANVIHRDLKPSNLLVNE 142
>gnl|CDD|188735 cd09349, LIM1_Zyxin, The first LIM domain of Zyxin. The first LIM
domain of Zyxin: Zyxin exhibits three copies of the LIM
domain, an extensive proline-rich domain and a nuclear
export signal. Localized at sites of cell substratum
adhesion in fibroblasts, Zyxin interacts with
alpha-actinin, members of the cysteine-rich protein
(CRP) family, proteins that display Src homology 3 (SH3)
domains and Ena/VASP family members. Zyxin and its
partners have been implicated in the spatial control of
actin filament assembly as well as in pathways important
for cell differentiation. In addition to its functions
at focal adhesion plaques, recent work has shown that
zyxin moves from the sites of cell contacts to the
nucleus, where it directly participates in the
regulation of gene expression. As in other LIM domains,
this domain family is 50-60 amino acids in size and
shares two characteristic zinc finger motifs. The two
zinc fingers contain eight conserved residues, mostly
cysteines and histidines, which coordinately bond to two
zinc atoms. LIM domains function as adaptors or
scaffolds to support the assembly of multimeric protein.
Length = 87
Score = 34.8 bits (80), Expect = 0.018
Identities = 20/58 (34%), Positives = 26/58 (44%), Gaps = 4/58 (6%)
Query: 69 EACQNCGQMMS--GPVMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYCGLCY 124
E C CGQ +S P + H FH CF C C + + Y+L + YC CY
Sbjct: 32 ELCGICGQPLSRTQPAVRALGHLFHVTCFTCHQCEQQLQGQQFYSLEGKP--YCEECY 87
Score = 32.9 bits (75), Expect = 0.079
Identities = 13/40 (32%), Positives = 21/40 (52%), Gaps = 1/40 (2%)
Query: 25 VQALSQEWHTDCFRCSACDVMLD-NWYFEKDGLLFCKEDY 63
V+AL +H CF C C+ L ++ +G +C+E Y
Sbjct: 48 VRALGHLFHVTCFTCHQCEQQLQGQQFYSLEGKPYCEECY 87
>gnl|CDD|188818 cd09434, LIM4_FHL3, The fourth LIM domain of Four and a half LIM
domains protein 3 (FHL3). The fourth LIM domain of
Four and a half LIM domains protein 3 (FHL3): FHL3 is
highly expressed in the skeleton and cardiac muscles
and possesses the transactivation and repression
activities. FHL3 interacts with many transcription
factors, such as CREB, BKLF/KLF3, CtBP2, MyoD, and
MZF_1. Moreover, FHL3 interacts with alpha- and
beta-subunits of the muscle alpha7beta1 integrin
receptor. FHL3 was also proved to possess the
auto-activation ability and was confirmed that the
second zinc finger motif in fourth LIM domain was
responsible for the auto-activation of FHL3. LIM
domains are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein complexes.
Length = 56
Score = 34.0 bits (78), Expect = 0.019
Identities = 15/38 (39%), Positives = 19/38 (50%), Gaps = 3/38 (7%)
Query: 12 CAGCLNNIV---EDEYVQALSQEWHTDCFRCSACDVML 46
CA C I +YV ++WH CF+CS C V L
Sbjct: 1 CAACNKPITGFGGGKYVSFEDRQWHQPCFKCSRCSVSL 38
>gnl|CDD|188802 cd09418, LIM2_Prickle, The second LIM domain of Prickle. The
second LIM domain of Prickle: Prickle contains three
C-terminal LIM domains and a N-terminal PET domain.
Prickles have been implicated in roles of regulating
tissue polarity or planar cell polarity (PCP). PCP
establishment requires the conserved
Frizzled/Dishevelled PCP pathway. Prickle interacts
with Dishevelled, thereby modulating
Frizzled/Dishevelled activity and PCP signaling. Two
forms of prickles have been identified; namely prickle
1 and prickle 2. Prickle 1 and prickle 2 are
differentially expressed. While prickle 1 is expressed
in fetal heart and hematological malignancies, prickle
2 is found in fetal brain, adult cartilage, pancreatic
islet, and some types of timorous cells. LIM domains
are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein complexes.
Length = 56
Score = 33.6 bits (77), Expect = 0.020
Identities = 15/49 (30%), Positives = 22/49 (44%), Gaps = 1/49 (2%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVML-DNWYFEKDGLLFC 59
C+ C I DE +A + WH F C C+ L Y ++G +C
Sbjct: 3 CSACDEIIFADECTEAEGRHWHMKHFCCFECECQLGGQRYIMREGRPYC 51
>gnl|CDD|188729 cd09343, LIM1_FHL, The first LIM domain of Four and a half LIM
domains protein (FHL). The first LIM domain of Four
and a half LIM domains protein (FHL): LIM-only protein
family consists of five members, designated FHL1, FHL2,
FHL3, FHL5 and LIMPETin. The first four members are
composed of four complete LIM domains arranged in
tandem and an N-terminal single zinc finger domain
with a consensus sequence equivalent to the C-terminal
half of a LIM domain. LIMPETin is an exception,
containing six LIM domains. FHL1, 2 and 3 are
predominantly expressed in muscle tissues, and FHL5 is
highly expressed in male germ cells. FHL proteins
exert their roles as transcription co-activators or
co-repressors through a wide array of interaction
partners. For example, FHL1 binds to Myosin-binding
protein C, regulating myosin filament formation and
sarcomere assembly. FHL2 has shown to interact with
more than 50 different proteins, including receptors,
structural proteins, transcription factors and
cofactors, signal transducers, splicing factors, DNA
replication and repair enzymes, and metabolic enzymes.
FHL3 int eracts with many transcription factors, such
as CREB, BKLF/KLF3, CtBP2, MyoD, and MZF_1. FHL5 is a
tissue-specific coactivator of CREB/CREM family
transcription factors. LIM domains are 50-60 amino
acids in size and share two characteristic zinc finger
motifs. The two zinc fingers contain eight conserved
residues, mostly cysteines and histidines, which
coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 59
Score = 33.9 bits (78), Expect = 0.020
Identities = 14/33 (42%), Positives = 16/33 (48%), Gaps = 1/33 (3%)
Query: 32 WHTDCFRCSACDVML-DNWYFEKDGLLFCKEDY 63
WH CF+C C L D + KD L C E Y
Sbjct: 26 WHEGCFKCFKCQRSLVDKPFAAKDEDLLCTECY 58
Score = 29.3 bits (66), Expect = 0.70
Identities = 13/44 (29%), Positives = 17/44 (38%), Gaps = 14/44 (31%)
Query: 87 DHKFHPECFKCTSCSCCIGDGESYALVER------SILYCGLCY 124
D +H CFKC C +LV++ L C CY
Sbjct: 23 DRHWHEGCFKCFKC--------QRSLVDKPFAAKDEDLLCTECY 58
>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 = 37.3 bits (86), Expect = 0.021
Identities = 29/102 (28%), Positives = 47/102 (46%), Gaps = 9/102 (8%)
Query: 543 LINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLN------LVTEYIAGGTLKELLQDP 596
+I+ + ++ +L+ + H NVI + V R L LVT ++ G L +++
Sbjct: 57 IIHAKRTYRELRLLKHMKHENVIGLLDVFTPARSLEEFNDVYLVT-HLMGADLNNIVK-- 113
Query: 597 GQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
Q L I G+ Y+HS ++IHRDL N V E
Sbjct: 114 CQKLTDDHVQFLIYQILRGLKYIHSADIIHRDLKPSNLAVNE 155
>gnl|CDD|188777 cd09391, LIM1_Lrg1p_like, The first LIM domain of Lrg1p, a LIM
and RhoGap domain containing protein. The first LIM
domain of Lrg1p, a LIM and RhoGap domain containing
protein: The members of this family contain three
tandem repeats of LIM domains and a Rho-type GTPase
activating protein (RhoGap) domain. Lrg1p is a Rho1
GTPase-activating protein required for efficient cell
fusion in yeast. Lrg1p-GAP domain strongly and
specifically stimulates the GTPase activity of Rho1p, a
regulator of beta (1-3)-glucan synthase in vitro. The
LIM domain is 50-60 amino acids in size and shares two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein.
Length = 57
Score = 33.8 bits (78), Expect = 0.021
Identities = 17/58 (29%), Positives = 27/58 (46%), Gaps = 7/58 (12%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWYFEKDG------LLFCKEDY 63
CA C + ++V+AL +H DCF C C + + +F D + C+ DY
Sbjct: 1 CAKC-GKPITGQFVRALGDVYHLDCFTCHDCGKPVASKFFPVDDPDTSEQVPLCETDY 57
Score = 32.3 bits (74), Expect = 0.065
Identities = 12/31 (38%), Positives = 18/31 (58%), Gaps = 2/31 (6%)
Query: 71 CQNCGQMMSGP-VMVVGDHKFHPECFKCTSC 100
C CG+ ++G V +GD +H +CF C C
Sbjct: 1 CAKCGKPITGQFVRALGDV-YHLDCFTCHDC 30
>gnl|CDD|173676 cd05585, STKc_YPK1_like, Catalytic domain of Yeast Protein Kinase
1-like Protein Serine/Threonine Kinases.
Serine/Threonine Kinases (STKs), Yeast protein kinase 1
(YPK1)-like subfamily, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine/threonine residues on protein substrates.
The YPK1-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
fungal proteins with similarity to the AGC STKs,
Saccharomyces cerevisiae YPK1 and Schizosaccharomyces
pombe Gad8p. YPK1 is required for cell growth and acts
as a downstream kinase in the sphingolipid-mediated
signaling pathway of yeast. It also plays a role in
efficient endocytosis and in the maintenance of cell
wall integrity. Gad8p is a downstream target of Tor1p,
the fission yeast homolog of mTOR. It plays a role in
cell growth and sexual development.
Length = 312
Score = 37.2 bits (86), Expect = 0.024
Identities = 38/153 (24%), Positives = 64/153 (41%), Gaps = 23/153 (15%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+G+G FG+V +V R+T + LK + + +++ S +
Sbjct: 1 IGKGSFGKVMQVRKRDTQRIYALKTIRKA-----------------HIV---SRSEVT-- 38
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVN 607
H ++ VL ++ ++ KL LV +I GG L LQ G+ R
Sbjct: 39 HTLAERTVLAQVNCPFIVPLKFSFQSPEKLYLVLAFINGGELFHHLQREGRFDLSRARFY 98
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
A + A + LH N+I+RDL +N L+ G
Sbjct: 99 TAELLCA-LENLHKFNVIYRDLKPENILLDYQG 130
>gnl|CDD|188832 cd09448, LIM_CLP36, This family represents the LIM domain of CLP36.
This family represents the LIM domain of CLP36. CLP36
has also been named as CLIM1, Elfin, or PDLIM1. CLP36
contains a C-terminal LIM domain and an N-terminal PDZ
domain. CLP36 is highly expressed in heart and is
present in many other tissues including lung, liver,
spleen, and blood. CLP36 has been implicated in many
processes including hypoxia and regulation of actin
stress fibers. CLP36 co-localizes with alpha-actinin-2
at the Z-lines in myocardium. In addition, CLP36 binds
to alpha-actinin-1 and alpha-actinin-4, and associates
with F-actin filaments and stress fibers. CLP36 might be
involved in not only the function of sarcomeres in
muscle cells, but also in actin stress fiber-mediated
cellular processes, such as cell shape, migration,
polarit, and cytokinesis in non-muscle cells. LIM
domains are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to support
the assembly of multimeric protein complexes.
Length = 52
Score = 33.4 bits (76), Expect = 0.026
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSC 100
C CG + G + + D HPEC+ CT C
Sbjct: 1 CDKCGSGIVGVFVKIRDKPRHPECYVCTDC 30
>gnl|CDD|188784 cd09400, LIM_like_1, LIM domain in proteins of unknown function.
LIM domain in proteins of unknown function: LIM domains
are identified in a diverse group of proteins with wide
variety of biological functions, including gene
expression regulation, cell fate determination,
cytoskeleton organization, tumor formation, and
development. LIM domains function as adaptors or
scaffolds to support the assembly of multimeric protein
complexes. They perform their functions through
interactions with other protein partners. The LIM
domains are 50-60 amino acids in size and share two
characteristic highly conserved zinc finger motifs. The
two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately bond
to two zinc atoms. The consensus sequence of LIM domain
has been defined as
C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,
21)-C-x(2,3)-[CHD] (where X denotes any amino acid).
Length = 61
Score = 33.6 bits (77), Expect = 0.027
Identities = 13/50 (26%), Positives = 20/50 (40%), Gaps = 1/50 (2%)
Query: 69 EACQNCGQMMS-GPVMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSI 117
E C +CG + +++ +H CFKC C + G Y S
Sbjct: 3 EPCASCGLPVFLAERLLIEGKVYHRTCFKCARCGVQLTPGSFYETEYGSY 52
Score = 28.9 bits (65), Expect = 1.0
Identities = 14/51 (27%), Positives = 23/51 (45%), Gaps = 2/51 (3%)
Query: 11 TCAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVML--DNWYFEKDGLLFC 59
CA C + E + + +H CF+C+ C V L ++Y + G C
Sbjct: 4 PCASCGLPVFLAERLLIEGKVYHRTCFKCARCGVQLTPGSFYETEYGSYCC 54
>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 = 36.8 bits (85), Expect = 0.029
Identities = 38/158 (24%), Positives = 60/158 (37%), Gaps = 33/158 (20%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
+G G +G V + TGE + +K+L R F E I
Sbjct: 22 QVGSGAYGSVCSAIDKRTGEKVAIKKLSR-------PFQSE----------------IFA 58
Query: 547 LHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLN------LVTEYIAGGTLKELLQDPGQPL 600
+ ++ +L+ + H NVI + V + LV Y+ +L + G PL
Sbjct: 59 KRAYRELTLLKHMQHENVIGLLDVFTSAVSGDEFQDFYLVMPYM----QTDLQKIMGHPL 114
Query: 601 PWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
+ + G+ Y+HS +IHRDL N V E
Sbjct: 115 SEDKVQYLVYQMLCGLKYIHSAGIIHRDLKPGNLAVNE 152
>gnl|CDD|173686 cd05595, STKc_PKB_beta, Catalytic domain of the Protein
Serine/Threonine Kinase, Protein Kinase B beta.
Serine/Threonine Kinases (STKs), Protein Kinase B (PKB)
or Akt subfamily, beta (or Akt2) isoform, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The PKB 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. There are three
PKB isoforms from different genes, PKB-alpha (or Akt1),
PKB-beta (or Akt2), and PKB-gamma (or Akt3). PKB
contains an N-terminal pleckstrin homology (PH) domain
and a C-terminal catalytic domain. PKB-beta is the
predominant PKB isoform expressed in insulin-responsive
tissues. It plays a critical role in the regulation of
glucose homeostasis. It is also implicated in muscle
cell differentiation. Mice deficient in PKB-beta display
normal growth weights but exhibit severe insulin
resistance and diabetes, accompanied by lipoatrophy and
B-cell failure.
Length = 323
Score = 36.9 bits (85), Expect = 0.032
Identities = 36/155 (23%), Positives = 66/155 (42%), Gaps = 25/155 (16%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
LLG+G FG+V V + TG +K L ++ +I D +H +
Sbjct: 2 LLGKGTFGKVILVREKATGRYYAMKIL---------------RKEVIIAKDEVAHTV--- 43
Query: 547 LHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRV 606
++ VL++ H + +L V EY GG L + + +R
Sbjct: 44 ----TESRVLQNTRHPFLTALKYAFQTHDRLCFVMEYANGGEL--FFHLSRERVFTEERA 97
Query: 607 NF-ARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
F +I + + YLHS ++++RD+ +N ++ + G
Sbjct: 98 RFYGAEIVSALEYLHSRDVVYRDIKLENLMLDKDG 132
>gnl|CDD|188806 cd09422, LIM1_FHL2, The first LIM domain of Four and a half LIM
domains protein 2 (FHL2). The first LIM domain of Four
and a half LIM domains protein 2 (FHL2): FHL2 is one
of the best studied FHL proteins. FHL2 expression is
most abundant in the heart, and in brain, liver and
lung at lesser extent. FHL2 participates in a wide
range of cellular processes, such as transcriptional
regulation, signal transduction, and cell survival by
binding to various protein partners. FHL2 has shown to
interact with more than 50 different proteins,
including receptors, structural proteins, transcription
factors and cofactors, signal transducers, splicing
factors, DNA replication and repair enzymes, and
metabolic enzymes. Although FHL2 is abundantly
expressed in heart, the fhl2 null mice are viable and
had no detectable abnormal cardiac phenotype. LIM
domains are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein complexes.
Length = 62
Score = 33.3 bits (76), Expect = 0.032
Identities = 18/59 (30%), Positives = 28/59 (47%), Gaps = 2/59 (3%)
Query: 11 TCAGCLNNIVED-EYVQALSQEWHTDCFRCSAC-DVMLDNWYFEKDGLLFCKEDYNGKY 67
TC C I D + + + WH CF C C + ++D + K+ L C E Y+ +Y
Sbjct: 4 TCEECKKPIGCDCKDLSYKDRHWHESCFHCFQCKNSLVDKPFAAKEEHLLCTECYSNEY 62
>gnl|CDD|173708 cd05617, STKc_aPKC_zeta, Catalytic domain of the Protein
Serine/Threonine Kinase, Atypical Protein Kinase C zeta.
Serine/Threonine Kinases (STKs), Atypical Protein
Kinase C (aPKC) subfamily, zeta isoform, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The aPKC 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. PKCs are
classified into three groups (classical, atypical, and
novel) depending on their mode of activation and the
structural characteristics of their regulatory domain.
aPKCs only require phosphatidylserine (PS) for
activation. There are two aPKC isoforms, zeta and iota.
PKC-zeta plays a critical role in activating the glucose
transport response. It is activated by glucose, insulin,
and exercise through diverse pathways. PKC-zeta also
plays a central role in maintaining cell polarity in
yeast and mammalian cells. In addition, it affects actin
remodeling in muscle cells.
Length = 327
Score = 36.5 bits (84), Expect = 0.033
Identities = 22/65 (33%), Positives = 33/65 (50%), Gaps = 1/65 (1%)
Query: 576 KLNLVTEYIAGGTLKELLQDPGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCL 635
+L LV EY+ GG L +Q + LP +A +I + +LH +I+RDL N L
Sbjct: 70 RLFLVIEYVNGGDLMFHMQRQ-RKLPEEHARFYAAEICIALNFLHERGIIYRDLKLDNVL 128
Query: 636 VREVG 640
+ G
Sbjct: 129 LDADG 133
>gnl|CDD|188830 cd09446, LIM_N_RAP, The LIM domain of N-RAP. The LIM domain of
N-RAP: N-RAP is a muscle-specific protein concentrated
at myotendinous junctions in skeletal muscle and
intercalated disks in cardiac muscle. LIM domain is
found at the N-terminus of N-RAP and the C-terminal of
N-RAP contains a region with multiple of nebulin
repeats. N-RAP functions as a scaffolding protein that
organizes alpha-actinin and actin into symmetrical
I-Z-I structures in developing myofibrils. Nebulin
repeat is known as actin binding domain. The N-RAP is
hypothesized to form antiparallel dimerization via its
LIM domain. As in other LIM domains, this domain family
is 50-60 amino acids in size and shares two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein.
Length = 53
Score = 33.0 bits (75), Expect = 0.034
Identities = 13/35 (37%), Positives = 17/35 (48%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVML 46
CA C + E + + Q WH CF C C +ML
Sbjct: 1 CARCGYGVYPAEKINCIDQTWHKACFHCEVCKMML 35
>gnl|CDD|188733 cd09347, LIM4_FHL, The fourth LIM domain of Four and a half LIM
domains protein (FHL). The fourth LIM domain of Four
and a half LIM domains protein (FHL): LIM-only protein
family consists of five members, designated FHL1, FHL2,
FHL3, FHL5 and LIMPETin. The first four members are
composed of four complete LIM domains arranged in
tandem and an N-terminal single zinc finger domain with
a consensus sequence equivalent to the C-terminal half
of a LIM domain. LIMPETin is an exception, containing
six LIM domains. FHL1, 2 and 3 are predominantly
expressed in muscle tissues, and FHL5 is highly
expressed in male germ cells. FHL proteins exert their
roles as transcription co-activators or co-repressors
through a wide array of interaction partners. For
example, FHL1 binds to Myosin-binding protein C,
regulating myosin filament formation and sarcomere
assembly. FHL2 has shown to interact with more than 50
different proteins, including receptors, structural
proteins, transcription factors and cofactors, signal
transducers, splicing factors, DNA replication and
repair enzymes, and metabolic enzymes. FHL3 interacts
with many transcription factors, such as CREB,
BKLF/KLF3, CtBP2, MyoD, and MZF_1. FHL5 is a
tissue-specific coactivator of CREB/CREM family
transcription factors. LIM domains are 50-60 amino
acids in size and share two characteristic zinc finger
motifs. The two zinc fingers contain eight conserved
residues, mostly cysteines and histidines, which
coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 56
Score = 33.1 bits (76), Expect = 0.034
Identities = 19/69 (27%), Positives = 28/69 (40%), Gaps = 18/69 (26%)
Query: 12 CAGCLNNIV---EDEYVQALSQEWHTDCFRCSACDVMLDNWYF--EKDGLLFCKEDYNGK 66
CA C I +++ ++WH+DCF C C V L F ++D +L
Sbjct: 1 CAACTKPITGLGGAKFISFEERQWHSDCFNCGKCSVSLVGQGFLTQRDEIL--------- 51
Query: 67 YGEACQNCG 75
C CG
Sbjct: 52 ----CPECG 56
>gnl|CDD|234331 TIGR03724, arch_bud32, Kae1-associated kinase Bud32. Members of
this protein family are the Bud32 protein associated
with Kae1 (kinase-associated endopeptidase 1) in the
Archaea. In many Archaeal genomes, Kae1 and Bud32 are
fused. The complex is homologous to the Kae1 and Bud32
subunits of the eukaryotic KEOPS complex, an apparently
ancient protein kinase-containing molecular machine
[Unknown function, General].
