RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy767
(902 letters)
>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family. This repeat has no known
function. It is about 35 amino acids long and is found
in up to 18 copies in some proteins. The family appears
to be greatly expanded in plants and fungi. The repeat
has been called PPR.
Length = 50
Score = 44.3 bits (106), Expect = 4e-06
Identities = 13/45 (28%), Positives = 24/45 (53%)
Query: 162 FNALIYGHSQANDMASAEGILTMMSQAGLEPSAQTYTKLMCGYAK 206
+N LI G+ + + A + M + G++P+ TY+ L+ G K
Sbjct: 6 YNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50
Score = 36.6 bits (86), Expect = 0.002
Identities = 17/85 (20%), Positives = 27/85 (31%), Gaps = 35/85 (41%)
Query: 192 PSAQTYTKLMCGYAKHGDMDSIKTKIPSLKPQSELFLCFSFQLTNLLILVSSDMASAEGI 251
P TY L+ GY K G ++ A +
Sbjct: 1 PDVVTYNTLIDGYCKKGKVEE-----------------------------------ALKL 25
Query: 252 LTMMSQAGLEPSAQTYTKLMCGYAK 276
M + G++P+ TY+ L+ G K
Sbjct: 26 FNEMKKRGIKPNVYTYSILIDGLCK 50
Score = 33.9 bits (79), Expect = 0.019
Identities = 17/97 (17%), Positives = 28/97 (28%), Gaps = 47/97 (48%)
Query: 262 PSAQTYTKLMCGYAKHGDMDSVRRLLAQSGSSLVNGDYLDIIHALAVSGHGEYIDEVSAI 321
P TY L+ GY K G ++ +L +
Sbjct: 1 PDVVTYNTLIDGYCKKGKVEEALKLFNE-------------------------------- 28
Query: 322 VCFVNICFHWLEGPMMSQAGLEPSAQTYTKLMCGYAK 358
M + G++P+ TY+ L+ G K
Sbjct: 29 ---------------MKKRGIKPNVYTYSILIDGLCK 50
Score = 33.5 bits (78), Expect = 0.023
Identities = 13/45 (28%), Positives = 20/45 (44%)
Query: 82 DISHYNALLRVYLDNEHTFSPTDFLAKLESQGIEPNRVTYQQLIS 126
D+ YN L+ Y +++ +GI+PN TY LI
Sbjct: 2 DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILID 46
Score = 30.5 bits (70), Expect = 0.27
Identities = 9/28 (32%), Positives = 14/28 (50%)
Query: 344 PSAQTYTKLMCGYAKHGDMDSIRRLLAQ 371
P TY L+ GY K G ++ +L +
Sbjct: 1 PDVVTYNTLIDGYCKKGKVEEALKLFNE 28
>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional.
Length = 1060
Score = 50.3 bits (120), Expect = 5e-06
Identities = 58/229 (25%), Positives = 92/229 (40%), Gaps = 55/229 (24%)
Query: 104 DFLA--KLESQGIEPNRVTYQQLISNS-------------KLISKY-------------- 134
D LA K E+ I+P+ +T L+ ++I +Y
Sbjct: 563 DVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVN 622
Query: 135 -C-QDGNIEGATKILEFMRDKTFPISEGVFNALIYGHSQANDMASAEGILTMMSQAGLEP 192
C Q G+ + A I + M+ K E F+AL+ A D+ A IL + G++
Sbjct: 623 SCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKL 682
Query: 193 SAQTYTKLM--CGYAK--------HGDMDSIKTKIPSLKPQSELF--LCFSFQLTNLLIL 240
+Y+ LM C AK + D+ SIK + P++ + L LC QL
Sbjct: 683 GTVSYSSLMGACSNAKNWKKALELYEDIKSIKLR-PTVSTMNALITALCEGNQLPK---- 737
Query: 241 VSSDMASAEGILTMMSQAGLEPSAQTYTKLMCGYAKHGDMDSVRRLLAQ 289
A +L+ M + GL P+ TY+ L+ + D D LL+Q
Sbjct: 738 -------ALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQ 779
Score = 40.6 bits (95), Expect = 0.004
Identities = 46/181 (25%), Positives = 82/181 (45%), Gaps = 28/181 (15%)
Query: 109 LESQGIEPNRVTYQQLISNSKLISKYC-QDGNIEGATKILEFMRDKTFPISEG--VFNAL 165
+ S+ ++P+RV + LIS C Q G ++ A +L M+ +T PI AL
Sbjct: 533 MRSKNVKPDRVVFNALISA-------CGQSGAVDRAFDVLAEMKAETHPIDPDHITVGAL 585
Query: 166 IYGHSQANDMASAEGILTMMSQAGLEPSAQTYTKLMCGYAKHGDMD---SIKT--KIPSL 220
+ + A + A+ + M+ + ++ + + YT + ++ GD D SI K +
Sbjct: 586 MKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGV 645
Query: 221 KPQSELFLCFSFQLTNLLILV---SSDMASAEGILTMMSQAGLEPSAQTYTKLM--CGYA 275
KP E+F + L+ V + D+ A IL + G++ +Y+ LM C A
Sbjct: 646 KP-DEVFF-------SALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNA 697
Query: 276 K 276
K
Sbjct: 698 K 698
Score = 39.9 bits (93), Expect = 0.008
Identities = 28/108 (25%), Positives = 45/108 (41%), Gaps = 22/108 (20%)
Query: 260 LEPSAQTYTKLM--CGYAKHGDMDSVRRLLAQSGSSLVNGD---YLDIIHALAVSGHGEY 314
P+ T+ LM C ++ D+D R+L + + D Y +I A SG +
