RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2660
(149 letters)
>gnl|CDD|213381 cd12196, MARK1-3_C, C-terminal, kinase associated domain 1 (KA1), a
phospholipid binding domain, of microtubule
affinity-regulating kinases 1-3. Microtubule-associated
protein/microtubule affinity regulating kinases (MARKs),
also called partition-defective (Par-1) kinases, are
serine/threonine protein kinases (STKs) that catalyze
the transfer of the gamma-phosphoryl group from ATP to
S/T residues on protein substrates. They phosphorylate
the tau protein and related microtubule-associated
proteins (MAPs) on tubulin binding sites to induce
detachment from microtubules, and are involved in the
regulation of cell shape and polarity, cell cycle
control, transport, and the cytoskeleton. Mammals
contain four proteins, MARK1-4, encoded by distinct
genes belonging to this subfamily, with additional
isoforms arising from alternative splicing. MARK1/2,
through their activation by death-associated protein
kinase (DAPK), modulates polarized neurite outgrowth.
MARK1, also called Par-1c, is also involved in
axon-dendrite specification, and SNPs on the MARK1 gene
is associated with autism spectrum disorders. MARK2,
also called Par-1b, is implicated in many physiological
processes including fertility, immune system
homeostasis, learning and memory, growth, and
metabolism. MARK3, also called Par-1a, is implicated in
gluconeogenesis and adiposity; mice deficient with MARK3
display reduced adiposity, resistance to hepatic
steatosis, and defective gluconeogensis. MARKs contain
an N-terminal catalytic kinase domain, a
ubiquitin-associated domain (UBA), and a C-terminal
kinase associated domain (KA1). The KA1 domain binds
anionic phospholipids and may be involved in membrane
localization as well as in auto-inhibition of the kinase
domain.
Length = 98
Score = 178 bits (453), Expect = 3e-59
Identities = 76/94 (80%), Positives = 80/94 (85%), Gaps = 6/94 (6%)
Query: 58 KPRSLRFTWSMKTTSSRDPNEIRAEIRKVLDANNCDYEQRERFLLLCVHGDPNTDSLVQW 117
KPRSLRFTWSMKTTSS DPN++ EIRKVLDANNCDYEQRERFLL CVHGD TDSLVQW
Sbjct: 1 KPRSLRFTWSMKTTSSMDPNDMMREIRKVLDANNCDYEQRERFLLFCVHGDGRTDSLVQW 60
Query: 118 EIEVCKLPRLSLNGVRFKRIS------DHIISKI 145
E+EVCKLPRLSLNGVRFKRIS +I SKI
Sbjct: 61 EMEVCKLPRLSLNGVRFKRISGTSIAFKNIASKI 94
>gnl|CDD|213386 cd12201, MARK2_C, C-terminal, kinase associated domain 1 (KA1), a
phospholipid binding domain, of microtubule
affinity-regulating kinase 2. Microtubule-associated
protein/microtubule affinity regulating kinases (MARKs),
also called partition-defective (Par-1) kinases, are
serine/threonine protein kinases (STKs) that catalyze
the transfer of the gamma-phosphoryl group from ATP to
S/T residues on protein substrates. They phosphorylate
the tau protein and related microtubule-associated
proteins (MAPs) on tubulin binding sites to induce
detachment from microtubules, and are involved in the
regulation of cell shape and polarity, cell cycle
control, transport, and the cytoskeleton. Mammals
contain four proteins, MARK1-4, encoded by distinct
genes belonging to this subfamily, with additional
isoforms arising from alternative splicing. MARK2, also
called Par-1b or ELKL motif kinase 1 (EMK-1), is
implicated in many physiological processes including
fertility, immune system homeostasis, learning and
memory, growth, and metabolism. It also regulates axon
formation and has been implicated in neurodegeneration.
MARKs contain an N-terminal catalytic kinase domain, a
ubiquitin-associated domain (UBA), and a C-terminal
kinase associated domain (KA1). The KA1 domain binds
anionic phospholipids and may be involved in membrane
localization as well as in auto-inhibition of the kinase
domain.