Length = 199
Score = 36.0 bits (84), Expect = 0.035
Identities = 20/75 (26%), Positives = 35/75 (46%), Gaps = 17/75 (22%)
Query: 579 LVTEYIAGGTLKELLQDPGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
+V EYI G LK+++++ R+I + LH ++H DL + N +VR+
Sbjct: 74 IVMEYIEGKPLKDVIEE--------GNDELLREIGRLVGKLHKAGIVHGDLTTSNIIVRD 125
Query: 639 VGSGFDFHLGQIYLI 653
++YLI
Sbjct: 126 ---------DKLYLI 131
>gnl|CDD|223864 COG0793, Prc, Periplasmic protease [Cell envelope biogenesis, outer
membrane].
Length = 406
Score = 36.5 bits (85), Expect = 0.036
Identities = 16/67 (23%), Positives = 24/67 (35%), Gaps = 7/67 (10%)
Query: 285 DPRADLMSLHLGDRILEVNGTPVRDKPLQEVECLIRNTTDT----VLQRQILKECRIKDL 340
A + GD I++++G V L E LIR T + R + L
Sbjct: 122 GSPAAKAGIKPGDVIIKIDGKSVGGVSLDEAVKLIRGKPGTKVTLTILRAGGGKPFTVTL 181
Query: 341 ---IIEV 344
IE+
Sbjct: 182 TREEIEL 188
>gnl|CDD|188829 cd09445, LIM_Mical_like_2, This domain belongs to the LIM domain
family which are found on Mical (molecule interacting
with CasL) like proteins. The LIM domain on proteins
of unknown function: This domain belongs to the LIM
domain family which are found on Mical (molecule
interacting with CasL)-like proteins. Known members of
the Mical-like family includes single LIM domain
containing proteins, Mical (molecule interacting with
CasL), pollen specific protein SF3, Eplin, xin
actin-binding repeat-containing protein 2 (XIRP2), and
Ltd-1. The members of this family function mainly at
the cytoskeleton and focal adhesions. They interact
with transcription factors or other signaling molecules
to play roles in muscle development, neuronal
differentiation, cell growth, and mobility. As in
other LIM domains, this domain family is 50-60 amino
acids in size and shares two characteristic zinc finger
motifs. The two zinc fingers contain eight conserved
residues, mostly cysteines and histidines, which
coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein.
Length = 53
Score = 32.8 bits (75), Expect = 0.037
Identities = 18/51 (35%), Positives = 26/51 (50%), Gaps = 3/51 (5%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVML--DNWYFEKDGLLFCK 60
C C + + E + A +H +CFRC C+ L DN Y +G L+CK
Sbjct: 1 CRSCGKPVYKMEEIIAEKHIYHKNCFRCKDCNKQLKVDN-YQSHEGNLYCK 50
>gnl|CDD|173653 cd05105, PTKc_PDGFR_alpha, Catalytic domain of the Protein Tyrosine
Kinase, Platelet Derived Growth Factor Receptor alpha.
Protein Tyrosine Kinase (PTK) family; Platelet Derived
Growth Factor Receptor (PDGFR) alpha; catalytic (c)
domain. 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. PDGFR
alpha is a receptor tyr kinase (RTK) containing an
extracellular ligand-binding region with five
immunoglobulin-like domains, a transmembrane segment,
and an intracellular catalytic domain. The binding to
its ligands, the PDGFs, leads to receptor dimerization,
trans phosphorylation and activation, and intracellular
signaling. PDGFR alpha forms homodimers or heterodimers
with PDGFR beta, depending on the nature of the PDGF
ligand. PDGF-AA, PDGF-AB, and PDGF-CC induce PDGFR alpha
homodimerization. PDGFR signaling plays many roles in
normal embryonic development and adult physiology. PDGFR
alpha signaling is important in the formation of lung
alveoli, intestinal villi, mesenchymal dermis, and hair
follicles, as well as in the development of
oligodendrocytes, retinal astrocytes, neural crest
cells, and testicular cells. Aberrant PDGFR alpha
expression is associated with some human cancers.
Mutations in PDGFR alpha have been found within a subset
of gastrointestinal stromal tumors (GISTs). An active
fusion protein FIP1L1-PDGFR alpha, derived from
interstitial deletion, is associated with idiopathic
hypereosinophilic syndrome (HES) and chronic
eosinophilic leukemia (CEL).
Length = 400
Score = 36.5 bits (84), Expect = 0.038
Identities = 19/51 (37%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 587 GTLKELLQDPG-QPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
+K LL D G + L ++F +A GM +L S N +HRDL ++N L+
Sbjct: 220 SEVKNLLSDDGSEGLTTLDLLSFTYQVARGMEFLASKNCVHRDLAARNVLL 270
>gnl|CDD|173713 cd05624, STKc_MRCK_beta, Catalytic domain of the Protein
Serine/Threonine Kinase, DMPK-related cell division
control protein 42 binding kinase beta.
Serine/Threonine Kinases (STKs), DMPK-like subfamily,
DMPK-related cell division control protein 42 (Cdc42)
binding kinase (MRCK) beta isoform, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The DMPK-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. MRCK is activated via interaction with the
small GTPase Cdc42. MRCK/Cdc42 signaling mediates
myosin-dependent cell motility. MRCKbeta is expressed
ubiquitously in many tissues.
Length = 331
Score = 36.5 bits (84), Expect = 0.040
Identities = 35/152 (23%), Positives = 60/152 (39%), Gaps = 26/152 (17%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKEL--YRVDEEAEKNFLKESKQGLIYLIDLGSHGLI 544
++G+G FG+V V + T + +K L + + + AE +E + L+ G I
Sbjct: 8 VIGRGAFGEVAVVKMKHTERIYAMKILNKWEMLKRAETACFREERNVLVN----GDCQWI 63
Query: 545 NNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQ 604
LH Q + L LV +Y GG L LL LP
Sbjct: 64 TTLHYAFQ--------------------DENYLYLVMDYYVGGDLLTLLSKFEDRLPEDM 103
Query: 605 RVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
+ ++ + +H ++ +HRD+ N L+
Sbjct: 104 ARFYIAEMVLAIHSIHQLHYVHRDIKPDNVLL 135
>gnl|CDD|173705 cd05614, STKc_MSK2_N, N-terminal catalytic domain of the Protein
Serine/Threonine Kinase, Mitogen and stress-activated
kinase 2. Serine/Threonine Kinases (STKs), Mitogen and
stress-activated kinase (MSK) subfamily, MSK2,
N-terminal catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The MSK
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. MSKs contain an N-terminal kinase domain (NTD)
from the AGC family and a C-terminal kinase domain (CTD)
from the CAMK family, similar to 90 kDa ribosomal
protein S6 kinases (RSKs). MSKs are activated by two
major signaling cascades, the Ras-MAPK and p38 stress
kinase pathways, which trigger phosphorylation in the
activation loop (A-loop) of the CTD of MSK. The active
CTD phosphorylates the hydrophobic motif (HM) of NTD,
which facilitates the phosphorylation of the A-loop and
activates the NTD, which in turn phosphorylates
downstream targets. MSK2 and MSK1 play nonredundant
roles in activating histone H3 kinases, which play
pivotal roles in compaction of the chromatin fiber. MSK2
is the required H3 kinase in response to stress stimuli
and activation of the p38 MAPK pathway. MSK2 also plays
a role in the pathogenesis of psoriasis.
Length = 332
Score = 36.1 bits (83), Expect = 0.045
Identities = 41/182 (22%), Positives = 77/182 (42%), Gaps = 48/182 (26%)
Query: 487 LLGQGFFGQVY---RVTHRETGEVMVLKELYR---VDEEAEKNFLKESKQGLIYLIDLGS 540
+LG G +G+V+ +VT +TG++ +K L + V + + + L ++
Sbjct: 7 VLGTGAYGKVFLVRKVTGHDTGKLYAMKVLQKAALVQKAKTVEHTRTERNVLEHV----- 61
Query: 541 HGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPL 600
Q L +LH+ + KL+L+ +Y++GG + L
Sbjct: 62 ----------RQSPFLVTLHY--------AFQTEAKLHLILDYVSGGEMFTHLY------ 97
Query: 601 PWGQRVNFARD--------IAAGMTYLHSMNLIHRDLNSQNCLVREVGSGF--DFHLGQI 650
QR NF+ D I + +LH + +++RD+ +N L+ G DF L +
Sbjct: 98 ---QRDNFSEDEVRFYSGEIILALEHLHKLGIVYRDIKLENILLDSEGHVVLTDFGLSKE 154
Query: 651 YL 652
+L
Sbjct: 155 FL 156
>gnl|CDD|173716 cd05627, STKc_NDR2, Catalytic domain of the Protein
Serine/Threonine Kinase, Nuclear Dbf2-Related kinase 2.
Serine/Threonine Kinases (STKs), NDR kinase subfamily,
NDR2 isoform, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The NDR
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. NDR kinase contains an N-terminal regulatory
(NTR) domain and an insert within the catalytic domain
that contains an auto-inhibitory sequence. Like many
other AGC kinases, NDR kinase requires phosphorylation
at two sites, the activation loop (A-loop) and the
hydrophobic motif (HM), for activity. Higher eukaryotes
contain two NDR isoforms, NDR1 and NDR2. Both isoforms
play a role in proper centrosome duplication. In
addition, NDR2 plays a role in regulating neuronal
growth and differentiation, as well as in facilitating
neurite outgrowth. It is also implicated in fear
conditioning as it contributes to the coupling of
neuronal morphological changes with fear-memory
consolidation. NDR2 is also referred to as STK38-like.
Length = 360
Score = 36.2 bits (83), Expect = 0.046
Identities = 34/154 (22%), Positives = 61/154 (39%), Gaps = 23/154 (14%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
++G+G FG+V V ++TG + +K L + D + E +Q
Sbjct: 8 VIGRGAFGEVRLVQKKDTGHIYAMKILRKAD-------MLEKEQ---------------V 45
Query: 547 LHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRV 606
H ++ +L V++ R L L+ E++ GG + LL +
Sbjct: 46 AHIRAERDILVEADGAWVVKMFYSFQDKRNLYLIMEFLPGGDMMTLLMKKDTLSEEATQF 105
Query: 607 NFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
A + A + +H + IHRD+ N L+ G
Sbjct: 106 YIAETVLA-IDAIHQLGFIHRDIKPDNLLLDAKG 138
>gnl|CDD|188763 cd09377, LIM2_Lhx2_Lhx9, The second LIM domain of Lhx2 and Lhx9
family. The second LIM domain of Lhx2 and Lhx9 family:
Lhx2 and Lhx9 are highly homologous LHX regulatory
proteins. They belong to the LHX protein family, which
features two tandem N-terminal LIM domains and a
C-terminal DNA binding homeodomain. Members of LHX
family are found in the nucleus and act as transcription
factors or cofactors. LHX proteins are critical for the
development of specialized cells in multiple tissue
types, including the nervous system, skeletal muscle,
the heart, the kidneys, and endocrine organs, such as
the pituitary gland and the pancreas. Although Lhx2 and
Lhx9 are highly homologous, they seems to play
regulatory roles in different organs. In animals, Lhx2
plays important roles in eye, cerebral cortex, limb, the
olfactory organs, and erythrocyte development. Lhx2 gene
knockout mice exhibit impaired patterning of the
cortical hem and the telencephalon of the developing
brain, and a lack of development in olfactory
structures. Lhx9 is expressed in several regions of the
developing mouse brain, the spinal cord, the pancreas,
in limb mesenchyme, and in the urogenital region. Lhx9
plays critical roles in gonad development. Homozygous
mice lacking functional Lhx9 alleles exhibit numerous
urogenital defects, such as gonadal agenesis,
infertility, and undetectable levels of testosterone and
estradiol coupled with high FSH levels. Lhx9 null mice
are phenotypically female, even those that are
genotypically male. As in other LIM domains, this domain
family is 50-60 amino acids in size and shares two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to support
the assembly of multimeric protein.
Length = 59
Score = 32.6 bits (75), Expect = 0.049
Identities = 14/43 (32%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 82 VMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYCGLCY 124
VM D FH CF C +C+ + G+ + + + ++YC L Y
Sbjct: 18 VMRARDLVFHLNCFTCATCNKPLTKGDHFGMRD-GLVYCRLHY 59
Score = 32.6 bits (75), Expect = 0.059
Identities = 18/55 (32%), Positives = 29/55 (52%), Gaps = 3/55 (5%)
Query: 12 CAGCLNNIVEDEYV-QALSQEWHTDCFRCSACDVMLD--NWYFEKDGLLFCKEDY 63
CA C I E V +A +H +CF C+ C+ L + + +DGL++C+ Y
Sbjct: 5 CARCHLGISASELVMRARDLVFHLNCFTCATCNKPLTKGDHFGMRDGLVYCRLHY 59
>gnl|CDD|188767 cd09381, LIM1_Lhx7_Lhx8, The first LIM domain of Lhx7 and Lhx8.
The first LIM domain of Lhx7 and Lhx8: Lhx7 and Lhx8
belong to the LHX protein family, which features two
tandem N-terminal LIM domains and a C-terminal DNA
binding homeodomain. Members of LHX family are found in
the nucleus and act as transcription factors or
cofactors. LHX proteins are critical for the
development of specialized cells in multiple tissue
types, including the nervous system, skeletal muscle,
the heart, the kidneys, and endocrine organs such as
the pituitary gland and the pancreas. Studies using
mutant mice have revealed roles for Lhx7 and Lhx8 in
the development of cholinergic neurons in the
telencephalon and in basal forebrain development. Mice
lacking alleles of the LIM-homeobox gene Lhx7 or Lhx8
display dramatically reduced number of forebrain
cholinergic neurons. In addition, Lhx7 mutation affects
male and female mice differently, with females
appearing more affected than males. As in other LIM
domains, this domain family is 50-60 amino acids in
size and shares two characteristic zinc finger motifs.
The two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately
bond to two zinc atoms. LIM domains function as
adaptors or scaffolds to support the assembly of
multimeric protein.
Length = 56
Score = 32.6 bits (74), Expect = 0.049
Identities = 18/54 (33%), Positives = 24/54 (44%), Gaps = 2/54 (3%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWY--FEKDGLLFCKEDY 63
C+ C IV+ ++ WH C CS C L + KD +FCK DY
Sbjct: 2 CSSCGLEIVDKYLLKVNDLCWHVRCLSCSVCRTSLGRHTSCYIKDKDIFCKLDY 55
Score = 27.2 bits (60), Expect = 3.9
Identities = 15/55 (27%), Positives = 28/55 (50%), Gaps = 2/55 (3%)
Query: 71 CQNCG-QMMSGPVMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYCGLCY 124
C +CG +++ ++ V D +H C C+ C +G S + ++ I +C L Y
Sbjct: 2 CSSCGLEIVDKYLLKVNDLCWHVRCLSCSVCRTSLGRHTSCYIKDKDI-FCKLDY 55
>gnl|CDD|188766 cd09380, LIM1_Lhx6, The first LIM domain of Lhx6. The first LIM
domain of Lhx6. Lhx6 is a member of LHX protein family,
which features two tandem N-terminal LIM domains and a
C-terminal DNA binding homeodomain. Members of LHX
family are found in the nucleus and act as
transcription factors or cofactors. LHX proteins are
critical for the development of specialized cells in
multiple tissue types, including the nervous system,
skeletal muscle, the heart, the kidneys, and endocrine
organs such as the pituitary gland and the pancreas.
Lhx6 functions in the brain and nervous system. It is
expressed at high levels in several regions of the
embryonic mouse CNS, including the telencephalon and
hypothalamus, and the first branchial arch. Lhx6 is
proposed to have a role in patterning of the mandible
and maxilla, and in signaling during odontogenesis. In
brain sections, knockdown of Lhx6 gene blocks the
normal migration of neurons to the cortex. As in other
LIM domains, this domain family is 50-60 amino acids in
size and shares two characteristic zinc finger motifs.
The two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately
bond to two zinc atoms. LIM domains function as
adaptors or scaffolds to support the assembly of
multimeric protein complexes.
Length = 54
Score = 32.7 bits (74), Expect = 0.050
Identities = 17/54 (31%), Positives = 26/54 (48%), Gaps = 2/54 (3%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVML--DNWYFEKDGLLFCKEDY 63
C+ C I++ ++ + WH C CS C L N + K+ +FCK DY
Sbjct: 1 CSSCGLEILDRYLLKVNNLIWHVRCLECSVCRTSLRQHNSCYIKNKEIFCKMDY 54
>gnl|CDD|188813 cd09429, LIM3_FHL1, The third LIM domain of Four and a half LIM
domains protein 1 (FHL1). The third LIM domain of Four
and a half LIM domains protein 1 (FHL1): FHL1 is
heavily expressed in skeletal and cardiac muscles. It
plays important roles in muscle growth, differentiation,
and sarcomere assembly by acting as a modulator of
transcription factors. Defects in FHL1 gene are
responsible for a number of Muscular dystrophy-like
muscle disorders. It has been detected that FHL1 binds
to Myosin-binding protein C, regulating myosin filament
formation and sarcomere assembly. LIM domains are 50-60
amino acids in size and share two characteristic zinc
finger motifs. The two zinc fingers contain eight
conserved residues, mostly cysteines and histidines,
which coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 53
Score = 32.5 bits (74), Expect = 0.050
Identities = 17/39 (43%), Positives = 22/39 (56%), Gaps = 2/39 (5%)
Query: 87 DHKFHPECFKCTSCSCCIGDGESYALVERSILYCGLCYK 125
D +H ECF C+SCS + G+ + VE YC CYK
Sbjct: 17 DQPWHSECFVCSSCSKKLA-GQRFTAVEDQY-YCVDCYK 53
Score = 30.9 bits (70), Expect = 0.21
Identities = 16/53 (30%), Positives = 23/53 (43%), Gaps = 2/53 (3%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWYFEK-DGLLFCKEDY 63
C C N + V Q WH++CF CS+C L F + +C + Y
Sbjct: 1 CVKC-NKPITSGGVTYQDQPWHSECFVCSSCSKKLAGQRFTAVEDQYYCVDCY 52
>gnl|CDD|218977 pfam06293, Kdo, Lipopolysaccharide kinase (Kdo/WaaP) family. These
lipopolysaccharide kinases are related to protein
kinases pfam00069. This family includes waaP (rfaP) gene
product is required for the addition of phosphate to O-4
of the first heptose residue of the lipopolysaccharide
(LPS) inner core region. It has previously been shown
that WaaP is necessary for resistance to hydrophobic and
polycationic antimicrobials in E. coli and that it is
required for virulence in invasive strains of S.
enterica.
Length = 206
Score = 35.4 bits (82), Expect = 0.057
Identities = 25/107 (23%), Positives = 38/107 (35%), Gaps = 12/107 (11%)
Query: 550 FSQVAVLRSLHHHNVIRFIGVLYKDRKLN------LVTEYIAGG-TLKELLQDPGQPLPW 602
F + +LR L V V K+ L+TE + G L L
Sbjct: 59 FREFRLLRRLREAGVPVPKPVAAGAVKVGGEYQADLLTERLEGAQDLVTWLAQWAD---P 115
Query: 603 GQRVNFA--RDIAAGMTYLHSMNLIHRDLNSQNCLVREVGSGFDFHL 647
+ + A R + + +H + H DLN+ N L+ GF L
Sbjct: 116 AEELRRALWRAVGRLIARMHRAGVNHTDLNAHNILLDTGEGGFKVWL 162
>gnl|CDD|188869 cd09485, LIM_Eplin_alpha_beta, The Lim domain of Epithelial
Protein Lost in Neoplasm (Eplin). The Lim domain of
Epithelial Protein Lost in Neoplasm (Eplin): Epithelial
Protein Lost in Neoplasm is a cytoskeleton-associated
tumor suppressor whose expression inversely correlates
with cell growth, motility, invasion and cancer
mortality. Eplin interacts and stabilizes F-actin
filaments and stress fibers, which correlates with its
ability to suppress anchorage independent growth. In
epithelial cells, Eplin is required for formation of
the F-actin adhesion belt by binding to the
E-cadherin-catenin complex through alpha-catenin. Eplin
is expressed in two isoforms, a longer Eplin-beta and a
shorter Eplin-alpha. Eplin-alpha mRNA is detected in
various tissues and cell lines, but is absent or down
regulated in cancer cells. As in other LIM domains,
this domain family is 50-60 amino acids in size and
shares two characteristic zinc finger motifs. The two
zinc fingers contain eight conserved residues, mostly
cysteines and histidines, which coordinately bond to
two zinc atoms. LIM domains function as adaptors or
scaffolds to support the assembly of multimeric
protein.
Length = 53
Score = 32.5 bits (74), Expect = 0.057
Identities = 17/53 (32%), Positives = 24/53 (45%), Gaps = 1/53 (1%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLD-NWYFEKDGLLFCKEDY 63
C C + E + A Q +H CFRCS C+ L Y G ++CK +
Sbjct: 1 CVSCQKTVYPLERLVANQQIYHNSCFRCSYCNTKLSLGTYASLHGNIYCKPHF 53
>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 = 36.2 bits (83), Expect = 0.058
Identities = 21/95 (22%), Positives = 45/95 (47%), Gaps = 12/95 (12%)
Query: 550 FSQVAVLRSLHHHNVIRFIGVLYKDRKLN------LVTEYIAGGTLKELLQDPGQPLPWG 603
+ ++ +L+ ++H N+I + V + L LV E + + + +
Sbjct: 68 YRELVLLKCVNHKNIISLLNVFTPQKSLEEFQDVYLVMELMDANLCQVIHMELDH----- 122
Query: 604 QRVNFA-RDIAAGMTYLHSMNLIHRDLNSQNCLVR 637
+R+++ + G+ +LHS +IHRDL N +V+
Sbjct: 123 ERMSYLLYQMLCGIKHLHSAGIIHRDLKPSNIVVK 157
>gnl|CDD|173720 cd05631, STKc_GRK4, Catalytic domain of the Protein
Serine/Threonine Kinase, G protein-coupled Receptor
Kinase 4. Serine/Threonine Kinases (STKs), G
protein-coupled Receptor Kinase (GRK) subfamily, GRK4
isoform, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The GRK
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. GRKs phosphorylate and regulate G
protein-coupled receptors (GPCRs), the largest
superfamily of cell surface receptors which regulate
some part of nearly all physiological functions.