Sbjct: 433 RNPTLSTFNMLMSVCASSQ--DIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDA 490
Query: 315 IDEVSAIVCFVNICFHWLEGPMMSQAGLEPSAQTYTKLMCGYAKHGDM 362
+ EV FH M AG+E + T+ L+ G A+ G +
Sbjct: 491 MFEV----------FH-----EMVNAGVEANVHTFGALIDGCARAGQV 523
Score = 37.5 bits (87), Expect = 0.037
Identities = 26/119 (21%), Positives = 48/119 (40%), Gaps = 35/119 (29%)
Query: 162 FNALIYGHSQANDMASAEGILTMMSQAGLEPSAQTYTKLMCGYAKHGDMDSIKTKIPSLK 221
FN L+ + + D+ A +L ++ +AGL+ + YT L+ AK G +D++
Sbjct: 440 FNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAM-------- 491
Query: 222 PQSELFLCFSFQLTNLLILVSSDMASAEGILTMMSQAGLEPSAQTYTKLMCGYAKHGDM 280
F+ + M AG+E + T+ L+ G A+ G +
Sbjct: 492 ----------FE-----------------VFHEMVNAGVEANVHTFGALIDGCARAGQV 523
Score = 36.8 bits (85), Expect = 0.055
Identities = 22/112 (19%), Positives = 47/112 (41%), Gaps = 6/112 (5%)
Query: 105 FLAKLESQGIEPNRVTYQQLISNSK------LISKYCQDGNIEGATKILEFMRDKTFPIS 158
F + Q + +LI N L+S +I+GA ++L +++
Sbjct: 412 FFKACKKQRAVKEAFRFAKLIRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKAD 471
Query: 159 EGVFNALIYGHSQANDMASAEGILTMMSQAGLEPSAQTYTKLMCGYAKHGDM 210
++ LI +++ + + + M AG+E + T+ L+ G A+ G +
Sbjct: 472 CKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQV 523
Score = 33.7 bits (77), Expect = 0.53
Identities = 30/106 (28%), Positives = 43/106 (40%), Gaps = 8/106 (7%)
Query: 108 KLESQGIEPNRVTYQQLISNSKLISKYCQDGNIEGATKILEFMRDKTFPISEGVFNALIY 167
++ + G+E N T+ LI ++ Q GA I MR K VFNALI
Sbjct: 497 EMVNAGVEANVHTFGALIDGC---ARAGQVAKAFGAYGI---MRSKNVKPDRVVFNALIS 550
Query: 168 GHSQANDMASAEGILTMMSQAG--LEPSAQTYTKLMCGYAKHGDMD 211
Q+ + A +L M ++P T LM A G +D
Sbjct: 551 ACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVD 596
>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat. This family matches additional
variants of the PPR repeat that were not captured by the
model for pfam01535. The exact function is not known.
Length = 34
Score = 40.0 bits (95), Expect = 1e-04
Identities = 13/40 (32%), Positives = 24/40 (60%), Gaps = 6/40 (15%)
Query: 112 QGIEPNRVTYQQLISNSKLISKYCQDGNIEGATKILEFMR 151
+G++P+ VTY N+ LI C+ G ++ A ++L+ M
Sbjct: 1 KGLKPDVVTY-----NT-LIDGLCRAGRVDEAVELLDEME 34
Score = 30.8 bits (71), Expect = 0.16
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 259 GLEPSAQTYTKLMCGYAKHGDMDSVRRLL 287
GL+P TY L+ G + G +D LL
Sbjct: 2 GLKPDVVTYNTLIDGLCRAGRVDEAVELL 30
Score = 29.2 bits (67), Expect = 0.53
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 341 GLEPSAQTYTKLMCGYAKHGDMDSIRRLL 369
GL+P TY L+ G + G +D LL
Sbjct: 2 GLKPDVVTYNTLIDGLCRAGRVDEAVELL 30
Score = 28.1 bits (64), Expect = 1.5
Identities = 9/23 (39%), Positives = 13/23 (56%)
Query: 189 GLEPSAQTYTKLMCGYAKHGDMD 211
GL+P TY L+ G + G +D
Sbjct: 2 GLKPDVVTYNTLIDGLCRAGRVD 24
>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 = 43.5 bits (103), Expect = 3e-04
Identities = 13/21 (61%), Positives = 15/21 (71%)
Query: 852 CLDKDPLRRWSCDQLLRHPYF 872
CL DP R SC++LL HPYF
Sbjct: 266 CLQMDPTERLSCEELLEHPYF 286
>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 = 41.4 bits (98), Expect = 0.001
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 851 RCLDKDPLRRWSCDQLLRHPYFNGY 875
CL KDP +R S +LL+HP+
Sbjct: 238 ACLQKDPKKRPSAAELLQHPFIKKA 262
>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 = 41.0 bits (97), Expect = 0.002
Identities = 11/23 (47%), Positives = 17/23 (73%)
Query: 851 RCLDKDPLRRWSCDQLLRHPYFN 873
+CL KDP +R S ++LL+HP+
Sbjct: 252 KCLVKDPEKRPSAEELLQHPFLK 274
>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 = 40.6 bits (96), Expect = 0.002
Identities = 10/22 (45%), Positives = 17/22 (77%)
Query: 851 RCLDKDPLRRWSCDQLLRHPYF 872
+CL +DP +R + D+LL+HP+
Sbjct: 239 KCLRRDPKKRPTADELLQHPFL 260
>gnl|CDD|214567 smart00220, S_TKc, Serine/Threonine protein kinases, catalytic
domain. Phosphotransferases. Serine or
threonine-specific kinase subfamily.
