RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11523
(147 letters)
>gnl|CDD|173623 cd00180, PKc, Catalytic domain of Protein Kinases. Protein Kinases
(PKs), catalytic (c) domain. PKs catalyze the transfer
of the gamma-phosphoryl group from ATP to
serine/threonine or tyrosine residues on protein
substrates. The PK family is part of a larger
superfamily that includes the catalytic domains of RIO
kinases, aminoglycoside phosphotransferase, choline
kinase, phosphoinositide 3-kinase (PI3K), and
actin-fragmin kinase. PKs make up a large family of
serine/threonine kinases, protein tyrosine kinases
(PTKs), and dual-specificity PKs that phosphorylate both
serine/threonine and tyrosine residues of target
proteins. Majority of protein phosphorylation, about
95%, occurs on serine residues while only 1% occurs on
tyrosine residues. Protein phosphorylation is a
mechanism by which a wide variety of cellular proteins,
such as enzymes and membrane channels, are reversibly
regulated in response to certain stimuli. PKs often
function as components of signal transduction pathways
in which one kinase activates a second kinase, which in
turn, may act on other kinases; this sequential action
transmits a signal from the cell surface to target
proteins, which results in cellular responses. The PK
family is one of the largest known protein families with
more than 100 homologous yeast enzymes and 550 human
proteins. A fraction of PK family members are
pseudokinases that lack crucial residues for catalytic
activity. The mutiplicity of kinases allows for specific
regulation according to substrate, tissue distribution,
and cellular localization. PKs regulate many cellular
processes including proliferation, division,
differentiation, motility, survival, metabolism,
cell-cycle progression, cytoskeletal rearrangement,
immunity, and neuronal functions. Many kinases are
implicated in the development of various human diseases
including different types of cancer.
Length = 215
Score = 34.5 bits (80), Expect = 0.009
Identities = 15/62 (24%), Positives = 25/62 (40%), Gaps = 7/62 (11%)
Query: 6 PTLKLIDFGRSIDMTLYPPGTTFSTVVTTDGFQCTEM-KEGREWSYHTDVYGLAGSMCCT 64
+KL DFG S +T + T+V T + E+ +S +D++ L
Sbjct: 130 GKVKLADFGLSKLLT--SDKSLLKTIVGTPAYMAPEVLLGKGYYSEKSDIWSLG----VI 183
Query: 65 LL 66
L
Sbjct: 184 LY 185
>gnl|CDD|215690 pfam00069, Pkinase, Protein kinase domain.
Length = 260
Score = 30.7 bits (70), Expect = 0.22
Identities = 22/117 (18%), Positives = 41/117 (35%), Gaps = 13/117 (11%)
Query: 6 PTLKLIDFGRSIDMTLYPPGTTFSTVVTTDGFQCTE-MKEGREWSYHTDVYGLAGSMC-C 63
+K+ DFG + + ++ +T V T + E + G + DV+ L G +
Sbjct: 135 GVVKIADFGLAKKLLK--SSSSLTTFVGTPWYMAPEVLLGGNGYGPKVDVWSL-GVILYE 191
Query: 64 TLLGK--YMNTVKRGARWILADTIPRYLRRDVMEPIFDKLLNSPSHYDITLLEDIIH 118
L GK + + I R L + S D L++ ++
Sbjct: 192 LLTGKPPFSGENILDQLQL----IRRILGPPLEFDEPKWSSGSEEAKD--LIKKCLN 242
>gnl|CDD|132950 cd06619, PKc_MKK5, Catalytic domain of the dual-specificity Protein
Kinase, MAP kinase kinase 5. Protein kinases (PKs), MAP
kinase kinase 5 (MKK5) subfamily, catalytic (c) domain.