Phosphorylated GPCRs bind to arrestins, which prevents
further G protein signaling despite the presence of
activating ligand. There are seven types of GRKs, named
GRK1 to GRK7. GRK4 has a limited tissue distribution. It
is mainly found in the testis, but is also present in
the cerebellum and kidney. It is expressed as multiple
splice variants with different domain architectures. It
is post-translationally palmitoylated and localized in
the membrane. GRK4 polymorphisms are associated with
hypertension and salt sensitivity, as they cause
hyperphosphorylation, desensitization, and
internalization of the dopamine 1 (D1) receptor while
increasing the expression of the angiotensin II type 1
receptor. GRK4 plays a crucial role in the D1 receptor
regulation of sodium excretion and blood pressure.
Length = 285
Score = 35.7 bits (82), Expect = 0.061
Identities = 38/155 (24%), Positives = 67/155 (43%), Gaps = 23/155 (14%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
+LG+G FG+V R TG++ K+L EK +K+ K + L
Sbjct: 7 VLGKGGFGEVCACQVRATGKMYACKKL-------EKKRIKKRKGEAMAL----------- 48
Query: 547 LHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQR- 605
++ +L ++ V+ L LV + GG LK + + G P QR
Sbjct: 49 ----NEKRILEKVNSRFVVSLAYAYETKDALCLVLTIMNGGDLKFHIYNMGNPGFDEQRA 104
Query: 606 VNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
+ +A ++ G+ L +++RDL +N L+ + G
Sbjct: 105 IFYAAELCCGLEDLQRERIVYRDLKPENILLDDRG 139
>gnl|CDD|188867 cd09483, LIM1_Prickle_1, The first LIM domain of Prickle 1. The
first LIM domain of Prickle 1. Prickle contains three
C-terminal LIM domains and a N-terminal PET domain
Prickles have been implicated in roles of regulating
tissue polarity or planar cell polarity (PCP). PCP
establishment requires the conserved
Frizzled/Dishevelled PCP pathway. Prickle interacts
with Dishevelled, thereby modulating
Frizzled/Dishevelled activity and PCP signaling. Four
forms of prickles have been identified: prickle 1-4.
The best characterized is prickle 1 and prickle 2 which
are differentially expressed. While prickle 1 is
expressed in fetal heart and hematological
malignancies, prickle 2 is found in mainly expressed in
fetal brain, adult cartilage, pancreatic islet, and
some types of timorous cells. In addition, Prickle 1
regulates cell movements during gastrulation and
neuronal migration through interaction with the
noncanonical Wnt11/Wnt5 pathway in zebrafish. Mutations
in prickle 1 have been linked to progressive myoclonus
epilepsy. LIM domains are 50-60 amino acids in size
and share two characteristic zinc finger motifs. The
two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately
bond to two zinc atoms. LIM domains function as
adaptors or scaffolds to support the assembly of
multimeric protein complexes.
Length = 59
Score = 32.6 bits (74), Expect = 0.061
Identities = 13/29 (44%), Positives = 17/29 (58%), Gaps = 1/29 (3%)
Query: 32 WHTDCFRCSACDVML-DNWYFEKDGLLFC 59
WH CF C C+ +L D YF +DG + C
Sbjct: 26 WHPSCFVCFTCNELLVDLIYFYQDGKIHC 54
>gnl|CDD|173748 cd07853, STKc_NLK, Catalytic domain of the Serine/Threonine Kinase,
Nemo-Like Kinase. Serine/Threonine Kinases (STKs),
Nemo-Like Kinase (NLK) subfamily, catalytic (c) domain.
STKs catalyze the transfer of the gamma-phosphoryl group
from ATP to serine/threonine residues on protein
substrates. The NLK 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. Mitogen-activated protein
kinases (MAPKs) are important mediators of cellular
responses to extracellular signals. NLK is an atypical
MAPK that is not regulated by a MAPK kinase. It
functions downstream of the MAPK kinase kinase Tak1,
which also plays a role in activating the JNK and p38
MAPKs. The Tak1/NLK pathways are regulated by Wnts, a
family of secreted proteins that is critical in the
control of asymmetric division and cell polarity. NLK
can phosphorylate transcription factors from the TCF/LEF
family, inhibiting their ability to activate the
transcription of target genes. In prostate cancer cells,
NLK is involved in regulating androgen receptor-mediated
transcription and its expression is altered during
cancer progression.
Length = 372
Score = 35.9 bits (83), Expect = 0.064
Identities = 40/154 (25%), Positives = 65/154 (42%), Gaps = 30/154 (19%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINNL 547
+G G FG V+ VT G+ + LK++ V F L++
Sbjct: 8 IGYGAFGVVWSVTDPRDGKRVALKKMPNV-------F----------------QNLVSCK 44
Query: 548 HCFSQVAVLRSLHHHNVIRFIGVLYKD-----RKLNLVTEYIAGGTLKELLQDPGQPLPW 602
F ++ +L H NV+ + +L ++ +VTE + L +++ P QPL
Sbjct: 45 RVFRELKMLCFFKHDNVLSALDILQPPHIDPFEEIYVVTELMQS-DLHKIIVSP-QPLSS 102
Query: 603 GQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
F I G+ YLHS ++HRD+ N LV
Sbjct: 103 DHVKVFLYQILRGLKYLHSAGILHRDIKPGNLLV 136
>gnl|CDD|133247 cd05116, PTKc_Syk, Catalytic domain of the Protein Tyrosine Kinase,
Spleen tyrosine kinase. Protein Tyrosine Kinase (PTK)
family; Spleen tyrosine kinase (Syk); catalytic (c)
domain. 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. Syk,
together with Zap-70, form the Syk subfamily of kinases
which are cytoplasmic (or nonreceptor) tyr kinases
containing two Src homology 2 (SH2) domains N-terminal
to the catalytic tyr kinase domain. Syk was first cloned
from the spleen, and its function in hematopoietic cells
is well-established. Syk is involved in the signaling
downstream of activated receptors (including B-cell and
Fc receptors) that contain ITAMs (immunoreceptor tyr
activation motifs), leading to processes such as cell
proliferation, differentiation, survival, adhesion,
migration, and phagocytosis. More recently, Syk
expression has been detected in other cell types
(including epithelial cells, vascular endothelial cells,
neurons, hepatocytes, and melanocytes), suggesting a
variety of biological functions in non-immune cells. Syk
plays a critical role in maintaining vascular integrity
and in wound healing during embryogenesis. It also
regulates Vav3, which is important in osteoclast
function including bone development. In breast
epithelial cells, where Syk acts as a negative regulator
for epidermal growth factor receptor (EGFR) signaling,
loss of Syk expression is associated with abnormal
proliferation during cancer development suggesting a
potential role as a tumor suppressor. In mice, Syk has
been shown to inhibit malignant transformation of
mammary epithelial cells induced with murine mammary
tumor virus (MMTV).
Length = 257
Score = 35.3 bits (81), Expect = 0.065
Identities = 23/82 (28%), Positives = 39/82 (47%), Gaps = 2/82 (2%)
Query: 555 VLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVNFARDIAA 614
V++ L + ++R IG+ + LV E G L + LQ + + ++
Sbjct: 49 VMQQLDNPYIVRMIGIC-EAESWMLVMELAELGPLNKFLQK-NKHVTEKNITELVHQVSM 106
Query: 615 GMTYLHSMNLIHRDLNSQNCLV 636
GM YL N +HRDL ++N L+
Sbjct: 107 GMKYLEETNFVHRDLAARNVLL 128
>gnl|CDD|188765 cd09379, LIM2_AWH, The second LIM domain of Arrowhead (AWH). The
second LIM domain of Arrowhead (AWH): Arrowhead belongs
to the LHX protein family, which features two tandem
N-terminal LIM domains and a C-terminal DNA binding
homeodomain. Members of LHX family are found in the
nucleus and act as transcription factors or cofactors.
LHX proteins are critical for the development of
specialized cells in multiple tissue types, including
the nervous system, skeletal muscle, the heart, the
kidneys, and endocrine organs such as the pituitary
gland and the pancreas. During embryogenesis of
Drosophila, Arrowhead is expressed in each abdominal
segment and in the labial segment. Late in embryonic
development, expression of arrowhead is refined to the
abdominal histoblasts and salivary gland imaginal ring
cells themselves. The Arrowhead gene required for
establishment of a subset of imaginal tissues: the
abdominal histoblasts and the salivary gland imaginal
rings. As in other LIM domains, this domain family is
50-60 amino acids in size and shares two characteristic
zinc finger motifs. The two zinc fingers contain eight
conserved residues, mostly cysteines and histidines,
which coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein.
Length = 55
Score = 32.0 bits (73), Expect = 0.076
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 87 DHKFHPECFKCTSCSCCIGDGESYALVERSIL 118
DH +H CF C +C + GE +AL+E +L
Sbjct: 19 DHVYHLACFACDACKRQLSTGEEFALIEDRVL 50
Score = 28.5 bits (64), Expect = 1.3
Identities = 17/55 (30%), Positives = 24/55 (43%), Gaps = 3/55 (5%)
Query: 12 CAGCLNNIVEDEYV-QALSQEWHTDCFRCSACDVMLDNW--YFEKDGLLFCKEDY 63
CA C NI ++V +A +H CF C AC L + + + CK Y
Sbjct: 1 CAKCSRNISASDWVRRARDHVYHLACFACDACKRQLSTGEEFALIEDRVLCKAHY 55
>gnl|CDD|226168 COG3642, COG3642, Mn2+-dependent serine/threonine protein kinase
[Signal transduction mechanisms].
Length = 204
Score = 35.0 bits (81), Expect = 0.079
Identities = 21/73 (28%), Positives = 35/73 (47%), Gaps = 9/73 (12%)
Query: 579 LVTEYIAGGTLKELLQDPGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
+V EYI G LK+ L++ R + R++ + LH ++H DL + N ++
Sbjct: 76 IVMEYIEGELLKDALEEA--------RPDLLREVGRLVGKLHKAGIVHGDLTTSNIILSG 127
Query: 639 VGSGF-DFHLGQI 650
F DF LG+
Sbjct: 128 GRIYFIDFGLGEF 140
>gnl|CDD|188769 cd09383, LIM2_Lhx7_Lhx8, The second LIM domain of Lhx7 and Lhx8.
The second LIM domain of Lhx7 and Lhx8: Lhx7 and Lhx8
belong to the LHX protein family, which features two
tandem N-terminal LIM domains and a C-terminal DNA
binding homeodomain. Members of LHX family are found in
the nucleus and act as transcription factors or
cofactors. LHX proteins are critical for the development
of specialized cells in multiple tissue types, including
the nervous system, skeletal muscle, the heart, the
kidneys, and endocrine organs such as the pituitary
gland and the pancreas. Studies using mutant mice have
revealed roles for Lhx7 and Lhx8 in the development of
cholinergic neurons in the telencephalon and in basal
forebrain development. Mice lacking alleles of the
LIM-homeobox gene Lhx7 or Lhx8 display dramatically
reduced number of forebrain cholinergic neurons. In
addition, Lhx7 mutation affects male and female mice
differently, with females appearing more affected than
males. As in other LIM domains, this domain family is
50-60 amino acids in size and shares two characteristic
zinc finger motifs. The two zinc fingers contain eight
conserved residues, mostly cysteines and histidines,
which coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein.
Length = 55
Score = 31.9 bits (72), Expect = 0.080
Identities = 17/50 (34%), Positives = 24/50 (48%), Gaps = 2/50 (4%)
Query: 71 CQNCGQMMSGP--VMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSIL 118
C CG+ + V + +H CF C SC + GE +ALVE +L
Sbjct: 1 CSRCGRHIHSTDWVRRAKGNVYHLACFACFSCKRQLSTGEEFALVEEKVL 50
>gnl|CDD|188775 cd09389, LIM2_LMO1_LMO3, The second LIM domain of LMO1 and LMO3
(LIM domain only protein 1 and 3). The second LIM
domain of LMO1 and LMO3 (LIM domain only protein 1 and
3): LMO1 and LMO3 are highly homologous and belong to
the LMO protein family. LMO1 and LMO3 are nuclear
protein that plays important roles in transcriptional
regulation and development. As LIM domains lack
intrinsic DNA-binding activity, nuclear LMOs are
involved in transcriptional regulation by forming
complexes with other transcription factors or
cofactors. For example, LMO1 interacts with the the
bHLH domain of bHLH transcription factor, TAL1 (T-cell
acute leukemia1)/SCL (stem cell leukemia) . LMO1
inhibits the expression of TAL1/SCL target genes. LMO3
facilitates p53 binding to its response elements, which
suggests that LMO3 acts as a co-repressor of p53,
suppressing p53-dependent transcriptional regulation.
In addition, LMO3 interacts with neuronal transcription
factor, HEN2, and acts as an oncogene in neuroblastoma.
Another binding partner of LMO3 is calcium- and
integrin-binding protein CIB, which binds via the
second LIM domain (LIM2) of LMO3. One role of the
CIB/LMO3 complex is to inhibit cell proliferation.
Although LMO1 and LMO3 are highly homologous proteins,
they play different roles in the regulation of the
pituitary glycoprotein hormone alpha-subunit (alpha
GSU) gene. Alpha GSU promoter activity was markedly
repressed by LMO1 but activated by LMO3. All LIM
domains are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein complexes.
Length = 55
Score = 31.9 bits (72), Expect = 0.081
Identities = 18/55 (32%), Positives = 28/55 (50%), Gaps = 3/55 (5%)
Query: 12 CAGCLNNIVEDEYV-QALSQEWHTDCFRCSACD--VMLDNWYFEKDGLLFCKEDY 63
CA C I E V +A +H DCF C C+ + + +F K+ ++ C+ DY
Sbjct: 1 CAACSKLIPAFEMVMRAKDNVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQMDY 55
>gnl|CDD|236586 PRK09605, PRK09605, bifunctional UGMP family
protein/serine/threonine protein kinase; Validated.
Length = 535
Score = 35.6 bits (83), Expect = 0.082
Identities = 20/75 (26%), Positives = 33/75 (44%), Gaps = 18/75 (24%)
Query: 579 LVTEYIAGGTLKELLQDPGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
+V EYI G LK++L+ R + + LH ++H DL + N +VR+
Sbjct: 413 IVMEYIGGKDLKDVLEG---------NPELVRKVGEIVAKLHKAGIVHGDLTTSNFIVRD 463
Query: 639 VGSGFDFHLGQIYLI 653
++YLI
Sbjct: 464 ---------DRLYLI 469
>gnl|CDD|173675 cd05584, STKc_p70S6K, Catalytic domain of the Protein
Serine/Threonine Kinase, 70 kDa ribosomal protein S6
kinase. Serine/Threonine Kinases (STKs), 70 kDa
ribosomal protein S6 kinase (p70S6K) subfamily,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The p70S6K 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. p70S6K (or S6K)
contains only one catalytic kinase domain, unlike p90
ribosomal S6 kinases (RSKs). It acts as a downstream
effector of the STK mTOR (mammalian Target of Rapamycin)
and plays a role in the regulation of the translation
machinery during protein synthesis. p70S6K also plays a
pivotal role in regulating cell size and glucose
homeostasis. Its targets include S6, the translation
initiation factor eIF3, and the insulin receptor
substrate IRS-1, among others. Mammals contain two
isoforms of p70S6K, named S6K1 and S6K2 (or S6K-beta).
Length = 323
Score = 35.5 bits (82), Expect = 0.084
Identities = 42/175 (24%), Positives = 67/175 (38%), Gaps = 61/175 (34%)
Query: 487 LLGQGFFGQVYRV---THRETGEVMVLKELYRVD----------EEAEKNFLKESKQGLI 533
+LG+G +G+V++V T +TG++ +K L + +AE+N L+ K
Sbjct: 3 VLGKGGYGKVFQVRKVTGADTGKIFAMKVLKKATIVRNQKDTAHTKAERNILEAVK---- 58
Query: 534 YLIDLGSHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELL 593
H I +L Q KL L+ EY++GG L L
Sbjct: 59 -------HPFIVDLIYAFQT--------------------GGKLYLILEYLSGGELFMHL 91
Query: 594 QDPGQPLPWGQRVNFARDIAA--------GMTYLHSMNLIHRDLNSQNCLVREVG 640
+ G F D A + +LH +I+RDL +N L+ G
Sbjct: 92 EREGI---------FMEDTACFYLSEISLALEHLHQQGIIYRDLKPENILLDAQG 137
>gnl|CDD|173685 cd05594, STKc_PKB_alpha, Catalytic domain of the Protein
Serine/Threonine Kinase, Protein Kinase B alpha.
Serine/Threonine Kinases (STKs), Protein Kinase B (PKB)
or Akt subfamily, alpha (or Akt1) isoform, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The PKB 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. There are three
PKB isoforms from different genes, PKB-alpha (or Akt1),
PKB-beta (or Akt2), and PKB-gamma (or Akt3). PKB
contains an N-terminal pleckstrin homology (PH) domain
and a C-terminal catalytic domain. PKB-alpha is
predominantly expressed in endothelial cells. It is
critical for the regulation of angiogenesis and the
maintenance of vascular integrity. It also plays a role
in adipocyte differentiation. Mice deficient in
PKB-alpha exhibit perinatal morbidity, growth
retardation, reduction in body weight accompanied by
reduced sizes of multiple organs, and enhanced apoptosis
in some cell types. PKB-alpha activity has been reported
to be frequently elevated in breast and prostate
cancers. In some cancer cells, PKB-alpha may act as a
suppressor of metastasis.
Length = 325
Score = 35.4 bits (81), Expect = 0.086
Identities = 41/156 (26%), Positives = 64/156 (41%), Gaps = 26/156 (16%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
LLG+G FG+V V + TG +K L K+ +I D +H L N
Sbjct: 2 LLGKGTFGKVILVKEKATGRYYAMKIL---------------KKEVIVAKDEVAHTLTEN 46
Query: 547 LHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRV 606
VL++ H + +L V EY GG L + + R
Sbjct: 47 -------RVLQNSRHPFLTALKYSFQTHDRLCFVMEYANGGEL--FFHLSRERVFSEDRA 97
Query: 607 NF-ARDIAAGMTYLHS-MNLIHRDLNSQNCLVREVG 640
F +I + + YLHS N+++RDL +N ++ + G
Sbjct: 98 RFYGAEIVSALDYLHSEKNVVYRDLKLENLMLDKDG 133
>gnl|CDD|188768 cd09382, LIM2_Lhx6, The second LIM domain of Lhx6. The second LIM
domain of Lhx6. Lhx6 is a member of LHX protein family,
which features two tandem N-terminal LIM domains and a
C-terminal DNA binding homeodomain. Members of LHX
family are found in the nucleus and act as transcription
factors or cofactors. LHX proteins are critical for the
development of specialized cells in multiple tissue
types, including the nervous system, skeletal muscle,
the heart, the kidneys, and endocrine organs such as the
pituitary gland and the pancreas. Lhx6 functions in
brain and nervous system. It is expressed at high
levels in several regions of the embryonic mouse CNS,
including the telencephalon and hypothalamus, and the
first branchial arch. Lhx6 is proposed to have a role in
patterning of the mandible and maxilla, and in signaling
during odontogenesis. In brain sections, knockdown of
Lhx6 gene blocks the normal migration of neurons to the
cortex. As in other LIM domains, this domain family is
50-60 amino acids in size and shares two characteristic
zinc finger motifs. The two zinc fingers contain eight
conserved residues, mostly cysteines and histidines,
which coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 55
Score = 32.0 bits (72), Expect = 0.086
Identities = 17/50 (34%), Positives = 24/50 (48%), Gaps = 2/50 (4%)
Query: 71 CQNCGQMM--SGPVMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSIL 118
C CG+ + S V + +H CF C SC + GE + LVE +L
Sbjct: 1 CARCGRQIYASDWVRRARGNAYHLACFACFSCKRQLSTGEEFGLVEEKVL 50
>gnl|CDD|188734 cd09348, LIM4_FHL1, The fourth LIM domain of Four and a half LIM
domains protein 1 (FHL1). The fourth LIM domain of
Four and a half LIM domains protein 1 (FHL1): FHL1 is
heavily expressed in skeletal and cardiac muscles. It
plays important roles in muscle growth,
differentiation, and sarcomere assembly by acting as a
modulator of transcription factors. Defects in FHL1
gene are responsible for a number of Muscular
dystrophy-like muscle disorders. It has been detected
that FHL1 binds to Myosin-binding protein C, regulating
myosin filament formation and sarcomere assembly. LIM
domains are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein complexes.
Length = 64
Score = 32.0 bits (73), Expect = 0.089
Identities = 16/61 (26%), Positives = 25/61 (40%), Gaps = 15/61 (24%)
Query: 12 CAGCLN---------NIVEDEYVQALSQEWHTDCFRCSACDVML-DNWYFEKDGLLFCKE 61
C+GC N N+V E WH CF C C + L + + +G ++C +
Sbjct: 5 CSGCQNPITGFGKGTNVVNYE-----GSSWHDYCFNCKKCSLNLANKRFVFHNGQIYCSD 59
Query: 62 D 62
Sbjct: 60 C 60
>gnl|CDD|173674 cd05583, STKc_MSK_N, N-terminal catalytic domain of the Protein
Serine/Threonine Kinase, Mitogen and stress-activated
kinase. Serine/Threonine Kinases (STKs), Mitogen and
stress-activated kinase (MSK) subfamily, N-terminal
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The MSK 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. MSKs contain an
N-terminal kinase domain (NTD) from the AGC family and a
C-terminal kinase domain (CTD) from the CAMK family,
similar to 90 kDa ribosomal protein S6 kinases (RSKs).
MSKs are activated by two major signaling cascades, the
Ras-MAPK and p38 stress kinase pathways, in response to
various stimuli such as growth factors, hormones,
neurotransmitters, cellular stress, and pro-inflammatory
cytokines. This triggers phosphorylation in the
activation loop (A-loop) of the CTD of MSK. The active
CTD phosphorylates the hydrophobic motif (HM) in the
C-terminal extension of NTD, which facilitates the
phosphorylation of the A-loop and activates the NTD,
which in turn phosphorylates downstream targets. MSKs
are predominantly nuclear proteins. They are widely
expressed in many tissues including heart, brain, lung,
liver, kidney, and pancreas. There are two isoforms of
MSK, called MSK1 and MSK2.