Length = 254
Score = 40.2 bits (95), Expect = 0.002
Identities = 9/22 (40%), Positives = 16/22 (72%)
Query: 851 RCLDKDPLRRWSCDQLLRHPYF 872
+ L KDP +R + ++ L+HP+F
Sbjct: 233 KLLVKDPEKRLTAEEALQHPFF 254
>gnl|CDD|215690 pfam00069, Pkinase, Protein kinase domain.
Length = 260
Score = 39.2 bits (92), Expect = 0.006
Identities = 10/22 (45%), Positives = 19/22 (86%)
Query: 851 RCLDKDPLRRWSCDQLLRHPYF 872
+CL+KDP +R + +++L+HP+F
Sbjct: 239 KCLNKDPSKRPTAEEILQHPWF 260
>gnl|CDD|215036 PLN00034, PLN00034, mitogen-activated protein kinase kinase;
Provisional.
Length = 353
Score = 39.4 bits (92), Expect = 0.007
Identities = 11/21 (52%), Positives = 16/21 (76%)
Query: 851 RCLDKDPLRRWSCDQLLRHPY 871
CL ++P +RWS QLL+HP+
Sbjct: 310 CCLQREPAKRWSAMQLLQHPF 330
>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 = 38.6 bits (90), Expect = 0.010
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 851 RCLDKDPLRRWSCDQLLRHPYFN 873
CL KDP R + +LL+HP+ +
Sbjct: 244 SCLVKDPDDRPTAAELLKHPFVS 266
>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 = 38.3 bits (90), Expect = 0.014
Identities = 20/74 (27%), Positives = 30/74 (40%), Gaps = 10/74 (13%)
Query: 820 SKALGALTSDDLMPQPLQYVPSMFIPRGQPL------RCLDKDPLRRWSCDQLLRHPYFN 873
KA L S L +P + + +F P P + L DP +R + D+ L HPY
Sbjct: 237 EKARNYLKS--LPKKPKKPLSKLF-PGASPEAIDLLEKMLVFDPKKRITADEALAHPYLA 293
Query: 874 GYYFEVPDEMQYEE 887
+ DE +
Sbjct: 294 QLHDPE-DEPVAKP 306
>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif). This
model describes a domain called the PPR motif, or
pentatricopeptide repeat. Its consensus sequence is 35
positions long and typically is found in four or more
tandem copies. This family is strongly represented in
plant proteins, particularly those sorted to
chloroplasts or mitochondria. The pfam model pfam01535,
domain of unknown function DUF17, consists of 6 copies
of this repeat. This family has a similar consensus to
the TPR domain (tetratricopeptide), pfam pfam00515, a
33-residue repeat. It is predicted to form a pair of
antiparallel helices similar to that of TPR.
Length = 35
Score = 34.0 bits (79), Expect = 0.014
Identities = 10/34 (29%), Positives = 16/34 (47%)
Query: 161 VFNALIYGHSQANDMASAEGILTMMSQAGLEPSA 194
+N LI G +A + A + M + G+EP
Sbjct: 2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
Score = 30.9 bits (71), Expect = 0.18
Identities = 7/24 (29%), Positives = 11/24 (45%)
Query: 266 TYTKLMCGYAKHGDMDSVRRLLAQ 289
TY L+ G K G ++ L +
Sbjct: 2 TYNTLIDGLCKAGRVEEALELFKE 25
Score = 29.4 bits (67), Expect = 0.53
Identities = 7/24 (29%), Positives = 11/24 (45%)
Query: 348 TYTKLMCGYAKHGDMDSIRRLLAQ 371
TY L+ G K G ++ L +
Sbjct: 2 TYNTLIDGLCKAGRVEEALELFKE 25
>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 = 38.0 bits (89), Expect = 0.015
Identities = 10/21 (47%), Positives = 17/21 (80%)
Query: 851 RCLDKDPLRRWSCDQLLRHPY 871
+CL K+P +R + +QLL+HP+
Sbjct: 233 KCLQKNPEKRPTAEQLLKHPF 253
>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 = 38.0 bits (89), Expect = 0.015
Identities = 10/20 (50%), Positives = 14/20 (70%)
Query: 852 CLDKDPLRRWSCDQLLRHPY 871
CL+KDP R S +LL+H +
Sbjct: 234 CLNKDPKERPSAKELLKHKF 253
>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 = 37.3 bits (87), Expect = 0.025
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 852 CLDKDPLRRWSCDQLLRHPYFN 873
CL +DP R S QLL H +F
Sbjct: 278 CLQRDPESRPSASQLLNHSFFK 299
>gnl|CDD|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain. This family
matches additional variants of the PPR repeat that were
not captured by the model for pfam01535. The exact
function is not known.