PKs catalyze the transfer of the gamma-phosphoryl group
from ATP to serine/threonine or tyrosine residues on
protein substrates. The MKK5 subfamily is part of a
larger superfamily that includes the catalytic domains
of other protein serine/threonine kinases, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and phosphoinositide
3-kinase. The mitogen-activated protein (MAP) kinase
signaling pathways are important mediators of cellular
responses to extracellular signals. The pathways involve
a triple kinase core cascade comprising of the MAP
kinase (MAPK), which is phosphorylated and activated by
a MAPK kinase (MAPKK or MKK), which itself is
phosphorylated and activated by a MAPK kinase kinase
(MAPKKK or MKKK). MKK5, also referred to as MEK5, is a
dual-specificity PK that phosphorylates its downstream
target, extracellular signal-regulated kinase 5 (ERK5),
on specific threonine and tyrosine residues. MKK5 is
activated by MEKK2 and MEKK3 in response to mitogenic
and stress stimuli. The ERK5 cascade promotes cell
proliferation, differentiation, neuronal survival, and
neuroprotection. This cascade plays an essential role in
heart development. Mice deficient in either ERK5 or MKK5
die around embryonic day 10 due to cardiovascular
defects including underdevelopment of the myocardium. In
addition, MKK5 is associated with metastasis and
unfavorable prognosis in prostate cancer.
Length = 279
Score = 29.5 bits (66), Expect = 0.53
Identities = 18/62 (29%), Positives = 29/62 (46%), Gaps = 4/62 (6%)
Query: 8 LKLIDFGRSIDMTLYPPGTTFSTVVTTDGFQCTEMKEGREWSYHTDVYGLAGSMCCTLLG 67
+KL DFG S + + T V T+ + E G ++ H+DV+ L S LG
Sbjct: 134 VKLCDFGVSTQLV----NSIAKTYVGTNAYMAPERISGEQYGIHSDVWSLGISFMELALG 189
Query: 68 KY 69
++
Sbjct: 190 RF 191
>gnl|CDD|233023 TIGR00557, pdxA, 4-hydroxythreonine-4-phosphate dehydrogenase.
This model represents PdxA, an NAD+-dependent
4-hydroxythreonine 4-phosphate dehydrogenase (EC
1.1.1.262) active in pyridoxal phosphate biosynthesis
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Pyridoxine].
Length = 320
Score = 29.4 bits (67), Expect = 0.55
Identities = 7/18 (38%), Positives = 11/18 (61%)
Query: 4 GLPTLKLIDFGRSIDMTL 21
GL LK + F +++TL
Sbjct: 264 GLIPLKYLGFDEGVNVTL 281
>gnl|CDD|240660 cd12184, HGDH_like, (R)-2-Hydroxyglutarate Dehydrogenase and
related dehydrogenases, NAD-binding and catalytic
domains. (R)-2-hydroxyglutarate dehydrogenase (HGDH)
catalyzes the NAD-dependent reduction of 2-oxoglutarate
to (R)-2-hydroxyglutarate. HGDH is a member of the
D-2-hydroxyacid NAD(+)-dependent dehydrogenase family;
these proteins typically have a characteristic
arrangement of 2 similar subdomains of the alpha/beta
Rossmann fold NAD+ binding form. The NAD+ binding domain
is inserted within the linear sequence of the mostly
N-terminal catalytic domain, which has a similar domain
structure to the internal NAD binding domain.
Structurally, these domains are connected by extended
alpha helices and create a cleft in which NAD is bound,
primarily to the C-terminal portion of the 2nd
(internal) domain.
Length = 330
Score = 29.6 bits (67), Expect = 0.58
Identities = 13/27 (48%), Positives = 19/27 (70%), Gaps = 1/27 (3%)
Query: 91 RDVMEPIFDKLLNSPSHYDITLLEDII 117
R V +PIF+K LN YD+TL+E+ +
Sbjct: 9 RPVEKPIFEK-LNKKFGYDLTLVEEYL 34
>gnl|CDD|173672 cd05581, STKc_PDK1, Catalytic domain of the Protein
Serine/Threonine Kinase, Phosphoinositide-dependent
kinase 1. Serine/Threonine Kinases (STKs),
Phosphoinositide-dependent kinase 1 (PDK1) subfamily,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The PDK1 subfamily is
part of a larger superfamily that includes the catalytic
domains of other protein STKs, protein tyrosine kinases,
RIO kinases, aminoglycoside phosphotransferase, choline
kinase, and phosphoinositide 3-kinase (PI3K). PDK1
carries an N-terminal catalytic domain and a C-terminal
pleckstrin homology (PH) domain that binds
phosphoinositides. It phosphorylates the activation loop
of AGC kinases that are regulated by PI3K such as PKB,
SGK, and PKC, among others, and is crucial for their
activation. Thus, it contributes in regulating many
processes including metabolism, growth, proliferation,
and survival. PDK1 also has the ability to
autophosphorylate and is constitutively active in
mammalian cells. PDK1 is essential for normal embryo
development and is important in regulating cell volume.