Length = 288
Score = 35.2 bits (81), Expect = 0.092
Identities = 25/89 (28%), Positives = 40/89 (44%), Gaps = 19/89 (21%)
Query: 574 DRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVNFARD--------IAAGMTYLHSMNLI 625
D KL+L+ +Y+ GG L L QR +F I + +LH + +I
Sbjct: 77 DTKLHLILDYVNGGELFTHLY---------QREHFTESEVRVYIAEIVLALDHLHQLGII 127
Query: 626 HRDLNSQNCLVREVGSGF--DFHLGQIYL 652
+RD+ +N L+ G DF L + +L
Sbjct: 128 YRDIKLENILLDSEGHVVLTDFGLSKEFL 156
>gnl|CDD|188744 cd09358, LIM_Mical_like, The LIM domain of Mical (molecule
interacting with CasL) like family. The LIM domain of
Mical (molecule interacting with CasL) like family:
Known members of this family includes LIM domain
containing proteins; Mical (molecule interacting with
CasL), pollen specific protein SF3, Eplin, xin
actin-binding repeat-containing protein 2 (XIRP2) and
Ltd-1. The members of this family function mainly at
the cytoskeleton and focal adhesions. They interact
with transcription factors or other signaling molecules
to play roles in muscle development, neuronal
differentiation, cell growth and mobility. Eplin has
also found to be tumor suppressor. As in other LIM
domains, this domain family is 50-60 amino acids in
size and shares two characteristic zinc finger motifs..
The two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately
bond to two zinc atoms. LIM domains function as
adaptors or scaffolds to support the assembly of
multimeric protein.
Length = 53
Score = 31.9 bits (73), Expect = 0.093
Identities = 19/51 (37%), Positives = 26/51 (50%), Gaps = 3/51 (5%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVML--DNWYFEKDGLLFCK 60
CA C + E + A + +H CFRCS C+ L N Y +G L+CK
Sbjct: 1 CAVCGKTVYPMERLVADGKLFHKSCFRCSHCNKTLRLGN-YASLEGKLYCK 50
Score = 26.8 bits (60), Expect = 4.6
Identities = 13/31 (41%), Positives = 19/31 (61%), Gaps = 2/31 (6%)
Query: 90 FHPECFKCTSCSCCIGDGESYALVERSILYC 120
FH CF+C+ C+ + G +YA +E LYC
Sbjct: 21 FHKSCFRCSHCNKTLRLG-NYASLEG-KLYC 49
>gnl|CDD|188860 cd09476, LIM1_TLP, The first LIM domain of thymus LIM protein
(TLP). The first LIM domain of thymus LIM protein
(TLP): TLP is the distant member of the CRP family of
proteins. TLP has two isomers (TLP-A and TLP-B) and
sharing approximately 30% with each of the three other
CRPs. Like CRP1, CRP2 and CRP3/MLP, TLP has two LIM
domains, connected by a flexible linker region. Unlike
the CRPs, TLP lacks the nuclear targeting signal
(K/R-K/R-Y-G-P-K) and is localized solely in the
cytoplasm. TLP is specifically expressed in the thymus
in a subset of cortical epithelial cells. TLP has a
role in development of normal thymus and in controlling
the development and differentiation of thymic
epithelial cells. LIM domains are 50-60 amino acids in
size and share two characteristic zinc finger motifs.
The two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately
bond to two zinc atoms. LIM domains function as
adaptors or scaffolds to support the assembly of
multimeric protein complexes.
Length = 54
Score = 31.9 bits (72), Expect = 0.097
Identities = 15/49 (30%), Positives = 22/49 (44%), Gaps = 1/49 (2%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLD-NWYFEKDGLLFC 59
C C + E V +L + WH C +C C +L + E DG +C
Sbjct: 1 CPRCDKTVYFAEKVSSLGKNWHRFCLKCERCSKILSPGGHAEHDGKPYC 49
>gnl|CDD|188814 cd09430, LIM5_LIMPETin, The fifth LIM domain of protein LIMPETin.
The fifth LIM domain of protein LIMPETin: LIMPETin
contains 6 LIM domains at the C-terminal and an
N-terminal PET domain. Four of the six LIM domains are
highly homologous to the four and half LIM domain
protein family and two of them show sequence similarity
to the LIM domains of the testin family. Thus, LIMPETin
may be the recombinant product of genes coding testin
and FHL proteins. In Schistosoma mansoni, where
LIMPETin was first identified, LIMPETin is down
regulated in sexually mature adult Schistosoma females
compared to sexually immature adult females and adult
male. Its differential expression indicates that it is a
transcription regulator. LIM domains are 50-60 amino
acids in size and share two characteristic zinc finger
motifs. The two zinc fingers contain eight conserved
residues, mostly cysteines and histidines, which
coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 52
Score = 31.7 bits (72), Expect = 0.098
Identities = 14/54 (25%), Positives = 26/54 (48%), Gaps = 2/54 (3%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYCGLCY 124
C C ++++ + + +H ECF CT+CS + + E+ YC C+
Sbjct: 1 CSKCNKIINSGGVTYKNEPWHRECFTCTNCSKSLAGQRFTSRDEKP--YCADCF 52
Score = 28.2 bits (63), Expect = 1.9
Identities = 15/53 (28%), Positives = 25/53 (47%), Gaps = 2/53 (3%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWYF-EKDGLLFCKEDY 63
C+ C N I+ V ++ WH +CF C+ C L F +D +C + +
Sbjct: 1 CSKC-NKIINSGGVTYKNEPWHRECFTCTNCSKSLAGQRFTSRDEKPYCADCF 52
>gnl|CDD|188856 cd09472, LIM2_Lhx3b, The second LIM domain of Lhx3b. The second
LIM domain of Lhx3b. Lhx3b is a member of LHX protein
family, which features two tandem N-terminal LIM
domains and a C-terminal DNA binding homeodomain.
Members of LHX family are found in the nucleus and act
as transcription factors or cofactors. LHX proteins are
critical for the development of specialized cells in
multiple tissue types, including the nervous system,
skeletal muscle, the heart, the kidneys, and endocrine
organs, such as the pituitary gland and the pancreas.
Lhx3b is one of the two isoforms of Lhx3. The Lhx3 gene
is expressed in the ventral spinal cord, the pons, the
medulla oblongata, and the pineal gland of the
developing nervous system during mouse embryogenesis,
and transcripts are found in the emergent pituitary
gland. Lhx3 functions in concert with other
transcription factors to specify interneuron and motor
neuron fates during development. Lhx3 proteins have
been demonstrated to directly bind to the promoters of
several pituitary hormone gene promoters. The Lhx3 gene
encodes two isoforms, LHX3a and LHX3b that differ in
their amino-terminal sequences, where Lhx3a has longer
N-terminal. They show differential activation of
pituitary hormone genes and distinct DNA binding
properties. In human, Lhx3a trans-activated the
alpha-glycoprotein subunit promoter and genes
containing a high-affinity Lhx3 binding site more
effectively than the hLhx3b isoform. In addition,
hLhx3a induce transcription of the TSHbeta-subunit gene
by acting on pituitary POU domain factor, Pit-1, while
hLhx3b does not. As in other LIM domains, this domain
family is 50-60 amino acids in size and shares two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein.
Length = 57
Score = 32.0 bits (72), Expect = 0.098
Identities = 20/56 (35%), Positives = 25/56 (44%), Gaps = 4/56 (7%)
Query: 12 CAGCLNNIVEDEYVQ-ALSQEWHTDCFRCSACDVML---DNWYFEKDGLLFCKEDY 63
CA C I + V+ A +H CF C C L D +Y +D L CK DY
Sbjct: 2 CAACQQGIPPTQVVRRAQDFVYHLHCFACIVCKRQLATGDEFYLMEDSRLVCKADY 57
Score = 29.3 bits (65), Expect = 0.78
Identities = 19/57 (33%), Positives = 24/57 (42%), Gaps = 4/57 (7%)
Query: 71 CQNCGQMMSGPVMVV---GDHKFHPECFKCTSCSCCIGDGESYALVERSILYCGLCY 124
C C Q P VV D +H CF C C + G+ + L+E S L C Y
Sbjct: 2 CAAC-QQGIPPTQVVRRAQDFVYHLHCFACIVCKRQLATGDEFYLMEDSRLVCKADY 57
>gnl|CDD|188783 cd09397, LIM1_UF1, LIM domain in proteins of unknown function. The
first Lim domain of a LIM domain containing protein: The
functions of the proteins are unknown. The members of
this family contain two copies of LIM domain. The LIM
domain is 50-60 amino acids in size and shares two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to support
the assembly of multimeric protein.
Length = 58
Score = 31.5 bits (72), Expect = 0.11
Identities = 13/36 (36%), Positives = 19/36 (52%), Gaps = 4/36 (11%)
Query: 71 CQNCGQMMSGPVMVVGDH----KFHPECFKCTSCSC 102
C+ CG + G + D ++H ECF CT+C C
Sbjct: 1 CRKCGLEIEGKSISSKDGELSGQWHRECFVCTTCGC 36
Score = 28.8 bits (65), Expect = 1.2
Identities = 8/16 (50%), Positives = 11/16 (68%)
Query: 28 LSQEWHTDCFRCSACD 43
LS +WH +CF C+ C
Sbjct: 20 LSGQWHRECFVCTTCG 35
>gnl|CDD|188858 cd09474, LIM2_Lhx2, The second LIM domain of Lhx2. The second LIM
domain of Lhx2: Lhx2 belongs to the LHX protein family,
which features two tandem N-terminal LIM domains and a
C-terminal DNA binding homeodomain. Members of LHX
family are found in the nucleus and act as transcription
factors or cofactors. LHX proteins are critical for the
development of specialized cells in multiple tissue
types, including the nervous system, skeletal muscle,
the heart, the kidneys, and endocrine organs, such as
the pituitary gland and the pancreas. In animals, Lhx2
plays important roles in eye, cerebral cortex, limb, the
olfactory organs, and erythrocyte development. Lhx2 gene
knockout mice exhibit impaired patterning of the
cortical hem and the telencephalon of the developing
brain, and a lack of development in olfactory
structures. The Lhx2 protein has been shown to bind to
the mouse M71 olfactory receptor promoter. Similar to
other LIM domains, this domain family is 50-60 amino
acids in size and shares two characteristic zinc finger
motifs. The two zinc fingers contain eight conserved
residues, mostly cysteines and histidines, which
coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein.
Length = 59
Score = 31.2 bits (70), Expect = 0.15
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 3/56 (5%)
Query: 69 EACQNC--GQMMSGPVMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYCGL 122
+ C C G S VM D +H CF CT+C+ + G+ + + + +++YC L
Sbjct: 3 QRCARCHLGISASEMVMRARDLVYHLNCFTCTTCNKMLTTGDHFGMKD-NLVYCRL 57
Score = 31.2 bits (70), Expect = 0.20
Identities = 18/52 (34%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 12 CAGCLNNIVEDEYV-QALSQEWHTDCFRCSACDVMLD--NWYFEKDGLLFCK 60
CA C I E V +A +H +CF C+ C+ ML + + KD L++C+
Sbjct: 5 CARCHLGISASEMVMRARDLVYHLNCFTCTTCNKMLTTGDHFGMKDNLVYCR 56
>gnl|CDD|188831 cd09447, LIM_LASP, The LIM domain of LIM and SH3 Protein (LASP).
The LIM domain of LIM and SH3 Protein (LASP): LASP
family contains two highly homologous members, LASP-1
and LASP-2. LASP contains a LIM motif at its amino
terminus, a src homology 3 (SH3) domains at its
C-terminal part, and a nebulin-like region in the
middle. LASP-1 and -2 are highly conserved in their
LIM, nebulin-like, and SH3 domains ,but differ
significantly at their linker regions. Both proteins
are ubiquitously expressed and involved in cytoskeletal
architecture, especially in the organization of focal
adhesions. LASP-1 and LASP-2, are important during
early embryo- and fetogenesis and are highly expressed
in the central nervous system of the adult. However,
only LASP-1 seems to participate significantly in
neuronal differentiation and plays an important
functional role in migration and proliferation of
certain cancer cells while the role of LASP-2 is more
structural. The expression of LASP-1 in breast tumors
is increased significantly. As in other LIM domains,
this domain family is 50-60 amino acids in size and
shares two characteristic zinc finger motifs. The two
zinc fingers contain eight conserved residues, mostly
cysteines and histidines, which coordinately bond to
two zinc atoms. LIM domains function as adaptors or
scaffolds to support the assembly of multimeric
protein.
Length = 53
Score = 31.2 bits (71), Expect = 0.16
Identities = 15/53 (28%), Positives = 23/53 (43%), Gaps = 1/53 (1%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLD-NWYFEKDGLLFCKEDY 63
CA C + E + L + WH CF+C C + L+ Y + +C Y
Sbjct: 1 CARCGKTVYPTEKLNCLDKIWHKGCFKCEVCGMTLNMKNYKGYNKKPYCNAHY 53
>gnl|CDD|188740 cd09354, LIM2_LPP, The second LIM domain of lipoma preferred
partner (LPP). The second LIM domain of lipoma
preferred partner (LPP): LPP is a member of the zyxin
LIM protein family and contains three LIM zinc-binding
domains at the C-terminal and proline-rich region at
the N-terminal. LPP initially identified as the most
frequent translocation partner of HMGA2 (High Mobility
Group A2) in a subgroup of benign tumors of adipose
tissue (lipomas). It was also shown to be rearranged in
a number of other soft tissues, as well as in a case of
acute monoblastic leukemia. In addition to its
involvement in tumors, LPP was inedited as a smooth
muscle restricted LIM protein that plays an important
role in SMC migration. LPP is localized at sites of
cell adhesion, cell-cell contacts and transiently in
the nucleus. In nucleus, it acts as a coactivator for
the ETS domain transcription factor PEA3. In addition
to PEA3, it interacts with alpha-actinin,vasodilator
stimulated phosphoprotein (VASP),Palladin, and Scrib.
The LIM domains are the main focal adhesion targeting
elements and that the proline- rich region, which
harbors binding sites for alpha-actinin and
vasodilator- stimulated phosphoprotein (VASP), has a
weak targeting capacity. As in other LIM domains, this
domain family is 50-60 amino acids in size and shares
two characteristic zinc finger motifs. The two zinc
fingers contain eight conserved residues, mostly
cysteines and histidines, which coordinately bond to
two zinc atoms. LIM domains function as adaptors or
scaffolds to support the assembly of multimeric
protein.
Length = 60
Score = 31.4 bits (71), Expect = 0.17
Identities = 18/58 (31%), Positives = 28/58 (48%), Gaps = 3/58 (5%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWYFEKDGL--LFCKEDYNGKY 67
C+ C I+ D ++A + +H CF C C LD F D + C ED++ K+
Sbjct: 1 CSVCSKPIL-DRILRATGKPYHPQCFTCVVCGKSLDGIPFTVDATNQIHCIEDFHKKF 57
Score = 28.7 bits (64), Expect = 1.4
Identities = 12/60 (20%), Positives = 27/60 (45%), Gaps = 1/60 (1%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYCGLCYKRQMQP 130
C C + + ++ +HP+CF C C + DG + + + ++C + ++ P
Sbjct: 1 CSVCSKPILDRILRATGKPYHPQCFTCVVCGKSL-DGIPFTVDATNQIHCIEDFHKKFAP 59
>gnl|CDD|188796 cd09412, LIM4_Leupaxin, The fourth LIM domain of Leupaxin. The
fourth LIM domain of Leupaxin: Leupaxin is a
cytoskeleton adaptor protein, which is preferentially
expressed in hematopoietic cells. Leupaxin belongs to
the paxillin focal adhesion protein family. Same as
other members of the family, it has four leucine-rich
LD-motifs in the N-terminus and four LIM domains in the
C-terminus. It may function in cell type-specific
signaling by associating with interaction partners PYK2,
FAK, PEP and p95PKL. When expressed in human leukocytic
cells, leupaxin significantly suppressed
integrin-mediated cell adhesion to fibronectin and the
tyrosine phosphorylation of paxillin. These findings
indicate that leupaxin may negatively regulate the
functions of paxillin during integrin signaling. LIM
domains are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to support
the assembly of multimeric protein complexes.
Length = 52
Score = 30.9 bits (70), Expect = 0.17
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSC 100
C +CG ++G + KFHPE F C C
Sbjct: 1 CGSCGLPITGRCISALGRKFHPEHFVCAFC 30
>gnl|CDD|188771 cd09385, LIM2_LMO2, The second LIM domain of LMO2 (LIM domain only
protein 2). The second LIM domain of LMO2 (LIM domain
only protein 2): LMO2 is a nuclear protein that plays
important roles in transcriptional regulation and
development. The two tandem LIM domains of LMO2 support
the assembly of a crucial cell-regulatory complex by
interacting with both the TAL1-E47 and GATA1
transcription factors to form a DNA-binding complex that
is capable of transcriptional activation. LMOs have also
been shown to be involved in oncogenesis. LMO1 and LMO2
are activated in T-cell acute lymphoblastic leukemia by
distinct chromosomal translocations. LMO2 was also shown
to be involved in erythropoiesis and is required for the
hematopoiesis in the adult animals. All LIM domains are
50-60 amino acids in size and share two characteristic
zinc finger motifs. The two zinc fingers contain eight
conserved residues, mostly cysteines and histidines,
which coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 56
Score = 31.1 bits (70), Expect = 0.18
Identities = 16/50 (32%), Positives = 24/50 (48%), Gaps = 2/50 (4%)
Query: 71 CQNCGQMMSG--PVMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSIL 118
C +C + + M V D +H ECFKC +C G+ Y L+ I+
Sbjct: 1 CASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIV 50
>gnl|CDD|188743 cd09357, LIM3_Zyxin_like, The third LIM domain of Zyxin-like
family. The third LIM domain of Zyxin like family:
This family includes Ajuba, Limd1, WTIP, Zyxin, LPP,
and Trip6 LIM proteins. Members of Zyxin family contain
three tandem C-terminal LIM domains, and a proline-rich
N-terminal region. Zyxin proteins are detected
primarily in focal adhesion plaques. They function as
scaffolds, participating in the assembly of multiple
interactions and signal transduction networks, which
regulate cell adhesion, spreading, and motility. They
can also shuffle into nucleus. In nucleus, zyxin
proteins affect gene transcription by interaction with
a variety of nuclear proteins, including several
transcription factors, playing regulating roles in cell
proliferation, differentiation and apoptosis. As in
other LIM domains, this domain family is 50-60 amino
acids in size and shares two characteristic zinc finger
motifs. The two zinc fingers contain eight conserved
residues, mostly cysteines and histidines, which
coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein.
Length = 63
Score = 31.2 bits (71), Expect = 0.19
Identities = 18/60 (30%), Positives = 30/60 (50%), Gaps = 11/60 (18%)
Query: 12 CAGCLNNIV----EDEYVQ--ALSQEWHTDCFRCSACDVML-----DNWYFEKDGLLFCK 60
C+ C I+ +DE V+ AL + +H +C++C C ++L + DG L CK
Sbjct: 1 CSVCGEPIMPEPGQDETVRIVALDRSFHVNCYKCEDCGMLLSSEDEGQGCYPLDGHLLCK 60
>gnl|CDD|188859 cd09475, LIM2_Lhx9, The second LIM domain of Lhx9. The second LIM
domain of Lhx9: Lhx9 belongs to the LHX protein family,
which features two tandem N-terminal LIM domains and a
C-terminal DNA binding homeodomain. Members of LHX
family are found in the nucleus and act as transcription
factors or cofactors. LHX proteins are critical for the
development of specialized cells in multiple tissue
types, including the nervous system, skeletal muscle,
the heart, the kidneys, and endocrine organs, such as
the pituitary gland and the pancreas. Lhx9 is highly
homologous to Lhx2. It is expressed in several regions
of the developing mouse brain, the spinal cord, the
pancreas, in limb mesenchyme, and in the urogenital
region. Lhx9 plays critical roles in gonad development.
Homozygous mice lacking functional Lhx9 alleles exhibit
numerous urogenital defects, such as gonadal agenesis,
infertility, and undetectable levels of testosterone and
estradiol coupled with high FSH levels. Lhx9 null mice
have reduced levels of the Sf1 nuclear receptor that is
required for gonadogenesis, and recent studies have
shown that Lhx9 is able to activate the Sf1/FtzF1 gene.
Lhx9 null mice are phenotypically female, even those
that are genotypically male. As in other LIM domains,
this domain family is 50-60 amino acids in size and
shares two characteristic zinc finger motifs. The two
zinc fingers contain eight conserved residues, mostly
cysteines and histidines, which coordinately bond to two
zinc atoms. LIM domains function as adaptors or
scaffolds to support the assembly of multimeric protein.
Length = 59
Score = 31.2 bits (70), Expect = 0.19
Identities = 15/52 (28%), Positives = 27/52 (51%), Gaps = 3/52 (5%)
Query: 71 CQNC--GQMMSGPVMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYC 120
C C G S VM + +H CF CT+C+ + G+ + + + +++YC
Sbjct: 5 CARCHLGISASEMVMRARESVYHLSCFTCTTCNKTLTTGDHFGMKD-NLVYC 55
Score = 28.5 bits (63), Expect = 1.5
Identities = 17/52 (32%), Positives = 26/52 (50%), Gaps = 3/52 (5%)
Query: 12 CAGCLNNIVEDEYV-QALSQEWHTDCFRCSACDVMLD--NWYFEKDGLLFCK 60
CA C I E V +A +H CF C+ C+ L + + KD L++C+
Sbjct: 5 CARCHLGISASEMVMRARESVYHLSCFTCTTCNKTLTTGDHFGMKDNLVYCR 56
>gnl|CDD|188865 cd09481, LIM1_CRP3, The first LIM domain of Cysteine Rich Protein
3 (CRP3/MLP). The first LIM domain of Cysteine Rich
Protein 3 (CRP3/MLP): Cysteine-rich proteins (CRPs) are
characterized by the presence of two LIM domains linked
to short glycine-rich repeats (GRRs). The CRP family
members include CRP1, CRP2, CRP3/MLP and TLPCRP1, CRP2
and CRP3 share a conserved nuclear targeting signal
(K/R-K/R-Y-G-P-K), which supports the fact that these
proteins function not only in the cytoplasm but also in
the nucleus. CRPs control regulatory pathways during
cellular differentiation, and involve in complex
transcription circuits, and the organization as well as
the arrangement of the myofibrillar/cytoskeletal
network.CRP3 also called Muscle LIM Protein (MLP),
which is a striated muscle-specific factor that
enhances myogenic differentiation. CRP3/MLP interacts
with cytoskeletal protein beta-spectrin. CRP3/MLP also
interacts with the basic helix-loop-helix myogenic
transcriptio n factors MyoD, myogenin, and MRF4 thereby
increasing their affinity for specific DNA regulatory
elements. LIM domains are 50-60 amino acids in size and
share two characteristic zinc finger motifs. The two
zinc fingers contain eight conserved residues, mostly
cysteines and histidines, which coordinately bond to
two zinc atoms. LIM domains function as adaptors or
scaffolds to support the assembly of multimeric protein
complexes.