Length = 34
Score = 32.9 bits (76), Expect = 0.033
Identities = 11/32 (34%), Positives = 18/32 (56%)
Query: 161 VFNALIYGHSQANDMASAEGILTMMSQAGLEP 192
+NAL+ ++A D A +L M +GL+P
Sbjct: 3 TYNALLLALAKAGDPDLALAVLEEMKASGLKP 34
Score = 28.7 bits (65), Expect = 0.91
Identities = 9/24 (37%), Positives = 12/24 (50%)
Query: 266 TYTKLMCGYAKHGDMDSVRRLLAQ 289
TY L+ AK GD D +L +
Sbjct: 3 TYNALLLALAKAGDPDLALAVLEE 26
Score = 27.9 bits (63), Expect = 2.0
Identities = 9/24 (37%), Positives = 12/24 (50%)
Query: 348 TYTKLMCGYAKHGDMDSIRRLLAQ 371
TY L+ AK GD D +L +
Sbjct: 3 TYNALLLALAKAGDPDLALAVLEE 26
>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 = 36.1 bits (84), Expect = 0.062
Identities = 13/21 (61%), Positives = 16/21 (76%)
Query: 852 CLDKDPLRRWSCDQLLRHPYF 872
CL DP R +CD+LL+HPYF
Sbjct: 268 CLRMDPKERLTCDELLQHPYF 288
>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 = 35.0 bits (81), Expect = 0.14
Identities = 12/25 (48%), Positives = 14/25 (56%)
Query: 851 RCLDKDPLRRWSCDQLLRHPYFNGY 875
CL KDP R S +LL HP+ Y
Sbjct: 239 LCLIKDPRERPSYKELLEHPFIKKY 263
>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 = 35.1 bits (81), Expect = 0.17
Identities = 14/35 (40%), Positives = 18/35 (51%), Gaps = 4/35 (11%)
Query: 856 DPLRRWSCDQLLRHPYFNGYY----FEVPDEMQYE 886
DP +R S D L+HPY N +Y E P Y+
Sbjct: 298 DPEKRISVDDALQHPYINVWYDPSEVEAPPPAPYD 332
>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional.
Length = 857
Score = 35.2 bits (81), Expect = 0.17
Identities = 25/127 (19%), Positives = 53/127 (41%), Gaps = 10/127 (7%)
Query: 82 DISHYNALLRVYLDNEHTFSPTDFLAKLESQGIEPNRVTYQQLISNSKLISKYCQDGNIE 141
D +NA++ Y +N + + ++P+ +T +IS +L+ G+
Sbjct: 252 DCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELL------GDER 305
Query: 142 GATKILEFMRDKTFPISEGVFNALIYGHSQANDMASAEGILTMMSQAGLEPSAQTYTKLM 201
++ ++ F + V N+LI + AE + + M A ++T ++
Sbjct: 306 LGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETK----DAVSWTAMI 361
Query: 202 CGYAKHG 208
GY K+G
Sbjct: 362 SGYEKNG 368
Score = 32.5 bits (74), Expect = 1.2
Identities = 16/41 (39%), Positives = 24/41 (58%), Gaps = 1/41 (2%)
Query: 126 SNSKLISKYCQDGNIEGATKILEFMRDKTFPISEGVFNALI 166
SNS+L + C G +E A K+LE M++ P+ E + AL
Sbjct: 54 SNSQLRA-LCSHGQLEQALKLLESMQELRVPVDEDAYVALF 93
>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 = 34.5 bits (80), Expect = 0.18
Identities = 17/53 (32%), Positives = 25/53 (47%), Gaps = 7/53 (13%)
Query: 822 ALGALTSDDLMPQPLQYVPSMFIP--RGQPLRCLDKDPLRRWSCDQLLRHPYF 872
AL + DD P +P P + ++C KDP R + QLL+HP+
Sbjct: 207 ALFRIVQDDHPP-----LPEGISPELKDFLMQCFQKDPNLRPTAKQLLKHPWI 254
>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 = 34.5 bits (80), Expect = 0.19
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 851 RCLDKDPLRRWSCDQLLRHPYF 872
R L +P +R + Q L HPYF
Sbjct: 264 RLLTLNPNKRITARQALEHPYF 285
>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 = 33.9 bits (78), Expect = 0.31
Identities = 10/21 (47%), Positives = 16/21 (76%)
Query: 852 CLDKDPLRRWSCDQLLRHPYF 872
CL KDP +R + ++LL+H +F
Sbjct: 247 CLQKDPSKRPTAEELLKHKFF 267
>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 = 33.6 bits (77), Expect = 0.36
Identities = 16/46 (34%), Positives = 20/46 (43%), Gaps = 10/46 (21%)
Query: 833 PQPLQYVPSMFIPRGQPL------RCLDKDPLRRWSCDQLLRHPYF 872
PQ LQ + P PL R L +P R S L+HP+F
Sbjct: 243 PQDLQQL----FPHADPLGIDLLHRLLQLNPELRISAHDALQHPWF 284
>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 = 33.5 bits (77), Expect = 0.38
Identities = 10/22 (45%), Positives = 15/22 (68%)
Query: 850 LRCLDKDPLRRWSCDQLLRHPY 871
L+CL +DP R + +LL HP+
Sbjct: 236 LKCLQRDPSLRPTAAELLEHPF 257
>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 = 33.4 bits (77), Expect = 0.39
Identities = 12/22 (54%), Positives = 15/22 (68%)
Query: 851 RCLDKDPLRRWSCDQLLRHPYF 872
+CL KDP R S QLL+HP+
Sbjct: 235 KCLVKDPEERPSAIQLLQHPFI 256
>gnl|CDD|144943 pfam01535, PPR, PPR repeat. This repeat has no known function. It
is about 35 amino acids long and found in up to 18
copies in some proteins. This family appears to be
greatly expanded in plants. This repeat occurs in
PET309, which may be involved in RNA stabilisation. This
domain occurs in crp1 that is involved in RNA
processing. This repeat is associated with a predicted
plant protein that has a domain organisation similar to
the human BRCA1 protein. The repeat has been called PPR.