Length = 99
Score = 143 bits (361), Expect = 2e-45
Identities = 63/81 (77%), Positives = 71/81 (87%)
Query: 58 KPRSLRFTWSMKTTSSRDPNEIRAEIRKVLDANNCDYEQRERFLLLCVHGDPNTDSLVQW 117
KPRSLRFTWSMKTTSS +PNE+ EIRKVLDANNC YE +E+++LLC+HG P D VQW
Sbjct: 1 KPRSLRFTWSMKTTSSMEPNEMMKEIRKVLDANNCQYELQEKYMLLCMHGTPGHDDFVQW 60
Query: 118 EIEVCKLPRLSLNGVRFKRIS 138
E+EVCKLPRLSLNGVRFKRIS
Sbjct: 61 EMEVCKLPRLSLNGVRFKRIS 81
>gnl|CDD|213377 cd12121, MARK_C_like, C-terminal kinase associated domain 1 (KA1),
a phospholipid binding domain, of microtubule
affinity-regulating kinases, and similar domains.
Microtubule-associated protein/microtubule affinity
regulating kinases (MARKs), also called
partition-defective (Par-1) kinases, are
serine/threonine protein kinases (STKs) that catalyze
the transfer of the gamma-phosphoryl group from ATP to
S/T residues on protein substrates. They phosphorylate
the tau protein and related microtubule-associated
proteins (MAPs) on tubulin binding sites to induce
detachment from microtubules, and are involved in the
regulation of cell shape and polarity, cell cycle
control, transport, and the cytoskeleton. Mammals
contain four proteins, MARK1-4, encoded by distinct
genes belonging to this subfamily, with additional
isoforms arising from alternative splicing. In yeast,
MARK/Par-1 homologs are called Kin1/2 kinases. Kin1 is a
membrane-associated kinase that is involved in
regulating cytokinesis and the cell surface. MARKs
contain an N-terminal catalytic kinase domain, a
ubiquitin-associated domain (UBA), and a C-terminal
kinase associated domain (KA1). The KA1 domain binds
anionic phospholipids and may be involved in membrane
localization as well as in auto-inhibition of the kinase
domain.
Length = 96
Score = 125 bits (317), Expect = 1e-38
Identities = 48/94 (51%), Positives = 63/94 (67%), Gaps = 6/94 (6%)
Query: 60 RSLRFTWSMKTTSSRDPNEIRAEIRKVLDANNCDYEQRERFLLLCVHGDPNTDSLVQWEI 119
RSLR +S+ TTS++ P EI EI++VL +N DYE+ +LL C HGD + V +EI
Sbjct: 1 RSLRGPFSVATTSTKSPEEIMNEIKRVLRSNGIDYEEVGGYLLECKHGDSSGGEFVIFEI 60
Query: 120 EVCKLPRLSLNGVRFKRIS-DH-----IISKILS 147
E+CKLPRL LNG+RFKRIS D + KIL+
Sbjct: 61 EICKLPRLGLNGIRFKRISGDSWQYKRLCKKILN 94
>gnl|CDD|213376 cd12120, AMPKA_C_like, C-terminal regulatory domain of
5'-AMP-activated protein kinase (AMPK) alpha subunit and
similar domains. This family is composed of AMPKs,
microtubule-associated protein/microtubule affinity
regulating kinases (MARKs), yeast Kcc4p-like proteins,
plant calcineurin B-Like (CBL)-interacting protein
kinases (CIPKs), and similar proteins. They are
serine/threonine protein kinases (STKs) that catalyze
the transfer of the gamma-phosphoryl group from ATP to
S/T residues on protein substrates. AMPKs act as sensors
for the energy status of the cell and are activated by
cellular stresses that lead to ATP depletion such as
hypoxia, heat shock, and glucose deprivation, among
others. MARKs phosphorylate the tau protein and related
microtubule-associated proteins (MAPs) on tubulin
binding sites to induce detachment from microtubules,
and are involved in the regulation of cell shape and
polarity, cell cycle control, transport, and the
cytoskeleton. Kcc4p and related proteins are
septin-associated proteins that are involved in septin
organization and in the yeast morphogenesis checkpoint
coordinating the cell cycle with bud formation. CIPKs
interact with the calcineurin B-like (CBL) calcium
sensors to form a signaling network that decode specific
calcium signals triggered by a variety of environmental
stimuli including salinity, drought, cold, light, and
mechanical perturbation, among others. All members of
this family contain an N-terminal catalytic kinase
domain and a C-terminal regulatory domain which is also
called kinase associated domain 1 (KA1) in some cases.
The C-terminal regulatory domain serves as a protein
interaction domain in AMPKs and CIPKs. In MARKs and
Kcc4p-like proteins, this domain binds phospholipids and
may be involved in membrane localization.