Length = 54
Score = 30.9 bits (69), Expect = 0.22
Identities = 12/37 (32%), Positives = 17/37 (45%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDN 48
C C + E +Q + +H CF C AC LD+
Sbjct: 2 CGACEKTVYHAEEIQCNGRSFHKTCFICMACRKALDS 38
>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 = 34.3 bits (78), Expect = 0.23
Identities = 29/103 (28%), Positives = 47/103 (45%), Gaps = 11/103 (10%)
Query: 543 LINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLN------LVTEYIAGGTLKELLQDP 596
LI+ + ++ +L+ + H NVI + V + LVT + G L +++
Sbjct: 55 LIHARRTYRELRLLKHMKHENVIGLLDVFTPATSIENFNEVYLVTN-LMGADLNNIVK-- 111
Query: 597 GQPLPWGQRVNF-ARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
Q L + V F + G+ Y+HS +IHRDL N V E
Sbjct: 112 CQKLS-DEHVQFLIYQLLRGLKYIHSAGIIHRDLKPSNVAVNE 153
>gnl|CDD|132826 cd07293, PX_SNX3, The phosphoinositide binding Phox Homology domain
of Sorting Nexin 3. The PX domain is a phosphoinositide
(PI) binding module present in many proteins with
diverse functions. Sorting nexins (SNXs) make up the
largest group among PX domain containing proteins. They
are involved in regulating membrane traffic and protein
sorting in the endosomal system. The PX domain of SNXs
binds PIs and targets the protein to PI-enriched
membranes. SNXs differ from each other in PI-binding
specificity and affinity, and the presence of other
protein-protein interaction domains, which help
determine subcellular localization and specific function
in the endocytic pathway. SNX3 associates with early
endosomes through a PX domain-mediated interaction with
phosphatidylinositol-3-phosphate (PI3P). It associates
with the retromer complex, a membrane coat multimeric
complex required for endosomal retrieval of lysosomal
hydrolase receptors to the Golgi, and functions as a
cargo-specific adaptor for the retromer. SNX3 is
required for the formation of multivesicular bodies,
which function as transport intermediates to late
endosomes. It also promotes cell surface expression of
the amiloride-sensitive epithelial Na+ channel (ENaC),
which is critical in sodium homeostasis and maintenance
of extracellular fluid volume.
Length = 123
Score = 32.7 bits (74), Expect = 0.23
Identities = 28/98 (28%), Positives = 42/98 (42%), Gaps = 21/98 (21%)
Query: 460 SRTRSRSFRVEASKSRIFRASDLVRGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEE 519
S R R E +S + R S +V PL G+ F Q+ +R D+
Sbjct: 38 STVRRRYSDFEWLRSELERESKVVVPPLPGKALFRQL----------------PFRGDDG 81
Query: 520 A-EKNFLKESKQGLIYLID-LGSHGLINN---LHCFSQ 552
+ +F++E KQGL ++ + H L N LH F Q
Sbjct: 82 IFDDSFIEERKQGLEQFLNKVAGHPLAQNERCLHMFLQ 119
>gnl|CDD|188862 cd09478, LIM_CRIP, The LIM domain of Cysteine-Rich Intestinal
Protein (CRIP). The LIM domain of Cysteine-Rich
Intestinal Protein (CRIP): CRIP is a short protein with
only one LIM domain. CRIP gene is developmentally
regulated and can be induced by glucocorticoid hormones
during the first three postnatal weeks. The domain
shows close sequence homology to LIM domain of thymus
LIM protein. However, unlike the TLP proteins which
have two LIM domains, the members of this family have
only one LIM domain. LIM domains are 50-60 amino acids
in size and share two characteristic zinc finger
motifs. The two zinc fingers contain eight conserved
residues, mostly cysteines and histidines, which
coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 54
Score = 30.6 bits (69), Expect = 0.25
Identities = 15/49 (30%), Positives = 22/49 (44%), Gaps = 1/49 (2%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNW-YFEKDGLLFC 59
C C + E V +L ++WH C +C C L + E DG +C
Sbjct: 1 CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTPGSHAEHDGKPYC 49
>gnl|CDD|173722 cd05633, STKc_GRK3, Catalytic domain of the Protein
Serine/Threonine Kinase, G protein-coupled Receptor
Kinase 3. Serine/Threonine Kinases (STKs), G
protein-coupled Receptor Kinase (GRK) subfamily, GRK3
isoform, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The GRK
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. GRKs phosphorylate and regulate G
protein-coupled receptors (GPCRs), the largest
superfamily of cell surface receptors which regulate
some part of nearly all physiological functions.
Phosphorylated GPCRs bind to arrestins, which prevents
further G protein signaling despite the presence of
activating ligand. There are seven types of GRKs, named
GRK1 to GRK7. GRK3 (also known as beta-adrenergic
receptor kinase 2) is widely expressed in many tissues.
GRK3-deficient mice show a lack of olfactory receptor
desensitization and altered regulation of the M2
muscarinic airway. GRK3 is involved in modulating the
cholinergic response of airway smooth muscles. It also
plays a role in dopamine receptor regulation. GRK3
promoter polymorphisms may be associated with bipolar
disorder.
Length = 279
Score = 33.8 bits (77), Expect = 0.26
Identities = 36/154 (23%), Positives = 67/154 (43%), Gaps = 20/154 (12%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN 546
++G+G FG+VY +TG++ +K L +K +K + + L + L++
Sbjct: 1 IIGRGGFGEVYGCRKADTGKMYAMKCL-------DKKRIKMKQGETLALNERIMLSLVST 53
Query: 547 LHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRV 606
C V + + H + KL + + + GG L L G R
Sbjct: 54 GDCPFIVCMTYAFHTPD------------KLCFILDLMNGGDLHYHLSQHGVFSEKEMRF 101
Query: 607 NFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
+A +I G+ ++H+ +++RDL N L+ E G
Sbjct: 102 -YATEIILGLEHMHNRFVVYRDLKPANILLDEHG 134
>gnl|CDD|183880 PRK13184, pknD, serine/threonine-protein kinase; Reviewed.
Length = 932
Score = 34.4 bits (79), Expect = 0.27
Identities = 23/64 (35%), Positives = 29/64 (45%), Gaps = 10/64 (15%)
Query: 583 YIAGGTLKELLQDPGQ------PLPWGQRV-NFAR---DIAAGMTYLHSMNLIHRDLNSQ 632
YI G TLK LL+ Q L V F I A + Y+HS ++HRDL
Sbjct: 83 YIEGYTLKSLLKSVWQKESLSKELAEKTSVGAFLSIFHKICATIEYVHSKGVLHRDLKPD 142
Query: 633 NCLV 636
N L+
Sbjct: 143 NILL 146
>gnl|CDD|165476 PHA03210, PHA03210, serine/threonine kinase US3; Provisional.
Length = 501
Score = 33.9 bits (77), Expect = 0.30
Identities = 18/87 (20%), Positives = 37/87 (42%), Gaps = 5/87 (5%)
Query: 551 SQVAVLRSLHHHNVIRFIGVL-YKDRKLNLVTEY---IAGGTLKELLQDPGQPLPWGQRV 606
+++ L L+H N+++ +L + + +Y + E +PL R
Sbjct: 212 NEILALGRLNHENILKIEEILRSEANTYMITQKYDFDLYSFMYDEAFDWKDRPLLKQTR- 270
Query: 607 NFARDIAAGMTYLHSMNLIHRDLNSQN 633
+ + + Y+H LIHRD+ +N
Sbjct: 271 AIMKQLLCAVEYIHDKKLIHRDIKLEN 297
>gnl|CDD|188839 cd09455, LIM1_Enigma_like_1, The first LIM domain of an Enigma
subfamily with unknown function. The first LIM domain
of an Enigma subfamily with unknown function: The Enigma
LIM domain family is comprised of three characterized
members: Enigma, ENH and Cypher (mouse)/ZASP (human).
These subfamily members contain a single PDZ domain at
the N-terminus and three LIM domains at the C-terminus.
They serve as adaptor proteins, where the PDZ domain
tethers the protein to the cytoskeleton and the LIM
domains, recruit signaling proteins to implement
corresponding functions. The members of the Enigma
family have been implicated in regulating or organizing
cytoskeletal structure, as well as involving multiple
signaling pathways. LIM domains are 50-60 amino acids in
size and share two characteristic zinc finger motifs.
The two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately bond
to two zinc atoms. LIM domains function as adaptors or
scaffolds to support the assembly of multimeric protein
complexes.
Length = 54
Score = 30.1 bits (68), Expect = 0.33
Identities = 18/59 (30%), Positives = 27/59 (45%), Gaps = 10/59 (16%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSCSCC-----IGDGESYALVERSILYCGLCY 124
C++C Q + GP + + P+ F C + SC IG E E+ LYC C+
Sbjct: 1 CESCNQQIRGPFITALGKIWCPDHFICANASCRRPLQDIGFVE-----EKGQLYCEYCF 54
Score = 28.6 bits (64), Expect = 1.2
Identities = 16/51 (31%), Positives = 25/51 (49%), Gaps = 4/51 (7%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCS--ACDVMLDNWYF-EKDGLLFC 59
C C N + ++ AL + W D F C+ +C L + F E+ G L+C
Sbjct: 1 CESC-NQQIRGPFITALGKIWCPDHFICANASCRRPLQDIGFVEEKGQLYC 50
>gnl|CDD|188742 cd09356, LIM2_TRIP6, The second LIM domain of Thyroid
receptor-interacting protein 6 (TRIP6). The second LIM
domain of Thyroid receptor-interacting protein 6
(TRIP6): TRIP6 is a member of the zyxin LIM protein
family and contains three LIM zinc-binding domains at
the C-terminal. TRIP6 protein localizes to focal
adhesion sites and along actin stress fibers.
Recruitment of this protein to the plasma membrane
occurs in a lysophosphatidic acid (LPA)-dependent
manner. TRIP6 recruits a number of molecules involved in
actin assembly, cell motility, survival and
transcriptional control. The function of TRIP6 in cell
motility is regulated by Src-dependent phosphorylation
at a Tyr residue. The phosphorylation activates the
coupling to the Crk SH2 domain, which is required for
the function of TRIP6 in promoting lysophosphatidic acid
(LPA)-induced cell migration. TRIP6 can shuttle to the
nucleus to serve as a coactivator of AP-1 and NF-kappaB
transcriptional factors. Moreover, TRIP6 can form a
ternary complex with the NHERF2 PDZ protein and LPA2
receptor to regulate LPA-induced activation of ERK and
AKT, rendering cells resistant to chemotherapy. Recent
evidence shows that TRIP6 antagonizes Fas-Induced
apoptosis by enhancing the antiapoptotic effect of LPA
in cells. As in other LIM domains, this domain family is
50-60 amino acids in size and shares two characteristic
zinc finger motifs. The two zinc fingers contain eight
conserved residues, mostly cysteines and histidines,
which coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein.
Length = 53
Score = 30.2 bits (68), Expect = 0.39
Identities = 11/50 (22%), Positives = 21/50 (42%), Gaps = 1/50 (2%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYC 120
C C + + ++ +HP CF C C + DG + + ++C
Sbjct: 1 CSVCSKPIMERILRATGKAYHPHCFTCVVCHRSL-DGIPFTVDATGQIHC 49
Score = 29.8 bits (67), Expect = 0.49
Identities = 18/54 (33%), Positives = 26/54 (48%), Gaps = 3/54 (5%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWYFEKD--GLLFCKEDY 63
C+ C I+E ++A + +H CF C C LD F D G + C ED+
Sbjct: 1 CSVCSKPIME-RILRATGKAYHPHCFTCVVCHRSLDGIPFTVDATGQIHCIEDF 53
>gnl|CDD|215638 PLN03225, PLN03225, Serine/threonine-protein kinase SNT7;
Provisional.
Length = 566
Score = 33.6 bits (77), Expect = 0.42
Identities = 15/47 (31%), Positives = 21/47 (44%), Gaps = 4/47 (8%)
Query: 469 VEASKSRIFRASDLVRGPLLGQGFFGQVYRVT----HRETGEVMVLK 511
+E F+ D V G LG+G FG VY+ + + VLK
Sbjct: 121 LEGLFRPSFKKDDFVLGKKLGEGAFGVVYKASLVNKQSKKEGKYVLK 167
>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 = 33.0 bits (76), Expect = 0.43
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 608 FARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
F I G+ Y+HS N++HRDL N L+
Sbjct: 111 FLYQILRGLKYIHSANVLHRDLKPSNLLL 139
>gnl|CDD|188731 cd09345, LIM2_FHL, The second LIM domain of Four and a half LIM
domains protein (FHL). The second LIM domain of Four
and a half LIM domains protein (FHL): LIM-only protein
family consists of five members, designated FHL1, FHL2,
FHL3, FHL5 and LIMPETin. The first four members are
composed of four complete LIM domains arranged in
tandem and an N-terminal single zinc finger domain with
a consensus sequence equivalent to the C-terminal half
of a LIM domain. LIMPETin is an exception, containing
six LIM domains. FHL1, 2 and 3 are predominantly
expressed in muscle tissues, and FHL5 is highly
expressed in male germ cells. FHL proteins exert their
roles as transcription co-activators or co-repressors
through a wide array of interaction partners. For
example, FHL1 binds to Myosin-binding protein C,
regulating myosin filament formation and sarcomere
assembly. FHL2 has shown to interact with more than 50
different proteins, including receptors, structural
proteins, transcription factors and cofactors, signal
transducers, splicing factors, DNA replication and
repair enzymes, and metabolic enzymes. FHL3 int eracts
with many transcription factors, such as CREB,
BKLF/KLF3, CtBP2, MyoD, and MZF_1. FHL5 is a
tissue-specific coactivator of CREB/CREM family
transcription factors. LIM domains are 50-60 amino
acids in size and share two characteristic zinc finger
motifs. The two zinc fingers contain eight conserved
residues, mostly cysteines and histidines, which
coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 54
Score = 30.0 bits (68), Expect = 0.45
Identities = 13/50 (26%), Positives = 22/50 (44%), Gaps = 2/50 (4%)
Query: 12 CAGCLNNIV-EDEYVQALSQEWHTDCFRCSACD-VMLDNWYFEKDGLLFC 59
C C I+ + ++ + WH CF CS C + + KD ++C
Sbjct: 1 CKACGKAIMPGSKKMEYKGKFWHEKCFTCSECKKPIGTKSFIPKDDKIYC 50
Score = 29.2 bits (66), Expect = 0.69
Identities = 18/56 (32%), Positives = 26/56 (46%), Gaps = 4/56 (7%)
Query: 71 CQNCGQ--MMSGPVMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYCGLCY 124
C+ CG+ M M +H +CF C+ C IG +S+ + I YC CY
Sbjct: 1 CKACGKAIMPGSKKMEYKGKFWHEKCFTCSECKKPIG-TKSFIPKDDKI-YCVPCY 54
>gnl|CDD|165478 PHA03212, PHA03212, serine/threonine kinase US3; Provisional.
Length = 391
Score = 33.0 bits (75), Expect = 0.46
Identities = 18/90 (20%), Positives = 40/90 (44%), Gaps = 2/90 (2%)
Query: 551 SQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQRVNFAR 610
++ +LR+++H ++I+ G ++ L+ L L + + + R
Sbjct: 132 TEAHILRAINHPSIIQLKGTFTYNKFTCLILPRYKT-DLYCYLAAK-RNIAICDILAIER 189
Query: 611 DIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
+ + YLH +IHRD+ ++N + G
Sbjct: 190 SVLRAIQYLHENRIIHRDIKAENIFINHPG 219
>gnl|CDD|188803 cd09419, LIM3_Testin, The third LIM domain of Testin. The third
LIM domain of Testin: Testin contains three C-terminal
LIM domains and a PET protein-protein interaction domain
at the N-terminal. Testin is a cytoskeleton associated
focal adhesion protein that localizes along actin stress
fibers at cell-cell-contact areas and at focal adhesion
plaques. Testin interacts with a variety of cytoskeletal
proteins, including zyxin, mena, VASP, talin, and actin
and it is involved in cell motility and adhesion events.
Knockout mice experiments reveal that tumor repressor
function of Testin. LIM domains are 50-60 amino acids in
size and share two characteristic zinc finger motifs.
The two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately bond
to two zinc atoms. LIM domains function as adaptors or
scaffolds to support the assembly of multimeric protein
complexes.
Length = 59
Score = 29.9 bits (67), Expect = 0.46
Identities = 20/61 (32%), Positives = 32/61 (52%), Gaps = 7/61 (11%)
Query: 71 CQNCGQMMSGPVMVV--GDHKFH--PECFKCTSCSCCIGDGESYALVERSILYCGL-CYK 125
CQ C + V V + +H PECF C+ CS C+ G+ + VE +++C + C K
Sbjct: 1 CQGCHNAIDPEVQRVSYNNFHWHAEPECFLCSCCSKCL-IGQKFMPVE-GMVFCSVECKK 58
Query: 126 R 126
+
Sbjct: 59 K 59
Score = 28.3 bits (63), Expect = 1.7
Identities = 17/52 (32%), Positives = 26/52 (50%), Gaps = 4/52 (7%)
Query: 12 CAGCLNNI-VEDEYVQALSQEWH--TDCFRCSACD-VMLDNWYFEKDGLLFC 59
C GC N I E + V + WH +CF CS C ++ + +G++FC
Sbjct: 1 CQGCHNAIDPEVQRVSYNNFHWHAEPECFLCSCCSKCLIGQKFMPVEGMVFC 52
>gnl|CDD|223069 PHA03390, pk1, serine/threonine-protein kinase 1; Provisional.
Length = 267
Score = 32.9 bits (76), Expect = 0.48
Identities = 22/74 (29%), Positives = 34/74 (45%), Gaps = 8/74 (10%)
Query: 579 LVTEYIAGGTLKELLQDPGQPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
L+ +YI G L +LL+ G L + R + + LH N+IH D+ +N L
Sbjct: 86 LIMDYIKDGDLFDLLKKEG-KLSEAEVKKIIRQLVEALNDLHKHNIIHNDIKLENVL--- 141
Query: 639 VGSGFDFHLGQIYL 652
+D +IYL
Sbjct: 142 ----YDRAKDRIYL 151
>gnl|CDD|188816 cd09432, LIM6_LIMPETin, The sixth LIM domain of protein LIMPETin.
The sixth LIM domain of protein LIMPETin: LIMPETin
contains 6 LIM domains at the C-terminal and an
N-terminal PET domain. Four of the six LIM domains are
highly homologous to the four and half LIM domain
protein family and two of them show sequence similarity
to the LIM domains of the testin family. Thus, LIMPETin
may be the recombinant product of genes coding testin
and FHL proteins. In Schistosoma mansoni, where
LIMPETin was first identified, LIMPETin is down
regulated in sexually mature adult Schistosoma females
compared to sexually immature adult females and adult
male. Its differential expression indicates that it is
a transcription regulator. LIM domains are 50-60 amino
acids in size and share two characteristic zinc finger
motifs. The two zinc fingers contain eight conserved
residues, mostly cysteines and histidines, which
coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 56
Score = 29.8 bits (67), Expect = 0.49
Identities = 15/47 (31%), Positives = 21/47 (44%), Gaps = 3/47 (6%)
Query: 12 CAGC---LNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWYFEKDG 55
CA C + I +++ + WH DCF C+ C L F DG
Sbjct: 1 CAACGKPITGIGGTKFISFEDRHWHNDCFNCAGCRTSLVGKGFITDG 47
>gnl|CDD|188825 cd09441, LIM2_SF3, The second Lim domain of pollen specific
protein SF3. The second Lim domain of pollen specific
protein SF3: SF3 is a Lim protein that is found
exclusively in mature plant pollen grains. It contains
two LIM domains. The exact function of SF3 is unknown.
It may be a transcription factor required for the
expression of late pollen genes. It is possible that
SF3 protein is involved in controlling pollen-specific
processes such as male gamete maturation, pollen tube
formation, or even fertilization. As in other LIM
domains, this domain family is 50-60 amino acids in
size and shares two characteristic zinc finger motifs.
The two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately
bond to two zinc atoms. LIM domains function as
adaptors or scaffolds to support the assembly of
multimeric protein.
Length = 61
Score = 30.1 bits (68), Expect = 0.49
Identities = 16/54 (29%), Positives = 23/54 (42%), Gaps = 3/54 (5%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCS--ACDVMLDNWYFEKDGLLFCKEDY 63
C C + E V +H CF+CS C + N Y +G L+CK +
Sbjct: 1 CVACGKTVYPIEKVTVEGTSYHKSCFKCSHGGCTISPSN-YAAHEGRLYCKHHH 53
Score = 27.8 bits (62), Expect = 2.5
Identities = 13/31 (41%), Positives = 16/31 (51%), Gaps = 2/31 (6%)
Query: 90 FHPECFKCTSCSCCIGDGESYALVERSILYC 120
+H CFKC+ C I +YA E LYC
Sbjct: 21 YHKSCFKCSHGGCTISP-SNYAAHE-GRLYC 49
>gnl|CDD|188822 cd09438, LIM3_Ajuba_like, The third LIM domain of Ajuba-like
proteins. The third LIM domain of Ajuba-like proteins:
Ajuba like LIM protein family includes three highly
homologous proteins Ajuba, Limd1, and WTIP. Members of
the family contain three tandem C-terminal LIM domains
and a proline-rich N-terminal region. This family of
proteins functions as scaffolds, participating in the
assembly of numerous protein complexes. In the
cytoplasm, Ajuba binds Grb2 to modulate
serum-stimulated ERK activation. Ajuba also recruits
the TNF receptor-associated factor 6 (TRAF6) to p62 and
activates PKCKappa activity. Ajuba interacts with
alpha-catenin and F-actin to contribute to the
formation or stabilization of adheren junctions by
linking adhesive receptors to the actin cytoskeleton.