Length = 280
Score = 29.5 bits (67), Expect = 0.60
Identities = 11/77 (14%), Positives = 25/77 (32%), Gaps = 22/77 (28%)
Query: 7 TLKLIDFGRSIDM------------------TLYPPGTTFSTVVTTDGFQCTEMKEGREW 48
+K+ DFG + + + F++ V T + E+ +
Sbjct: 140 HIKITDFGTAKVLDPNSSPESNKGDATNIDSQIEKNRRRFASFVGTAEYVSPELLNEKPA 199
Query: 49 SYHTDVYGLAGSMCCTL 65
+D++ L C +
Sbjct: 200 GKSSDLWALG----CII 212
>gnl|CDD|224906 COG1995, PdxA, Pyridoxal phosphate biosynthesis protein [Coenzyme
metabolism].
Length = 332
Score = 28.8 bits (65), Expect = 0.91
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 4 GLPTLKLIDFGRSIDMTL 21
GL LK + F R +++TL
Sbjct: 270 GLIPLKYLGFDRGVNVTL 287
>gnl|CDD|217937 pfam04166, PdxA, Pyridoxal phosphate biosynthetic protein PdxA. In
Escherichia coli the coenzyme pyridoxal 5'-phosphate is
synthesised de novo by a pathway that is thought to
involve the condensation of
4-(phosphohydroxy)-L-threonine and 1-deoxy-D-xylulose,
catalyzed by the enzymes PdxA and PdxJ, to form either
pyridoxine (vitamin B6) or pyridoxine 5'-phosphate.
Length = 299
Score = 28.8 bits (65), Expect = 0.92
Identities = 12/33 (36%), Positives = 16/33 (48%), Gaps = 8/33 (24%)
Query: 4 GLPTLKLIDFGRSIDMTLYPP--------GTTF 28
GL LK + F R +++TL P GT F
Sbjct: 246 GLIPLKYLGFDRGVNVTLGLPIIRTSVDHGTAF 278
>gnl|CDD|173761 cd08221, STKc_Nek9, Catalytic domain of the Protein
Serine/Threonine Kinase, Never In Mitosis gene A-related
kinase 9. Serine/Threonine Kinases (STKs), Never In
Mitosis gene A (NIMA)-related kinase 9 (Nek9) subfamily,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The Nek9 subfamily is
one of a family of 11 different Neks (Nek1-11) that are
involved in cell cycle control. The Nek family is part
of a larger superfamily that includes the catalytic
domains of other protein STKs, protein tyrosine kinases,
RIO kinases, aminoglycoside phosphotransferase, choline
kinase, and phosphoinositide 3-kinase. Nek9, also called
Nercc1, is primarily a cytoplasmic protein but can also
localize in the nucleus. It is involved in modulating
chromosome alignment and splitting during mitosis. It
interacts with the gamma-tubulin ring complex and the
Ran GTPase, and is implicated in microtubule
organization. Nek9 associates with FACT (FAcilitates
Chromatin Transcription) and modulates interphase
progression. It also interacts with Nek6, and Nek7,
during mitosis, resulting in their activation.
Length = 256
Score = 28.2 bits (63), Expect = 1.3
Identities = 18/68 (26%), Positives = 35/68 (51%), Gaps = 13/68 (19%)
Query: 2 RSGLPTLKLIDFGRSIDMTLYPPGTTFS---TVVTTDGFQCTEMKEGREWSYHTDVYGLA 58
++GL +KL DFG S + G+ +S TVV T + E+ +G ++++ +D++ L
Sbjct: 136 KAGL--IKLGDFGISKIL-----GSEYSMAETVVGTPYYMSPELCQGVKYNFKSDIWALG 188
Query: 59 ---GSMCC 63
+
Sbjct: 189 CVLYELLT 196
>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 = 27.9 bits (63), Expect = 1.8
Identities = 16/58 (27%), Positives = 25/58 (43%), Gaps = 7/58 (12%)
Query: 9 KLIDFGRSIDMTLYPPGTTFSTVVTTDGFQCTEMKEGREWSYHTDVYGLAGSMCCTLL 66
KLIDFG S ++ T V T + E+ G+ + Y D++ L T +
Sbjct: 138 KLIDFGLSAQLSDTKARNTM---VGTPYWMAPEVINGKPYDYKADIWSLG----ITAI 188
>gnl|CDD|201944 pfam01735, PLA2_B, Lysophospholipase catalytic domain. This family
consists of Lysophospholipase / phospholipase B
EC:3.1.1.5 and cytosolic phospholipase A2 EC:3.1.4 which
also has a C2 domain pfam00168. Phospholipase B enzymes
catalyze the release of fatty acids from
lysophsopholipids and are capable in vitro of
hydrolysing all phospholipids extractable form yeast
cells. Cytosolic phospholipase A2 associates with
natural membranes in response to physiological increases
in Ca2+ and selectively hydrolyses arachidonyl
phospholipids, the aligned region corresponds the the
carboxy-terminal Ca2+-independent catalytic domain of
the protein as discussed in.