Length = 95
Score = 83.0 bits (205), Expect = 9e-22
Identities = 21/79 (26%), Positives = 35/79 (44%), Gaps = 4/79 (5%)
Query: 63 RFTWSMKTTSSRDPNEIRAEIRKVLDANNCDYEQRER-FLLLCVHGDPN--TDSLVQWEI 119
R W ++ S DP+EI I KVL+ + R F++ + + +EI
Sbjct: 1 RKKWELEIHSRIDPSEIYEGIHKVLEGWGKNLVFRITNFIITGKLVNDHILFLRSTLFEI 60
Query: 120 EVCKLPRLSLNGVRFKRIS 138
EV ++ L V FK+ +
Sbjct: 61 EVYEVGP-GLFMVDFKKKT 78
>gnl|CDD|213382 cd12197, MARK4_C, C-terminal, kinase associated domain 1 (KA1), a
phospholipid binding domain, of microtubule
affinity-regulating kinase 4. Microtubule-associated
protein/microtubule affinity regulating kinases (MARKs),
also called partition-defective (Par-1) kinases, are
serine/threonine protein kinases (STKs) that catalyze
the transfer of the gamma-phosphoryl group from ATP to
S/T residues on protein substrates. They phosphorylate
the tau protein and related microtubule-associated
proteins (MAPs) on tubulin binding sites to induce
detachment from microtubules, and are involved in the
regulation of cell shape and polarity, cell cycle
control, transport, and the cytoskeleton. Mammals
contain four proteins, MARK1-4, encoded by distinct
genes belonging to this subfamily, with additional
isoforms arising from alternative splicing. MARK4 has
two splicing isoforms: MARK4S, predominantly expressed
in the brain; and MARK4L, expressed in all tissues.
Unlike MARK1-3 that show cytoplasmic localization, MARK4
colocalizes with the centrosome and with microtubules.
Decreased MARK4 expression in the brain may be involved
in the pathogenesis of Prion diseases and may be
correlated to PrP(Sc) deposits. MARK4 is also a
component of the ectoplasmic specialization, a
testis-specific adherens junction. MARKs contain an
N-terminal catalytic kinase domain, a
ubiquitin-associated domain (UBA), and a C-terminal
kinase associated domain (KA1). The KA1 domain binds
anionic phospholipids and may be involved in membrane
localization as well as in auto-inhibition of the kinase
domain.
Length = 99
Score = 80.3 bits (198), Expect = 1e-20
Identities = 39/93 (41%), Positives = 49/93 (52%), Gaps = 7/93 (7%)
Query: 60 RSLRFTWSMKTTSSRDPNEIRAEIRKVLDANNCDYEQRERFLLLCVHGDPNTDS-LVQWE 118
R LR W ++ SSR P E+ +R+ C Q FLL C+HG + LV +E
Sbjct: 1 RLLRGGWDVRLRSSRPPAEVVLALREATAGCGCRVRQAGPFLLACLHGAAGSPEPLVAFE 60
Query: 119 IEVCKLPRLSLNGVRFKRIS------DHIISKI 145
EVC+LPR LNGVRFKR+ I SKI
Sbjct: 61 AEVCQLPRGELNGVRFKRLWGTPLAFRTIASKI 93
>gnl|CDD|213383 cd12198, MELK_C, C-terminal kinase associated domain 1 (KA1) of
Maternal embryonic leucine zipper kinase. MELK, also
called protein kinase 38 (PK38) or pEg3 kinase, is a
cell cycle-regulated serine/threonine protein kinase
(STK) that catalyzes the transfer of the
gamma-phosphoryl group from ATP to S/T residues on
protein substrates. It is phosphorylated and maximally
active during mitosis and is involved in regulating cell
cycle progression, division, proliferation, tumor
growth, and mRNA splicing. MELK shows a broad substrate
specificity, including the zinc finger-like protein
ZPR9, the transcription and splicing factor NIPP1, and
the protein-tyrosine phosphatase Cdc25B, among others.
MELK contains an N-terminal catalytic domain followed by
a ubiquitin-associated (UBA) domain, a TP dipeptide-rich
region, and a C-terminal KA1 domain. The KA1 domain of
MELK, together with its TP dipeptide-rich region,
functions as an autoinhibitory domain. The KA1 domain of
the related microtubule affinity-regulating kinases
(MARKs) has been shown to bind anionic phospholipids and
may be involved in membrane localization.
Length = 96
Score = 54.5 bits (132), Expect = 1e-10
Identities = 25/72 (34%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 67 SMKTTSSRDPNEIRAEIRKVLDANNCDYEQRERFLLLCVHGDPNTDSLVQWEIEVCKLPR 126
++ TTSS+DP ++ E+++VL D +Q+ + L C D + +E+EVC+LP
Sbjct: 8 NVSTTSSKDPEQVLNELKRVLAKKGIDCKQK-GYTLRCKTKDDFGKVKLTFELEVCRLPG 66
Query: 127 LS-LNGVRFKRI 137
L + G+R KR+
Sbjct: 67 LDEVVGIRRKRL 78
>gnl|CDD|190228 pfam02149, KA1, Kinase associated domain 1.