Although Ajuba is a cytoplasmic protein, it can shuttle
into the nucleus. In nucleus, Ajuba functions as a
corepressor for the zinc finger-protein Snail. It binds
to the SNAG repression domain of Snail through its LIM
region. Arginine methyltransferase-5 (Prmt5), a
protein in the complex, is recruited to Snai l through
an interaction with Ajuba. This ternary complex
functions to repress E-cadherin, a Snail target gene.
In addition, Ajuba contains functional nuclear-receptor
interacting motifs and selectively interacts with
retinoic acid receptors (RARs) and rexinoid receptor
(RXRs) to negatively regulate retinoic acid signaling.
Wtip, the Wt1-interacting protein, was originally
identified as an interaction partner of the Wilms
tumour protein 1 (WT1). Wtip is involved in kidney and
neural crest development. Wtip interacts with the
receptor tyrosine kinase Ror2 and inhibits canonical
Wnt signaling. LIMD1 was reported to inhibit cell
growth and metastases. The inhibition may be mediated
through an interaction with the protein
barrier-to-autointegration (BAF), a component of
SWI/SNF chromatin-remodeling protein; or through the
interaction with retinoblastoma protein (pRB),
resulting in inhibition of E2F-mediated transcription,
and expression of the majority of genes with E2F1-
responsive elements. Recently, Limd1 was shown to
interact with the p62/sequestosome protein and
influence IL-1 and RANKL signaling by facilitating the
assembly of a p62/TRAF6/a-PKC multi-protein complex.
The Limd1-p62 interaction affects both NF-kappaB and
AP-1 activity in epithelial cells and osteoclasts.
Moreover, LIMD1 functions as tumor repressor to block
lung tumor cell line in vitro and in vivo. Recent
studies revealed that LIM proteins Wtip, LIMD1 and
Ajuba interact with components of RNA induced silencing
complexes (RISC) as well as eIF4E and the mRNA m7GTP
cap-protein complex and are required for
microRNA-mediated gene silencing. As in other LIM
domains, this domain family is 50-60 amino acids in
size and shares two characteristic zinc finger motifs.
The two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately
bond to two zinc atoms. LIM domains function as
adaptors or scaffolds to support the assembly of
multimeric protein.
Length = 62
Score = 30.1 bits (68), Expect = 0.53
Identities = 15/59 (25%), Positives = 28/59 (47%), Gaps = 10/59 (16%)
Query: 12 CAGCLNNIV----EDEYVQALS--QEWHTDCFRCSACDVML----DNWYFEKDGLLFCK 60
CA C I+ +E ++ +S +++H +C+ C C + L + + DG L C
Sbjct: 1 CAACGQPILPAEGSEETIRVVSMDKDYHVECYHCEDCGLQLNDEEGHRCYPLDGHLLCH 59
>gnl|CDD|173682 cd05591, STKc_nPKC_epsilon, Catalytic domain of the Protein
Serine/Threonine Kinase, Novel Protein Kinase C epsilon.
Serine/Threonine Kinases (STKs), Novel Protein Kinase C
(nPKC), epsilon isoform, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine/threonine residues on protein substrates.
The nPKC 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. PKCs are classified into three groups
(classical, atypical, and novel) depending on their mode
of activation and the structural characteristics of
their regulatory domain. nPKCs are calcium-independent,
but require DAG (1,2-diacylglycerol) and
phosphatidylserine (PS) for activity. There are four
nPKC isoforms, delta, epsilon, eta, and theta.
PKC-epsilon has been shown to behave as an oncoprotein.
Its overexpression contributes to neoplastic
transformation depending on the cell type. It
contributes to oncogenesis by inducing disordered cell
growth and inhibiting cell death. It also plays a role
in tumor invasion and metastasis. PKC-epsilon has also
been found to confer cardioprotection against ischemia
and reperfusion-mediated damage. Other cellular
functions include the regulation of gene expression,
cell adhesion, and cell motility.
Length = 321
Score = 32.9 bits (75), Expect = 0.54
Identities = 39/158 (24%), Positives = 63/158 (39%), Gaps = 30/158 (18%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYR----VDEEAEKNFLKESKQGLIYLIDLGSHG 542
+LG+G FG+V + T EV +K L + D++ + ++ L H
Sbjct: 2 VLGKGSFGKVMLAELKGTDEVYAIKVLKKDVILQDDDVDCTMTEKRILALA-----AKHP 56
Query: 543 LINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPW 602
+ LHC Q KDR L V EY+ GG L +Q +
Sbjct: 57 FLTALHCCFQT-------------------KDR-LFFVMEYVNGGDLMFQIQR-SRKFDE 95
Query: 603 GQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
+ +A ++ + +LH +I+RDL N L+ G
Sbjct: 96 PRSRFYAAEVTLALMFLHRHGVIYRDLKLDNILLDAEG 133
>gnl|CDD|223009 PHA03211, PHA03211, serine/threonine kinase US3; Provisional.
Length = 461
Score = 32.9 bits (75), Expect = 0.55
Identities = 14/39 (35%), Positives = 23/39 (58%)
Query: 598 QPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
+PL Q AR + + + Y+H +IHRD+ ++N LV
Sbjct: 255 RPLGLAQVTAVARQLLSAIDYIHGEGIIHRDIKTENVLV 293
>gnl|CDD|188730 cd09344, LIM1_FHL1, The first LIM domain of Four and a half LIM
domains protein 1. The first LIM domain of Four and a
half LIM domains protein 1 (FHL1): FHL1 is heavily
expressed in skeletal and cardiac muscles. It plays
important roles in muscle growth, differentiation, and
sarcomere assembly by acting as a modulator of
transcription factors. Defects in FHL1 gene are
responsible for a number of Muscular dystrophy-like
muscle disorders. It has been detected that FHL1 binds
to Myosin-binding protein C, regulating myosin filament
formation and sarcomere assembly. LIM domains are 50-60
amino acids in size and share two characteristic zinc
finger motifs. The two zinc fingers contain eight
conserved residues, mostly cysteines and histidines,
which coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes. .
Length = 54
Score = 29.7 bits (67), Expect = 0.57
Identities = 17/50 (34%), Positives = 24/50 (48%), Gaps = 2/50 (4%)
Query: 12 CAGCLNNI-VEDEYVQALSQEWHTDCFRCSACDVMLDNWYF-EKDGLLFC 59
CA C I + + + ++ WH CFRC+ C L N F KD + C
Sbjct: 1 CAECRKPIGADSKELHHKNRYWHETCFRCAKCYKPLANEPFVAKDNKILC 50
>gnl|CDD|188824 cd09440, LIM1_SF3, The first Lim domain of pollen specific
protein SF3. The first Lim domain of pollen specific
protein SF3: SF3 is a Lim protein that is found
exclusively in mature plant pollen grains. It contains
two LIM domains. The exact function of SF3 is unknown.
It may be a transcription factor required for the
expression of late pollen genes. It is possible that
SF3 protein is involved in controlling pollen-specific
processes such as male gamete maturation, pollen tube
formation, or even fertilization. As in other LIM
domains, this domain family is 50-60 amino acids in
size and shares two characteristic zinc finger motifs.
The two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately
bond to two zinc atoms. LIM domains function as
adaptors or scaffolds to support the assembly of
multimeric protein.
Length = 63
Score = 29.7 bits (67), Expect = 0.58
Identities = 14/31 (45%), Positives = 19/31 (61%), Gaps = 3/31 (9%)
Query: 32 WHTDCFRCSACD--VMLDNWYFEKDGLLFCK 60
+H CFRCS C + L N Y +G+L+CK
Sbjct: 25 YHKSCFRCSHCKGTLKLSN-YSSMEGVLYCK 54
>gnl|CDD|165473 PHA03207, PHA03207, serine/threonine kinase US3; Provisional.
Length = 392
Score = 32.9 bits (75), Expect = 0.60
Identities = 23/93 (24%), Positives = 41/93 (44%), Gaps = 22/93 (23%)
Query: 551 SQVAVLRSLHHHNVIRFIGVLYKDR----------KLNLVTEYIAGGTLKELLQDPGQPL 600
++ +L+++ H +I I Y+ + K +L T Y+ D PL
Sbjct: 135 REIDILKTISHRAIINLIHA-YRWKSTVCMVMPKYKCDLFT-YV----------DRSGPL 182
Query: 601 PWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQN 633
P Q + R + + YLH +IHRD+ ++N
Sbjct: 183 PLEQAITIQRRLLEALAYLHGRGIIHRDVKTEN 215
>gnl|CDD|173681 cd05590, STKc_nPKC_eta, Catalytic domain of the Protein
Serine/Threonine Kinase, Novel Protein Kinase C eta.
Serine/Threonine Kinases (STKs), Novel Protein Kinase C
(nPKC), eta isoform, catalytic (c) domain. STKs catalyze
the transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
nPKC 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. PKCs are classified into three groups
(classical, atypical, and novel) depending on their mode
of activation and the structural characteristics of
their regulatory domain. nPKCs are calcium-independent,
but require DAG (1,2-diacylglycerol) and
phosphatidylserine (PS) for activity. There are four
nPKC isoforms, delta, epsilon, eta, and theta. PKC-eta
is predominantly expressed in squamous epithelia, where
it plays a crucial role in the signaling of cell-type
specific differentiation. It is also expressed in pro-B
cells and early-stage thymocytes, and acts as a key
regulator in early B-cell development. PKC-eta increases
glioblastoma multiforme (GBM) proliferation and
resistance to radiation, and is being developed as a
therapeutic target for the management of GBM.
Length = 320
Score = 32.6 bits (74), Expect = 0.62
Identities = 37/158 (23%), Positives = 65/158 (41%), Gaps = 30/158 (18%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLKELYR----VDEEAEKNFLKESKQGLIYLIDLGSHG 542
+LG+G FG+V +E+G + +K L + D++ E ++ L +H
Sbjct: 2 VLGKGSFGKVMLARLKESGRLYAVKVLKKDVILQDDDVECTMTEKRILSLAR-----NHP 56
Query: 543 LINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPW 602
+ L+C Q DR L V E++ GG L +Q +
Sbjct: 57 FLTQLYCCFQTP-------------------DR-LFFVMEFVNGGDLMFHIQK-SRRFDE 95
Query: 603 GQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
+ +A +I + + +LH +I+RDL N L+ G
Sbjct: 96 ARARFYAAEITSALMFLHDKGIIYRDLKLDNVLLDHEG 133
>gnl|CDD|238489 cd00989, PDZ_metalloprotease, PDZ domain of bacterial and plant
zinc metalloprotases, presumably membrane-associated or
integral membrane proteases, which may be involved in
signalling and regulatory mechanisms. May be responsible
for substrate recognition and/or binding, as most PDZ
domains bind C-terminal polypeptides, and binding to
internal (non-C-terminal) polypeptides and even to
lipids has been demonstrated. In this subfamily of
protease-associated PDZ domains a C-terminal beta-strand
forms the peptide-binding groove base, a circular
permutation with respect to PDZ domains found in
Eumetazoan signaling proteins.
Length = 79
Score = 30.3 bits (69), Expect = 0.64
Identities = 8/17 (47%), Positives = 11/17 (64%)
Query: 293 LHLGDRILEVNGTPVRD 309
L GDRIL +NG ++
Sbjct: 30 LKAGDRILAINGQKIKS 46
>gnl|CDD|133233 cd05102, PTKc_VEGFR3, Catalytic domain of the Protein Tyrosine
Kinase, Vascular Endothelial Growth Factor Receptor 3.
Protein Tyrosine Kinase (PTK) family; Vascular
Endothelial Growth Factor Receptor 3 (VEGFR3); catalytic
(c) domain. 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.
VEGFR3 (or Flt4) is a member of the VEGFR subfamily of
proteins, which are receptor tyr kinases (RTKs)
containing an extracellular ligand-binding region with
seven immunoglobulin (Ig)-like domains, a transmembrane
segment, and an intracellular catalytic domain. In
VEGFR3, the fifth Ig-like domain is replaced by a
disulfide bridge. The binding of VEGFRs to their
ligands, the VEGFs, leads to receptor dimerization,
activation, and intracellular signaling. VEGFR3
preferentially binds the ligands VEGFC and VEGFD. VEGFR3
is essential for lymphatic endothelial cell (EC)
development and function. It has been shown to regulate
adaptive immunity during corneal transplantation. VEGFR3
is upregulated on blood vascular ECs in pathological
conditions such as vascular tumors and the periphery of
solid tumors. It plays a role in cancer progression and
lymph node metastasis. Missense mutations in the VEGFR3
gene are associated with primary human lymphedema.
Length = 338
Score = 32.7 bits (74), Expect = 0.69
Identities = 15/40 (37%), Positives = 23/40 (57%)
Query: 599 PLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
PL + ++ +A GM +L S IHRDL ++N L+ E
Sbjct: 170 PLTMEDLICYSFQVARGMEFLASRKCIHRDLAARNILLSE 209
>gnl|CDD|232883 TIGR00225, prc, C-terminal peptidase (prc). A C-terminal peptidase
with different substrates in different species including
processing of D1 protein of the photosystem II reaction
center in higher plants and cleavage of a peptide of 11
residues from the precursor form of penicillin-binding
protein in E.coli E.coli and H influenza have the most
distal branch of the tree and their proteins have an
N-terminal 200 amino acids that show no homology to
other proteins in the database [Protein fate,
Degradation of proteins, peptides, and glycopeptides,
Protein fate, Protein modification and repair].
Length = 334
Score = 32.3 bits (74), Expect = 0.70
Identities = 16/56 (28%), Positives = 27/56 (48%), Gaps = 2/56 (3%)
Query: 293 LHLGDRILEVNGTPVRDKPLQEVECLIRNTTDTVLQRQILKECRIKDLIIEVCLER 348
+ GD+I+++NG V L + LIR T + +IL+ K + L+R
Sbjct: 80 IKPGDKIIKINGKSVAGMSLDDAVALIRGKKGTKVSLEILRAG--KSKPLTFTLKR 133
>gnl|CDD|221196 pfam11738, DUF3298, Protein of unknown function (DUF3298). This
family of bacterial protein C-terminal regions is
highly conserved but the function is not known. Several
members are annotated as being
endo-1,4-beta-xylanase-like, but this could not be
confirmed, and the structure can be defined as a
heat-shock cognate 70kd protein 44kd ATPase.
Length = 76
Score = 29.6 bits (67), Expect = 0.78
Identities = 16/55 (29%), Positives = 24/55 (43%), Gaps = 11/55 (20%)
Query: 16 LNNIVEDEYVQALSQ-----------EWHTDCFRCSACDVMLDNWYFEKDGLLFC 59
L+++ +D Y++ALS E D DN+Y KDGL+F
Sbjct: 1 LDDLFKDGYLEALSDLIRKQLKENEDELDEDFKDSDEEFFKSDNFYLTKDGLVFY 55
>gnl|CDD|188804 cd09420, LIM3_Prickle, The third LIM domain of Prickle. The
third LIM domain of Prickle: Prickle contains three
C-terminal LIM domains and a N-terminal PET domain.
Prickles have been implicated in roles of regulating
tissue polarity or planar cell polarity (PCP). PCP
establishment requires the conserved
Frizzled/Dishevelled PCP pathway. Prickle interacts
with Dishevelled, thereby modulating
Frizzled/Dishevelled activity and PCP signaling. Two
forms of prickles have been identified; namely prickle
1 and prickle 2. Prickle 1 and prickle 2 are
differentially expressed. While prickle 1 is expressed
in fetal heart and hematological malignancies, prickle
2 is found in fetal brain, adult cartilage, pancreatic
islet, and some types of timorous cells. LIM domains
are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein complexes.
Length = 59
Score = 29.3 bits (66), Expect = 0.90
Identities = 11/33 (33%), Positives = 16/33 (48%), Gaps = 3/33 (9%)
Query: 30 QEWHT--DCFRCSACDV-MLDNWYFEKDGLLFC 59
Q WH CF C+ C +L + K G ++C
Sbjct: 22 QHWHATEKCFCCAQCKKSLLGRPFLPKQGQIYC 54
>gnl|CDD|188809 cd09425, LIM4_LIMPETin, The fourth LIM domain of protein LIMPETin.
The fourth LIM domain of protein LIMPETin: LIMPETin
contains 6 LIM domains at the C-terminal and an
N-terminal PET domain. Four of the six LIM domains are
highly homologous to the four and half LIM domain
protein family and two of them show sequence similarity
to the LIM domains of the Testin family. Thus, LIMPETin
may be the recombinant product of genes coding testin
and FHL proteins. In Schistosoma mansoni, where
LIMPETin was first identified, LIMPETin is down
regulated in sexually mature adult Schistosoma females
compared to sexually immature adult females and adult
male. Its differential expression indicates that it is a
transcription regulator. LIM domains are 50-60 amino
acids in size and share two characteristic zinc finger
motifs. The two zinc fingers contain eight conserved
residues, mostly cysteines and histidines, which
coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 54
Score = 28.9 bits (65), Expect = 0.91
Identities = 16/56 (28%), Positives = 26/56 (46%), Gaps = 4/56 (7%)
Query: 71 CQNCGQMMSGPV--MVVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYCGLCY 124
C CG++ + M ++H +CF C C IG +S+ + + YC CY
Sbjct: 1 CDGCGEIFRAGMKKMEYKGQQWHEKCFCCCECKQPIG-TKSFIPKDDDV-YCVPCY 54
>gnl|CDD|188820 cd09436, LIM3_TRIP6, The third LIM domain of Thyroid
receptor-interacting protein 6 (TRIP6). The third LIM
domain of Thyroid receptor-interacting protein 6
(TRIP6): TRIP6 is a member of the zyxin LIM protein
family and contains three LIM zinc-binding domains at
the C-terminal. TRIP6 protein localizes to focal
adhesion sites and along actin stress fibers.
Recruitment of this protein to the plasma membrane
occurs in a lysophosphatidic acid (LPA)-dependent
manner. TRIP6 recruits a number of molecules involved in
actin assembly, cell motility, survival and
transcriptional control. The function of TRIP6 in cell
motility is regulated by Src-dependent phosphorylation
at a Tyr residue. The phosphorylation activates the
coupling to the Crk SH2 domain, which is required for
the function of TRIP6 in promoting lysophosphatidic acid
(LPA)-induced cell migration. TRIP6 can shuttle to the
nucleus to serve as a coactivator of AP-1 and NF-kappaB
transcriptional factors. Moreover, TRIP6 can form a
ternary complex with the NHERF2 PDZ protein and LPA2
receptor to regulate LPA-induced activation of ERK and
AKT, rendering cells resistant to chemotherapy. Recent
evidence shows that TRIP6 antagonizes Fas-Induced
apoptosis by enhancing the antiapoptotic effect of LPA
in cells. As in other LIM domains, this domain family is
50-60 amino acids in size and shares two characteristic
zinc finger motifs. The two zinc fingers contain eight
conserved residues, mostly cysteines and histidines,
which coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein.
Length = 66
Score = 29.2 bits (65), Expect = 0.96
Identities = 8/27 (29%), Positives = 16/27 (59%)
Query: 83 MVVGDHKFHPECFKCTSCSCCIGDGES 109
+V D FH +C++C C + +G++
Sbjct: 20 IVALDRDFHVQCYRCEDCGSLLSEGDN 46
Score = 26.5 bits (58), Expect = 9.3
Identities = 12/40 (30%), Positives = 21/40 (52%), Gaps = 4/40 (10%)
Query: 25 VQALSQEWHTDCFRCSACDVML----DNWYFEKDGLLFCK 60
+ AL +++H C+RC C +L + + DG + CK
Sbjct: 20 IVALDRDFHVQCYRCEDCGSLLSEGDNQGCYPLDGHILCK 59
>gnl|CDD|173714 cd05625, STKc_LATS1, Catalytic domain of the Protein
Serine/Threonine Kinase, Large Tumor Suppressor 1.
Serine/Threonine Kinases (STKs), Large Tumor Suppressor
(LATS) subfamily, LATS1 isoform, catalytic (c) domain.
STKs catalyze the transfer of the gamma-phosphoryl group
from ATP to serine/threonine residues on protein
substrates. The LATS 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. LATS functions as a tumor
suppressor and is implicated in cell cycle regulation.
Inactivation of LATS1 in mice results in the development
of various tumors, including sarcomas and ovarian
cancer. Promoter methylation, loss of heterozygosity,
and missense mutations targeting the LATS1 gene have
also been found in human sarcomas and ovarian cancers.
In addition, decreased expression of LATS1 is associated
with an aggressive phenotype and poor prognosis. LATS1
induces G2 arrest and promotes cytokinesis. It may be a
component of the mitotic exit network in higher
eukaryotes.
Length = 382
Score = 31.9 bits (72), Expect = 1.0
Identities = 35/155 (22%), Positives = 55/155 (35%), Gaps = 27/155 (17%)
Query: 488 LGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLGSHGLINN- 546
LG G FG+V +T + +K L + D L+ N
Sbjct: 9 LGIGAFGEVCLARKVDTKALYAMKTLRKKDV------------------------LLRNQ 44
Query: 547 -LHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQPLPWGQR 605
H ++ +L + V+R L V +YI GG + LL G P
Sbjct: 45 VAHVKAERDILAEADNEWVVRLYYSFQDKDNLYFVMDYIPGGDMMSLLIRMGI-FPEDLA 103
Query: 606 VNFARDIAAGMTYLHSMNLIHRDLNSQNCLVREVG 640
+ ++ + +H M IHRD+ N L+ G
Sbjct: 104 RFYIAELTCAVESVHKMGFIHRDIKPDNILIDRDG 138
>gnl|CDD|173689 cd05598, STKc_LATS, Catalytic domain of the Protein
Serine/Threonine Kinase, Large Tumor Suppressor.