Length = 490
Score = 28.1 bits (63), Expect = 2.2
Identities = 13/35 (37%), Positives = 20/35 (57%), Gaps = 5/35 (14%)
Query: 13 FGRSIDMTLYP-----PGTTFSTVVTTDGFQCTEM 42
+GR++ TL P P T+S++ T+ FQ EM
Sbjct: 121 WGRALSYTLIPSLRGGPNYTWSSLRDTEWFQNAEM 155
>gnl|CDD|221802 pfam12842, DUF3819, Domain of unknown function (DUF3819). This is
an uncharacterized domain that is found on the CCR4-Not
complex component Not1. Not1 is a global regulator of
transcription that affects genes positively and
negatively and is thought to regulate transcription
factor TFIID.
Length = 147
Score = 27.2 bits (61), Expect = 2.6
Identities = 28/102 (27%), Positives = 42/102 (41%), Gaps = 25/102 (24%)
Query: 49 SYHTDVYGLAGSMCCTLLGKYMNTVKRGARWILADTIPRYLRRDVMEPIFDKLLNSPSHY 108
+ H V LAGS+ + T K L ++I LR + LL SP
Sbjct: 55 AAHNMVRSLAGSLA-------LVTCKE----PLRESISNNLRS-----LLQTLLTSP--- 95
Query: 109 DITLLEDIIHSLEQ---ELECSL---ARSDEGLQTVDTILAQ 144
D L E + L EL C+L A +++ ++ +D LA
Sbjct: 96 DQELPEQAVQILVNDNLELACALIEKAAAEKAVREIDEKLAP 137
>gnl|CDD|165250 PHA02940, PHA02940, hypothetical protein; Provisional.
Length = 315
Score = 27.2 bits (60), Expect = 3.8
Identities = 18/68 (26%), Positives = 27/68 (39%), Gaps = 11/68 (16%)
Query: 58 AGSMCCTLLGKYMNTVKRGARWILADTIPRYLRRDVMEPIFDKLLNSPSHYDITLLEDII 117
A L G+Y+ VK+ R +A+ + + L D N P LE
Sbjct: 141 AKDTVILLAGRYVQDVKKDDRRTIANKLSKEL-----SWTIDYQENEPD------LESDF 189
Query: 118 HSLEQELE 125
+E+ELE
Sbjct: 190 KEIEEELE 197
>gnl|CDD|225499 COG2948, VirB10, Type IV secretory pathway, VirB10 components
[Intracellular trafficking and secretion].
Length = 360
Score = 26.7 bits (59), Expect = 5.3
Identities = 12/43 (27%), Positives = 16/43 (37%), Gaps = 10/43 (23%)
Query: 52 TDVYGLAGSMC-----CTLLGKYMNTVKRGAR-----WILADT 84
DV+ G + L+GKY + VK G W T
Sbjct: 197 RDVFDATGRVVLIPKGSRLIGKYDSGVKFGQARVLIVWTRIIT 239
>gnl|CDD|234696 PRK00232, pdxA, 4-hydroxythreonine-4-phosphate dehydrogenase;
Reviewed.