Length = 31
Score = 29.3 bits (67), Expect = 0.46
Identities = 15/35 (42%), Positives = 22/35 (62%), Gaps = 6/35 (17%)
Query: 119 VTYQQLISNSKLISKYCQDGNIEGATKILEFMRDK 153
VTY NS LIS YC+ G +E A ++ + M++K
Sbjct: 1 VTY-----NS-LISGYCKAGKLEEALELFKEMKEK 29
Score = 29.0 bits (66), Expect = 0.76
Identities = 8/22 (36%), Positives = 11/22 (50%)
Query: 266 TYTKLMCGYAKHGDMDSVRRLL 287
TY L+ GY K G ++ L
Sbjct: 2 TYNSLISGYCKAGKLEEALELF 23
Score = 27.8 bits (63), Expect = 1.8
Identities = 8/30 (26%), Positives = 16/30 (53%)
Query: 161 VFNALIYGHSQANDMASAEGILTMMSQAGL 190
+N+LI G+ +A + A + M + G+
Sbjct: 2 TYNSLISGYCKAGKLEEALELFKEMKEKGV 31
>gnl|CDD|133054 cd06432, GT8_HUGT1_C_like, The C-terminal domain of HUGT1-like is
highly homologous to the GT 8 family. C-terminal domain
of glycoprotein glucosyltransferase (UGT). UGT is a
large glycoprotein whose C-terminus contains the
catalytic activity. This catalytic C-terminal domain is
highly homologous to Glycosyltransferase Family 8 (GT 8)
and contains the DXD motif that coordinates donor sugar
binding, characteristic for Family 8
glycosyltransferases. GT 8 proteins are retaining
enzymes based on the relative anomeric stereochemistry
of the substrate and product in the reaction catalyzed.
The non-catalytic N-terminal portion of the human UTG1
(HUGT1) has been shown to monitor the protein folding
status and activate its glucosyltransferase activity.
Length = 248
Score = 33.1 bits (76), Expect = 0.46
Identities = 17/55 (30%), Positives = 33/55 (60%), Gaps = 3/55 (5%)
Query: 756 LIDMDR---IFAGNVLLDIYKATRQDPNVVSHLEQLLNAFVEHAIPISAFSSDYI 807
++D+ R I AG+ L Y+ QDPN +++L+Q L ++H +PI + +++
Sbjct: 164 VVDLKRFRRIAAGDRLRGQYQQLSQDPNSLANLDQDLPNNMQHQVPIFSLPQEWL 218
>gnl|CDD|188630 cd00408, DHDPS-like, Dihydrodipicolinate synthase family.
Dihydrodipicolinate synthase family. A member of the
class I aldolases, which use an active-site lysine which
stabilizes a reaction intermediate via Schiff base
formation, and have TIM beta/alpha barrel fold. The
dihydrodipicolinate synthase family comprises several
pyruvate-dependent class I aldolases that use the same
catalytic step to catalyze different reactions in
different pathways and includes such proteins as
N-acetylneuraminate lyase, MosA protein,
5-keto-4-deoxy-glucarate dehydratase,
trans-o-hydroxybenzylidenepyruvate hydratase-aldolase,
trans-2'-carboxybenzalpyruvate hydratase-aldolase, and
2-keto-3-deoxy- gluconate aldolase. The family is also
referred to as the N-acetylneuraminate lyase (NAL)
family.