Serine/Threonine Kinases (STKs), Large Tumor Suppressor
(LATS) subfamily, catalytic (c) domain. STKs catalyze
the transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
LATS 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. LATS was originally identified in Drosophila
using a screen for genes whose inactivation led to
overproliferation of cells. In tetrapods, there are two
LATS isoforms, LATS1 and LATS2. Inactivation of LATS1 in
mice results in the development of various tumors,
including sarcomas and ovarian cancer. LATS functions as
a tumor suppressor and is implicated in cell cycle
regulation.
Length = 376
Score = 32.1 bits (73), Expect = 1.1
Identities = 22/68 (32%), Positives = 29/68 (42%), Gaps = 17/68 (25%)
Query: 577 LNLVTEYIAGGTLKELLQDPGQPLPWGQRVNFARDIA----AGMT----YLHSMNLIHRD 628
L V +YI GG + LL G F D+A A +T +H M IHRD
Sbjct: 76 LYFVMDYIPGGDMMSLLIRLGI---------FEEDLARFYIAELTCAIESVHKMGFIHRD 126
Query: 629 LNSQNCLV 636
+ N L+
Sbjct: 127 IKPDNILI 134
>gnl|CDD|240172 cd05151, ChoK, Choline Kinase (ChoK). The ChoK subfamily is part of
a larger superfamily that includes the catalytic domains
of other kinases, such as the typical
serine/threonine/tyrosine protein kinases (PKs), RIO
kinases, actin-fragmin kinase (AFK), and
phosphoinositide 3-kinase (PI3K). It is composed of
bacterial and eukaryotic choline kinases, as well as
eukaryotic ethanolamine kinase. ChoK catalyzes the
transfer of the gamma-phosphoryl group from ATP (or CTP)
to its substrate, choline, producing phosphorylcholine
(PCho), a precursor to the biosynthesis of two major
membrane phospholipids, phosphatidylcholine (PC), and
sphingomyelin (SM). Although choline is the preferred
substrate, ChoK also shows substantial activity towards
ethanolamine and its N-methylated derivatives. Bacterial
ChoK is also referred to as licA protein. ETNK catalyzes
the transfer of the gamma-phosphoryl group from CTP to
ethanolamine (Etn), the first step in the CDP-Etn
pathway for the formation of the major phospholipid,
phosphatidylethanolamine (PtdEtn). Unlike ChoK, ETNK
shows specific activity for its substrate and displays
negligible activity towards N-methylated derivatives of
Etn. ChoK plays an important role in cell signaling
pathways and the regulation of cell growth.
Length = 170
Score = 31.1 bits (71), Expect = 1.1
Identities = 26/90 (28%), Positives = 38/90 (42%), Gaps = 24/90 (26%)
Query: 570 VLYKDRKLN-LVTEYIAGGTLKELLQDPGQPLPWGQRVNFARDIAAGMTYLHSMNLI--- 625
+ Y D + L+TE+I G L L +D P N + IA + LHS L
Sbjct: 58 LYYFDPETGVLITEFIEGSEL--LTEDFSDP------ENLEK-IAKLLKKLHSSPLPDLV 108
Query: 626 --HRDLNSQNCLVREVGSGFDFHLGQIYLI 653
H DL N L+ + G+++LI
Sbjct: 109 PCHNDLLPGNFLLDD---------GRLWLI 129
>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 = 32.0 bits (72), Expect = 1.1
Identities = 22/94 (23%), Positives = 44/94 (46%), Gaps = 10/94 (10%)
Query: 550 FSQVAVLRSLHHHNVIRFIGVLYKDRKLN------LVTEYIAGGTLKELLQDPGQPLPWG 603
+ ++ +++ ++H N+I + V + L LV E + L +++Q L
Sbjct: 64 YRELVLMKCVNHKNIISLLNVFTPQKSLEEFQDVYLVME-LMDANLCQVIQ---MELDHE 119
Query: 604 QRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVR 637
+ + G+ +LHS +IHRDL N +V+
Sbjct: 120 RMSYLLYQMLCGIKHLHSAGIIHRDLKPSNIVVK 153
>gnl|CDD|188776 cd09390, LIM2_dLMO, The second LIM domain of dLMO (Beaderx). The
second LIM domain of dLMO (Beaderx): dLMO is a nuclear
protein that plays important roles in transcriptional
regulation and development. In Drosophila dLMO modulates
the activity of LIM-homeodomain protein Apterous (Ap),
which regulates the formation of the dorsal-ventral axis
of the Drosophila wing. Biochemical analysis shows that
dLMO protein influences the activity of Apterous by
binding of its cofactor Chip. Further studies shown that
dLMO proteins might function in an evolutionarily
conserved mechanism involved in patterning the
appendages. All LIM domains are 50-60 amino acids in
size and share two characteristic zinc finger motifs.
The two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately bond
to two zinc atoms. LIM domains function as adaptors or
scaffolds to support the assembly of multimeric protein
complexes.
Length = 55
Score = 28.7 bits (64), Expect = 1.1
Identities = 15/39 (38%), Positives = 20/39 (51%), Gaps = 4/39 (10%)
Query: 82 VMVVGDHKFHPECFKCTSCS--CCIGDGESYALVERSIL 118
VM + +H ECF C C+ C+GD + L E IL
Sbjct: 14 VMRARTNVYHLECFACQRCNHRFCVGD--RFYLCENKIL 50
>gnl|CDD|188815 cd09431, LIM3_Fhl2, The third LIM domain of Four and a half LIM
domains protein 2 (FHL2). The third LIM domain of Four
and a half LIM domains protein 2 (FHL2): FHL2 is one
of the best studied FHL proteins. FHL2 expression is
most abundant in the heart, and in brain, liver and
lung to a lesser extent. FHL2 participates in a wide
range of cellular processes, such as transcriptional
regulation, signal transduction, and cell survival by
binding to various protein partners. FHL2 has shown to
interact with more than 50 different proteins,
including receptors, structural proteins, transcription
factors and cofactors, signal transducers, splicing
factors, DNA replication and repair enzymes, and
metabolic enzymes. Although FHL2 is abundantly
expressed in heart, the fhl2 null mice are viable and
had no detectable abnormal cardiac phenotype. LIM
domains are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to s
upport the assembly of multimeric protein complexes.
Length = 57
Score = 28.8 bits (64), Expect = 1.2
Identities = 11/31 (35%), Positives = 15/31 (48%), Gaps = 1/31 (3%)
Query: 30 QEWHTDCFRCSACDVMLDNWYF-EKDGLLFC 59
Q WH +CF C+ C L F +D +C
Sbjct: 18 QPWHKECFVCTGCKKQLSGQRFTSRDDFAYC 48
>gnl|CDD|188805 cd09421, LIM3_LIMPETin, The third LIM domain of protein LIMPETin.
The third LIM domain of protein LIMPETin: LIMPETin
contains 6 LIM domains at the C-terminal and an
N-terminal PET domain. Four of the six LIM domains are
highly homologous to the four and half LIM domain
protein family and two of them show sequence similarity
to the LIM domains of the testin family. Thus, LIMPETin
may be the recombinant product of genes coding testin
and FHL proteins. In Schistosoma mansoni, where
LIMPETin was first identified, LIMPETin is down
regulated in sexually mature adult Schistosoma females
compared to sexually immature adult females and adult
male. Its differential expression indicates that it is a
transcription regulator. LIM domains are 50-60 amino
acids in size and share two characteristic zinc finger
motifs. The two zinc fingers contain eight conserved
residues, mostly cysteines and histidines, which
coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 59
Score = 28.7 bits (64), Expect = 1.3
Identities = 15/60 (25%), Positives = 27/60 (45%), Gaps = 4/60 (6%)
Query: 67 YGEACQNCGQMM--SGPVMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYCGLCY 124
+ C+ C +++ + D +H CF C+ C + D + +R +YCG CY
Sbjct: 1 FANQCEECSKIIGIDSKDLSYKDKHWHEACFLCSKCKISLVDKPFGSKADR--IYCGNCY 58
Score = 27.5 bits (61), Expect = 3.5
Identities = 12/36 (33%), Positives = 18/36 (50%), Gaps = 1/36 (2%)
Query: 30 QEWHTDCFRCSACDVML-DNWYFEKDGLLFCKEDYN 64
+ WH CF CS C + L D + K ++C Y+
Sbjct: 24 KHWHEACFLCSKCKISLVDKPFGSKADRIYCGNCYD 59
>gnl|CDD|173635 cd05054, PTKc_VEGFR, Catalytic domain of the Protein Tyrosine
Kinases, Vascular Endothelial Growth Factor Receptors.
Protein Tyrosine Kinase (PTK) family; Vascular
Endothelial Growth Factor Receptor (VEGFR) subfamily;
catalytic (c) domain. The VEGFR subfamily consists of
VEGFR1 (Flt1), VEGFR2 (Flk1), VEGFR3 (Flt4), 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.
VEGFR subfamily members are receptor tyr kinases (RTKs)
containing an extracellular ligand-binding region with
seven immunoglobulin (Ig)-like domains, a transmembrane
segment, and an intracellular catalytic domain. In
VEGFR3, the fifth Ig-like domain is replaced by a
disulfide bridge. The binding of VEGFRs to their
ligands, the VEGFs, leads to receptor dimerization,
activation, and intracellular signaling. There are five
VEGF ligands in mammals, which bind, in an overlapping
pattern to the three VEGFRs, which can form homo or
heterodimers. VEGFRs regulate the cardiovascular system.
They are critical for vascular development during
embryogenesis and blood vessel formation in adults. They
induce cellular functions common to other growth factor
receptors such as cell migration, survival, and
proliferation. VEGFR1 binds VEGFA, VEGFB, and placenta
growth factor (PLGF). It regulates monocyte and
macrophage migration, vascular permeability,
haematopoiesis, and the recruitment of haematopietic
progenitor cells from the bone marrow.
Length = 337
Score = 31.7 bits (72), Expect = 1.3
Identities = 15/40 (37%), Positives = 24/40 (60%)
Query: 599 PLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
PL ++++ +A GM +L S IHRDL ++N L+ E
Sbjct: 169 PLTLEDLISYSFQVARGMEFLASRKCIHRDLAARNILLSE 208
>gnl|CDD|188728 cd09342, LIM3_Testin_like, The third LIM domain of Testin-like
family. The third LIM domain of Testin_like family:
This family includes testin, prickle, dyxin and
LIMPETin. Structurally, testin and prickle proteins
contain three LIM domains at C-terminal; LIMPETin has
six LIM domains; and dyxin presents only two LIM
domains. However, all members of the family contain a
PET protein-protein interaction domain. Testin is a
cytoskeleton associated focal adhesion protein that
localizes along actin stress fibers, at
cell-cell-contact areas, and at focal adhesion plaques.
Testin interacts with a variety of cytoskeletal
proteins, including zyxin, mena, VASP, talin, and actin
and it is involved in cell motility and adhesion
events. Prickles have been implicated in roles of
regulating tissue polarity or planar cell polarity
(PCP). Dyxin involves in lung and heart development by
interaction with GATA6 and blocking GATA6 activated
target genes. LIMPETin might be the recombinant product
of genes coding testin and four and half LIM proteins
and its function is not well understood. As in other
LIM domains, this domain family is 50-60 amino acids in
size and shares two characteristic zinc finger motifs.
The two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately
bond to two zinc atoms. LIM domains function as
adaptors or scaffolds to support the assembly of
multimeric protein complexes.
Length = 57
Score = 28.5 bits (64), Expect = 1.3
Identities = 19/52 (36%), Positives = 22/52 (42%), Gaps = 4/52 (7%)
Query: 12 CAGCLNNIVEDEYVQAL-SQEWH--TDCFRCSACDVMLDNWYF-EKDGLLFC 59
C C I D A Q WH +CF CS C L F K+G +FC
Sbjct: 1 CDACGEPIGPDVQRVAHNGQHWHATEECFCCSNCKKSLLGQPFLPKNGQIFC 52
>gnl|CDD|238491 cd00991, PDZ_archaeal_metalloprotease, PDZ domain of archaeal zinc
metalloprotases, presumably membrane-associated or
integral membrane proteases, which may be involved in
signalling and regulatory mechanisms. May be responsible
for substrate recognition and/or binding, as most PDZ
domains bind C-terminal polypeptides, and binding to
internal (non-C-terminal) polypeptides and even to
lipids has been demonstrated. In this subfamily of
protease-associated PDZ domains a C-terminal beta-strand
forms the peptide-binding groove base, a circular
permutation with respect to PDZ domains found in
Eumetazoan signaling proteins.
Length = 79
Score = 28.9 bits (65), Expect = 1.6
Identities = 14/48 (29%), Positives = 21/48 (43%), Gaps = 12/48 (25%)
Query: 288 ADLMSLHLGDRILEVNGTPVRD-----------KPLQEVECLI-RNTT 323
A+ LH GD I +NGTP+ KP + + + +TT
Sbjct: 23 AENAVLHTGDVIYSINGTPITTLEDFMEALKPTKPGEVITVTVLPSTT 70
>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 = 31.2 bits (71), Expect = 1.7
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 615 GMTYLHSMNLIHRDLNSQNCLVR 637
G+ +LHS +IHRDL N +V+
Sbjct: 130 GIKHLHSAGIIHRDLKPSNIVVK 152
>gnl|CDD|176685 cd07264, Glo_EDI_BRP_like_15, This conserved domain belongs to a
superfamily including the bleomycin resistance protein,
glyoxalase I, and type I ring-cleaving dioxygenases.
This protein family belongs to a conserved domain
superfamily that is found in a variety of structurally
related metalloproteins, including the bleomycin
resistance protein, glyoxalase I, and type I
ring-cleaving dioxygenases. A bound metal ion is
required for protein activities for the members of this
superfamily. A variety of metal ions have been found in
the catalytic centers of these proteins including
Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein
superfamily contains members with or without domain
swapping.
Length = 125
Score = 29.9 bits (68), Expect = 1.7
Identities = 10/22 (45%), Positives = 14/22 (63%), Gaps = 1/22 (4%)
Query: 591 ELLQDPGQPLPWGQRVNFARDI 612
L+ +P + PWGQ V + RDI
Sbjct: 95 VLVSEPKEK-PWGQTVAYVRDI 115
>gnl|CDD|188826 cd09442, LIM_Eplin_like, The Lim domain of Epithelial Protein
Lost in Neoplasm (Eplin) like proteins. The Lim domain
of Epithelial Protein Lost in Neoplasm (Eplin) like
proteins: This family contains Epithelial Protein Lost
in Neoplasm in Neoplasm (Eplin), xin actin-binding
repeat-containing protein 2 (XIRP2) and a group of
protein with unknown function. The members of this
family all contain a single LIM domain. Epithelial
Protein Lost in Neoplasm is a cytoskeleton-associated
tumor suppressor whose expression inversely correlates
with cell growth, motility, invasion and cancer
mortality. Eplin interacts and stabilizes F-actin
filaments and stress fibers, which correlates with its
ability to suppress anchorage independent growth. In
epithelial cells, Eplin is required for formation of
the F-actin adhesion belt by binding to the
E-cadherin-catenin complex through alpha-catenin. Eplin
is expressed in two isoforms, a longer Eplin-beta and a
shorter Eplin-alpha. Eplin-alpha mRNA is detected in
various tissues and cell lines, but is absent or down
regulated in cancer cells. Xirp2 contains a LIM domain
and Xin re peats for binding to and stabilising
F-actin. Xirp2 is expressed in muscles and is
significantly induced in the heart in response to
systemic administration of angiotensin II. Xirp2 is an
important effector of the Ang II signaling pathway in
the heart. The expression of Xirp2 is activated by
myocyte enhancer factor (MEF)2A, whose transcriptional
activity is stimulated by angiotersin II. Thus, Xirp2
plays important pathological roles in the angiotensin
II induced hypertension. As in other LIM domains, this
domain family is 50-60 amino acids in size and shares
two characteristic zinc finger motifs. The two zinc
fingers contain eight conserved residues, mostly
cysteines and histidines, which coordinately bond to
two zinc atoms. LIM domains function as adaptors or
scaffolds to support the assembly of multimeric
protein.
Length = 53
Score = 28.2 bits (63), Expect = 1.8
Identities = 16/53 (30%), Positives = 23/53 (43%), Gaps = 1/53 (1%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLD-NWYFEKDGLLFCKEDY 63
C C + E + A Q +H CFRC C+ L Y G ++CK +
Sbjct: 1 CTVCQKRVYPMERLIADKQNFHKSCFRCEHCNSKLSLGNYASLHGRIYCKPHF 53
>gnl|CDD|133234 cd05103, PTKc_VEGFR2, Catalytic domain of the Protein Tyrosine
Kinase, Vascular Endothelial Growth Factor Receptor 2.
Protein Tyrosine Kinase (PTK) family; Vascular
Endothelial Growth Factor Receptor 2 (VEGFR2); catalytic
(c) domain. 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.
VEGFR2 (or Flk1) is a member of the VEGFR subfamily of
proteins, which are receptor tyr kinases (RTKs)
containing an extracellular ligand-binding region with
seven immunoglobulin (Ig)-like domains, a transmembrane
segment, and an intracellular catalytic domain. The
binding of VEGFRs to their ligands, the VEGFs, leads to
receptor dimerization, activation, and intracellular
signaling. The carboxyl terminus of VEGFR2 plays an
important role in its autophosphorylation and
activation. VEGFR2 binds the ligands VEGFA, VEGFC, VEGFD
and VEGFE. VEGFR2 signaling is implicated in all aspects
of normal and pathological vascular endothelial cell
biology. It induces a variety of cellular effects
including migration, survival, and proliferation. It is
critical in regulating embryonic vascular development
and angiogenesis. VEGFR2 is the major signal transducer
in pathological angiogenesis including cancer and
diabetic retinopathy, and is a target for inhibition in
cancer therapy.
Length = 343
Score = 31.1 bits (70), Expect = 2.0
Identities = 14/41 (34%), Positives = 23/41 (56%)
Query: 598 QPLPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLVRE 638
+ L + ++ +A GM +L S IHRDL ++N L+ E
Sbjct: 174 KVLTLEDLICYSFQVAKGMEFLASRKCIHRDLAARNILLSE 214
>gnl|CDD|188823 cd09439, LIM_Mical, The LIM domain of Mical (molecule interacting
with CasL). The LIM domain of Mical (molecule
interacting with CasL): MICAL is a large, multidomain,
cytosolic protein with a single LIM domain, a calponin
homology (CH) domain and a flavoprotein monooxygenase
domain. In Drosophila, MICAL is expressed in axons,
interacts with the neuronal A (PlexA) receptor and is
required for Semapho-rin 1a (Sema-1a)-PlexA-mediated
repulsive axon guidance. The LIM domain and calporin
homology domain are known for interactions with the
cytoskeleton, cytoskeletal adaptor proteins, and other
signaling proteins. The flavoprotein monooxygenase (MO)
is required for semaphorin-plexin repulsive axon
guidance during axonal pathfinding in the Drosophila
neuromuscular system. In addition, MICAL was
characterized to interact with Rab13 and Rab8 to
coordinate the assembly of tight junctions and adherens
junctions in epithelial cells. Thus, MICAL was also
named junctional Rab13-binding protein (JRAB). As in
other LIM domains, this domain family is 50-60 amino
acids in size and shares two characteristic zinc finger
motifs. The two zinc fingers contain eight conserved
residues, mostly cysteines and histidines, which
coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein.
Length = 55
Score = 28.0 bits (63), Expect = 2.0
Identities = 7/15 (46%), Positives = 8/15 (53%)
Query: 88 HKFHPECFKCTSCSC 102
FH CFKC+ C
Sbjct: 19 LFFHRSCFKCSYCGT 33
Score = 27.3 bits (61), Expect = 3.5
Identities = 15/45 (33%), Positives = 24/45 (53%), Gaps = 6/45 (13%)
Query: 25 VQALSQE---WHTDCFRCSACDVML--DNWYFEKD-GLLFCKEDY 63
++ LS E +H CF+CS C L + F++D G +CK +
Sbjct: 11 MERLSAEGLFFHRSCFKCSYCGTTLRLGAYAFDRDDGKFYCKPHF 55
>gnl|CDD|188821 cd09437, LIM3_LPP, The third LIM domain of lipoma preferred
partner (LPP). The third LIM domain of lipoma
preferred partner (LPP): LPP is a member of the zyxin
LIM protein family and contains three LIM zinc-binding
domains at the C-terminal and proline-rich region at
the N-terminal. LPP initially identified as the most
frequent translocation partner of HMGA2 (High Mobility
Group A2) in a subgroup of benign tumors of adipose
tissue (lipomas). It was also shown to be rearranged in
a number of other soft tissues, as well as in a case of
acute monoblastic leukemia. In addition to its
involvement in tumors, LPP was inedited as a smooth
muscle restricted LIM protein that plays an important
role in SMC migration. LPP is localized at sites of
cell adhesion, cell-cell contacts and transiently in
the nucleus. In nucleus, it acts as a coactivator for
the ETS domain transcription factor PEA3. In addition
to PEA3, it interacts with alpha-actinin,vasodilator
stimulated phosphoprotein (VASP), Palladin, and Scrib.
The LIM domains are the main focal adhesion targeting
elements and that the proline- rich region, which
harbors binding sites for alpha-actinin and
vasodilator- stimulated phosphoprotein (VASP), has a
weak targeting capacity. As in other LIM domains, this
domain family is 50-60 amino acids in size and shares
two characteristic zinc finger motifs. The two zinc
fingers contain eight conserved residues, mostly
cysteines and histidines, which coordinately bond to
two zinc atoms. LIM domains function as adaptors or
scaffolds to support the assembly of multimeric
protein.
Length = 68
Score = 28.6 bits (64), Expect = 2.0
Identities = 13/41 (31%), Positives = 22/41 (53%), Gaps = 6/41 (14%)
Query: 12 CAGCLNNIV----EDEYVQ--ALSQEWHTDCFRCSACDVML 46
C C I+ +DE V+ AL + +H C++C C ++L
Sbjct: 1 CCVCKLPIMPEPGQDETVRVVALDRSFHVQCYKCEDCGLLL 41
>gnl|CDD|185125 PRK15203, PRK15203, 4-hydroxyphenylacetate degradation bifunctional
isomerase/decarboxylase; Provisional.