Length = 46
Score = 49.5 bits (119), Expect = 3e-09
Identities = 23/42 (54%), Positives = 29/42 (69%), Gaps = 6/42 (14%)
Query: 112 DSLVQWEIEVCKLPRLSLNGVRFKRISD------HIISKILS 147
S+V++EIEVCKLPRL L GV FKR+S + +KILS
Sbjct: 1 PSVVKFEIEVCKLPRLGLYGVDFKRLSGPQWQYKDLAAKILS 42
>gnl|CDD|219814 pfam08385, DHC_N1, Dynein heavy chain, N-terminal region 1. Dynein
heavy chains interact with other heavy chains to form
dimers, and with intermediate chain-light chain
complexes to form a basal cargo binding unit. The region
featured in this family includes the sequences
implicated in mediating these interactions. It is
thought to be flexible and not to adopt a rigid
conformation.
Length = 577
Score = 38.4 bits (90), Expect = 6e-04
Identities = 9/33 (27%), Positives = 16/33 (48%)
Query: 1 MDKVEGADFNEMEPFLSPMMHTVCLVWANCKYY 33
D + D ++ L P+ + + L W+ KYY
Sbjct: 108 DDLLSATDLQKIREALPPIFNHLRLKWSISKYY 140
>gnl|CDD|173356 PTZ00061, PTZ00061, DNA-directed RNA polymerase; Provisional.
Length = 205
Score = 25.9 bits (57), Expect = 7.2
Identities = 9/44 (20%), Positives = 20/44 (45%), Gaps = 3/44 (6%)
Query: 72 SSRDPNEIRAEIRKVLDANNCDYEQRERFLLLCVHGDPNTDSLV 115
+S++ E A ++ + N R R L++ H T+ ++
Sbjct: 27 TSQEKLETFATFKERFEENER---LRSRMLMVASHKTDPTNRII 67
>gnl|CDD|221541 pfam12348, CLASP_N, CLASP N terminal. This region is found at the
N terminal of CLIP-associated proteins (CLASPs). CLASPs
are widely conserved microtubule plus-end-tracking
proteins that regulate the stability of dynamic
microtubules. In yeast, Drosophila, and Xenopus, a
single CLASP orthologue is present. In mammals, a second
paralogue (CLASP2) exists which has some functional
overlap with CLASP1.
Length = 228
Score = 26.0 bits (58), Expect = 7.6
Identities = 11/48 (22%), Positives = 17/48 (35%), Gaps = 11/48 (22%)
Query: 21 HTVCLVWANCKYYQGPMAMEPVPK--HNVVSNAVNDDQVKPRSLRFTW 66
V + +N Y P+ +S A+ D V+PR W
Sbjct: 116 QAVADILSNVSY---------TPRLELQHISAALQDKNVQPREYSAIW 154
>gnl|CDD|233337 TIGR01273, speA, arginine decarboxylase, biosynthetic. Two
alternative pathways can convert arginine to putrescine.
One is decarboxylation by this enzyme followed by
removal of the urea moeity by agmatinase. In the other,
the ureohydrolase (arginase) acts first, followed by
ornithine decarboxylase. This pathway leads to
spermidine biosynthesis, hence the gene symbol speA. A
distinct biodegradative form is also pyridoxal
phosphate-dependent but is not similar in sequence
[Central intermediary metabolism, Polyamine
biosynthesis].
Length = 624
Score = 26.1 bits (58), Expect = 9.5
Identities = 11/37 (29%), Positives = 17/37 (45%)
Query: 65 TWSMKTTSSRDPNEIRAEIRKVLDANNCDYEQRERFL 101
T M DP E+ R + N D E++++FL
Sbjct: 574 TEDMLRYVQYDPKELLTLYRDKVANNKLDAEEKKQFL 610
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
0.320 0.134 0.416
Gapped
Lambda K H
0.267 0.0793 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,420,480
Number of extensions: 622082
Number of successful extensions: 596
Number of sequences better than 10.0: 1
Number of HSP's gapped: 592
Number of HSP's successfully gapped: 16
Length of query: 149
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 61
Effective length of database: 7,034,450
Effective search space: 429101450
Effective search space used: 429101450
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 (21.8 bits)
S2: 54 (24.5 bits)