Length = 332
Score = 26.3 bits (59), Expect = 7.3
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 4 GLPTLKLIDFGRSIDMTL 21
GLP LK + FGR +++TL
Sbjct: 271 GLPVLKYLGFGRGVNITL 288
>gnl|CDD|226805 COG4365, COG4365, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 537
Score = 26.0 bits (57), Expect = 8.9
Identities = 13/61 (21%), Positives = 29/61 (47%), Gaps = 5/61 (8%)
Query: 88 YLRRDVMEPIFDKLLNSPSHYDITLLEDIIHSLEQELECSLAR--SDEGLQTVDTILAQL 145
L + +KLL + Y+I+L + I+ +E E E + + ++ V+ + Q+
Sbjct: 376 RLGITYLNDRIEKLL---AEYNISLEKAIVDGVEGEREKFIREQAPHQFIEVVEGAIEQI 432
Query: 146 K 146
+
Sbjct: 433 R 433
>gnl|CDD|220775 pfam10479, FSA_C, Fragile site-associated protein C-terminus. This
is the conserved C-terminal half of the protein KIAA1109
which is the fragile site-associated protein FSA.
Genome-wide-association studies showed this protein to
linked to the susceptibility to coeliac disease. The
protein may also be associated with polycystic kidney
disease.
Length = 615
Score = 26.1 bits (57), Expect = 9.6
Identities = 11/19 (57%), Positives = 17/19 (89%), Gaps = 1/19 (5%)
Query: 84 TIPRYLRRDVMEPIFDKLL 102
TIP++L+R VM+P+ DK+L
Sbjct: 588 TIPKWLQRGVMDPL-DKVL 605
>gnl|CDD|132980 cd06649, PKc_MEK2, Catalytic domain of the dual-specificity Protein
Kinase, MAP/ERK Kinase 2. Protein kinases (PKs),
MAP/ERK Kinase (MEK) 2 subfamily, catalytic (c) domain.
PKs catalyze the transfer of the gamma-phosphoryl group
from ATP to serine/threonine or tyrosine residues on
protein substrates. The MEK subfamily is part of a
larger superfamily that includes the catalytic domains
of other protein serine/threonine kinases, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and phosphoinositide
3-kinase. The mitogen-activated protein (MAP) kinase
signaling pathways are important mediators of cellular
responses to extracellular signals. The pathways involve
a triple kinase core cascade comprising the MAP kinase
(MAPK), which is phosphorylated and activated by a MAPK
kinase (MAPKK or MKK), which itself is phosphorylated
and activated by a MAPK kinase kinase (MAPKKK or MKKK).
MEK2 is a dual-specificity PK that phosphorylates and
activates the downstream targets, extracellular
signal-regulated kinase (ERK) 1 and ERK2, on specific
threonine and tyrosine residues. The ERK cascade starts
with extracellular signals including growth factors,
hormones, and neurotransmitters, which act through
receptors and ion channels to initiate intracellular
signaling that leads to the activation at the MAPKKK
(Raf-1 or MOS) level, which leads to the transmission of
signals to MEK2, and finally to ERK1/2. The ERK cascade
plays an important role in cell proliferation,
differentiation, oncogenic transformation, and cell
cycle control, as well as in apoptosis and cell survival
under certain conditions. Gain-of-function mutations in
genes encoding ERK cascade proteins, including MEK2,
cause cardiofaciocutaneous (CFC) syndrome, a condition
leading to multiple congenital anomalies and mental
retardation in patients.
Length = 331
Score = 25.8 bits (56), Expect = 10.0
Identities = 15/62 (24%), Positives = 30/62 (48%), Gaps = 4/62 (6%)
Query: 8 LKLIDFGRSIDMTLYPPGTTFSTVVTTDGFQCTEMKEGREWSYHTDVYGLAGSMCCTLLG 67
+KL DFG S + + ++ V T + E +G +S +D++ + S+ +G
Sbjct: 143 IKLCDFGVSGQLI----DSMANSFVGTRSYMSPERLQGTHYSVQSDIWSMGLSLVELAIG 198
Query: 68 KY 69
+Y
Sbjct: 199 RY 200
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
0.321 0.138 0.418
Gapped
Lambda K H
0.267 0.0794 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,537,913
Number of extensions: 671571
Number of successful extensions: 624
Number of sequences better than 10.0: 1
Number of HSP's gapped: 623
Number of HSP's successfully gapped: 26
Length of query: 147
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 59
Effective length of database: 7,034,450
Effective search space: 415032550
Effective search space used: 415032550
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 (21.9 bits)
S2: 54 (24.5 bits)