Length = 429
Score = 31.2 bits (70), Expect = 2.0
Identities = 12/34 (35%), Positives = 19/34 (55%), Gaps = 8/34 (23%)
Query: 427 IKGPVAARVLSSRNRRDAW--------YNSPPKS 452
+KG + A L+ R++ DAW Y +PPK+
Sbjct: 1 MKGTIFAVALNHRSQLDAWQEAFQQSPYKAPPKT 34
>gnl|CDD|188827 cd09443, LIM_Ltd-1, The LIM domain of LIM and transglutaminase
domains protein (Ltd-1). The LIM domain of LIM and
transglutaminase domains protein (Ltd-1): This family
includes mouse Ky protein and Caenorhabditis elegans
Ltd-1 protein. The members of this family consists a
N-terminal Lim domain and a C-terminal transglutaminase
domain. The mouse Ky protein has putative function in
muscle development. The mouse with ky mutant exhibits
combined posterior and lateral curvature of the spine.
The Ltd-1 gene in C. elegans is expressed in developing
hypodermal cells from the twofold stage embryo through
adulthood. These data define the ltd-1 gene as a novel
marker for C. elegans epithelial cell development. As in
other LIM domains, this domain family is 50-60 amino
acids in size and shares two characteristic zinc finger
motifs. The two zinc fingers contain eight conserved
residues, mostly cysteines and histidines, which
coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein.
Length = 55
Score = 28.2 bits (63), Expect = 2.1
Identities = 6/20 (30%), Positives = 8/20 (40%)
Query: 83 MVVGDHKFHPECFKCTSCSC 102
+ +H CFKC C
Sbjct: 14 VDKDGTFYHKGCFKCRECGT 33
>gnl|CDD|188795 cd09411, LIM4_Paxillin, The fourth LIM domain of Paxillin. The
fourth LIM domain of Paxillin: Paxillin is an adaptor
protein, which recruits key components of the
signal-transduction machinery to specific sub-cellular
locations to respond to environmental changes rapidly.
The C-terminal region of paxillin contains four LIM
domains which target paxillin to focal adhesions,
presumably through a direct association with the
cytoplasmic tail of beta-integrin. The N-terminal of
paxillin is leucine-rich LD-motifs. Paxillin is found at
the interface between the plasma membrane and the actin
cytoskeleton. The binding partners of paxillin are
diverse and include protein tyrosine kinases, such as
Src and FAK, structural proteins, such as vinculin and
actopaxin, and regulators of actin organization.
Paxillin recruits these proteins to their function sites
to control the dynamic changes in cell adhesion,
cytoskeletal reorganization and gene expression. LIM
domains are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to support
the assembly of multimeric protein complexes.
Length = 52
Score = 28.0 bits (62), Expect = 2.4
Identities = 11/30 (36%), Positives = 15/30 (50%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSC 100
C C + ++G + KFHPE F C C
Sbjct: 1 CSGCQKPITGRCITAMGKKFHPEHFVCAFC 30
>gnl|CDD|188719 cd09333, LIM3_PINCH, The third LIM domain of protein PINCH. The
third LIM domain of protein PINCH: PINCH plays pivotal
roles in the assembly of focal adhesions (FAs),
regulating diverse functions in cell adhesion, growth,
and differentiation through LIM-mediated
protein-protein interactions. PINCH comprises an array
of five LIM domains that interact with integrin-linked
kinase (ILK), Nck2 (also called Nckbeta or Grb4) and
other interaction partners. These interactions are
essential for triggering the FA assembly and for
relaying diverse mechanical and biochemical signals
between Cell-extracellular matrix and the actin
cytoskeleton. LIM domains are 50-60 amino acids in
size and share two characteristic zinc finger motifs.
The two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately
bond to two zinc atoms. LIM domains function as
adaptors or scaffolds to support the assembly of
multimeric protein complexes.
Length = 51
Score = 27.7 bits (62), Expect = 2.5
Identities = 13/48 (27%), Positives = 23/48 (47%), Gaps = 1/48 (2%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWYFEKDGLLFC 59
C C + I+E+++++ +H F C+ C L E G L+C
Sbjct: 1 CQKC-HAIIEEQHLKFKGDPYHPYHFNCANCGKELTADARELKGELYC 47
Score = 26.2 bits (58), Expect = 8.3
Identities = 13/54 (24%), Positives = 22/54 (40%), Gaps = 3/54 (5%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSCSCCIGDGESYALVERSILYCGLCY 124
CQ C ++ + +HP F C +C + + A + LYC C+
Sbjct: 1 CQKCHAIIEEQHLKFKGDPYHPYHFNCANCGKELT---ADARELKGELYCLRCH 51
>gnl|CDD|178763 PLN03224, PLN03224, probable serine/threonine protein kinase;
Provisional.
Length = 507
Score = 30.8 bits (69), Expect = 2.5
Identities = 10/27 (37%), Positives = 17/27 (62%)
Query: 610 RDIAAGMTYLHSMNLIHRDLNSQNCLV 636
R + G+ LH + ++HRD+ +N LV
Sbjct: 316 RQVLTGLRKLHRIGIVHRDIKPENLLV 342
>gnl|CDD|188786 cd09402, LIM1_CRP, The first LIM domain of Cysteine Rich Protein
(CRP). The first LIM domain of Cysteine Rich Protein
(CRP): Cysteine-rich proteins (CRPs) are characterized
by the presence of two LIM domains linked to a short
glycine-rich repeats (GRRs). The CRP family members
include CRP1, CRP2, CRP3/MLP. CRP1, CRP2 and CRP3 share
a conserved nuclear targeting signal (K/R-K/R-Y-G-P-K),
which supports the fact that these proteins function
not only in the cytoplasm but also in the nucleus. CRPs
control regulatory pathways during cellular
differentiation, and involve in complex transcription
control, and the organization as well as the
arrangement of the myofibrillar/cytoskeletal network.
It is evident that CRP1, CRP2, and CRP3/MLP are
involved in promoting protein assembly along the
actin-based cytoskeleton. Although members of the CRP
family share common binding partners, they are also
capable of recognizing different and specific targets.
LIM domains are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein complexes.
Length = 53
Score = 27.6 bits (61), Expect = 2.5
Identities = 15/53 (28%), Positives = 22/53 (41%), Gaps = 1/53 (1%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWYFE-KDGLLFCKEDY 63
C C + E VQ + +H CF C C LD+ + ++CK Y
Sbjct: 1 CGACEKTVYHAEEVQCEGRSFHKSCFLCMVCRKNLDSTTVAAHEDEIYCKSCY 53
>gnl|CDD|173715 cd05626, STKc_LATS2, Catalytic domain of the Protein
Serine/Threonine Kinase, Large Tumor Suppressor 2.
Serine/Threonine Kinases (STKs), Large Tumor Suppressor
(LATS) subfamily, LATS2 isoform, catalytic (c) domain.
STKs catalyze the transfer of the gamma-phosphoryl group
from ATP to serine/threonine residues on protein
substrates. The LATS 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. LATS functions as a tumor
suppressor and is implicated in cell cycle regulation.
LATS2 is an essential mitotic regulator responsible for
coordinating accurate cytokinesis completion and
governing the stabilization of other mitotic regulators.
It is also critical in the maintenance of proper
chromosome number, genomic stability, mitotic fidelity,
and the integrity of centrosome duplication.
Downregulation of LATS2 is associated with poor
prognosis in acute lymphoblastic leukemia and breast
cancer.
Length = 381
Score = 30.8 bits (69), Expect = 2.6
Identities = 33/157 (21%), Positives = 57/157 (36%), Gaps = 23/157 (14%)
Query: 480 SDLVRGPLLGQGFFGQVYRVTHRETGEVMVLKELYRVDEEAEKNFLKESKQGLIYLIDLG 539
S V+ LG G FG+V +T + +K L + K+ L ++
Sbjct: 1 SMFVKIKTLGIGAFGEVCLACKVDTHALYAMKTLRK------KDVLNRNQVA-------- 46
Query: 540 SHGLINNLHCFSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGTLKELLQDPGQP 599
H ++ +L + V++ L V +YI GG + LL
Sbjct: 47 --------HVKAERDILAEADNEWVVKLYYSFQDKDNLYFVMDYIPGGDMMSLLIRMEV- 97
Query: 600 LPWGQRVNFARDIAAGMTYLHSMNLIHRDLNSQNCLV 636
P + ++ + +H M IHRD+ N L+
Sbjct: 98 FPEVLARFYIAELTLAIESVHKMGFIHRDIKPDNILI 134
>gnl|CDD|173718 cd05629, STKc_NDR_like_fungal, Catalytic domain of Fungal Nuclear
Dbf2-Related kinase-like Protein Serine/Threonine
Kinases. Serine/Threonine Kinases (STKs), NDR kinase
subfamily, fungal NDR-like proteins, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The NDR 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 group is
composed of fungal NDR-like proteins including
Saccharomyces cerevisiae CBK1 (or CBK1p),
Schizosaccharomyces pombe Orb6 (or Orb6p), Ustilago
maydis Ukc1 (or Ukc1p), and Neurospora crassa Cot1. Like
NDR kinase, group members contain an N-terminal
regulatory (NTR) domain and an insert within the
catalytic domain that contains an auto-inhibitory
sequence. CBK1 is an essential component in the RAM
(regulation of Ace2p activity and cellular
morphogenesis) network. CBK1 and Orb6 play similar roles
in coordinating cell morphology with cell cycle
progression. Ukc1 is involved in morphogenesis,
pathogenicity, and pigment formation. Cot1 plays a role
in polar tip extension.
Length = 377
Score = 30.6 bits (69), Expect = 2.7
Identities = 16/51 (31%), Positives = 32/51 (62%), Gaps = 9/51 (17%)
Query: 487 LLGQGFFGQVYRVTHRETGEVMVLK-----ELYRVDE----EAEKNFLKES 528
++G+G FG+V V ++TG++ +K E+++ D+ +AE++ L ES
Sbjct: 8 VIGKGAFGEVRLVQKKDTGKIYAMKTLLKSEMFKKDQLAHVKAERDVLAES 58
>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 = 30.8 bits (69), Expect = 2.7
Identities = 21/90 (23%), Positives = 44/90 (48%), Gaps = 2/90 (2%)
Query: 550 FSQVAVLRSLHHHNVIRFIGVLYKDRKLNLVTE-YIAGGTLKELLQDPGQPLPWGQRVNF 608
+ ++ +++ ++H N+I + V + L + YI + L Q +R+++
Sbjct: 71 YRELVLMKCVNHKNIIGLLNVFTPQKSLEEFQDVYIVMELMDANLCQVIQMELDHERMSY 130
Query: 609 A-RDIAAGMTYLHSMNLIHRDLNSQNCLVR 637
+ G+ +LHS +IHRDL N +V+
Sbjct: 131 LLYQMLCGIKHLHSAGIIHRDLKPSNIVVK 160
>gnl|CDD|188807 cd09423, LIM1_FHL3, The first LIM domain of Four and a half LIM
domains protein 3 (FHL3). The first LIM domain of Four
and a half LIM domains protein 3 (FHL3): FHL3 is highly
expressed in the skeleton and cardiac muscles and
possesses the transactivation and repression activities.
FHL3 interacts with many transcription factors, such as
CREB, BKLF/KLF3, CtBP2, MyoD, and MZF_1. Moreover, FHL3
interacts with alpha- and beta-subunits of the muscle
alpha7beta1 integrin receptor. FHL3 was also proved to
possess the auto-activation ability and was confirmed
that the second zinc finger motif in fourth LIM domain
was responsible for the auto-activation of FHL3. LIM
domains are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to support
the assembly of multimeric protein complexes.
Length = 59
Score = 27.6 bits (61), Expect = 3.1
Identities = 12/38 (31%), Positives = 18/38 (47%), Gaps = 2/38 (5%)
Query: 87 DHKFHPECFKCTSCSCCIGDGESYALVERSILYCGLCY 124
D +H CF+C C + D E + + +L C CY
Sbjct: 23 DRHYHEHCFRCFRCDRSLAD-EPFTCQDEELL-CNDCY 58
>gnl|CDD|188864 cd09480, LIM1_CRP2, The first LIM domain of Cysteine Rich Protein
2 (CRP2). The first LIM domain of Cysteine Rich
Protein 2 (CRP2): The CRP family members include CRP1,
CRP2, CRP3/MLP and TLP. CRP1, CRP2 and CRP3 share a
conserved nuclear targeting signal (K/R-K/R-Y-G-P-K),
which supports the fact that these proteins function
not only in the cytoplasm but also in the nucleus. CRPs
control regulatory pathways during cellular
differentiation, and involve in complex transcription
circuits, and the organization as well as the
arrangement of the myofibrillar/cytoskeletal network.
CRP2 specifically binds to protein inhibitor of
activated STAT-1 (PIAS1) and a novel human protein
designed CRP2BP (for CRP2 binding partner). PIAS1
specifically inhibits the STAT-1 pathway and CRP2BP is
homologous to members of the histone acetyltransferase
family raising the possibility that CRP2 is a modulator
of cytokine-controlled pathways or is functionally
active in the transcriptional regulatory network. LIM
domains are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to
support the assembly of multimeric protein complexes.
Length = 55
Score = 27.6 bits (61), Expect = 3.2
Identities = 16/53 (30%), Positives = 22/53 (41%), Gaps = 1/53 (1%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWYFE-KDGLLFCKEDY 63
C C + E VQ + +H CF C C LD+ D ++CK Y
Sbjct: 2 CGACGRTVYHAEEVQCDGRSFHKCCFLCMVCRKNLDSTTVAIHDQEIYCKSCY 54
>gnl|CDD|188732 cd09346, LIM3_FHL, The third LIM domain of Four and a half LIM
domains protein (FHL). The third LIM domain of Four and
a half LIM domains protein (FHL): LIM-only protein
family consists of five members, designated FHL1, FHL2,
FHL3, FHL5 and LIMPETin. The first four members are
composed of four complete LIM domains arranged in tandem
and an N-terminal single zinc finger domain with a
consensus sequence equivalent to the C-terminal half of
a LIM domain. LIMPETin is an exception, containing six
LIM domains. FHL1, 2 and 3 are predominantly expressed
in muscle tissues, and FHL5 is highly expressed in male
germ cells. FHL proteins exert their roles as
transcription co-activators or co-repressors through a
wide array of interaction partners. For example, FHL1
binds to Myosin-binding protein C, regulating myosin
filament formation and sarcomere assembly. FHL2 has
shown to interact with more than 50 different proteins,
including receptors, structural proteins, transcription
factors and cofactors, signal transducers, splicing
factors, DNA replication and repair enzymes, and
metabolic enzymes. FHL3 int eracts with many
transcription factors, such as CREB, BKLF/KLF3, CtBP2,
MyoD, and MZF_1. FHL5 is a tissue-specific coactivator
of CREB/CREM family transcription factors. LIM domains
are 50-60 amino acids in size and share two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to support
the assembly of multimeric protein complexes.
Length = 52
Score = 27.3 bits (61), Expect = 3.9
Identities = 10/31 (32%), Positives = 15/31 (48%)
Query: 71 CQNCGQMMSGPVMVVGDHKFHPECFKCTSCS 101
C C + ++ + D +H ECF CT C
Sbjct: 1 CAKCKKAITSGGVTYRDQPWHKECFVCTGCK 31
Score = 26.5 bits (59), Expect = 7.4
Identities = 8/17 (47%), Positives = 10/17 (58%)
Query: 30 QEWHTDCFRCSACDVML 46
Q WH +CF C+ C L
Sbjct: 18 QPWHKECFVCTGCKKQL 34
>gnl|CDD|188819 cd09435, LIM3_Zyxin, The third LIM domain of Zyxin. The third
LIM domain of Zyxin: Zyxin exhibits three copies of the
LIM domain, an extensive proline-rich domain and a
nuclear export signal. Localized at sites of
cellsubstratum adhesion in fibroblasts, Zyxin interacts
with alpha-actinin, members of the cysteine-rich
protein (CRP) family, proteins that display Src
homology 3 (SH3) domains and Ena/VASP family members.
Zyxin and its partners have been implicated in the
spatial control of actin filament assembly as well as
in pathways important for cell differentiation. In
addition to its functions at focal adhesion plaques,
recent work has shown that zyxin moves from the sites
of cell contacts to the nucleus, where it directly
participates in the regulation of gene expression. As
in other LIM domains, this domain family is 50-60 amino
acids in size and shares two characteristic zinc finger
motifs. The two zinc fingers contain eight conserved
residues, mostly cysteines and histidines, which
coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein.
Length = 67
Score = 27.5 bits (61), Expect = 4.4
Identities = 19/61 (31%), Positives = 27/61 (44%), Gaps = 11/61 (18%)
Query: 12 CAGCLNNIV----EDEYVQ--ALSQEWHTDCFRCSACDVML-----DNWYFEKDGLLFCK 60
C C I+ DE V+ AL + +H C++C C L DN F DG + C
Sbjct: 1 CCVCSEPIMPEPGRDETVRVVALEKNFHMKCYKCEDCGRPLSIEADDNGCFPLDGHVLCM 60
Query: 61 E 61
+
Sbjct: 61 K 61
>gnl|CDD|188863 cd09479, LIM1_CRP1, The first LIM domain of Cysteine Rich Protein
1 (CRP1). The first LIM domain of Cysteine Rich
Protein 1 (CRP1): Cysteine-rich proteins (CRPs) are
characterized by the presence of two LIM domains linked
to a short glycine-rich repeats (GRRs). The CRP family
members include CRP1, CRP2, CRP3/MLP and TLP. CRP1,
CRP2 and CRP3 share a conserved nuclear targeting
signal (K/R-K/R-Y-G-P-K), which supports the fact that
these proteins function not only in the cytoplasm but
also in the nucleus. CRPs control regulatory pathways
during cellular differentiation, and involve in complex
transcription circuits, and the organization as well as
the arrangement of the myofibrillar/cytoskeletal
network. CRP1 can associate with the actin cytoskeleton
and are capable of interacting with alpha-actinin and
zyxin. CRP1 was shown to regulate actin filament
bundling by interaction with alpha-actinin and direct
binding to actin filaments. LIM domains are 50-60 amino
acids in size and share two characteristic zinc finger
motifs. The two zinc fingers contain eight conserved
residues, mostly cysteines and histidines, which
coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 56
Score = 26.9 bits (59), Expect = 5.5
Identities = 16/53 (30%), Positives = 22/53 (41%), Gaps = 1/53 (1%)
Query: 12 CAGCLNNIVEDEYVQALSQEWHTDCFRCSACDVMLDNWYFEKDG-LLFCKEDY 63
C C + E VQ + +H CF C C LD+ G ++CK Y
Sbjct: 3 CGVCQKTVYFAEEVQCEGRSFHKSCFLCMVCKKNLDSTTVAVHGEEIYCKSCY 55
>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 = 29.7 bits (67), Expect = 5.6
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 615 GMTYLHSMNLIHRDLNSQNCL 635
+ Y+H+ N+ HRDL +N L
Sbjct: 115 ALKYIHTANVFHRDLKPKNIL 135
>gnl|CDD|188833 cd09449, LIM_Mystique, The LIM domain of Mystique, a subfamily of
ALP LIM domain proteins. The LIM domain of Mystique, a
subfamily of ALP LIM domain proteins: Mystique is the
most recently identified member of the ALP protein
family. It also interacts with alpha-actinin, as other
ALP proteins do. Mystique promotes cell attachment and
migration and suppresses anchorage-independent growth.
The LIM domain of Mystique is required for the
suppression function. Moreover, Mystique functions as an
ubiquitin E3 ligase acting on STAT proteins to cause
their proteosome mediated degradation. As in all LIM
domains, this domain is 50-60 amino acids in size and
shares two characteristic zinc finger motifs. The two
zinc fingers contain eight conserved residues, mostly
cysteines and histidines, which coordinately bond to two
zinc atoms. LIM domains function as adaptors or
scaffolds to support the assembly of multimeric protein
complexes.
Length = 53
Score = 26.8 bits (59), Expect = 5.8
Identities = 9/31 (29%), Positives = 17/31 (54%), Gaps = 1/31 (3%)
Query: 71 CQNCGQMMSGPVMVVGDHKF-HPECFKCTSC 100
C+ CG + + + + ++ HP C+ CT C
Sbjct: 1 CEKCGTSIVTQAVRIQEGRYRHPGCYTCTDC 31
>gnl|CDD|236187 PRK08207, PRK08207, coproporphyrinogen III oxidase; Provisional.
Length = 488
Score = 29.1 bits (66), Expect = 8.4
Identities = 13/33 (39%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 556 LRSLHHHNVIRFIGVLYKDRKLNLVTEYIAGGT 588
L +LH+ I IG K++ L + T Y GGT
Sbjct: 198 LEALHYE--IEEIGKYLKEKGLKITTIYFGGGT 228
>gnl|CDD|224611 COG1697, COG1697, DNA topoisomerase VI, subunit A [DNA replication,
recombination, and repair].
Length = 356
Score = 28.9 bits (65), Expect = 9.3
Identities = 17/59 (28%), Positives = 24/59 (40%), Gaps = 16/59 (27%)
Query: 565 IRFIGVLYKDRKLNLVTEYIAGGT----------LKELLQDPG-QPLPWGQRVNFARDI 612
+F+GV +D + EY T LKELL+DP Q W + + I
Sbjct: 273 AKFLGVTMQD-----IVEYNLPQTDKLKDRDIKRLKELLRDPRFQKEFWKEELKLLLKI 326
>gnl|CDD|182723 PRK10779, PRK10779, zinc metallopeptidase RseP; Provisional.
Length = 449
Score = 28.9 bits (65), Expect = 9.7
Identities = 16/52 (30%), Positives = 22/52 (42%), Gaps = 19/52 (36%)
Query: 279 PSVPRLDPR---------ADLMSLHLGDRILEVNGTP----------VRDKP 311
P P+++P A L GDRI++V+G P VRD P
Sbjct: 216 PRGPQIEPVLAEVQPNSAASKAGLQAGDRIVKVDGQPLTQWQTFVTLVRDNP 267
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
0.324 0.139 0.435
Gapped
Lambda K H
0.267 0.0695 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 34,168,238
Number of extensions: 3320569
Number of successful extensions: 4565
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4165
Number of HSP's successfully gapped: 601
Length of query: 681
Length of database: 10,937,602
Length adjustment: 103
Effective length of query: 578
Effective length of database: 6,369,140
Effective search space: 3681362920
Effective search space used: 3681362920
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 62 (27.7 bits)