Length = 281
Score = 32.9 bits (76), Expect = 0.56
Identities = 20/83 (24%), Positives = 36/83 (43%), Gaps = 10/83 (12%)
Query: 359 HGDMDSIRRLLAQNGS--SLVNGDYLDIIHALAVSGHGEYIDEIISKIQPGVGYSADAAN 416
GD+D + RL+A G ++++GD ++ ALA+ G IS + A
Sbjct: 160 SGDLDRLTRLIALLGPDFAVLSGDDDLLLPALALGADG-----AIS---GAANVAPKLAV 211
Query: 417 HIYHLINKGQIDAAYRIVNTLAR 439
+Y G ++ A + + L
Sbjct: 212 ALYEAARAGDLEEARALQDRLLP 234
>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 = 33.2 bits (76), Expect = 0.58
Identities = 9/22 (40%), Positives = 14/22 (63%)
Query: 851 RCLDKDPLRRWSCDQLLRHPYF 872
R L +DP +R + +LL HP+
Sbjct: 251 RMLVRDPAQRATAAELLNHPFL 272
>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 = 32.6 bits (75), Expect = 0.62
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 851 RCLDKDPLRRWSCDQLLRHP 870
+ L KDP +R S ++L H
Sbjct: 196 KMLQKDPEKRPSAKEILEHL 215
>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 = 32.8 bits (75), Expect = 0.69
Identities = 11/21 (52%), Positives = 12/21 (57%)
Query: 852 CLDKDPLRRWSCDQLLRHPYF 872
CL DP R S QLL H +F
Sbjct: 266 CLRIDPDDRPSSSQLLHHEFF 286
>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 = 31.9 bits (73), Expect = 1.5
Identities = 10/21 (47%), Positives = 13/21 (61%)
Query: 852 CLDKDPLRRWSCDQLLRHPYF 872
L DP +R + +Q L HPYF
Sbjct: 263 MLHYDPHKRITAEQALAHPYF 283
>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 = 31.5 bits (72), Expect = 1.7
Identities = 10/21 (47%), Positives = 16/21 (76%)
Query: 851 RCLDKDPLRRWSCDQLLRHPY 871
RCL+ DP +R + +LL+HP+
Sbjct: 243 RCLESDPKKRPTASELLQHPF 263
>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 = 31.5 bits (72), Expect = 1.8
Identities = 9/22 (40%), Positives = 15/22 (68%)
Query: 851 RCLDKDPLRRWSCDQLLRHPYF 872
+ L+ DP +R + ++ L HPYF
Sbjct: 295 KLLEYDPTKRITAEEALEHPYF 316
>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 = 31.4 bits (72), Expect = 2.1
Identities = 15/47 (31%), Positives = 18/47 (38%), Gaps = 6/47 (12%)
Query: 832 MPQPLQYVPSMFIPRGQP------LRCLDKDPLRRWSCDQLLRHPYF 872
PQ IP P L DP +R + Q L+HPYF
Sbjct: 237 FPQFAPTSLHQLIPNASPEAIDLIKDMLRWDPKKRPTASQALQHPYF 283
>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 = 31.1 bits (70), Expect = 2.5
Identities = 10/21 (47%), Positives = 16/21 (76%)
Query: 851 RCLDKDPLRRWSCDQLLRHPY 871
+CL+K+ RW+ QLL+HP+
Sbjct: 244 KCLEKNVDARWTTTQLLQHPF 264
>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 = 30.9 bits (70), Expect = 3.0
Identities = 10/21 (47%), Positives = 15/21 (71%)
Query: 851 RCLDKDPLRRWSCDQLLRHPY 871
+CL+KDP RR + +L HP+
Sbjct: 248 QCLEKDPTRRPTPWDMLEHPW 268
>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 = 30.9 bits (68), Expect = 3.2
Identities = 17/72 (23%), Positives = 23/72 (31%), Gaps = 2/72 (2%)
Query: 812 GSALTSDISKALGALTSDDLMPQPLQYVPSMFIPRGQPL--RCLDKDPLRRWSCDQLLRH 869
S+ TS K + L + L P + L + L KDP R S L H
Sbjct: 216 NSSATSQTLKIILELPTPSLASPLSPSNPELISKAASDLLKKLLAKDPKNRLSSSSDLSH 275
Query: 870 PYFNGYYFEVPD 881
+ D
Sbjct: 276 DLLAHLKLKESD 287
>gnl|CDD|181145 PRK07850, PRK07850, acetyl-CoA acetyltransferase; Provisional.
Length = 387
Score = 30.8 bits (70), Expect = 3.4
Identities = 20/73 (27%), Positives = 37/73 (50%), Gaps = 10/73 (13%)
Query: 243 SDMASAEGILTM---MSQA-GLEPSAQTYTKLMCG----YAKHGDMDSVRRLLAQSGSSL 294
SD A+A +L M ++A GL P A+ + + G Y G + + ++L ++G +
Sbjct: 245 SDGAAA--VLWMDEDRARALGLRPRARIVAQALVGAEPYYHLDGPVQATAKVLEKAGMKI 302
Query: 295 VNGDYLDIIHALA 307
+ D ++I A A
Sbjct: 303 GDIDLVEINEAFA 315
>gnl|CDD|173766 cd08226, PK_STRAD_beta, Pseudokinase domain of STE20-related kinase
adapter protein beta. Protein Kinase family,
STE20-related kinase adapter protein (STRAD) beta
subfamily, pseudokinase domain. The STRAD-beta 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. STRAD-beta is also referred to as ALS2CR2
(Amyotrophic lateral sclerosis 2 chromosomal region
candidate gene 2 protein), since the human gene encoding
it is located within the juvenile ALS2 critical region
on chromosome 2q33-q34. It is not linked to the
development of ALS2.
Length = 328
Score = 30.7 bits (69), Expect = 3.6
Identities = 19/69 (27%), Positives = 30/69 (43%), Gaps = 6/69 (8%)
Query: 808 QNGLGSALTSDISKALGA--LTSDDL-MPQPLQYVPSMFIPRGQPLRCLDKDPLRRWSCD 864
Q+G+ S + + A +TS+ L P + P+ CL +DP +R S
Sbjct: 247 QSGVDSGIGESVVAAGMTQTMTSERLRTPSSKTFSPAFQ---NLVELCLQQDPEKRPSAS 303
Query: 865 QLLRHPYFN 873
LL H +F
Sbjct: 304 SLLSHAFFK 312
>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 = 30.6 bits (69), Expect = 3.6
Identities = 10/22 (45%), Positives = 15/22 (68%)
Query: 851 RCLDKDPLRRWSCDQLLRHPYF 872
RCL+ D +R S +LL+HP+
Sbjct: 251 RCLEMDVEKRGSAKELLQHPFL 272
>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 = 30.4 bits (69), Expect = 3.9
Identities = 12/49 (24%), Positives = 21/49 (42%), Gaps = 7/49 (14%)
Query: 853 LDKDPLRRWSCDQLLRHPYFNGYY-------FEVPDEMQYEEITQVSRL 894
L DP +R S ++ L HPY ++ + P + +E + L
Sbjct: 276 LAFDPTKRISVEEALEHPYLAIWHDPDDEPVCQKPFDFSFESEDSMEEL 324
>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 = 30.2 bits (68), Expect = 4.3
Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 2/39 (5%)
Query: 839 VPSMFIPRGQPL--RCLDKDPLRRWSCDQLLRHPYFNGY 875
+PS + Q +CL+K P RR + QLL HP+ Y
Sbjct: 230 LPSGYSDDAQDFVAKCLNKIPNRRPTYAQLLEHPWLVKY 268
>gnl|CDD|238362 cd00688, ISOPREN_C2_like, This group contains class II terpene
cyclases, protein prenyltransferases beta subunit, two
broadly specific proteinase inhibitors
alpha2-macroglobulin (alpha (2)-M) and pregnancy zone
protein (PZP) and, the C3 C4 and C5 components of
vertebrate complement. Class II terpene cyclases include
squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase
(OSQCY), these integral membrane proteins catalyze a
cationic cyclization cascade converting linear
triterpenes to fused ring compounds. The protein
prenyltransferases include protein farnesyltransferase
(FTase) and geranylgeranyltransferase types I and II
(GGTase-I and GGTase-II) which catalyze the
carboxyl-terminal lipidation of Ras, Rab, and several
other cellular signal transduction proteins,
facilitating membrane associations and specific
protein-protein interactions. Alpha (2)-M is a major
carrier protein in serum and involved in the
immobilization and entrapment of proteases. PZP is a
pregnancy associated protein. Alpha (2)-M and PZP are
known to bind to and, may modulate, the activity of
placental protein-14 in T-cell growth and cytokine
production thereby protecting the allogeneic fetus from
attack by the maternal immune system.
Length = 300
Score = 30.2 bits (68), Expect = 4.6
Identities = 24/125 (19%), Positives = 39/125 (31%), Gaps = 21/125 (16%)
Query: 397 IDEIISKIQPGVGYSADAANHIY---------HLINKGQIDAAYRIVNTLARSANINGEQ 447
+D ++S G+ +H Y L+ A + + L Q
Sbjct: 166 LDYLLSCQNYDGGFGPGGESHGYGTACAAAALALLGDLDSPDAKKALRWLLS------RQ 219
Query: 448 LPVGGFLVRHMVKTNQPGVGYSADAANHIYHLINKGQIDAAYRIVNTLARSANINGEQLP 507
P GG+ Y+ AA + L G ++ A ++V L Q
Sbjct: 220 RPDGGWGEGRDRTNKLSDSCYTEWAAYALLALGKLGDLEDAEKLVKWLLSQ------QNE 273
Query: 508 VGGFL 512
GGF
Sbjct: 274 DGGFS 278
>gnl|CDD|187652 cd08948, 5beta-POR_like_SDR_a, progesterone 5-beta-reductase-like
proteins (5beta-POR), atypical (a) SDRs. 5beta-POR
catalyzes the reduction of progesterone to
5beta-pregnane-3,20-dione in Digitalis plants. This
subgroup of atypical-extended SDRs, shares the structure
of an extended SDR, but has a different glycine-rich
nucleotide binding motif (GXXGXXG) and lacks the YXXXK
active site motif of classical and extended SDRs.
Tyr-179 and Lys 147 are present in the active site, but
not in the usual SDR configuration. Given these
differences, it has been proposed that this subfamily
represents a new SDR class. Other atypical SDRs include
biliverdin IX beta reductase (BVR-B,aka flavin
reductase), NMRa (a negative transcriptional regulator
of various fungi), phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. In addition to the
Rossmann fold core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 308
Score = 30.3 bits (69), Expect = 4.7
Identities = 20/104 (19%), Positives = 36/104 (34%), Gaps = 13/104 (12%)
Query: 508 VGGFLVRHMVKTNQPIDKVLAVCHR-LTDENLHPRAFNLAV--LIKAHVLKEDYTGAVET 564
G LV H++ KV + R L E+ ++ + L A + +E
Sbjct: 11 SGWALVEHLLSDPGTWWKVYGLSRRPLPTEDDPRLVEHIGIDLLDPADTVLRAKLPGLED 70
Query: 565 FE---YCVNQFRATPWK-----GELLKRFIQAEDAAC--LQRIT 598
Y R + G +L+ F+ A + A L+ +
Sbjct: 71 VTHVFYAAYIERPDEAELVEVNGAMLRNFLDALEPASPNLKHVV 114
>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 = 30.1 bits (68), Expect = 5.2
Identities = 13/39 (33%), Positives = 22/39 (56%), Gaps = 3/39 (7%)
Query: 836 LQYVPSMFIPRGQPL--RCLDKDPLRRWSCDQLLRHPYF 872
+ VP + G+ L L +P++R S ++ L+HPYF
Sbjct: 247 VNVVPKLN-STGRDLLQNLLVCNPVQRISAEEALQHPYF 284
>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 = 30.1 bits (67), Expect = 6.4
Identities = 14/36 (38%), Positives = 20/36 (55%), Gaps = 4/36 (11%)
Query: 856 DPLRRWSCDQLLRHPYFNGYY----FEVPDEMQYEE 887
DP +R S D+ L+HPY N +Y E P Y++
Sbjct: 298 DPAKRISVDEALQHPYINVWYDPAEVEAPPPQIYDK 333
>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 = 30.0 bits (68), Expect = 6.4
Identities = 8/21 (38%), Positives = 13/21 (61%)
Query: 856 DPLRRWSCDQLLRHPYFNGYY 876
DP R + +Q L+HP+ Y+
Sbjct: 281 DPEERITVEQALQHPFLAQYH 301
>gnl|CDD|225671 COG3129, COG3129, Predicted SAM-dependent methyltransferase
[General function prediction only].
Length = 292
Score = 29.8 bits (67), Expect = 6.5
Identities = 18/57 (31%), Positives = 26/57 (45%), Gaps = 7/57 (12%)
Query: 380 DYLDIIHALAVSGHGEYIDEIISKIQPGVGYSADAANHIYHLINKGQIDAAYRIVNT 436
DY+ + L S G+ + I + GVG AN IY LI G + +R V +
Sbjct: 59 DYIHHLADLLASTSGQIPGKNIRILDIGVG-----ANCIYPLI--GVHEYGWRFVGS 108
>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 = 29.6 bits (67), Expect = 6.9
Identities = 24/89 (26%), Positives = 35/89 (39%), Gaps = 19/89 (21%)
Query: 807 IQNGLGSALTSDISKALGALTSDD-------LMPQPLQYVPSMFIPRGQPL------RCL 853
I LGS D LG + ++ L P Q +F P PL + L
Sbjct: 221 ITELLGSPSEED----LGFIRNEKARRYIRSLPYTPRQSFARLF-PHANPLAIDLLEKML 275
Query: 854 DKDPLRRWSCDQLLRHPYFNGYYFEVPDE 882
DP +R + ++ L HPY + + DE
Sbjct: 276 VFDPSKRITVEEALAHPYLASLH-DPSDE 303
>gnl|CDD|236603 PRK09640, PRK09640, RNA polymerase sigma factor SigX; Reviewed.
Length = 188
Score = 29.1 bits (65), Expect = 7.3
Identities = 18/73 (24%), Positives = 32/73 (43%), Gaps = 6/73 (8%)
Query: 564 TFEYCVNQFRATPWKGELLKRFIQAEDAACLQRITDLSTSIHGEVNSLYDLM--LSFLDA 621
T+ C+ Q+R K +R + A L+ ++ E L + ++ +D
Sbjct: 85 TYNECITQYRKERRK----RRLMDALSLDPLEEASEEKAPKPEERGGLDRWLVHVNPIDR 140
Query: 622 EVLRILQVAEAEF 634
E+L + VAE EF
Sbjct: 141 EILVLRFVAELEF 153
>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 = 29.2 bits (66), Expect = 8.4
Identities = 8/20 (40%), Positives = 13/20 (65%)
Query: 852 CLDKDPLRRWSCDQLLRHPY 871
CL K+ +R ++LL HP+
Sbjct: 255 CLIKNYEQRPFMEELLEHPF 274
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
0.319 0.135 0.391
Gapped
Lambda K H
0.267 0.0818 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 45,596,217
Number of extensions: 4543776
Number of successful extensions: 4719
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4707
Number of HSP's successfully gapped: 93
Length of query: 902
Length of database: 10,937,602
Length adjustment: 106
Effective length of query: 796
Effective length of database: 6,236,078
Effective search space: 4963918088
Effective search space used: 4963918088
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 64 (28.3 bits)